Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold15
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: 56466
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.22
Found at i:1171 original size:144 final size:144
Alignment explanation
Indices: 997--1526 Score: 979
Period size: 144 Copynumber: 3.7 Consensus size: 144
987 CTCTAGTGAA
* * *
997 TGTCCTCAATGCACTCACTACCCGACCACCGTGGTGACCACCGGCTCTGATGGCCAGCCCACCAC
1 TGTCCTCAGTGCACTCAATACCCGACCACCGTGGTGACCACCGGCTCCGATGGCCAGCCCACCAC
*
1062 TTACCTGGGTATGGTTGACGTTACCACTGACTCGATTGGCTCGTTGACAACCCTGACGCTGGCCT
66 TTACCTGGGTATGGTTGACGTAACCACTGACTCGATTGGCTCGTTGACAACCCTGACGCTGGCCT
**
1127 TCCCTGATACTGGG
131 TCCCTGACGCTGGG
1141 TGTCCTCAGTGCACTCAATACCCGACCACCGTGGTGACCACCGGCTCCGATGGCCAGCCCACCAC
1 TGTCCTCAGTGCACTCAATACCCGACCACCGTGGTGACCACCGGCTCCGATGGCCAGCCCACCAC
* *
1206 TTACCTGGGTATGGTTGACGTTACCACTGACTCGATTGGCTCGTTGACGACCCTGACGCTGGCCT
66 TTACCTGGGTATGGTTGACGTAACCACTGACTCGATTGGCTCGTTGACAACCCTGACGCTGGCCT
1271 TCCCTGACGCTGGG
131 TCCCTGACGCTGGG
*
1285 TGTCCTCAGTGCACTCACTACCCGACCACCGTGGTGACCACCGGCTCCGATGGCCAGCCCACCAC
1 TGTCCTCAGTGCACTCAATACCCGACCACCGTGGTGACCACCGGCTCCGATGGCCAGCCCACCAC
1350 TTACCTGGGTATGGTTGACGTAACCACTGACTCGATTGGCTCGTTGACAACCCTGACGCTGGCCT
66 TTACCTGGGTATGGTTGACGTAACCACTGACTCGATTGGCTCGTTGACAACCCTGACGCTGGCCT
1415 TCCCTGACGCTGGG
131 TCCCTGACGCTGGG
1429 TGTCCTCAGTGCACTCAATACCCGACCACCGTGGTGACCACCGGCTCCGATGGCCAGCCCACCAC
1 TGTCCTCAGTGCACTCAATACCCGACCACCGTGGTGACCACCGGCTCCGATGGCCAGCCCACCAC
1494 TTACCTGGGTATGGTTGACGTAACCACTGACTC
66 TTACCTGGGTATGGTTGACGTAACCACTGACTC
1527 TAACGGGTCC
Statistics
Matches: 376, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 376 1.00
ACGTcount: A:0.18, C:0.36, G:0.24, T:0.22
Consensus pattern (144 bp):
TGTCCTCAGTGCACTCAATACCCGACCACCGTGGTGACCACCGGCTCCGATGGCCAGCCCACCAC
TTACCTGGGTATGGTTGACGTAACCACTGACTCGATTGGCTCGTTGACAACCCTGACGCTGGCCT
TCCCTGACGCTGGG
Left flanking sequence: Indices 497 -- 996
GCTCAGGAATTGTGGACGTCACAACGGATTCTATTGGGTCGTTGGTCACATCCACTCTGGCCTTC
CCTACTTCTGGATGCACTGATTGCACACGGTTCACCTCAACGTGGACTTCGACAGGTACCAGTGG
TGAGCCAGGGACATACTCAGGCATTGTGGATGTTACCACTGACTCCATGGGATCATTGACGACTT
CGGTGTCAACTTACCCCGAGAGTCCTCTGTCCTCTCCGCAGGATCTGTCCAGCTGGACTACCCTT
GCGGGCGATCCCAAATCGAACACCGACCTGGATGCCAACTTGGCCACGAACTGTCCAGTTTGTAC
CCAATACCCCACCACGGTAGTGACCACGGGGTCTGATGGATCCCCCTTGACTTACTCAGGTTTGG
TTGATGTGACCACTGATTCTTTGGGCTCGTTGACCACTTCGGTCTCCACTTATCCATCTGACTCA
GAGACTCCTTCGGTCACGGGTACCGTGAAGGTACCCTCTAGTGAA
Right flanking sequence: Indices 1527 -- 2026
TAACGGGTCCTTGGTGACCTCTACCGCCACGCACTGTGCGCAGTGCACCCAGTACCCCACTGTCA
TCACTACGTCCGGAGCTGATAACGAGCCCACTTCGTACGCTGGTATCGTTGACGTGACCACAGAC
GACCAGGGTTCGTTGGTGACCACCACGGTCACTCATGGGTGTCCCCAATGCACCGTGAATACTTG
TTCCTGGACCACCACTGGTGAAGACGGGAAGCCCACCACTGGCTCTGGTGTTGTTGACGTGGTGA
CCGATTCCAACGGTCTGCTTGTGATTACGACCTCGACATTGCCCGGTCCTGAGACCACCGTCAAG
GAGTGCCCTGTGTGCACTGCCTACCCTACGACCTGGGCTTCTGTTGGTTCCGATGGCAAGCAGAC
TACGGTCTCCGCCATCGTGGACGTGAACACCAACTCTCAGGGCCAGGTGGTCACGGTGACTAAGA
CCGAGTGCGACTGTTGCACCGCCTACCCGACTCAGTGGACGTCCA
Found at i:4987 original size:18 final size:18
Alignment explanation
Indices: 4960--5003 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4950 CCACAATAAT
* * *
4960 TTCAAAACCTTGAAATCC
1 TTCAACACCTTCAAAACC
4978 TTCAACACCTTCAAAACC
1 TTCAACACCTTCAAAACC
4996 TTCAACAC
1 TTCAACAC
5004 TGTCAATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.34, G:0.02, T:0.25
Consensus pattern (18 bp):
TTCAACACCTTCAAAACC
Left flanking sequence: Indices 4460 -- 4959
GCACGTGGTCCTGGTAGTTTTGGATGCCCTGGGTGGCAAAGATGAGGTGCAAGAGGCGAACATCG
CGTGGGATGGCCCCCTGTTTGTCCGTCTGCTCCGAGGGACCCGACATGGTGGTGTGTGGTGGGTG
CGAGTGGTATATGGGTGTTGCAGCAAGAGTGTTGAGCGAGGGGAAGGAGAAGGAAGAAAGGTAGA
GAAGGAAGAGAGGGAGGGAAAATGGGTGAAAACAAAGAAGGATGGGACTTAAAAGGACTTGAAGA
TAATTTTTCCTATGTCTCCTGGTGATCTAGGGTTTGATTCTTTTGCTTTTCTGGTGTCGTAAGGC
TGTTGAAATATTGACTAAGACTTTGGAAACAAAACTCTGGCAGTAATTGTTCTGGAAACAATCAG
TTATAGCAAACACTAAACGAACCGTCTCGTTACGGGACGGGCCCCAACAACACCCTCAAACACCC
TTAAACCCCCACACACCCTCAAATACTCTAAACATCCACAATAAT
Right flanking sequence: Indices 5004 -- 5503
TGTCAATTGCACCGCTAAGCCCTTTACACCCTTACACCCCTATACCCACACCCACCCTACACTGC
AGCCTGGCCGCTACTGGTTGCGAAAATTCACAATTTTTCATACATAATTCTAATCGCCCGCCACC
CACGGAGGACCCAGGTGGCCTGCGCGAACATTTTCTTAGAAGCACTTGTGGTGGACAATCGAGGG
CCCGGACTCGTCGTACTCCTGCTTCGAGATCCACATCTGCTGGAAGGTAGACAACGAGGCCAAGA
TGGAACCACCGATCCACACAGAGTACTTTCTCTCCGGGGGAGCAATGATCTTCACCTTCATCAGC
GAGGGAGCCAACGAGGTGATCTCCTTCTGCATACGCTCGGCAATACCGGGGAACATGGTGGTACC
ACCGGACATGACAATGTTGTTGTACAACTCCTTTCTGACGTCCAAGTCACACTTCATGATCGAGT
TGTAGGTCAACTGGTCGATACCGGCAGACTCCATACCCAAGTCGG
Found at i:6420 original size:9 final size:9
Alignment explanation
Indices: 6405--6449 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
6395 ATTTTTAGCG
6405 ATTTGGGCA
1 ATTTGGGCA
*
6414 GTTTGGGCA
1 ATTTGGGCA
6423 ATTTGGGC-
1 ATTTGGGCA
* *
6431 AGTTGCGCA
1 ATTTGGGCA
6440 ATTTGGGCA
1 ATTTGGGCA
6449 A
1 A
6450 AAAAGGTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
8 6 0.21
9 23 0.79
ACGTcount: A:0.20, C:0.13, G:0.36, T:0.31
Consensus pattern (9 bp):
ATTTGGGCA
Left flanking sequence: Indices 5905 -- 6404
GCAGGCACGTTGAAGGTCTCGAACATGATCTGGGTCATCTTCTCTCTGTTGGTCTTGGGGTTCAT
GGGGGCCTCGGTCAACAACACGGGGTGCTCCTCGGGGGCAACACGCAACTCGTTGTAGAAGGTGT
GGTGCCAGATCTTCTCCATGTCGTCCCAGTTGGTGACGATACCGTGCTCGATGGGGTAACGCAAG
GTCAAGATACCACGCTTGGACTGGGCCTCGTCACCGACGTACGAGTCCTTCTGGCCCATGCCGAC
CATGATACCCTGGTGACGGGGGCGACCGACAATCGAGGGGAAAACGGCCCGGGGAGCGTCGTCAC
CGGCAAAACCGGCCTTGCACATACCGGAACCGTTGTCAATAACCAAAGCAGCAACTTCTTCTATT
TTTGTTAGTAGCGGTTCGCGTTGACGAGGCAATGCTTATGGGGTTGGGGCTTGGAGCGTATGGGG
CTTATAGTGTGGCGTTGTCCCAGGTTTAGGGCTCGATTTTTAGCG
Right flanking sequence: Indices 6450 -- 6949
AAAAGGTCATTACCGGATCGCACCGACGGGTTGTTTTCCTTGGGCAACTTCCCTGGCCACCGTGT
TTGCCGGTGCCCGTGTGTGAGCCCGCTGGTTGCGTGGGTTGCGGGGCCCGGGTGTGGAAAATTTC
ACATTTGCGCGCGCATGGGATAAAAAGCAACCGAGTAATAGGGGGCGGGGCTGGCCACCGCCTGT
GGGCTGAGCGGTGGTGGAAACGCTGGTTCGCAACCACCACTGGGTCTCCACACCCTGGGTGGTTC
CCCATGGCTGCCCTGTTTCCCGTTTCCCGCCAATTCTCCTGGTTGCCCCTTTTCGTCCATTGCGA
TTTTCGCGCGCGGGGAATTGGCCGGCCGCCACGGGCCCGTAGAACCACCAGCGAGCCCAGACTAG
GGCAGAGCCCGGTCTATGGGGGCCACCCGGTCCCAATTGTGTTGCTTGCCGGCGCTTCTGGTCCA
CCATTGTCGGAATCGTGTTTGGAATCACCAGATCGCCCGCCCGTG
Found at i:6442 original size:17 final size:18
Alignment explanation
Indices: 6405--6448 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
6395 ATTTTTAGCG
*
6405 ATTTGGGCAGTTTGGGCA
1 ATTTGGGCAGTTTGCGCA
6423 ATTTGGGCAG-TTGCGCA
1 ATTTGGGCAGTTTGCGCA
6440 ATTTGGGCA
1 ATTTGGGCA
6449 AAAAAGGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.18, C:0.14, G:0.36, T:0.32
Consensus pattern (18 bp):
ATTTGGGCAGTTTGCGCA
Left flanking sequence: Indices 5905 -- 6404
GCAGGCACGTTGAAGGTCTCGAACATGATCTGGGTCATCTTCTCTCTGTTGGTCTTGGGGTTCAT
GGGGGCCTCGGTCAACAACACGGGGTGCTCCTCGGGGGCAACACGCAACTCGTTGTAGAAGGTGT
GGTGCCAGATCTTCTCCATGTCGTCCCAGTTGGTGACGATACCGTGCTCGATGGGGTAACGCAAG
GTCAAGATACCACGCTTGGACTGGGCCTCGTCACCGACGTACGAGTCCTTCTGGCCCATGCCGAC
CATGATACCCTGGTGACGGGGGCGACCGACAATCGAGGGGAAAACGGCCCGGGGAGCGTCGTCAC
CGGCAAAACCGGCCTTGCACATACCGGAACCGTTGTCAATAACCAAAGCAGCAACTTCTTCTATT
TTTGTTAGTAGCGGTTCGCGTTGACGAGGCAATGCTTATGGGGTTGGGGCTTGGAGCGTATGGGG
CTTATAGTGTGGCGTTGTCCCAGGTTTAGGGCTCGATTTTTAGCG
Right flanking sequence: Indices 6449 -- 6948
AAAAAGGTCATTACCGGATCGCACCGACGGGTTGTTTTCCTTGGGCAACTTCCCTGGCCACCGTG
TTTGCCGGTGCCCGTGTGTGAGCCCGCTGGTTGCGTGGGTTGCGGGGCCCGGGTGTGGAAAATTT
CACATTTGCGCGCGCATGGGATAAAAAGCAACCGAGTAATAGGGGGCGGGGCTGGCCACCGCCTG
TGGGCTGAGCGGTGGTGGAAACGCTGGTTCGCAACCACCACTGGGTCTCCACACCCTGGGTGGTT
CCCCATGGCTGCCCTGTTTCCCGTTTCCCGCCAATTCTCCTGGTTGCCCCTTTTCGTCCATTGCG
ATTTTCGCGCGCGGGGAATTGGCCGGCCGCCACGGGCCCGTAGAACCACCAGCGAGCCCAGACTA
GGGCAGAGCCCGGTCTATGGGGGCCACCCGGTCCCAATTGTGTTGCTTGCCGGCGCTTCTGGTCC
ACCATTGTCGGAATCGTGTTTGGAATCACCAGATCGCCCGCCCGT
Found at i:8387 original size:9 final size:9
Alignment explanation
Indices: 8375--8402 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
8365 TTCTTCCTTA
8375 CGTCGTCTT
1 CGTCGTCTT
8384 CGTCGTCTT
1 CGTCGTCTT
8393 CGTCGTCTT
1 CGTCGTCTT
8402 C
1 C
8403 ACCTCTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.36, G:0.21, T:0.43
Consensus pattern (9 bp):
CGTCGTCTT
Left flanking sequence: Indices 7875 -- 8374
GGTCGTCTCCCGGGACCCTATGTTTCTATTATTGTCCTCTGCCCGCCGCCCACGCACCGTGGACT
GCCTCTTGGCACGTCGCTGGTGGCAACCCGTTGCGAGCCCTGCATGGGGGCGCTGTTTAATTGCC
ACCGGATGACGACACTGGACGCGAAGTAAAGCACGATCTTGGGCCAGCGACGTGTACAGAGGGGA
TTTATTTACTAAGGTAGGGCGCCAAACGGTAATGGGGCCGTCGTATTATTGTCTGGGGAAAATAA
CGTGGGCAAGACCTGGTGAGACCTGGTGGTTGCTACATCCCGCAACCTTGGTGCAACCTTGGTGG
GTTTTCTCTTTTCAAAAGACTGTCAGCACTAACTCCGTAACCATTGGCAACTCCGGTGGGCACCA
CGGATAGAGAGTGCCAAGAGACAAGCCATAGTCCTGAACCGTCTCTATTCTACACCCACGCCCTA
CTCCCCTCTACGCTGTTCTCTTAGTTCTCTTCTCGTTCTTCCTTA
Right flanking sequence: Indices 8403 -- 8902
ACCTCTTATTGTACTCACTTCCCCATCTCGCACACTGCCTCAACCTTCCACCGCCCACCTGGCAT
TTCTTTTCGCTGGCTGAAAGCCTGCCAGCAAAATGATCCGCCCCTTTTTTCGCTGGCAGGTGCGC
ACACCAAAAATCTCAGTGCCAGACCGACGGATAGCTTGCGTTTCCCCTAGTCCCATCTATTTGAC
ATGTCTTCCTCCGTTCCATATGATCCCTATGAGCCCCAGACCCAGGGCGGTTCTTCGCAAAACCG
TACTGCGGCGATCCAGGCGGTAAGTATACCTTTAGGAAAGTTCCGAGCCGGCCGAGCCACTGGTC
CGTTTTGATTTCGAGATCGATCGAGAAACGGGCGGTGTCACGGGGCTGCGGAGCGTCCGCAGATG
TTGTTTGTGTGTTTCGTTTGTTTGTTGAGCCGATTTTGGCGATTTTTTACGGTGTTTAGTGGTCC
ATGGGCTGCGAGGCCTGATTTTTGGCTTATGCCGCGGTGGGAGCC
Found at i:16409 original size:22 final size:22
Alignment explanation
Indices: 16383--16429 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
16373 GTCTACAAAT
16383 CACCACCTCCACCACCCATC-TC
1 CACCACCTCCACCACCC-TCTTC
16405 CACCACCTCCACCACCCTCTTC
1 CACCACCTCCACCACCCTCTTC
16427 CAC
1 CAC
16430 ACTTTCGCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.21, C:0.64, G:0.00, T:0.15
Consensus pattern (22 bp):
CACCACCTCCACCACCCTCTTC
Left flanking sequence: Indices 15883 -- 16382
GGTTGAAGTCTCAGCTGTAGTTTTGGGTTGGGCCATCAGCCAACACCGCCTAGCAACCTTACACT
CGAGCACCTGCTCACGCTAGGTCACTCTAGCCGTGTCCACACACTCACTGGACAACAGTAGCCTC
GTAAATATTCATCTCTGAAACGCCATTGAAAATTGCCAAACGAAGGCGGGTAGTACGGGGTACTG
TCACGTCACGTTTCATCCCCCCAGGGTCAGCACAGCAATACCCGGACCAGCCACAAAGAGACGGA
TTTGAACAGACCGTGTAGCACCCTGGCTATATCAGTAATATGTCACCTAGCTATACCACTACTAT
TTCACGAATTTTGAACTAGGCGACTCTGATGCTGCCATGGTCGATTCCTTAAGCCGCCCAGCTCA
GTCGCTGCCAAACTTCCTCTTTGTCACCATAATTGCCAGAATGAATATAAAAAGAACGTAGTTCT
ATATCAACGCTCAATCGCACGGTACACCTACAGCCGTCTACAAAT
Right flanking sequence: Indices 16430 -- 16929
ACTTTCGCCCGTCCCCACAATCTCCCTGCACCTCCCGGTGTCGCATCACACTTATCGCCTATATA
CACTCCCTATCACCTCTCCCCACCAACCAACCCCGATACCAAACCTTTACCCACTAGCCCCGCCC
CGAGCCATCCAATTCACTATTCCGCATCATGGTTGGCGGCTGGCTCCCCAACCTCCAAAAACGGA
TGTTGCTCTACTTGCTCCACCAGCTCCTGGTGTTCTCCGACATCGACATGCCCAATCTAACCCAG
GTGTCCCTCAATGGCATTGTTCTCAACCAGGTGACGCTTGACCCCGACAAGGTCATGGCGAAAAT
AGGTGACCGCGCGCCCTTCCACCTCCGGCATGGGGTGCTCGGACATTTTGCCCTCTCTCCCGACG
GAGGCGGGGTGGCCGTCGAGGCCCTGGAGATCGACGTGGTTCTCGCCCTCCTGGTGGGGGACGCG
TCCATCGACGACTTGGAGGCGTCAATTGCCGAGCTGTTGCTGGGG
Found at i:22432 original size:9 final size:9
Alignment explanation
Indices: 22418--22449 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
22408 AGAGGGTCAG
22418 CGTCCTCGT
1 CGTCCTCGT
22427 CGTCCTCGT
1 CGTCCTCGT
*
22436 CGTCCTCAT
1 CGTCCTCGT
22445 CGTCC
1 CGTCC
22450 ACATCCTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.03, C:0.47, G:0.19, T:0.31
Consensus pattern (9 bp):
CGTCCTCGT
Left flanking sequence: Indices 21918 -- 22417
TTATGTCAAGAACCTGTCAAAATAAGCAACTATGGACCGCGGGTAAGGTGAAACCGAGCTCAAAA
ATAACGTATAGAGAGCACGGCCGTGTCACCATGATGTAATACAGATGGTCGACCCGCAAACTATA
GCTTATACACTTCGTTTCCCATCCCAATGCCATTAAATATAAACCGATAATACTTACTGCAAAAG
CGGGTCGCGGAAATGGGGCTGGTTGTTGATAAACTTGGCCGATCTCCGGTCGTTGGTGTCCTCGC
GCTTCTTCTGGTTGGCCCAGGCCCGCTTCTTCTCCTTCAACTCCTGTCTCTCAGGCAACGTCAAC
ATGTGGCGGGTCTCGGCAGCAATGACGGTGCCCTGGCCCTCCAGCAAGATCCGCTCGGGTGCTGG
TGTCTGGCGGTAGTACCGGTTGTACATTCTGTGGCCAAGCACCTGGCCCAGAGGGAGCACGAGCG
AGTTCCCGTGGCGGTAGATGACGTCGTCCGCGGTGAGAGGGTCAG
Right flanking sequence: Indices 22450 -- 22949
ACATCCTCACCACTGACGTCCTCCCACTCACCGTCGTCCTCCTGAGCCACGTCGTCGGCGTTGAC
GATGGTTCTGGGCTTGTAGGAGCTGGTAAAGTCGTAGAACTCTCCGATCTCGAGCTTCTCGTCCT
CGTTCTCGTAGGGAATCCGCATGTGTCTCTTCAGGGCCATGTGCTCGCGAGCACCTTGGCACGTC
CGCGACTGGTACGAGCAGGCAATGCAGAAACCAAACCCGATCTTCTCGCCGAGATAGCTCAAAAG
ACCAGGCAAGTCCGTGAGGTAGTTGCGTTCGGGGATGTACATCCCGTGGGCCTTGAACATGTGGG
TAGCGTTCTCCTCCGGGGAGTCGAATTCACGGGGTTTGTGGCAGAAGAGACAGGTGGTGGAGGGG
ATGTCAACCTTGGCCGCGAGCTTGCTGGCCACGAGGTCTTCTTCGGTGGGTTCGGTGGGCTCGGA
CGCCTCGGTGGGTTCGGAAGCTTCGGTGGGCTCGGAGGTTTCGGT
Found at i:22912 original size:18 final size:18
Alignment explanation
Indices: 22890--22957 Score: 91
Period size: 18 Copynumber: 3.8 Consensus size: 18
22880 CTTCGGTGGG
*
22890 TTCGGTGGGCTCGGACGC
1 TTCGGTGGGCTCGGAAGC
* *
22908 CTCGGTGGGTTCGGAAGC
1 TTCGGTGGGCTCGGAAGC
* *
22926 TTCGGTGGGCTCGGAGGT
1 TTCGGTGGGCTCGGAAGC
22944 TTCGGTGGGCTCGG
1 TTCGGTGGGCTCGG
22958 TCAGAGAGCT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.06, C:0.22, G:0.47, T:0.25
Consensus pattern (18 bp):
TTCGGTGGGCTCGGAAGC
Left flanking sequence: Indices 22390 -- 22889
ATGACGTCGTCCGCGGTGAGAGGGTCAGCGTCCTCGTCGTCCTCGTCGTCCTCATCGTCCACATC
CTCACCACTGACGTCCTCCCACTCACCGTCGTCCTCCTGAGCCACGTCGTCGGCGTTGACGATGG
TTCTGGGCTTGTAGGAGCTGGTAAAGTCGTAGAACTCTCCGATCTCGAGCTTCTCGTCCTCGTTC
TCGTAGGGAATCCGCATGTGTCTCTTCAGGGCCATGTGCTCGCGAGCACCTTGGCACGTCCGCGA
CTGGTACGAGCAGGCAATGCAGAAACCAAACCCGATCTTCTCGCCGAGATAGCTCAAAAGACCAG
GCAAGTCCGTGAGGTAGTTGCGTTCGGGGATGTACATCCCGTGGGCCTTGAACATGTGGGTAGCG
TTCTCCTCCGGGGAGTCGAATTCACGGGGTTTGTGGCAGAAGAGACAGGTGGTGGAGGGGATGTC
AACCTTGGCCGCGAGCTTGCTGGCCACGAGGTCTTCTTCGGTGGG
Right flanking sequence: Indices 22958 -- 23457
TCAGAGAGCTGGCCTCAGAAACGGGCTGAGCCTGGTCTTGGGTGGTGGGGGGGGCTGTGGTTTGC
TCGGCCTGTTTGCTTGAGGTCGTGGGCGCGGGCTTTTCGTCCTCGGTCTTCGTGGCCTCCTTTTG
CGACTCGGCCATCGCCTTGCGGGCCATCGCCAAGATCTGGCGCTTCTGCTCCTGGATCTCCTCCT
TCTTCTTGCGACGCTCGTCCCGCTTGGTCTGCTGCTGGGTCTCCTCGGGCTGGGTTAACACCGCC
ACCTTTTCGGTGAACTGGGCCTCCAGGATGGGGGGCAATTGTGCCACGCGACGTTTGAGGTTGTA
GCGATGCCAGTCGCTACGCATGTGGTCCCGCTGGGACTGCGAGCTGTCAAATGAGAGCGTACACG
TGTTACAGGTGAACATGCTCTATGGTATCGATGCGATGAGGATAAGCGATGAGCGCGATGAGCTG
AAAAAAGGGTGGTGGAGAGGTAGGCAGGAAGTGGGGTGTACAAAC
Found at i:36781 original size:5 final size:5
Alignment explanation
Indices: 36771--36828 Score: 80
Period size: 5 Copynumber: 11.6 Consensus size: 5
36761 TACCATTGTT
* * *
36771 CTCTC CTCTC CTCTC TTCCC CTCTC CTCCC CTCTC CTCTC CTCTC CTCTC
1 CTCTC CTCTC CTCTC CTCTC CTCTC CTCTC CTCTC CTCTC CTCTC CTCTC
*
36821 TTCTC CTC
1 CTCTC CTC
36829 CACCCTCCTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (5 bp):
CTCTC
Left flanking sequence: Indices 36271 -- 36770
TGCTTGACTTTGTTGAGCTGGTGTACGTGCCCCAGATCGACAGCTACATCTTGAACTACAAGCAG
TTGTCGCAGGATGACATCACCTACAAGTACAACTACTTTGAGGAGATGTTGTTGAAGGAGTTGAT
GAAGTTGGACGAGGTCGAGGTCACCGGGAACGACATTCTCCGCGAGAACCGCCGCAAGGTGATCA
AGTTTATCCAGGACCACCAGAAGCGGTTGGACAAGTTTAGACTGGAGGTGGGGTTTTAATAGTAA
TAAGATCGACTGTCATTGATGCGAATGAGCTAGAAGTTGTAGAGTGTTGTAGAGGCGCAGTGTTG
ACGAGAGGGGGAAAGGCTGTACAATGGATATAGCTCAAAGGTTGGTTTATGAAACTGGAAGAAAC
AACTCGTAAGTTGCTTTCGAAACAATATGGTAAAGGTTTTGGTGCAAAATGGAGCTGTCCCACGC
TCACAATAGCCCACGCACTATTGTCTCACCAAGCCTACCATTGTT
Right flanking sequence: Indices 36829 -- 37328
CACCCTCCTTCCGTGCATGGACCCTGTCCTCGTATATCGCTTCGGCACAGCTTCGCGGTTTCCAC
ACATACTATTAATACATAATACAACACAGCCGGAACCAGTCCTACTTTTGCGCCTGCTGCTGGCG
GTGTGCCAACAACTGCTGTTGCTGCTGCTGGTAGCGCTGCAACTGCTGCTGGAACGCCTGCTGCT
GCAACTGGTTGACGTGGGCCGTCATCGAGATGGCCTTGGACGGAGCCCGCACCTGGTACACCTCG
CCGGGGATCAGCAGGTACGCCTGGGTCTGCTCCAGAGTCTGGTCGACGTTGATGAGCGCACACCG
GCCCTGGAGCCCGCCAATGGACCCCAGGATCGCCTGGTTGGCCAACGTCTGGTCCAGGGCGTTGG
CGTCGGTCTGCGCCAGTTTCTGGGCGCTGTTGTTGGCCAGGATGATCAACGCGTTGGCGTAGGCC
TCGCGCATGGCCAAGAACCGGTGTCTGCTGCGCAACGGCATGATC
Found at i:36836 original size:20 final size:19
Alignment explanation
Indices: 36773--36837 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
36763 CCATTGTTCT
*
36773 CTCCTCTCCTCTCTTCCCC
1 CTCCTCTCCTCTCCTCCCC
* *
36792 TCTCCTCCCCTCTCCTCTCCT
1 -CTCCTCTCCTCTCCTC-CCC
*
36813 CTCCTCTCTTCTCCTCCACC
1 CTCCTCTCCTCTCCTCC-CC
36833 CTCCT
1 CTCCT
36838 TCCGTGCATG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 1 0.03
20 34 0.92
21 2 0.05
ACGTcount: A:0.02, C:0.62, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCCTCTCCTCTCCTCCCC
Left flanking sequence: Indices 36273 -- 36772
CTTGACTTTGTTGAGCTGGTGTACGTGCCCCAGATCGACAGCTACATCTTGAACTACAAGCAGTT
GTCGCAGGATGACATCACCTACAAGTACAACTACTTTGAGGAGATGTTGTTGAAGGAGTTGATGA
AGTTGGACGAGGTCGAGGTCACCGGGAACGACATTCTCCGCGAGAACCGCCGCAAGGTGATCAAG
TTTATCCAGGACCACCAGAAGCGGTTGGACAAGTTTAGACTGGAGGTGGGGTTTTAATAGTAATA
AGATCGACTGTCATTGATGCGAATGAGCTAGAAGTTGTAGAGTGTTGTAGAGGCGCAGTGTTGAC
GAGAGGGGGAAAGGCTGTACAATGGATATAGCTCAAAGGTTGGTTTATGAAACTGGAAGAAACAA
CTCGTAAGTTGCTTTCGAAACAATATGGTAAAGGTTTTGGTGCAAAATGGAGCTGTCCCACGCTC
ACAATAGCCCACGCACTATTGTCTCACCAAGCCTACCATTGTTCT
Right flanking sequence: Indices 36838 -- 37337
TCCGTGCATGGACCCTGTCCTCGTATATCGCTTCGGCACAGCTTCGCGGTTTCCACACATACTAT
TAATACATAATACAACACAGCCGGAACCAGTCCTACTTTTGCGCCTGCTGCTGGCGGTGTGCCAA
CAACTGCTGTTGCTGCTGCTGGTAGCGCTGCAACTGCTGCTGGAACGCCTGCTGCTGCAACTGGT
TGACGTGGGCCGTCATCGAGATGGCCTTGGACGGAGCCCGCACCTGGTACACCTCGCCGGGGATC
AGCAGGTACGCCTGGGTCTGCTCCAGAGTCTGGTCGACGTTGATGAGCGCACACCGGCCCTGGAG
CCCGCCAATGGACCCCAGGATCGCCTGGTTGGCCAACGTCTGGTCCAGGGCGTTGGCGTCGGTCT
GCGCCAGTTTCTGGGCGCTGTTGTTGGCCAGGATGATCAACGCGTTGGCGTAGGCCTCGCGCATG
GCCAAGAACCGGTGTCTGCTGCGCAACGGCATGATCACGTTGCGT
Found at i:37025 original size:21 final size:21
Alignment explanation
Indices: 36973--37025 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
36963 GCCAACAACT
* *
36973 GCTGTTGCTGCTGCTGGTAGC
1 GCTGCTGCTGCTGCTGGAAGC
**
36994 GCTGCAACTGCTGCTGGAA-C
1 GCTGCTGCTGCTGCTGGAAGC
37014 GCCTGCTGCTGC
1 G-CTGCTGCTGC
37026 AACTGGTTGA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.09, C:0.30, G:0.34, T:0.26
Consensus pattern (21 bp):
GCTGCTGCTGCTGCTGGAAGC
Left flanking sequence: Indices 36473 -- 36972
CCAGGACCACCAGAAGCGGTTGGACAAGTTTAGACTGGAGGTGGGGTTTTAATAGTAATAAGATC
GACTGTCATTGATGCGAATGAGCTAGAAGTTGTAGAGTGTTGTAGAGGCGCAGTGTTGACGAGAG
GGGGAAAGGCTGTACAATGGATATAGCTCAAAGGTTGGTTTATGAAACTGGAAGAAACAACTCGT
AAGTTGCTTTCGAAACAATATGGTAAAGGTTTTGGTGCAAAATGGAGCTGTCCCACGCTCACAAT
AGCCCACGCACTATTGTCTCACCAAGCCTACCATTGTTCTCTCCTCTCCTCTCTTCCCCTCTCCT
CCCCTCTCCTCTCCTCTCCTCTCTTCTCCTCCACCCTCCTTCCGTGCATGGACCCTGTCCTCGTA
TATCGCTTCGGCACAGCTTCGCGGTTTCCACACATACTATTAATACATAATACAACACAGCCGGA
ACCAGTCCTACTTTTGCGCCTGCTGCTGGCGGTGTGCCAACAACT
Right flanking sequence: Indices 37026 -- 37525
AACTGGTTGACGTGGGCCGTCATCGAGATGGCCTTGGACGGAGCCCGCACCTGGTACACCTCGCC
GGGGATCAGCAGGTACGCCTGGGTCTGCTCCAGAGTCTGGTCGACGTTGATGAGCGCACACCGGC
CCTGGAGCCCGCCAATGGACCCCAGGATCGCCTGGTTGGCCAACGTCTGGTCCAGGGCGTTGGCG
TCGGTCTGCGCCAGTTTCTGGGCGCTGTTGTTGGCCAGGATGATCAACGCGTTGGCGTAGGCCTC
GCGCATGGCCAAGAACCGGTGTCTGCTGCGCAACGGCATGATCACGTTGCGTTCTAGCGGGATGG
GGTTGTTCTTGGAGAGGCCCTCAAGCACCAACTGGGTCTCCTCGTCGGGGTCAAGCACGCGGGTG
GCAAACACGTCGTCGTCGCGGAGCTCGGCGTTCTCGCGCTGCTGCACCGCAAGCGCATTGGACGC
GGCCATCTTGGCTTTGTTCCGTTTTTGGTACTGCTGCAAAAGCAC
Found at i:37709 original size:15 final size:15
Alignment explanation
Indices: 37691--37720 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37681 TGGGCTTGGC
*
37691 CTGCTGCTTTTTCTT
1 CTGCTCCTTTTTCTT
37706 CTGCTCCTTTTTCTT
1 CTGCTCCTTTTTCTT
37721 GCCCTCCTTC
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:0.00, C:0.30, G:0.10, T:0.60
Consensus pattern (15 bp):
CTGCTCCTTTTTCTT
Left flanking sequence: Indices 37191 -- 37690
TTGGCCAACGTCTGGTCCAGGGCGTTGGCGTCGGTCTGCGCCAGTTTCTGGGCGCTGTTGTTGGC
CAGGATGATCAACGCGTTGGCGTAGGCCTCGCGCATGGCCAAGAACCGGTGTCTGCTGCGCAACG
GCATGATCACGTTGCGTTCTAGCGGGATGGGGTTGTTCTTGGAGAGGCCCTCAAGCACCAACTGG
GTCTCCTCGTCGGGGTCAAGCACGCGGGTGGCAAACACGTCGTCGTCGCGGAGCTCGGCGTTCTC
GCGCTGCTGCACCGCAAGCGCATTGGACGCGGCCATCTTGGCTTTGTTCCGTTTTTGGTACTGCT
GCAAAAGCACGTCATAGGGCGCCAGCCGGCCGGGAACAGCACGTTTTGCGCCCATCAGATGGGTC
TTGCACGTCAACGAGCGGGCACAGTGGCCGCCCGAGGGCAAGGGCACACCGCAGTGGGTCTCCAC
GTCCACAGGTCCCTTGGCCTTGGCGGCGGCCGCCTTGGGCTTGGC
Right flanking sequence: Indices 37721 -- 38220
GCCCTCCTTCTCACGCTGGGCCATCAGCTTTTTGTACTTCTTCTTCGGCTTCGTCTCCACCGGGC
CGTTGGGCTGGGGCGTCAGCGTGCGGGTCAGGTCGACCAGCAGCGGCTCCTCCACGGGCCGGCCG
CGTTTGCGCTTCAGGGCCTGCACTGCGGCGGTGGCGGCGGGCACGGGTGTCTCGCCAGTCTCGTC
CTTGAGTTTCTGGCGCATCTCTACACACCGCTGGTAGTGGGAGTCCAACGAGGCGGCTCCGATGG
GTCGCTGGCACGAAGTGCAGACTTTGTAGGGTACCGCGGTGGCGAGCAAGCTCACGCCAGGGGTC
TGAGGCACGCGGCGAGGAAGTGACGACGGGGGCGGCGCTACAGCGACTTTCTTGTCGAGGTAGGC
ACCAAACTCTTTCCAAACGACGGGTTTGTGGGCGATGGGCGGGAGCAGGTCGGGTGAAATGAGCA
TCAGCCGAGCTGGGTGGGGTTGGGTTGTGCGTGGGTGGCGGTAAA
Found at i:40907 original size:12 final size:12
Alignment explanation
Indices: 40886--40926 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
40876 CGGGGCCGCC
*
40886 GGTGGTATGCCT
1 GGTGGAATGCCT
40898 GGTGGAATGCCT
1 GGTGGAATGCCT
* *
40910 GGTGGCATGCCC
1 GGTGGAATGCCT
40922 GGTGG
1 GGTGG
40927 TGCTCCCGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.10, C:0.20, G:0.46, T:0.24
Consensus pattern (12 bp):
GGTGGAATGCCT
Left flanking sequence: Indices 40386 -- 40885
CCAAGACCAAGGACAACAACTTGCTTGGTAAGTTTGAGCTCTCGGGCATTCCGCCCGCTCCTCGT
GGTGTTCCTCAAATCGAGGTCACCTTTGACTTGGACGCCAACGGGATCTTGAACGTCTCCGCGGT
GGAAAAGGGCACTGGTAAGACCCAGAAGATCACCATCACCAACGACAAGGGCCGGTTGTCCAAGG
AGGACATCGAGCGGATGGTGTCTGAGGCCGAGAAGTTCAAGGAGGAGGACGAGGCCGAGGCTGCG
AGAGTCCAGGCCAAGAACGGGCTCGAGGCGTATGCCTACTCGTTGAAGAACTCCATCAACGACGG
CGAAATGAAGGACAAGATTGCCGCTGACGATAAGGCCGCCCTCGAAAAGGCTATTGACGAGGTGA
CCCAGTGGTTGGACACCGCGCAACTGGCGACCAAGGACGAGTACGCAGACCGCCAGAAGGAGTTG
GAGAGCGTGGCCAACCCGATCATGAGCAAGGCTTACGGGGCCGCC
Right flanking sequence: Indices 40927 -- 41426
TGCTCCCGAGGGCTCCAACGACGGGCCCTCCGTTGAGGAAGTTGACTAAACAGGATATTTATAGA
TTAATGAATTGATTTACGTGAAAAACTTTAAGAGGCTTTGTTATGGGTCTTGTATAAGTGTATTG
AGATGGCTTCTGGTGTTAGGTCACTAGATGTATCAGCAAGAAAATACTATGAAAGCCAAATGAAC
ACTACACCCTTGTAAGACAAAGTACCAACTAAGAGGAGAAAAAAGATCGTGAAAAGAGAATAGAC
TGTAATAATAAGAGTCAAAACAGCCACCGAGTTTCAATCGTCACCCTAACCTCTTTTAAATTAAT
ACCCATCTCTCGATCTCTGTCTCCACCCTTGCGACAGCCGTTATCGCTCACGCTGTGTGCAGTAC
ATGTAGCAAAACCACTCTACGCTAACCCCGTTTGAAACGCCTCTACCACCAATTGGAGCCTTTAC
TCTTTCTCGCACTAACTCGCCGTACCCCCTCTCACCTTCACCAAC
Found at i:47341 original size:8 final size:8
Alignment explanation
Indices: 47328--47354 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
47318 CCCATACACC
47328 CCTATACA
1 CCTATACA
47336 CCTATACA
1 CCTATACA
47344 CCTATACA
1 CCTATACA
47352 CCT
1 CCT
47355 CACCCCTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.41, G:0.00, T:0.26
Consensus pattern (8 bp):
CCTATACA
Left flanking sequence: Indices 46828 -- 47327
GACCACGGGGGTTATCACCGCTGATCTTCCCCCTGGTAAAGCAACTGGAAAATCTTGCCGGTAGA
CCGATGTTATGTGCCAGGGGCTACATGACAGCTAAACAATTGCCCCGGATTGTGGATTATGCACT
ACGTGTAGTGAAACCCTATTTGGTGGTCGGTTGGGTTCGGGTTGGTTTCGGAGCGAGGAGGATTG
CGGCCACGGGCGGTTGGGACTCGGGCGGCTTGACCGCGCCCAGGCCGGCCCCACCCGGTACCCCT
CGTGGGGATCGTCCGGGCCCGATGACTCCAGAGCTCACGTGGGATTAGTCAACCAGCCTGTGTCC
TGCATGGCGCGATCAAAGGTCGGACCCGGTGACATCATCGATTCGGGGTTAACGCTGGACGACGG
GCTCGGTGAAACTGTTGGCTGAATTATAACTGTTGGTCCTGCCGGTTGAAATGTCGGGCCCACCG
TTGTCGGTGGGCTCCATCGCCTATACACCCCTACTCCCATACACC
Right flanking sequence: Indices 47355 -- 47854
CACCCCTATACAACCCGACATGCCTTAAAGTACATACGTAGCCTACCGCATACCGGTCTCGGTTC
CGACTACGCGACTCCGAGCAGACACCCGCCGCTACCGGGCGTTATTGTCCTGCTGGAGGTTCTGC
GGCAAATTAAGGCGTCGCCCATGCGTCGTGGGTGGTTTAGTCGTACGATGGCCGAGAAAGATGCA
CCCCGGACCCGGGCTTTGGCTGCACGGGTGCGTCGGGTGTGGCTGGTGAGACGCTGGGCGCGCTG
GGGTGGGCACGGTGGTGGTGCTGGGAGTCTGGGGTGGCCGTAGAATTTGCAGCCACCGTCAACGA
GGGCTACTGGCTCTCCAGCGGGTTCCGACTACCACCGGGCTAAGCCCGCGACATCTTATTATCAG
ACAATTGTAGATCGACCCACTCGAAGCGTCTCGGGGCGCCCCACAATGGTTTAGTCGAGATCTGA
CGATACTAAAATAGGCCCGGTTGGTGGCAGCCCGGACATTAAGGG
Found at i:47350 original size:26 final size:26
Alignment explanation
Indices: 47302--47353 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
47292 GGCTCCATCG
* *
47302 CCTATACACCCCTACTCCCATACACC
1 CCTATACACCCATACACCCATACACC
* *
47328 CCTATACACCTATACACCTATACACC
1 CCTATACACCCATACACCCATACACC
47354 TCACCCCTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.48, G:0.00, T:0.21
Consensus pattern (26 bp):
CCTATACACCCATACACCCATACACC
Left flanking sequence: Indices 46802 -- 47301
GTGTTAGCAACCGTAAAAAGCAATGCGACCACGGGGGTTATCACCGCTGATCTTCCCCCTGGTAA
AGCAACTGGAAAATCTTGCCGGTAGACCGATGTTATGTGCCAGGGGCTACATGACAGCTAAACAA
TTGCCCCGGATTGTGGATTATGCACTACGTGTAGTGAAACCCTATTTGGTGGTCGGTTGGGTTCG
GGTTGGTTTCGGAGCGAGGAGGATTGCGGCCACGGGCGGTTGGGACTCGGGCGGCTTGACCGCGC
CCAGGCCGGCCCCACCCGGTACCCCTCGTGGGGATCGTCCGGGCCCGATGACTCCAGAGCTCACG
TGGGATTAGTCAACCAGCCTGTGTCCTGCATGGCGCGATCAAAGGTCGGACCCGGTGACATCATC
GATTCGGGGTTAACGCTGGACGACGGGCTCGGTGAAACTGTTGGCTGAATTATAACTGTTGGTCC
TGCCGGTTGAAATGTCGGGCCCACCGTTGTCGGTGGGCTCCATCG
Right flanking sequence: Indices 47354 -- 47853
TCACCCCTATACAACCCGACATGCCTTAAAGTACATACGTAGCCTACCGCATACCGGTCTCGGTT
CCGACTACGCGACTCCGAGCAGACACCCGCCGCTACCGGGCGTTATTGTCCTGCTGGAGGTTCTG
CGGCAAATTAAGGCGTCGCCCATGCGTCGTGGGTGGTTTAGTCGTACGATGGCCGAGAAAGATGC
ACCCCGGACCCGGGCTTTGGCTGCACGGGTGCGTCGGGTGTGGCTGGTGAGACGCTGGGCGCGCT
GGGGTGGGCACGGTGGTGGTGCTGGGAGTCTGGGGTGGCCGTAGAATTTGCAGCCACCGTCAACG
AGGGCTACTGGCTCTCCAGCGGGTTCCGACTACCACCGGGCTAAGCCCGCGACATCTTATTATCA
GACAATTGTAGATCGACCCACTCGAAGCGTCTCGGGGCGCCCCACAATGGTTTAGTCGAGATCTG
ACGATACTAAAATAGGCCCGGTTGGTGGCAGCCCGGACATTAAGG
Found at i:48317 original size:22 final size:22
Alignment explanation
Indices: 48293--48342 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 22
48283 GCATTTCCAT
48293 TTTTCACCACC-TCGCCTACCA
1 TTTTCACCACCTTCGCCTACCA
48314 TTTT-ACCACCTTCGCCTACCA
1 TTTTCACCACCTTCGCCTACCA
48335 TTTTCACC
1 TTTTCACC
48343 TCCCTTCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.22
21 18 0.67
22 3 0.11
ACGTcount: A:0.18, C:0.44, G:0.04, T:0.34
Consensus pattern (22 bp):
TTTTCACCACCTTCGCCTACCA
Left flanking sequence: Indices 47793 -- 48292
GTTTAGTCGAGATCTGACGATACTAAAATAGGCCCGGTTGGTGGCAGCCCGGACATTAAGGGGCT
CCAGGGGGTGCCCGTCAGGAGATATCGGGACGGGTCCGGGGCGCGGTGGTTCCGGCCCCCGGGTG
GGTTGACTACGGGGTTTGGCTCGGAGGTGGCGGTGGGGGGCCTGGTGGTCTTGTTTACGAGGTGT
CGGGCTCGTAAACCTGGTGTCGTGGGTGGTTAGGGCTGGGGATCCGGTTGCGAGCGCGGGACGCA
AATCTGGTTTGGGGCACTGCGCGACTAAAGCGTTGCGGGCCCCGGTGCTTACTTTAGCGCGGTTG
TAATTGAATTATAGCGGTGGGTGGGGGGACCGGTGAAGGGAGGCAAGGCTAAGCCAGCGGGTCGT
GAGAATAAAAGCTTTGCAGATGGAGGGTATGCTTGCACTTGTGGGTTTAACCTGTGCCACTTGAC
TGACCCTGAACGCGTCTGCCCCTTCCACAATCCCCGCATTTCCAT
Right flanking sequence: Indices 48343 -- 48842
TCCCTTCCATTTTTGGTCCGTGCACGACCGCTCTCACCACCGTAGCGCACCGAGCCGCACGCGCG
CTATCCAATAACGTTGCACTCGAATGAAACTTTTTTCCAGCACCTCCGAACACTGACGATGTCGC
TGCCGATTTTACCGTTTACCGAGGCCAATTCGAAGCGGGTGGCGCTGCTCTTCCGCCTGGCGTTG
CGCACTGCCTTCGACCTGCTGCTCAAGTTTGACGCCTACCGCCAGAAGACCATCGAGATCCGTGC
GGCGTTCGAGGCCAACAAGCACCTCAACACCCCGGAGGAGGTGGAGGAGTGCTATGCCAAGGGCC
AGGCCAAGCTTGCCGAGTGGAAGCACCCCGACCCCTACATTCCCCCCTGCCGCCCCGGTGGTACC
AAGTACCAGAGAAACATCCCCGTGGAGCGCGGTCCCCTTGTCCCTGGCGACTGGTAATCCCCTGG
CGGGTTGGTTGTTGAGGTGCCTCTGCGGAGGAGGCACCGACCTGA
Found at i:48354 original size:17 final size:19
Alignment explanation
Indices: 48300--48355 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 19
48290 CATTTTTCAC
48300 CACCTCGCCTACCATTTTA
1 CACCTCGCCTACCATTTTA
48319 CCACCTTCGCCTACCATTTT-
1 -CACC-TCGCCTACCATTTTA
*
48339 CACCTC-CCTTCCATTTT
1 CACCTCGCCTACCATTTT
48356 TGGTCCGTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 10 0.29
18 2 0.06
19 4 0.12
20 4 0.12
21 14 0.41
ACGTcount: A:0.16, C:0.45, G:0.04, T:0.36
Consensus pattern (19 bp):
CACCTCGCCTACCATTTTA
Left flanking sequence: Indices 47800 -- 48299
CGAGATCTGACGATACTAAAATAGGCCCGGTTGGTGGCAGCCCGGACATTAAGGGGCTCCAGGGG
GTGCCCGTCAGGAGATATCGGGACGGGTCCGGGGCGCGGTGGTTCCGGCCCCCGGGTGGGTTGAC
TACGGGGTTTGGCTCGGAGGTGGCGGTGGGGGGCCTGGTGGTCTTGTTTACGAGGTGTCGGGCTC
GTAAACCTGGTGTCGTGGGTGGTTAGGGCTGGGGATCCGGTTGCGAGCGCGGGACGCAAATCTGG
TTTGGGGCACTGCGCGACTAAAGCGTTGCGGGCCCCGGTGCTTACTTTAGCGCGGTTGTAATTGA
ATTATAGCGGTGGGTGGGGGGACCGGTGAAGGGAGGCAAGGCTAAGCCAGCGGGTCGTGAGAATA
AAAGCTTTGCAGATGGAGGGTATGCTTGCACTTGTGGGTTTAACCTGTGCCACTTGACTGACCCT
GAACGCGTCTGCCCCTTCCACAATCCCCGCATTTCCATTTTTCAC
Right flanking sequence: Indices 48356 -- 48855
TGGTCCGTGCACGACCGCTCTCACCACCGTAGCGCACCGAGCCGCACGCGCGCTATCCAATAACG
TTGCACTCGAATGAAACTTTTTTCCAGCACCTCCGAACACTGACGATGTCGCTGCCGATTTTACC
GTTTACCGAGGCCAATTCGAAGCGGGTGGCGCTGCTCTTCCGCCTGGCGTTGCGCACTGCCTTCG
ACCTGCTGCTCAAGTTTGACGCCTACCGCCAGAAGACCATCGAGATCCGTGCGGCGTTCGAGGCC
AACAAGCACCTCAACACCCCGGAGGAGGTGGAGGAGTGCTATGCCAAGGGCCAGGCCAAGCTTGC
CGAGTGGAAGCACCCCGACCCCTACATTCCCCCCTGCCGCCCCGGTGGTACCAAGTACCAGAGAA
ACATCCCCGTGGAGCGCGGTCCCCTTGTCCCTGGCGACTGGTAATCCCCTGGCGGGTTGGTTGTT
GAGGTGCCTCTGCGGAGGAGGCACCGACCTGAGGTGCCCTGCGGC
Found at i:49008 original size:9 final size:9
Alignment explanation
Indices: 48994--49037 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
48984 TATCGGTGTC
48994 AGTGGAGGT
1 AGTGGAGGT
49003 AGTGGA-GT
1 AGTGGAGGT
49011 AGTGGAGGT
1 AGTGGAGGT
* *
49020 AATGGTGGT
1 AGTGGAGGT
49029 AGTGGAGGT
1 AGTGGAGGT
49038 GCAGGTGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 8 0.27
9 22 0.73
ACGTcount: A:0.23, C:0.00, G:0.52, T:0.25
Consensus pattern (9 bp):
AGTGGAGGT
Left flanking sequence: Indices 48494 -- 48993
AGGCCAATTCGAAGCGGGTGGCGCTGCTCTTCCGCCTGGCGTTGCGCACTGCCTTCGACCTGCTG
CTCAAGTTTGACGCCTACCGCCAGAAGACCATCGAGATCCGTGCGGCGTTCGAGGCCAACAAGCA
CCTCAACACCCCGGAGGAGGTGGAGGAGTGCTATGCCAAGGGCCAGGCCAAGCTTGCCGAGTGGA
AGCACCCCGACCCCTACATTCCCCCCTGCCGCCCCGGTGGTACCAAGTACCAGAGAAACATCCCC
GTGGAGCGCGGTCCCCTTGTCCCTGGCGACTGGTAATCCCCTGGCGGGTTGGTTGTTGAGGTGCC
TCTGCGGAGGAGGCACCGACCTGAGGTGCCCTGCGGCACGCTTTGCATTATAATAAACATTAGAG
AAGAGTAAGTTGGGAGTTAGCAATGGAGTAGATGGGTTAGAGGTGGTTAGAGCGAGTTGTGGTGA
TGGGTGTGGCTTGTGGTGTGGCAATGGTAGCACCATATCGGTGTC
Right flanking sequence: Indices 49038 -- 49537
GCAGGTGTGTGTGCAAGTATATGTGCTCAATGGAAGTGATGGGAAATGTAGGTAGCTGTCAATCT
CGGTAGACATACCAATGAGTACTGTGTACCGGAGGCCAGCTAGGATCATTCTATTACCGTTAAAA
TATTCCTTCCACTGTCTTTCTCACAGTGGTATGTTCTGTACTCTTGTGTTCAGTACTCCACTATG
TTCAGTACACCTCTCAAATCTTAGAGTTTTAATATTTGCCAGGCTCGTATTCCACCCATCCACTC
TTCTCTAACTCTTCTCTAACCCTCCTTGCTGCTCTCCCATCGTCCACTGCACCCTTCCGCCCGTT
TCCTGTCACTTAGCGTGTCCCAGACACTCTATTCCCACACCTTTCCCAGAAAACCCTCCAAAACG
ACTAAATCGCTCGGGCAACCCCGGAAACCACCGGTACGAACCTTGCTCCGGTCCACCCCGGCTGT
TCTATTATCCCCCCGCGACATTTCGCCACGTAGGACCGCTGTTCT
Found at i:49044 original size:18 final size:18
Alignment explanation
Indices: 48994--49037 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
48984 TATCGGTGTC
* *
48994 AGTGGAGGTAGTGG-AGT
1 AGTGGAGGTAATGGTGGT
49011 AGTGGAGGTAATGGTGGT
1 AGTGGAGGTAATGGTGGT
49029 AGTGGAGGT
1 AGTGGAGGT
49038 GCAGGTGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.23, C:0.00, G:0.52, T:0.25
Consensus pattern (18 bp):
AGTGGAGGTAATGGTGGT
Left flanking sequence: Indices 48494 -- 48993
AGGCCAATTCGAAGCGGGTGGCGCTGCTCTTCCGCCTGGCGTTGCGCACTGCCTTCGACCTGCTG
CTCAAGTTTGACGCCTACCGCCAGAAGACCATCGAGATCCGTGCGGCGTTCGAGGCCAACAAGCA
CCTCAACACCCCGGAGGAGGTGGAGGAGTGCTATGCCAAGGGCCAGGCCAAGCTTGCCGAGTGGA
AGCACCCCGACCCCTACATTCCCCCCTGCCGCCCCGGTGGTACCAAGTACCAGAGAAACATCCCC
GTGGAGCGCGGTCCCCTTGTCCCTGGCGACTGGTAATCCCCTGGCGGGTTGGTTGTTGAGGTGCC
TCTGCGGAGGAGGCACCGACCTGAGGTGCCCTGCGGCACGCTTTGCATTATAATAAACATTAGAG
AAGAGTAAGTTGGGAGTTAGCAATGGAGTAGATGGGTTAGAGGTGGTTAGAGCGAGTTGTGGTGA
TGGGTGTGGCTTGTGGTGTGGCAATGGTAGCACCATATCGGTGTC
Right flanking sequence: Indices 49038 -- 49537
GCAGGTGTGTGTGCAAGTATATGTGCTCAATGGAAGTGATGGGAAATGTAGGTAGCTGTCAATCT
CGGTAGACATACCAATGAGTACTGTGTACCGGAGGCCAGCTAGGATCATTCTATTACCGTTAAAA
TATTCCTTCCACTGTCTTTCTCACAGTGGTATGTTCTGTACTCTTGTGTTCAGTACTCCACTATG
TTCAGTACACCTCTCAAATCTTAGAGTTTTAATATTTGCCAGGCTCGTATTCCACCCATCCACTC
TTCTCTAACTCTTCTCTAACCCTCCTTGCTGCTCTCCCATCGTCCACTGCACCCTTCCGCCCGTT
TCCTGTCACTTAGCGTGTCCCAGACACTCTATTCCCACACCTTTCCCAGAAAACCCTCCAAAACG
ACTAAATCGCTCGGGCAACCCCGGAAACCACCGGTACGAACCTTGCTCCGGTCCACCCCGGCTGT
TCTATTATCCCCCCGCGACATTTCGCCACGTAGGACCGCTGTTCT
Found at i:50681 original size:21 final size:18
Alignment explanation
Indices: 50610--50679 Score: 104
Period size: 18 Copynumber: 3.7 Consensus size: 18
50600 GGCACCGGCC
*
50610 CCAACCTCGGGGCAGCCA
1 CCAACCCCGGGGCAGCCA
50628 CCAACCCCGGGGCAGCCA
1 CCAACCCCGGGGCAGCCA
50646 CCAACCCCGGGGCGACGCGCA
1 CCAACCCCGGGGC-A-GC-CA
50667 CCAACCCCGGGGC
1 CCAACCCCGGGGC
50680 GAGCACCGGG
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
18 30 0.62
19 1 0.02
20 2 0.04
21 15 0.31
ACGTcount: A:0.20, C:0.49, G:0.30, T:0.01
Consensus pattern (18 bp):
CCAACCCCGGGGCAGCCA
Left flanking sequence: Indices 50110 -- 50609
ACTCCCTCCTCCCCCGGCCCGCACCACCCACTTGTTGGACGCGGCCCCGAGCACGGTGCCCCCGC
CCGCAGCCAGCCCCGCCCCCGCCCCCGCCGACAAGCGCTGGCACGAGCTCGACCCCATTGGCGAC
ACCCTTCGCCGCCTCCGCCTGGCCGACTACCGCCAATGGCTCCACCACGTCCGCCACACCGACTA
CCACCAGTTGCTCGATCGCGTGGGCACCGCGGCCAGCGACTTTTGTGACGAGCCCCGGGTGGCCC
CCGGGGTGGCGGCGGCGCTCGCAGTGGCAGTGGTGGCCGCGGTGGTGCTCCGCAAACGGGGGCGC
CCGCCCCGCAAGACGGGGCCCAGGGTGGTGATCAACGGCAAGGCGGTGGCCATCTCGGCGCCCCA
GCACAACACCTTCCGCCATGTGGCAGGCACAAACAACGCAGCGGAGGGTGCGGTGCCGGTGCAGG
TGTACACCAGCACCGCCAGCACCGGCACTGGCACCGGCACCGGCC
Right flanking sequence: Indices 50680 -- 51179
GAGCACCGGGGTGAGCACCTACACACCCCTCGGCGACCCTCTCGCCGACCTCGAGTTCGAGCCCC
ACACCGACGACGAGGACACCCTCCCGCCCGCCAGCGAGTTTTCACTGGCGGGGGCGCTGACCCTC
CCGCTGGAGATCGACGGGTTCGCCCAGGGCGACGCCCCCTGGACACTGGGCACGAGCTGCGCCCG
CCTCTTTGCCCCGAAGGAGGGGGTGGCCCGCATCGACGGGTCGGACGAGGTGGTGGCGCTTTCAC
AGACCATCACCAACGACACCGACGAGTGGGCGGAGGGGGTGCCCGAGGTGGCGGTGGCGCGCCCG
GTGGTGGTGGCGGCGGTGGTCGGGGAGACGTTACGGGGCGACCCCGGGGCAGCGACCCCCGGGGC
CGCCCTCCGCCCCGTGGACACCGAGGAGACCGAGGTGGAGGCGGTGGTCTCCGACGACGACGACT
ACGTGGAGGACGCCACCCTCGACGCGGTGGTGCTCCGCGAGGTGG
Found at i:51548 original size:15 final size:13
Alignment explanation
Indices: 51518--51543 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51508 AGACGACGGG
51518 GCGAGGGGGGCGA
1 GCGAGGGGGGCGA
51531 GCGAGGGGGGCGA
1 GCGAGGGGGGCGA
51544 CAGCGTCCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.69, T:0.00
Consensus pattern (13 bp):
GCGAGGGGGGCGA
Left flanking sequence: Indices 51018 -- 51517
CGGTGGTCGGGGAGACGTTACGGGGCGACCCCGGGGCAGCGACCCCCGGGGCCGCCCTCCGCCCC
GTGGACACCGAGGAGACCGAGGTGGAGGCGGTGGTCTCCGACGACGACGACTACGTGGAGGACGC
CACCCTCGACGCGGTGGTGCTCCGCGAGGTGGCGTACGACCCCGTGCCCGGCGCTGGCGACGAGG
ACGTGGACGTGGCCTCCGACACCGAGATCGCCCCCTTGGCGCGGGAGCCCCTGCTCCTGGCGCTG
CCGCCCCGGCCGGCGTCTCTGGCGCTGGCGTCCTCCGGGGACTCCGCGGGGCGCGACCCCACGTC
GCCCATGTCGCAGCTCCTCCGGATGGAGGCGCTGGTCAACGGGCACCACGAGCTGGCGCCCGAGC
TCTACGAGGCCAAGCTCTACGCCAAGGGCCAGGACCTCTACAGTGATCTCTTCAGGCGCAACGGG
TCGGCGGCCTCGTTGAACGGGTCGTTTGCGTTCGAAGACGACGGG
Right flanking sequence: Indices 51544 -- 52043
CAGCGTCCCCTCGGATCCCATCGACTCGTCCCCGATCAAGCTGTCCCCGGAGGAGCCCCTGGGGG
CGTTCCCTCCGAGCTCCCCGCGCGCCTCCTCGGTCTCCCCTCCGGGCTCCTCCGTCTCTCCTCCG
GGCTCCCCCCTGGCCATCCCTCCCGACGCCACCCTCCTCTCGCCGCCGCGCGCCTCCCTCCGCAC
CTCCCCCTCGCGCCCCACGCCCCCGACCCTCACCCTCATCCCCACCGTCGACAACTCCCCCTCGC
CGTCGCTCTCGAGCCCGCGGTCGGAGGGCCGCCTCGACGCCAAGCCCGACGGCCTCCTGCCGTTC
CTCACCACCTCGCGCTCGCCCCCGCAGTCGCCGTTCGCGGCGTCGCTCCTCAAGCTGAGCGTCAC
CTCCGCGGTCACCGCCCCGGCCCCGGGCACGCTGGCGCAGAGCACCACCGGCACCACCCCGCCGG
TGCTCGACCCCAGCCACCCCCTCGCGGGGTTCCCCGACTTGTACC
Found at i:51658 original size:21 final size:21
Alignment explanation
Indices: 51634--51679 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
51624 CCCCGCGCGC
*
51634 CTCCTCGGTCTCCCCTCCGGG
1 CTCCTCCGTCTCCCCTCCGGG
*
51655 CTCCTCCGTCTCTCCTCCGGG
1 CTCCTCCGTCTCCCCTCCGGG
51676 CTCC
1 CTCC
51680 CCCCTGGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.00, C:0.54, G:0.20, T:0.26
Consensus pattern (21 bp):
CTCCTCCGTCTCCCCTCCGGG
Left flanking sequence: Indices 51134 -- 51633
TACGTGGAGGACGCCACCCTCGACGCGGTGGTGCTCCGCGAGGTGGCGTACGACCCCGTGCCCGG
CGCTGGCGACGAGGACGTGGACGTGGCCTCCGACACCGAGATCGCCCCCTTGGCGCGGGAGCCCC
TGCTCCTGGCGCTGCCGCCCCGGCCGGCGTCTCTGGCGCTGGCGTCCTCCGGGGACTCCGCGGGG
CGCGACCCCACGTCGCCCATGTCGCAGCTCCTCCGGATGGAGGCGCTGGTCAACGGGCACCACGA
GCTGGCGCCCGAGCTCTACGAGGCCAAGCTCTACGCCAAGGGCCAGGACCTCTACAGTGATCTCT
TCAGGCGCAACGGGTCGGCGGCCTCGTTGAACGGGTCGTTTGCGTTCGAAGACGACGGGGCGAGG
GGGGCGAGCGAGGGGGGCGACAGCGTCCCCTCGGATCCCATCGACTCGTCCCCGATCAAGCTGTC
CCCGGAGGAGCCCCTGGGGGCGTTCCCTCCGAGCTCCCCGCGCGC
Right flanking sequence: Indices 51680 -- 52179
CCCCTGGCCATCCCTCCCGACGCCACCCTCCTCTCGCCGCCGCGCGCCTCCCTCCGCACCTCCCC
CTCGCGCCCCACGCCCCCGACCCTCACCCTCATCCCCACCGTCGACAACTCCCCCTCGCCGTCGC
TCTCGAGCCCGCGGTCGGAGGGCCGCCTCGACGCCAAGCCCGACGGCCTCCTGCCGTTCCTCACC
ACCTCGCGCTCGCCCCCGCAGTCGCCGTTCGCGGCGTCGCTCCTCAAGCTGAGCGTCACCTCCGC
GGTCACCGCCCCGGCCCCGGGCACGCTGGCGCAGAGCACCACCGGCACCACCCCGCCGGTGCTCG
ACCCCAGCCACCCCCTCGCGGGGTTCCCCGACTTGTACCACCACGCGCGCCCCGTGGCCACCGAC
GTCATTGCCCAGTACCAGTGTCTCATCTCGTTCCCCGAGCGCTCGCACTACGAGATCATGTACCG
CCAGTTGGAGCCGCTCTTGGACTACATGGAGCACCCCAACTTTGC
Found at i:52305 original size:12 final size:12
Alignment explanation
Indices: 52288--52324 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
52278 GGCACACAGG
52288 ACACACAGGTGC
1 ACACACAGGTGC
52300 ACACACAGG-G-
1 ACACACAGGTGC
52310 -CACACAGGTGC
1 ACACACAGGTGC
52321 ACAC
1 ACAC
52325 CCGGGACACC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 8 0.36
10 1 0.05
11 1 0.05
12 12 0.55
ACGTcount: A:0.35, C:0.35, G:0.24, T:0.05
Consensus pattern (12 bp):
ACACACAGGTGC
Left flanking sequence: Indices 51788 -- 52287
GACAACTCCCCCTCGCCGTCGCTCTCGAGCCCGCGGTCGGAGGGCCGCCTCGACGCCAAGCCCGA
CGGCCTCCTGCCGTTCCTCACCACCTCGCGCTCGCCCCCGCAGTCGCCGTTCGCGGCGTCGCTCC
TCAAGCTGAGCGTCACCTCCGCGGTCACCGCCCCGGCCCCGGGCACGCTGGCGCAGAGCACCACC
GGCACCACCCCGCCGGTGCTCGACCCCAGCCACCCCCTCGCGGGGTTCCCCGACTTGTACCACCA
CGCGCGCCCCGTGGCCACCGACGTCATTGCCCAGTACCAGTGTCTCATCTCGTTCCCCGAGCGCT
CGCACTACGAGATCATGTACCGCCAGTTGGAGCCGCTCTTGGACTACATGGAGCACCCCAACTTT
GCCCTGGAGCCCGCGAGGGCCGCCTATATTAACCTCGTGGTCGAGCTCTTGATGCGCCACGACCG
GGGCGAGGCAAAGGAGCACGCGAACAGTGTACCAGGGCACACAGG
Right flanking sequence: Indices 52325 -- 52824
CCGGGACACCAGCACCAGGCCCACGCGCACCCGGACGCACCCGTCCATGTACACTCCCACCCGGG
CAGCCAACCGGGCCAGTCTGGGAACCAGCCGGGTAGCCAGCGAGACAGCCAGGGCAACGAGAGCG
ACCACAACCGTGGGCTGGACCTGGAGCTGACCCCACCAGCAGACTCGGTGCACCAGCGCCACCTC
AAGCGAGCCCTCGCTCTCTTCTTCGACGAGGGCGTGGCTCCACCCCAGGGGACGCTGAGAGCCAC
GTTGACACCGCTGGCGCTGAGTGCCACCCTCAAGACGCTCGTGGCCCTGTTCCCGCCCGCCACCA
CCTTCCAGCAGGTGTTCATCCCCCACTTGCGCCGGGTGTTCTTGTTCCTGGTGGGAGCCCTGGGC
CTGGCCAAGCAGCAGATGGCCCTCTCGGTGCTCAAGGAGTACCTCCGGGTGCACGAGGCGGACGT
GGTGGCGGAGATCGCCGAGCAGCCGCTCGCTGAGACCACCGCCGC
Found at i:52306 original size:21 final size:21
Alignment explanation
Indices: 52280--52333 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
52270 TGTACCAGGG
52280 CACACAGGACACACAGGTGCA
1 CACACAGGACACACAGGTGCA
*
52301 CACACAGGGCACACAGGTGCA
1 CACACAGGACACACAGGTGCA
* *
52322 CACCCGGGACAC
1 CACACAGGACAC
52334 CAGCACCAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.37, G:0.26, T:0.04
Consensus pattern (21 bp):
CACACAGGACACACAGGTGCA
Left flanking sequence: Indices 51780 -- 52279
CCACCGTCGACAACTCCCCCTCGCCGTCGCTCTCGAGCCCGCGGTCGGAGGGCCGCCTCGACGCC
AAGCCCGACGGCCTCCTGCCGTTCCTCACCACCTCGCGCTCGCCCCCGCAGTCGCCGTTCGCGGC
GTCGCTCCTCAAGCTGAGCGTCACCTCCGCGGTCACCGCCCCGGCCCCGGGCACGCTGGCGCAGA
GCACCACCGGCACCACCCCGCCGGTGCTCGACCCCAGCCACCCCCTCGCGGGGTTCCCCGACTTG
TACCACCACGCGCGCCCCGTGGCCACCGACGTCATTGCCCAGTACCAGTGTCTCATCTCGTTCCC
CGAGCGCTCGCACTACGAGATCATGTACCGCCAGTTGGAGCCGCTCTTGGACTACATGGAGCACC
CCAACTTTGCCCTGGAGCCCGCGAGGGCCGCCTATATTAACCTCGTGGTCGAGCTCTTGATGCGC
CACGACCGGGGCGAGGCAAAGGAGCACGCGAACAGTGTACCAGGG
Right flanking sequence: Indices 52334 -- 52833
CAGCACCAGGCCCACGCGCACCCGGACGCACCCGTCCATGTACACTCCCACCCGGGCAGCCAACC
GGGCCAGTCTGGGAACCAGCCGGGTAGCCAGCGAGACAGCCAGGGCAACGAGAGCGACCACAACC
GTGGGCTGGACCTGGAGCTGACCCCACCAGCAGACTCGGTGCACCAGCGCCACCTCAAGCGAGCC
CTCGCTCTCTTCTTCGACGAGGGCGTGGCTCCACCCCAGGGGACGCTGAGAGCCACGTTGACACC
GCTGGCGCTGAGTGCCACCCTCAAGACGCTCGTGGCCCTGTTCCCGCCCGCCACCACCTTCCAGC
AGGTGTTCATCCCCCACTTGCGCCGGGTGTTCTTGTTCCTGGTGGGAGCCCTGGGCCTGGCCAAG
CAGCAGATGGCCCTCTCGGTGCTCAAGGAGTACCTCCGGGTGCACGAGGCGGACGTGGTGGCGGA
GATCGCCGAGCAGCCGCTCGCTGAGACCACCGCCGCCACCGTGTT
Found at i:53242 original size:12 final size:13
Alignment explanation
Indices: 53212--53245 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
53202 GATTAGTGGA
*
53212 TAGAGTGGATTAT
1 TAGAGTGGATTAG
53225 TAGAGTGGA-TAG
1 TAGAGTGGATTAG
53237 TAGAGTGGA
1 TAGAGTGGA
53246 CAATGTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.29
Consensus pattern (13 bp):
TAGAGTGGATTAG
Left flanking sequence: Indices 52712 -- 53211
GGCCTGGCCAAGCAGCAGATGGCCCTCTCGGTGCTCAAGGAGTACCTCCGGGTGCACGAGGCGGA
CGTGGTGGCGGAGATCGCCGAGCAGCCGCTCGCTGAGACCACCGCCGCCACCGTGTTGGCCACCC
TCACCGACGTCATCGCGGTGGTGAAGCGCCAGCTGCCGTCCACCCTGGCCATCCCCCGCAAATAC
ACCGCGGGACTGCCTCTGAAGGTGCTGCTGCCCCAGAAGCTGCTCAACATGGCCGCGCAGAACCA
GTGGCTGCCCGTGGCCGCGCTGTTGGCCGAGCTCTACTTGCTGTTGCTGCGGATGCTCTTGAAGT
CCGACAAGGTCCCCGAAGAGAAGAAGGAGGAGTTGGTGCACGGGTGTCTCGGGTACTTGCACACC
CACATGGTGACGCTCACCACGATCGACCCGGTGACGTTTTTGCCGCTGGCGGTGGACGACGACGT
GGAGTAGGGTGGAGACAGCAGAGGGGATTAGTGTGGATTAGTGGA
Right flanking sequence: Indices 53246 -- 53745
CAATGTATTAATAGACGTTACGGTTAAGGAAGTGGACGTGACGGCTGGGGGGCCGCGAGCGGCGC
CCCCCAGACCCCCCAACGCCTTCTTGTGTGTTGCGTGGTTGGCTGGTGGTTGGCTGGTGGTTGGT
GGCTGGTGGTTGTGGCTCCTTGCTCGAAGAAAATTGCGATAGTTGAGTTTTCATTGAGACTCGAT
AAAGCATAGAAAGAGAAGAACATATCGGTCGAGGTGCTATATAGGCTATTTCAACTAGGTTTGTG
GCCCGCAAACCCGGTCTTTCCGCGCTTTTGGGTGCTCTGCGGGTGGCTGCAAATTTGGTCAGAAT
TGCCTATTTGGGCCGACAAAGGCACCCGTCGTAAAACAAATCTACCCGATTGAGAACGCAATGGA
CACCACACCCACCGCGTAGTGAAACAAATCTACCCGATTGAGAACGCAATGGACCTCCACAGTCT
CAAAAAGTCCTCTTTGGGACTCCAATGGCACCCCACACCCGAGCT
Found at i:53378 original size:14 final size:13
Alignment explanation
Indices: 53350--53392 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 13
53340 GTTGCGTGGT
53350 TGGCTGGTGG-T-
1 TGGCTGGTGGTTG
53361 TGGCTGGTGGTTGG
1 TGGCTGGTGGTT-G
53375 TGGCTGGTGGTTG
1 TGGCTGGTGGTTG
53388 TGGCT
1 TGGCT
53393 CCTTGCTCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 10 0.34
12 1 0.03
13 6 0.21
14 12 0.41
ACGTcount: A:0.00, C:0.09, G:0.53, T:0.37
Consensus pattern (13 bp):
TGGCTGGTGGTTG
Left flanking sequence: Indices 52850 -- 53349
GTCATCGCGGTGGTGAAGCGCCAGCTGCCGTCCACCCTGGCCATCCCCCGCAAATACACCGCGGG
ACTGCCTCTGAAGGTGCTGCTGCCCCAGAAGCTGCTCAACATGGCCGCGCAGAACCAGTGGCTGC
CCGTGGCCGCGCTGTTGGCCGAGCTCTACTTGCTGTTGCTGCGGATGCTCTTGAAGTCCGACAAG
GTCCCCGAAGAGAAGAAGGAGGAGTTGGTGCACGGGTGTCTCGGGTACTTGCACACCCACATGGT
GACGCTCACCACGATCGACCCGGTGACGTTTTTGCCGCTGGCGGTGGACGACGACGTGGAGTAGG
GTGGAGACAGCAGAGGGGATTAGTGTGGATTAGTGGATAGAGTGGATTATTAGAGTGGATAGTAG
AGTGGACAATGTATTAATAGACGTTACGGTTAAGGAAGTGGACGTGACGGCTGGGGGGCCGCGAG
CGGCGCCCCCCAGACCCCCCAACGCCTTCTTGTGTGTTGCGTGGT
Right flanking sequence: Indices 53393 -- 53892
CCTTGCTCGAAGAAAATTGCGATAGTTGAGTTTTCATTGAGACTCGATAAAGCATAGAAAGAGAA
GAACATATCGGTCGAGGTGCTATATAGGCTATTTCAACTAGGTTTGTGGCCCGCAAACCCGGTCT
TTCCGCGCTTTTGGGTGCTCTGCGGGTGGCTGCAAATTTGGTCAGAATTGCCTATTTGGGCCGAC
AAAGGCACCCGTCGTAAAACAAATCTACCCGATTGAGAACGCAATGGACACCACACCCACCGCGT
AGTGAAACAAATCTACCCGATTGAGAACGCAATGGACCTCCACAGTCTCAAAAAGTCCTCTTTGG
GACTCCAATGGCACCCCACACCCGAGCTATATAAGCCCTACCCATCTCCATCATTTTCTCACCAC
CACCTATCACCATCATGAGGTTCATTTCCATCATCGCTGCCTTGACTGCCTCCGTTGTTGCTGAC
AACATCGTCAACTCGTACGTGCTCCAGGAGGGCGAGGTGGCCTTC
Found at i:53382 original size:11 final size:11
Alignment explanation
Indices: 53345--53374 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
53335 TGTGTGTTGC
53345 GTGGTTGGCTG
1 GTGGTTGGCTG
53356 GTGGTTGGCTG
1 GTGGTTGGCTG
53367 GTGGTTGG
1 GTGGTTGG
53375 TGGCTGGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.07, G:0.57, T:0.37
Consensus pattern (11 bp):
GTGGTTGGCTG
Left flanking sequence: Indices 52845 -- 53344
CCGACGTCATCGCGGTGGTGAAGCGCCAGCTGCCGTCCACCCTGGCCATCCCCCGCAAATACACC
GCGGGACTGCCTCTGAAGGTGCTGCTGCCCCAGAAGCTGCTCAACATGGCCGCGCAGAACCAGTG
GCTGCCCGTGGCCGCGCTGTTGGCCGAGCTCTACTTGCTGTTGCTGCGGATGCTCTTGAAGTCCG
ACAAGGTCCCCGAAGAGAAGAAGGAGGAGTTGGTGCACGGGTGTCTCGGGTACTTGCACACCCAC
ATGGTGACGCTCACCACGATCGACCCGGTGACGTTTTTGCCGCTGGCGGTGGACGACGACGTGGA
GTAGGGTGGAGACAGCAGAGGGGATTAGTGTGGATTAGTGGATAGAGTGGATTATTAGAGTGGAT
AGTAGAGTGGACAATGTATTAATAGACGTTACGGTTAAGGAAGTGGACGTGACGGCTGGGGGGCC
GCGAGCGGCGCCCCCCAGACCCCCCAACGCCTTCTTGTGTGTTGC
Right flanking sequence: Indices 53375 -- 53874
TGGCTGGTGGTTGTGGCTCCTTGCTCGAAGAAAATTGCGATAGTTGAGTTTTCATTGAGACTCGA
TAAAGCATAGAAAGAGAAGAACATATCGGTCGAGGTGCTATATAGGCTATTTCAACTAGGTTTGT
GGCCCGCAAACCCGGTCTTTCCGCGCTTTTGGGTGCTCTGCGGGTGGCTGCAAATTTGGTCAGAA
TTGCCTATTTGGGCCGACAAAGGCACCCGTCGTAAAACAAATCTACCCGATTGAGAACGCAATGG
ACACCACACCCACCGCGTAGTGAAACAAATCTACCCGATTGAGAACGCAATGGACCTCCACAGTC
TCAAAAAGTCCTCTTTGGGACTCCAATGGCACCCCACACCCGAGCTATATAAGCCCTACCCATCT
CCATCATTTTCTCACCACCACCTATCACCATCATGAGGTTCATTTCCATCATCGCTGCCTTGACT
GCCTCCGTTGTTGCTGACAACATCGTCAACTCGTACGTGCTCCAG
Found at i:54410 original size:15 final size:15
Alignment explanation
Indices: 54390--54433 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
54380 CCCTTACCAC
54390 CCTCTACCACTTCTA
1 CCTCTACCACTTCTA
*
54405 CCTCTACCACTTCTG
1 CCTCTACCACTTCTA
54420 CCTCTACCACTTCT
1 CCTCTACCACTTCT
54434 CCACCTCTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.16, C:0.48, G:0.02, T:0.34
Consensus pattern (15 bp):
CCTCTACCACTTCTA
Left flanking sequence: Indices 53890 -- 54389
TTCAAGGCCCAGAACGACAAGGGCGAGACCGCCATCGTGATTGTTTCCGCGGCCGAGGCTGCCCA
GGCCGAGGGCGACAAGGCCAAGCGCTGGTCGTGGTTGGACTGGAGAATGTTTGAGCCCATTACTA
AGTAAGTAGAGGAATACTATAAACGCTTTTAAGGGTAGCTACCGTGAATGTATATAGAGCTGGGA
AGAGAGAATAGTAACATATCTGAGCAAGACACCTGAGCAACCTGAGCAGACACCTGGGGTCAATT
GCGGATTTATAAAACTCACAACCTCATAAAGCAACAGAACATGGGGATACCACCCCATTGAGCGG
TGGTTGACCCTGGCTTCACACCACCATCTGGTCCATGCTTAGTATGCACTCCAAAATACTGGATC
TGACTATAGAAAAATACCCCATTAGCCATTTAAAAACACCCTACTATCAACAACACCCGTTTGAT
TATTCTTCCACCACCATTGCCACCCCCGTAACACCCCCTTACCAC
Right flanking sequence: Indices 54434 -- 54933
CCACCTCTGACTCGGGCCGCCACACGCGCCACACGCCACACCAGCTGATGTGCGCAACGGTGCAT
CGCCGTGCCCCATGGTGCACGCAGACTACAGTAACATCGAAGCCTCGTCGAAGCCCGAGGCGCTC
GAGCTGGTGGTGATGTCCTACCAGGCGCTCGCGGGGGACACCCGCTATTACGTGGCCAACCTCGC
CAACGCCGCGCTGCTTGTGTGGCACGCCTACCACTCGCTCGGGGTCGCGGTCAACTGGGCCGGGT
TCTACGTCACCATAGAGGACACCCTCCTTTTGGGCCCGTTCCAGGGGAAGGTGGCGTGCCAGCAG
ATCGCGTTTGGCCAGGGGGTGTGTGGCACCGCTGCCGAGAGCCAACACACCCAGCTCGTGCGCGA
TGTGCACTCGTTCCCGGGGCACATCGCGTGCGACCTGGAGACGAACTCGGAGATCGTGGTGCCCA
TCGTGGTGGCGGGCAAGACGGTGGCGGTGTTGGACATCGACTGCG
Found at i:55075 original size:12 final size:12
Alignment explanation
Indices: 55058--55086 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
55048 CATTAATGAT
55058 AGAGAATGAAGG
1 AGAGAATGAAGG
55070 AGAGAATGAAGG
1 AGAGAATGAAGG
55082 A-AGAA
1 AGAGAA
55087 GGGTAGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.38, T:0.07
Consensus pattern (12 bp):
AGAGAATGAAGG
Left flanking sequence: Indices 54558 -- 55057
GCGCTCGAGCTGGTGGTGATGTCCTACCAGGCGCTCGCGGGGGACACCCGCTATTACGTGGCCAA
CCTCGCCAACGCCGCGCTGCTTGTGTGGCACGCCTACCACTCGCTCGGGGTCGCGGTCAACTGGG
CCGGGTTCTACGTCACCATAGAGGACACCCTCCTTTTGGGCCCGTTCCAGGGGAAGGTGGCGTGC
CAGCAGATCGCGTTTGGCCAGGGGGTGTGTGGCACCGCTGCCGAGAGCCAACACACCCAGCTCGT
GCGCGATGTGCACTCGTTCCCGGGGCACATCGCGTGCGACCTGGAGACGAACTCGGAGATCGTGG
TGCCCATCGTGGTGGCGGGCAAGACGGTGGCGGTGTTGGACATCGACTGCGAGACGAAGGCGGGG
TTTGATGAGGAGGACCAGCGGTGGTTGGAGCAGTTGGCCGCGGACATCGCGAAGACGTGTGCGTG
GCCGTAGGTGAAGAATGAAGGAAGAAGGTAGAATACATTAATGAT
Right flanking sequence: Indices 55087 -- 55586
GGGTAGAATACATTAGGGATAGAAGAATGGATGATAGAGAATGAAGGGTATAAGACATTAAGGAT
AGAAGAATGAAGGGTAGAGAATGAAGGAAGAAGGTCGAATACATTAATGATAGAAGAATTAAGGG
TAGAAGAGACTGAGGATAGAAGAATGAAGGATAGAAGAGAATTGAAGGATGGAAGAGAATTGAAG
AATAGAAAAGAATTGAAGGGTTGAAGGACTGAAGGATCGAAGAATGAAGGGTAGAGAATGAAGGG
TAGAAGAATGAAAGTCAGAAGAATGAAGGTCAGAAGACACTGAAGGATAGAAGAGAATTGAAACA
TAGAGAATGAAGGTTAGCAGAGAATTGAAGGATAAAAGAGAATTAGAGGAAAAGTCGACACGGTA
GGGATTGTTCCTGGAGATATGGGAACAATTGGATGGAAATGGAGCTGGGAACGGAGATGGAGATG
GAAATGTGGATCGAACGGTCGTACGGACAATTGCGTCTGACGGTT
Found at i:55152 original size:45 final size:45
Alignment explanation
Indices: 55039--55450 Score: 158
Period size: 49 Copynumber: 8.6 Consensus size: 45
55029 GAAGGAAGAA
* * * *
55039 GGTAGAATACATTAATGATAG-AGAATGAAGGAGAGAATGAAGGAAGAAG
1 GGTAGAAGACATTAAGGATAGAAGAATGAAGGATAG-A-G-A--ATGAAG
* * * *
55088 GGTAGAATACATTAGGGATAGAAGAATGGATGATAGAGAATGAAG
1 GGTAGAAGACATTAAGGATAGAAGAATGAAGGATAGAGAATGAAG
* *
55133 GGTATAAGACATTAAGGATAGAAGAATGAAGGGTAGAGAATGAAGGAAG
1 GGTAGAAGACATTAAGGATAGAAGAATGAAGGATAGAGAAT----GAAG
* * * * *
55182 AAGGTCGAATACATTAATGATAGAAGAATTAAGGGTAGAAGAGACTG-AG
1 --GGTAGAAGACATTAAGGATAGAAGAATGAAGGATAG-AGA-A-TGAAG
* *
55231 GATAGAAGA-ATGAAGGATAGAAGAGAATTGAAGGATGGAAGAGAATTGAAG
1 GGTAGAAGACATTAAGGATAG-A-AGAA-TGAAGGAT---AGAGAA-TGAAG
** * * * *
55282 AATAGAAAAGA-ATTGAAGGGTTGAAGGACTGAAGGATCGAAGAATGAAG
1 GGTAG--AAGACATT-AAGGATAGAA-GAATGAAGGATAG-AGAATGAAG
* * *
55331 GGTAG-AGA-ATGAAGGGTAGAAGAATGAAAG-TCAGAAGAATGAA-
1 GGTAGAAGACATTAAGGATAGAAGAATGAAGGAT-AG-AGAATGAAG
* **
55374 GGTCAGAAGACACTGAAGGATAGAAGAGAATTGAAACATAGAGAATGAAG
1 GGT-AGAAGACA-TTAAGGATAG-A-AGAA-TGAAGGATAGAGAATGAAG
* *
55424 GTTAGCAGAGA-ATTGAAGGATAAAAGA
1 GGTAG-A-AGACATT-AAGGATAGAAGA
55451 GAATTAGAGG
Statistics
Matches: 285, Mismatches: 43, Indels: 71
0.71 0.11 0.18
Matches are distributed among these distances:
43 4 0.01
44 19 0.07
45 52 0.18
46 15 0.05
47 17 0.06
48 9 0.03
49 57 0.20
50 37 0.13
51 44 0.15
52 14 0.05
53 10 0.04
54 7 0.02
ACGTcount: A:0.47, C:0.03, G:0.33, T:0.17
Consensus pattern (45 bp):
GGTAGAAGACATTAAGGATAGAAGAATGAAGGATAGAGAATGAAG
Left flanking sequence: Indices 54539 -- 55038
AGCCTCGTCGAAGCCCGAGGCGCTCGAGCTGGTGGTGATGTCCTACCAGGCGCTCGCGGGGGACA
CCCGCTATTACGTGGCCAACCTCGCCAACGCCGCGCTGCTTGTGTGGCACGCCTACCACTCGCTC
GGGGTCGCGGTCAACTGGGCCGGGTTCTACGTCACCATAGAGGACACCCTCCTTTTGGGCCCGTT
CCAGGGGAAGGTGGCGTGCCAGCAGATCGCGTTTGGCCAGGGGGTGTGTGGCACCGCTGCCGAGA
GCCAACACACCCAGCTCGTGCGCGATGTGCACTCGTTCCCGGGGCACATCGCGTGCGACCTGGAG
ACGAACTCGGAGATCGTGGTGCCCATCGTGGTGGCGGGCAAGACGGTGGCGGTGTTGGACATCGA
CTGCGAGACGAAGGCGGGGTTTGATGAGGAGGACCAGCGGTGGTTGGAGCAGTTGGCCGCGGACA
TCGCGAAGACGTGTGCGTGGCCGTAGGTGAAGAATGAAGGAAGAA
Right flanking sequence: Indices 55451 -- 55950
GAATTAGAGGAAAAGTCGACACGGTAGGGATTGTTCCTGGAGATATGGGAACAATTGGATGGAAA
TGGAGCTGGGAACGGAGATGGAGATGGAAATGTGGATCGAACGGTCGTACGGACAATTGCGTCTG
ACGGTTTGATGGCACAGGTGACCAGTATGGCCGAATTTCACACCTCAAAGGCTCTCTAGGTTATA
ATACTGTTGCGATTCCGACTCAGAAGACAAGAGCTAAAGGCACCAGTCTCTTGTGTTCTTCGCCA
TGGTGGCTTTCTTACCTTGATCGAAGCTACGAAATACCGAAAGAGTTACCATTATGGAATAAAAA
AATCCCAATAGTCGGGGGCTCTATTCTGTGACAACATCGAATGTAGGCTATGTAACCTATCATGG
TTTACATCTCTGGAACTACCTATTTTTTTATTTCCTAAATATTCGAAGTTGTTTAGTAGATGGCT
ACATACCTGGTTAGGTACATAGAGCCAACTCCGTAGCTATAAAGG
Found at i:55157 original size:16 final size:15
Alignment explanation
Indices: 55103--55450 Score: 154
Period size: 15 Copynumber: 21.7 Consensus size: 15
55093 AATACATTAG
*
55103 GGATAGAAGAATGGA
1 GGATAGAAGAATGAA
*
55118 TGATAG-AGAATGAA
1 GGATAGAAGAATGAA
* * *
55132 GGGTATAAGACATTAA
1 GGATAGAAGA-ATGAA
55148 GGATAGAAGAATGAA
1 GGATAGAAGAATGAA
*
55163 GGGTAG-AGAATGAA
1 GGATAGAAGAATGAA
*
55177 GGA-AGAAGGTCGAATACATTAA
1 GGATAGAA----G---A-ATGAA
* *
55199 TGATAGAAGAATTAA
1 GGATAGAAGAATGAA
*
55214 GGGTAGAAGAGACTG-A
1 GGATAGAAGA-A-TGAA
55230 GGATAGAAGAATGAA
1 GGATAGAAGAATGAA
55245 GGATAGAAGAGAATTGAA
1 GGATAG-A-AGAA-TGAA
*
55263 GGATGGAAGAGAATTGAA
1 GGATAG-A-AGAA-TGAA
*
55281 GAATAGAAAAGAATTGAA
1 GGATAG--AAGAA-TGAA
* * *
55299 GGGTTGAAGGACTGAA
1 GGATAGAA-GAATGAA
*
55315 GGATCGAAGAATGAA
1 GGATAGAAGAATGAA
*
55330 GGGTAG-AGAATGAA
1 GGATAGAAGAATGAA
*
55344 GGGTAGAAGAATGAA
1 GGATAGAAGAATGAA
*
55359 AG-TCAGAAGAATGAA
1 GGAT-AGAAGAATGAA
55374 GG-TCAGAAGACACTGAA
1 GGAT-AGAAGA-A-TGAA
55391 GGATAGAAGAGAATTGAA
1 GGATAG-A-AGAA-TGAA
**
55409 ACATAG-AGAATGAA
1 GGATAGAAGAATGAA
*
55423 GGTTAGCAGAGAATTGAA
1 GGATAG-A-AGAA-TGAA
*
55441 GGATAAAAGA
1 GGATAGAAGA
55451 GAATTAGAGG
Statistics
Matches: 263, Mismatches: 39, Indels: 61
0.72 0.11 0.17
Matches are distributed among these distances:
13 2 0.01
14 45 0.17
15 81 0.31
16 41 0.16
17 20 0.08
18 57 0.22
19 6 0.02
21 1 0.00
22 6 0.02
23 4 0.02
ACGTcount: A:0.47, C:0.03, G:0.33, T:0.16
Consensus pattern (15 bp):
GGATAGAAGAATGAA
Left flanking sequence: Indices 54603 -- 55102
ACCCGCTATTACGTGGCCAACCTCGCCAACGCCGCGCTGCTTGTGTGGCACGCCTACCACTCGCT
CGGGGTCGCGGTCAACTGGGCCGGGTTCTACGTCACCATAGAGGACACCCTCCTTTTGGGCCCGT
TCCAGGGGAAGGTGGCGTGCCAGCAGATCGCGTTTGGCCAGGGGGTGTGTGGCACCGCTGCCGAG
AGCCAACACACCCAGCTCGTGCGCGATGTGCACTCGTTCCCGGGGCACATCGCGTGCGACCTGGA
GACGAACTCGGAGATCGTGGTGCCCATCGTGGTGGCGGGCAAGACGGTGGCGGTGTTGGACATCG
ACTGCGAGACGAAGGCGGGGTTTGATGAGGAGGACCAGCGGTGGTTGGAGCAGTTGGCCGCGGAC
ATCGCGAAGACGTGTGCGTGGCCGTAGGTGAAGAATGAAGGAAGAAGGTAGAATACATTAATGAT
AGAGAATGAAGGAGAGAATGAAGGAAGAAGGGTAGAATACATTAG
Right flanking sequence: Indices 55451 -- 55950
GAATTAGAGGAAAAGTCGACACGGTAGGGATTGTTCCTGGAGATATGGGAACAATTGGATGGAAA
TGGAGCTGGGAACGGAGATGGAGATGGAAATGTGGATCGAACGGTCGTACGGACAATTGCGTCTG
ACGGTTTGATGGCACAGGTGACCAGTATGGCCGAATTTCACACCTCAAAGGCTCTCTAGGTTATA
ATACTGTTGCGATTCCGACTCAGAAGACAAGAGCTAAAGGCACCAGTCTCTTGTGTTCTTCGCCA
TGGTGGCTTTCTTACCTTGATCGAAGCTACGAAATACCGAAAGAGTTACCATTATGGAATAAAAA
AATCCCAATAGTCGGGGGCTCTATTCTGTGACAACATCGAATGTAGGCTATGTAACCTATCATGG
TTTACATCTCTGGAACTACCTATTTTTTTATTTCCTAAATATTCGAAGTTGTTTAGTAGATGGCT
ACATACCTGGTTAGGTACATAGAGCCAACTCCGTAGCTATAAAGG
Found at i:55174 original size:14 final size:14
Alignment explanation
Indices: 55121--55178 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
55111 GAATGGATGA
55121 TAGAGAATGAAGGG
1 TAGAGAATGAAGGG
* * *
55135 TATAAGACATTAAGGA
1 TA-GAGA-ATGAAGGG
55151 TAGAAGAATGAAGGG
1 TAG-AGAATGAAGGG
55166 TAGAGAATGAAGG
1 TAGAGAATGAAGG
55179 AAGAAGGTCG
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 12 0.34
15 12 0.34
16 11 0.31
ACGTcount: A:0.47, C:0.02, G:0.34, T:0.17
Consensus pattern (14 bp):
TAGAGAATGAAGGG
Left flanking sequence: Indices 54621 -- 55120
AACCTCGCCAACGCCGCGCTGCTTGTGTGGCACGCCTACCACTCGCTCGGGGTCGCGGTCAACTG
GGCCGGGTTCTACGTCACCATAGAGGACACCCTCCTTTTGGGCCCGTTCCAGGGGAAGGTGGCGT
GCCAGCAGATCGCGTTTGGCCAGGGGGTGTGTGGCACCGCTGCCGAGAGCCAACACACCCAGCTC
GTGCGCGATGTGCACTCGTTCCCGGGGCACATCGCGTGCGACCTGGAGACGAACTCGGAGATCGT
GGTGCCCATCGTGGTGGCGGGCAAGACGGTGGCGGTGTTGGACATCGACTGCGAGACGAAGGCGG
GGTTTGATGAGGAGGACCAGCGGTGGTTGGAGCAGTTGGCCGCGGACATCGCGAAGACGTGTGCG
TGGCCGTAGGTGAAGAATGAAGGAAGAAGGTAGAATACATTAATGATAGAGAATGAAGGAGAGAA
TGAAGGAAGAAGGGTAGAATACATTAGGGATAGAAGAATGGATGA
Right flanking sequence: Indices 55179 -- 55678
AAGAAGGTCGAATACATTAATGATAGAAGAATTAAGGGTAGAAGAGACTGAGGATAGAAGAATGA
AGGATAGAAGAGAATTGAAGGATGGAAGAGAATTGAAGAATAGAAAAGAATTGAAGGGTTGAAGG
ACTGAAGGATCGAAGAATGAAGGGTAGAGAATGAAGGGTAGAAGAATGAAAGTCAGAAGAATGAA
GGTCAGAAGACACTGAAGGATAGAAGAGAATTGAAACATAGAGAATGAAGGTTAGCAGAGAATTG
AAGGATAAAAGAGAATTAGAGGAAAAGTCGACACGGTAGGGATTGTTCCTGGAGATATGGGAACA
ATTGGATGGAAATGGAGCTGGGAACGGAGATGGAGATGGAAATGTGGATCGAACGGTCGTACGGA
CAATTGCGTCTGACGGTTTGATGGCACAGGTGACCAGTATGGCCGAATTTCACACCTCAAAGGCT
CTCTAGGTTATAATACTGTTGCGATTCCGACTCAGAAGACAAGAG
Found at i:55264 original size:18 final size:18
Alignment explanation
Indices: 55206--55455 Score: 115
Period size: 18 Copynumber: 15.3 Consensus size: 18
55196 TAATGATAGA
*
55206 AGAATT-AAGGGTAGAAG
1 AGAATTGAAGGATAGAAG
*
55223 AG-ACTG-AGGATAG-A-
1 AGAATTGAAGGATAGAAG
55237 AGAA-TGAAGGATAGAAG
1 AGAATTGAAGGATAGAAG
*
55254 AGAATTGAAGGATGGAAG
1 AGAATTGAAGGATAGAAG
* *
55272 AGAATTGAAGAATAGAAA
1 AGAATTGAAGGATAGAAG
* *
55290 AGAATTGAAGGGTTGAAG
1 AGAATTGAAGGATAGAAG
* *
55308 -G-ACTGAAGGATCG-A-
1 AGAATTGAAGGATAGAAG
*
55322 AGAA-TGAAGG---GTAG
1 AGAATTGAAGGATAGAAG
*
55336 AGAA-TGAAGGGTAG-A-
1 AGAATTGAAGGATAGAAG
*
55351 AGAA-TGAAAG-TCAG-A-
1 AGAATTGAAGGAT-AGAAG
55366 AGAA-TGAAGG-TCAGAAG
1 AGAATTGAAGGAT-AGAAG
* *
55383 A-CACTGAAGGATAGAAG
1 AGAATTGAAGGATAGAAG
* *
55400 AGAATTGAA--ACA-TAG
1 AGAATTGAAGGATAGAAG
* *
55415 AGAA-TGAAGGTTAGCAG
1 AGAATTGAAGGATAGAAG
*
55432 AGAATTGAAGGATAAAAG
1 AGAATTGAAGGATAGAAG
55450 AGAATT
1 AGAATT
55456 AGAGGAAAAG
Statistics
Matches: 184, Mismatches: 26, Indels: 45
0.72 0.10 0.18
Matches are distributed among these distances:
12 1 0.01
13 1 0.01
14 19 0.10
15 48 0.26
16 25 0.14
17 27 0.15
18 63 0.34
ACGTcount: A:0.48, C:0.04, G:0.33, T:0.16
Consensus pattern (18 bp):
AGAATTGAAGGATAGAAG
Left flanking sequence: Indices 54706 -- 55205
TAGAGGACACCCTCCTTTTGGGCCCGTTCCAGGGGAAGGTGGCGTGCCAGCAGATCGCGTTTGGC
CAGGGGGTGTGTGGCACCGCTGCCGAGAGCCAACACACCCAGCTCGTGCGCGATGTGCACTCGTT
CCCGGGGCACATCGCGTGCGACCTGGAGACGAACTCGGAGATCGTGGTGCCCATCGTGGTGGCGG
GCAAGACGGTGGCGGTGTTGGACATCGACTGCGAGACGAAGGCGGGGTTTGATGAGGAGGACCAG
CGGTGGTTGGAGCAGTTGGCCGCGGACATCGCGAAGACGTGTGCGTGGCCGTAGGTGAAGAATGA
AGGAAGAAGGTAGAATACATTAATGATAGAGAATGAAGGAGAGAATGAAGGAAGAAGGGTAGAAT
ACATTAGGGATAGAAGAATGGATGATAGAGAATGAAGGGTATAAGACATTAAGGATAGAAGAATG
AAGGGTAGAGAATGAAGGAAGAAGGTCGAATACATTAATGATAGA
Right flanking sequence: Indices 55456 -- 55955
AGAGGAAAAGTCGACACGGTAGGGATTGTTCCTGGAGATATGGGAACAATTGGATGGAAATGGAG
CTGGGAACGGAGATGGAGATGGAAATGTGGATCGAACGGTCGTACGGACAATTGCGTCTGACGGT
TTGATGGCACAGGTGACCAGTATGGCCGAATTTCACACCTCAAAGGCTCTCTAGGTTATAATACT
GTTGCGATTCCGACTCAGAAGACAAGAGCTAAAGGCACCAGTCTCTTGTGTTCTTCGCCATGGTG
GCTTTCTTACCTTGATCGAAGCTACGAAATACCGAAAGAGTTACCATTATGGAATAAAAAAATCC
CAATAGTCGGGGGCTCTATTCTGTGACAACATCGAATGTAGGCTATGTAACCTATCATGGTTTAC
ATCTCTGGAACTACCTATTTTTTTATTTCCTAAATATTCGAAGTTGTTTAGTAGATGGCTACATA
CCTGGTTAGGTACATAGAGCCAACTCCGTAGCTATAAAGGTGGAG
Found at i:55352 original size:29 final size:29
Alignment explanation
Indices: 55311--55397 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 29
55301 GTTGAAGGAC
* *
55311 TGAAGGATCGAAGAATGAAGGGTAGAGAA
1 TGAAGGGTAGAAGAATGAAGGGTAGAGAA
*
55340 TGAAGGGTAGAAGAATGAA-AGTCAGAAGAA
1 TGAAGGGTAGAAGAATGAAGGGT-AG-AGAA
*
55370 TGAA-GGTCAGAAGACACTGAAGGATAGA
1 TGAAGGGT-AGAAGA-A-TGAAGGGTAGA
55398 AGAGAATTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
28 2 0.04
29 22 0.47
30 14 0.30
31 2 0.04
32 6 0.13
33 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.34, T:0.14
Consensus pattern (29 bp):
TGAAGGGTAGAAGAATGAAGGGTAGAGAA
Left flanking sequence: Indices 54811 -- 55310
AGCTCGTGCGCGATGTGCACTCGTTCCCGGGGCACATCGCGTGCGACCTGGAGACGAACTCGGAG
ATCGTGGTGCCCATCGTGGTGGCGGGCAAGACGGTGGCGGTGTTGGACATCGACTGCGAGACGAA
GGCGGGGTTTGATGAGGAGGACCAGCGGTGGTTGGAGCAGTTGGCCGCGGACATCGCGAAGACGT
GTGCGTGGCCGTAGGTGAAGAATGAAGGAAGAAGGTAGAATACATTAATGATAGAGAATGAAGGA
GAGAATGAAGGAAGAAGGGTAGAATACATTAGGGATAGAAGAATGGATGATAGAGAATGAAGGGT
ATAAGACATTAAGGATAGAAGAATGAAGGGTAGAGAATGAAGGAAGAAGGTCGAATACATTAATG
ATAGAAGAATTAAGGGTAGAAGAGACTGAGGATAGAAGAATGAAGGATAGAAGAGAATTGAAGGA
TGGAAGAGAATTGAAGAATAGAAAAGAATTGAAGGGTTGAAGGAC
Right flanking sequence: Indices 55398 -- 55897
AGAGAATTGAAACATAGAGAATGAAGGTTAGCAGAGAATTGAAGGATAAAAGAGAATTAGAGGAA
AAGTCGACACGGTAGGGATTGTTCCTGGAGATATGGGAACAATTGGATGGAAATGGAGCTGGGAA
CGGAGATGGAGATGGAAATGTGGATCGAACGGTCGTACGGACAATTGCGTCTGACGGTTTGATGG
CACAGGTGACCAGTATGGCCGAATTTCACACCTCAAAGGCTCTCTAGGTTATAATACTGTTGCGA
TTCCGACTCAGAAGACAAGAGCTAAAGGCACCAGTCTCTTGTGTTCTTCGCCATGGTGGCTTTCT
TACCTTGATCGAAGCTACGAAATACCGAAAGAGTTACCATTATGGAATAAAAAAATCCCAATAGT
CGGGGGCTCTATTCTGTGACAACATCGAATGTAGGCTATGTAACCTATCATGGTTTACATCTCTG
GAACTACCTATTTTTTTATTTCCTAAATATTCGAAGTTGTTTAGT
Done.