Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold95

Parameters: 2 7 7 80 10 50 500

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500

Length: 274956
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24


Found at i:1409 original size:18 final size:18

Alignment explanation


    Indices: 1383--1427  Score: 72
    Period size: 18  Copynumber: 2.5  Consensus size: 18

       1373 TAGACTACGG

                *             
       1383 TAGAGGGGAGAACTGGGA
          1 TAGAAGGGAGAACTGGGA

                             *
       1401 TAGAAGGGAGAACTGGGG
          1 TAGAAGGGAGAACTGGGA

                     
       1419 TAGAAGGGA
          1 TAGAAGGGA

       1428 AAATGGCAGA


Statistics
Matches: 25,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  18   25  1.00

ACGTcount: A:0.36, C:0.04, G:0.49, T:0.11


Consensus pattern (18 bp):   
TAGAAGGGAGAACTGGGA

Left flanking sequence: Indices 883 -- 1382
ACCAGCGACGGGTTGACGATGGAGCTGGAGGGGAAGGAGACCCCGCTCGACCAGTTGCCCGAGTG
GGTGCCCGAGAAGGTCAAGCGGCTCCCCATGGTGTGGACCAACCCGGTCACCAAGAAGCCGCACT
TGCAGGTGCACGGGTGCTGTGTGGGCCGTTTGCACACCAAAAAGCCCGACGGGTCGGTCGAGGTG
CGCGAGTTGAAGGAGGCCCGGGAGAAGGTGCACCAGTTGTTGCGTCCTGCGATCGAGCCGCTGAA
GATCTTGGCCCACGCCTGGAGCGAGGGCGATCTTGTGATGTTCTTCAACCAGGGGGTGTTGCACT
CGGTCACGGGTGAGTTCAAGGGCGTCAACGACGGCAAGGACGAGAAGCGGTTGATGCACCAGTGC
AACATCGCGCTGGGCAAGGACCCGGTGTGTGCCCTGGCTTAGTTAGAACGAGAAAATGACTTAGG
TACCGAGAAAATGACTAATATATGAAAATTAAGGTTAGACTACGG


Right flanking sequence: Indices 1428 -- 1927
AAATGGCAGAGTGAGAGGGACAGTGGTTGTCGGTGAAGAAAGCAGATGCCAGGTCAACGGTGATA
TCTCCGATCTGCGCGTAGAACGTGGGGTCGGACGCGATGGAAGATCTAAACGTCGTGATCGCATA
AACTGTGGTGTCCAGAAACGGAAATTTCAAACGGAGTTGGTGGGGAGGATCCGGGCTCGTGTGCA
ATGATGTTTACATGACCGGCTTGGTAGCATCGCGATCACTAGCTCTGGCTGCTGACTTCGCCCCT
CACAGAAATTATCTGATCGTCTGCTTCCACTCTTTGAGGCTTCGAGAGGCATATACGGAGCGTAT
TTTGATTGTGACCACAATTTGGTATCGTAAACAAACCCCTCGTCAGGGTTTTCCCCCGTGATTAG
TTTTGTAACAAAGTATTTTGTCATGACTGTCTCCCGTGGTAGGGATGGGTCCCAAAAGCTCCTGT
GGCTTCTCATTCAAGTGACATCGTTGGGACACTGTGAGTCGAAAC



Found at i:4516 original size:14 final size:14

Alignment explanation


    Indices: 4497--4528  Score: 64
    Period size: 14  Copynumber: 2.3  Consensus size: 14

       4487 GAGCACCAAA

                          
       4497 CCACCCCCAGAGCC
          1 CCACCCCCAGAGCC

                          
       4511 CCACCCCCAGAGCC
          1 CCACCCCCAGAGCC

                
       4525 CCAC
          1 CCAC

       4529 GAGCCACTAC


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   18  1.00

ACGTcount: A:0.22, C:0.66, G:0.12, T:0.00


Consensus pattern (14 bp):   
CCACCCCCAGAGCC

Left flanking sequence: Indices 3997 -- 4496
CCACAACCCCCATACAATGGCAGCTCCTGTCAAAAAGGCACCAGAAAATAAGGTTACAACGGAGC
ATGTCAGATAAGGTACAGAGGTGGTAACAGCCGGGCCGGTCATTGGTCAGGGGATTTGCATAATG
TGTGCATTGTTTTACAGTGGTCCTGGAGCACGAAATACGGGTTGACAAAATGAGAGAACGAGGAG
TCTCATACCAGGGAAAATGGGCAGAAGGACACTAGAAGGTGTCTAAAGGTGCCCGCATGCCTTTT
CTGTTCAAATTGTGCTGGTTTGTTTGCTCTGATGCCGCATTCGCTGGACCGTATGGGCCTGGTGA
TCTACAATACTTGAACCCTCCAGACTGCCCAGGGAAACCCAAAAAAACTGCGTGCTGCTACTCCC
CCAGCCATTTTGTATCCTTTAACCACCAAAGGAAGCCACTATACCCCGCCACATGCCACAAACCC
CGTACCCAACACTACACTATCCCGATCGAGCCGACGAGCACCAAA


Right flanking sequence: Indices 4529 -- 5028
GAGCCACTACCCGCGCAATCACCCACCCACCCCACACCCGCTAACACCCCGCTTCCACCCGCACA
CTCTCCCCCCCGCCTTTGCTCATCGGATCACCACCTCGGTCTTAACTTTCCCAATCGGGCATTTC
ACGTGAGCAACCAAACCCAGACCCCGTAAAACTCCTCTGAACACCCGTAAACCCGCTAAAAAAAC
ACCACCACTAAACTCCACGCCCTCTACTACCCCCCCACACCCGCTCTCTCGCCCCACCACCGCCT
CTACCGCGCCCCACACCCCCGTACTTCCAGCCGCATCCCCGCGTTTTTCCACCTCGGCCGATCAA
GTGCACTTCCAACCACCACCCTTGACCCACTCAGTTCGTCCCCCATGCAATACGTCGCCAAAGCT
GGGGGCTATGTTGTCAACCAGTGGAACCTGCTCAACCCAGCAACCCTCTCTGGAGCCATTGATGT
CATCGTCATCGAGCACCCGGACGGCCTGCTCCACTGTTCGCCGTG



Found at i:7318 original size:12 final size:12

Alignment explanation


    Indices: 7289--7325  Score: 56
    Period size: 12  Copynumber: 2.9  Consensus size: 12

       7279 AGGGGCTCCA

                          
       7289 ATTACACTGCTACG
          1 ATTACACTGC--CG

                        
       7303 ATTACACTGCCG
          1 ATTACACTGCCG

                       
       7315 ATTACACTGCC
          1 ATTACACTGCC

       7326 AGTTGTTCTA


Statistics
Matches: 23,  Mismatches: 0, Indels: 2
        0.92            0.00        0.08

Matches are distributed among these distances:
  12   13  0.57
  14   10  0.43

ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27


Consensus pattern (12 bp):   
ATTACACTGCCG

Left flanking sequence: Indices 6789 -- 7288
GGTTTGCGCTGCCGTTGAAGTCGTTCATGATGTTTGGCAACAAGGACGAGTCGAAGAAGGAGAAC
TCCGACGACGAGGACTACCAGTACGAGGAGTTCAGAGACACGAAGCAGCAGTTTACGATGCCGGG
CCACTTCATCGATACCCTCCCCAGCGATGAGGACGACTTCACCGGGGAAGAGGACAACGACGACG
ACGACGACGGCGACGACGACTTCCACGACTCGCACGAGGAGGACGACTACGAGGACGACGACGAG
GCTGGCCCGCAAGTTTAATAGTGAGTAACTAATGGTAGACGATGCATGGCATCATGGATCAAGCG
TGGTAGCCTGACACGGAATTAACTTCCCGTTTCAGTCGACGAAGATAGAGTAACGGTGCATAATG
CATGCGTCTGAACCGATGTCTGGCCCGACCGACACTGAGGATATAGTTTCCCGTTTTAGCGTGGT
ATTTTTGACCGAGTTTCTTGTGTGTACCCATCAATAGGGGCTCCA


Right flanking sequence: Indices 7326 -- 7825
AGTTGTTCTACTGTTCGCTTAATATACATCGTAATAATACACGTTATCGCTCATTAGCGGTGCTG
TTAAACAACGGACACCGGCGCAGGTCGTTTTCGTCAACCAAAATGTGCTCGTTCAACCACTCTTT
GCCCACTCCGTGCCAGCGACACGGACAGGTGCCGGGATGGGTCATCTTCTCCAGCAACTGAGTGA
TGCGGCGCACCTGGCGCACGTCAAACTTGAAATGCTTGTTGATCAAATGGCGCTTGAAGTCAAAG
CTTCGGTTGTACAGGTTGGTCTTGAAGTTGCACACCAGTTTCGGAAACCGGCACTTGAAACGCGG
GGTGGTTTCGTGGATCTTTAGGTGGCGTTTCAAGTTCATGAAGTTCAGCCGGCCGCAGATGTGGC
AGGTGGTTTGGTCATTGAACACCAGGTCCACCACCGGCACCTGGGCGTTCGGGTTCATGTTGACG
TAGGTGGTGAGATCAGGGTAAGCTTCCAGCGTCGATGTGACGGGG



Found at i:13957 original size:14 final size:14

Alignment explanation


    Indices: 13938--13974  Score: 53
    Period size: 11  Copynumber: 2.9  Consensus size: 14

      13928 GTCAGCGAGA

                          
      13938 AGAAGAGGTGGGGG
          1 AGAAGAGGTGGGGG

                          
      13952 AGAAGAGGT---GG
          1 AGAAGAGGTGGGGG

                        
      13963 AGAAGAGGTGGG
          1 AGAAGAGGTGGG

      13975 TGATTGCTAG


Statistics
Matches: 20,  Mismatches: 0, Indels: 6
        0.77            0.00        0.23

Matches are distributed among these distances:
  11   11  0.55
  14    9  0.45

ACGTcount: A:0.32, C:0.00, G:0.59, T:0.08


Consensus pattern (14 bp):   
AGAAGAGGTGGGGG

Left flanking sequence: Indices 13438 -- 13937
CAGGCGTTCGACTTGCCGCTGCCCGACGCCCGCAACCAGTTGATCGCCAACCTCAAGGCGATGGG
GGTGGTTGCCGGGGGGTGTGGCGAGCAGCTGGTGCGGTTGCGCCCGTCGCTTACGTTTGAGAAGA
AGCACGCTGACGTGTTTTTGGAGCGGTTGGCCCTGGCATTGTAGACGCTCCGAACCCTGTCACCC
GGGTGTTTCACTGATTAGATTTGTAGGTTATTTTTTGCGATTGTCATATTTTTCATGTACGGGGG
CCGAGCAGTTCTGCCAGGGTTCAGCGTGGGCGGGTGACGTTAGCGAGCGGCAGGGTGGAGCGTTT
GCGGGAGTGGGTGGGCGGCCGTGGTGTGGGTGGTGGTGGTTGATCCATCTGAGACACCTCCGACA
CCGGAGTGTCTCCACCAATTTTCACGACATCAGCTGTATACCGGTCGCTTCGAGGGGAAAATAAA
GTTGGCCGCAGTGAGTACCGCCTTGGCCCCGCTGAGTCAGCGAGA


Right flanking sequence: Indices 13975 -- 14474
TGATTGCTAGAATTGGTAGCGATAGTCAGTGAGTAGTGCTTGTGTCTGTGCCTGTGCCTGGTGTA
GTCAAATTGCCTTGTGGGGTTATCGCTGCGGCTCAGCGCGGCTGTCGCGGCTTAGCGTAGCGAGC
CCTGGTACCGTCACTCTAGTTAGGGCCCCTGGGCTTCTAGTTAGGGCCACTGGGTTGGTTGTGAG
CGTCTTCCGTTGTGAAGAACCGGTTGCGAGCCCGGCAAATTCACTTGGTTAGCAGCCCGGTATCC
GGTTTGCAGCCCGGCCACCCCACCAAAGGCAAAATGTATCGCCGTATGAGGCAGGGGGAGGGTTC
ACAATGGCCCCCCGGCAGTGCCACCACGTAGGGTTACGGGGCCAGCAGGCCCAGATTGTGGACTC
CGAAACGCACCACGCGCATGACCCACCCCCTACGGCGATACGACGGCCGGATCCGCCCTTCGTAA
ACGAGCCAAAAAATACCGGTGACAGGCGTTGGCTGACACATCTTG



Found at i:14145 original size:21 final size:21

Alignment explanation


    Indices: 14119--14158  Score: 71
    Period size: 21  Copynumber: 1.9  Consensus size: 21

      14109 GTACCGTCAC

                         *       
      14119 TCTAGTTAGGGCCCCTGGGCT
          1 TCTAGTTAGGGCCACTGGGCT

                               
      14140 TCTAGTTAGGGCCACTGGG
          1 TCTAGTTAGGGCCACTGGG

      14159 TTGGTTGTGA


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  21   18  1.00

ACGTcount: A:0.12, C:0.25, G:0.35, T:0.28


Consensus pattern (21 bp):   
TCTAGTTAGGGCCACTGGGCT

Left flanking sequence: Indices 13619 -- 14118
GAACCCTGTCACCCGGGTGTTTCACTGATTAGATTTGTAGGTTATTTTTTGCGATTGTCATATTT
TTCATGTACGGGGGCCGAGCAGTTCTGCCAGGGTTCAGCGTGGGCGGGTGACGTTAGCGAGCGGC
AGGGTGGAGCGTTTGCGGGAGTGGGTGGGCGGCCGTGGTGTGGGTGGTGGTGGTTGATCCATCTG
AGACACCTCCGACACCGGAGTGTCTCCACCAATTTTCACGACATCAGCTGTATACCGGTCGCTTC
GAGGGGAAAATAAAGTTGGCCGCAGTGAGTACCGCCTTGGCCCCGCTGAGTCAGCGAGAAGAAGA
GGTGGGGGAGAAGAGGTGGAGAAGAGGTGGGTGATTGCTAGAATTGGTAGCGATAGTCAGTGAGT
AGTGCTTGTGTCTGTGCCTGTGCCTGGTGTAGTCAAATTGCCTTGTGGGGTTATCGCTGCGGCTC
AGCGCGGCTGTCGCGGCTTAGCGTAGCGAGCCCTGGTACCGTCAC


Right flanking sequence: Indices 14159 -- 14658
TTGGTTGTGAGCGTCTTCCGTTGTGAAGAACCGGTTGCGAGCCCGGCAAATTCACTTGGTTAGCA
GCCCGGTATCCGGTTTGCAGCCCGGCCACCCCACCAAAGGCAAAATGTATCGCCGTATGAGGCAG
GGGGAGGGTTCACAATGGCCCCCCGGCAGTGCCACCACGTAGGGTTACGGGGCCAGCAGGCCCAG
ATTGTGGACTCCGAAACGCACCACGCGCATGACCCACCCCCTACGGCGATACGACGGCCGGATCC
GCCCTTCGTAAACGAGCCAAAAAATACCGGTGACAGGCGTTGGCTGACACATCTTGGGAAAAAGC
GGAGCAGAATGGGGGGAAGCTGGATGCCCACTACGGAGTCCGGCGGTGATCTGCGGAAGTCCGCT
CGTAAATACGCGGCCCCCGTCCCCCAGGTGCTTGTGTCTGCATACCCCCTAAGACAATGTCGAAA
CGGGCCCTGGGTGATGGGCCCACTGCAGGCGTCCTGACTAAAGGT



Found at i:15023 original size:13 final size:13

Alignment explanation


    Indices: 15007--15041  Score: 61
    Period size: 13  Copynumber: 2.7  Consensus size: 13

      14997 GGGGATTGGG

                         
      15007 ATGGGGACGGGGA
          1 ATGGGGACGGGGA

                *        
      15020 ATGGAGACGGGGA
          1 ATGGGGACGGGGA

                     
      15033 ATGGGGACG
          1 ATGGGGACG

      15042 ATGGAATGTT


Statistics
Matches: 20,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  13   20  1.00

ACGTcount: A:0.26, C:0.09, G:0.57, T:0.09


Consensus pattern (13 bp):   
ATGGGGACGGGGA

Left flanking sequence: Indices 14507 -- 15006
ATGCCCACTACGGAGTCCGGCGGTGATCTGCGGAAGTCCGCTCGTAAATACGCGGCCCCCGTCCC
CCAGGTGCTTGTGTCTGCATACCCCCTAAGACAATGTCGAAACGGGCCCTGGGTGATGGGCCCAC
TGCAGGCGTCCTGACTAAAGGTGCACTAGAAATAATCCAGACGGCATTCCGAGGAAATAATCCAC
CCGAAATAATGTGCCCGAATATGTGGCTTTCGCGGCAGGCGGTGTTACCTCATTAGTTCGGTAGT
GTGTGGGTGAACATTTCCCTGTCTGAGACATCAAAACAATAATCGGGTTACGTCATGCCACCGCG
AACGTAGGGTGAATGCGATATCCACGTCTGAGACAGTTTTTGGTAAATGACAAACAGCACAATGT
CAAAATGCCAAGCGGGACAATATCGGAGATATCTCGGAAATGGGCGCGGAGACGGGAGGAAGTCG
AGACGACTGGGCTAGGCGAGCGCGACAATGGGGACGGGGATTGGG


Right flanking sequence: Indices 15042 -- 15541
ATGGAATGTTTAGACGAGAATAAGAAACGAGGGTGGGTAGGTTGTGGGTGGATTATGGATGTGGG
TTGTTTGTGGGATTTGTGGATGAATGGGTGGATTAAGAGTAGAGGTATGATTGGGTTATAGGATT
GAACTAGCTGCTTGGCTCAGATTGTTGATGTGTTAGAGATTTGATGGTAGAGTCGCTCCGATTCG
GACCGTAGACCAGTCGCGTTATTAATAGAACCGGGTGCGATTGACGGATCGTCAACCATACGATG
CCAATGTCTCGACCATCACGCGAATCAGACACAGTGACTGATGGTGTAATCTAGTGGTCTGTGTC
TTATCTCAACAAGTAGACACCTACTCCCACTTCATTCACACCCACCAGATTCATCGATATACTCA
CTACCATATATCCACCCATAATCATATATCCACCCATACTCATATATCTACTCCACATCCACACA
CGCTCAACACTCAATCCACTCCACTCATTCATCCACACCCATCTT



Found at i:15459 original size:18 final size:18

Alignment explanation


    Indices: 15436--15479  Score: 79
    Period size: 18  Copynumber: 2.4  Consensus size: 18

      15426 TACTCACTAC

                              
      15436 CATATATCCACCCATAAT
          1 CATATATCCACCCATAAT

                            * 
      15454 CATATATCCACCCATACT
          1 CATATATCCACCCATAAT

                    
      15472 CATATATC
          1 CATATATC

      15480 TACTCCACAT


Statistics
Matches: 25,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  18   25  1.00

ACGTcount: A:0.36, C:0.34, G:0.00, T:0.30


Consensus pattern (18 bp):   
CATATATCCACCCATAAT

Left flanking sequence: Indices 14936 -- 15435
ATGGGCGCGGAGACGGGAGGAAGTCGAGACGACTGGGCTAGGCGAGCGCGACAATGGGGACGGGG
ATTGGGATGGGGACGGGGAATGGAGACGGGGAATGGGGACGATGGAATGTTTAGACGAGAATAAG
AAACGAGGGTGGGTAGGTTGTGGGTGGATTATGGATGTGGGTTGTTTGTGGGATTTGTGGATGAA
TGGGTGGATTAAGAGTAGAGGTATGATTGGGTTATAGGATTGAACTAGCTGCTTGGCTCAGATTG
TTGATGTGTTAGAGATTTGATGGTAGAGTCGCTCCGATTCGGACCGTAGACCAGTCGCGTTATTA
ATAGAACCGGGTGCGATTGACGGATCGTCAACCATACGATGCCAATGTCTCGACCATCACGCGAA
TCAGACACAGTGACTGATGGTGTAATCTAGTGGTCTGTGTCTTATCTCAACAAGTAGACACCTAC
TCCCACTTCATTCACACCCACCAGATTCATCGATATACTCACTAC


Right flanking sequence: Indices 15480 -- 15979
TACTCCACATCCACACACGCTCAACACTCAATCCACTCCACTCATTCATCCACACCCATCTTACC
CACAACCAGTCATCTCTCCATCACCACCTATAACTACCTCTCATCCATTCCACCACTACCGCTCA
CAACCGCTCACCCCACCTTCCCGCTAAAACTTCCCCGCCAACCTCCCCGCTCACACCTCCGCTCA
CACCTCCGCTCACACCTCCTCCCCACCCCCGGATCACCCCATCCCGCTAATCCTTTCCTCCTCCC
GCCCCCTACCCCGGCGCCAGCCCCCGTTCGCTCGTATCAAACCTTCTTTCCTGCACACACCCGGA
TCACGGTTTTATCACGCGGGCTGACCCTGGCACACCAGCGATGTTGGGGCGGTTGTTCAAGCAGC
AGGAGGTGCCGCTGCCACCAGTGAGCGCCCTCACGCTGCTGCTCGCCACCTACGACGACTGCACC
ACCCGCGGTTTGCTCTACGGCACCCAGAACATCAACCAGCTCAAG



Found at i:15658 original size:12 final size:14

Alignment explanation


    Indices: 15641--15693  Score: 64
    Period size: 12  Copynumber: 4.2  Consensus size: 14

      15631 CGCTAAAACT

                          
      15641 TCCCCGC-CA-ACC
          1 TCCCCGCTCACACC

                          
      15653 TCCCCGCTCACACC
          1 TCCCCGCTCACACC

                          
      15667 T--CCGCTCACACC
          1 TCCCCGCTCACACC

                          
      15679 T--CCGCTCACACC
          1 TCCCCGCTCACACC

               
      15691 TCC
          1 TCC

      15694 TCCCCACCCC


Statistics
Matches: 37,  Mismatches: 0, Indels: 6
        0.86            0.00        0.14

Matches are distributed among these distances:
  12   31  0.84
  13    2  0.05
  14    4  0.11

ACGTcount: A:0.15, C:0.62, G:0.08, T:0.15


Consensus pattern (14 bp):   
TCCCCGCTCACACC

Left flanking sequence: Indices 15141 -- 15640
AAGAGTAGAGGTATGATTGGGTTATAGGATTGAACTAGCTGCTTGGCTCAGATTGTTGATGTGTT
AGAGATTTGATGGTAGAGTCGCTCCGATTCGGACCGTAGACCAGTCGCGTTATTAATAGAACCGG
GTGCGATTGACGGATCGTCAACCATACGATGCCAATGTCTCGACCATCACGCGAATCAGACACAG
TGACTGATGGTGTAATCTAGTGGTCTGTGTCTTATCTCAACAAGTAGACACCTACTCCCACTTCA
TTCACACCCACCAGATTCATCGATATACTCACTACCATATATCCACCCATAATCATATATCCACC
CATACTCATATATCTACTCCACATCCACACACGCTCAACACTCAATCCACTCCACTCATTCATCC
ACACCCATCTTACCCACAACCAGTCATCTCTCCATCACCACCTATAACTACCTCTCATCCATTCC
ACCACTACCGCTCACAACCGCTCACCCCACCTTCCCGCTAAAACT


Right flanking sequence: Indices 15694 -- 16193
TCCCCACCCCCGGATCACCCCATCCCGCTAATCCTTTCCTCCTCCCGCCCCCTACCCCGGCGCCA
GCCCCCGTTCGCTCGTATCAAACCTTCTTTCCTGCACACACCCGGATCACGGTTTTATCACGCGG
GCTGACCCTGGCACACCAGCGATGTTGGGGCGGTTGTTCAAGCAGCAGGAGGTGCCGCTGCCACC
AGTGAGCGCCCTCACGCTGCTGCTCGCCACCTACGACGACTGCACCACCCGCGGTTTGCTCTACG
GCACCCAGAACATCAACCAGCTCAAGCCGTACCACCTCGACGACGGCGGGTTCCGCCTCTTGGTG
GCCCAGGAGACAGGCACCCAGAAGAAGGAGGTGTTGTTTGACCTGCTGCGGCGGCTGGCCACCTA
CGGCCACTACGGCCCGGGGACCGGCGCCGGGGGCACTGCCCCCACCGGCCCCGCCGGCCCCCACG
CGTACGCGGCGGCCTCCTCCTCCACCCTCCCGTCGCTCCACCACG



Found at i:17161 original size:12 final size:12

Alignment explanation


    Indices: 17144--17169  Score: 52
    Period size: 12  Copynumber: 2.2  Consensus size: 12

      17134 GAGAGACTAC

                        
      17144 AAGTACGGAGAA
          1 AAGTACGGAGAA

                        
      17156 AAGTACGGAGAA
          1 AAGTACGGAGAA

              
      17168 AA
          1 AA

      17170 CTCAAATAAG


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   14  1.00

ACGTcount: A:0.54, C:0.08, G:0.31, T:0.08


Consensus pattern (12 bp):   
AAGTACGGAGAA

Left flanking sequence: Indices 16644 -- 17143
TTCGGAGCATCCAGTTTGTGGTGAACACCCCGCGGGTGATGGTGCTTCCGCGCGAGCCCGAGGGC
CGCGACATTGTGCTCCGGCAGTGGGTGGCGGAGCTCGTCAACTGGATGGAGTACAAGGACGGGCA
CGAGGAGTTTTTGGCGAAGCTCTTTGCCACGGTGCGGCCGTGGCGGGCCCAGCTTGGGGGTGGCG
ATGACGGGGACGGGCTGCGGCTCCGGGTGGTGGTGCTAAGCAACAACCAGACGGTGGCGAAGAAG
CTTGTGTTTTTGCTCAATGGGTATGGGAGCCACGGGGAGGGGGAGGACGATGGCAGGGTGGTGGA
GAGTGATGAGGGGGAGGACGAGGGTGATGGAGTGGAGGGAGAGGGAGTGGATAACCAAGAGGGAG
GAGTGAGCAACACAGGCACACCTCACGAAAATACACCCCTACACTCTAACACAACTCTACACTCA
ACCCTTACGCAGAGTGCTAAAGACGAGGCGAAGAAGAGAGACTAC


Right flanking sequence: Indices 17170 -- 17669
CTCAAATAAGTTTGACAAGTACGACAAGTACGAAAACGACAAACTTGACAGACCCACCAGCTACC
GTTCTACTGATACCCACCCCCACCCCGGGTCGCCCGCGAATGCCCCCTCCGCGCACTCGTCCCCC
TCCTCCTCCCCCTCGCACGACGACGCCGCGCTGATGGTCAGCACCTCGTCGTCCCTCGTGGCCCC
CTCGCTCCACGGGTGGGAGATCCCCGCGGCCACCGCGTCCACCACCTGCACCACCCCGATCGTGG
TGCCCCACCGGTCGCCGCTGCTGGCCCGCCTGATGCAGTACCTCCTGCTGCTGCTCACGCTGCTG
TTCAGCTCGGTGGCATCGCTGTGGGGCAAGAAGCTGAGCTACGACGACTGGCTCCCGCGGGGACC
GGCCTACAAGACACCGCTGCCCGCGGTCGAGCACGACGAGTACCCCTGGACGGGCGAGTGGTCGC
TGCCGAAGCTCCTGCGCTCGCACTCGATGCTGGAGCTCGTGGGGC



Found at i:18073 original size:9 final size:9

Alignment explanation


    Indices: 18059--18084  Score: 52
    Period size: 9  Copynumber: 2.9  Consensus size: 9

      18049 GAGATCCAAC

                     
      18059 AGCACCCAT
          1 AGCACCCAT

                     
      18068 AGCACCCAT
          1 AGCACCCAT

                    
      18077 AGCACCCA
          1 AGCACCCA

      18085 CTCCAACCAA


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   17  1.00

ACGTcount: A:0.35, C:0.46, G:0.12, T:0.08


Consensus pattern (9 bp):   
AGCACCCAT

Left flanking sequence: Indices 17559 -- 18058
CGGCCTACAAGACACCGCTGCCCGCGGTCGAGCACGACGAGTACCCCTGGACGGGCGAGTGGTCG
CTGCCGAAGCTCCTGCGCTCGCACTCGATGCTGGAGCTCGTGGGGCCGCCGCCGCCGCTGTTTGA
GATCAAGCGCACGAAGCTGACGGTGTTTGTGCCACGGATACGCGACGATGCGGTCAAGAACGTGT
ACGAGCACAACCGGAATTTGGTGCACGCGAAGTGTGCCCGGATCTTTGGGGGGGTGGTGAAGGTG
GAGTGGAGAGAAGAGGAACAGGGAGTGGAAGGGAGTGGAGAGGAGAGGAAGGGAGGTGGGAAAGA
GGAGAGGATGGAGGCGAAGGAGGAGACTGGAAAGGTCAATGGTAACGGAGAAAAGAACGGAGAAA
ATGGAGACAGTGCCAAAAGTGGAGAGAAGAACGGCCACACGGGTGTGGCCCGCGAAAAGAGTCTT
CTCAGCGGTCTCGCCGCCATCGAGCGAGAACGTAGGAGATCCAAC


Right flanking sequence: Indices 18085 -- 18584
CTCCAACCAAGACACCATATCCCACACCAATACCAACACCAAGTCTACATCCATACCAACCACAA
CCACAACCAACACCACCACCACCAATACCCTTACCCCTACCCCTACGACCATCAACGTCTCTTCC
CCTACCACCACCACCACCAATGCTTCCACCCCTACTTCCACCCCTGTCGCCTCCACCCCCTGGCT
GCCCCTCAAGGCCCCCAGCACCCAGGCGCCCTCCGGCCACAACGTCACCGTCACCGCGGTGTCTG
CCGCAACCCCCGTCACCACCGCTGCACCGAACACTGCACCCACTGCACCGATGCCACGGCCCGCT
GCACCGACCGCGCGCCCCGCTGCACCGAACCCCACGCCCCCCGCGCCCGACAGCCCCGACTTGGA
GTCGGCGTGGCGCTCGGCGCGCGCCGCCCCCGCGCCGCCCCGCCTGCTCGCGGTCCCCGCGGGCA
CCGGCCCCCGCGCCATCTGCCACGAGCCCCTCCCGCCCAACGTCG



Found at i:18411 original size:21 final size:21

Alignment explanation


    Indices: 18387--18437  Score: 61
    Period size: 21  Copynumber: 2.4  Consensus size: 21

      18377 ACTGCACCCA

                                   
      18387 CTGCACCGATGCCACG-G-CCCG
          1 CTGCACCGA--CCACGCGCCCCG

                       *         
      18408 CTGCACCGACCGCGCGCCCCG
          1 CTGCACCGACCACGCGCCCCG

                     
      18429 CTGCACCGA
          1 CTGCACCGA

      18438 ACCCCACGCC


Statistics
Matches: 27,  Mismatches: 1, Indels: 4
        0.84            0.03        0.12

Matches are distributed among these distances:
  19    4  0.15
  20    1  0.04
  21   22  0.81

ACGTcount: A:0.14, C:0.51, G:0.27, T:0.08


Consensus pattern (21 bp):   
CTGCACCGACCACGCGCCCCG

Left flanking sequence: Indices 17887 -- 18386
GAGGATGGAGGCGAAGGAGGAGACTGGAAAGGTCAATGGTAACGGAGAAAAGAACGGAGAAAATG
GAGACAGTGCCAAAAGTGGAGAGAAGAACGGCCACACGGGTGTGGCCCGCGAAAAGAGTCTTCTC
AGCGGTCTCGCCGCCATCGAGCGAGAACGTAGGAGATCCAACAGCACCCATAGCACCCATAGCAC
CCACTCCAACCAAGACACCATATCCCACACCAATACCAACACCAAGTCTACATCCATACCAACCA
CAACCACAACCAACACCACCACCACCAATACCCTTACCCCTACCCCTACGACCATCAACGTCTCT
TCCCCTACCACCACCACCACCAATGCTTCCACCCCTACTTCCACCCCTGTCGCCTCCACCCCCTG
GCTGCCCCTCAAGGCCCCCAGCACCCAGGCGCCCTCCGGCCACAACGTCACCGTCACCGCGGTGT
CTGCCGCAACCCCCGTCACCACCGCTGCACCGAACACTGCACCCA


Right flanking sequence: Indices 18438 -- 18937
ACCCCACGCCCCCCGCGCCCGACAGCCCCGACTTGGAGTCGGCGTGGCGCTCGGCGCGCGCCGCC
CCCGCGCCGCCCCGCCTGCTCGCGGTCCCCGCGGGCACCGGCCCCCGCGCCATCTGCCACGAGCC
CCTCCCGCCCAACGTCGCCTACTGCGACGAGTTCCGCCCCGAGTTCACCCTCCAGGCGTGCCCCA
TCACCCCGAAGCTCGAGCACCTGATCGTGCTGGCGATGCGCCACGACTTGTCCGTGGGCGACCCC
TCGGGGGTGCTGCGGTGTGTGGTCGTCCTGTTACGAGCCCGCGAGGTCAAGGTGGTGGAGATGAC
TCTCCGCAACCACATGTGGCGCAAGCGGCAGACGCGGGTGGCGCTGGGGCGGCCCGGCGAGGCGG
CCATCGTTGCCAGCCTCCGCGAAATCCACCAGATGTACAAGAAACAGCTGGTGGACCCGCGGCGG
CTCCGGGTGCTCGTCAACTCGTTGGTGGTGTGACGGTGAAATTGG



Found at i:19434 original size:15 final size:15

Alignment explanation


    Indices: 19414--19445  Score: 64
    Period size: 15  Copynumber: 2.1  Consensus size: 15

      19404 GCGGAATTAG

                           
      19414 CGGCATGGGATGACC
          1 CGGCATGGGATGACC

                           
      19429 CGGCATGGGATGACC
          1 CGGCATGGGATGACC

              
      19444 CG
          1 CG

      19446 TCGGTTATTA


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   17  1.00

ACGTcount: A:0.19, C:0.28, G:0.41, T:0.12


Consensus pattern (15 bp):   
CGGCATGGGATGACC

Left flanking sequence: Indices 18914 -- 19413
TTGGTGGTGTGACGGTGAAATTGGGTACGAGCCCGGGTGAAAGAGTGTGAGCCCTGGGTGAGCGA
GAGGTTGATTGCGTGCGAGCCCTGGTTAAACCTGGTTGATCGCGTGTGAGCCCTGGTCGATGGCG
TGCGAGTTCTGGCTGTAATTTGCGAGCCCTGGTTTAACCTGGTAGGGCGTTGAGCCCTGGCTGCC
AATCCCGGTTGCGAGCGCGCGGCTTTCGCTGCGTCAATGGCGGGAGCCTCGGGACCAGAGCCACG
CCGGTGCCAGCGCCCGGACGCCACAGACAGGCCATTGGCGCGCTCTTACGGCTCCCCTAGCACGC
CCAGCCCCGCCACCGCCCCACCAGCCACCCCCGTGCCCGTTTTCCGGCGCACCCCGAACCGCCTC
AGGGGTGGAATTTCCGGCCGTGTGCAGGACTGCCGATGGATAATAATAGCTAAGCCAGATTGTTT
GGCCGTCGGAATCGGTGGGGCTGCCGGTGTCAATGGCGGAATTAG


Right flanking sequence: Indices 19446 -- 19945
TCGGTTATTAGTGTCATGGCTCGGTAGCATGGCGTGGTGGCTCAGGATATTATTGTCCGAACAAA
CCCGGGGAGGCCCTGCGAGGCCCTCGGGCATTGTCGCCAGCTTCGCGGCCATTGTGTGGGGGGTC
ATTCTGTGAGCCACCCTGTGAGCACCTGCGGCCACTCTGCGAGCCACCTGCGGGCCATCCTACTA
TTATATACGTAGCCGTGGAGCGGGGGAACGTGGTGGGCGATTCGACGCTGCCGTTGGCCGACAGA
GGCCATTGTTGTCTGTAGTGTGATAACCATGCCTAATCGGGCACATAATAAACGAATGGAACGGG
TGGAACGACGGTGGAACGGGCGACGAAGAAAAAAAGCGGTGGAACGGGCGAAGGTGGAACGGGCG
AAGGTGGAACGGGCGAAGGTGGAACGGGCGAAGGTGGAAGGGTAACGAACGGTGGAACGAGCGAA
GGTGGAACGATTTGACAGCCGTGGCAGTGTCAGAGCGTAGTGGAG



Found at i:19619 original size:21 final size:22

Alignment explanation


    Indices: 19585--19628  Score: 63
    Period size: 21  Copynumber: 2.0  Consensus size: 22

      19575 CATTCTGTGA

                     *            
      19585 GCCACCCTGTGAG-CACCTGCG
          1 GCCACCCTGCGAGCCACCTGCG

                 *                
      19606 GCCACTCTGCGAGCCACCTGCG
          1 GCCACCCTGCGAGCCACCTGCG

             
      19628 G
          1 G

      19629 GCCATCCTAC


Statistics
Matches: 20,  Mismatches: 2, Indels: 1
        0.87            0.09        0.04

Matches are distributed among these distances:
  21   11  0.55
  22    9  0.45

ACGTcount: A:0.14, C:0.43, G:0.30, T:0.14


Consensus pattern (22 bp):   
GCCACCCTGCGAGCCACCTGCG

Left flanking sequence: Indices 19085 -- 19584
GTAGGGCGTTGAGCCCTGGCTGCCAATCCCGGTTGCGAGCGCGCGGCTTTCGCTGCGTCAATGGC
GGGAGCCTCGGGACCAGAGCCACGCCGGTGCCAGCGCCCGGACGCCACAGACAGGCCATTGGCGC
GCTCTTACGGCTCCCCTAGCACGCCCAGCCCCGCCACCGCCCCACCAGCCACCCCCGTGCCCGTT
TTCCGGCGCACCCCGAACCGCCTCAGGGGTGGAATTTCCGGCCGTGTGCAGGACTGCCGATGGAT
AATAATAGCTAAGCCAGATTGTTTGGCCGTCGGAATCGGTGGGGCTGCCGGTGTCAATGGCGGAA
TTAGCGGCATGGGATGACCCGGCATGGGATGACCCGTCGGTTATTAGTGTCATGGCTCGGTAGCA
TGGCGTGGTGGCTCAGGATATTATTGTCCGAACAAACCCGGGGAGGCCCTGCGAGGCCCTCGGGC
ATTGTCGCCAGCTTCGCGGCCATTGTGTGGGGGGTCATTCTGTGA


Right flanking sequence: Indices 19629 -- 20128
GCCATCCTACTATTATATACGTAGCCGTGGAGCGGGGGAACGTGGTGGGCGATTCGACGCTGCCG
TTGGCCGACAGAGGCCATTGTTGTCTGTAGTGTGATAACCATGCCTAATCGGGCACATAATAAAC
GAATGGAACGGGTGGAACGACGGTGGAACGGGCGACGAAGAAAAAAAGCGGTGGAACGGGCGAAG
GTGGAACGGGCGAAGGTGGAACGGGCGAAGGTGGAACGGGCGAAGGTGGAAGGGTAACGAACGGT
GGAACGAGCGAAGGTGGAACGATTTGACAGCCGTGGCAGTGTCAGAGCGTAGTGGAGCGTAGTGT
CGGGCGATCGGAGGGTGCATTGGCGGGTGGGTGGTGTCTGAGTGGGTGTGGATGGGTGTGTAGGC
GGGTGTGAGTGGGTGTGTAGATGGCATGTGGGTGTCTGGGTGGCCTGTGGGTGAGAGCACTGAAT
CTGTGTTGGTGGAGTGTAGATCTGTAAGTGGGTAGTGGAGCCCGT



Found at i:19910 original size:15 final size:15

Alignment explanation


    Indices: 19808--19909  Score: 152
    Period size: 15  Copynumber: 6.6  Consensus size: 15

      19798 GAAAAAAAGC

                           
      19808 GGTGGAACGGGCGAA
          1 GGTGGAACGGGCGAA

                           
      19823 GGTGGAACGGGCGAA
          1 GGTGGAACGGGCGAA

                           
      19838 GGTGGAACGGGCGAA
          1 GGTGGAACGGGCGAA

                           
      19853 GGTGGAACGGGCGAA
          1 GGTGGAACGGGCGAA

                              
      19868 GGTGGAA-GGGTAACGAA
          1 GGTGGAACGGG---CGAA

                      *     
      19885 CGGTGGAACGAGCGAA
          1 -GGTGGAACGGGCGAA

                     
      19901 GGTGGAACG
          1 GGTGGAACG

      19910 ATTTGACAGC


Statistics
Matches: 81,  Mismatches: 1, Indels: 10
        0.88            0.01        0.11

Matches are distributed among these distances:
  14    3  0.04
  15   61  0.75
  16    4  0.05
  17    4  0.05
  18    7  0.09
  19    2  0.02

ACGTcount: A:0.28, C:0.13, G:0.51, T:0.08


Consensus pattern (15 bp):   
GGTGGAACGGGCGAA

Left flanking sequence: Indices 19308 -- 19807
GTGGAATTTCCGGCCGTGTGCAGGACTGCCGATGGATAATAATAGCTAAGCCAGATTGTTTGGCC
GTCGGAATCGGTGGGGCTGCCGGTGTCAATGGCGGAATTAGCGGCATGGGATGACCCGGCATGGG
ATGACCCGTCGGTTATTAGTGTCATGGCTCGGTAGCATGGCGTGGTGGCTCAGGATATTATTGTC
CGAACAAACCCGGGGAGGCCCTGCGAGGCCCTCGGGCATTGTCGCCAGCTTCGCGGCCATTGTGT
GGGGGGTCATTCTGTGAGCCACCCTGTGAGCACCTGCGGCCACTCTGCGAGCCACCTGCGGGCCA
TCCTACTATTATATACGTAGCCGTGGAGCGGGGGAACGTGGTGGGCGATTCGACGCTGCCGTTGG
CCGACAGAGGCCATTGTTGTCTGTAGTGTGATAACCATGCCTAATCGGGCACATAATAAACGAAT
GGAACGGGTGGAACGACGGTGGAACGGGCGACGAAGAAAAAAAGC


Right flanking sequence: Indices 19910 -- 20409
ATTTGACAGCCGTGGCAGTGTCAGAGCGTAGTGGAGCGTAGTGTCGGGCGATCGGAGGGTGCATT
GGCGGGTGGGTGGTGTCTGAGTGGGTGTGGATGGGTGTGTAGGCGGGTGTGAGTGGGTGTGTAGA
TGGCATGTGGGTGTCTGGGTGGCCTGTGGGTGAGAGCACTGAATCTGTGTTGGTGGAGTGTAGAT
CTGTAAGTGGGTAGTGGAGCCCGTGGTAAAGCCCGTGGTGGTGGAGCCCGGGTGGCCTGTGTGGA
GCCTGTGGAGCCTGTGGAGCCTGTGGAGCCTGCGTGGCCTGCGTGGCCTGCGTGGCCTGCGTGGA
GGCTGCGTTGAGCCTGTGTGGTGGGGCGGGTGTTTCATCGGAGTTAGGTTACCGGTGTCACTGCT
GTTTTGGGCTATGGGACGCTACGGTGTTTAGAATGTGGGGTGTGGGGGTGGTGTTAGTGGTGGTG
GTGGTTATAGGTGGTGGTTATGGGTGGTGGTTATTAGTGGAAGTT



Found at i:20022 original size:22 final size:22

Alignment explanation


    Indices: 19997--20038  Score: 68
    Period size: 22  Copynumber: 1.9  Consensus size: 22

      19987 GTGTCTGAGT

                                   
      19997 GGGTGTG-GATGGGTGTGTAGGC
          1 GGGTGTGAG-TGGGTGTGTAGGC

                                
      20019 GGGTGTGAGTGGGTGTGTAG
          1 GGGTGTGAGTGGGTGTGTAG

      20039 ATGGCATGTG


Statistics
Matches: 19,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  22   18  0.95
  23    1  0.05

ACGTcount: A:0.10, C:0.02, G:0.60, T:0.29


Consensus pattern (22 bp):   
GGGTGTGAGTGGGTGTGTAGGC

Left flanking sequence: Indices 19497 -- 19996
ATTGTCCGAACAAACCCGGGGAGGCCCTGCGAGGCCCTCGGGCATTGTCGCCAGCTTCGCGGCCA
TTGTGTGGGGGGTCATTCTGTGAGCCACCCTGTGAGCACCTGCGGCCACTCTGCGAGCCACCTGC
GGGCCATCCTACTATTATATACGTAGCCGTGGAGCGGGGGAACGTGGTGGGCGATTCGACGCTGC
CGTTGGCCGACAGAGGCCATTGTTGTCTGTAGTGTGATAACCATGCCTAATCGGGCACATAATAA
ACGAATGGAACGGGTGGAACGACGGTGGAACGGGCGACGAAGAAAAAAAGCGGTGGAACGGGCGA
AGGTGGAACGGGCGAAGGTGGAACGGGCGAAGGTGGAACGGGCGAAGGTGGAAGGGTAACGAACG
GTGGAACGAGCGAAGGTGGAACGATTTGACAGCCGTGGCAGTGTCAGAGCGTAGTGGAGCGTAGT
GTCGGGCGATCGGAGGGTGCATTGGCGGGTGGGTGGTGTCTGAGT


Right flanking sequence: Indices 20039 -- 20538
ATGGCATGTGGGTGTCTGGGTGGCCTGTGGGTGAGAGCACTGAATCTGTGTTGGTGGAGTGTAGA
TCTGTAAGTGGGTAGTGGAGCCCGTGGTAAAGCCCGTGGTGGTGGAGCCCGGGTGGCCTGTGTGG
AGCCTGTGGAGCCTGTGGAGCCTGTGGAGCCTGCGTGGCCTGCGTGGCCTGCGTGGCCTGCGTGG
AGGCTGCGTTGAGCCTGTGTGGTGGGGCGGGTGTTTCATCGGAGTTAGGTTACCGGTGTCACTGC
TGTTTTGGGCTATGGGACGCTACGGTGTTTAGAATGTGGGGTGTGGGGGTGGTGTTAGTGGTGGT
GGTGGTTATAGGTGGTGGTTATGGGTGGTGGTTATTAGTGGAAGTTCTAGGGTGTGGCTGTTGTG
TGGTGATTGGGTATTTTGGGTGTTTTGGGTGTATTCTGTGGTTCGTAGTGTGTGTGTGGTCTGTA
GTCTGTAATCTGTAGTCTCTAGCCTGTAGTCTGTATTGTCTGTGG



Found at i:20176 original size:9 final size:9

Alignment explanation


    Indices: 20164--20201  Score: 76
    Period size: 9  Copynumber: 4.2  Consensus size: 9

      20154 GGGTGGCCTG

                     
      20164 TGTGGAGCC
          1 TGTGGAGCC

                     
      20173 TGTGGAGCC
          1 TGTGGAGCC

                     
      20182 TGTGGAGCC
          1 TGTGGAGCC

                     
      20191 TGTGGAGCC
          1 TGTGGAGCC

              
      20200 TG
          1 TG

      20202 CGTGGCCTGC


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   29  1.00

ACGTcount: A:0.11, C:0.21, G:0.45, T:0.24


Consensus pattern (9 bp):   
TGTGGAGCC

Left flanking sequence: Indices 19664 -- 20163
GGGAACGTGGTGGGCGATTCGACGCTGCCGTTGGCCGACAGAGGCCATTGTTGTCTGTAGTGTGA
TAACCATGCCTAATCGGGCACATAATAAACGAATGGAACGGGTGGAACGACGGTGGAACGGGCGA
CGAAGAAAAAAAGCGGTGGAACGGGCGAAGGTGGAACGGGCGAAGGTGGAACGGGCGAAGGTGGA
ACGGGCGAAGGTGGAAGGGTAACGAACGGTGGAACGAGCGAAGGTGGAACGATTTGACAGCCGTG
GCAGTGTCAGAGCGTAGTGGAGCGTAGTGTCGGGCGATCGGAGGGTGCATTGGCGGGTGGGTGGT
GTCTGAGTGGGTGTGGATGGGTGTGTAGGCGGGTGTGAGTGGGTGTGTAGATGGCATGTGGGTGT
CTGGGTGGCCTGTGGGTGAGAGCACTGAATCTGTGTTGGTGGAGTGTAGATCTGTAAGTGGGTAG
TGGAGCCCGTGGTAAAGCCCGTGGTGGTGGAGCCCGGGTGGCCTG


Right flanking sequence: Indices 20202 -- 20701
CGTGGCCTGCGTGGCCTGCGTGGCCTGCGTGGAGGCTGCGTTGAGCCTGTGTGGTGGGGCGGGTG
TTTCATCGGAGTTAGGTTACCGGTGTCACTGCTGTTTTGGGCTATGGGACGCTACGGTGTTTAGA
ATGTGGGGTGTGGGGGTGGTGTTAGTGGTGGTGGTGGTTATAGGTGGTGGTTATGGGTGGTGGTT
ATTAGTGGAAGTTCTAGGGTGTGGCTGTTGTGTGGTGATTGGGTATTTTGGGTGTTTTGGGTGTA
TTCTGTGGTTCGTAGTGTGTGTGTGGTCTGTAGTCTGTAATCTGTAGTCTCTAGCCTGTAGTCTG
TATTGTCTGTGGTGTTTTATCTATTAAGCCTGGTCAGCTTTTCAGGTCGTCAGCCTTCTTTGTCA
GCCTTTCGATTGTCAAGATTGTCAAGTGTCAGCCTTTCGGGTTTGTCAGATCGTGGCTTTAAATT
TGTCAGGTTTGTCAGTCAGGCTTTCAGGTTTGTCAAGTTCTTCAG



Found at i:20209 original size:9 final size:9

Alignment explanation


    Indices: 20197--20233  Score: 74
    Period size: 9  Copynumber: 4.1  Consensus size: 9

      20187 AGCCTGTGGA

                     
      20197 GCCTGCGTG
          1 GCCTGCGTG

                     
      20206 GCCTGCGTG
          1 GCCTGCGTG

                     
      20215 GCCTGCGTG
          1 GCCTGCGTG

                     
      20224 GCCTGCGTG
          1 GCCTGCGTG

             
      20233 G
          1 G

      20234 AGGCTGCGTT


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   28  1.00

ACGTcount: A:0.00, C:0.32, G:0.46, T:0.22


Consensus pattern (9 bp):   
GCCTGCGTG

Left flanking sequence: Indices 19697 -- 20196
GCCGACAGAGGCCATTGTTGTCTGTAGTGTGATAACCATGCCTAATCGGGCACATAATAAACGAA
TGGAACGGGTGGAACGACGGTGGAACGGGCGACGAAGAAAAAAAGCGGTGGAACGGGCGAAGGTG
GAACGGGCGAAGGTGGAACGGGCGAAGGTGGAACGGGCGAAGGTGGAAGGGTAACGAACGGTGGA
ACGAGCGAAGGTGGAACGATTTGACAGCCGTGGCAGTGTCAGAGCGTAGTGGAGCGTAGTGTCGG
GCGATCGGAGGGTGCATTGGCGGGTGGGTGGTGTCTGAGTGGGTGTGGATGGGTGTGTAGGCGGG
TGTGAGTGGGTGTGTAGATGGCATGTGGGTGTCTGGGTGGCCTGTGGGTGAGAGCACTGAATCTG
TGTTGGTGGAGTGTAGATCTGTAAGTGGGTAGTGGAGCCCGTGGTAAAGCCCGTGGTGGTGGAGC
CCGGGTGGCCTGTGTGGAGCCTGTGGAGCCTGTGGAGCCTGTGGA


Right flanking sequence: Indices 20234 -- 20733
AGGCTGCGTTGAGCCTGTGTGGTGGGGCGGGTGTTTCATCGGAGTTAGGTTACCGGTGTCACTGC
TGTTTTGGGCTATGGGACGCTACGGTGTTTAGAATGTGGGGTGTGGGGGTGGTGTTAGTGGTGGT
GGTGGTTATAGGTGGTGGTTATGGGTGGTGGTTATTAGTGGAAGTTCTAGGGTGTGGCTGTTGTG
TGGTGATTGGGTATTTTGGGTGTTTTGGGTGTATTCTGTGGTTCGTAGTGTGTGTGTGGTCTGTA
GTCTGTAATCTGTAGTCTCTAGCCTGTAGTCTGTATTGTCTGTGGTGTTTTATCTATTAAGCCTG
GTCAGCTTTTCAGGTCGTCAGCCTTCTTTGTCAGCCTTTCGATTGTCAAGATTGTCAAGTGTCAG
CCTTTCGGGTTTGTCAGATCGTGGCTTTAAATTTGTCAGGTTTGTCAGTCAGGCTTTCAGGTTTG
TCAAGTTCTTCAGGCTTTTCAGGTTTGTCAAGTTTTTCAATCTTC



Found at i:20209 original size:18 final size:19

Alignment explanation


    Indices: 20168--20252  Score: 79
    Period size: 18  Copynumber: 4.5  Consensus size: 19

      20158 GGCCTGTGTG

                            *  
      20168 GAGCCTGTGGAGCCTGTG-
          1 GAGCCTGTGGAGCCTGCGT

                               
      20186 GAGCCTGTGGAGCCTGCGT
          1 GAGCCTGTGGAGCCTGCGT

                   *            
      20205 G-GCCTGCGTG-GCCTGCGT
          1 GAGCCTGTG-GAGCCTGCGT

                          *       
      20223 G-GCCTGCGTGGAGGCTGCGTT
          1 GAGCCT--GTGGAGCCTGCG-T

                     
      20244 GAGCCTGTG
          1 GAGCCTGTG

      20253 TGGTGGGGCG


Statistics
Matches: 56,  Mismatches: 4, Indels: 12
        0.78            0.06        0.17

Matches are distributed among these distances:
  18   36  0.64
  19    3  0.05
  20   11  0.20
  21    2  0.04
  22    4  0.07

ACGTcount: A:0.07, C:0.26, G:0.45, T:0.22


Consensus pattern (19 bp):   
GAGCCTGTGGAGCCTGCGT

Left flanking sequence: Indices 19668 -- 20167
ACGTGGTGGGCGATTCGACGCTGCCGTTGGCCGACAGAGGCCATTGTTGTCTGTAGTGTGATAAC
CATGCCTAATCGGGCACATAATAAACGAATGGAACGGGTGGAACGACGGTGGAACGGGCGACGAA
GAAAAAAAGCGGTGGAACGGGCGAAGGTGGAACGGGCGAAGGTGGAACGGGCGAAGGTGGAACGG
GCGAAGGTGGAAGGGTAACGAACGGTGGAACGAGCGAAGGTGGAACGATTTGACAGCCGTGGCAG
TGTCAGAGCGTAGTGGAGCGTAGTGTCGGGCGATCGGAGGGTGCATTGGCGGGTGGGTGGTGTCT
GAGTGGGTGTGGATGGGTGTGTAGGCGGGTGTGAGTGGGTGTGTAGATGGCATGTGGGTGTCTGG
GTGGCCTGTGGGTGAGAGCACTGAATCTGTGTTGGTGGAGTGTAGATCTGTAAGTGGGTAGTGGA
GCCCGTGGTAAAGCCCGTGGTGGTGGAGCCCGGGTGGCCTGTGTG


Right flanking sequence: Indices 20253 -- 20752
TGGTGGGGCGGGTGTTTCATCGGAGTTAGGTTACCGGTGTCACTGCTGTTTTGGGCTATGGGACG
CTACGGTGTTTAGAATGTGGGGTGTGGGGGTGGTGTTAGTGGTGGTGGTGGTTATAGGTGGTGGT
TATGGGTGGTGGTTATTAGTGGAAGTTCTAGGGTGTGGCTGTTGTGTGGTGATTGGGTATTTTGG
GTGTTTTGGGTGTATTCTGTGGTTCGTAGTGTGTGTGTGGTCTGTAGTCTGTAATCTGTAGTCTC
TAGCCTGTAGTCTGTATTGTCTGTGGTGTTTTATCTATTAAGCCTGGTCAGCTTTTCAGGTCGTC
AGCCTTCTTTGTCAGCCTTTCGATTGTCAAGATTGTCAAGTGTCAGCCTTTCGGGTTTGTCAGAT
CGTGGCTTTAAATTTGTCAGGTTTGTCAGTCAGGCTTTCAGGTTTGTCAAGTTCTTCAGGCTTTT
CAGGTTTGTCAAGTTTTTCAATCTTCGAGGATGTCGGGTTAGTCC



Found at i:20377 original size:16 final size:15

Alignment explanation


    Indices: 20341--20382  Score: 50
    Period size: 16  Copynumber: 2.7  Consensus size: 15

      20331 AATGTGGGGT

                *          
      20341 GTGGGGGTGGTGTTA
          1 GTGGTGGTGGTGTTA

                            
      20356 GTGGTGGTGGTGGTTA
          1 GTGGTGGTGGT-GTTA

                        
      20372 -TAGGTGGTGGT
          1 GT-GGTGGTGGT

      20383 TATGGGTGGT


Statistics
Matches: 24,  Mismatches: 1, Indels: 3
        0.86            0.04        0.11

Matches are distributed among these distances:
  15   11  0.46
  16   13  0.54

ACGTcount: A:0.07, C:0.00, G:0.57, T:0.36


Consensus pattern (15 bp):   
GTGGTGGTGGTGTTA

Left flanking sequence: Indices 19841 -- 20340
GGAACGGGCGAAGGTGGAACGGGCGAAGGTGGAAGGGTAACGAACGGTGGAACGAGCGAAGGTGG
AACGATTTGACAGCCGTGGCAGTGTCAGAGCGTAGTGGAGCGTAGTGTCGGGCGATCGGAGGGTG
CATTGGCGGGTGGGTGGTGTCTGAGTGGGTGTGGATGGGTGTGTAGGCGGGTGTGAGTGGGTGTG
TAGATGGCATGTGGGTGTCTGGGTGGCCTGTGGGTGAGAGCACTGAATCTGTGTTGGTGGAGTGT
AGATCTGTAAGTGGGTAGTGGAGCCCGTGGTAAAGCCCGTGGTGGTGGAGCCCGGGTGGCCTGTG
TGGAGCCTGTGGAGCCTGTGGAGCCTGTGGAGCCTGCGTGGCCTGCGTGGCCTGCGTGGCCTGCG
TGGAGGCTGCGTTGAGCCTGTGTGGTGGGGCGGGTGTTTCATCGGAGTTAGGTTACCGGTGTCAC
TGCTGTTTTGGGCTATGGGACGCTACGGTGTTTAGAATGTGGGGT


Right flanking sequence: Indices 20383 -- 20882
TATGGGTGGTGGTTATTAGTGGAAGTTCTAGGGTGTGGCTGTTGTGTGGTGATTGGGTATTTTGG
GTGTTTTGGGTGTATTCTGTGGTTCGTAGTGTGTGTGTGGTCTGTAGTCTGTAATCTGTAGTCTC
TAGCCTGTAGTCTGTATTGTCTGTGGTGTTTTATCTATTAAGCCTGGTCAGCTTTTCAGGTCGTC
AGCCTTCTTTGTCAGCCTTTCGATTGTCAAGATTGTCAAGTGTCAGCCTTTCGGGTTTGTCAGAT
CGTGGCTTTAAATTTGTCAGGTTTGTCAGTCAGGCTTTCAGGTTTGTCAAGTTCTTCAGGCTTTT
CAGGTTTGTCAAGTTTTTCAATCTTCGAGGATGTCGGGTTAGTCCGCAGTTCTGCCTTTTCTGCG
TCCTCTATCTATTCTAGATCGCCTTTGGTCTGTTGTCGGCCATTTCCGCCTTTACAGGTTTGTCA
GCCTTCAGGTTGGTCAGCCTTTCGGGTTTGTCAGCCGGTTTTGTC



Found at i:20379 original size:13 final size:13

Alignment explanation


    Indices: 20361--20398  Score: 67
    Period size: 13  Copynumber: 2.9  Consensus size: 13

      20351 TGTTAGTGGT

                         
      20361 GGTGGTGGTTATA
          1 GGTGGTGGTTATA

                        *
      20374 GGTGGTGGTTATG
          1 GGTGGTGGTTATA

                        
      20387 GGTGGTGGTTAT
          1 GGTGGTGGTTAT

      20399 TAGTGGAAGT


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  13   24  1.00

ACGTcount: A:0.11, C:0.00, G:0.50, T:0.39


Consensus pattern (13 bp):   
GGTGGTGGTTATA

Left flanking sequence: Indices 19861 -- 20360
GGGCGAAGGTGGAAGGGTAACGAACGGTGGAACGAGCGAAGGTGGAACGATTTGACAGCCGTGGC
AGTGTCAGAGCGTAGTGGAGCGTAGTGTCGGGCGATCGGAGGGTGCATTGGCGGGTGGGTGGTGT
CTGAGTGGGTGTGGATGGGTGTGTAGGCGGGTGTGAGTGGGTGTGTAGATGGCATGTGGGTGTCT
GGGTGGCCTGTGGGTGAGAGCACTGAATCTGTGTTGGTGGAGTGTAGATCTGTAAGTGGGTAGTG
GAGCCCGTGGTAAAGCCCGTGGTGGTGGAGCCCGGGTGGCCTGTGTGGAGCCTGTGGAGCCTGTG
GAGCCTGTGGAGCCTGCGTGGCCTGCGTGGCCTGCGTGGCCTGCGTGGAGGCTGCGTTGAGCCTG
TGTGGTGGGGCGGGTGTTTCATCGGAGTTAGGTTACCGGTGTCACTGCTGTTTTGGGCTATGGGA
CGCTACGGTGTTTAGAATGTGGGGTGTGGGGGTGGTGTTAGTGGT


Right flanking sequence: Indices 20399 -- 20898
TAGTGGAAGTTCTAGGGTGTGGCTGTTGTGTGGTGATTGGGTATTTTGGGTGTTTTGGGTGTATT
CTGTGGTTCGTAGTGTGTGTGTGGTCTGTAGTCTGTAATCTGTAGTCTCTAGCCTGTAGTCTGTA
TTGTCTGTGGTGTTTTATCTATTAAGCCTGGTCAGCTTTTCAGGTCGTCAGCCTTCTTTGTCAGC
CTTTCGATTGTCAAGATTGTCAAGTGTCAGCCTTTCGGGTTTGTCAGATCGTGGCTTTAAATTTG
TCAGGTTTGTCAGTCAGGCTTTCAGGTTTGTCAAGTTCTTCAGGCTTTTCAGGTTTGTCAAGTTT
TTCAATCTTCGAGGATGTCGGGTTAGTCCGCAGTTCTGCCTTTTCTGCGTCCTCTATCTATTCTA
GATCGCCTTTGGTCTGTTGTCGGCCATTTCCGCCTTTACAGGTTTGTCAGCCTTCAGGTTGGTCA
GCCTTTCGGGTTTGTCAGCCGGTTTTGTCTGCCTTCTCAGCCTTC



Found at i:20404 original size:13 final size:13

Alignment explanation


    Indices: 20362--20404  Score: 52
    Period size: 13  Copynumber: 3.3  Consensus size: 13

      20352 GTTAGTGGTG

                         
      20362 GTGGTGGTTA-TA
          1 GTGGTGGTTATTA

                        **
      20374 GGTGGTGGTTATGG
          1 -GTGGTGGTTATTA

                         
      20388 GTGGTGGTTATTA
          1 GTGGTGGTTATTA

                
      20401 GTGG
          1 GTGG

      20405 AAGTTCTAGG


Statistics
Matches: 25,  Mismatches: 4, Indels: 2
        0.81            0.13        0.06

Matches are distributed among these distances:
  13   25  1.00

ACGTcount: A:0.12, C:0.00, G:0.49, T:0.40


Consensus pattern (13 bp):   
GTGGTGGTTATTA

Left flanking sequence: Indices 19862 -- 20361
GGCGAAGGTGGAAGGGTAACGAACGGTGGAACGAGCGAAGGTGGAACGATTTGACAGCCGTGGCA
GTGTCAGAGCGTAGTGGAGCGTAGTGTCGGGCGATCGGAGGGTGCATTGGCGGGTGGGTGGTGTC
TGAGTGGGTGTGGATGGGTGTGTAGGCGGGTGTGAGTGGGTGTGTAGATGGCATGTGGGTGTCTG
GGTGGCCTGTGGGTGAGAGCACTGAATCTGTGTTGGTGGAGTGTAGATCTGTAAGTGGGTAGTGG
AGCCCGTGGTAAAGCCCGTGGTGGTGGAGCCCGGGTGGCCTGTGTGGAGCCTGTGGAGCCTGTGG
AGCCTGTGGAGCCTGCGTGGCCTGCGTGGCCTGCGTGGCCTGCGTGGAGGCTGCGTTGAGCCTGT
GTGGTGGGGCGGGTGTTTCATCGGAGTTAGGTTACCGGTGTCACTGCTGTTTTGGGCTATGGGAC
GCTACGGTGTTTAGAATGTGGGGTGTGGGGGTGGTGTTAGTGGTG


Right flanking sequence: Indices 20405 -- 20904
AAGTTCTAGGGTGTGGCTGTTGTGTGGTGATTGGGTATTTTGGGTGTTTTGGGTGTATTCTGTGG
TTCGTAGTGTGTGTGTGGTCTGTAGTCTGTAATCTGTAGTCTCTAGCCTGTAGTCTGTATTGTCT
GTGGTGTTTTATCTATTAAGCCTGGTCAGCTTTTCAGGTCGTCAGCCTTCTTTGTCAGCCTTTCG
ATTGTCAAGATTGTCAAGTGTCAGCCTTTCGGGTTTGTCAGATCGTGGCTTTAAATTTGTCAGGT
TTGTCAGTCAGGCTTTCAGGTTTGTCAAGTTCTTCAGGCTTTTCAGGTTTGTCAAGTTTTTCAAT
CTTCGAGGATGTCGGGTTAGTCCGCAGTTCTGCCTTTTCTGCGTCCTCTATCTATTCTAGATCGC
CTTTGGTCTGTTGTCGGCCATTTCCGCCTTTACAGGTTTGTCAGCCTTCAGGTTGGTCAGCCTTT
CGGGTTTGTCAGCCGGTTTTGTCTGCCTTCTCAGCCTTCTCTGCT



Found at i:20499 original size:7 final size:7

Alignment explanation


    Indices: 20487--20528  Score: 57
    Period size: 7  Copynumber: 6.0  Consensus size: 7

      20477 TGTGTGTGTG

                   
      20487 GTCTGTA
          1 GTCTGTA

                   
      20494 GTCTGTA
          1 GTCTGTA

            *      
      20501 ATCTGTA
          1 GTCTGTA

                *  
      20508 GTCTCTA
          1 GTCTGTA

             *     
      20515 GCCTGTA
          1 GTCTGTA

                   
      20522 GTCTGTA
          1 GTCTGTA

      20529 TTGTCTGTGG


Statistics
Matches: 29,  Mismatches: 6, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
   7   29  1.00

ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40


Consensus pattern (7 bp):   
GTCTGTA

Left flanking sequence: Indices 19987 -- 20486
GTGTCTGAGTGGGTGTGGATGGGTGTGTAGGCGGGTGTGAGTGGGTGTGTAGATGGCATGTGGGT
GTCTGGGTGGCCTGTGGGTGAGAGCACTGAATCTGTGTTGGTGGAGTGTAGATCTGTAAGTGGGT
AGTGGAGCCCGTGGTAAAGCCCGTGGTGGTGGAGCCCGGGTGGCCTGTGTGGAGCCTGTGGAGCC
TGTGGAGCCTGTGGAGCCTGCGTGGCCTGCGTGGCCTGCGTGGCCTGCGTGGAGGCTGCGTTGAG
CCTGTGTGGTGGGGCGGGTGTTTCATCGGAGTTAGGTTACCGGTGTCACTGCTGTTTTGGGCTAT
GGGACGCTACGGTGTTTAGAATGTGGGGTGTGGGGGTGGTGTTAGTGGTGGTGGTGGTTATAGGT
GGTGGTTATGGGTGGTGGTTATTAGTGGAAGTTCTAGGGTGTGGCTGTTGTGTGGTGATTGGGTA
TTTTGGGTGTTTTGGGTGTATTCTGTGGTTCGTAGTGTGTGTGTG


Right flanking sequence: Indices 20529 -- 21028
TTGTCTGTGGTGTTTTATCTATTAAGCCTGGTCAGCTTTTCAGGTCGTCAGCCTTCTTTGTCAGC
CTTTCGATTGTCAAGATTGTCAAGTGTCAGCCTTTCGGGTTTGTCAGATCGTGGCTTTAAATTTG
TCAGGTTTGTCAGTCAGGCTTTCAGGTTTGTCAAGTTCTTCAGGCTTTTCAGGTTTGTCAAGTTT
TTCAATCTTCGAGGATGTCGGGTTAGTCCGCAGTTCTGCCTTTTCTGCGTCCTCTATCTATTCTA
GATCGCCTTTGGTCTGTTGTCGGCCATTTCCGCCTTTACAGGTTTGTCAGCCTTCAGGTTGGTCA
GCCTTTCGGGTTTGTCAGCCGGTTTTGTCTGCCTTCTCAGCCTTCTCTGCTGTCAGACTTTCAGA
CTTTGAGCCTTTCAGTCTTTCAGCCTCTCCTTATCCCTTACCTTTTCTCATTTTCCCTTTTCCTT
ATCCCTTGTCTCGTCTCACTTTTCCCTACCCTAGACTCTTCCCAC



Found at i:20713 original size:27 final size:26

Alignment explanation


    Indices: 20672--20727  Score: 94
    Period size: 27  Copynumber: 2.1  Consensus size: 26

      20662 GGTTTGTCAG

                                      
      20672 TCAGGCTTTCAGGTTTGTCAAGTTCT
          1 TCAGGCTTTCAGGTTTGTCAAGTTCT

                                     * 
      20698 TCAGGCTTTTCAGGTTTGTCAAGTTTT
          1 TCAGGC-TTTCAGGTTTGTCAAGTTCT

               
      20725 TCA
          1 TCA

      20728 ATCTTCGAGG


Statistics
Matches: 28,  Mismatches: 1, Indels: 1
        0.93            0.03        0.03

Matches are distributed among these distances:
  26    6  0.21
  27   22  0.79

ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45


Consensus pattern (26 bp):   
TCAGGCTTTCAGGTTTGTCAAGTTCT

Left flanking sequence: Indices 20172 -- 20671
CTGTGGAGCCTGTGGAGCCTGTGGAGCCTGCGTGGCCTGCGTGGCCTGCGTGGCCTGCGTGGAGG
CTGCGTTGAGCCTGTGTGGTGGGGCGGGTGTTTCATCGGAGTTAGGTTACCGGTGTCACTGCTGT
TTTGGGCTATGGGACGCTACGGTGTTTAGAATGTGGGGTGTGGGGGTGGTGTTAGTGGTGGTGGT
GGTTATAGGTGGTGGTTATGGGTGGTGGTTATTAGTGGAAGTTCTAGGGTGTGGCTGTTGTGTGG
TGATTGGGTATTTTGGGTGTTTTGGGTGTATTCTGTGGTTCGTAGTGTGTGTGTGGTCTGTAGTC
TGTAATCTGTAGTCTCTAGCCTGTAGTCTGTATTGTCTGTGGTGTTTTATCTATTAAGCCTGGTC
AGCTTTTCAGGTCGTCAGCCTTCTTTGTCAGCCTTTCGATTGTCAAGATTGTCAAGTGTCAGCCT
TTCGGGTTTGTCAGATCGTGGCTTTAAATTTGTCAGGTTTGTCAG


Right flanking sequence: Indices 20728 -- 21227
ATCTTCGAGGATGTCGGGTTAGTCCGCAGTTCTGCCTTTTCTGCGTCCTCTATCTATTCTAGATC
GCCTTTGGTCTGTTGTCGGCCATTTCCGCCTTTACAGGTTTGTCAGCCTTCAGGTTGGTCAGCCT
TTCGGGTTTGTCAGCCGGTTTTGTCTGCCTTCTCAGCCTTCTCTGCTGTCAGACTTTCAGACTTT
GAGCCTTTCAGTCTTTCAGCCTCTCCTTATCCCTTACCTTTTCTCATTTTCCCTTTTCCTTATCC
CTTGTCTCGTCTCACTTTTCCCTACCCTAGACTCTTCCCACCTCAATGTCTTCTACAACAACCAC
TCACTACCCTGGCCACTACCCTAACCACCTCCCTAACCACTACCCTATTCCGACTCCTATTACCT
ACCCGCTAACCAAAAGTAAACCCTCCTAACCCTCTACTGGCGATCGCACAATCCTTCATCCGTCA
GACCAGCCCACCAACACCCAAGTTTACGAGCCAAAGCCCACCAAG



Found at i:20848 original size:16 final size:17

Alignment explanation


    Indices: 20820--20873  Score: 74
    Period size: 17  Copynumber: 3.2  Consensus size: 17

      20810 GGCCATTTCC

                              
      20820 GCCTTTACAGGTTTGTCA
          1 GCCTTT-CAGGTTTGTCA

                        *    
      20838 GCC-TTCAGGTTGGTCA
          1 GCCTTTCAGGTTTGTCA

                   *         
      20854 GCCTTTCGGGTTTGTCA
          1 GCCTTTCAGGTTTGTCA

               
      20871 GCC
          1 GCC

      20874 GGTTTTGTCT


Statistics
Matches: 32,  Mismatches: 3, Indels: 3
        0.84            0.08        0.08

Matches are distributed among these distances:
  16   13  0.41
  17   16  0.50
  18    3  0.09

ACGTcount: A:0.11, C:0.26, G:0.28, T:0.35


Consensus pattern (17 bp):   
GCCTTTCAGGTTTGTCA

Left flanking sequence: Indices 20320 -- 20819
ACGGTGTTTAGAATGTGGGGTGTGGGGGTGGTGTTAGTGGTGGTGGTGGTTATAGGTGGTGGTTA
TGGGTGGTGGTTATTAGTGGAAGTTCTAGGGTGTGGCTGTTGTGTGGTGATTGGGTATTTTGGGT
GTTTTGGGTGTATTCTGTGGTTCGTAGTGTGTGTGTGGTCTGTAGTCTGTAATCTGTAGTCTCTA
GCCTGTAGTCTGTATTGTCTGTGGTGTTTTATCTATTAAGCCTGGTCAGCTTTTCAGGTCGTCAG
CCTTCTTTGTCAGCCTTTCGATTGTCAAGATTGTCAAGTGTCAGCCTTTCGGGTTTGTCAGATCG
TGGCTTTAAATTTGTCAGGTTTGTCAGTCAGGCTTTCAGGTTTGTCAAGTTCTTCAGGCTTTTCA
GGTTTGTCAAGTTTTTCAATCTTCGAGGATGTCGGGTTAGTCCGCAGTTCTGCCTTTTCTGCGTC
CTCTATCTATTCTAGATCGCCTTTGGTCTGTTGTCGGCCATTTCC


Right flanking sequence: Indices 20874 -- 21373
GGTTTTGTCTGCCTTCTCAGCCTTCTCTGCTGTCAGACTTTCAGACTTTGAGCCTTTCAGTCTTT
CAGCCTCTCCTTATCCCTTACCTTTTCTCATTTTCCCTTTTCCTTATCCCTTGTCTCGTCTCACT
TTTCCCTACCCTAGACTCTTCCCACCTCAATGTCTTCTACAACAACCACTCACTACCCTGGCCAC
TACCCTAACCACCTCCCTAACCACTACCCTATTCCGACTCCTATTACCTACCCGCTAACCAAAAG
TAAACCCTCCTAACCCTCTACTGGCGATCGCACAATCCTTCATCCGTCAGACCAGCCCACCAACA
CCCAAGTTTACGAGCCAAAGCCCACCAAGAAGGCGGTGGGGGGTCTGGGGGGCGCCGCCTGCGGC
CCCCCAGCCGTCACCATGTTCTTTCACCCTGTTCTTTGCATCTTATTCTTCACTTTCTTCTTCAC
GTTCTTCACCTTATTCTTCACCTTATTATTCACCCTGTTCTTCTC



Found at i:20932 original size:16 final size:16

Alignment explanation


    Indices: 20906--20944  Score: 51
    Period size: 16  Copynumber: 2.4  Consensus size: 16

      20896 TTCTCTGCTG

                *           
      20906 TCAGACTTTCAGACTT
          1 TCAGCCTTTCAGACTT

             *          *   
      20922 TGAGCCTTTCAGTCTT
          1 TCAGCCTTTCAGACTT

                   
      20938 TCAGCCT
          1 TCAGCCT

      20945 CTCCTTATCC


Statistics
Matches: 19,  Mismatches: 4, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  16   19  1.00

ACGTcount: A:0.18, C:0.28, G:0.15, T:0.38


Consensus pattern (16 bp):   
TCAGCCTTTCAGACTT

Left flanking sequence: Indices 20406 -- 20905
AGTTCTAGGGTGTGGCTGTTGTGTGGTGATTGGGTATTTTGGGTGTTTTGGGTGTATTCTGTGGT
TCGTAGTGTGTGTGTGGTCTGTAGTCTGTAATCTGTAGTCTCTAGCCTGTAGTCTGTATTGTCTG
TGGTGTTTTATCTATTAAGCCTGGTCAGCTTTTCAGGTCGTCAGCCTTCTTTGTCAGCCTTTCGA
TTGTCAAGATTGTCAAGTGTCAGCCTTTCGGGTTTGTCAGATCGTGGCTTTAAATTTGTCAGGTT
TGTCAGTCAGGCTTTCAGGTTTGTCAAGTTCTTCAGGCTTTTCAGGTTTGTCAAGTTTTTCAATC
TTCGAGGATGTCGGGTTAGTCCGCAGTTCTGCCTTTTCTGCGTCCTCTATCTATTCTAGATCGCC
TTTGGTCTGTTGTCGGCCATTTCCGCCTTTACAGGTTTGTCAGCCTTCAGGTTGGTCAGCCTTTC
GGGTTTGTCAGCCGGTTTTGTCTGCCTTCTCAGCCTTCTCTGCTG


Right flanking sequence: Indices 20945 -- 21444
CTCCTTATCCCTTACCTTTTCTCATTTTCCCTTTTCCTTATCCCTTGTCTCGTCTCACTTTTCCC
TACCCTAGACTCTTCCCACCTCAATGTCTTCTACAACAACCACTCACTACCCTGGCCACTACCCT
AACCACCTCCCTAACCACTACCCTATTCCGACTCCTATTACCTACCCGCTAACCAAAAGTAAACC
CTCCTAACCCTCTACTGGCGATCGCACAATCCTTCATCCGTCAGACCAGCCCACCAACACCCAAG
TTTACGAGCCAAAGCCCACCAAGAAGGCGGTGGGGGGTCTGGGGGGCGCCGCCTGCGGCCCCCCA
GCCGTCACCATGTTCTTTCACCCTGTTCTTTGCATCTTATTCTTCACTTTCTTCTTCACGTTCTT
CACCTTATTCTTCACCTTATTATTCACCCTGTTCTTCTCACCGTCTAGTCCTTCTACACCAGCAC
TGGGTTACTAAGCGACGAAGGATATTTCGTGGAGCTCCTTGGCCA



Found at i:21001 original size:33 final size:34

Alignment explanation


    Indices: 20946--21010  Score: 87
    Period size: 33  Copynumber: 1.9  Consensus size: 34

      20936 TTTCAGCCTC

                            **                
      20946 TCCTTATCCCTTACCTTTTCTCA-TTTTCCCTTT
          1 TCCTTATCCCTTACCTCGTCTCACTTTTCCCTTT

                        **                  
      20979 TCCTTATCCCTTGTCTCGTCTCACTTTTCCCT
          1 TCCTTATCCCTTACCTCGTCTCACTTTTCCCT

      21011 ACCCTAGACT


Statistics
Matches: 27,  Mismatches: 4, Indels: 1
        0.84            0.12        0.03

Matches are distributed among these distances:
  33   19  0.70
  34    8  0.30

ACGTcount: A:0.08, C:0.38, G:0.03, T:0.51


Consensus pattern (34 bp):   
TCCTTATCCCTTACCTCGTCTCACTTTTCCCTTT

Left flanking sequence: Indices 20446 -- 20945
GGGTGTTTTGGGTGTATTCTGTGGTTCGTAGTGTGTGTGTGGTCTGTAGTCTGTAATCTGTAGTC
TCTAGCCTGTAGTCTGTATTGTCTGTGGTGTTTTATCTATTAAGCCTGGTCAGCTTTTCAGGTCG
TCAGCCTTCTTTGTCAGCCTTTCGATTGTCAAGATTGTCAAGTGTCAGCCTTTCGGGTTTGTCAG
ATCGTGGCTTTAAATTTGTCAGGTTTGTCAGTCAGGCTTTCAGGTTTGTCAAGTTCTTCAGGCTT
TTCAGGTTTGTCAAGTTTTTCAATCTTCGAGGATGTCGGGTTAGTCCGCAGTTCTGCCTTTTCTG
CGTCCTCTATCTATTCTAGATCGCCTTTGGTCTGTTGTCGGCCATTTCCGCCTTTACAGGTTTGT
CAGCCTTCAGGTTGGTCAGCCTTTCGGGTTTGTCAGCCGGTTTTGTCTGCCTTCTCAGCCTTCTC
TGCTGTCAGACTTTCAGACTTTGAGCCTTTCAGTCTTTCAGCCTC


Right flanking sequence: Indices 21011 -- 21510
ACCCTAGACTCTTCCCACCTCAATGTCTTCTACAACAACCACTCACTACCCTGGCCACTACCCTA
ACCACCTCCCTAACCACTACCCTATTCCGACTCCTATTACCTACCCGCTAACCAAAAGTAAACCC
TCCTAACCCTCTACTGGCGATCGCACAATCCTTCATCCGTCAGACCAGCCCACCAACACCCAAGT
TTACGAGCCAAAGCCCACCAAGAAGGCGGTGGGGGGTCTGGGGGGCGCCGCCTGCGGCCCCCCAG
CCGTCACCATGTTCTTTCACCCTGTTCTTTGCATCTTATTCTTCACTTTCTTCTTCACGTTCTTC
ACCTTATTCTTCACCTTATTATTCACCCTGTTCTTCTCACCGTCTAGTCCTTCTACACCAGCACT
GGGTTACTAAGCGACGAAGGATATTTCGTGGAGCTCCTTGGCCATACAAAATCCACCCAATTCTA
CGCGGACACCCACGTTCGCCTATTCTTCCACGCCACCTGTCACCA



Found at i:21080 original size:12 final size:12

Alignment explanation


    Indices: 21054--21099  Score: 58
    Period size: 12  Copynumber: 3.8  Consensus size: 12

      21044 AACAACCACT

                     ** 
      21054 CACTACCCTGGC
          1 CACTACCCTAAC

                        
      21066 CACTACCCTAAC
          1 CACTACCCTAAC

                         
      21078 CACCT-CCCTAAC
          1 CA-CTACCCTAAC

                      
      21090 CACTACCCTA
          1 CACTACCCTA

      21100 TTCCGACTCC


Statistics
Matches: 30,  Mismatches: 2, Indels: 4
        0.83            0.06        0.11

Matches are distributed among these distances:
  11    2  0.07
  12   26  0.87
  13    2  0.07

ACGTcount: A:0.26, C:0.52, G:0.04, T:0.17


Consensus pattern (12 bp):   
CACTACCCTAAC

Left flanking sequence: Indices 20554 -- 21053
GCCTGGTCAGCTTTTCAGGTCGTCAGCCTTCTTTGTCAGCCTTTCGATTGTCAAGATTGTCAAGT
GTCAGCCTTTCGGGTTTGTCAGATCGTGGCTTTAAATTTGTCAGGTTTGTCAGTCAGGCTTTCAG
GTTTGTCAAGTTCTTCAGGCTTTTCAGGTTTGTCAAGTTTTTCAATCTTCGAGGATGTCGGGTTA
GTCCGCAGTTCTGCCTTTTCTGCGTCCTCTATCTATTCTAGATCGCCTTTGGTCTGTTGTCGGCC
ATTTCCGCCTTTACAGGTTTGTCAGCCTTCAGGTTGGTCAGCCTTTCGGGTTTGTCAGCCGGTTT
TGTCTGCCTTCTCAGCCTTCTCTGCTGTCAGACTTTCAGACTTTGAGCCTTTCAGTCTTTCAGCC
TCTCCTTATCCCTTACCTTTTCTCATTTTCCCTTTTCCTTATCCCTTGTCTCGTCTCACTTTTCC
CTACCCTAGACTCTTCCCACCTCAATGTCTTCTACAACAACCACT


Right flanking sequence: Indices 21100 -- 21599
TTCCGACTCCTATTACCTACCCGCTAACCAAAAGTAAACCCTCCTAACCCTCTACTGGCGATCGC
ACAATCCTTCATCCGTCAGACCAGCCCACCAACACCCAAGTTTACGAGCCAAAGCCCACCAAGAA
GGCGGTGGGGGGTCTGGGGGGCGCCGCCTGCGGCCCCCCAGCCGTCACCATGTTCTTTCACCCTG
TTCTTTGCATCTTATTCTTCACTTTCTTCTTCACGTTCTTCACCTTATTCTTCACCTTATTATTC
ACCCTGTTCTTCTCACCGTCTAGTCCTTCTACACCAGCACTGGGTTACTAAGCGACGAAGGATAT
TTCGTGGAGCTCCTTGGCCATACAAAATCCACCCAATTCTACGCGGACACCCACGTTCGCCTATT
CTTCCACGCCACCTGTCACCACCTCGTAAACCCCCCTCGCAACCCGCCCAACAAACGCCTCGCCG
CGGAGCTTCCCCTCTACGGCGTTTCCACCGCGCCTCGGCGTCGTC



Found at i:21334 original size:21 final size:21

Alignment explanation


    Indices: 21309--21349  Score: 64
    Period size: 21  Copynumber: 2.0  Consensus size: 21

      21299 TTGCATCTTA

                    *  *         
      21309 TTCTTCACTTTCTTCTTCACG
          1 TTCTTCACCTTATTCTTCACG

                                
      21330 TTCTTCACCTTATTCTTCAC
          1 TTCTTCACCTTATTCTTCAC

      21350 CTTATTATTC


Statistics
Matches: 18,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  21   18  1.00

ACGTcount: A:0.12, C:0.34, G:0.02, T:0.51


Consensus pattern (21 bp):   
TTCTTCACCTTATTCTTCACG

Left flanking sequence: Indices 20809 -- 21308
CGGCCATTTCCGCCTTTACAGGTTTGTCAGCCTTCAGGTTGGTCAGCCTTTCGGGTTTGTCAGCC
GGTTTTGTCTGCCTTCTCAGCCTTCTCTGCTGTCAGACTTTCAGACTTTGAGCCTTTCAGTCTTT
CAGCCTCTCCTTATCCCTTACCTTTTCTCATTTTCCCTTTTCCTTATCCCTTGTCTCGTCTCACT
TTTCCCTACCCTAGACTCTTCCCACCTCAATGTCTTCTACAACAACCACTCACTACCCTGGCCAC
TACCCTAACCACCTCCCTAACCACTACCCTATTCCGACTCCTATTACCTACCCGCTAACCAAAAG
TAAACCCTCCTAACCCTCTACTGGCGATCGCACAATCCTTCATCCGTCAGACCAGCCCACCAACA
CCCAAGTTTACGAGCCAAAGCCCACCAAGAAGGCGGTGGGGGGTCTGGGGGGCGCCGCCTGCGGC
CCCCCAGCCGTCACCATGTTCTTTCACCCTGTTCTTTGCATCTTA


Right flanking sequence: Indices 21350 -- 21849
CTTATTATTCACCCTGTTCTTCTCACCGTCTAGTCCTTCTACACCAGCACTGGGTTACTAAGCGA
CGAAGGATATTTCGTGGAGCTCCTTGGCCATACAAAATCCACCCAATTCTACGCGGACACCCACG
TTCGCCTATTCTTCCACGCCACCTGTCACCACCTCGTAAACCCCCCTCGCAACCCGCCCAACAAA
CGCCTCGCCGCGGAGCTTCCCCTCTACGGCGTTTCCACCGCGCCTCGGCGTCGTCCCACCTCATG
CAACGAACATGAAACTGGGTTGAAACACGGTTCCGTGAAACGGAATGACAGCGGCGTGCGTAACC
ACACAGGTGATCGGGTCGACAGTGCAACCGGTACGCCGGAAACAGCGCGGTGGTGGCACGCTATG
GTGGCATGGTGGCACGGCAGGGCTGGCAGTTAGTGAGACAGCCAGTGCGACGCTAGAGAAGGTAC
ACTGAAACAGTGGTGAAACAAACCACCACTCAAACGATCTACACG



Found at i:21345 original size:12 final size:12

Alignment explanation


    Indices: 21305--21362  Score: 59
    Period size: 12  Copynumber: 5.1  Consensus size: 12

      21295 TTCTTTGCAT

                        
      21305 CTTATTCTTCAC
          1 CTTATTCTTCAC

            *  *        
      21317 TTTCTTCTTCA-
          1 CTTATTCTTCAC

               *        
      21328 C--GTTCTTCAC
          1 CTTATTCTTCAC

                        
      21338 CTTATTCTTCAC
          1 CTTATTCTTCAC

                  *     
      21350 CTTATTATTCAC
          1 CTTATTCTTCAC

             
      21362 C
          1 C

      21363 CTGTTCTTCT


Statistics
Matches: 37,  Mismatches: 6, Indels: 6
        0.76            0.12        0.12

Matches are distributed among these distances:
   9    7  0.19
  10    1  0.03
  12   29  0.78

ACGTcount: A:0.16, C:0.33, G:0.02, T:0.50


Consensus pattern (12 bp):   
CTTATTCTTCAC

Left flanking sequence: Indices 20805 -- 21304
TTGTCGGCCATTTCCGCCTTTACAGGTTTGTCAGCCTTCAGGTTGGTCAGCCTTTCGGGTTTGTC
AGCCGGTTTTGTCTGCCTTCTCAGCCTTCTCTGCTGTCAGACTTTCAGACTTTGAGCCTTTCAGT
CTTTCAGCCTCTCCTTATCCCTTACCTTTTCTCATTTTCCCTTTTCCTTATCCCTTGTCTCGTCT
CACTTTTCCCTACCCTAGACTCTTCCCACCTCAATGTCTTCTACAACAACCACTCACTACCCTGG
CCACTACCCTAACCACCTCCCTAACCACTACCCTATTCCGACTCCTATTACCTACCCGCTAACCA
AAAGTAAACCCTCCTAACCCTCTACTGGCGATCGCACAATCCTTCATCCGTCAGACCAGCCCACC
AACACCCAAGTTTACGAGCCAAAGCCCACCAAGAAGGCGGTGGGGGGTCTGGGGGGCGCCGCCTG
CGGCCCCCCAGCCGTCACCATGTTCTTTCACCCTGTTCTTTGCAT


Right flanking sequence: Indices 21363 -- 21862
CTGTTCTTCTCACCGTCTAGTCCTTCTACACCAGCACTGGGTTACTAAGCGACGAAGGATATTTC
GTGGAGCTCCTTGGCCATACAAAATCCACCCAATTCTACGCGGACACCCACGTTCGCCTATTCTT
CCACGCCACCTGTCACCACCTCGTAAACCCCCCTCGCAACCCGCCCAACAAACGCCTCGCCGCGG
AGCTTCCCCTCTACGGCGTTTCCACCGCGCCTCGGCGTCGTCCCACCTCATGCAACGAACATGAA
ACTGGGTTGAAACACGGTTCCGTGAAACGGAATGACAGCGGCGTGCGTAACCACACAGGTGATCG
GGTCGACAGTGCAACCGGTACGCCGGAAACAGCGCGGTGGTGGCACGCTATGGTGGCATGGTGGC
ACGGCAGGGCTGGCAGTTAGTGAGACAGCCAGTGCGACGCTAGAGAAGGTACACTGAAACAGTGG
TGAAACAAACCACCACTCAAACGATCTACACGAACAGTACAATAC



Found at i:21875 original size:11 final size:11

Alignment explanation


    Indices: 21861--21916  Score: 51
    Period size: 11  Copynumber: 5.1  Consensus size: 11

      21851 ACAGTACAAT

                       
      21861 ACAATAAACCA
          1 ACAATAAACCA

                       
      21872 ACAATAAACCA
          1 ACAATAAACCA

               * *     
      21883 ACACTGAACCA
          1 ACAATAAACCA

            *    *     
      21894 CCAA-CAACCA
          1 ACAATAAACCA

               *        
      21904 ACACTAGAACCA
          1 ACAATA-AACCA

             
      21916 A
          1 A

      21917 TCTTAAACGA


Statistics
Matches: 35,  Mismatches: 8, Indels: 3
        0.76            0.17        0.07

Matches are distributed among these distances:
  10    7  0.20
  11   22  0.63
  12    6  0.17

ACGTcount: A:0.55, C:0.34, G:0.04, T:0.07


Consensus pattern (11 bp):   
ACAATAAACCA

Left flanking sequence: Indices 21361 -- 21860
CCCTGTTCTTCTCACCGTCTAGTCCTTCTACACCAGCACTGGGTTACTAAGCGACGAAGGATATT
TCGTGGAGCTCCTTGGCCATACAAAATCCACCCAATTCTACGCGGACACCCACGTTCGCCTATTC
TTCCACGCCACCTGTCACCACCTCGTAAACCCCCCTCGCAACCCGCCCAACAAACGCCTCGCCGC
GGAGCTTCCCCTCTACGGCGTTTCCACCGCGCCTCGGCGTCGTCCCACCTCATGCAACGAACATG
AAACTGGGTTGAAACACGGTTCCGTGAAACGGAATGACAGCGGCGTGCGTAACCACACAGGTGAT
CGGGTCGACAGTGCAACCGGTACGCCGGAAACAGCGCGGTGGTGGCACGCTATGGTGGCATGGTG
GCACGGCAGGGCTGGCAGTTAGTGAGACAGCCAGTGCGACGCTAGAGAAGGTACACTGAAACAGT
GGTGAAACAAACCACCACTCAAACGATCTACACGAACAGTACAAT


Right flanking sequence: Indices 21917 -- 22416
TCTTAAACGACAACAAAACAGAAAAGAACAAAACAAAAAAGAACGTTACAACCACCAAAAAGCAC
TACACCCCACATACAACCAACAACTAAAATAACTAAAACACCAAAAAAAGAACACTCAACAAAAC
ACGGGTTCCTAACAATCATCAAAAGAACCACCACCAATCACCAAAACAACCACCACCAATCACCA
AATCTACCACCACCACTACCAAACCTTCACTTCTTCCTTTTCTACTTCTCCTTTCTCTTCTTTTC
TTCTCCTCTATTCCCTATTTCTCCTCTATTTTCTTTCCTTCCCCTTCTTCCCTCTTTTCGTGATC
CTGTATTGTCCTTCTATAAACCATTAATCGTGACGTCATTAAACCACCGGGCCTAGCTGGTGAAA
GTGGTGAGCTCGGGGTAGTTGAGCATGTAGTTGGCATTGAGATCGTCGATCTCCGGCACCTCGAC
GGGGTTCTCGTCAAACTGGAACATGTCCACCGAAAACTCGTCCAT



Found at i:21892 original size:22 final size:22

Alignment explanation


    Indices: 21867--21916  Score: 66
    Period size: 22  Copynumber: 2.3  Consensus size: 22

      21857 CAATACAATA

                                   
      21867 AACCAACAATAAACCAACACT-G
          1 AACCAACAA-AAACCAACACTAG

                 *   *            
      21889 AACCACCAACAACCAACACTAG
          1 AACCAACAAAAACCAACACTAG

                  
      21911 AACCAA
          1 AACCAA

      21917 TCTTAAACGA


Statistics
Matches: 24,  Mismatches: 3, Indels: 2
        0.83            0.10        0.07

Matches are distributed among these distances:
  21   10  0.42
  22   14  0.58

ACGTcount: A:0.54, C:0.36, G:0.04, T:0.06


Consensus pattern (22 bp):   
AACCAACAAAAACCAACACTAG

Left flanking sequence: Indices 21367 -- 21866
TCTTCTCACCGTCTAGTCCTTCTACACCAGCACTGGGTTACTAAGCGACGAAGGATATTTCGTGG
AGCTCCTTGGCCATACAAAATCCACCCAATTCTACGCGGACACCCACGTTCGCCTATTCTTCCAC
GCCACCTGTCACCACCTCGTAAACCCCCCTCGCAACCCGCCCAACAAACGCCTCGCCGCGGAGCT
TCCCCTCTACGGCGTTTCCACCGCGCCTCGGCGTCGTCCCACCTCATGCAACGAACATGAAACTG
GGTTGAAACACGGTTCCGTGAAACGGAATGACAGCGGCGTGCGTAACCACACAGGTGATCGGGTC
GACAGTGCAACCGGTACGCCGGAAACAGCGCGGTGGTGGCACGCTATGGTGGCATGGTGGCACGG
CAGGGCTGGCAGTTAGTGAGACAGCCAGTGCGACGCTAGAGAAGGTACACTGAAACAGTGGTGAA
ACAAACCACCACTCAAACGATCTACACGAACAGTACAATACAATA


Right flanking sequence: Indices 21917 -- 22416
TCTTAAACGACAACAAAACAGAAAAGAACAAAACAAAAAAGAACGTTACAACCACCAAAAAGCAC
TACACCCCACATACAACCAACAACTAAAATAACTAAAACACCAAAAAAAGAACACTCAACAAAAC
ACGGGTTCCTAACAATCATCAAAAGAACCACCACCAATCACCAAAACAACCACCACCAATCACCA
AATCTACCACCACCACTACCAAACCTTCACTTCTTCCTTTTCTACTTCTCCTTTCTCTTCTTTTC
TTCTCCTCTATTCCCTATTTCTCCTCTATTTTCTTTCCTTCCCCTTCTTCCCTCTTTTCGTGATC
CTGTATTGTCCTTCTATAAACCATTAATCGTGACGTCATTAAACCACCGGGCCTAGCTGGTGAAA
GTGGTGAGCTCGGGGTAGTTGAGCATGTAGTTGGCATTGAGATCGTCGATCTCCGGCACCTCGAC
GGGGTTCTCGTCAAACTGGAACATGTCCACCGAAAACTCGTCCAT



Found at i:21948 original size:15 final size:15

Alignment explanation


    Indices: 21928--21960  Score: 57
    Period size: 15  Copynumber: 2.2  Consensus size: 15

      21918 CTTAAACGAC

                     *     
      21928 AACAAAACAGAAAAG
          1 AACAAAACAAAAAAG

                           
      21943 AACAAAACAAAAAAG
          1 AACAAAACAAAAAAG

               
      21958 AAC
          1 AAC

      21961 GTTACAACCA


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  15   17  1.00

ACGTcount: A:0.76, C:0.15, G:0.09, T:0.00


Consensus pattern (15 bp):   
AACAAAACAAAAAAG

Left flanking sequence: Indices 21428 -- 21927
GTGGAGCTCCTTGGCCATACAAAATCCACCCAATTCTACGCGGACACCCACGTTCGCCTATTCTT
CCACGCCACCTGTCACCACCTCGTAAACCCCCCTCGCAACCCGCCCAACAAACGCCTCGCCGCGG
AGCTTCCCCTCTACGGCGTTTCCACCGCGCCTCGGCGTCGTCCCACCTCATGCAACGAACATGAA
ACTGGGTTGAAACACGGTTCCGTGAAACGGAATGACAGCGGCGTGCGTAACCACACAGGTGATCG
GGTCGACAGTGCAACCGGTACGCCGGAAACAGCGCGGTGGTGGCACGCTATGGTGGCATGGTGGC
ACGGCAGGGCTGGCAGTTAGTGAGACAGCCAGTGCGACGCTAGAGAAGGTACACTGAAACAGTGG
TGAAACAAACCACCACTCAAACGATCTACACGAACAGTACAATACAATAAACCAACAATAAACCA
ACACTGAACCACCAACAACCAACACTAGAACCAATCTTAAACGAC


Right flanking sequence: Indices 21961 -- 22460
GTTACAACCACCAAAAAGCACTACACCCCACATACAACCAACAACTAAAATAACTAAAACACCAA
AAAAAGAACACTCAACAAAACACGGGTTCCTAACAATCATCAAAAGAACCACCACCAATCACCAA
AACAACCACCACCAATCACCAAATCTACCACCACCACTACCAAACCTTCACTTCTTCCTTTTCTA
CTTCTCCTTTCTCTTCTTTTCTTCTCCTCTATTCCCTATTTCTCCTCTATTTTCTTTCCTTCCCC
TTCTTCCCTCTTTTCGTGATCCTGTATTGTCCTTCTATAAACCATTAATCGTGACGTCATTAAAC
CACCGGGCCTAGCTGGTGAAAGTGGTGAGCTCGGGGTAGTTGAGCATGTAGTTGGCATTGAGATC
GTCGATCTCCGGCACCTCGACGGGGTTCTCGTCAAACTGGAACATGTCCACCGAAAACTCGTCCA
TCGGGGGCTCCATCGGTGGCACCCCCGGGCTCGTGTGCATGGTGG



Found at i:22123 original size:25 final size:22

Alignment explanation


    Indices: 22059--22134  Score: 100
    Period size: 22  Copynumber: 3.5  Consensus size: 22

      22049 GGGTTCCTAA

                  *     *         
      22059 CAATCATCAAAAGAACCACCAC
          1 CAATCACCAAAACAACCACCAC

                                  
      22081 CAATCACCAAAACAACCACCAC
          1 CAATCACCAAAACAACCACCAC

                       * *        
      22103 CAATCACCAAATCTACCACCAC
          1 CAATCACCAAAACAACCACCAC

              *        
      22125 CACT-ACCAAA
          1 CAATCACCAAA

      22135 CCTTCACTTC


Statistics
Matches: 49,  Mismatches: 5, Indels: 1
        0.89            0.09        0.02

Matches are distributed among these distances:
  21    6  0.12
  22   43  0.88

ACGTcount: A:0.47, C:0.42, G:0.01, T:0.09


Consensus pattern (22 bp):   
CAATCACCAAAACAACCACCAC

Left flanking sequence: Indices 21559 -- 22058
GCTTCCCCTCTACGGCGTTTCCACCGCGCCTCGGCGTCGTCCCACCTCATGCAACGAACATGAAA
CTGGGTTGAAACACGGTTCCGTGAAACGGAATGACAGCGGCGTGCGTAACCACACAGGTGATCGG
GTCGACAGTGCAACCGGTACGCCGGAAACAGCGCGGTGGTGGCACGCTATGGTGGCATGGTGGCA
CGGCAGGGCTGGCAGTTAGTGAGACAGCCAGTGCGACGCTAGAGAAGGTACACTGAAACAGTGGT
GAAACAAACCACCACTCAAACGATCTACACGAACAGTACAATACAATAAACCAACAATAAACCAA
CACTGAACCACCAACAACCAACACTAGAACCAATCTTAAACGACAACAAAACAGAAAAGAACAAA
ACAAAAAAGAACGTTACAACCACCAAAAAGCACTACACCCCACATACAACCAACAACTAAAATAA
CTAAAACACCAAAAAAAGAACACTCAACAAAACACGGGTTCCTAA


Right flanking sequence: Indices 22135 -- 22634
CCTTCACTTCTTCCTTTTCTACTTCTCCTTTCTCTTCTTTTCTTCTCCTCTATTCCCTATTTCTC
CTCTATTTTCTTTCCTTCCCCTTCTTCCCTCTTTTCGTGATCCTGTATTGTCCTTCTATAAACCA
TTAATCGTGACGTCATTAAACCACCGGGCCTAGCTGGTGAAAGTGGTGAGCTCGGGGTAGTTGAG
CATGTAGTTGGCATTGAGATCGTCGATCTCCGGCACCTCGACGGGGTTCTCGTCAAACTGGAACA
TGTCCACCGAAAACTCGTCCATCGGGGGCTCCATCGGTGGCACCCCCGGGCTCGTGTGCATGGTG
GCCACGGGGTCGGGCATCAGCGCCAGCCGCGCGTGCTGGGGGAAAAGGAGCAAGTTGTCGTTGAC
GAGGGTGCGGTCCAAGTCAAACTGCGGCTTGGTGGGGAACTGGAACCCGCCAAACCCAAAGTCGT
CGAGCTCGGGCATCGCCACCGCCCCGTCCACCTGGCCAAAGGGCA



Found at i:24745 original size:11 final size:11

Alignment explanation


    Indices: 24731--24775  Score: 81
    Period size: 11  Copynumber: 4.1  Consensus size: 11

      24721 TGGGTTTGAC

                       
      24731 GTGGGTCTCAG
          1 GTGGGTCTCAG

                       
      24742 GTGGGTCTCAG
          1 GTGGGTCTCAG

                       
      24753 GTGGGTCTCAG
          1 GTGGGTCTCAG

            *          
      24764 ATGGGTCTCAG
          1 GTGGGTCTCAG

             
      24775 G
          1 G

      24776 CTTGTTTACC


Statistics
Matches: 32,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  11   32  1.00

ACGTcount: A:0.11, C:0.18, G:0.44, T:0.27


Consensus pattern (11 bp):   
GTGGGTCTCAG

Left flanking sequence: Indices 24231 -- 24730
GCCCCGGCGGGAGCGGTGGCGGGCGGGCGGGCGCGAGGGGCCGCGGGCTGCCCGTGGGCCGCGCC
CGTGCTGTTGTCTGGCGAGTTTTGGGTTGTCCTGGCCCGTGTAGCCGCCCGTCTAGCGGCCCCTC
CGGCAGTGGTTCTTTCTGGGCCGGCCACGACGGCCCGCCTAGTCTCGGCGACCCAGGGCACAGGA
GGGGAAGCAGCTGTGGACGGATGACGACGGCGTGGGGGTGAGAAGAGGGGTCGCGGCAACGCTGC
TGGCGAGCCCAACGGCGCTAACCCGGGGTGGTGGATGGTGGCTACGGCGAGGCGAAGCCATTGTC
CGGTGCATAGTGATTTTCGGATGATAACGAGAAAGTAGGTGGAAGTGGGTGGGAAGTAGGTGGTG
GGGGAGGGCACAATGCCACGGGGACGTTTGGTTTTGGAAGTGTCAACACTGTCTCACCTGCTGTC
TCAGAGTGTTGATGTCTGAGGTGTCTGATGTGCTGTGGGTTTGAC


Right flanking sequence: Indices 24776 -- 25275
CTTGTTTACCTGTCATGTAAGGCAGGTGGGAATACGGTTTGGGATGAAGTGGGGAGAGTGGGTGA
GAGTAGCGAAGAACCAGGCAGAGACTGGGAAGGACACTGGGCACAGAGGTATTAATTTCTTCACA
CGGTGGGAGAAGGTAAAGTACTATGATTATAATTTCAGTAGAGATAGATTGATTTATCCACACGA
AGACAGTAACGACTACGATCCAAACTCGACTAATCAAACTCGACTAATCCAACTCGACTAATCCA
AACTCTAACTTTCTTCCTTGATTTGCTCTACGAATAGCCCACCGTCACACCCAGCCACCAGCCAA
TCGCCCGCGCCATTGTTATCAGCCAATCAGCCACAGCAACGGTTGACAGCTCGTATTTCTGTTTG
ACACCCTTGCGGTGGTTTCTCCTTCTACCCGACACTTTCTTTTGTCTTCCCCACCCGTCAGCTGC
GTGGCTCGCTGTGACTACGTCCAATCACTACCGCTCTCATATCAC



Found at i:25010 original size:14 final size:14

Alignment explanation


    Indices: 24991--25040  Score: 82
    Period size: 14  Copynumber: 3.5  Consensus size: 14

      24981 GACTACGATC

                          
      24991 CAAACTCGACTAAT
          1 CAAACTCGACTAAT

                          
      25005 CAAACTCGACTAAT
          1 CAAACTCGACTAAT

             *            
      25019 CCAACTCGACTAAT
          1 CAAACTCGACTAAT

                    
      25033 CCAAACTC
          1 -CAAACTC

      25041 TAACTTTCTT


Statistics
Matches: 33,  Mismatches: 2, Indels: 1
        0.92            0.06        0.03

Matches are distributed among these distances:
  14   27  0.82
  15    6  0.18

ACGTcount: A:0.40, C:0.34, G:0.06, T:0.20


Consensus pattern (14 bp):   
CAAACTCGACTAAT

Left flanking sequence: Indices 24491 -- 24990
TGGCGAGCCCAACGGCGCTAACCCGGGGTGGTGGATGGTGGCTACGGCGAGGCGAAGCCATTGTC
CGGTGCATAGTGATTTTCGGATGATAACGAGAAAGTAGGTGGAAGTGGGTGGGAAGTAGGTGGTG
GGGGAGGGCACAATGCCACGGGGACGTTTGGTTTTGGAAGTGTCAACACTGTCTCACCTGCTGTC
TCAGAGTGTTGATGTCTGAGGTGTCTGATGTGCTGTGGGTTTGACGTGGGTCTCAGGTGGGTCTC
AGGTGGGTCTCAGATGGGTCTCAGGCTTGTTTACCTGTCATGTAAGGCAGGTGGGAATACGGTTT
GGGATGAAGTGGGGAGAGTGGGTGAGAGTAGCGAAGAACCAGGCAGAGACTGGGAAGGACACTGG
GCACAGAGGTATTAATTTCTTCACACGGTGGGAGAAGGTAAAGTACTATGATTATAATTTCAGTA
GAGATAGATTGATTTATCCACACGAAGACAGTAACGACTACGATC


Right flanking sequence: Indices 25041 -- 25540
TAACTTTCTTCCTTGATTTGCTCTACGAATAGCCCACCGTCACACCCAGCCACCAGCCAATCGCC
CGCGCCATTGTTATCAGCCAATCAGCCACAGCAACGGTTGACAGCTCGTATTTCTGTTTGACACC
CTTGCGGTGGTTTCTCCTTCTACCCGACACTTTCTTTTGTCTTCCCCACCCGTCAGCTGCGTGGC
TCGCTGTGACTACGTCCAATCACTACCGCTCTCATATCACTCACTCCACTCATCTGCTCTCTCTT
CCGCTTTCATCCGCTTCTCCGCTTCTCCGCTTACTTCCGCCTCCATTGCCTTCGTTGCCCTATTC
TCTTTGCTTCCCCCACCGCTCCTCGTCACTGCCTACCCTGTCCTCGGGCCCTCCATCGACGGGTT
GCTGTCAAACTAACATAACCGGGGCTTTGTCAGCGATCGCAGCCCACCACTTTGCGGCCCGATCA
GGCAACTGCCAAAGCACCCCCGACACCCCAATTCTGCGCCACATG



Found at i:25329 original size:16 final size:18

Alignment explanation


    Indices: 25300--25332  Score: 52
    Period size: 16  Copynumber: 1.9  Consensus size: 18

      25290 TGCTCTCTCT

                              
      25300 TCCGCTTTCATCCGCTTC
          1 TCCGCTTTCATCCGCTTC

                             
      25318 TCCGC-TTC-TCCGCTT
          1 TCCGCTTTCATCCGCTT

      25333 ACTTCCGCCT


Statistics
Matches: 15,  Mismatches: 0, Indels: 2
        0.88            0.00        0.12

Matches are distributed among these distances:
  16    7  0.47
  17    3  0.20
  18    5  0.33

ACGTcount: A:0.03, C:0.45, G:0.12, T:0.39


Consensus pattern (18 bp):   
TCCGCTTTCATCCGCTTC

Left flanking sequence: Indices 24800 -- 25299
GGTGGGAATACGGTTTGGGATGAAGTGGGGAGAGTGGGTGAGAGTAGCGAAGAACCAGGCAGAGA
CTGGGAAGGACACTGGGCACAGAGGTATTAATTTCTTCACACGGTGGGAGAAGGTAAAGTACTAT
GATTATAATTTCAGTAGAGATAGATTGATTTATCCACACGAAGACAGTAACGACTACGATCCAAA
CTCGACTAATCAAACTCGACTAATCCAACTCGACTAATCCAAACTCTAACTTTCTTCCTTGATTT
GCTCTACGAATAGCCCACCGTCACACCCAGCCACCAGCCAATCGCCCGCGCCATTGTTATCAGCC
AATCAGCCACAGCAACGGTTGACAGCTCGTATTTCTGTTTGACACCCTTGCGGTGGTTTCTCCTT
CTACCCGACACTTTCTTTTGTCTTCCCCACCCGTCAGCTGCGTGGCTCGCTGTGACTACGTCCAA
TCACTACCGCTCTCATATCACTCACTCCACTCATCTGCTCTCTCT


Right flanking sequence: Indices 25333 -- 25832
ACTTCCGCCTCCATTGCCTTCGTTGCCCTATTCTCTTTGCTTCCCCCACCGCTCCTCGTCACTGC
CTACCCTGTCCTCGGGCCCTCCATCGACGGGTTGCTGTCAAACTAACATAACCGGGGCTTTGTCA
GCGATCGCAGCCCACCACTTTGCGGCCCGATCAGGCAACTGCCAAAGCACCCCCGACACCCCAAT
TCTGCGCCACATGTAGGCGTGCTGCCACAGGGTTCCGTACACTGGCCAATTATAACTCGGAAACA
TTTCCGACAGAGAAAGGAGTTAGGGGGCGATGTCGGGCGCCGCCGCAAACAATAACGCACGGCCC
ATCTGTGACTGCTCCACCAACCCCATTATACCCACCACTGAAATATGTCGGCTGATGTCAGCATC
AGGCAAATTTTCATCCTGGGGGGCGAATGCCGCCTGTCAATGTCGCTCACTTGCCACATTTGCCT
GTGTGCAGGGGCGTTTGCCATGTCGCGCGGGCTCGCAACCGGGGC



Found at i:25910 original size:21 final size:21

Alignment explanation


    Indices: 25880--25919  Score: 62
    Period size: 21  Copynumber: 1.9  Consensus size: 21

      25870 CCGCATCTTC

                      *          
      25880 CGCACCGGTGCGGCACCGTCT
          1 CGCACCGGTGAGGCACCGTCT

                 *             
      25901 CGCACTGGTGAGGCACCGT
          1 CGCACCGGTGAGGCACCGT

      25920 GCGGGCAGCC


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  21   17  1.00

ACGTcount: A:0.12, C:0.38, G:0.35, T:0.15


Consensus pattern (21 bp):   
CGCACCGGTGAGGCACCGTCT

Left flanking sequence: Indices 25380 -- 25879
ACCGCTCCTCGTCACTGCCTACCCTGTCCTCGGGCCCTCCATCGACGGGTTGCTGTCAAACTAAC
ATAACCGGGGCTTTGTCAGCGATCGCAGCCCACCACTTTGCGGCCCGATCAGGCAACTGCCAAAG
CACCCCCGACACCCCAATTCTGCGCCACATGTAGGCGTGCTGCCACAGGGTTCCGTACACTGGCC
AATTATAACTCGGAAACATTTCCGACAGAGAAAGGAGTTAGGGGGCGATGTCGGGCGCCGCCGCA
AACAATAACGCACGGCCCATCTGTGACTGCTCCACCAACCCCATTATACCCACCACTGAAATATG
TCGGCTGATGTCAGCATCAGGCAAATTTTCATCCTGGGGGGCGAATGCCGCCTGTCAATGTCGCT
CACTTGCCACATTTGCCTGTGTGCAGGGGCGTTTGCCATGTCGCGCGGGCTCGCAACCGGGGCTC
GTGAATTGCTGTCGGCGATCGCACCATGACTCAAGCCGCATCTTC


Right flanking sequence: Indices 25920 -- 26419
GCGGGCAGCCACCGCGCTCCTACCCACAGCACTAGCGCACCTCCGGCAGGGCTACCGCATCGGTG
ACGTGGGTCAAGTGCACTTGTCCATCACCCCTGTGGTGGCAGTACGGGCGGCAGTACGGGTGGCA
GTACGTGGTGGCAGTGACGGGGCTACGTTGCCCTGTGGGCCCCTGTCCAGGTATAGGGGCATTGC
TACGGTGGGCCTCACCGGTGATTGGCGATGGGTTCATTTGCCGCACTGCACCGCACCACAATCGC
ACAAGCCAACGGGCCCGACAATTTTTCACTGCACGTCCTCGCTACTGCACCACAGGCTTTGTGGA
CGGACACCGGGTGCCAAGAGCAGGGGCGTGGTGTTTGTAGCGGAGCACGGAGTGTGTCTCAGTTA
CGCTAGTTCCCTGTGGTCAATTAGTAATTTGCGAAGGGCCCGGTAATGCGGCAGCGAAGAGCCAT
TGTGGGCATGCACCCGTGCGCACCTACCCGGTGTCTCATCTTTCC



Found at i:26039 original size:12 final size:12

Alignment explanation


    Indices: 26019--26070  Score: 77
    Period size: 12  Copynumber: 4.2  Consensus size: 12

      26009 TCACCCCTGT

                        
      26019 GGTGGCAGTACG
          1 GGTGGCAGTACG

              *         
      26031 GGCGGCAGTACG
          1 GGTGGCAGTACG

                        
      26043 GGTGGCAGTACG
          1 GGTGGCAGTACG

                          
      26055 TGGTGGCAGTGACG
          1 -GGTGGCAGT-ACG

              
      26069 GG
          1 GG

      26071 GCTACGTTGC


Statistics
Matches: 36,  Mismatches: 2, Indels: 3
        0.88            0.05        0.07

Matches are distributed among these distances:
  12   22  0.61
  13   11  0.31
  14    3  0.08

ACGTcount: A:0.15, C:0.17, G:0.52, T:0.15


Consensus pattern (12 bp):   
GGTGGCAGTACG

Left flanking sequence: Indices 25519 -- 26018
CACCCCAATTCTGCGCCACATGTAGGCGTGCTGCCACAGGGTTCCGTACACTGGCCAATTATAAC
TCGGAAACATTTCCGACAGAGAAAGGAGTTAGGGGGCGATGTCGGGCGCCGCCGCAAACAATAAC
GCACGGCCCATCTGTGACTGCTCCACCAACCCCATTATACCCACCACTGAAATATGTCGGCTGAT
GTCAGCATCAGGCAAATTTTCATCCTGGGGGGCGAATGCCGCCTGTCAATGTCGCTCACTTGCCA
CATTTGCCTGTGTGCAGGGGCGTTTGCCATGTCGCGCGGGCTCGCAACCGGGGCTCGTGAATTGC
TGTCGGCGATCGCACCATGACTCAAGCCGCATCTTCCGCACCGGTGCGGCACCGTCTCGCACTGG
TGAGGCACCGTGCGGGCAGCCACCGCGCTCCTACCCACAGCACTAGCGCACCTCCGGCAGGGCTA
CCGCATCGGTGACGTGGGTCAAGTGCACTTGTCCATCACCCCTGT


Right flanking sequence: Indices 26071 -- 26570
GCTACGTTGCCCTGTGGGCCCCTGTCCAGGTATAGGGGCATTGCTACGGTGGGCCTCACCGGTGA
TTGGCGATGGGTTCATTTGCCGCACTGCACCGCACCACAATCGCACAAGCCAACGGGCCCGACAA
TTTTTCACTGCACGTCCTCGCTACTGCACCACAGGCTTTGTGGACGGACACCGGGTGCCAAGAGC
AGGGGCGTGGTGTTTGTAGCGGAGCACGGAGTGTGTCTCAGTTACGCTAGTTCCCTGTGGTCAAT
TAGTAATTTGCGAAGGGCCCGGTAATGCGGCAGCGAAGAGCCATTGTGGGCATGCACCCGTGCGC
ACCTACCCGGTGTCTCATCTTTCCTACATGCCGTAGCACCACATTCCACACGTGCACTGCGTATT
CTTGGTAAGCTCTTGGTCACCAAGGCAATGCCACCAAGGTTCATACCACAGCACAACACAGCCCG
TTCGGTCACATTGTTCGTATGAGTGTTCGCATTCGTTCACACTGG



Found at i:26674 original size:22 final size:23

Alignment explanation


    Indices: 26623--26674  Score: 54
    Period size: 22  Copynumber: 2.3  Consensus size: 23

      26613 CACTACACTC

                                 * 
      26623 CACTCGCACATTTCCGCACAGTG
          1 CACTCGCACATTTCCGCACAGCG

            * *                     
      26646 TAGTCGCACCA-TT-CGCACAGCG
          1 CACTCGCA-CATTTCCGCACAGCG

                   
      26668 CACTCGC
          1 CACTCGC

      26675 CTCTCGCACA


Statistics
Matches: 23,  Mismatches: 5, Indels: 3
        0.74            0.16        0.10

Matches are distributed among these distances:
  22   13  0.57
  23    8  0.35
  24    2  0.09

ACGTcount: A:0.21, C:0.40, G:0.19, T:0.19


Consensus pattern (23 bp):   
CACTCGCACATTTCCGCACAGCG

Left flanking sequence: Indices 26123 -- 26622
GCCTCACCGGTGATTGGCGATGGGTTCATTTGCCGCACTGCACCGCACCACAATCGCACAAGCCA
ACGGGCCCGACAATTTTTCACTGCACGTCCTCGCTACTGCACCACAGGCTTTGTGGACGGACACC
GGGTGCCAAGAGCAGGGGCGTGGTGTTTGTAGCGGAGCACGGAGTGTGTCTCAGTTACGCTAGTT
CCCTGTGGTCAATTAGTAATTTGCGAAGGGCCCGGTAATGCGGCAGCGAAGAGCCATTGTGGGCA
TGCACCCGTGCGCACCTACCCGGTGTCTCATCTTTCCTACATGCCGTAGCACCACATTCCACACG
TGCACTGCGTATTCTTGGTAAGCTCTTGGTCACCAAGGCAATGCCACCAAGGTTCATACCACAGC
ACAACACAGCCCGTTCGGTCACATTGTTCGTATGAGTGTTCGCATTCGTTCACACTGGCACTGTT
CGCGCGCGCACTATTCGCTAGCGCACTCGCACTCGCACTACACTC


Right flanking sequence: Indices 26675 -- 27174
CTCTCGCACACCCACAACCGTTTTTCGCACCGCACAATCACACGCGCGCACACACTCCCACGCGC
CGCACAACTCGCACCACCTCCAAACACCGCTCAAACTCCGCACACACCATGGACGCGAGGCACGG
AGGCCACGGCGACGACTCCTCCCACTACGCCAACGTCAAGTACGGGTGGATCACCCTCGCGGCGC
TGGCGCTCTACCTCGCGGTGCTGCTTGTCTACCACTCCGCCTACCTCCGCGCCAAGGTGCCCCCT
GTGCTGTTGGCGGTGACGGTGGCGGTGCTCGCCGGGGCTGCGCTTGTGCTCTTAGTGGTCGAGCC
CCACGCTTACTCCAGCCATGTGCTGACCCTCCTCAAGCGCGCCGCGCGCGTTGCCTTCGCGGGGG
CGCCCCTCAGCGGTGCCCTCGCCGTGCGCCCTCCGCGTGTGCCCTACCTCCGCCGGGTGCGGGTG
CACCGGTGGGTGGGGTGGGTGTGCACCGGCCTCACCACCTTCCAC



Found at i:26736 original size:18 final size:18

Alignment explanation


    Indices: 26704--26749  Score: 60
    Period size: 18  Copynumber: 2.6  Consensus size: 18

      26694 GTTTTTCGCA

                       *      
      26704 CCGCACAA-TCACACGCG
          1 CCGCACAACTCCCACGCG

                               
      26721 -CGCACACACTCCCACGCG
          1 CCGCACA-ACTCCCACGCG

                       
      26739 CCGCACAACTC
          1 CCGCACAACTC

      26750 GCACCACCTC


Statistics
Matches: 25,  Mismatches: 1, Indels: 5
        0.81            0.03        0.16

Matches are distributed among these distances:
  16    6  0.24
  17    1  0.04
  18   12  0.48
  19    6  0.24

ACGTcount: A:0.26, C:0.52, G:0.15, T:0.07


Consensus pattern (18 bp):   
CCGCACAACTCCCACGCG

Left flanking sequence: Indices 26204 -- 26703
TTCACTGCACGTCCTCGCTACTGCACCACAGGCTTTGTGGACGGACACCGGGTGCCAAGAGCAGG
GGCGTGGTGTTTGTAGCGGAGCACGGAGTGTGTCTCAGTTACGCTAGTTCCCTGTGGTCAATTAG
TAATTTGCGAAGGGCCCGGTAATGCGGCAGCGAAGAGCCATTGTGGGCATGCACCCGTGCGCACC
TACCCGGTGTCTCATCTTTCCTACATGCCGTAGCACCACATTCCACACGTGCACTGCGTATTCTT
GGTAAGCTCTTGGTCACCAAGGCAATGCCACCAAGGTTCATACCACAGCACAACACAGCCCGTTC
GGTCACATTGTTCGTATGAGTGTTCGCATTCGTTCACACTGGCACTGTTCGCGCGCGCACTATTC
GCTAGCGCACTCGCACTCGCACTACACTCCACTCGCACATTTCCGCACAGTGTAGTCGCACCATT
CGCACAGCGCACTCGCCTCTCGCACACCCACAACCGTTTTTCGCA


Right flanking sequence: Indices 26750 -- 27249
GCACCACCTCCAAACACCGCTCAAACTCCGCACACACCATGGACGCGAGGCACGGAGGCCACGGC
GACGACTCCTCCCACTACGCCAACGTCAAGTACGGGTGGATCACCCTCGCGGCGCTGGCGCTCTA
CCTCGCGGTGCTGCTTGTCTACCACTCCGCCTACCTCCGCGCCAAGGTGCCCCCTGTGCTGTTGG
CGGTGACGGTGGCGGTGCTCGCCGGGGCTGCGCTTGTGCTCTTAGTGGTCGAGCCCCACGCTTAC
TCCAGCCATGTGCTGACCCTCCTCAAGCGCGCCGCGCGCGTTGCCTTCGCGGGGGCGCCCCTCAG
CGGTGCCCTCGCCGTGCGCCCTCCGCGTGTGCCCTACCTCCGCCGGGTGCGGGTGCACCGGTGGG
TGGGGTGGGTGTGCACCGGCCTCACCACCTTCCACGGGGTGGGGTTCCTTGTGCGCTGGTACGCC
CGCGACGAATTGGGCACCAAGCTCGCCAAGTTCGACAACCTCGTG



Found at i:34738 original size:15 final size:16

Alignment explanation


    Indices: 34703--34737  Score: 61
    Period size: 16  Copynumber: 2.2  Consensus size: 16

      34693 ACCCACCTGA

                            
      34703 GGGGCGATAAGAGTTG
          1 GGGGCGATAAGAGTTG

                     *      
      34719 GGGGCGATACGAGTTG
          1 GGGGCGATAAGAGTTG

               
      34735 GGG
          1 GGG

      34738 CTTCATATCG


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  16   18  1.00

ACGTcount: A:0.20, C:0.09, G:0.54, T:0.17


Consensus pattern (16 bp):   
GGGGCGATAAGAGTTG

Left flanking sequence: Indices 34203 -- 34702
ACAATACCTCAAACGGCTCTTTTCGGAAGTGGAGCTGACGCCACCTGCCATGCGCCACCATTTGC
CACATGCACTGCATAAAAAGCACACGAGCCCGGACATCCTCAGCCAGCTCCGGGCCGGATCGTCA
GGTAGAGCCGACCCGAGCCGCCCCCACCCCAGGGCAGACAAAAACCCCCTCGGGGACGACAGCGA
CGACAATTGGCGGGAAAAAGTGAACGAGGGCTACTGCACCCGTTGCAAGGAACCCGTAACCGACG
CCTCGGCGCACCTTGACTACCACGTCGCCCTCGAACTAGACGCACAGCTTAACGCGCCCCGATGA
CGATATAGATATTTTTTACAGGTAACATAGAGGATATTCCTGCCAAATCGGGAATATTTCACGAA
CAACTCCACGCAGGATTCTAGAAGCGCTTTACCCGCCGTGCATGGGAAGCGCAACCAATCGTAGG
CGGGCTTGTGCTGTCTTGGCACATGGTGGGGTTCTACCCACCTGA


Right flanking sequence: Indices 34738 -- 35237
CTTCATATCGGGTAGCTGCCTAGGGGTCTCTTGCTTTGCTGGTGAACCTCGTATATCTGTGGCAC
GGGACTTCCCGTTTACACGACTTCGCCGTCAGGTTCTAAGACAAAAATATCCCGCAAAAGGCTAG
TCTCCCGCCTCTGTTAGGAAACAAACAGCGGAGCCCAATATAGAAACTAAGTCCACCCATCAAAC
TTTTCCACCTTGCGTCCTCTTACAAGACTGATCAACCAACGGGGCTTTTCATGCGGGACATTGGC
CACCCTGGCCCGTTGGTAACCAAATCGCGCTTTCTTTTGCACCCCATTCACCACACAGTGTGTTA
GGAGGCTTAACCCTGGCTCAGCTTGTAGGCTGAATCTTGTTGACGTCAAGGAACTTGCATGCGTA
TGCATTGAGTCGGAGACGCCGGAAAAAGCCTGTGGGTCTCAAAATAGCCGTGCTGGGCATACGCC
ACCGCACCGCAGGATGGCCCGCCAACAACCACAACATGCCGTTTC



Found at i:36930 original size:18 final size:15

Alignment explanation


    Indices: 36884--36927  Score: 88
    Period size: 15  Copynumber: 2.9  Consensus size: 15

      36874 GTACCACGAA

                           
      36884 GACTCGAGATAATAC
          1 GACTCGAGATAATAC

                           
      36899 GACTCGAGATAATAC
          1 GACTCGAGATAATAC

                          
      36914 GACTCGAGATAATA
          1 GACTCGAGATAATA

      36928 ATAAAGGTTA


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   29  1.00

ACGTcount: A:0.41, C:0.18, G:0.20, T:0.20


Consensus pattern (15 bp):   
GACTCGAGATAATAC

Left flanking sequence: Indices 36384 -- 36883
ATAAGCACTGACCACGGAACTCCTGCTTACATGTCTACTCTCGGAGGCGAACAAGGCGGCAGACG
TCCCCTTGCGTAACTAGCTTCCATTCCCTTTCCTTTTCCTGCTTTATCCTTCGCTTTTTGCACCC
AATATCCGAAAGGCTTAAGACCGAGACACTTATGTCCGACATACGCGAAATCCTCGATAAAGTCG
CGATTTTCCTATTTTGTCATGGATGCAAATCCGAGACATAGTCTGCGCTCACGGCGGATTTGTGG
TAATTATAAATGGTGGCTGAGAGAGAGAAAGATCGTGGTTAGATGGGAGTAGCGATTCCGAGGAG
ACATTTAACCGTTAAAATGTGAAACACTTGGCTCGCTGTAAGTGGTGCCACGCTACGGATTTCGG
TGGAAATTGCGGAGAAATATAGCTCTGACGCACAGTACAACACCGAGACAACTTCTCAGGCGTCA
CCAGCAGTGCATGTCTGGAACCTTCTCCTAATGGAGTACCACGAA


Right flanking sequence: Indices 36928 -- 37427
ATAAAGGTTATTCGTGCACCAATACGTGCACCAGCTCGTGCACCACTCGTGCACCAGCTCTTGCA
CTAATAATAACCAAGCATACTAGCCAAGACCTGGTCAGGCGGACGCAGTGTTACGGGGTTCCAGG
GTACCCGTGGGAGGGTGAACGAGGACGTTTCCACGGGAAGGCGGGCGAAGCAACCGTATTAAACA
CGCAAAAAAGGTTATCCGGCTTCAGACGGCTAAGAAAAGCGTGCTCGCTGAACTGAAGTTGCTCA
ACATACCAGTGACCATCGGTATCCGCGTGATATGGCTATCTTCTGCCAGGGGTATCAGAAAAACG
AGTTAAGTTGACTGACGCAGACATTACGAGGCAGACACATTTGGTACATGAATAAAGAGATGAGT
AACAGCTGATCAGTGCGTTTACACCAAGTAGCATAAATATAGCATAAATAGATTTTGCGAGATTC
CACCAAACAATGCTAAGGGTAGTTTGTATTATAGAGAATAGCTTA



Found at i:36957 original size:12 final size:11

Alignment explanation


    Indices: 36939--36993  Score: 65
    Period size: 12  Copynumber: 4.7  Consensus size: 11

      36929 TAAAGGTTAT

                      *
      36939 TCGTGCACCAA
          1 TCGTGCACCAC

                         
      36950 TACGTGCACCAGC
          1 T-CGTGCACCA-C

                       
      36963 TCGTGCACCAC
          1 TCGTGCACCAC

                        
      36974 TCGTGCACCAGC
          1 TCGTGCACCA-C

              *     
      36986 TCTTGCAC
          1 TCGTGCAC

      36994 TAATAATAAC


Statistics
Matches: 39,  Mismatches: 2, Indels: 5
        0.85            0.04        0.11

Matches are distributed among these distances:
  11   12  0.31
  12   26  0.67
  13    1  0.03

ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20


Consensus pattern (11 bp):   
TCGTGCACCAC

Left flanking sequence: Indices 36439 -- 36938
GCGGCAGACGTCCCCTTGCGTAACTAGCTTCCATTCCCTTTCCTTTTCCTGCTTTATCCTTCGCT
TTTTGCACCCAATATCCGAAAGGCTTAAGACCGAGACACTTATGTCCGACATACGCGAAATCCTC
GATAAAGTCGCGATTTTCCTATTTTGTCATGGATGCAAATCCGAGACATAGTCTGCGCTCACGGC
GGATTTGTGGTAATTATAAATGGTGGCTGAGAGAGAGAAAGATCGTGGTTAGATGGGAGTAGCGA
TTCCGAGGAGACATTTAACCGTTAAAATGTGAAACACTTGGCTCGCTGTAAGTGGTGCCACGCTA
CGGATTTCGGTGGAAATTGCGGAGAAATATAGCTCTGACGCACAGTACAACACCGAGACAACTTC
TCAGGCGTCACCAGCAGTGCATGTCTGGAACCTTCTCCTAATGGAGTACCACGAAGACTCGAGAT
AATACGACTCGAGATAATACGACTCGAGATAATAATAAAGGTTAT


Right flanking sequence: Indices 36994 -- 37493
TAATAATAACCAAGCATACTAGCCAAGACCTGGTCAGGCGGACGCAGTGTTACGGGGTTCCAGGG
TACCCGTGGGAGGGTGAACGAGGACGTTTCCACGGGAAGGCGGGCGAAGCAACCGTATTAAACAC
GCAAAAAAGGTTATCCGGCTTCAGACGGCTAAGAAAAGCGTGCTCGCTGAACTGAAGTTGCTCAA
CATACCAGTGACCATCGGTATCCGCGTGATATGGCTATCTTCTGCCAGGGGTATCAGAAAAACGA
GTTAAGTTGACTGACGCAGACATTACGAGGCAGACACATTTGGTACATGAATAAAGAGATGAGTA
ACAGCTGATCAGTGCGTTTACACCAAGTAGCATAAATATAGCATAAATAGATTTTGCGAGATTCC
ACCAAACAATGCTAAGGGTAGTTTGTATTATAGAGAATAGCTTATTGAATGAACCAATTGTTCTG
TAGTAACCATACGGTCACACATTTATGGCCCAAGGGGTGATGTAA



Found at i:36982 original size:23 final size:24

Alignment explanation


    Indices: 36939--36998  Score: 86
    Period size: 23  Copynumber: 2.5  Consensus size: 24

      36929 TAAAGGTTAT

                                    
      36939 TCGTGCACCAATACGTGCACCAGC
          1 TCGTGCACCAATACGTGCACCAGC

                      *             
      36963 TCGTGCACCACT-CGTGCACCAGC
          1 TCGTGCACCAATACGTGCACCAGC

              *     *    
      36986 TCTTGCACTAATA
          1 TCGTGCACCAATA

      36999 ATAACCAAGC


Statistics
Matches: 31,  Mismatches: 4, Indels: 2
        0.84            0.11        0.05

Matches are distributed among these distances:
  23   20  0.65
  24   11  0.35

ACGTcount: A:0.23, C:0.37, G:0.18, T:0.22


Consensus pattern (24 bp):   
TCGTGCACCAATACGTGCACCAGC

Left flanking sequence: Indices 36439 -- 36938
GCGGCAGACGTCCCCTTGCGTAACTAGCTTCCATTCCCTTTCCTTTTCCTGCTTTATCCTTCGCT
TTTTGCACCCAATATCCGAAAGGCTTAAGACCGAGACACTTATGTCCGACATACGCGAAATCCTC
GATAAAGTCGCGATTTTCCTATTTTGTCATGGATGCAAATCCGAGACATAGTCTGCGCTCACGGC
GGATTTGTGGTAATTATAAATGGTGGCTGAGAGAGAGAAAGATCGTGGTTAGATGGGAGTAGCGA
TTCCGAGGAGACATTTAACCGTTAAAATGTGAAACACTTGGCTCGCTGTAAGTGGTGCCACGCTA
CGGATTTCGGTGGAAATTGCGGAGAAATATAGCTCTGACGCACAGTACAACACCGAGACAACTTC
TCAGGCGTCACCAGCAGTGCATGTCTGGAACCTTCTCCTAATGGAGTACCACGAAGACTCGAGAT
AATACGACTCGAGATAATACGACTCGAGATAATAATAAAGGTTAT


Right flanking sequence: Indices 36999 -- 37498
ATAACCAAGCATACTAGCCAAGACCTGGTCAGGCGGACGCAGTGTTACGGGGTTCCAGGGTACCC
GTGGGAGGGTGAACGAGGACGTTTCCACGGGAAGGCGGGCGAAGCAACCGTATTAAACACGCAAA
AAAGGTTATCCGGCTTCAGACGGCTAAGAAAAGCGTGCTCGCTGAACTGAAGTTGCTCAACATAC
CAGTGACCATCGGTATCCGCGTGATATGGCTATCTTCTGCCAGGGGTATCAGAAAAACGAGTTAA
GTTGACTGACGCAGACATTACGAGGCAGACACATTTGGTACATGAATAAAGAGATGAGTAACAGC
TGATCAGTGCGTTTACACCAAGTAGCATAAATATAGCATAAATAGATTTTGCGAGATTCCACCAA
ACAATGCTAAGGGTAGTTTGTATTATAGAGAATAGCTTATTGAATGAACCAATTGTTCTGTAGTA
ACCATACGGTCACACATTTATGGCCCAAGGGGTGATGTAACTGCC



Found at i:37889 original size:20 final size:20

Alignment explanation


    Indices: 37864--37902  Score: 60
    Period size: 20  Copynumber: 1.9  Consensus size: 20

      37854 AATTGAAAAA

                  *             
      37864 TTATTCCGTATCCAGAATCT
          1 TTATTCAGTATCCAGAATCT

                     *         
      37884 TTATTCAGTCTCCAGAATC
          1 TTATTCAGTATCCAGAATC

      37903 CTGAATAGTC


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  20   17  1.00

ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38


Consensus pattern (20 bp):   
TTATTCAGTATCCAGAATCT

Left flanking sequence: Indices 37364 -- 37863
AATAGATTTTGCGAGATTCCACCAAACAATGCTAAGGGTAGTTTGTATTATAGAGAATAGCTTAT
TGAATGAACCAATTGTTCTGTAGTAACCATACGGTCACACATTTATGGCCCAAGGGGTGATGTAA
CTGCCACAATTGGATGAAATTGGAGACAATCGTTCGGGGGAGTGACGACTTCCATTGTGCGGGTT
TGAGTTCGTTCTTTGTTCAGGCTGATTGTGACCGATTGTTGAAAGGGTTCGCTCCTTCCGTGAGT
AACAATCTGAATTGTGTGCGCCGAGGTGTTCACCCCTTGCCTGTCATTCCACATGATTCTATTGT
CTTGGTATTGTCTTGGAAATAATACCCCCGGTCTTGTTGGCTGGAACAAGTCCTTACAAAGGCCG
GAAAAATACCGCATTTATCGATAAAATAAAATACCCTCGCCACATCAAGCCCAATTTTCGCGAGA
GATTTTCCAACAATGTCCAGAGAACCCTTGAGAAGAATTGAAAAA


Right flanking sequence: Indices 37903 -- 38402
CTGAATAGTCTCGAAAAAGTTCCCATCCATGCGCAACCTGGCCAAAAAAGCTAACCATCCGAATG
CTGGCCTCGAAATTAATCCAAATGCGCAGCCTGGACCACCAAAAAATCGAATACAGGTCATCCAT
CACCCACACTCCATAATTCACTTCTTTCCACCCTTTCCGTGTCCTACCACAACTTCCCAGCATCT
CTACGACTATCGAAGCTTTTCTCACCCTCTCCACTCGCTTGTCTTCACCATCTAGGCATGCATTC
TATATGTATCCTCCTGCTATCCCTCACCCACTCTAGTCCTCCATGTTCCCCACAAGATCCAAGAT
CCGTCTCCGGTGCGCGGCCTGGTCCTCCTGGTTCTTGCGCACCGCCTGGGCAAACTTCAGGTCTG
CCGGCATGTTGACCGCCCGCATCTCGGTCTTTTTCCCCTGTCTCGTCATCAACCGGAACTGGCCG
TCGTTCGCCAGCGCCATAGGCACCGCCAAGTTGGTTTTCCGCACG



Found at i:41318 original size:22 final size:22

Alignment explanation


    Indices: 41293--41335  Score: 59
    Period size: 22  Copynumber: 2.0  Consensus size: 22

      41283 GAGTGGAGGG

                 *                
      41293 GAGGATTAGGTGAGGTGGGTTA
          1 GAGGACTAGGTGAGGTGGGTTA

                     *  *        
      41315 GAGGACTAGTTGGGGTGGGTT
          1 GAGGACTAGGTGAGGTGGGTT

      41336 GGGGCACTTT


Statistics
Matches: 18,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  22   18  1.00

ACGTcount: A:0.19, C:0.02, G:0.51, T:0.28


Consensus pattern (22 bp):   
GAGGACTAGGTGAGGTGGGTTA

Left flanking sequence: Indices 40793 -- 41292
GAGGCCAAACCGCTGGTGGAGCGCCAGCACCACCTCGACGTGCGCAAGCACATCGTCGCGCCGGA
GCGCCTTGGTCATGCCCTCGGCCACCCCCAGCACCACCTCCGCCATGTACTTGACCAACAGGAGC
TGGGCGAGCTCGGCGAGGAGCGCGGGCTTGGTGTCTGCGGACACCGTGCGGAGCTTGCGGGCAAA
CGCGGTGTTCTTTTTGAGGGACAGGTCGAGCCGGGCCCCCAGAGGCGGGTCGTCAATGAGCCAGC
CGTGCTGGTTGGCTTCGGTGAGCGCCTCGCGGTCCATGGTGGTGGGGTGGAGGAGGGTTTTTTCA
GTGCGCGTGGGGGATGGAGGAGGGATGGAGGAGAGAGGGTGAGGGTGAGGTAAGGAGAGGTAGAG
GGGAGAGTTGGGGGAGGGTGGAGGGAGAGGTAGACGGAGAGGGGGAGGAGGTGGAAGAGAAGAGG
AAAAGAAGGGTAGAGATGGGGTGGAGAATGGAGGGGAGTGGAGGG


Right flanking sequence: Indices 41336 -- 41835
GGGGCACTTTGGGGTGGACAGTAGTGAGTCTACGACAAGGGATGAACGTAGTAGAAAAGTACAAG
AAAGCAGCGGATGGCTTACGACTAGGACGTGACAGGGCACGAGACTGCTGCCCACTTCGGGTCAT
TCGCAGGAATCAAAAGAAAGGCGATGGTGAGACATGTCGGACTTATGAGGTGACTTTACACTAGG
CTGCCCGAACCGTATTACTAAACCATACCCCTCGTGACGTCCGTAGACCACCGTAATAACATCCC
GTATCTCCAATTACGTGAAAATTACAAATCCCGTTCGCGTCCACCTCTCGTGTCCACCCACCTTT
TCCAGCATTTCTCCATTTTTTGTGGAATTCCACACCACCCTCTTGGTCAAGTTAAGTAAATATCC
CGGCACAGGCGTAAAAATAAGATAATCCTCTGCGTCATCCCGATGAACCACCGGGCTCTGTGTGG
TTATCAGATCGGCAGTAGACTTTTTCCCGGCCTCAACCCAGAACC



Found at i:42737 original size:14 final size:14

Alignment explanation


    Indices: 42698--42738  Score: 52
    Period size: 14  Copynumber: 3.1  Consensus size: 14

      42688 CAATGCACCA

                          
      42698 CCCATTCCGTT-CC
          1 CCCATTCCGTTCCC

                    *     
      42711 CCCA--CCATTCCC
          1 CCCATTCCGTTCCC

                          
      42723 CCCATTCCGTTCCC
          1 CCCATTCCGTTCCC

              
      42737 CC
          1 CC

      42739 ACCGGTCCCC


Statistics
Matches: 23,  Mismatches: 2, Indels: 5
        0.77            0.07        0.17

Matches are distributed among these distances:
  11    4  0.17
  12    6  0.26
  13    4  0.17
  14    9  0.39

ACGTcount: A:0.10, C:0.61, G:0.05, T:0.24


Consensus pattern (14 bp):   
CCCATTCCGTTCCC

Left flanking sequence: Indices 42198 -- 42697
GCGTAATAAACCCGGAGTAGCCACAGCAGGTGCAAACGAACCCAGGGGCCGTCAAATCCCGGTTC
CCGCAAGGCAAGTGGTGCCCTCGGGCCCCGCCCGTTTAGGAAATTGCCCGAATGTCGGAATGTCG
ACCTGACCTGTCACTTTACGGTTGCGAGCACCGCCACGCTGCCAGGGAACGCGATGGCATATGTA
GGTTTGACGTGACGACGTCGTTGTTCGGTTGTGGAAGCGATGCCGAGGAAGCCGGGGCTTTGCTG
CGACAATGCTAGCCGGGGTGACGCAAGGCTCTGGCCACCATGTGGTATTGACGCTCGTTGAGGTT
GCATCCTTCTCAGGAAATCCTTGCGTAATGGTACATTTGCTTTAATGTTGTATTTGTCTCAAGTC
TAATTTGCACGATGTAGTATTGACAGCTGGGCCCACCCTGTTGTTATCTTACCCAAAAGACCAAT
AACCCGAAGGCACGCCTATTTCAGGTCCCCCATTGCAATGCACCA


Right flanking sequence: Indices 42739 -- 43238
ACCGGTCCCCCATTCAGCTGCCTACGGCACTGCCCGTATACCCCTCTGCGCCACTCACAGGCTCT
GATAGGCCATTCGCCCCAAAGCTTAATTCCCAGGAGGCATTGTCCACAGAACCATCATTGCGCAC
CTGTTTGGGCCGCGGTCGCTACGGTTATTTTGCCACATATTTTCCCAGGTTATTTTCATGCACCA
GCCCCAATCCATAGGGGCTTACCTTCATGTGCCCCGGCCATCGTCGTTGCCAAAGCCATGATGTC
TACACCACGACATGGCCGTGCTACATTTCCGCTGCTCGTTTGGCCCTTGGCACTGTTGACGTCAT
GGCCAGCGACATTTGTCGGTCAACGGGCCCGTAGATCGTATATGCCACTGGAGTCGGCAGCTGTC
ACTTTCGCAAATACACGTCAAAATTCCCGCCACAAGGTACGGCATTGGCCAGCCAGTAGCAGTGC
TAACGCTTATCATTTCCCAATCGGTATTCCCGATCGGTATTCCCG



Found at i:42748 original size:24 final size:25

Alignment explanation


    Indices: 42698--42753  Score: 87
    Period size: 25  Copynumber: 2.3  Consensus size: 25

      42688 CAATGCACCA

                                *    
      42698 CCCATTCCGTTCCCCCACCATTCCC
          1 CCCATTCCGTTCCCCCACCAGTCCC

                               *     
      42723 CCCATTCCGTTCCCCCACCGGT-CC
          1 CCCATTCCGTTCCCCCACCAGTCCC

                   
      42747 CCCATTC
          1 CCCATTC

      42754 AGCTGCCTAC


Statistics
Matches: 29,  Mismatches: 2, Indels: 1
        0.91            0.06        0.03

Matches are distributed among these distances:
  24    9  0.31
  25   20  0.69

ACGTcount: A:0.11, C:0.59, G:0.07, T:0.23


Consensus pattern (25 bp):   
CCCATTCCGTTCCCCCACCAGTCCC

Left flanking sequence: Indices 42198 -- 42697
GCGTAATAAACCCGGAGTAGCCACAGCAGGTGCAAACGAACCCAGGGGCCGTCAAATCCCGGTTC
CCGCAAGGCAAGTGGTGCCCTCGGGCCCCGCCCGTTTAGGAAATTGCCCGAATGTCGGAATGTCG
ACCTGACCTGTCACTTTACGGTTGCGAGCACCGCCACGCTGCCAGGGAACGCGATGGCATATGTA
GGTTTGACGTGACGACGTCGTTGTTCGGTTGTGGAAGCGATGCCGAGGAAGCCGGGGCTTTGCTG
CGACAATGCTAGCCGGGGTGACGCAAGGCTCTGGCCACCATGTGGTATTGACGCTCGTTGAGGTT
GCATCCTTCTCAGGAAATCCTTGCGTAATGGTACATTTGCTTTAATGTTGTATTTGTCTCAAGTC
TAATTTGCACGATGTAGTATTGACAGCTGGGCCCACCCTGTTGTTATCTTACCCAAAAGACCAAT
AACCCGAAGGCACGCCTATTTCAGGTCCCCCATTGCAATGCACCA


Right flanking sequence: Indices 42754 -- 43253
AGCTGCCTACGGCACTGCCCGTATACCCCTCTGCGCCACTCACAGGCTCTGATAGGCCATTCGCC
CCAAAGCTTAATTCCCAGGAGGCATTGTCCACAGAACCATCATTGCGCACCTGTTTGGGCCGCGG
TCGCTACGGTTATTTTGCCACATATTTTCCCAGGTTATTTTCATGCACCAGCCCCAATCCATAGG
GGCTTACCTTCATGTGCCCCGGCCATCGTCGTTGCCAAAGCCATGATGTCTACACCACGACATGG
CCGTGCTACATTTCCGCTGCTCGTTTGGCCCTTGGCACTGTTGACGTCATGGCCAGCGACATTTG
TCGGTCAACGGGCCCGTAGATCGTATATGCCACTGGAGTCGGCAGCTGTCACTTTCGCAAATACA
CGTCAAAATTCCCGCCACAAGGTACGGCATTGGCCAGCCAGTAGCAGTGCTAACGCTTATCATTT
CCCAATCGGTATTCCCGATCGGTATTCCCGATCGGGTTTTATACG



Found at i:43229 original size:13 final size:13

Alignment explanation


    Indices: 43207--43243  Score: 65
    Period size: 13  Copynumber: 2.8  Consensus size: 13

      43197 CGCTTATCAT

                 *       
      43207 TTCCCAATCGGTA
          1 TTCCCGATCGGTA

                         
      43220 TTCCCGATCGGTA
          1 TTCCCGATCGGTA

                       
      43233 TTCCCGATCGG
          1 TTCCCGATCGG

      43244 GTTTTATACG


Statistics
Matches: 23,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  13   23  1.00

ACGTcount: A:0.16, C:0.32, G:0.22, T:0.30


Consensus pattern (13 bp):   
TTCCCGATCGGTA

Left flanking sequence: Indices 42707 -- 43206
TTCCCCCACCATTCCCCCCATTCCGTTCCCCCACCGGTCCCCCATTCAGCTGCCTACGGCACTGC
CCGTATACCCCTCTGCGCCACTCACAGGCTCTGATAGGCCATTCGCCCCAAAGCTTAATTCCCAG
GAGGCATTGTCCACAGAACCATCATTGCGCACCTGTTTGGGCCGCGGTCGCTACGGTTATTTTGC
CACATATTTTCCCAGGTTATTTTCATGCACCAGCCCCAATCCATAGGGGCTTACCTTCATGTGCC
CCGGCCATCGTCGTTGCCAAAGCCATGATGTCTACACCACGACATGGCCGTGCTACATTTCCGCT
GCTCGTTTGGCCCTTGGCACTGTTGACGTCATGGCCAGCGACATTTGTCGGTCAACGGGCCCGTA
GATCGTATATGCCACTGGAGTCGGCAGCTGTCACTTTCGCAAATACACGTCAAAATTCCCGCCAC
AAGGTACGGCATTGGCCAGCCAGTAGCAGTGCTAACGCTTATCAT


Right flanking sequence: Indices 43244 -- 43743
GTTTTATACGTTGACGCTTCCCCCACTGCCATCGCGTCAAACCAAACTCAATTGCCTTCGCCCCC
CCCGCCTATCTCCGTATTCACTGGCGGCTGTTCCCTGACGGCTGCCGCATGAAAGCTTATTCGCC
AGAATGGCTATTTTTTATGCGTAGCCACCGTGTGGCCAGGCACTTTTGCGCTTAACAGAGTACGA
GAAAATAAAAAAATTTTTTTGCTCCCCCAAATGTCGGCAGCAAGCCCGATCACCAAAGAAATGCA
GGGAGACACCGCGAACGGTGGCTAGAGAGCCACATAATGTCGGGATGTCGGGGGCAAACTGCTGG
TGAGGGGCGCACCAACCACGCTTCCAGAGAGCGAATACCCAACATATCCATGTGGGGGAGACGGA
GGGGAGCTCTACGGCGATAACGTGCGGGGATGTTTCATGCCCAATCGACTAATTCAGCGGTGGGG
TCGATTTTGAAATATTTTGTGGACTTATGCATAATTTTTGAGGCG



Found at i:47124 original size:14 final size:14

Alignment explanation


    Indices: 47082--47115  Score: 68
    Period size: 14  Copynumber: 2.4  Consensus size: 14

      47072 GTGGAGTGGA

                          
      47082 TGGTTTTGTGGGGG
          1 TGGTTTTGTGGGGG

                          
      47096 TGGTTTTGTGGGGG
          1 TGGTTTTGTGGGGG

                  
      47110 TGGTTT
          1 TGGTTT

      47116 CGTGTGGGTA


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   20  1.00

ACGTcount: A:0.00, C:0.00, G:0.53, T:0.47


Consensus pattern (14 bp):   
TGGTTTTGTGGGGG

Left flanking sequence: Indices 46582 -- 47081
AAACGCTTCTGGAGCCCCAGGTGGCCGGGGTTCTGGGCGAGCTTCTGCTCCAACATGGCAATCTC
GTCGTATTTGGCAGCAGCATCCTGTTCAAGAAGCTTGTAGGCCATGTCAAACGTCTCGTTGATCT
GCTCGGGCTGGTGGTACGCCCAGCGTTGGCCCTGAGTGGTGATGGAGGCAGGGCCCTTGAATGGG
GGGATGGGCTGGAGCACCTGGGCACGGGCGGCATCCAGGGCCACCCGGAACAGGGCGGGACGCTT
GGACACGTCGCTCCACACCAGGGAGAACCTCTTGGTACAACGAAGCATTGGGTATGGATGGAGAC
AGTTTTTCGCAGAGAAAAGTGAAAAAAGCACGTGAGTCGCACGTGACGGACCGACTAGTGTGGGT
GGTAGAAAGAGGGGTGGTGGTGGGTGTTAGTGGGTGGTAAGGGATGGGATTTGACGTAGCGCTGT
AGGTGGAGTCGAGTGGGGATGGTGGTGGGAGTTTGGTGGAGTGGA


Right flanking sequence: Indices 47116 -- 47615
CGTGTGGGTATTTTTTGGTGGTGGATGGTTGGTGGTGCGACGATCACACCGTAGGGGAAGGCGAG
TGAAAAGTCGGGCTCAGCGGCACAAACGAGAGAAAAGCTATGTCTCAAAATGGAGTTTTGGGGTG
TCGGTCTAGACTGGGGTGAAACTAGAGATCTGAGGTGGCTAATGGTGGCGGTGGTGGTTACGGGT
TTGAGACAAATAATAATGGTAAATAATTAGTGTCTAAAATATATGAGGTACAAGACAGAATAAGC
TGGGAACAAACAGAACGTACCACACGAAGGTTCGATTGTGGAGAAGATCTAATTATACATTCGGT
AACGCAACCGGGTAGGGGTTGGGTAGGGGTCGGGTTTGTTTCGGTGCGTTCACTACTCACGTTAC
CTACTCACTCACTGGTAGACTAAATAATTGAACCCGGACCGAAACGATAATAGAAAAGGAACGGG
GAGATCAACAGACACCCACAATATCAAGGGAAAAGCAATAGATCA



Found at i:104618 original size:20 final size:20

Alignment explanation


    Indices: 104593--104653  Score: 122
    Period size: 20  Copynumber: 3.0  Consensus size: 20

     104583 ACGCCCCCTT

                                
     104593 TACATAACTCAGGGATTTCA
          1 TACATAACTCAGGGATTTCA

                                
     104613 TACATAACTCAGGGATTTCA
          1 TACATAACTCAGGGATTTCA

                                
     104633 TACATAACTCAGGGATTTCA
          1 TACATAACTCAGGGATTTCA

             
     104653 T
          1 T

     104654 GCAAGTCCCT


Statistics
Matches: 41,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  20   41  1.00

ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31


Consensus pattern (20 bp):   
TACATAACTCAGGGATTTCA

Left flanking sequence: Indices 104093 -- 104592
CTTAAACCCCTAATTAGAGTTTGAAAACATTCCTTAAACTGCTGCCCTCTTACGTCATAGAGGGC
GTGGAAGATTCACTATTTGCAAGTACGAAAGGGGAAACCAAGTGGGTGGAAACAACCTCACCTGG
TTTCTCATTGGTGAATTAATCCCTCAAATTCCTGAAGCTTGCTCTCCTCGAATTTCTATGCTTTT
GACATTTTGGCTAGGACTGATTTCGTCGACTAGAGAAATGCGAATTCAGATTGATCACCTCGAAG
CCTCTCTACTACCCCTATGTTGATCAAGCTATGGTACAGTGTCATAAGCGTAACTCCATTGGATT
ATGTTGCCTTGTATAGCCCCTTCATTGTTGAGTCACTTAGCTACGGCTGAGTATTTTTCGTATGG
CATTTATTTCGTTTTGCGGGATTATCTGATTTAGGGATTAAGCCACACTTCGCGTACGAAAAGGA
CTTATCGGCCTACCATAGTAACCAGGGTACTTTAAACGCCCCCTT


Right flanking sequence: Indices 104654 -- 105153
GCAAGTCCCTTGGCGTTCGGCAGCAGATTCCACGCTCACGTCTTGAACCTGGCATTGACCAGATA
CAGCGCGCTTCCTTAATCGATGGCATGCACTCAATAGCAGCAAGGACTTTAAAAGTATTGGTATT
ACAGTGAGAATGTTATGGTCGTTTCTATTCGTTAATCATCTCTATAAAGTTTACATGGCAATTTT
CATTCCCGCTCGCTTATTCAATATGCGAGGCTTCTCTAAGCTTAGACGGCGGTTAACAGGTGAGT
TGCGCGCTTGCAGCGGAGGAGACTCGAGGACAGGGTTGAAGCTTAGGTCTAGGTCATCGGTGGAC
ATGGCATCATCCATACTAGTATCCGACTCAAGGTCTCGGGGGTGAATTTTAGTGCGCTTGGGTGA
CCCACCCAGGGTATCAACACGCTTGGCACGAGCTGGTGCGAGCAGTAGATCGACACTGTCGTCGT
TGGCAGTGAAATAGCACTCACTCATTGACTGATTAGGAGTGACGG



Found at i:119473 original size:11 final size:11

Alignment explanation


    Indices: 119457--119488  Score: 64
    Period size: 11  Copynumber: 2.9  Consensus size: 11

     119447 TAACGGCGAG

                       
     119457 AATATGCAGGA
          1 AATATGCAGGA

                       
     119468 AATATGCAGGA
          1 AATATGCAGGA

                      
     119479 AATATGCAGG
          1 AATATGCAGG

     119489 TTGTATGCCG


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   21  1.00

ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19


Consensus pattern (11 bp):   
AATATGCAGGA

Left flanking sequence: Indices 118957 -- 119456
AATAATGACTTGCAACAACAAAACCACACCAGTGTATCCGATTTGGTAGAGAACACTGCCACCAG
CGAACCTTTGAATATCATAAGCCTGTGATTGGATGATGGTGCCCACGATGTAAAATAACATAGCC
ACAACGAAAAGTTGTAGGCGACCAAAGCAGTCGGACAATCGAGCAAATGCAAATTGGCCCGCAGC
AGCGACAACCGCCTTGATGACATTTACAGTAGCATACAAGGAATGGGTTGAGTACGAGTTGGCAG
CTGCAATTTGGTAAACGTAGCGGGTATTGGAATCAAGGCCGTATGCGTAAGCGACAAGAAATATG
CAAAAGAAGAACCATATTTTAAGAGCAGGATGTGAATACTGTTTCGATATGATTTCGATCTTCCG
AATTTCAAACTCAGTCAGTTTTGCAGTAGCGAAAGGCATCTAATTACAAACTGAATAATTGCAAT
AGGTAGGAGTTATAAGTCGAGATGGATCAATTGCATAACGGCGAG


Right flanking sequence: Indices 119489 -- 119988
TTGTATGCCGACGTGACGTTGAATGGAAGCAGAACCGTGCCGCTGCGTGGTATATGTCACTTTCT
ATAGGAGTTCCGTGGAAGAGATTTAGGGATCCACCAAGGGGATACAACAGTCCTTACTTGTTATA
ATATTTCACCGTTTCGCGTTAAAGGGTCAAGATTTGAAGCCCATATGGTGTTTCGGTATTTGTAG
ATCGATGAGATAAAATTTTGCCCGAAGATCGGGAATTATTATGCGGAAGTAAACGCCCCAATAAT
AGGCCAAGAATTATGCTGGCGTCTGCCGAGCGAGAAAAGGGCATGACTCTGCATATACACCACAG
GCAATCTTTGGTCATGTCCTGCAAACAATAGGTCGTGTGTTGTTGTCATGCGCCGAGTTAACTGA
TGCATCAGATAAAAAGTCTTTTCACTACTATCGATCACAAATGGTGGGCTTAGGTGTGGTCTACA
CACCAGGCTTGATGGCGTTGTACGCATGCAACCTAGCAGCTATCG



Found at i:160118 original size:15 final size:15

Alignment explanation


    Indices: 160098--160127  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

     160088 CGTCTTTCAA

                    *      
     160098 CTCATCGCGCGCAGC
          1 CTCATCGCCCGCAGC

                           
     160113 CTCATCGCCCGCAGC
          1 CTCATCGCCCGCAGC

     160128 ATATTGCGAA


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.13, C:0.50, G:0.23, T:0.13


Consensus pattern (15 bp):   
CTCATCGCCCGCAGC

Left flanking sequence: Indices 159598 -- 160097
GATGGCTTTGCCTATGATGACCTGGGAATCTACGTTGCACTCTTCGGGGACGGGAAGGTGGCCCA
TTACAACTGGCGAGGGGAGCACGTTGGTGAGTACACCGTAGGGGGTAAGCGTGTCACATGTGTCG
GTGGCCAAGGTTACGTCACCACTGCCCATGCACTGCTTCAGAACCAGGTGGAGCCTCTGGATCAT
GGGGGTCGTCTCTACCAAATCCCGGTCAAGATTGACCAGCAATTGCACAAGTGGCTGCTTTAAGC
GGCTGTCTCTAAGTAGGATAATACAGCCTGGATAAACTCCTCAACCTCGGTGTTGGCCTCAAACC
CTCCTTTGCGTAAACTGTTGAGCTTGAGCTTGGCCACATCCCATTGGCGATTGGCAACGTCAGTG
ATGGGTCGATTGACAATCTCGAGAAGAGTAACCAAGTGGAACTGGAGCGTAGGCAGCTTAAGCAT
AGCCTGGATCTCAGGCGGGATGCTAAAGCCCGGCTCGTCTTTCAA


Right flanking sequence: Indices 160128 -- 160627
ATATTGCGAAGGCACCAGAGTCCCCGGTTCCAGCATCGGGGCCAGGTTCGGGGCATGGTCACGGG
ACATGTGCTCCTTGTAGCACTTAACTGAGCAATATCTGGCCCCACATTTGCACTTGTACTTTGCT
TCGTCACCACAGTGGCACTGGATCATATTGTGATAGTGAGAGACGATTTTGGAAACGGGCTCCTG
TGCAAGCACTCTACGCGACCCGAAGGCATAATTGTCGGGACAACGCCCGCCCAAAGCGTCCCGCG
CCTCGTACGTTGTCTGTGAACCGGCGTTGCCGACGTTGCGCAATCTACCATGTGTTCCAACCCAA
ATCGTAATTCATTAAAATCTATAATATGCAAATAGTCAGGGCATGGCTAATAGCCATGATGCAAA
TGGGGTGCCACCAGCGCCACGGGCGGGCAGTACCACTGAGGCTTGGCGATGGCGTCGGCGGGAGG
CGTCAAAGGCAAAGCCATCAGTTGAGGACCTTGGGCGGCCACTCC



Found at i:172164 original size:27 final size:27

Alignment explanation


    Indices: 172122--172174  Score: 97
    Period size: 27  Copynumber: 2.0  Consensus size: 27

     172112 GCCCAGAGCG

                       *               
     172122 CCCAGCACGCTGCCGTGGCGCGAAATC
          1 CCCAGCACGCTCCCGTGGCGCGAAATC

                                      
     172149 CCCAGCACGCTCCCGTGGCGCGAAAT
          1 CCCAGCACGCTCCCGTGGCGCGAAAT

     172175 GGACTCGTCG


Statistics
Matches: 25,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  27   25  1.00

ACGTcount: A:0.19, C:0.42, G:0.28, T:0.11


Consensus pattern (27 bp):   
CCCAGCACGCTCCCGTGGCGCGAAATC

Left flanking sequence: Indices 171622 -- 172121
CATCCTCCCCTTCACTGGGCCCGCTGTCCTTCGCGCCATTCTCTTTCACCTGCAAATCTTGCGAC
TCGAGCACCAGTGTGTCATTAGTGGTGGACGTGTCAAGCGGAAGATCGCTGGGGGCAGAGTCGCT
GGGTAAGTCTGAAGAGTCATCGCGGGGACCGTCCCCACCAAGATTAGTGGTTTGGTGAGGCGGCG
CGTGGCCCGTGTAGCTGGGCGGCCCAAGCGGCTGGTCATGGGGCCCGAGCTCGTCATCATCGATG
GGCCGACGCGTGGGTGACACCTCGTCGTCATAGTGCAGCACGTAGCTCGGCGGGTTCATCAATGG
CGGGCGCAAGCCCTGGTTGGGCGAGATCACGGGGGACTCCAACGGCGTGGGCGCCTCTGCCACTG
CTCCGAGCATGTCACCGCCTTGAGTGGTTACTGGAGGCGGTGGCAGCATGGTGGCCCGCAGCGGC
GAGAAACTCAGGCGGGTGGGCGAGCCCACCAGGAAGCCCAGAGCG


Right flanking sequence: Indices 172175 -- 172674
GGACTCGTCGTCCCACACCAGGTTGCTGCGTTCAGTACGGATGGCCTCTTCAAACGACGGCAACT
GGCCGCGGCCCCACGATTCGGGATCGAACGTGTCGTCGTCCACGGCGAGCGGGGCAACCGACACC
CCGTTGAAGTCCGGGTTGCGGAAGGTGACCTCGTCGTACTTGGGCAACTGCATCAGCTCGTCGTG
ACACCGTGCCAGCAACAAAATGAGCGGGGTGTCCACCACCACCTCGTAGTGGTGCATTTTGTAGT
TGTCGCTGGCGTCGGGCTTCAGGATCCGGAAGCAGATCTGCAACCGGTGGTGGATCTGGATGTGG
CGGAAGTTGGAGTCCGGGTAGAGCGCGCGTCCCAACGTGGTGACACCAGGCACCGGCGCCCCTGG
GCCGGCATCGGCCAGGTAGTGCAGCACATTGGGCACCAGCAGCCGTCGCTGTGCCGTGACAAGCG
TTTCCTGGCATCCCATCGCCGGTGGGTCCACTCCTGGCGGCGCGT



Found at i:173910 original size:12 final size:12

Alignment explanation


    Indices: 173895--173929  Score: 52
    Period size: 12  Copynumber: 2.9  Consensus size: 12

     173885 CAGCACCGGC

                        
     173895 CGCAGAGCCAGA
          1 CGCAGAGCCAGA

                       *
     173907 CGCAGAGCCAGG
          1 CGCAGAGCCAGA

                 *     
     173919 CGCAGCGCCAG
          1 CGCAGAGCCAG

     173930 CGTCGAGCTT


Statistics
Matches: 21,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  12   21  1.00

ACGTcount: A:0.26, C:0.37, G:0.37, T:0.00


Consensus pattern (12 bp):   
CGCAGAGCCAGA

Left flanking sequence: Indices 173395 -- 173894
CCGAGGCCGCAGTGGCGGTGGCGGCGCAGGCGTCGCCCGCGAGCTCGGGCTCGGGGTCCACGCCG
TTGGCCAACTGGCGGATTTGCGCAAGCTTGTACTCGCGGGTGCGGTTGGCGAGTCCGTGCGGGCC
TAGCGGCTTGGCGCGGGCCAGGTGCGAGTTGTGGAGAGGGATGAAGTAGTCCGCGTCGCCAAAGC
AGTAGCGCCACCGCAAATGCCCGATCTTGAACTTCTCCAGGTACAGCAGCCCGTCCGCACACGGC
CAGAGCGTGGTCACGTCCGACGACAAGTCGACGTTGATCGGTGCCGCGTCTCGCATCAGCTGCTG
CAACTCCACCACCACGGCAAACGTGTGGGGAATCGGGGTTTCCAGATCGATCTTGGTGCAGAGGT
AGTTGGGCAGGTTGAACTTGGTGAAGTGGCGCGGGAGCTGGCTGGCGGCGTCGGACGCCTCGCTG
GTGGGCGGGGTGTCCACGTAGTCGCTGTTGCGACGCAGCACCGGC


Right flanking sequence: Indices 173930 -- 174429
CGTCGAGCTTGCGTCGTCATCGGTGGGGATCGCTTCCTGGGGCATGTTGGTCTGCCCGTCGGCAT
CCTCATAGGTGAACAGCAGCAGCAGCGCCGGCGCCAAAAACACCACGTCGTTGGTGTTGGCCACG
TGGAAGCGCACGCCGTGGGGGGTGGTGCCACAAGCCACCGGGTCCTGCAACCCGAGCTCCAGAAG
CACGCCGGCCAACTTGCGGGTGACCACCAGGAGGGTCTCGTCCATCACGAGCTGGTGGGTGGACG
GATGCGACGGGTAGAGGATGGGGGAGCGCAGCGGTTCTAACAGCGGCGACTGCGACCCGAGCGAC
AGCGCACGTGCCCGGCCGATCAGCTTGGCCGCCTCCGACACCATGGCGATCGACAGACGCCGCGG
CCGCTGCAGCGGGGTGGGCAGGGTATGGCGGACGGCGGTTGCGCCAGCACCTACGCCAAACGCCC
CCACCGCCGGCACCTCGAGGAAGCCCAGGTCACTCAGCCGTCGCA



Found at i:233920 original size:12 final size:12

Alignment explanation


    Indices: 233893--233952  Score: 77
    Period size: 12  Copynumber: 5.0  Consensus size: 12

     233883 TTATTAATTA

                         
     233893 CATACCCATG-GG
          1 CATACCC-TGAGG

               *        
     233905 CATCCCCTGAGG
          1 CATACCCTGAGG

               *     *  
     233917 CATCCCCTGGGG
          1 CATACCCTGAGG

                        
     233929 CATACCCTGAGG
          1 CATACCCTGAGG

                        
     233941 CATACCCTGAGG
          1 CATACCCTGAGG

     233953 ACCACCCAGG


Statistics
Matches: 43,  Mismatches: 4, Indels: 2
        0.88            0.08        0.04

Matches are distributed among these distances:
  11    2  0.05
  12   41  0.95

ACGTcount: A:0.20, C:0.37, G:0.27, T:0.17


Consensus pattern (12 bp):   
CATACCCTGAGG

Left flanking sequence: Indices 233393 -- 233892
GAGATCAAGCGCACCGAGTTGGCAAGCTTGAAGCGCCGCGAGGACAACGACCGCCGCCATACCCG
GGCCGAGAAGATCCCGGAGAAGGAAAAGCATATTCGCGGCACCGCGATCAAGGACGACGAGTAAC
AGGTTTTAATAGAATGGGACAAGAAATAGAGAAGCGTAAGAAGGGCCTAACTGTGGGTTCGTTTG
GTTAGCCGTGTGGTTAGCTGTAGTGGTTGGGCGGTGGCAACACGTGCCTGTGCACGTGCTCACGT
CAAGTGGTCCGCGTGTCGCTAGTACATGACAATAAACGTTCCATGTTGATAAATGTGTCAAGTAT
TATCGGTGCGCACACGTCATAGTATAGGGTTTGGTTCACGAACGACCTTCAGTATCAAGATGAAC
ACTCTAACCGTATTCACTAGACGGCCTGTGTAGTCTCGTTCTAACTGTACATCCCCTATATAAGC
TTACAGACCTCTCAGACACCCTACCATGTTACCTATTATTAATTA


Right flanking sequence: Indices 233953 -- 234452
ACCACCCAGGGGGTCCTGCTTCAACGACGAGCGGCCCGCCTTCAACAACTCGTCGCACAACAACA
AGTTCAGCGCAATCCCGGTGGCAGCCAGGATGGCGTTGCGGAGCACGCGGTACAGGTCCCACACC
CCGTCGACGGTGGGGTCCATGGGCTCGCCCACCTTCAAGTCCACACCGACAATGTTAGAATCGTT
CACCTCGTCCTCACACGCGGCCAACACCTCCAAGGTATCGAGCCCGGCGTTGGTCACAAGCGTCT
TGGGCACCACCAACAACGCCTCGGCGAAGGCAGTGAACCCAGCCTTGTTCTTCCCCTTGGCCAAC
TGGGGCAACCGCAAGTGGTGCGAGGCACACATCCAAAAGGCACCAGCACCCGGGATCACCGAGCC
GTCCCGCAACACGTTGGCGACCAGCCGCAACCCGTCGCGCACAGCGTCCTTGACCTGCTGCACCA
CGTGGTTGTTGGACCCGTGGATCAACACCGTGGCCGCCTTGGGGT



Found at i:233959 original size:24 final size:24

Alignment explanation


    Indices: 233893--233959  Score: 59
    Period size: 24  Copynumber: 2.8  Consensus size: 24

     233883 TTATTAATTA

                                      
     233893 CATACCCATGGG-CATC-CCCTGAGG
          1 CATACCC-TGGGACA-CACCCTGAGG

               *       *  *         
     233917 CATCCCCTGGGGCATACCCTGAGG
          1 CATACCCTGGGACACACCCTGAGG

                                
     233941 CATACCCTGAGGAC-CACCC
          1 CATACCCTG-GGACACACCC

     233960 AGGGGGTCCT


Statistics
Matches: 35,  Mismatches: 5, Indels: 6
        0.76            0.11        0.13

Matches are distributed among these distances:
  23    4  0.11
  24   28  0.80
  25    3  0.09

ACGTcount: A:0.21, C:0.40, G:0.24, T:0.15


Consensus pattern (24 bp):   
CATACCCTGGGACACACCCTGAGG

Left flanking sequence: Indices 233393 -- 233892
GAGATCAAGCGCACCGAGTTGGCAAGCTTGAAGCGCCGCGAGGACAACGACCGCCGCCATACCCG
GGCCGAGAAGATCCCGGAGAAGGAAAAGCATATTCGCGGCACCGCGATCAAGGACGACGAGTAAC
AGGTTTTAATAGAATGGGACAAGAAATAGAGAAGCGTAAGAAGGGCCTAACTGTGGGTTCGTTTG
GTTAGCCGTGTGGTTAGCTGTAGTGGTTGGGCGGTGGCAACACGTGCCTGTGCACGTGCTCACGT
CAAGTGGTCCGCGTGTCGCTAGTACATGACAATAAACGTTCCATGTTGATAAATGTGTCAAGTAT
TATCGGTGCGCACACGTCATAGTATAGGGTTTGGTTCACGAACGACCTTCAGTATCAAGATGAAC
ACTCTAACCGTATTCACTAGACGGCCTGTGTAGTCTCGTTCTAACTGTACATCCCCTATATAAGC
TTACAGACCTCTCAGACACCCTACCATGTTACCTATTATTAATTA


Right flanking sequence: Indices 233960 -- 234459
AGGGGGTCCTGCTTCAACGACGAGCGGCCCGCCTTCAACAACTCGTCGCACAACAACAAGTTCAG
CGCAATCCCGGTGGCAGCCAGGATGGCGTTGCGGAGCACGCGGTACAGGTCCCACACCCCGTCGA
CGGTGGGGTCCATGGGCTCGCCCACCTTCAAGTCCACACCGACAATGTTAGAATCGTTCACCTCG
TCCTCACACGCGGCCAACACCTCCAAGGTATCGAGCCCGGCGTTGGTCACAAGCGTCTTGGGCAC
CACCAACAACGCCTCGGCGAAGGCAGTGAACCCAGCCTTGTTCTTCCCCTTGGCCAACTGGGGCA
ACCGCAAGTGGTGCGAGGCACACATCCAAAAGGCACCAGCACCCGGGATCACCGAGCCGTCCCGC
AACACGTTGGCGACCAGCCGCAACCCGTCGCGCACAGCGTCCTTGACCTGCTGCACCACGTGGTT
GTTGGACCCGTGGATCAACACCGTGGCCGCCTTGGGGTCCTTGGG



Found at i:248763 original size:15 final size:15

Alignment explanation


    Indices: 248743--248776  Score: 59
    Period size: 15  Copynumber: 2.3  Consensus size: 15

     248733 TCGGCGTCGA

                   *       
     248743 CCTCTTCTTCCTCTT
          1 CCTCTTCCTCCTCTT

                           
     248758 CCTCTTCCTCCTCTT
          1 CCTCTTCCTCCTCTT

                
     248773 CCTC
          1 CCTC

     248777 AGCATCGCCC


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  15   18  1.00

ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47


Consensus pattern (15 bp):   
CCTCTTCCTCCTCTT

Left flanking sequence: Indices 248243 -- 248742
AAGTTGGACACGTTGGTAGACAAGCTGGAGGCCTTGTCGTCGTCGCTGAGAATGTTCTACAAACA
GGCGAAAAAGACCAACTCGTGCTGTGTGCTTATGTAGCGTTTTTGTACATTAATACCTTATGCCA
TGTCGTACGGCTTACAAACGTTCTTTCCAATGTCATTTGATTCTATTATACACACCTTACTTCAA
CTTGGCCAACTCCTTCTTCTTCTTCTCGAGCTGCGACTTCTTTTTAGAGAGCTCCTTCTGGCGGG
TCTCCTTCTTGTCAAGACCGTACTGCATCTTGTTGTAAAGCTTGCGCTGCTTCTGGGTCATCATG
ATCTTCTTGAGCTCCTTCTCGTCGTCCTCGGGCGCCGCTCTCTTCTTGCCCTTCTTGGGCTTGGC
GTCGTCGAGGTTAGCCTCAGAGTACTTGACACCGGCGGCCTCCATCTCAAGCTCGCGCTGAGCAG
CGAGGTCTTCGTCCTCTTCTTCCTCCTCGGCGTCCTCGGCGTCGA


Right flanking sequence: Indices 248777 -- 249276
AGCATCGCCCTCAGCAACCTCGGCTTCAGGGTTGTAGATACCGCGGTCGCCCCAGGGGGACAAAT
GAGGAGGCAAGGTCTCACCGGGAGCGTACTGGTTGACAGGAACCAACTGAGACTTGTTAATGCAA
TCAAACACCCATTGCGGCTGCACGTAGGTGCGACCCGCCACCTTTTGGGGAACCTTGGGACGGTC
GGTGATGTGATGGGTGACGTTACCAAAGTCCAAGCGGGCGTAAGCGGTGGGGTTGCTGGCCTGCA
ACTCGTCAAGAGCAATTTCCAGCACCAACTTACCACCGCAGGCGAGAATAGGGAGTTCCAAGAGG
TCCAAAGAAACCTCACGGCCAACGTAGAAGGTGAACTTGCTGAACAACTCCAGGGTGGGGGACGC
GTATTTGTTGGGCTGCGAGAGCACGTCGCCCTTGGCGGCATCGCCTGAGAACTCGTCGAGGTCCG
CTTCCTCAACGTTGACATCCTCAGCCTCCTCCTCGGCGTCGTCAA



Found at i:270897 original size:48 final size:48

Alignment explanation


    Indices: 270662--270886  Score: 265
    Period size: 48  Copynumber: 4.7  Consensus size: 48

     270652 TGCCCCGGTG

                                     *                    *  *
     270662 CAACAGATCAAC-GATGGACA-ACTTCAAAACCCTCAAGCTGCTCCTGTG
          1 CAACAGATC-ACTGATGGACAGA-TCCAAAACCCTCAAGCTGCTCCCGTA

                 *    *   *        *  *                     
     270710 CAACAAATCAATGACGGACAGATTCAGAACCCTCAAGCTGCTCCCGTA
          1 CAACAGATCACTGATGGACAGATCCAAAACCCTCAAGCTGCTCCCGTA

                    *        *  *     *              *      
     270758 CAACAGATTACTGATGGCCAAATCCAGAACCCTCAAGCTGCACCCGTA
          1 CAACAGATCACTGATGGACAGATCCAAAACCCTCAAGCTGCTCCCGTA

              *              *                    *         
     270806 CAGCAGATCACTGATGGTCAGATCCAAAACCCTCAAGCAGCTCCCGTA
          1 CAACAGATCACTGATGGACAGATCCAAAACCCTCAAGCTGCTCCCGTA

                       *                     
     270854 CAACAGATCACCGATGGACAGATCCAAAACCCT
          1 CAACAGATCACTGATGGACAGATCCAAAACCCT

     270887 GGTTCTGCTC


Statistics
Matches: 151,  Mismatches: 24, Indels: 4
        0.84            0.13        0.02

Matches are distributed among these distances:
  47    1  0.01
  48  149  0.99
  49    1  0.01

ACGTcount: A:0.34, C:0.32, G:0.17, T:0.16


Consensus pattern (48 bp):   
CAACAGATCACTGATGGACAGATCCAAAACCCTCAAGCTGCTCCCGTA

Left flanking sequence: Indices 270162 -- 270661
TCAATGCAGGTGAGCCCGCTCCGTCTAAGAGAGGATTTCTTGACGATCTCACCGGTGGGGCGTCT
GCAGACGTCATTGTCACCACCGACCTAGTTTCGAAGATCAGCGACGCAGGGGCCGCGACAGCCAT
CGCAGATGACAAACCCGCACCCGCGCCAACCGACACCACCGAGGGTGGTTTGTTTGATGGTATTT
TTGGAGGCTCCCCTTCAACGACTACGTCTCCTTCAGCCACTTCTACTGGCGGCGGTTTCTTAGAT
GGCATTTTTGGTGGATCACCATCCACAACGCCTTCTGCTACCGCCACTTCCACTAGCGGTGGATT
TTTAGATAGTTTGTTTGGTCTTTTTGGTGATTCATCGAACGATAAGGACACTGCAACCACTGCAA
CCACTACTGGTGGAGGGTTTTTGGACAGTTTATTCGGTGGTGGTTCCTCGGCCGCATCCAAACCT
ACTGGTGATGCTAACGTGACAGGTGGTTCCTCTCCTGCCCCGGTG


Right flanking sequence: Indices 270887 -- 271386
GGTTCTGCTCCTGCCCCCGCGCCAGCTCCCGAAAACGTTTCTCCGAAGCCTGATGCTCCCAAGCC
TGACGCAAGTGAGGTTCAGCAGATTACTGACGGCCAAATCCAAAACCCTGTATCATCGGGACCTA
AGCCTGACGCTGACAAGCCCGACGCCGGTAAACCCGATGCTGGCACTCCTGAAGCCGGTAAGCCC
GATTCTGGCAATCCGGGTAATGAGGTTCAACAGATCACTGATGGCCAAATTCAAAACCCCGGTCC
TGCTGCCCCTGGCCCTGCTGCCCCTGGCCCCAACGACAAACCCGATGACTCCAAGCCTGAGGACT
CCAAGCCTGAGGACTCCAAGCCTGAAGACTCGAAGCCTGGTGACAATGTTCAACAGATTACCGAT
GGTCAAATTCAAAACCCTGGCCCCAATAACGGTGGTTCTGATGGAGCCAAACCTGATAACAACGG
GGCTGAACAAATCAACGATGGGCAGGTTCAGAACCAAAAGGGTAA



Found at i:271165 original size:15 final size:15

Alignment explanation


    Indices: 271145--271176  Score: 64
    Period size: 15  Copynumber: 2.1  Consensus size: 15

     271135 AAACCCCGGT

                           
     271145 CCTGCTGCCCCTGGC
          1 CCTGCTGCCCCTGGC

                           
     271160 CCTGCTGCCCCTGGC
          1 CCTGCTGCCCCTGGC

              
     271175 CC
          1 CC

     271177 CAACGACAAA


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   17  1.00

ACGTcount: A:0.00, C:0.56, G:0.25, T:0.19


Consensus pattern (15 bp):   
CCTGCTGCCCCTGGC

Left flanking sequence: Indices 270645 -- 271144
CCTCTCCTGCCCCGGTGCAACAGATCAACGATGGACAACTTCAAAACCCTCAAGCTGCTCCTGTG
CAACAAATCAATGACGGACAGATTCAGAACCCTCAAGCTGCTCCCGTACAACAGATTACTGATGG
CCAAATCCAGAACCCTCAAGCTGCACCCGTACAGCAGATCACTGATGGTCAGATCCAAAACCCTC
AAGCAGCTCCCGTACAACAGATCACCGATGGACAGATCCAAAACCCTGGTTCTGCTCCTGCCCCC
GCGCCAGCTCCCGAAAACGTTTCTCCGAAGCCTGATGCTCCCAAGCCTGACGCAAGTGAGGTTCA
GCAGATTACTGACGGCCAAATCCAAAACCCTGTATCATCGGGACCTAAGCCTGACGCTGACAAGC
CCGACGCCGGTAAACCCGATGCTGGCACTCCTGAAGCCGGTAAGCCCGATTCTGGCAATCCGGGT
AATGAGGTTCAACAGATCACTGATGGCCAAATTCAAAACCCCGGT


Right flanking sequence: Indices 271177 -- 271676
CAACGACAAACCCGATGACTCCAAGCCTGAGGACTCCAAGCCTGAGGACTCCAAGCCTGAAGACT
CGAAGCCTGGTGACAATGTTCAACAGATTACCGATGGTCAAATTCAAAACCCTGGCCCCAATAAC
GGTGGTTCTGATGGAGCCAAACCTGATAACAACGGGGCTGAACAAATCAACGATGGGCAGGTTCA
GAACCAAAAGGGTAACACAGCGGCCACTGGTGGACGTCCTCAAGCTTGCTCGTCTGATACCGCTC
TTAAGGCTACCTTGAAAGATGGTATTTTACGTGACAGCAAGGGGCGCGTTGGTCTGATCGTCTCC
AACCGTCAGTTTCAATTCGATGGACCTCCCCCTCAAGCTGGTGCCATCTACGCAAACGGTTGGAG
TATTACCAAGGATGGTTATCTTGCTCTTGGAAGCAGCGATGAATTTTTCCAGTGCTTGCTGGGTG
ATTTCTACAACTTATACGACCAGAACGTTGCCGCCCAATGTCACC



Found at i:271213 original size:15 final size:15

Alignment explanation


    Indices: 271193--271250  Score: 98
    Period size: 15  Copynumber: 3.9  Consensus size: 15

     271183 CAAACCCGAT

                           
     271193 GACTCCAAGCCTGAG
          1 GACTCCAAGCCTGAG

                           
     271208 GACTCCAAGCCTGAG
          1 GACTCCAAGCCTGAG

                          *
     271223 GACTCCAAGCCTGAA
          1 GACTCCAAGCCTGAG

                 *       
     271238 GACTCGAAGCCTG
          1 GACTCCAAGCCTG

     271251 GTGACAATGT


Statistics
Matches: 41,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  15   41  1.00

ACGTcount: A:0.28, C:0.33, G:0.26, T:0.14


Consensus pattern (15 bp):   
GACTCCAAGCCTGAG

Left flanking sequence: Indices 270693 -- 271192
CTCAAGCTGCTCCTGTGCAACAAATCAATGACGGACAGATTCAGAACCCTCAAGCTGCTCCCGTA
CAACAGATTACTGATGGCCAAATCCAGAACCCTCAAGCTGCACCCGTACAGCAGATCACTGATGG
TCAGATCCAAAACCCTCAAGCAGCTCCCGTACAACAGATCACCGATGGACAGATCCAAAACCCTG
GTTCTGCTCCTGCCCCCGCGCCAGCTCCCGAAAACGTTTCTCCGAAGCCTGATGCTCCCAAGCCT
GACGCAAGTGAGGTTCAGCAGATTACTGACGGCCAAATCCAAAACCCTGTATCATCGGGACCTAA
GCCTGACGCTGACAAGCCCGACGCCGGTAAACCCGATGCTGGCACTCCTGAAGCCGGTAAGCCCG
ATTCTGGCAATCCGGGTAATGAGGTTCAACAGATCACTGATGGCCAAATTCAAAACCCCGGTCCT
GCTGCCCCTGGCCCTGCTGCCCCTGGCCCCAACGACAAACCCGAT


Right flanking sequence: Indices 271251 -- 271750
GTGACAATGTTCAACAGATTACCGATGGTCAAATTCAAAACCCTGGCCCCAATAACGGTGGTTCT
GATGGAGCCAAACCTGATAACAACGGGGCTGAACAAATCAACGATGGGCAGGTTCAGAACCAAAA
GGGTAACACAGCGGCCACTGGTGGACGTCCTCAAGCTTGCTCGTCTGATACCGCTCTTAAGGCTA
CCTTGAAAGATGGTATTTTACGTGACAGCAAGGGGCGCGTTGGTCTGATCGTCTCCAACCGTCAG
TTTCAATTCGATGGACCTCCCCCTCAAGCTGGTGCCATCTACGCAAACGGTTGGAGTATTACCAA
GGATGGTTATCTTGCTCTTGGAAGCAGCGATGAATTTTTCCAGTGCTTGCTGGGTGATTTCTACA
ACTTATACGACCAGAACGTTGCCGCCCAATGTCACCCTGTCAAAATTCAAGTGATTGAATTCGTG
CAGTGTTAAATCACTATAGTATATACCCGTGTCGCGTTAATGATA



Done.