Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold66
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: 14457
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Found at i:27 original size:21 final size:21
Alignment explanation
Indices: 1--51 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
1 CACTGCCCCCAGCACCGACCC
1 CACTGCCCCCAGCACCGACCC
22 CACTGCCCCCAGCACCGACCC
1 CACTGCCCCCAGCACCGACCC
43 CACT-CCCCC
1 CACTGCCCCC
52 TGCCCCCAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 5 0.17
21 25 0.83
ACGTcount: A:0.18, C:0.65, G:0.12, T:0.06
Consensus pattern (21 bp):
CACTGCCCCCAGCACCGACCC
Left flanking sequence: None
Right flanking sequence: Indices 52 -- 551
TGCCCCCAGCACCCCTGCCGCACCGCACTTCACCCCGCCCCAGAAGCCGCACCGCGCGCTGCCCC
AGCTCTACCCCCTCGCGGTGGAACTCCGCCCCTTCAAGAACAAGGTGGGCGGCCACACCGCCATC
TTCTCGTTCAGCAAGCAGGCGGTGTGCAAGGCGCTCGTCAACCGCGAGAACATCTTCTACGAGGC
GGTCGAGCAGCACCACCGCGACCTCGTGGCGTTCATGCCCAAGTACATCGGCGTGCTCAACGTGC
GCTACCTGCTGATGGTGGCCGAGCACCCGACGCCGCCGCTGGGCGCCGCGGGGCTGTTCCTGGAC
GAGGTGCACCAGGCGATGATGACGCGGGACGCGGACATTCCCGCGCTCGAGGGGATGTGCGAGGC
TGCGCGACGGGCCAGCGAGGCCGGAGAGGATGGTGGAGCCGTTGGTGTTGACAGTGGTGCTGGAA
GTGGTGCTGGAAGTGGCCCTGGCAGTGGCCCTGGTGGTCTGGTAG
Found at i:509 original size:12 final size:12
Alignment explanation
Indices: 494--522 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
484 TGGTGTTGAC
494 AGTGGTGCTGGA
1 AGTGGTGCTGGA
506 AGTGGTGCTGGA
1 AGTGGTGCTGGA
518 AGTGG
1 AGTGG
523 CCCTGGCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.07, G:0.52, T:0.24
Consensus pattern (12 bp):
AGTGGTGCTGGA
Left flanking sequence: Indices 1 -- 493
CACTGCCCCCAGCACCGACCCCACTGCCCCCAGCACCGACCCCACTCCCCCTGCCCCCAGCACCC
CTGCCGCACCGCACTTCACCCCGCCCCAGAAGCCGCACCGCGCGCTGCCCCAGCTCTACCCCCTC
GCGGTGGAACTCCGCCCCTTCAAGAACAAGGTGGGCGGCCACACCGCCATCTTCTCGTTCAGCAA
GCAGGCGGTGTGCAAGGCGCTCGTCAACCGCGAGAACATCTTCTACGAGGCGGTCGAGCAGCACC
ACCGCGACCTCGTGGCGTTCATGCCCAAGTACATCGGCGTGCTCAACGTGCGCTACCTGCTGATG
GTGGCCGAGCACCCGACGCCGCCGCTGGGCGCCGCGGGGCTGTTCCTGGACGAGGTGCACCAGGC
GATGATGACGCGGGACGCGGACATTCCCGCGCTCGAGGGGATGTGCGAGGCTGCGCGACGGGCCA
GCGAGGCCGGAGAGGATGGTGGAGCCGTTGGTGTTGAC
Right flanking sequence: Indices 523 -- 1022
CCCTGGCAGTGGCCCTGGTGGTCTGGTAGGAGCACATAGTGACTTTTCTGGTGACAACGCTAAGA
TTGATGGTGGTAACGCTAAGATAGATGGTGGTGACCATGAGATTTCTGGTGACGCTAAGATTTCT
GGTGGTAACCACCCTACGGTTGCTGGTGGTAACGTCCCTGGCCTTCCTGGTGCCGAGATAGATGG
CACCACCACTGACACCACTGGCAATGTTCACACTGGCAATGTCCACACTGACAATGCTCACACTG
ACAATGCTCACACTGACAATGCTCACACTGACAATGTCGCCACTGGATTGGACTCCAATGTCACT
GACTCCAATGCCAATCGCTTGGACTCCAATGGCCACGCCTCCACGCCCACCTCCCACCCCACGGT
GCACTTCCACCCGTCGCACCCACACCCCGCACACTCCCACCCGCACCCGCACCCGGCACACGCCC
CGGCAGCACACGCACACTCGTCGCACGTGCACACGTCGCACCCCT
Found at i:528 original size:12 final size:12
Alignment explanation
Indices: 501--540 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
491 GACAGTGGTG
**
501 CTGGAAGTGGTG
1 CTGGAAGTGGCC
513 CTGGAAGTGGCC
1 CTGGAAGTGGCC
*
525 CTGGCAGTGGCC
1 CTGGAAGTGGCC
537 CTGG
1 CTGG
541 TGGTCTGGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.12, C:0.23, G:0.45, T:0.20
Consensus pattern (12 bp):
CTGGAAGTGGCC
Left flanking sequence: Indices 1 -- 500
CACTGCCCCCAGCACCGACCCCACTGCCCCCAGCACCGACCCCACTCCCCCTGCCCCCAGCACCC
CTGCCGCACCGCACTTCACCCCGCCCCAGAAGCCGCACCGCGCGCTGCCCCAGCTCTACCCCCTC
GCGGTGGAACTCCGCCCCTTCAAGAACAAGGTGGGCGGCCACACCGCCATCTTCTCGTTCAGCAA
GCAGGCGGTGTGCAAGGCGCTCGTCAACCGCGAGAACATCTTCTACGAGGCGGTCGAGCAGCACC
ACCGCGACCTCGTGGCGTTCATGCCCAAGTACATCGGCGTGCTCAACGTGCGCTACCTGCTGATG
GTGGCCGAGCACCCGACGCCGCCGCTGGGCGCCGCGGGGCTGTTCCTGGACGAGGTGCACCAGGC
GATGATGACGCGGGACGCGGACATTCCCGCGCTCGAGGGGATGTGCGAGGCTGCGCGACGGGCCA
GCGAGGCCGGAGAGGATGGTGGAGCCGTTGGTGTTGACAGTGGTG
Right flanking sequence: Indices 541 -- 1040
TGGTCTGGTAGGAGCACATAGTGACTTTTCTGGTGACAACGCTAAGATTGATGGTGGTAACGCTA
AGATAGATGGTGGTGACCATGAGATTTCTGGTGACGCTAAGATTTCTGGTGGTAACCACCCTACG
GTTGCTGGTGGTAACGTCCCTGGCCTTCCTGGTGCCGAGATAGATGGCACCACCACTGACACCAC
TGGCAATGTTCACACTGGCAATGTCCACACTGACAATGCTCACACTGACAATGCTCACACTGACA
ATGCTCACACTGACAATGTCGCCACTGGATTGGACTCCAATGTCACTGACTCCAATGCCAATCGC
TTGGACTCCAATGGCCACGCCTCCACGCCCACCTCCCACCCCACGGTGCACTTCCACCCGTCGCA
CCCACACCCCGCACACTCCCACCCGCACCCGCACCCGGCACACGCCCCGGCAGCACACGCACACT
CGTCGCACGTGCACACGTCGCACCCCTACGCGTCGCCGTCAACGT
Found at i:602 original size:21 final size:21
Alignment explanation
Indices: 578--619 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
568 TTCTGGTGAC
*
578 AACGCTAAGATTGATGGTGGT
1 AACGCTAAGATAGATGGTGGT
599 AACGCTAAGATAGATGGTGGT
1 AACGCTAAGATAGATGGTGGT
620 GACCATGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26
Consensus pattern (21 bp):
AACGCTAAGATAGATGGTGGT
Left flanking sequence: Indices 78 -- 577
ACTTCACCCCGCCCCAGAAGCCGCACCGCGCGCTGCCCCAGCTCTACCCCCTCGCGGTGGAACTC
CGCCCCTTCAAGAACAAGGTGGGCGGCCACACCGCCATCTTCTCGTTCAGCAAGCAGGCGGTGTG
CAAGGCGCTCGTCAACCGCGAGAACATCTTCTACGAGGCGGTCGAGCAGCACCACCGCGACCTCG
TGGCGTTCATGCCCAAGTACATCGGCGTGCTCAACGTGCGCTACCTGCTGATGGTGGCCGAGCAC
CCGACGCCGCCGCTGGGCGCCGCGGGGCTGTTCCTGGACGAGGTGCACCAGGCGATGATGACGCG
GGACGCGGACATTCCCGCGCTCGAGGGGATGTGCGAGGCTGCGCGACGGGCCAGCGAGGCCGGAG
AGGATGGTGGAGCCGTTGGTGTTGACAGTGGTGCTGGAAGTGGTGCTGGAAGTGGCCCTGGCAGT
GGCCCTGGTGGTCTGGTAGGAGCACATAGTGACTTTTCTGGTGAC
Right flanking sequence: Indices 620 -- 1119
GACCATGAGATTTCTGGTGACGCTAAGATTTCTGGTGGTAACCACCCTACGGTTGCTGGTGGTAA
CGTCCCTGGCCTTCCTGGTGCCGAGATAGATGGCACCACCACTGACACCACTGGCAATGTTCACA
CTGGCAATGTCCACACTGACAATGCTCACACTGACAATGCTCACACTGACAATGCTCACACTGAC
AATGTCGCCACTGGATTGGACTCCAATGTCACTGACTCCAATGCCAATCGCTTGGACTCCAATGG
CCACGCCTCCACGCCCACCTCCCACCCCACGGTGCACTTCCACCCGTCGCACCCACACCCCGCAC
ACTCCCACCCGCACCCGCACCCGGCACACGCCCCGGCAGCACACGCACACTCGTCGCACGTGCAC
ACGTCGCACCCCTACGCGTCGCCGTCAACGTCGCTCCCGCTGCCTCTGAACCCCGCGGTGGTGCT
CGACGACAACAAGCACATCATCCCCGACAAGTTGTGGCGCCAGTA
Found at i:827 original size:15 final size:15
Alignment explanation
Indices: 733--818 Score: 129
Period size: 15 Copynumber: 5.7 Consensus size: 15
723 CCACTGACAC
* *
733 CACTGGCAATGTTCA
1 CACTGACAATGCTCA
*
748 CACTGGCAATG-TCCA
1 CACTGACAATGCT-CA
763 CACTGACAATGCTCA
1 CACTGACAATGCTCA
778 CACTGACAATGCTCA
1 CACTGACAATGCTCA
793 CACTGACAATGCTCA
1 CACTGACAATGCTCA
808 CACTGACAATG
1 CACTGACAATG
819 TCGCCACTGG
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
14 1 0.01
15 66 0.97
16 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.21
Consensus pattern (15 bp):
CACTGACAATGCTCA
Left flanking sequence: Indices 233 -- 732
ATCTTCTACGAGGCGGTCGAGCAGCACCACCGCGACCTCGTGGCGTTCATGCCCAAGTACATCGG
CGTGCTCAACGTGCGCTACCTGCTGATGGTGGCCGAGCACCCGACGCCGCCGCTGGGCGCCGCGG
GGCTGTTCCTGGACGAGGTGCACCAGGCGATGATGACGCGGGACGCGGACATTCCCGCGCTCGAG
GGGATGTGCGAGGCTGCGCGACGGGCCAGCGAGGCCGGAGAGGATGGTGGAGCCGTTGGTGTTGA
CAGTGGTGCTGGAAGTGGTGCTGGAAGTGGCCCTGGCAGTGGCCCTGGTGGTCTGGTAGGAGCAC
ATAGTGACTTTTCTGGTGACAACGCTAAGATTGATGGTGGTAACGCTAAGATAGATGGTGGTGAC
CATGAGATTTCTGGTGACGCTAAGATTTCTGGTGGTAACCACCCTACGGTTGCTGGTGGTAACGT
CCCTGGCCTTCCTGGTGCCGAGATAGATGGCACCACCACTGACAC
Right flanking sequence: Indices 819 -- 1318
TCGCCACTGGATTGGACTCCAATGTCACTGACTCCAATGCCAATCGCTTGGACTCCAATGGCCAC
GCCTCCACGCCCACCTCCCACCCCACGGTGCACTTCCACCCGTCGCACCCACACCCCGCACACTC
CCACCCGCACCCGCACCCGGCACACGCCCCGGCAGCACACGCACACTCGTCGCACGTGCACACGT
CGCACCCCTACGCGTCGCCGTCAACGTCGCTCCCGCTGCCTCTGAACCCCGCGGTGGTGCTCGAC
GACAACAAGCACATCATCCCCGACAAGTTGTGGCGCCAGTACCTGCTGCTGCACCCGCTGCCCCA
GTACCTCCCGCGCGACTCCGACGACGACACCCTGTCCACCGGCACCACCACCGGCGACGGGCTGA
CGGTGGTCAACACCGACCTCCAGGCCCAGGTGCTCCAGGAGGTGTTCCCTCCTCTGCACCTGGGG
CGCGGCTCCCACGACGACCTCTTTGCCATGGAGGTCGAGGGCGCC
Found at i:827 original size:45 final size:45
Alignment explanation
Indices: 732--827 Score: 124
Period size: 45 Copynumber: 2.1 Consensus size: 45
722 ACCACTGACA
* * *
732 CCACTGGCAATGTTCACACTGGCAATGTCCACACTGACAATGCTC
1 CCACTGACAATGCTCACACTGACAATGTCCACACTGACAATGCTC
*
777 ACACTGACAATGCTCACACTGACAATG-CTCACACTGACAATG-TC
1 CCACTGACAATGCTCACACTGACAATGTC-CACACTGACAATGCTC
821 GCCACTG
1 -CCACTG
828 GATTGGACTC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
44 3 0.07
45 41 0.93
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (45 bp):
CCACTGACAATGCTCACACTGACAATGTCCACACTGACAATGCTC
Left flanking sequence: Indices 232 -- 731
CATCTTCTACGAGGCGGTCGAGCAGCACCACCGCGACCTCGTGGCGTTCATGCCCAAGTACATCG
GCGTGCTCAACGTGCGCTACCTGCTGATGGTGGCCGAGCACCCGACGCCGCCGCTGGGCGCCGCG
GGGCTGTTCCTGGACGAGGTGCACCAGGCGATGATGACGCGGGACGCGGACATTCCCGCGCTCGA
GGGGATGTGCGAGGCTGCGCGACGGGCCAGCGAGGCCGGAGAGGATGGTGGAGCCGTTGGTGTTG
ACAGTGGTGCTGGAAGTGGTGCTGGAAGTGGCCCTGGCAGTGGCCCTGGTGGTCTGGTAGGAGCA
CATAGTGACTTTTCTGGTGACAACGCTAAGATTGATGGTGGTAACGCTAAGATAGATGGTGGTGA
CCATGAGATTTCTGGTGACGCTAAGATTTCTGGTGGTAACCACCCTACGGTTGCTGGTGGTAACG
TCCCTGGCCTTCCTGGTGCCGAGATAGATGGCACCACCACTGACA
Right flanking sequence: Indices 828 -- 1327
GATTGGACTCCAATGTCACTGACTCCAATGCCAATCGCTTGGACTCCAATGGCCACGCCTCCACG
CCCACCTCCCACCCCACGGTGCACTTCCACCCGTCGCACCCACACCCCGCACACTCCCACCCGCA
CCCGCACCCGGCACACGCCCCGGCAGCACACGCACACTCGTCGCACGTGCACACGTCGCACCCCT
ACGCGTCGCCGTCAACGTCGCTCCCGCTGCCTCTGAACCCCGCGGTGGTGCTCGACGACAACAAG
CACATCATCCCCGACAAGTTGTGGCGCCAGTACCTGCTGCTGCACCCGCTGCCCCAGTACCTCCC
GCGCGACTCCGACGACGACACCCTGTCCACCGGCACCACCACCGGCGACGGGCTGACGGTGGTCA
ACACCGACCTCCAGGCCCAGGTGCTCCAGGAGGTGTTCCCTCCTCTGCACCTGGGGCGCGGCTCC
CACGACGACCTCTTTGCCATGGAGGTCGAGGGCGCCGCCCCGGAG
Found at i:2444 original size:18 final size:18
Alignment explanation
Indices: 2420--2471 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
2410 AGGAAGAAGA
*
2420 AAGAGGTGTGAAGAGGTG
1 AAGAGGTGTGGAGAGGTG
*
2438 GAGAGGTGTGGAGAGGTG
1 AAGAGGTGTGGAGAGGTG
2456 AAGAGGTGTGGAGAGG
1 AAGAGGTGTGGAGAGG
2472 GTGTAAAGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.56, T:0.15
Consensus pattern (18 bp):
AAGAGGTGTGGAGAGGTG
Left flanking sequence: Indices 1920 -- 2419
CCATCTGCTCGCGCCTCAACGGGTACCGCATGTACGGGCTGCTGGTGCTCGTGATGTACGACGCC
GCGTGCCCGCTGGTGATCAAGCTCAAGATCATCGACTTTGCCCAGCTGATGATTGCCGAGCCGTC
GCCCATGATGAACCGTCACGTGACCATCCCCCCGGCGCACCCGGGGCTGCCCGACAAGGGGTATC
TCCGGGGGTTGACGCTGATCATCGCGTACTTGGCGGTGATCTGGCGGGTGGTGGCGCGCGAGCCG
CTTCCCGCGGACATGGACGACGCCATGCTTTTTGTCCAGGCCAACAAACTGCGGTTTCTGGGCCC
GATCCGGGCGCTTGACGGGTACGCCGAGCGCCGTGACGACTGTATAGACCCCAGGGACGACGCTG
ACCCGGACGACCCGTTTAATGTGGATTACGATGTGGGTGTGGAGGACGCAGATGTGTCGGAATAG
AGGATAGATGTATATACGCTGTAATATAGTGAAGAAGGAAGAAGA
Right flanking sequence: Indices 2472 -- 2971
GTGTAAAGTGGGTGTAAAGTGGGTGTGAAGTGGGTGTGCAGTGAGTGTGAAGTGGGTGTAAAGTG
TGTGTGATGAGGGTGTGAAAAGAGTGTGAAGAGATGGTGTGATGAAATAGGGTGTGTAGGAAGTC
ATGGTGTTGTTGAATGGGTGTTGTGGGCTCGTTGTAGTGTGATAGTCTGGTCTATTTTCCCAGGG
TGGTGGTGGTATTTCGAGATGGTGGCTGTAGGGCCAGTTTTGATGGTGAACGTCAGCAGACTCCG
CGATCAAGATACCAATAGTGTAGTATGACTACCACCTACCTGGTGCTATAGCCTTTCACCCCCAA
ATCGCCTTCTCGCAATTGCTGCTTTTTGCCTTTTTGGGCCATTTGCAACCGTGCGCGCAGTATTT
CCGCCAGAAACGGACCACTCCAGACGACCACCACGTGTCGAAAATGAGGAAACCACGCTGGAGAA
AAGCAAAAGGGGGCTGCTGTGGGTTATAGTGACTTACTAAAAACC
Found at i:2484 original size:11 final size:11
Alignment explanation
Indices: 2470--2541 Score: 90
Period size: 11 Copynumber: 6.5 Consensus size: 11
2460 GGTGTGGAGA
2470 GGGTGTAAAGT
1 GGGTGTAAAGT
2481 GGGTGTAAAGT
1 GGGTGTAAAGT
*
2492 GGGTGTGAAGT
1 GGGTGTAAAGT
**
2503 GGGTGTGCAGT
1 GGGTGTAAAGT
* *
2514 GAGTGTGAAGT
1 GGGTGTAAAGT
2525 GGGTGTAAAGT
1 GGGTGTAAAGT
*
2536 GTGTGT
1 GGGTGT
2542 GATGAGGGTG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 54 1.00
ACGTcount: A:0.21, C:0.01, G:0.49, T:0.29
Consensus pattern (11 bp):
GGGTGTAAAGT
Left flanking sequence: Indices 1970 -- 2469
GTGATGTACGACGCCGCGTGCCCGCTGGTGATCAAGCTCAAGATCATCGACTTTGCCCAGCTGAT
GATTGCCGAGCCGTCGCCCATGATGAACCGTCACGTGACCATCCCCCCGGCGCACCCGGGGCTGC
CCGACAAGGGGTATCTCCGGGGGTTGACGCTGATCATCGCGTACTTGGCGGTGATCTGGCGGGTG
GTGGCGCGCGAGCCGCTTCCCGCGGACATGGACGACGCCATGCTTTTTGTCCAGGCCAACAAACT
GCGGTTTCTGGGCCCGATCCGGGCGCTTGACGGGTACGCCGAGCGCCGTGACGACTGTATAGACC
CCAGGGACGACGCTGACCCGGACGACCCGTTTAATGTGGATTACGATGTGGGTGTGGAGGACGCA
GATGTGTCGGAATAGAGGATAGATGTATATACGCTGTAATATAGTGAAGAAGGAAGAAGAAAGAG
GTGTGAAGAGGTGGAGAGGTGTGGAGAGGTGAAGAGGTGTGGAGA
Right flanking sequence: Indices 2542 -- 3041
GATGAGGGTGTGAAAAGAGTGTGAAGAGATGGTGTGATGAAATAGGGTGTGTAGGAAGTCATGGT
GTTGTTGAATGGGTGTTGTGGGCTCGTTGTAGTGTGATAGTCTGGTCTATTTTCCCAGGGTGGTG
GTGGTATTTCGAGATGGTGGCTGTAGGGCCAGTTTTGATGGTGAACGTCAGCAGACTCCGCGATC
AAGATACCAATAGTGTAGTATGACTACCACCTACCTGGTGCTATAGCCTTTCACCCCCAAATCGC
CTTCTCGCAATTGCTGCTTTTTGCCTTTTTGGGCCATTTGCAACCGTGCGCGCAGTATTTCCGCC
AGAAACGGACCACTCCAGACGACCACCACGTGTCGAAAATGAGGAAACCACGCTGGAGAAAAGCA
AAAGGGGGCTGCTGTGGGTTATAGTGACTTACTAAAAACCCTCCTACTTGCTTCCGGTTAGTTTT
GGCGACTCGTTGTCTATTCTACGCTCGCCATTGTTTTAGGCCTGT
Found at i:2485 original size:22 final size:22
Alignment explanation
Indices: 2460--2555 Score: 102
Period size: 22 Copynumber: 4.4 Consensus size: 22
2450 GAGGTGAAGA
* * *
2460 GGTGTGGAGAGGGTGTAAAGTG
1 GGTGTGAAGTGGGTGTGAAGTG
*
2482 GGTGTAAAGTGGGTGTGAAGTG
1 GGTGTGAAGTGGGTGTGAAGTG
* *
2504 GGTGTGCAGTGAGTGTGAAGTG
1 GGTGTGAAGTGGGTGTGAAGTG
* * * *
2526 GGTGTAAAGTGTGTGTGATGAG
1 GGTGTGAAGTGGGTGTGAAGTG
2548 GGTGTGAA
1 GGTGTGAA
2556 AAGAGTGTGA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 61 1.00
ACGTcount: A:0.22, C:0.01, G:0.50, T:0.27
Consensus pattern (22 bp):
GGTGTGAAGTGGGTGTGAAGTG
Left flanking sequence: Indices 1960 -- 2459
GCTGGTGCTCGTGATGTACGACGCCGCGTGCCCGCTGGTGATCAAGCTCAAGATCATCGACTTTG
CCCAGCTGATGATTGCCGAGCCGTCGCCCATGATGAACCGTCACGTGACCATCCCCCCGGCGCAC
CCGGGGCTGCCCGACAAGGGGTATCTCCGGGGGTTGACGCTGATCATCGCGTACTTGGCGGTGAT
CTGGCGGGTGGTGGCGCGCGAGCCGCTTCCCGCGGACATGGACGACGCCATGCTTTTTGTCCAGG
CCAACAAACTGCGGTTTCTGGGCCCGATCCGGGCGCTTGACGGGTACGCCGAGCGCCGTGACGAC
TGTATAGACCCCAGGGACGACGCTGACCCGGACGACCCGTTTAATGTGGATTACGATGTGGGTGT
GGAGGACGCAGATGTGTCGGAATAGAGGATAGATGTATATACGCTGTAATATAGTGAAGAAGGAA
GAAGAAAGAGGTGTGAAGAGGTGGAGAGGTGTGGAGAGGTGAAGA
Right flanking sequence: Indices 2556 -- 3055
AAGAGTGTGAAGAGATGGTGTGATGAAATAGGGTGTGTAGGAAGTCATGGTGTTGTTGAATGGGT
GTTGTGGGCTCGTTGTAGTGTGATAGTCTGGTCTATTTTCCCAGGGTGGTGGTGGTATTTCGAGA
TGGTGGCTGTAGGGCCAGTTTTGATGGTGAACGTCAGCAGACTCCGCGATCAAGATACCAATAGT
GTAGTATGACTACCACCTACCTGGTGCTATAGCCTTTCACCCCCAAATCGCCTTCTCGCAATTGC
TGCTTTTTGCCTTTTTGGGCCATTTGCAACCGTGCGCGCAGTATTTCCGCCAGAAACGGACCACT
CCAGACGACCACCACGTGTCGAAAATGAGGAAACCACGCTGGAGAAAAGCAAAAGGGGGCTGCTG
TGGGTTATAGTGACTTACTAAAAACCCTCCTACTTGCTTCCGGTTAGTTTTGGCGACTCGTTGTC
TATTCTACGCTCGCCATTGTTTTAGGCCTGTTTGAGCCATGTTCA
Found at i:2507 original size:33 final size:33
Alignment explanation
Indices: 2470--2552 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
2460 GGTGTGGAGA
* *
2470 GGGTGTAAAGTGGGTGTAAAGTGGGTGTGAAGT
1 GGGTGTGAAGTGGGTGTAAAGTGGGTGTAAAGT
* * *
2503 GGGTGTGCAGTGAGTGTGAAGTGGGTGTAAAGT
1 GGGTGTGAAGTGGGTGTAAAGTGGGTGTAAAGT
* * *
2536 GTGTGTGATGAGGGTGT
1 GGGTGTGAAGTGGGTGT
2553 GAAAAGAGTG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.20, C:0.01, G:0.49, T:0.29
Consensus pattern (33 bp):
GGGTGTGAAGTGGGTGTAAAGTGGGTGTAAAGT
Left flanking sequence: Indices 1970 -- 2469
GTGATGTACGACGCCGCGTGCCCGCTGGTGATCAAGCTCAAGATCATCGACTTTGCCCAGCTGAT
GATTGCCGAGCCGTCGCCCATGATGAACCGTCACGTGACCATCCCCCCGGCGCACCCGGGGCTGC
CCGACAAGGGGTATCTCCGGGGGTTGACGCTGATCATCGCGTACTTGGCGGTGATCTGGCGGGTG
GTGGCGCGCGAGCCGCTTCCCGCGGACATGGACGACGCCATGCTTTTTGTCCAGGCCAACAAACT
GCGGTTTCTGGGCCCGATCCGGGCGCTTGACGGGTACGCCGAGCGCCGTGACGACTGTATAGACC
CCAGGGACGACGCTGACCCGGACGACCCGTTTAATGTGGATTACGATGTGGGTGTGGAGGACGCA
GATGTGTCGGAATAGAGGATAGATGTATATACGCTGTAATATAGTGAAGAAGGAAGAAGAAAGAG
GTGTGAAGAGGTGGAGAGGTGTGGAGAGGTGAAGAGGTGTGGAGA
Right flanking sequence: Indices 2553 -- 3052
GAAAAGAGTGTGAAGAGATGGTGTGATGAAATAGGGTGTGTAGGAAGTCATGGTGTTGTTGAATG
GGTGTTGTGGGCTCGTTGTAGTGTGATAGTCTGGTCTATTTTCCCAGGGTGGTGGTGGTATTTCG
AGATGGTGGCTGTAGGGCCAGTTTTGATGGTGAACGTCAGCAGACTCCGCGATCAAGATACCAAT
AGTGTAGTATGACTACCACCTACCTGGTGCTATAGCCTTTCACCCCCAAATCGCCTTCTCGCAAT
TGCTGCTTTTTGCCTTTTTGGGCCATTTGCAACCGTGCGCGCAGTATTTCCGCCAGAAACGGACC
ACTCCAGACGACCACCACGTGTCGAAAATGAGGAAACCACGCTGGAGAAAAGCAAAAGGGGGCTG
CTGTGGGTTATAGTGACTTACTAAAAACCCTCCTACTTGCTTCCGGTTAGTTTTGGCGACTCGTT
GTCTATTCTACGCTCGCCATTGTTTTAGGCCTGTTTGAGCCATGT
Found at i:2553 original size:33 final size:35
Alignment explanation
Indices: 2481--2555 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 35
2471 GGTGTAAAGT
* *
2481 GGGTGTAAAGTGGGTGTGAAGTGGGTGTGCAGTGA
1 GGGTGTGAAGTGGGTGTAAAGTGGGTGTGCAGTGA
*
2516 --GTGTGAAGTGGGTGTAAAGTGTGTGTG-A-TGA
1 GGGTGTGAAGTGGGTGTAAAGTGGGTGTGCAGTGA
2547 GGGTGTGAA
1 GGGTGTGAA
2556 AAGAGTGTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
31 3 0.09
32 1 0.03
33 31 0.89
ACGTcount: A:0.21, C:0.01, G:0.49, T:0.28
Consensus pattern (35 bp):
GGGTGTGAAGTGGGTGTAAAGTGGGTGTGCAGTGA
Left flanking sequence: Indices 1981 -- 2480
CGCCGCGTGCCCGCTGGTGATCAAGCTCAAGATCATCGACTTTGCCCAGCTGATGATTGCCGAGC
CGTCGCCCATGATGAACCGTCACGTGACCATCCCCCCGGCGCACCCGGGGCTGCCCGACAAGGGG
TATCTCCGGGGGTTGACGCTGATCATCGCGTACTTGGCGGTGATCTGGCGGGTGGTGGCGCGCGA
GCCGCTTCCCGCGGACATGGACGACGCCATGCTTTTTGTCCAGGCCAACAAACTGCGGTTTCTGG
GCCCGATCCGGGCGCTTGACGGGTACGCCGAGCGCCGTGACGACTGTATAGACCCCAGGGACGAC
GCTGACCCGGACGACCCGTTTAATGTGGATTACGATGTGGGTGTGGAGGACGCAGATGTGTCGGA
ATAGAGGATAGATGTATATACGCTGTAATATAGTGAAGAAGGAAGAAGAAAGAGGTGTGAAGAGG
TGGAGAGGTGTGGAGAGGTGAAGAGGTGTGGAGAGGGTGTAAAGT
Right flanking sequence: Indices 2556 -- 3055
AAGAGTGTGAAGAGATGGTGTGATGAAATAGGGTGTGTAGGAAGTCATGGTGTTGTTGAATGGGT
GTTGTGGGCTCGTTGTAGTGTGATAGTCTGGTCTATTTTCCCAGGGTGGTGGTGGTATTTCGAGA
TGGTGGCTGTAGGGCCAGTTTTGATGGTGAACGTCAGCAGACTCCGCGATCAAGATACCAATAGT
GTAGTATGACTACCACCTACCTGGTGCTATAGCCTTTCACCCCCAAATCGCCTTCTCGCAATTGC
TGCTTTTTGCCTTTTTGGGCCATTTGCAACCGTGCGCGCAGTATTTCCGCCAGAAACGGACCACT
CCAGACGACCACCACGTGTCGAAAATGAGGAAACCACGCTGGAGAAAAGCAAAAGGGGGCTGCTG
TGGGTTATAGTGACTTACTAAAAACCCTCCTACTTGCTTCCGGTTAGTTTTGGCGACTCGTTGTC
TATTCTACGCTCGCCATTGTTTTAGGCCTGTTTGAGCCATGTTCA
Found at i:2562 original size:44 final size:44
Alignment explanation
Indices: 2453--2567 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
2443 GTGTGGAGAG
* * * *
2453 GTGAAGA-GGTGTGGAGAGGGTGTAAAGTGGGTGTAAAGTGGGT
1 GTGAAGAGGGTGTGAAAAGAGTGTGAAGTGGGTGTAAAGTGGGT
* * ** *
2496 GTGAAGTGGGTGTGCAGTGAGTGTGAAGTGGGTGTAAAGTGTGT
1 GTGAAGAGGGTGTGAAAAGAGTGTGAAGTGGGTGTAAAGTGGGT
*
2540 GTGATGAGGGTGTGAAAAGAGTGTGAAG
1 GTGAAGAGGGTGTGAAAAGAGTGTGAAG
2568 AGATGGTGTG
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
43 6 0.10
44 54 0.90
ACGTcount: A:0.25, C:0.01, G:0.49, T:0.25
Consensus pattern (44 bp):
GTGAAGAGGGTGTGAAAAGAGTGTGAAGTGGGTGTAAAGTGGGT
Left flanking sequence: Indices 1953 -- 2452
ACGGGCTGCTGGTGCTCGTGATGTACGACGCCGCGTGCCCGCTGGTGATCAAGCTCAAGATCATC
GACTTTGCCCAGCTGATGATTGCCGAGCCGTCGCCCATGATGAACCGTCACGTGACCATCCCCCC
GGCGCACCCGGGGCTGCCCGACAAGGGGTATCTCCGGGGGTTGACGCTGATCATCGCGTACTTGG
CGGTGATCTGGCGGGTGGTGGCGCGCGAGCCGCTTCCCGCGGACATGGACGACGCCATGCTTTTT
GTCCAGGCCAACAAACTGCGGTTTCTGGGCCCGATCCGGGCGCTTGACGGGTACGCCGAGCGCCG
TGACGACTGTATAGACCCCAGGGACGACGCTGACCCGGACGACCCGTTTAATGTGGATTACGATG
TGGGTGTGGAGGACGCAGATGTGTCGGAATAGAGGATAGATGTATATACGCTGTAATATAGTGAA
GAAGGAAGAAGAAAGAGGTGTGAAGAGGTGGAGAGGTGTGGAGAG
Right flanking sequence: Indices 2568 -- 3067
AGATGGTGTGATGAAATAGGGTGTGTAGGAAGTCATGGTGTTGTTGAATGGGTGTTGTGGGCTCG
TTGTAGTGTGATAGTCTGGTCTATTTTCCCAGGGTGGTGGTGGTATTTCGAGATGGTGGCTGTAG
GGCCAGTTTTGATGGTGAACGTCAGCAGACTCCGCGATCAAGATACCAATAGTGTAGTATGACTA
CCACCTACCTGGTGCTATAGCCTTTCACCCCCAAATCGCCTTCTCGCAATTGCTGCTTTTTGCCT
TTTTGGGCCATTTGCAACCGTGCGCGCAGTATTTCCGCCAGAAACGGACCACTCCAGACGACCAC
CACGTGTCGAAAATGAGGAAACCACGCTGGAGAAAAGCAAAAGGGGGCTGCTGTGGGTTATAGTG
ACTTACTAAAAACCCTCCTACTTGCTTCCGGTTAGTTTTGGCGACTCGTTGTCTATTCTACGCTC
GCCATTGTTTTAGGCCTGTTTGAGCCATGTTCAGGCTGCAAATGG
Found at i:9866 original size:3 final size:3
Alignment explanation
Indices: 9858--9941 Score: 82
Period size: 3 Copynumber: 28.7 Consensus size: 3
9848 CAACCTCCAG
* * *
9858 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAC CAA CAC CAA C-A CAC
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
* * * * *
9905 CAA CAC CAA C-A CAC CGA CAA CAA CAC CAA CAC CAA CA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
9942 CACCGACACC
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
2 4 0.06
3 59 0.94
ACGTcount: A:0.56, C:0.43, G:0.01, T:0.00
Consensus pattern (3 bp):
CAA
Left flanking sequence: Indices 9358 -- 9857
AACCGGCCCCCTCTAACAAATCCCAGAGGTCTGCATGTAAAAACGGCCCCCTCTAACAAACGACC
ACCCCACCATACGACGAGCTATACGACGACCATTCATTTCCTAAAGACTTTACGAGCATTACATA
ACTCCTTATGTTAGTCGCTTTACGAACTATATAGCCTAATCCGGCTTACACGTCGTGTGATTCGG
ATCACGTGACTTTACTGTTGGTACCGTAGTAAGCGTTGATTATAGCGAGCCTGTACATATCCTAT
ATACTACAAAAGCCCCCAGTACGGCTTCAAGGTAGCCCGCTCATGCAGGCTACCCCGAAGGCGCA
CCCAGTGCTTAACTATACAATTATAGAAACCCGGATTGGATACCAATGGCACCACCAACAGGGGG
AAAAAACGGTGCCAATAGCACCCGATCCAACGAATTGAATCGGATACCATTGGCACCACCAACAG
GGGGAAAAAGGAGCCATTGGCATCCAACCCTTAAACAACCTCCAG
Right flanking sequence: Indices 9942 -- 10441
CACCGACACCAACACACCGACACCAACACCAACACCAACACACCAACACCAACACACCAGAATGA
AAGGGGGTGACACCACTAGTACTTCTGATATCGTCTCCCATATGGCAAAGGAAGCGAAGCCCAGA
GGCTTGCAACTCCCCGCGCCGACCACGGGATGGTTCTGTGGCGATACCGCCCATCCTGACGCTAG
ATTGCACCTCCCACCTCCCGGCCCGTCGGCCATCGAGTAGAAGCGTGCAACTGCACATGTCAGGA
CTGTTCGAGGACCCGTAGCTGGTAGGTGGCCAACCTACCAGTAACAAGCCCTGTCACCAGACCAA
CAGACGCTGAGCCACCACCATGGCGCGAAGCGCCAACGGATAATGACCCAGCCGGGAGACTCCAT
CAGAAGTACCAGCAGCACCGAGGCTGTGGTGAGCAAGTATCACCACGCTAACGACAAGCTTTGAT
TTGTAGCCTCCTTGGGGGGATTTTTTTCCCCCATCTTCTTCGATT
Found at i:9906 original size:14 final size:14
Alignment explanation
Indices: 9861--10000 Score: 171
Period size: 14 Copynumber: 10.1 Consensus size: 14
9851 CCTCCAGCAA
* *
9861 CAACAACAACAACAA
1 CAACACCAAC-ACAC
*
9876 CAACAACAACAACAC
1 CAACACCAAC-ACAC
9891 CAACACCAACACAC
1 CAACACCAACACAC
9905 CAACACCAACACAC
1 CAACACCAACACAC
* *
9919 CGACAAC-A-ACAC
1 CAACACCAACACAC
9931 CAACACCAACACAC
1 CAACACCAACACAC
*
9945 CGACACCAACACAC
1 CAACACCAACACAC
*
9959 CGACACC-A-ACAC
1 CAACACCAACACAC
9971 CAACACCAACACAC
1 CAACACCAACACAC
9985 CAACACCAACACAC
1 CAACACCAACACAC
9999 CA
1 CA
10001 GAATGAAAGG
Statistics
Matches: 113, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
12 19 0.17
13 4 0.04
14 67 0.59
15 23 0.20
ACGTcount: A:0.51, C:0.46, G:0.02, T:0.00
Consensus pattern (14 bp):
CAACACCAACACAC
Left flanking sequence: Indices 9361 -- 9860
CGGCCCCCTCTAACAAATCCCAGAGGTCTGCATGTAAAAACGGCCCCCTCTAACAAACGACCACC
CCACCATACGACGAGCTATACGACGACCATTCATTTCCTAAAGACTTTACGAGCATTACATAACT
CCTTATGTTAGTCGCTTTACGAACTATATAGCCTAATCCGGCTTACACGTCGTGTGATTCGGATC
ACGTGACTTTACTGTTGGTACCGTAGTAAGCGTTGATTATAGCGAGCCTGTACATATCCTATATA
CTACAAAAGCCCCCAGTACGGCTTCAAGGTAGCCCGCTCATGCAGGCTACCCCGAAGGCGCACCC
AGTGCTTAACTATACAATTATAGAAACCCGGATTGGATACCAATGGCACCACCAACAGGGGGAAA
AAACGGTGCCAATAGCACCCGATCCAACGAATTGAATCGGATACCATTGGCACCACCAACAGGGG
GAAAAAGGAGCCATTGGCATCCAACCCTTAAACAACCTCCAGCAA
Right flanking sequence: Indices 10001 -- 10500
GAATGAAAGGGGGTGACACCACTAGTACTTCTGATATCGTCTCCCATATGGCAAAGGAAGCGAAG
CCCAGAGGCTTGCAACTCCCCGCGCCGACCACGGGATGGTTCTGTGGCGATACCGCCCATCCTGA
CGCTAGATTGCACCTCCCACCTCCCGGCCCGTCGGCCATCGAGTAGAAGCGTGCAACTGCACATG
TCAGGACTGTTCGAGGACCCGTAGCTGGTAGGTGGCCAACCTACCAGTAACAAGCCCTGTCACCA
GACCAACAGACGCTGAGCCACCACCATGGCGCGAAGCGCCAACGGATAATGACCCAGCCGGGAGA
CTCCATCAGAAGTACCAGCAGCACCGAGGCTGTGGTGAGCAAGTATCACCACGCTAACGACAAGC
TTTGATTTGTAGCCTCCTTGGGGGGATTTTTTTCCCCCATCTTCTTCGATTTTCTCTTTGCTTGT
CGCTGCCTTCCGTAGTAACGGGAAAGGAGCCGGGCTTGCAGGGTG
Found at i:9930 original size:40 final size:40
Alignment explanation
Indices: 9881--9999 Score: 220
Period size: 40 Copynumber: 3.0 Consensus size: 40
9871 AACAACAACA
9881 ACAACAACACCAACACCAACACACCAACACCAACACACCG
1 ACAACAACACCAACACCAACACACCAACACCAACACACCG
*
9921 ACAACAACACCAACACCAACACACCGACACCAACACACCG
1 ACAACAACACCAACACCAACACACCAACACCAACACACCG
*
9961 ACACCAACACCAACACCAACACACCAACACCAACACACC
1 ACAACAACACCAACACCAACACACCAACACCAACACACC
10000 AGAATGAAAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.49, C:0.49, G:0.03, T:0.00
Consensus pattern (40 bp):
ACAACAACACCAACACCAACACACCAACACCAACACACCG
Left flanking sequence: Indices 9381 -- 9880
CAGAGGTCTGCATGTAAAAACGGCCCCCTCTAACAAACGACCACCCCACCATACGACGAGCTATA
CGACGACCATTCATTTCCTAAAGACTTTACGAGCATTACATAACTCCTTATGTTAGTCGCTTTAC
GAACTATATAGCCTAATCCGGCTTACACGTCGTGTGATTCGGATCACGTGACTTTACTGTTGGTA
CCGTAGTAAGCGTTGATTATAGCGAGCCTGTACATATCCTATATACTACAAAAGCCCCCAGTACG
GCTTCAAGGTAGCCCGCTCATGCAGGCTACCCCGAAGGCGCACCCAGTGCTTAACTATACAATTA
TAGAAACCCGGATTGGATACCAATGGCACCACCAACAGGGGGAAAAAACGGTGCCAATAGCACCC
GATCCAACGAATTGAATCGGATACCATTGGCACCACCAACAGGGGGAAAAAGGAGCCATTGGCAT
CCAACCCTTAAACAACCTCCAGCAACAACAACAACAACAACAACA
Right flanking sequence: Indices 10000 -- 10499
AGAATGAAAGGGGGTGACACCACTAGTACTTCTGATATCGTCTCCCATATGGCAAAGGAAGCGAA
GCCCAGAGGCTTGCAACTCCCCGCGCCGACCACGGGATGGTTCTGTGGCGATACCGCCCATCCTG
ACGCTAGATTGCACCTCCCACCTCCCGGCCCGTCGGCCATCGAGTAGAAGCGTGCAACTGCACAT
GTCAGGACTGTTCGAGGACCCGTAGCTGGTAGGTGGCCAACCTACCAGTAACAAGCCCTGTCACC
AGACCAACAGACGCTGAGCCACCACCATGGCGCGAAGCGCCAACGGATAATGACCCAGCCGGGAG
ACTCCATCAGAAGTACCAGCAGCACCGAGGCTGTGGTGAGCAAGTATCACCACGCTAACGACAAG
CTTTGATTTGTAGCCTCCTTGGGGGGATTTTTTTCCCCCATCTTCTTCGATTTTCTCTTTGCTTG
TCGCTGCCTTCCGTAGTAACGGGAAAGGAGCCGGGCTTGCAGGGT
Found at i:9942 original size:6 final size:6
Alignment explanation
Indices: 9861--9996 Score: 110
Period size: 6 Copynumber: 21.0 Consensus size: 6
9851 CCTCCAGCAA
* * * *
9861 CAACAA CAACAA CAACAA CAACAA CAACAC CAACAC CAACACAC CAACAC
1 CAACAC CAACAC CAACAC CAACAC CAACAC CAACAC C-A-ACAC CAACAC
* * *
9911 CAACACAC CGACAA CAACAC CAACAC CAACACAC CGACAC CAACACAC
1 C-A-ACAC CAACAC CAACAC CAACAC C-A-ACAC CAACAC C-A-ACAC
*
9959 CGACAC CAACAC CAACAC CAACACAC CAACAC CAACAC
1 CAACAC CAACAC CAACAC C-A-ACAC CAACAC CAACAC
9997 ACCAGAATGA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
6 80 0.72
7 6 0.05
8 25 0.23
ACGTcount: A:0.51, C:0.46, G:0.02, T:0.00
Consensus pattern (6 bp):
CAACAC
Left flanking sequence: Indices 9361 -- 9860
CGGCCCCCTCTAACAAATCCCAGAGGTCTGCATGTAAAAACGGCCCCCTCTAACAAACGACCACC
CCACCATACGACGAGCTATACGACGACCATTCATTTCCTAAAGACTTTACGAGCATTACATAACT
CCTTATGTTAGTCGCTTTACGAACTATATAGCCTAATCCGGCTTACACGTCGTGTGATTCGGATC
ACGTGACTTTACTGTTGGTACCGTAGTAAGCGTTGATTATAGCGAGCCTGTACATATCCTATATA
CTACAAAAGCCCCCAGTACGGCTTCAAGGTAGCCCGCTCATGCAGGCTACCCCGAAGGCGCACCC
AGTGCTTAACTATACAATTATAGAAACCCGGATTGGATACCAATGGCACCACCAACAGGGGGAAA
AAACGGTGCCAATAGCACCCGATCCAACGAATTGAATCGGATACCATTGGCACCACCAACAGGGG
GAAAAAGGAGCCATTGGCATCCAACCCTTAAACAACCTCCAGCAA
Right flanking sequence: Indices 9997 -- 10496
ACCAGAATGAAAGGGGGTGACACCACTAGTACTTCTGATATCGTCTCCCATATGGCAAAGGAAGC
GAAGCCCAGAGGCTTGCAACTCCCCGCGCCGACCACGGGATGGTTCTGTGGCGATACCGCCCATC
CTGACGCTAGATTGCACCTCCCACCTCCCGGCCCGTCGGCCATCGAGTAGAAGCGTGCAACTGCA
CATGTCAGGACTGTTCGAGGACCCGTAGCTGGTAGGTGGCCAACCTACCAGTAACAAGCCCTGTC
ACCAGACCAACAGACGCTGAGCCACCACCATGGCGCGAAGCGCCAACGGATAATGACCCAGCCGG
GAGACTCCATCAGAAGTACCAGCAGCACCGAGGCTGTGGTGAGCAAGTATCACCACGCTAACGAC
AAGCTTTGATTTGTAGCCTCCTTGGGGGGATTTTTTTCCCCCATCTTCTTCGATTTTCTCTTTGC
TTGTCGCTGCCTTCCGTAGTAACGGGAAAGGAGCCGGGCTTGCAG
Found at i:10908 original size:11 final size:11
Alignment explanation
Indices: 10894--10927 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
10884 TGGGCAGTGT
10894 GTGGTGGGAGG
1 GTGGTGGGAGG
10905 GTGGTGGGAGG
1 GTGGTGGGAGG
*
10916 GTGGTAGGAGG
1 GTGGTGGGAGG
10927 G
1 G
10928 GTTTGTATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.12, C:0.00, G:0.71, T:0.18
Consensus pattern (11 bp):
GTGGTGGGAGG
Left flanking sequence: Indices 10394 -- 10893
GATTTGTAGCCTCCTTGGGGGGATTTTTTTCCCCCATCTTCTTCGATTTTCTCTTTGCTTGTCGC
TGCCTTCCGTAGTAACGGGAAAGGAGCCGGGCTTGCAGGGTGCAAGCGAGACTCCGAAGCCAACG
AGTACCTGGGGGCCGTAGCCCGAGCAGTCCCCCTAGCGAAGTGCTAGCGGCCCTGCCCACCACCC
AGGCTCGGTGGCTGGCCTCTATCCAATCACGCAGTGTCCACTTCCAGCGTGGACACCAGATCCGG
GTTATCTGAGGTGCATTGGTGGCACCCGCGCTTGCTACCAGGGACGGCTCGACCTGGTTCGGATT
GGATGAGGCTGTGAAGAAGAAAAACTTGGTGGGGGGGTAGCACCGGTATTTATGGGCGGTTTGGG
AAAGGTGCAGGATTTGCAGCCATTTGTGGTTGGTGGTTGGAGAAGTTTGTGGTAGGCGGAGTTTG
TGGTTGGAGGGTAGGAAGGAAGAGAAGGCACGTGTTGGGCAGTGT
Right flanking sequence: Indices 10928 -- 11427
GTTTGTATACGGTGGACATCGGTGCTTATAGCTTGGGCATCGTTAGATGTAGTAGTTGGTGCGTC
CTAAGGGTACCCAACGTACCAAAGGGATCGTGCGCCTGTAACCACATGGCGGGCCATTGTAATGC
CCTATGGTCTCCGCGACAGTGAATTACGCACCTGTCTCCTTCCAAAGCCTAGGTTGCAACCACCA
CTTCCCAAAGTGGAAATATGCAACACTTAGCCTCAGCAATCTCAGATCCTACACTTGTCTATGGA
ACACTTTAGCCTCAACCGATCTACCCAAGTCTACACTGTCTAGTTATATTCCTCTTATTCATACA
TTACCGGCGCTCCTCCCTAGAGTACGGGTGGTACCCGCGTCTCTGGTACCCCCCACGGCCACGGC
CACGGTTGCGGCCACTACGGCCACCAGACGGGCCCAGAGGCGGGGCTCTGCGGGGCCCACGAGGC
ACCCCGTTCCCGCTCCCGCTACGGCGCGAGTCGGAGTACCCGTCG
Found at i:11798 original size:12 final size:12
Alignment explanation
Indices: 11781--11805 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11771 AGCCGTAGCT
11781 CTGTTGCTGCTG
1 CTGTTGCTGCTG
11793 CTGTTGCTGCTG
1 CTGTTGCTGCTG
11805 C
1 C
11806 AGGTGGTCGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.32, T:0.40
Consensus pattern (12 bp):
CTGTTGCTGCTG
Left flanking sequence: Indices 11281 -- 11780
TGGTACCCGCGTCTCTGGTACCCCCCACGGCCACGGCCACGGTTGCGGCCACTACGGCCACCAGA
CGGGCCCAGAGGCGGGGCTCTGCGGGGCCCACGAGGCACCCCGTTCCCGCTCCCGCTACGGCGCG
AGTCGGAGTACCCGTCGCTACGACGCTCGTAGTCGCGCGAGTTGTTCTCGTAGTCCCGAGACCGC
TCGCGGTCGTACTCGCGCCGCTGGTCCCAGTTCTGGTTCTGGCCCTGGTTACCCTGGTTCTGGCC
CTGGGGCTGACCCTGCGGCTGGCCCTGGCCGCCAGCAGGCGGTGGCGGAACCTCCCCTTGCTGTT
GCGGGTTCAACGGCTGCTGGGGCTGCTCGCCCTCCTGGCCGCCGGCCTGCTGGGCCGCAGCCTGC
TGATACATGTACCACTGCTGCATCCGCTGCCAGTACTCCTGCATCATTTCGGGACTGACCCCGGG
GGGCACGCCCATGCCCGGGATTTGCATCCCGTTGTAGCCGTAGCT
Right flanking sequence: Indices 11806 -- 12305
AGGTGGTCGCGGTTGTTGTGGGAGCCCCGCGGTTCTGCCCGCTTCACCTCCATCGATTTGCCCTT
GAGGGTCAAGTACTTATTTACGGTAACTCTATCCACAGCATCGGGGGAGTCGTAGGTGATGAACC
CGAACCCCCGCAGCCGGCCGGTGTCCTTGTCGATCATGAGCTGGGCGTCGATGATCAGGCCAAAC
TGCGAGAAGAACTGGTGGAACTCTTCCTCGTTCACCATGGGGTCGATCCCGCCCACGAAGATCTT
ACCTACCTTGTCCTGCTCCTCGCGCGCAATCGCCCGCTTCGGGTCAATGAGCTTGCCGTCCAAAA
TATGGTCTTGTTTGATTACCTGTTCCACCAGCGCCGGGTCGGCAAACGTGAGGAACCCGAACCCA
CGCGACTTGCCGGTGTTGTTGTCCCGCATGATCGTGTGGTCTAGCACCTCGCCAAACTTGCTAAA
ATACGCTACAAGCCCCTCCTCGGTGGTGTCCCAGTTGAGGCCGCC
Found at i:12493 original size:18 final size:18
Alignment explanation
Indices: 12470--12551 Score: 68
Period size: 18 Copynumber: 4.7 Consensus size: 18
12460 TTCTGCCCAA
12470 ACTGGCCCTGGTTGCCGT
1 ACTGGCCCTGGTTGCCGT
12488 ACTGGCCCTGG-T----T
1 ACTGGCCCTGGTTGCCGT
*
12501 -CTGGCCCTGGTTCTGCCCGA
1 ACTGGCCCTGG-T-TG-CCGT
* *
12521 ACTGGCTCTGGTCGCCGT
1 ACTGGCCCTGGTTGCCGT
12539 ACTGGCCCTGGTT
1 ACTGGCCCTGGTT
12552 CTGGCCCGGC
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
12 10 0.20
13 1 0.02
15 1 0.02
17 1 0.02
18 25 0.51
19 1 0.02
20 1 0.02
21 9 0.18
ACGTcount: A:0.06, C:0.34, G:0.32, T:0.28
Consensus pattern (18 bp):
ACTGGCCCTGGTTGCCGT
Left flanking sequence: Indices 11970 -- 12469
CATGAGCTGGGCGTCGATGATCAGGCCAAACTGCGAGAAGAACTGGTGGAACTCTTCCTCGTTCA
CCATGGGGTCGATCCCGCCCACGAAGATCTTACCTACCTTGTCCTGCTCCTCGCGCGCAATCGCC
CGCTTCGGGTCAATGAGCTTGCCGTCCAAAATATGGTCTTGTTTGATTACCTGTTCCACCAGCGC
CGGGTCGGCAAACGTGAGGAACCCGAACCCACGCGACTTGCCGGTGTTGTTGTCCCGCATGATCG
TGTGGTCTAGCACCTCGCCAAACTTGCTAAAATACGCTACAAGCCCCTCCTCGGTGGTGTCCCAG
TTGAGGCCGCCAATAAACATTTTGCCGGTGTCGCGTCCGATATTCAGCGGCTGGTGGATCACCCC
CTGGGGGGCCGGCGACCCGGTGGAGCCAAACCCCTGGCCGAACTGGCCCGGGGGCCCGGGGGGCT
GGTTGAAGTTCTGGTTCTGGTTGAATTGGCCCGGGTTCTGCCCAA
Right flanking sequence: Indices 12552 -- 13051
CTGGCCCGGCTGGCCCGGCTGGCCTGGCTGGCCTGGCTGGCCTGGCTGGCCTTGGTTCTGGTCGT
TGTTGAAGCCTCCTGGGGGGTACGGCTGCCCGTACTGGCTCGAATTGTCCGCTGCCGGGGGCGGA
GGCGGCGGTTGGGCACTGCCCTCGGGATTGGGTGTTTCCAGCCCCTGGGGGGCCCCGGGAGCCGC
GGTGTTGGGCTGGGTGGGGGTGGACTCGTCTTTTCCATCCTGCACGGGGGTCGCGGACGCCGTCT
TTTCGTCGCTCGGCTTGTCGTCCTTCACGTCGACCTTGGTGTCCTCGTCATCACCACTGGACGGT
TAGTATCGAAGATGGTAGCGGAGGTGGTGGGGTCGACTTACTAGATATCATCGAAGATGGCTTCG
TCGTCGGACATTTACTTAGTCTAAGTTATATGAATGCCTTTATTGGAAATAAACAGATATACCAA
TCTAACTCCCCTATGTAGTCCTTGTCGATGTTGCGGCGAAGGCCA
Found at i:12504 original size:12 final size:12
Alignment explanation
Indices: 12489--12515 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
12479 GGTTGCCGTA
12489 CTGGCCCTGGTT
1 CTGGCCCTGGTT
12501 CTGGCCCTGGTT
1 CTGGCCCTGGTT
12513 CTG
1 CTG
12516 CCCGAACTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (12 bp):
CTGGCCCTGGTT
Left flanking sequence: Indices 11989 -- 12488
ATCAGGCCAAACTGCGAGAAGAACTGGTGGAACTCTTCCTCGTTCACCATGGGGTCGATCCCGCC
CACGAAGATCTTACCTACCTTGTCCTGCTCCTCGCGCGCAATCGCCCGCTTCGGGTCAATGAGCT
TGCCGTCCAAAATATGGTCTTGTTTGATTACCTGTTCCACCAGCGCCGGGTCGGCAAACGTGAGG
AACCCGAACCCACGCGACTTGCCGGTGTTGTTGTCCCGCATGATCGTGTGGTCTAGCACCTCGCC
AAACTTGCTAAAATACGCTACAAGCCCCTCCTCGGTGGTGTCCCAGTTGAGGCCGCCAATAAACA
TTTTGCCGGTGTCGCGTCCGATATTCAGCGGCTGGTGGATCACCCCCTGGGGGGCCGGCGACCCG
GTGGAGCCAAACCCCTGGCCGAACTGGCCCGGGGGCCCGGGGGGCTGGTTGAAGTTCTGGTTCTG
GTTGAATTGGCCCGGGTTCTGCCCAAACTGGCCCTGGTTGCCGTA
Right flanking sequence: Indices 12516 -- 13015
CCCGAACTGGCTCTGGTCGCCGTACTGGCCCTGGTTCTGGCCCGGCTGGCCCGGCTGGCCTGGCT
GGCCTGGCTGGCCTGGCTGGCCTTGGTTCTGGTCGTTGTTGAAGCCTCCTGGGGGGTACGGCTGC
CCGTACTGGCTCGAATTGTCCGCTGCCGGGGGCGGAGGCGGCGGTTGGGCACTGCCCTCGGGATT
GGGTGTTTCCAGCCCCTGGGGGGCCCCGGGAGCCGCGGTGTTGGGCTGGGTGGGGGTGGACTCGT
CTTTTCCATCCTGCACGGGGGTCGCGGACGCCGTCTTTTCGTCGCTCGGCTTGTCGTCCTTCACG
TCGACCTTGGTGTCCTCGTCATCACCACTGGACGGTTAGTATCGAAGATGGTAGCGGAGGTGGTG
GGGTCGACTTACTAGATATCATCGAAGATGGCTTCGTCGTCGGACATTTACTTAGTCTAAGTTAT
ATGAATGCCTTTATTGGAAATAAACAGATATACCAATCTAACTCC
Found at i:12515 original size:51 final size:51
Alignment explanation
Indices: 12451--12560 Score: 184
Period size: 51 Copynumber: 2.2 Consensus size: 51
12441 CTGGTTGAAT
*
12451 TGGCCCGGGTTCTGCCCAAACTGGCCCTGGTTGCCGTACTGGCCCTGGTTC
1 TGGCCCGGGTTCTGCCCAAACTGGCCCTGGTCGCCGTACTGGCCCTGGTTC
* * *
12502 TGGCCCTGGTTCTGCCCGAACTGGCTCTGGTCGCCGTACTGGCCCTGGTTC
1 TGGCCCGGGTTCTGCCCAAACTGGCCCTGGTCGCCGTACTGGCCCTGGTTC
12553 TGGCCCGG
1 TGGCCCGG
12561 CTGGCCCGGC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.06, C:0.35, G:0.33, T:0.25
Consensus pattern (51 bp):
TGGCCCGGGTTCTGCCCAAACTGGCCCTGGTCGCCGTACTGGCCCTGGTTC
Left flanking sequence: Indices 11951 -- 12450
GGCCGGTGTCCTTGTCGATCATGAGCTGGGCGTCGATGATCAGGCCAAACTGCGAGAAGAACTGG
TGGAACTCTTCCTCGTTCACCATGGGGTCGATCCCGCCCACGAAGATCTTACCTACCTTGTCCTG
CTCCTCGCGCGCAATCGCCCGCTTCGGGTCAATGAGCTTGCCGTCCAAAATATGGTCTTGTTTGA
TTACCTGTTCCACCAGCGCCGGGTCGGCAAACGTGAGGAACCCGAACCCACGCGACTTGCCGGTG
TTGTTGTCCCGCATGATCGTGTGGTCTAGCACCTCGCCAAACTTGCTAAAATACGCTACAAGCCC
CTCCTCGGTGGTGTCCCAGTTGAGGCCGCCAATAAACATTTTGCCGGTGTCGCGTCCGATATTCA
GCGGCTGGTGGATCACCCCCTGGGGGGCCGGCGACCCGGTGGAGCCAAACCCCTGGCCGAACTGG
CCCGGGGGCCCGGGGGGCTGGTTGAAGTTCTGGTTCTGGTTGAAT
Right flanking sequence: Indices 12561 -- 13060
CTGGCCCGGCTGGCCTGGCTGGCCTGGCTGGCCTGGCTGGCCTTGGTTCTGGTCGTTGTTGAAGC
CTCCTGGGGGGTACGGCTGCCCGTACTGGCTCGAATTGTCCGCTGCCGGGGGCGGAGGCGGCGGT
TGGGCACTGCCCTCGGGATTGGGTGTTTCCAGCCCCTGGGGGGCCCCGGGAGCCGCGGTGTTGGG
CTGGGTGGGGGTGGACTCGTCTTTTCCATCCTGCACGGGGGTCGCGGACGCCGTCTTTTCGTCGC
TCGGCTTGTCGTCCTTCACGTCGACCTTGGTGTCCTCGTCATCACCACTGGACGGTTAGTATCGA
AGATGGTAGCGGAGGTGGTGGGGTCGACTTACTAGATATCATCGAAGATGGCTTCGTCGTCGGAC
ATTTACTTAGTCTAAGTTATATGAATGCCTTTATTGGAAATAAACAGATATACCAATCTAACTCC
CCTATGTAGTCCTTGTCGATGTTGCGGCGAAGGCCAACGAAATGG
Found at i:12525 original size:21 final size:20
Alignment explanation
Indices: 12501--12567 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
12491 GGCCCTGGTT
12501 CTGGCCCTGGTTCTGCCCGAA
1 CTGGCCCTGGTTCTGCCCG-A
*
12522 CTGGCTCTGG-TC-G-CCGTA
1 CTGGCCCTGGTTCTGCCCG-A
*
12540 CTGGCCCTGGTTCTGGCCCGG
1 CTGGCCCTGGTTCT-GCCCGA
12561 CTGGCCC
1 CTGGCCC
12568 GGCTGGCCTG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 13 0.34
19 3 0.08
20 2 0.05
21 17 0.45
22 3 0.08
ACGTcount: A:0.04, C:0.39, G:0.33, T:0.24
Consensus pattern (20 bp):
CTGGCCCTGGTTCTGCCCGA
Left flanking sequence: Indices 12001 -- 12500
TGCGAGAAGAACTGGTGGAACTCTTCCTCGTTCACCATGGGGTCGATCCCGCCCACGAAGATCTT
ACCTACCTTGTCCTGCTCCTCGCGCGCAATCGCCCGCTTCGGGTCAATGAGCTTGCCGTCCAAAA
TATGGTCTTGTTTGATTACCTGTTCCACCAGCGCCGGGTCGGCAAACGTGAGGAACCCGAACCCA
CGCGACTTGCCGGTGTTGTTGTCCCGCATGATCGTGTGGTCTAGCACCTCGCCAAACTTGCTAAA
ATACGCTACAAGCCCCTCCTCGGTGGTGTCCCAGTTGAGGCCGCCAATAAACATTTTGCCGGTGT
CGCGTCCGATATTCAGCGGCTGGTGGATCACCCCCTGGGGGGCCGGCGACCCGGTGGAGCCAAAC
CCCTGGCCGAACTGGCCCGGGGGCCCGGGGGGCTGGTTGAAGTTCTGGTTCTGGTTGAATTGGCC
CGGGTTCTGCCCAAACTGGCCCTGGTTGCCGTACTGGCCCTGGTT
Right flanking sequence: Indices 12568 -- 13067
GGCTGGCCTGGCTGGCCTGGCTGGCCTGGCTGGCCTTGGTTCTGGTCGTTGTTGAAGCCTCCTGG
GGGGTACGGCTGCCCGTACTGGCTCGAATTGTCCGCTGCCGGGGGCGGAGGCGGCGGTTGGGCAC
TGCCCTCGGGATTGGGTGTTTCCAGCCCCTGGGGGGCCCCGGGAGCCGCGGTGTTGGGCTGGGTG
GGGGTGGACTCGTCTTTTCCATCCTGCACGGGGGTCGCGGACGCCGTCTTTTCGTCGCTCGGCTT
GTCGTCCTTCACGTCGACCTTGGTGTCCTCGTCATCACCACTGGACGGTTAGTATCGAAGATGGT
AGCGGAGGTGGTGGGGTCGACTTACTAGATATCATCGAAGATGGCTTCGTCGTCGGACATTTACT
TAGTCTAAGTTATATGAATGCCTTTATTGGAAATAAACAGATATACCAATCTAACTCCCCTATGT
AGTCCTTGTCGATGTTGCGGCGAAGGCCAACGAAATGGTCGCGCG
Found at i:12566 original size:9 final size:9
Alignment explanation
Indices: 12552--12603 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
12542 GGCCCTGGTT
*
12552 CTGGCCCGG
1 CTGGCCTGG
*
12561 CTGGCCCGG
1 CTGGCCTGG
12570 CTGGCCTGG
1 CTGGCCTGG
12579 CTGGCCTGG
1 CTGGCCTGG
12588 CTGGCCTGG
1 CTGGCCTGG
12597 CTGGCCT
1 CTGGCCT
12604 TGGTTCTGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.00, C:0.38, G:0.42, T:0.19
Consensus pattern (9 bp):
CTGGCCTGG
Left flanking sequence: Indices 12052 -- 12551
CCCACGAAGATCTTACCTACCTTGTCCTGCTCCTCGCGCGCAATCGCCCGCTTCGGGTCAATGAG
CTTGCCGTCCAAAATATGGTCTTGTTTGATTACCTGTTCCACCAGCGCCGGGTCGGCAAACGTGA
GGAACCCGAACCCACGCGACTTGCCGGTGTTGTTGTCCCGCATGATCGTGTGGTCTAGCACCTCG
CCAAACTTGCTAAAATACGCTACAAGCCCCTCCTCGGTGGTGTCCCAGTTGAGGCCGCCAATAAA
CATTTTGCCGGTGTCGCGTCCGATATTCAGCGGCTGGTGGATCACCCCCTGGGGGGCCGGCGACC
CGGTGGAGCCAAACCCCTGGCCGAACTGGCCCGGGGGCCCGGGGGGCTGGTTGAAGTTCTGGTTC
TGGTTGAATTGGCCCGGGTTCTGCCCAAACTGGCCCTGGTTGCCGTACTGGCCCTGGTTCTGGCC
CTGGTTCTGCCCGAACTGGCTCTGGTCGCCGTACTGGCCCTGGTT
Right flanking sequence: Indices 12604 -- 13103
TGGTTCTGGTCGTTGTTGAAGCCTCCTGGGGGGTACGGCTGCCCGTACTGGCTCGAATTGTCCGC
TGCCGGGGGCGGAGGCGGCGGTTGGGCACTGCCCTCGGGATTGGGTGTTTCCAGCCCCTGGGGGG
CCCCGGGAGCCGCGGTGTTGGGCTGGGTGGGGGTGGACTCGTCTTTTCCATCCTGCACGGGGGTC
GCGGACGCCGTCTTTTCGTCGCTCGGCTTGTCGTCCTTCACGTCGACCTTGGTGTCCTCGTCATC
ACCACTGGACGGTTAGTATCGAAGATGGTAGCGGAGGTGGTGGGGTCGACTTACTAGATATCATC
GAAGATGGCTTCGTCGTCGGACATTTACTTAGTCTAAGTTATATGAATGCCTTTATTGGAAATAA
ACAGATATACCAATCTAACTCCCCTATGTAGTCCTTGTCGATGTTGCGGCGAAGGCCAACGAAAT
GGTCGCGCGAGCGGTCACGTGTGCGCGCTACCGTGTCGGGTGTGT
Found at i:14231 original size:17 final size:16
Alignment explanation
Indices: 14193--14252 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 16
14183 CCAGCTTTCT
*
14193 TCTCCTTTCTCTCCCATC
1 TCTCC-TTCTCT-CCTTC
*
14211 TCTCCCTTCTCTCTTTC
1 TCT-CCTTCTCTCCTTC
14228 TCTCCTTCTCTCCTTC
1 TCTCCTTCTCTCCTTC
14244 TCTTCCTTC
1 TC-TCCTTC
14253 CCACCATTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 14 0.38
17 12 0.32
18 9 0.24
19 2 0.05
ACGTcount: A:0.02, C:0.48, G:0.00, T:0.50
Consensus pattern (16 bp):
TCTCCTTCTCTCCTTC
Left flanking sequence: Indices 13693 -- 14192
TCACCACCAGCCATCGCGTGTGTGCCCCTCATGTAGCCACCAGAGTGCAGCTCGCTAGTCAGCCG
CGCCTTCGCTAAGCCCGAACTCAGCAGGAGATAGACATACCGCGTGGTAATCTTGCCCATCACCA
CCACTACCACTACTACCACCACCATGACCACTAACACCAATCACCAACAGAACCGCAATCTCTAC
TCCCCTATAACCCCTTTGTGGCTTACCGCTCATCTCACAGACTGCAGCGTAGACGACCAGCTAGC
CGACGACGCGCGCTCGCGTGACAGTCGCCCAGCCAGCCCGTCACCACGTGCCATTGCTTTTGCGA
GCTCGTCTGACCAGTGCCTACTATGTTGTTATTACCATCACTCGTCTACTTTCCCAACGCATTCT
TCTTTCTGTTTTTTTACTTCCTCTCGTCTTTCCCTACCTTTGCCTTTCCAATTCGTCTTTTCTCG
TCCTCCCCTACTTCCCCAGACTTTCCCAAAGTATCCCAGCTTTCT
Right flanking sequence: Indices 14253 -- 14457
CCACCATTCCCATCCTTCTTGTTCCCCTTCTTGTTCCCCTTCTTCTTCCCCTTCTTGTTCCCCTT
CTTGTTCCCTTCTTCCCTTCTCGTTCCCATAACCACGCACTACCAGCGACCAAAAACCACACCAA
AACACCATAACAACCACCCGTAAACCACGCCAAAACACCTAAACCCCACCCAAAAACCACCCCAC
CCCCCCCACA
Found at i:14252 original size:9 final size:8
Alignment explanation
Indices: 14193--14252 Score: 66
Period size: 9 Copynumber: 7.0 Consensus size: 8
14183 CCAGCTTTCT
14193 TCTCCTTTC
1 TCTCC-TTC
*
14202 TCTCCCATC
1 TCT-CCTTC
14211 TCTCCCTTC
1 TCT-CCTTC
*
14220 TCTCTTTC
1 TCTCCTTC
14228 TCTCCTTC
1 TCTCCTTC
14236 TCTCCTTC
1 TCTCCTTC
14244 TCTTCCTTC
1 TC-TCCTTC
14253 CCACCATTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
8 21 0.47
9 22 0.49
10 2 0.04
ACGTcount: A:0.02, C:0.48, G:0.00, T:0.50
Consensus pattern (8 bp):
TCTCCTTC
Left flanking sequence: Indices 13693 -- 14192
TCACCACCAGCCATCGCGTGTGTGCCCCTCATGTAGCCACCAGAGTGCAGCTCGCTAGTCAGCCG
CGCCTTCGCTAAGCCCGAACTCAGCAGGAGATAGACATACCGCGTGGTAATCTTGCCCATCACCA
CCACTACCACTACTACCACCACCATGACCACTAACACCAATCACCAACAGAACCGCAATCTCTAC
TCCCCTATAACCCCTTTGTGGCTTACCGCTCATCTCACAGACTGCAGCGTAGACGACCAGCTAGC
CGACGACGCGCGCTCGCGTGACAGTCGCCCAGCCAGCCCGTCACCACGTGCCATTGCTTTTGCGA
GCTCGTCTGACCAGTGCCTACTATGTTGTTATTACCATCACTCGTCTACTTTCCCAACGCATTCT
TCTTTCTGTTTTTTTACTTCCTCTCGTCTTTCCCTACCTTTGCCTTTCCAATTCGTCTTTTCTCG
TCCTCCCCTACTTCCCCAGACTTTCCCAAAGTATCCCAGCTTTCT
Right flanking sequence: Indices 14253 -- 14457
CCACCATTCCCATCCTTCTTGTTCCCCTTCTTGTTCCCCTTCTTCTTCCCCTTCTTGTTCCCCTT
CTTGTTCCCTTCTTCCCTTCTCGTTCCCATAACCACGCACTACCAGCGACCAAAAACCACACCAA
AACACCATAACAACCACCCGTAAACCACGCCAAAACACCTAAACCCCACCCAAAAACCACCCCAC
CCCCCCCACA
Found at i:14283 original size:12 final size:12
Alignment explanation
Indices: 14266--14331 Score: 116
Period size: 12 Copynumber: 5.6 Consensus size: 12
14256 CCATTCCCAT
14266 CCTTCTTGTTCC
1 CCTTCTTGTTCC
14278 CCTTCTTGTTCC
1 CCTTCTTGTTCC
*
14290 CCTTCTTCTTCC
1 CCTTCTTGTTCC
14302 CCTTCTTGTTCC
1 CCTTCTTGTTCC
14314 CCTTCTTGTT-C
1 CCTTCTTGTTCC
14325 CCTTCTT
1 CCTTCTT
14332 CCCTTCTCGT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
11 8 0.15
12 44 0.85
ACGTcount: A:0.00, C:0.42, G:0.06, T:0.52
Consensus pattern (12 bp):
CCTTCTTGTTCC
Left flanking sequence: Indices 13766 -- 14265
CTAAGCCCGAACTCAGCAGGAGATAGACATACCGCGTGGTAATCTTGCCCATCACCACCACTACC
ACTACTACCACCACCATGACCACTAACACCAATCACCAACAGAACCGCAATCTCTACTCCCCTAT
AACCCCTTTGTGGCTTACCGCTCATCTCACAGACTGCAGCGTAGACGACCAGCTAGCCGACGACG
CGCGCTCGCGTGACAGTCGCCCAGCCAGCCCGTCACCACGTGCCATTGCTTTTGCGAGCTCGTCT
GACCAGTGCCTACTATGTTGTTATTACCATCACTCGTCTACTTTCCCAACGCATTCTTCTTTCTG
TTTTTTTACTTCCTCTCGTCTTTCCCTACCTTTGCCTTTCCAATTCGTCTTTTCTCGTCCTCCCC
TACTTCCCCAGACTTTCCCAAAGTATCCCAGCTTTCTTCTCCTTTCTCTCCCATCTCTCCCTTCT
CTCTTTCTCTCCTTCTCTCCTTCTCTTCCTTCCCACCATTCCCAT
Right flanking sequence: Indices 14332 -- 14457
CCCTTCTCGTTCCCATAACCACGCACTACCAGCGACCAAAAACCACACCAAAACACCATAACAAC
CACCCGTAAACCACGCCAAAACACCTAAACCCCACCCAAAAACCACCCCACCCCCCCCACA
Done.