Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 101 of 170
Found at i:31470789 original size:27 final size:25
Alignment explanation
Indices: 31470751--31470801 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
31470741 GTTAACTATA
31470751 AATTTATGTTTTTACATCTTTTTTTTT
1 AATTTA-GTTTTTA-ATCTTTTTTTTT
* *
31470778 AATTTAATTTTTATTCTTTTTTTT
1 AATTTAGTTTTTAATCTTTTTTTT
31470802 AGCTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 6 0.27
27 6 0.27
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.73
Consensus pattern (25 bp):
AATTTAGTTTTTAATCTTTTTTTTT
Found at i:31473717 original size:21 final size:22
Alignment explanation
Indices: 31473682--31473723 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
31473672 TTAGAAACCC
*
31473682 AAAACAAAAAGAGAGAGAAAGT
1 AAAACAAAAAAAGAGAGAAAGT
*
31473704 AAAA-AAAAAAAGAGGGAAAG
1 AAAACAAAAAAAGAGAGAAAG
31473724 AAGAATTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.02
Consensus pattern (22 bp):
AAAACAAAAAAAGAGAGAAAGT
Found at i:31485669 original size:9 final size:9
Alignment explanation
Indices: 31485648--31485697 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
31485638 TCATCTATGT
31485648 TAAAAAACTA
1 TAAAAAAC-A
31485658 TAAAAAACA
1 TAAAAAACA
*
31485667 TAAAAAACG
1 TAAAAAACA
*
31485676 TAAAAAAGA
1 TAAAAAACA
*
31485685 TGAAAAACA
1 TAAAAAACA
31485694 -AAAA
1 TAAAA
31485698 GAATATGATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
8 3 0.09
9 23 0.68
10 8 0.24
ACGTcount: A:0.74, C:0.08, G:0.06, T:0.12
Consensus pattern (9 bp):
TAAAAAACA
Found at i:31493047 original size:21 final size:22
Alignment explanation
Indices: 31493013--31493053 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
31493003 AATGTTTGAA
*
31493013 AAAAATTCTCATTA-ATCTCAC
1 AAAAATTCTAATTAGATCTCAC
*
31493034 AAAAATTTTAATTAGATCTC
1 AAAAATTCTAATTAGATCTC
31493054 CAATTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.37
Consensus pattern (22 bp):
AAAAATTCTAATTAGATCTCAC
Found at i:31502995 original size:11 final size:11
Alignment explanation
Indices: 31502987--31503011 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31502977 TAGTTTTTCT
31502987 TTTGGTTTTAA
1 TTTGGTTTTAA
31502998 TTTGGTTTTAA
1 TTTGGTTTTAA
31503009 TTT
1 TTT
31503012 TATTTTCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (11 bp):
TTTGGTTTTAA
Found at i:31505505 original size:31 final size:31
Alignment explanation
Indices: 31505442--31505506 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
31505432 AAGTCTCGTG
* * *
31505442 CAAAGATATAATCAGTACAAGACAAACTATA
1 CAAAAATATAATCAATACAAGACAAACCATA
*
31505473 CAAAAATATAATTAATACAAGA-AAAGCCATA
1 CAAAAATATAATCAATACAAGACAAA-CCATA
31505504 CAA
1 CAA
31505507 GACAAATATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.58, C:0.15, G:0.08, T:0.18
Consensus pattern (31 bp):
CAAAAATATAATCAATACAAGACAAACCATA
Found at i:31508021 original size:31 final size:31
Alignment explanation
Indices: 31507986--31508051 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
31507976 TTACAAAATG
*
31507986 GTCATTGAATTATTTGAAACTT-TTCATTTAA
1 GTCATTAAATTATTTGAAACTTATT-ATTTAA
*
31508017 GTCATTAAATTATTTGAAAGTTATTATTTAA
1 GTCATTAAATTATTTGAAACTTATTATTTAA
31508048 GTCA
1 GTCA
31508052 CTGGTTGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.47
Consensus pattern (31 bp):
GTCATTAAATTATTTGAAACTTATTATTTAA
Found at i:31518705 original size:21 final size:21
Alignment explanation
Indices: 31518681--31518721 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
31518671 TATATGGTCA
*
31518681 GTATGATCTGTAATATGATAT
1 GTATGATCTATAATATGATAT
31518702 GTATGATCTATAATATGATA
1 GTATGATCTATAATATGATA
31518722 ACTATGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (21 bp):
GTATGATCTATAATATGATAT
Found at i:31518727 original size:21 final size:21
Alignment explanation
Indices: 31518682--31518729 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
31518672 ATATGGTCAG
* **
31518682 TATGATCTGTAATATGATATG
1 TATGATCTATAATATGATAAC
31518703 TATGATCTATAATATGATAAC
1 TATGATCTATAATATGATAAC
31518724 TATGAT
1 TATGAT
31518730 ATGTTATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.42
Consensus pattern (21 bp):
TATGATCTATAATATGATAAC
Found at i:31519983 original size:15 final size:15
Alignment explanation
Indices: 31519963--31520001 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
31519953 GCAAATCAAG
31519963 TAGAGTAGAGCAAAA
1 TAGAGTAGAGCAAAA
* *
31519978 TAGAGTAGAGTAGAA
1 TAGAGTAGAGCAAAA
*
31519993 TAGAATAGA
1 TAGAGTAGA
31520002 ACCGAACAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.51, C:0.03, G:0.28, T:0.18
Consensus pattern (15 bp):
TAGAGTAGAGCAAAA
Found at i:31532371 original size:16 final size:16
Alignment explanation
Indices: 31532352--31532384 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
31532342 AATTATTTAT
*
31532352 TTATTTTTGTAAGGTA
1 TTATTTTGGTAAGGTA
31532368 TTATTTTGGTAAGGTA
1 TTATTTTGGTAAGGTA
31532384 T
1 T
31532385 GTTTATGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (16 bp):
TTATTTTGGTAAGGTA
Found at i:31532412 original size:21 final size:21
Alignment explanation
Indices: 31532388--31532429 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
31532378 AAGGTATGTT
*
31532388 TATGTTTTATTT-TTTGATTCA
1 TATGTTTT-TTTATTAGATTCA
31532409 TATGTTTTTTTATTAGATTCA
1 TATGTTTTTTTATTAGATTCA
31532430 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (21 bp):
TATGTTTTTTTATTAGATTCA
Found at i:31541617 original size:16 final size:17
Alignment explanation
Indices: 31541583--31541620 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
31541573 ATTTTAAATT
31541583 AAAAAATAATACATTTTA
1 AAAAAATAATACA-TTTA
31541601 AAAAAATAATACA-TTA
1 AAAAAATAATACATTTA
31541617 AAAA
1 AAAA
31541621 CATACATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
18 13 0.65
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAAATAATACATTTA
Found at i:31547342 original size:17 final size:17
Alignment explanation
Indices: 31547308--31547342 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
31547298 CCCCCATTCT
*
31547308 AATCCCTAACAACTCTA
1 AATCCCTAACAACCCTA
*
31547325 AATCCCTAAGAACCCTA
1 AATCCCTAACAACCCTA
31547342 A
1 A
31547343 CAAATTCACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.34, G:0.03, T:0.20
Consensus pattern (17 bp):
AATCCCTAACAACCCTA
Found at i:31548720 original size:17 final size:17
Alignment explanation
Indices: 31548684--31548721 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
31548674 TGGTATGATG
*
31548684 TGATGAAAATTCATGAA
1 TGATGAAAATACATGAA
31548701 TGATGGAAAATACATG-A
1 TGAT-GAAAATACATGAA
31548718 TGAT
1 TGAT
31548722 TAACTTATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (17 bp):
TGATGAAAATACATGAA
Found at i:31551532 original size:12 final size:12
Alignment explanation
Indices: 31551517--31551570 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
31551507 TATTTTGCAG
31551517 GTTGTTTTTGGT
1 GTTGTTTTTGGT
31551529 GTTG-TTTTGGT
1 GTTGTTTTTGGT
*
31551540 GTTGATTTTGG-
1 GTTGTTTTTGGT
* *
31551551 GTGGTATTTTAGT
1 GTTGT-TTTTGGT
31551564 GTTGTTT
1 GTTGTTT
31551571 CGCTGTCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 14 0.40
12 17 0.49
13 4 0.11
ACGTcount: A:0.06, C:0.00, G:0.33, T:0.61
Consensus pattern (12 bp):
GTTGTTTTTGGT
Found at i:31551538 original size:11 final size:11
Alignment explanation
Indices: 31551517--31551570 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
31551507 TATTTTGCAG
31551517 GTTGTTTTTGGT
1 GTTG-TTTTGGT
31551529 GTTGTTTTGGT
1 GTTGTTTTGGT
31551540 GTTGATTTTGGGT
1 GTTG-TTTT-GGT
* * *
31551553 GGTATTTTAGT
1 GTTGTTTTGGT
31551564 GTTGTTT
1 GTTGTTT
31551571 CGCTGTCAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
11 18 0.51
12 12 0.34
13 5 0.14
ACGTcount: A:0.06, C:0.00, G:0.33, T:0.61
Consensus pattern (11 bp):
GTTGTTTTGGT
Found at i:31554794 original size:17 final size:17
Alignment explanation
Indices: 31554772--31554806 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
31554762 AGTGAGTAGG
*
31554772 TTAATCTATTGTGTTTA
1 TTAATCTATTATGTTTA
31554789 TTAATCTATTATGTTTA
1 TTAATCTATTATGTTTA
31554806 T
1 T
31554807 CTTCGCGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.60
Consensus pattern (17 bp):
TTAATCTATTATGTTTA
Found at i:31555614 original size:35 final size:35
Alignment explanation
Indices: 31555575--31555678 Score: 87
Period size: 35 Copynumber: 3.1 Consensus size: 35
31555565 GTGTGCAGCG
31555575 CACGGGATTAGGGATTTGGGCGAATGTTGGTGCCA
1 CACGGGATTAGGGATTTGGGCGAATGTTGGTGCCA
* *** ** *
31555610 CACGGG--T-GGCCACACGGGCG--TG-TGCAG-CG
1 CACGGGATTAGG-GATTTGGGCGAATGTTGGTGCCA
31555639 CACGGGATTAGGGATTTGGGCGAATGTTGGTGCCA
1 CACGGGATTAGGGATTTGGGCGAATGTTGGTGCCA
31555674 CACGG
1 CACGG
31555679 CTTGACCACA
Statistics
Matches: 47, Mismatches: 14, Indels: 16
0.61 0.18 0.21
Matches are distributed among these distances:
29 7 0.15
30 3 0.06
31 9 0.19
32 4 0.09
33 9 0.19
34 3 0.06
35 12 0.26
ACGTcount: A:0.18, C:0.20, G:0.41, T:0.20
Consensus pattern (35 bp):
CACGGGATTAGGGATTTGGGCGAATGTTGGTGCCA
Found at i:31555656 original size:64 final size:64
Alignment explanation
Indices: 31555555--31555678 Score: 248
Period size: 64 Copynumber: 1.9 Consensus size: 64
31555545 GGTTTCGTGA
31555555 CCACACGGGCGTGTGCAGCGCACGGGATTAGGGATTTGGGCGAATGTTGGTGCCACACGGGTGG
1 CCACACGGGCGTGTGCAGCGCACGGGATTAGGGATTTGGGCGAATGTTGGTGCCACACGGGTGG
31555619 CCACACGGGCGTGTGCAGCGCACGGGATTAGGGATTTGGGCGAATGTTGGTGCCACACGG
1 CCACACGGGCGTGTGCAGCGCACGGGATTAGGGATTTGGGCGAATGTTGGTGCCACACGG
31555679 CTTGACCACA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.18, C:0.23, G:0.41, T:0.19
Consensus pattern (64 bp):
CCACACGGGCGTGTGCAGCGCACGGGATTAGGGATTTGGGCGAATGTTGGTGCCACACGGGTGG
Found at i:31557583 original size:20 final size:20
Alignment explanation
Indices: 31557545--31557585 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
31557535 GGTGTTGGAA
* * *
31557545 TATGAAATTGATGTGAATTG
1 TATGAAAATGATATCAATTG
31557565 TATGAAAATGATATCAATTG
1 TATGAAAATGATATCAATTG
31557585 T
1 T
31557586 TTGTCTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (20 bp):
TATGAAAATGATATCAATTG
Found at i:31571256 original size:21 final size:21
Alignment explanation
Indices: 31571217--31571256 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
31571207 CTTGCTTCCC
*
31571217 AAATTTTCATGTTTTTTTCTA
1 AAATTTTCATGTTTGTTTCTA
31571238 AAATTTTCTAT-TTTGTTTC
1 AAATTTTC-ATGTTTGTTTC
31571257 AATTTCATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (21 bp):
AAATTTTCATGTTTGTTTCTA
Found at i:31576786 original size:18 final size:20
Alignment explanation
Indices: 31576759--31576806 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
31576749 TCTCTTTCAA
31576759 TTTTCTTT-TCTCTTTTC-TT
1 TTTTCTTTCT-TCTTTTCATT
*
31576778 TTTTCTTTCTTTTTTTCATT
1 TTTTCTTTCTTCTTTTCATT
31576798 TTCTTCTTT
1 TT-TTCTTT
31576807 TGCAGGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 14 0.56
20 5 0.20
21 6 0.24
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTCTTTCTTCTTTTCATT
Found at i:31576788 original size:11 final size:12
Alignment explanation
Indices: 31576759--31576807 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
31576749 TCTCTTTCAA
*
31576759 TTTTCTTTTCTC
1 TTTTCTTTTTTC
31576771 TTTTCTTTTTTC
1 TTTTCTTTTTTC
31576783 -TTTCTTTTTTTC
1 TTTTC-TTTTTTC
31576795 ATTTTCTTCTTTT
1 -TTTTCTT-TTTT
31576808 GCAGGTATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 4 0.12
12 18 0.56
13 2 0.06
14 8 0.25
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:31577411 original size:15 final size:15
Alignment explanation
Indices: 31577388--31577428 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
31577378 GTTATTTCGG
31577388 TTTATGTTTAGGG-TCT
1 TTTA-GTTTAGGGAT-T
31577404 TTTAGTTTAGGGATT
1 TTTAGTTTAGGGATT
31577419 TTT-GTTTAGG
1 TTTAGTTTAGG
31577429 TTGTTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.29
15 12 0.50
16 5 0.21
ACGTcount: A:0.15, C:0.02, G:0.27, T:0.56
Consensus pattern (15 bp):
TTTAGTTTAGGGATT
Found at i:31577444 original size:28 final size:30
Alignment explanation
Indices: 31577409--31577484 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
31577399 GGTCTTTTAG
31577409 TTTAGGGATTTTTGTTTAGG-T-TGTTGAA
1 TTTAGGGATTTTTGTTTAGGTTATGTTGAA
** * * *
31577437 TTTAGGGATTTGGGGTTAGGTTATTTTGAT
1 TTTAGGGATTTTTGTTTAGGTTATGTTGAA
*
31577467 TTTAGGGATTTTTCTTTA
1 TTTAGGGATTTTTGTTTA
31577485 TGATTTTTTT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
28 17 0.46
29 1 0.03
30 19 0.51
ACGTcount: A:0.17, C:0.01, G:0.28, T:0.54
Consensus pattern (30 bp):
TTTAGGGATTTTTGTTTAGGTTATGTTGAA
Found at i:31577542 original size:27 final size:29
Alignment explanation
Indices: 31577496--31577556 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 29
31577486 GATTTTTTTT
*
31577496 ATTTTGGGGATTTTAGTTTAGGGTTTTCG
1 ATTTTGGGGATTTTAGTTTAGGGTTTTCA
* **
31577525 ATTTT-GGGATTTT-TTTTATTGTTTTCA
1 ATTTTGGGGATTTTAGTTTAGGGTTTTCA
31577552 ATTTT
1 ATTTT
31577557 TGAGACATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 15 0.54
28 8 0.29
29 5 0.18
ACGTcount: A:0.15, C:0.03, G:0.21, T:0.61
Consensus pattern (29 bp):
ATTTTGGGGATTTTAGTTTAGGGTTTTCA
Found at i:31578545 original size:57 final size:56
Alignment explanation
Indices: 31578426--31578580 Score: 152
Period size: 57 Copynumber: 2.8 Consensus size: 56
31578416 TGGTAATGAA
* * * *
31578426 GGTGTTGAGGTTGCTGGTAGTAAAGGTGGTGAACGTGTTGTAAGTTTAAATGGAGAC
1 GGTGTTGAGGTTGCTGGCAATAAAGGTGGTGAAGGTGGTG-AAGTTTAAATGGAGAC
* * ** * *
31578483 AGTGTTGAGGTTGCTGGCAATAAAGGTGGTGAGGGTGGTGAATGTTTAGGTGGGGAG
1 GGTGTTGAGGTTGCTGGCAATAAAGGTGGTGAAGGTGGTGAA-GTTTAAATGGAGAC
* * **
31578540 GGTGTTGA-GTTGTTAGCAATAAATATGGT-AAGGTGGTGAAG
1 GGTGTTGAGGTTGCTGGCAATAAAGGTGGTGAAGGTGGTGAAG
31578581 GTGGTGAGGG
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
54 1 0.01
55 10 0.12
56 19 0.23
57 51 0.63
ACGTcount: A:0.25, C:0.04, G:0.41, T:0.30
Consensus pattern (56 bp):
GGTGTTGAGGTTGCTGGCAATAAAGGTGGTGAAGGTGGTGAAGTTTAAATGGAGAC
Found at i:31580158 original size:31 final size:31
Alignment explanation
Indices: 31580120--31580184 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
31580110 AAGGTAAATA
* *
31580120 ATGCTATTTATTTTTCACCAATTTTTTACTG
1 ATGCTATTTATTTTGCACCAATTTATTACTG
*
31580151 ATGCTATTTATTTTGCACGAATTTATTACTG
1 ATGCTATTTATTTTGCACCAATTTATTACTG
31580182 ATG
1 ATG
31580185 TTTTACTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.51
Consensus pattern (31 bp):
ATGCTATTTATTTTGCACCAATTTATTACTG
Found at i:31589427 original size:22 final size:20
Alignment explanation
Indices: 31589380--31589415 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
31589370 AAATAGAGAT
31589380 AATT-TATTTTCTAAGTATA
1 AATTCTATTTTCTAAGTATA
31589399 AATTCTATTTTC-AAGTA
1 AATTCTATTTTCTAAGTA
31589416 ATCACAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (20 bp):
AATTCTATTTTCTAAGTATA
Found at i:31631362 original size:20 final size:21
Alignment explanation
Indices: 31631337--31631380 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
31631327 CAATTATCAC
*
31631337 AATTAGATTGA-CAAAATAAA
1 AATTAGAGTGACCAAAATAAA
31631357 AATTAGAGTGACCAAAATAAA
1 AATTAGAGTGACCAAAATAAA
31631378 AAT
1 AAT
31631381 GGTACTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.59, C:0.07, G:0.11, T:0.23
Consensus pattern (21 bp):
AATTAGAGTGACCAAAATAAA
Found at i:31639852 original size:24 final size:25
Alignment explanation
Indices: 31639798--31639852 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
31639788 GTTGCCCAAT
31639798 TATTAATATGAATGTTTCTATAACA
1 TATTAATATGAATGTTTCTATAACA
* *
31639823 TGATTAA-A-GAATGTTTGTATTAGCA
1 T-ATTAATATGAATGTTTCTA-TAACA
31639848 TATTA
1 TATTA
31639853 CTTGCTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 14 0.54
25 7 0.27
26 5 0.19
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (25 bp):
TATTAATATGAATGTTTCTATAACA
Found at i:31646779 original size:3 final size:3
Alignment explanation
Indices: 31646771--31646846 Score: 50
Period size: 3 Copynumber: 25.3 Consensus size: 3
31646761 ATAAATAAGT
* * *
31646771 ATA ATA ATA TATC AT- ATA ATA ATA A-A CTA ATA ACA ATA CAGTA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA
* * *
31646817 ATA AT- ATA AAA ATA TTA AAA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
31646847 ATAAAAAAAC
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
2 5 0.09
3 45 0.80
4 4 0.07
5 2 0.04
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:31650677 original size:75 final size:72
Alignment explanation
Indices: 31650538--31650687 Score: 221
Period size: 75 Copynumber: 2.0 Consensus size: 72
31650528 CAGTTGTCCC
* *
31650538 ATAATTTTTTGACGTCATAGGAAACAGGTTGACATGTTTGCAACGTGTTGACTGCTTCTATTAGG
1 ATAATTTTTTGACGTAATAGGAAACAGGTTGACATGATTGCAACGTGTTGACTGCTTCTATTAGG
31650603 ATTTTGT
66 ATTTTGT
* *
31650610 ATAATTTTTTGACGTAAT-GTGAAACAGGTTGACAACATGATTGCAACTTGTTGACTGCTTCTGT
1 ATAATTTTTTGACGTAATAG-GAAACAGGTTG---ACATGATTGCAACGTGTTGACTGCTTCTAT
31650674 TAGGATTTTGT
62 TAGGATTTTGT
31650685 ATA
1 ATA
31650688 TAAATTACTA
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
71 1 0.01
72 28 0.40
75 41 0.59
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (72 bp):
ATAATTTTTTGACGTAATAGGAAACAGGTTGACATGATTGCAACGTGTTGACTGCTTCTATTAGG
ATTTTGT
Found at i:31651105 original size:38 final size:37
Alignment explanation
Indices: 31650880--31651659 Score: 649
Period size: 35 Copynumber: 21.3 Consensus size: 37
31650870 GACAAAAATT
* * * *
31650880 TATCCTAACCTTTTT-AAGTTTGCCTTAGACGA-GTT
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC
** *
31650915 TA-CCCTAACCTTTTT-AAGGTTGCCTTAGATGA-GTT
1 TATCCC-AACCTTTTTAAAGGTTGCCTTAGACAAGGTC
* * * * *
31650950 TATCCCAACTTTTTTTAA-GTTACCTTGGAAAAGGTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC
* * * *
31650986 TATCCCAACATTTTT-AAGGTTGCTTTAAACGA-GTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC
* * *
31651021 TATCCCAACATTTTT-AAGGTTGTCTTA-A-ATGAGTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAG-GTC
* *
31651056 AATCCCAACCTTTTTAAAAGTTGCCTTAGACAAAGGTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGAC-AAGGTC
* * *
31651094 TATCCCCACCTTTTT-AAGGTTACCTTAGACGA-GTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC
*
31651129 TATCCCAACCTTTTT-AAGGTTGCTTTAGACAA-GTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC
* * *
31651164 TATCCTAACCTTTTTTGAAGGTTTCCTTAGACAAGGTC
1 TATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGGTC
* ** * *
31651202 TATCCTAATTTTTTTAAAAAGGTTGCCTTAAAC-TGGTC
1 TATCCCAACCTTTTT--AAAGGTTGCCTTAGACAAGGTC
*
31651240 TATCCTAACCTTTTTTAAAGGTTGCCTTAGACAAGGTC
1 TATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGGTC
*
31651278 TATCCCAA-CTTTGTTAAAAGGTTGCCTTAGACTA-GTC
1 TATCCCAACCTTT-TT-AAAGGTTGCCTTAGACAAGGTC
* * * * *
31651315 CATCTCAACCTTTTTTAAAAGTTGTCTTAGACAATGTC
1 TATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGGTC
*
31651353 TATCCAAACCTTTTT-AAGGTTGCCTTAGAC-AGTGTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAG-GTC
* * *
31651389 TATCCAAACCTTTTT-AAGGTTGCCTTAGACGA-TTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC
* *
31651424 TATCCCAATCTTTTTTAAAGGTTTCCTTAGACAAGGTC
1 TATCCCAA-CCTTTTTAAAGGTTGCCTTAGACAAGGTC
* * *
31651462 TATCCCAACTGTTTTTTAAAGGTTACCCTAGACAAGGTC
1 TATCCCAAC--CTTTTTAAAGGTTGCCTTAGACAAGGTC
*
31651501 TATCCCAACTTTTTTTAAAGGTTGCCTTAGACAAGGTC
1 TATCCCAAC-CTTTTTAAAGGTTGCCTTAGACAAGGTC
** * ** *
31651539 TATCTTAACTTTTTTTAAAAGGTTATCTTAGAC-TGGTC
1 TATCCCAAC-CTTTTT-AAAGGTTGCCTTAGACAAGGTC
* *
31651577 TATCCCAACCTCTTT-AAGGTTGCCTTAGAC-GGGTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC
* *
31651612 TATACCAACCTTTTTCAAAGGTTGGCCTT-GACTAGGTC
1 TATCCCAACCTTTTT-AAAGGTT-GCCTTAGACAAGGTC
* *
31651650 TTTTCCAACC
1 TATCCCAACC
31651660 CTTCAATAAG
Statistics
Matches: 622, Mismatches: 88, Indels: 67
0.80 0.11 0.09
Matches are distributed among these distances:
34 3 0.00
35 178 0.29
36 100 0.16
37 111 0.18
38 158 0.25
39 72 0.12
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.38
Consensus pattern (37 bp):
TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTC
Found at i:31651247 original size:76 final size:74
Alignment explanation
Indices: 31650880--31651634 Score: 600
Period size: 73 Copynumber: 10.3 Consensus size: 74
31650870 GACAAAAATT
* * *
31650880 TATCCTAACC-TTTTT-AA-GTTTGCCTTAGACGA-GTTTA-CCCTAACCTTTTT-AAGGTTGCC
1 TATCCTAACCTTTTTTAAAGGTTT-CCTTAGACAAGGTCTATCCC-AACTTTTTTAAAGGTTGCC
* *
31650939 TTAGA-TGAGTT
64 TTAGACAG-GTC
* * * * * * *
31650950 TATCCCAA-CTTTTTTTAA-GTTACCTTGGAAAAGGTCTATCCCAACATTTTT-AAGGTTGCTTT
1 TATCCTAACCTTTTTTAAAGGTTTCCTTAGACAAGGTCTATCCCAACTTTTTTAAAGGTTGCCTT
*
31651012 AAAC-GAGTC
66 AGACAG-GTC
* * * * * *
31651021 TATCCCAA-CATTTTT-AAGGTTGT-CTTA-A-ATGAGTCAATCCCAACCTTTTTAAAAGTTGCC
1 TATCCTAACCTTTTTTAAAGGTT-TCCTTAGACAAG-GTCTATCCCAACTTTTTTAAAGGTTGCC
31651081 TTAGACAAAGGTC
64 TTAGAC--AGGTC
** * * * *
31651094 TATCCCCACC-TTTTT-AAGGTTACCTTAGACGA-GTCTATCCCAACCTTTTT-AAGGTTGCTTT
1 TATCCTAACCTTTTTTAAAGGTTTCCTTAGACAAGGTCTATCCCAACTTTTTTAAAGGTTGCCTT
*
31651155 AGACAAGTC
66 AGACAGGTC
* * *
31651164 TATCCTAACCTTTTTTGAAGGTTTCCTTAGACAAGGTCTATCCTAATTTTTTTAAAAAGGTTGCC
1 TATCCTAACCTTTTTTAAAGGTTTCCTTAGACAAGGTCTATCCCAACTTTTTT--AAAGGTTGCC
* *
31651229 TTAAACTGGTC
64 TTAGACAGGTC
* *
31651240 TATCCTAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACTTTGTTAAAAGGTTGCCT
1 TATCCTAACCTTTTTTAAAGGTTTCCTTAGACAAGGTCTATCCCAACTTT-TTTAAAGGTTGCCT
31651305 TAGACTA-GTC
65 TAGAC-AGGTC
* * * * *
31651315 CAT-CTCAACCTTTTTTAAAAGTTGT-CTTAGACAATGTCTATCCAAACCTTTTT-AAGGTTGCC
1 TATCCT-AACCTTTTTTAAAGGTT-TCCTTAGACAAGGTCTATCCCAACTTTTTTAAAGGTTGCC
31651377 TTAGACAGTGTC
64 TTAGACAG-GTC
* * * * *
31651389 TATCCAAACC-TTTTT-AAGGTTGCCTTAGACGA-TTCTATCCCAATCTTTTTTAAAGGTTTCCT
1 TATCCTAACCTTTTTTAAAGGTTTCCTTAGACAAGGTCTATCCCAA-CTTTTTTAAAGGTTGCCT
31651451 TAGACAAGGTC
65 TAGAC-AGGTC
* * * *
31651462 TATCCCAACTGTTTTTTAAAGGTTACCCTAGACAAGGTCTATCCCAACTTTTTTTAAAGGTTGCC
1 TATCCTAAC-CTTTTTTAAAGGTTTCCTTAGACAAGGTCTATCCCAAC-TTTTTTAAAGGTTGCC
31651527 TTAGACAAGGTC
64 TTAGAC-AGGTC
* * * * *
31651539 TATCTTAACTTTTTTTAAAAGGTTAT-CTTAGAC-TGGTCTATCCCAACCTCTTT-AAGGTTGCC
1 TATCCTAACCTTTTTT-AAAGGTT-TCCTTAGACAAGGTCTATCCCAACTTTTTTAAAGGTTGCC
*
31651601 TTAGACGGGTC
64 TTAGACAGGTC
*
31651612 TATACC-AACCTTTTTCAAAGGTT
1 TAT-CCTAACCTTTTTTAAAGGTT
31651635 GGCCTTGACT
Statistics
Matches: 564, Mismatches: 80, Indels: 80
0.78 0.11 0.11
Matches are distributed among these distances:
69 3 0.01
70 50 0.09
71 79 0.14
72 58 0.10
73 117 0.21
74 34 0.06
75 68 0.12
76 96 0.17
77 59 0.10
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (74 bp):
TATCCTAACCTTTTTTAAAGGTTTCCTTAGACAAGGTCTATCCCAACTTTTTTAAAGGTTGCCTT
AGACAGGTC
Found at i:31651606 original size:260 final size:254
Alignment explanation
Indices: 31650880--31651640 Score: 839
Period size: 260 Copynumber: 3.0 Consensus size: 254
31650870 GACAAAAATT
* * * *
31650880 TATCCTAACCTTTTTAAGTTTGCCTTAGACGAGTT-TA-CCCTAACCTTTTTAAGGTTGCCTTAG
1 TATCCAAACCTTTTTAAGGTTGCCTTAGACGA-TTCTATCCC-AACTTTTTTAAGGTTTCCTTAG
** * * * *
31650943 ATGA-GTTTATCCCAACTTTTTTT-AA-GTTACCTTGGAAAAGGTCTATCCCAACATTTTT-AAG
64 ACAAGGTCTATCCCAACTTTTTTTAAAGGTTACCTTAGACAAGGTCTATCCCAACTTTTTTAAAG
* * * * *
31651004 GTTGCTTTAAACGA-GTCTATCCCAACATTTTT--AAGGTTGTCTTA-AATGAGTCAATCCCAAC
129 GTTGCCTTAGACAAGGTCTATCCCAACTTTTTTAAAAGGTTGTCTTAGACTG-GTCAATCCCAAC
* *
31651065 CTTTTTAAAAGTTGCCTTAGACAAAGGTCTATCCCCACCTTTTTAAGGTTACCTTAGACGAGTC
193 CTTTTTAAAAGTTGCCTTAGAC-AAGGTCTAT-CCAACCTTTTTAAGGTTGCCTTAGACGAGTC
* * * * *
31651129 TATCCCAACCTTTTTAAGGTTGCTTTAGACAAGTCTATCCTAACCTTTTTTGAAGGTTTCCTTAG
1 TATCCAAACCTTTTTAAGGTTGCCTTAGACGATTCTATCCCAA-CTTTTTT-AAGGTTTCCTTAG
* * * * *
31651194 ACAAGGTCTATCCTAA-TTTTTTTAAAAAGGTTGCCTTAAAC-TGGTCTATCCTAACCTTTTTTA
64 ACAAGGTCTATCCCAACTTTTTTT--AAAGGTTACCTTAGACAAGGTCTATCCCAA-CTTTTTTA
* * * * *
31651257 AAGGTTGCCTTAGACAAGGTCTATCCCAACTTTGTTAAAAGGTTGCCTTAGACTAGTCCATCTCA
126 AAGGTTGCCTTAGACAAGGTCTATCCCAACTTTTTTAAAAGGTTGTCTTAGACTGGTCAATCCCA
* * *
31651322 ACCTTTTTTAAAAGTTGTCTTAGACAATGTCTATCCAAACCTTTTTAAGGTTGCCTTAGACAGTG
191 ACC-TTTTTAAAAGTTGCCTTAGACAAGGTCTATCC-AACCTTTTTAAGGTTGCCTTAGAC-GAG
31651387 TC
253 TC
31651389 TATCCAAACCTTTTTAAGGTTGCCTTAGACGATTCTATCCCAATCTTTTTTAAAGGTTTCCTTAG
1 TATCCAAACCTTTTTAAGGTTGCCTTAGACGATTCTATCCCAA-CTTTTTT-AAGGTTTCCTTAG
*
31651454 ACAAGGTCTATCCCAACTGTTTTTTAAAGGTTACCCTAGACAAGGTCTATCCCAACTTTTTTTAA
64 ACAAGGTCTATCCCAACT-TTTTTTAAAGGTTACCTTAGACAAGGTCTATCCCAAC-TTTTTTAA
** * *
31651519 AGGTTGCCTTAGACAAGGTCTATCTTAACTTTTTTTAAAAGGTTATCTTAGACTGGTCTATCCCA
127 AGGTTGCCTTAGACAAGGTCTATCCCAAC-TTTTTTAAAAGGTTGTCTTAGACTGGTCAATCCCA
* * *
31651584 ACCTCTTT-AAGGTTGCCTTAGAC-GGGTCTATACCAACCTTTTTCAAAGGTTGGCCTT
191 ACCTTTTTAAAAGTTGCCTTAGACAAGGTCTAT-CCAACCTTTTT--AAGGTT-GCCTT
31651641 GACTAGGTCT
Statistics
Matches: 425, Mismatches: 60, Indels: 41
0.81 0.11 0.08
Matches are distributed among these distances:
248 1 0.00
249 32 0.08
250 8 0.02
251 21 0.05
252 9 0.02
254 13 0.03
255 14 0.03
256 14 0.03
257 16 0.04
258 2 0.00
259 67 0.16
260 128 0.30
261 57 0.13
262 43 0.10
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (254 bp):
TATCCAAACCTTTTTAAGGTTGCCTTAGACGATTCTATCCCAACTTTTTTAAGGTTTCCTTAGAC
AAGGTCTATCCCAACTTTTTTTAAAGGTTACCTTAGACAAGGTCTATCCCAACTTTTTTAAAGGT
TGCCTTAGACAAGGTCTATCCCAACTTTTTTAAAAGGTTGTCTTAGACTGGTCAATCCCAACCTT
TTTAAAAGTTGCCTTAGACAAGGTCTATCCAACCTTTTTAAGGTTGCCTTAGACGAGTC
Found at i:31661259 original size:30 final size:31
Alignment explanation
Indices: 31661213--31661276 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
31661203 TTTTATTATG
31661213 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
* *
31661244 CCAATAT-TTGATACCCATATCTTTGATTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
31661274 CCA
1 CCA
31661277 TAAATATGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.27, C:0.27, G:0.06, T:0.41
Consensus pattern (31 bp):
CCAATATCTCGATACCCATATCTTTGACTTT
Found at i:31661268 original size:15 final size:15
Alignment explanation
Indices: 31661223--31661270 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
31661213 CCAATATCTC
31661223 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
31661238 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
31661253 GATACCCATATCTTT
1 GATACCCATATCTTT
31661268 GAT
1 GAT
31661271 TTTCCATAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:31665869 original size:30 final size:30
Alignment explanation
Indices: 31665823--31665916 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
31665813 TTTTATTATG
*
31665823 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
31665854 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
31665884 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
31665914 CCA
1 CCA
31665917 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:31665878 original size:15 final size:15
Alignment explanation
Indices: 31665833--31665910 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
31665823 CCAATATCTC
31665833 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
31665848 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
31665863 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
31665878 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
31665893 GATACCCATATCTTT
1 GATACCCATATCTTT
31665908 GAT
1 GAT
31665911 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:31667897 original size:26 final size:26
Alignment explanation
Indices: 31667861--31667913 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
31667851 CAAAACACTG
31667861 TAGCAAATGTCTATTTTCATAATTAA
1 TAGCAAATGTCTATTTTCATAATTAA
31667887 TAGCAAATGTCTATTTTCATAATTAA
1 TAGCAAATGTCTATTTTCATAATTAA
31667913 T
1 T
31667914 CTATTTTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (26 bp):
TAGCAAATGTCTATTTTCATAATTAA
Found at i:31671949 original size:14 final size:14
Alignment explanation
Indices: 31671930--31671960 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
31671920 AGCTTGGCAA
31671930 TTGGGAACTATTTG
1 TTGGGAACTATTTG
31671944 TTGGGAACTATTTG
1 TTGGGAACTATTTG
31671958 TTG
1 TTG
31671961 TTAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.29, T:0.45
Consensus pattern (14 bp):
TTGGGAACTATTTG
Found at i:31672242 original size:12 final size:12
Alignment explanation
Indices: 31672222--31672251 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31672212 TATGGTTAAT
*
31672222 TTCTTTAGCAGC
1 TTCTGTAGCAGC
31672234 TTCTGTAGCAGC
1 TTCTGTAGCAGC
31672246 TTCTGT
1 TTCTGT
31672252 TGTTTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (12 bp):
TTCTGTAGCAGC
Found at i:31672897 original size:91 final size:91
Alignment explanation
Indices: 31672765--31672974 Score: 271
Period size: 91 Copynumber: 2.3 Consensus size: 91
31672755 TTGATTTTAG
*
31672765 TAAATTCATATAAGAACATTTTATTAGTAACAATTTCATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTAGTAACAATTTCATGAAATTATATATCACTATTAAATTAT
* *
31672830 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* * * * *
31672857 TAAATTCATATAAGAAAATTTATTA-TCAAGAATTTTATGAAATTTTATATTATTATTAAATTAT
1 TAAATTCATATAAGAAAATTTATTAGT-AACAATTTCATGAAATTATATATCACTATTAAATTAT
31672921 ATGTAATAATTATTATTTTAAATTATA
65 ATGTAATAATTATTATTTTAAATTATA
* * * *
31672948 CAAATTCATAAAATATAATTTATTAGT
1 TAAATTCATATAAGAAAATTTATTAGT
31672975 TATAATTATT
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
90 1 0.01
91 82 0.80
92 20 0.19
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTAGTAACAATTTCATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:31673021 original size:16 final size:17
Alignment explanation
Indices: 31673002--31673033 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
31672992 TTATTAAATC
31673002 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
31673018 ATATATTTAATATTAA
1 ATATATTTAATATTAA
31673034 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:31673097 original size:66 final size:63
Alignment explanation
Indices: 31673026--31673238 Score: 194
Period size: 61 Copynumber: 3.4 Consensus size: 63
31673016 AAATATATTT
31673026 AATATTAATTATTTAA-AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTA-TTAAGAATTTTA--TTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
31673090 AG
62 AG
* * * * * * *
31673092 AATATTAATTATTAAGAATTTTATTAA--ATTATATATTTTAATTAT-ATTATATTTA-ATAAT
1 AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATT-TGAGTAAATTCATATAAG
* * * *
31673152 AATTATGTTATT-TT-A-TATTTTA--CAGTATCATATATTATGGTTTGAGTAAATTCATATAAG
1 AA-TAT-TAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
31673212 AATATTAATTATTAAGAATTTTATTAA
1 AATATTAATTATTAAGAATTTTATTAA
31673239 ATTATATATT
Statistics
Matches: 113, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 30 0.27
60 14 0.12
61 31 0.27
62 5 0.04
63 2 0.02
64 3 0.03
65 4 0.04
66 18 0.16
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:31673112 original size:120 final size:120
Alignment explanation
Indices: 31672988--31673280 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
31672978 AATTATTTTA
* * *
31672988 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATTT-TATT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
31673051 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
31673108 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
31673173 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
31673228 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
31673281 TAAATATGAT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 4 0.02
120 155 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:31673140 original size:18 final size:17
Alignment explanation
Indices: 31673109--31673143 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31673099 ATTATTAAGA
31673109 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
31673126 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
31673144 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:31673257 original size:18 final size:17
Alignment explanation
Indices: 31673229--31673263 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31673219 ATTATTAAGA
*
31673229 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
31673246 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
31673264 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:31673377 original size:147 final size:149
Alignment explanation
Indices: 31673217--31673491 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
31673207 ATAAGAATAT
*
31673217 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
31673282 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
31673345 TACCAAAACAAATTTTTGC
131 TACCAAAACAAATTTTTGC
31673364 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
31673429 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
31673492 AAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTTTGC
Found at i:31673404 original size:18 final size:17
Alignment explanation
Indices: 31673376--31673410 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31673366 ATTATTAAGA
*
31673376 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
31673393 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
31673411 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:31673621 original size:44 final size:44
Alignment explanation
Indices: 31673572--31673666 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 44
31673562 TTACACCTCT
*
31673572 ATTACATTCAACCAAACACAGTT-TTAG-TATTACGCCTCTATTCC
1 ATTACATTCAACC-AA-ACAGTTATTAGCTATTACACCTCTATTCC
* *
31673616 ATTACATTTAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGTT-ATTAGCTATTACACCTCTATTCC
31673661 ATTACA
1 ATTACA
31673667 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
42 6 0.13
43 2 0.04
44 15 0.33
45 22 0.49
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (44 bp):
ATTACATTCAACCAAACAGTTATTAGCTATTACACCTCTATTCC
Found at i:31673666 original size:16 final size:16
Alignment explanation
Indices: 31673647--31673698 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
31673637 GATTTGCTAT
* *
31673647 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
31673663 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
31673679 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
31673695 TACA
1 TACA
31673699 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:31680727 original size:24 final size:25
Alignment explanation
Indices: 31680683--31680730 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
31680673 TGAGTATATA
31680683 AACATAAAAAATTAATAATTTAAAC
1 AACATAAAAAATTAATAATTTAAAC
*
31680708 AACAT-AATAATTAACT-ATTTAAA
1 AACATAAAAAATTAA-TAATTTAAA
31680731 ATTAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.31
Consensus pattern (25 bp):
AACATAAAAAATTAATAATTTAAAC
Found at i:31682467 original size:16 final size:17
Alignment explanation
Indices: 31682434--31682473 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
31682424 TATAATATTT
31682434 AAAAGTTAAAACTAAAAA
1 AAAAG-TAAAACTAAAAA
*
31682452 TAAAGTAAAA-TAAAAA
1 AAAAGTAAAACTAAAAA
31682468 AAAAGT
1 AAAAGT
31682474 CAGAGAGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 11 0.55
17 5 0.25
18 4 0.20
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.17
Consensus pattern (17 bp):
AAAAGTAAAACTAAAAA
Found at i:31683418 original size:5 final size:5
Alignment explanation
Indices: 31683408--31683441 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
31683398 AATTATGCAA
31683408 AAAAG AAAAG AAAAG AAAAG AAAAG -AAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
31683442 CAATTTGATC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:31688272 original size:23 final size:22
Alignment explanation
Indices: 31688194--31688274 Score: 105
Period size: 22 Copynumber: 3.8 Consensus size: 22
31688184 AATCTTCAAG
31688194 GATATGCAATCTT--A-GATAT
1 GATATGCAATCTTAGAGGATAT
*
31688213 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAGGATAT
31688235 GATATGCAATCTTAGAGGATAT
1 GATATGCAATCTTAGAGGATAT
* *
31688257 GATTTTGTAATCTTAGAG
1 GA-TATGCAATCTTAGAG
31688275 ATTTAATTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
19 13 0.24
21 1 0.02
22 28 0.51
23 13 0.24
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (22 bp):
GATATGCAATCTTAGAGGATAT
Found at i:31688286 original size:21 final size:23
Alignment explanation
Indices: 31688220--31688286 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
31688210 TATGATATGC
* * *
31688220 AATCTTAGAAGATATG-ATATGC
1 AATCTTAGAGGATATGAATTTGT
*
31688242 AATCTTAGAGGATATGATTTTGT
1 AATCTTAGAGGATATGAATTTGT
*
31688265 AATCTTAGA-GAT-TTAATTTGT
1 AATCTTAGAGGATATGAATTTGT
31688286 A
1 A
31688287 GATATCCTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
21 8 0.21
22 18 0.47
23 12 0.32
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.40
Consensus pattern (23 bp):
AATCTTAGAGGATATGAATTTGT
Found at i:31688567 original size:15 final size:16
Alignment explanation
Indices: 31688540--31688572 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
31688530 TTTTTCCCTT
31688540 TTTATTCATTTTCAAA
1 TTTATTCATTTTCAAA
31688556 TTTATT-ATTTTCAAA
1 TTTATTCATTTTCAAA
31688571 TT
1 TT
31688573 AGTTTACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATTCATTTTCAAA
Found at i:31688892 original size:37 final size:37
Alignment explanation
Indices: 31688816--31688892 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
31688806 CATACATACG
*
31688816 TTTTATAATATATACATATACGTACACATTTTTTAATT
1 TTTTATAATATATACATATACG-ACACATTTTATAATT
* *
31688854 TTTTATAA-ATATATATATAC-ACATACTTTTATATATT
1 TTTTATAATATATACATATACGACACA-TTTTATA-ATT
31688891 TT
1 TT
31688893 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 4 0.12
36 6 0.18
37 16 0.47
38 8 0.24
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.52
Consensus pattern (37 bp):
TTTTATAATATATACATATACGACACATTTTATAATT
Found at i:31689014 original size:23 final size:22
Alignment explanation
Indices: 31688987--31689030 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
31688977 ATAATTCACA
*
31688987 TACATATATATTTTTCTTATATG
1 TACATATATATATTT-TTATATG
31689010 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
31689031 TTTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:31696672 original size:52 final size:51
Alignment explanation
Indices: 31696601--31696907 Score: 400
Period size: 52 Copynumber: 6.1 Consensus size: 51
31696591 ATCAAGTGAT
* *
31696601 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
31696653 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
31696699 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
*
31696751 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
31696802 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
31696849 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
31696901 ATAAGTG
1 A-AAGTG
31696908 GCTACACTTA
Statistics
Matches: 227, Mismatches: 14, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
46 86 0.38
51 1 0.00
52 135 0.59
53 5 0.02
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:31696708 original size:98 final size:98
Alignment explanation
Indices: 31696587--31696907 Score: 447
Period size: 98 Copynumber: 3.3 Consensus size: 98
31696577 TTTGAGTACT
* * *
31696587 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
31696652 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
31696685 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
31696750 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
66 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* * *
31696783 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
**
31696848 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTA
60 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
31696881 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
31696908 GCTACACTTA
Statistics
Matches: 206, Mismatches: 11, Indels: 18
0.88 0.05 0.08
Matches are distributed among these distances:
92 13 0.06
98 150 0.73
104 43 0.21
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:31696807 original size:150 final size:150
Alignment explanation
Indices: 31696601--31696896 Score: 520
Period size: 150 Copynumber: 2.0 Consensus size: 150
31696591 ATCAAGTGAT
* * *
31696601 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
31696666 ATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
31696731 TCTGATCAAGTGACAAGTGG
131 TCTGATCAAGAGACAAGTGG
* *
31696751 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
31696816 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
31696881 TCTGATCAAGAGACAA
131 TCTGATCAAGAGACAA
31696897 AGTGATAAGT
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
150 138 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (150 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAGTGG
Found at i:31696897 original size:46 final size:44
Alignment explanation
Indices: 31696803--31697018 Score: 199
Period size: 37 Copynumber: 5.3 Consensus size: 44
31696793 TGACAAGTGA
*
31696803 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
31696849 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
31696895 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
31696932 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
31696969 AAAGTGAT-AG-G-T-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
31697005 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
31697019 CATACGTAAG
Statistics
Matches: 160, Mismatches: 5, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
35 7 0.04
36 7 0.04
37 89 0.56
38 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 51 0.32
47 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:31696915 original size:37 final size:37
Alignment explanation
Indices: 31696871--31697016 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
31696861 GATAGCTTTA
*
31696871 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
31696908 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
31696945 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
31696982 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
31697017 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:31698359 original size:49 final size:49
Alignment explanation
Indices: 31698263--31698454 Score: 305
Period size: 49 Copynumber: 3.9 Consensus size: 49
31698253 ATGTGAACAT
31698263 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTAT-GCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
31698312 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
31698361 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * * *
31698410 GTGATTTGTGATTACGTGTAAGATCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
31698455 AGAAACAAGA
Statistics
Matches: 135, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
48 34 0.25
49 101 0.75
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:31698480 original size:98 final size:96
Alignment explanation
Indices: 31698281--31698482 Score: 237
Period size: 98 Copynumber: 2.1 Consensus size: 96
31698271 GTGATTCCGT
* *
31698281 GTAAGACCATAGCTGGGCTATGCATCGGTAAGTGATATGTGATTCCGTGTAAGACCATAGCTGGG
1 GTAAGACCATAGCTGGGCTATGCATCGGTAAGTGATATGTGATTACGTGTAAGACCATAGCTGGA
* ** * * *
31698346 CTATGGCATCGGTAAGTGATATGTGATTTCG
66 CTATGGCATCGGAAAAAGATATCTCAATTCG
* * * *
31698377 TGTAAGACCATAGCTGGGCTATGGCATCGGTATGTGATTTGTGATTACGTGTAAGATCATAGTTG
1 -GTAAGACCATAGCTGGGCTAT-GCATCGGTAAGTGATATGTGATTACGTGTAAGACCATAGCTG
31698442 GACTATGGCATCGAGAAACAAGAGTA-CTCAATTC-
64 GACTATGGCATCG-GAAA-AAGA-TATCTCAATTCG
31698476 GTAAGAC
1 GTAAGAC
31698483 GTTCTCTAAT
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
97 21 0.24
98 56 0.63
99 3 0.03
100 7 0.08
101 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (96 bp):
GTAAGACCATAGCTGGGCTATGCATCGGTAAGTGATATGTGATTACGTGTAAGACCATAGCTGGA
CTATGGCATCGGAAAAAGATATCTCAATTCG
Found at i:31701632 original size:52 final size:48
Alignment explanation
Indices: 31701613--31701814 Score: 215
Period size: 46 Copynumber: 4.3 Consensus size: 48
31701603 TGACAAGTGG
* * *
31701613 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
*
31701659 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGATAAGTGA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA-CA---A
* * *
31701711 AAAGTGATAAGTTGATAGCTTCGGCTTATAC-TATCTGATCAAGAGAC--
1 AAAGTGATAAG-TGATAGCTTCAGC-TACACTTATCTGATCAAGTGACAA
*
31701758 -AAGTGATAAGTGATAGCTT-TGCTACACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
31701802 AAAGTGATAAGTG
1 AAAGTGATAAGTG
31701815 GCTACACTTA
Statistics
Matches: 135, Mismatches: 11, Indels: 21
0.81 0.07 0.13
Matches are distributed among these distances:
43 4 0.03
44 17 0.13
45 21 0.16
46 52 0.39
52 11 0.08
53 26 0.19
54 4 0.03
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
Found at i:31701709 original size:53 final size:53
Alignment explanation
Indices: 31701647--31701800 Score: 177
Period size: 53 Copynumber: 3.1 Consensus size: 53
31701637 TATACTTATC
31701647 TGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAG
1 TGAT-AAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAG
* *
31701701 TGATAAGTGA-AAAGTGATAAGTTGATAGCTTCGGCTTATAC-TATCTGATCAA-
1 TGATAAGTGACAAAGTGATAAG-TGATAGCTTCAGC-TACACTTATCTGATCAAG
*
31701753 -G---A--GAC-AAGTGATAAGTGATAGCTT-TGCTACACTTATCTGATCAAG
1 TGATAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAG
31701798 TGA
1 TGA
31701801 CAAAGTGATA
Statistics
Matches: 89, Mismatches: 4, Indels: 21
0.78 0.04 0.18
Matches are distributed among these distances:
43 4 0.04
44 13 0.15
45 9 0.10
46 13 0.15
48 1 0.01
51 1 0.01
52 11 0.12
53 29 0.33
54 8 0.09
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (53 bp):
TGATAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAG
Found at i:31701716 original size:98 final size:98
Alignment explanation
Indices: 31701543--31701814 Score: 399
Period size: 98 Copynumber: 2.8 Consensus size: 98
31701533 CGGATTTGAG
* * *
31701543 TACT-TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
1 TACTATCTGATCAAGTGACAAAGTGATAAGTGATAGC-TTAGCTACACTTATCTGATCAAGTGAA
*
31701607 AAGTGGAAAGTGATAAG-TAATAGCTTCGGC-TA
65 AAGTGAAAAGTGATAAGTTAATAGCTTCGGCTTA
31701639 TACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
1 TAC-TATCTGATCAAGTGACAAAGTGATAAGTGATAGCTT-AGCTACACTTATCTGATCAAGTGA
* *
31701704 TAAGTGAAAAGTGATAAGTTGATAGCTTCGGCTTA
64 AAAGTGAAAAGTGATAAGTTAATAGCTTCGGCTTA
* *
31701739 TACTATCTGATCAAGAGAC-AAGTGATAAGTGATAGCTTTGCTACACTTATCTGATCAAGTGACA
1 TACTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGTGA-A
*
31701803 AAGTGATAAGTG
65 AAGTGAAAAGTG
31701815 GCTACACTTA
Statistics
Matches: 161, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
96 3 0.02
97 26 0.16
98 100 0.62
99 27 0.17
100 5 0.03
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (98 bp):
TACTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGTGAAA
AGTGAAAAGTGATAAGTTAATAGCTTCGGCTTA
Found at i:31701814 original size:45 final size:44
Alignment explanation
Indices: 31701711--31701924 Score: 156
Period size: 37 Copynumber: 5.3 Consensus size: 44
31701701 TGATAAGTGA
*
31701711 AAAGTGATAAGTTGATAGCTTCGGCTTATAC-TATCTGATCAAGAGAC
1 AAAGTGATAAG-TGATAGCTT--GC-TACACTTATCTGATCAAGAGAC
*
31701758 -AAGTGATAAGTGATAGCTTTGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGC-TTGCTACACTTATCTGATCAAGAGAC
*
31701802 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
31701839 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAA-AAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
31701875 AAAGTGAT-AG-G-T-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
31701911 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
31701925 CATACGTAAG
Statistics
Matches: 153, Mismatches: 6, Indels: 25
0.83 0.03 0.14
Matches are distributed among these distances:
35 9 0.06
36 36 0.24
37 55 0.36
38 1 0.01
41 1 0.01
42 1 0.01
43 5 0.03
44 17 0.11
45 16 0.10
46 12 0.08
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:31701882 original size:36 final size:37
Alignment explanation
Indices: 31701778--31701922 Score: 224
Period size: 37 Copynumber: 4.0 Consensus size: 37
31701768 TGATAGCTTT
**
31701778 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
31701815 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
31701852 GCTACACTTATCTGATCAA-AAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
31701888 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
31701923 ATCATACGTA
Statistics
Matches: 101, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
35 12 0.12
36 35 0.35
37 54 0.53
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:31701892 original size:73 final size:72
Alignment explanation
Indices: 31701778--31701922 Score: 220
Period size: 73 Copynumber: 2.0 Consensus size: 72
31701768 TGATAGCTTT
**
31701778 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATC-AGAAAC-AAG
31701843 TGATAAGTG
64 TGATAAGTG
* **
31701852 GCTACACTTATCTGATCAA-AAACAAAGTGATAGGTGGCTACACTTATCTGATCAGGGACAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAGAAACAAGTG
31701916 ATAAGTG
66 ATAAGTG
31701923 ATCATACGTA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.18
72 4 0.06
73 31 0.47
74 19 0.29
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.26
Consensus pattern (72 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAGAAACAAGTG
ATAAGTG
Found at i:31703608 original size:44 final size:44
Alignment explanation
Indices: 31703559--31703834 Score: 327
Period size: 44 Copynumber: 6.6 Consensus size: 44
31703549 AGTGGTTCTG
**
31703559 TCTCCCTGGAAAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
31703603 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTCCTA
31703647 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
* *
31703691 TCTCCTTGGTCAGCAGCGGAATA----G--G--TG-AA-TCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
* *
31703725 TCTCCCTAGTCAGCA--A---TAGGTTGAAGATTGTAAGTCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
31703764 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TCCTA
1 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTCCTA
* *
31703808 TCTCCCTGAG-CAGTAGTGGAGTAGGTT
1 TCTCCCTG-GTCAGCAGTGGAATAGGTT
31703835 AAAAATTACA
Statistics
Matches: 202, Mismatches: 11, Indels: 38
0.80 0.04 0.15
Matches are distributed among these distances:
29 2 0.01
33 1 0.00
34 18 0.09
35 3 0.01
36 2 0.01
37 2 0.01
38 3 0.01
39 19 0.09
40 1 0.00
43 2 0.01
44 144 0.71
45 5 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (44 bp):
TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
Found at i:31703762 original size:73 final size:74
Alignment explanation
Indices: 31703637--31703789 Score: 236
Period size: 73 Copynumber: 2.0 Consensus size: 74
31703627 GTTGAAGATT
* *
31703637 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCTTGGTC
1 GTGAATCCTATCTCCCTAGTCAGC----GAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTC
31703702 AGCAGCGGAATAG
62 AGCAGCGGAATAG
31703715 GTGAATCCTATCTCCCTAGTCAGC-AATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCA
1 GTGAATCCTATCTCCCTAGTCAGCGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCA
*
31703779 GTGGAATAG
66 GCGGAATAG
31703788 GT
1 GT
31703790 TGAAGATTGT
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
73 49 0.68
78 23 0.32
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (74 bp):
GTGAATCCTATCTCCCTAGTCAGCGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCA
GCGGAATAG
Found at i:31704074 original size:128 final size:128
Alignment explanation
Indices: 31703801--31704076 Score: 392
Period size: 128 Copynumber: 2.1 Consensus size: 128
31703791 GAAGATTGTG
* *
31703801 AATCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTAAAAATTACAGATCTTATCTCCCTAAGTAGT
1 AATCCTATCTCCCTGAGCAGCAGTGGAGTAGG---AAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
31703866 AGTGGAGCAGATCGAAGACGGCGAATCTTATCCTCCCAAGGTAGTAGGCAAGTAGATTTAAGCCA
63 AGTGGAGCAGATCGAAGACAGCGAATCTTATCCTCCCAAGGTAGTAGGCAAGCAAATTTAAGCCA
31703931 C
128 C
* * *
31703932 TAGCCTTATATCCCTGAGCAGCAGTGGAGTAGG-AAATTACAGATCTTATCTCCCTAAGCAGTAG
1 AATCC-TATCTCCCTGAGCAGCAGTGGAGTAGGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* * * *
31703996 TGGAGCAGATCGAAGACAGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTTAGTCAGC
65 TGGAGCAGATCGAAGACAGCGAATCTTATCCTCCCAAGGTAGTAGGCAAGCAAATTTAAGCCA-C
31704061 AATCCTATCTCCCTGA
1 AATCCTATCTCCCTGA
31704077 AGTTGCAGTG
Statistics
Matches: 128, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
128 96 0.75
129 4 0.03
131 3 0.02
132 25 0.20
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (128 bp):
AATCCTATCTCCCTGAGCAGCAGTGGAGTAGGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAGACAGCGAATCTTATCCTCCCAAGGTAGTAGGCAAGCAAATTTAAGCCAC
Found at i:31704188 original size:50 final size:50
Alignment explanation
Indices: 31704134--31704390 Score: 210
Period size: 50 Copynumber: 5.1 Consensus size: 50
31704124 TTGGCATTAC
31704134 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGT
* * * * * * ** ** ** **
31704184 AGTGGAACAAATTGAAGCTACGATGGTGAATCTTGTTTCTCC-AACATTAC
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTC-CCTGGCGGTGT
**
31704234 AGTTAAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGT
* * * ** ****** *
31704284 AGTGGAACAAATTGAAGCTACAACGGCGAATCTTGTTTCCCCAATATTGC
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGT
** * *
31704334 AGTTAAATAGATTGAATCCACAACGGTGAATCTTACTTCCCTGGCGGTGT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGT
31704384 AGTGGAA
1 AGTGGAA
31704391 CAGGTTAAAG
Statistics
Matches: 143, Mismatches: 62, Indels: 4
0.68 0.30 0.02
Matches are distributed among these distances:
49 2 0.01
50 139 0.97
51 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (50 bp):
AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGT
Found at i:31704244 original size:100 final size:100
Alignment explanation
Indices: 31704128--31704425 Score: 445
Period size: 100 Copynumber: 3.0 Consensus size: 100
31704118 ATCTCTTTGG
**
31704128 CATTACAGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
1 CATTACAGTTAAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
* * * *
31704193 AATTGAAGCTACGATGGTGAATCTTGTTTCTCCAA
66 AATTGAAGCTACAACGGCGAATCTTGTTTCCCCAA
31704228 CATTACAGTTAAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
1 CATTACAGTTAAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
31704293 AATTGAAGCTACAACGGCGAATCTTGTTTCCCCAA
66 AATTGAAGCTACAACGGCGAATCTTGTTTCCCCAA
* * * *
31704328 TATTGCAGTTAAATAGATTGAATCCACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
1 CATTACAGTTAAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
** * *
31704393 GGTTAAAGCTA-AAGGTAGCGAATCTTGTTTCCC
66 AATTGAAGCTACAACG--GCGAATCTTGTTTCCC
31704426 TAGCGTTGCA
Statistics
Matches: 182, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
99 3 0.02
100 163 0.90
101 16 0.09
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (100 bp):
CATTACAGTTAAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
AATTGAAGCTACAACGGCGAATCTTGTTTCCCCAA
Found at i:31705216 original size:19 final size:19
Alignment explanation
Indices: 31705192--31705245 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
31705182 AATTTTCAAG
31705192 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
31705211 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
31705230 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
31705246 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:31705502 original size:23 final size:23
Alignment explanation
Indices: 31705458--31705502 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
31705448 TCTTATTTTG
* *
31705458 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
31705481 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
31705503 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:31705850 original size:34 final size:36
Alignment explanation
Indices: 31705783--31705850 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
31705773 CATACATACG
*
31705783 TTTTATAATATATACATATACGTACACATTTTTAATT
1 TTTTATAATATATACATATACG-ACACACTTTTAATT
* *
31705820 TTTTATAA-ATATATATATAC-ACATACTTTTA
1 TTTTATAATATATACATATACGACACACTTTTA
31705851 TATATTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 9 0.32
36 11 0.39
37 8 0.29
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.49
Consensus pattern (36 bp):
TTTTATAATATATACATATACGACACACTTTTAATT
Found at i:31705986 original size:23 final size:22
Alignment explanation
Indices: 31705957--31706000 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
31705947 ATAATTCACA
*
31705957 TACATATATATTTTTCTTATATG
1 TACATATATATATTT-TTATATG
31705980 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
31706001 TTTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:31710675 original size:24 final size:24
Alignment explanation
Indices: 31710630--31710675 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
31710620 ATTGCATTTG
* *
31710630 TATCTAAATCTGAATATGCATCCA
1 TATCTAAATCTGAAAATACATCCA
31710654 TATCTAAATCTGAAAATACATC
1 TATCTAAATCTGAAAATACATC
31710676 TGATTCTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.33
Consensus pattern (24 bp):
TATCTAAATCTGAAAATACATCCA
Found at i:31714413 original size:21 final size:19
Alignment explanation
Indices: 31714378--31714418 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
31714368 AATAACAATA
*
31714378 ATATTTTTTAAATTTTTTT
1 ATATTTTTTAAATTTGTTT
31714397 ATATTTTTCTAAAATTTGTTT
1 ATATTTTT-T-AAATTTGTTT
31714418 A
1 A
31714419 AATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 10 0.53
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
ATATTTTTTAAATTTGTTT
Found at i:31715590 original size:55 final size:55
Alignment explanation
Indices: 31715451--31715588 Score: 224
Period size: 55 Copynumber: 2.5 Consensus size: 55
31715441 AATCCATGTG
* * *
31715451 CATTTGCAAATGA-ATCATTTCTCATTTTCATTTTCATTTTGAGAAAATCACATT
1 CATTTCCAAATGATTTCATTTCTCATTTTCATTTTCATTTTGAGAAAACCACATT
31715505 CATTTCCAAATGATTTCATTTCTCATTTTCATTTTCATTTTGAGAAAACCACATT
1 CATTTCCAAATGATTTCATTTCTCATTTTCATTTTCATTTTGAGAAAACCACATT
*
31715560 CATTTTCAAATGATTTCATTTCTCCATTT
1 CATTTCCAAATGATTTCATTTCT-CATTT
31715589 CAGAGTAAAC
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
54 12 0.15
55 61 0.78
56 5 0.06
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (55 bp):
CATTTCCAAATGATTTCATTTCTCATTTTCATTTTCATTTTGAGAAAACCACATT
Found at i:31717331 original size:23 final size:24
Alignment explanation
Indices: 31717296--31717364 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
31717286 TTACTACAAA
31717296 ATTGAGTGGCTTGTCCACAACGAT
1 ATTGAGTGGCTTGTCCACAACGAT
* * *
31717320 ATTG-GTGTCTTGTCCTCAACGCT
1 ATTGAGTGGCTTGTCCACAACGAT
** *
31717343 AACGAGTGGCTTGACCACAACG
1 ATTGAGTGGCTTGTCCACAACG
31717365 TAAATGAGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
23 18 0.50
24 18 0.50
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (24 bp):
ATTGAGTGGCTTGTCCACAACGAT
Found at i:31717373 original size:24 final size:24
Alignment explanation
Indices: 31717298--31717385 Score: 74
Period size: 24 Copynumber: 3.7 Consensus size: 24
31717288 ACTACAAAAT
* *
31717298 TGAGTGGCTTGTCCACAACG-ATAT
1 TGAGTGGCTTGACCACAACGTA-AA
* * *
31717322 TG-GTGTCTTGTCCTCAACGCT-AA
1 TGAGTGGCTTGACCACAACG-TAAA
*
31717345 CGAGTGGCTTGACCACAACGTAAA
1 TGAGTGGCTTGACCACAACGTAAA
*
31717369 TGAGTGGTTTGACCACA
1 TGAGTGGCTTGACCACA
31717386 CAGTGCAACT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
23 18 0.35
24 33 0.65
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (24 bp):
TGAGTGGCTTGACCACAACGTAAA
Found at i:31724045 original size:45 final size:45
Alignment explanation
Indices: 31723975--31724106 Score: 122
Period size: 45 Copynumber: 2.9 Consensus size: 45
31723965 CTATACGCCT
* * * * * *
31723975 AAAATGAGTAATACCATAGTTGAAAGACATTTTGAG-ATCATGATT
1 AAAATAAGTAAGACCATAGCTGAAAGACACTATG-GCATCATGATA
* **
31724020 AAGATAAGTAAGACCATAGCTGAAAGTTACTATGGCATCATGATA
1 AAAATAAGTAAGACCATAGCTGAAAGACACTATGGCATCATGATA
* * ** *
31724065 AAAATGAGTAAGACCATAGCTAAAAGACGGTATGACATCATG
1 AAAATAAGTAAGACCATAGCTGAAAGACACTATGGCATCATG
31724107 TGAAAGTATG
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
44 1 0.01
45 68 0.99
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (45 bp):
AAAATAAGTAAGACCATAGCTGAAAGACACTATGGCATCATGATA
Found at i:31733061 original size:56 final size:52
Alignment explanation
Indices: 31733000--31733135 Score: 161
Period size: 49 Copynumber: 2.6 Consensus size: 52
31732990 AGACCACATG
* *
31733000 TAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGCTATGAGAGGTCCTACA
1 TAAGACCATGTCTGGGACATGGCATTGGCATTACTGA-G--AT-AGAGGTCCCACA
* * *
31733056 TAAGACCATGTCTGGGACATGGCGTTGG---TACTGAGATAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCATTGGCATTACTGAGATAGAGGTCCCACA
*
31733105 TAAGACCATGTCTGGGACATGGCATGGGCAT
1 TAAGACCATGTCTGGGACATGGCATTGGCAT
31733136 CGATATGAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
49 35 0.50
50 2 0.03
52 1 0.01
53 5 0.07
56 27 0.39
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (52 bp):
TAAGACCATGTCTGGGACATGGCATTGGCATTACTGAGATAGAGGTCCCACA
Found at i:31739961 original size:8 final size:8
Alignment explanation
Indices: 31739948--31739977 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
31739938 CCATCCTAGA
31739948 AAAATTAT
1 AAAATTAT
31739956 AAAATTAT
1 AAAATTAT
31739964 AAAATTAT
1 AAAATTAT
31739972 AAAATT
1 AAAATT
31739978 CACCCCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
AAAATTAT
Found at i:31754854 original size:52 final size:52
Alignment explanation
Indices: 31754776--31754875 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
31754766 GAGACTTTTC
31754776 ATATTTGGCCTTTAACTAGTACAATTACAAGCACTAATTTCATGTTTAGAGG
1 ATATTTGGCCTTTAACTAGTACAATTACAAGCACTAATTTCATGTTTAGAGG
* * * *
31754828 ATATTTTGCCTTTAACTATTACAATTATAAGCACTAATTTCATTTTTA
1 ATATTTGGCCTTTAACTAGTACAATTACAAGCACTAATTTCATGTTTA
31754876 ACTCTTGTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (52 bp):
ATATTTGGCCTTTAACTAGTACAATTACAAGCACTAATTTCATGTTTAGAGG
Found at i:31756946 original size:209 final size:209
Alignment explanation
Indices: 31756586--31757008 Score: 756
Period size: 209 Copynumber: 2.0 Consensus size: 209
31756576 CATTTAAAAA
* *
31756586 AAATCAAATAATATAAAAAAATGGATAGATTGTAAGTTAACAAGAATAAGATAGTAAGCATACCC
1 AAATCAAATAATATAAAAAAATGAATAGATTGTAAGTTAAAAAGAATAAGATAGTAAGCATACCC
* *
31756651 TTCAACTCACGAAAGTCATGAATTTAGGGTAGGTTCTGATGCATTCCAAGAAATGTCTAAACATT
66 TTCAACTCACAAAAGTCATGAATTTAGGGTAGGTTCTGATGCATTCCAAGAAAAGTCTAAACATT
31756716 GAATTGATTAAATAAGTTAATGTAGGAGTGATGTGCTAAAAATTTGAAACTATTAAATTAAAAAT
131 GAATTGATTAAATAAGTTAATGTAGGAGTGATGTGCTAAAAATTTGAAACTATTAAATTAAAAAT
31756781 AAATATACAATTTT
196 AAATATACAATTTT
* *
31756795 AAATCAAATAATATAAACAAATGAATAGATTGTAAGTTAAAAATAATAAGATAGTAAGCATACCC
1 AAATCAAATAATATAAAAAAATGAATAGATTGTAAGTTAAAAAGAATAAGATAGTAAGCATACCC
* *
31756860 TTCAACTCACAAAAGTCATGAGTTTAGGGTAGGTTTTGATGCATTCCAAGAAAAGTCTAAACATT
66 TTCAACTCACAAAAGTCATGAATTTAGGGTAGGTTCTGATGCATTCCAAGAAAAGTCTAAACATT
31756925 GAATTGATTAAATAAGTTAATGTAGGAGTGATGTGCTAAAAATTTGAAACTATTAAATTAAAAAT
131 GAATTGATTAAATAAGTTAATGTAGGAGTGATGTGCTAAAAATTTGAAACTATTAAATTAAAAAT
*
31756990 AAATATACCATTTT
196 AAATATACAATTTT
*
31757004 GAATC
1 AAATC
31757009 TTCTCAAGCT
Statistics
Matches: 204, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
209 204 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (209 bp):
AAATCAAATAATATAAAAAAATGAATAGATTGTAAGTTAAAAAGAATAAGATAGTAAGCATACCC
TTCAACTCACAAAAGTCATGAATTTAGGGTAGGTTCTGATGCATTCCAAGAAAAGTCTAAACATT
GAATTGATTAAATAAGTTAATGTAGGAGTGATGTGCTAAAAATTTGAAACTATTAAATTAAAAAT
AAATATACAATTTT
Found at i:31759091 original size:34 final size:35
Alignment explanation
Indices: 31759052--31759122 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 35
31759042 GTGGACATTC
31759052 TACAAG-AAAAATTATATAATAGATCAAAAAACAT
1 TACAAGAAAAAATTATATAATAGATCAAAAAACAT
* *
31759086 TACAAGAAAAAAATTATATAATAGATTAAAATACAT
1 TACAAG-AAAAAATTATATAATAGATCAAAAAACAT
31759122 T
1 T
31759123 TATAATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 6 0.18
36 27 0.82
ACGTcount: A:0.61, C:0.07, G:0.06, T:0.27
Consensus pattern (35 bp):
TACAAGAAAAAATTATATAATAGATCAAAAAACAT
Found at i:31764979 original size:50 final size:50
Alignment explanation
Indices: 31764743--31764984 Score: 269
Period size: 50 Copynumber: 4.9 Consensus size: 50
31764733 GATAATAACA
* * *
31764743 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGTT-TC-CTGTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTC-G--G
* * * * * * * * *
31764792 TGCCAATGTCATATCCCAGATATGGTCTTACATGAGA-ATTTTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT-ATCTCGG
* * * *
31764842 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
31764892 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
31764942 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
31764985 TACCCAAATA
Statistics
Matches: 164, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
49 32 0.20
50 128 0.78
51 2 0.01
52 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
Found at i:31768758 original size:40 final size:40
Alignment explanation
Indices: 31768697--31768840 Score: 211
Period size: 41 Copynumber: 3.5 Consensus size: 40
31768687 AACTTTATGT
31768697 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAAGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATC-AGTTATAAAC
31768738 CTAGCAGGCT-AGTGCCGGTGATCTGAATCAGCTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAG-TTATAAAC
* * *
31768778 CTAGTAGTCTAAGTGCCGGTGATCTGAATCAGTCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGT-TATAAAC
31768819 CTAGC-GGACTAAGTGCCGGTGA
1 CTAGCAGG-CTAAGTGCCGGTGA
31768841 ATATGTTAAA
Statistics
Matches: 94, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
39 2 0.02
40 37 0.39
41 55 0.59
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGTTATAAAC
Found at i:31771285 original size:43 final size:41
Alignment explanation
Indices: 31771235--31771377 Score: 116
Period size: 42 Copynumber: 3.3 Consensus size: 41
31771225 GATGCCAACA
31771235 TCCCAGACGTGGTCTTTCATGTAATCAACTATCGATGCCACTG
1 TCCCAGACGTGGTCTTTCA-GTAATCAA-TATCGATGCCACTG
* *
31771278 TCCCAGACAG-GGTCTTATACA-AAATC-ATATACGATGCCAATG
1 TCCCAGAC-GTGGTCTT-T-CAGTAATCAATAT-CGATGCCACTG
* *
31771320 TCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-G
1 TCCCAGACGTGGTCTTTCA-GT-AA--TCAATATCGATGCC-ACTG
31771364 TCCCAGACGTGGTC
1 TCCCAGACGTGGTC
31771378 CTACACGAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
40 2 0.02
41 3 0.04
42 25 0.31
43 20 0.25
44 23 0.28
45 7 0.09
46 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (41 bp):
TCCCAGACGTGGTCTTTCAGTAATCAATATCGATGCCACTG
Found at i:31771326 original size:42 final size:44
Alignment explanation
Indices: 31771265--31771387 Score: 137
Period size: 44 Copynumber: 2.8 Consensus size: 44
31771255 GTAATCAACT
* * *
31771265 ATCGATGCCACTGTCCCAGACAGGGTCTTATAC-AAAA--TCAT
1 ATCGATGCCAATGTCCCAGACAGGGTCTTACACGAAAATCTCAA
* *
31771306 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA
1 AT-CGATGCCAATGTCCCAGACAGGGTCTTACACGAAAATCTCAA
* *
31771351 ATCGATGCCAACGTCCCAGAC-GTGGTCCTACACGAAA
1 ATCGATGCCAATGTCCCAGACAG-GGTCTTACACGAAA
31771388 TCACATATCG
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.03
42 28 0.41
43 3 0.04
44 30 0.44
45 5 0.07
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (44 bp):
ATCGATGCCAATGTCCCAGACAGGGTCTTACACGAAAATCTCAA
Found at i:31773978 original size:40 final size:40
Alignment explanation
Indices: 31773930--31774110 Score: 211
Period size: 40 Copynumber: 4.5 Consensus size: 40
31773920 TTGTCAGATC
* * *
31773930 AACC-AAACACACCAGACAGAAGCTCATAAGAGCTAATCC
1 AACCGAAACACGCCAGACAGAAGCTCACAAGAGCTAATCT
* * *
31773969 AACCGAAACACGCCAGAAAAAAGCTCACAAGAGTTAATCT
1 AACCGAAACACGCCAGACAGAAGCTCACAAGAGCTAATCT
* * *
31774009 AATCGAAACACGCTAGACAGAAGCTCACAAGAGTTAATCT
1 AACCGAAACACGCCAGACAGAAGCTCACAAGAGCTAATCT
* * * *
31774049 AATCGAAACACGCCAGACATAAGCTTATAAGAGCTAATCT
1 AACCGAAACACGCCAGACAGAAGCTCACAAGAGCTAATCT
* * *
31774089 AACTGAAACACACCAAACAGAA
1 AACCGAAACACGCCAGACAGAA
31774111 AGTATAACAC
Statistics
Matches: 121, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 4 0.03
40 117 0.97
ACGTcount: A:0.46, C:0.25, G:0.14, T:0.14
Consensus pattern (40 bp):
AACCGAAACACGCCAGACAGAAGCTCACAAGAGCTAATCT
Found at i:31780055 original size:43 final size:43
Alignment explanation
Indices: 31780008--31780132 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 43
31779998 AGTTATCTAG
* * *
31780008 TATCGATGCCAATAG-CCTAGCCATGTTCTTACACGAAATCACA
1 TATCGATGCCAAT-GTCCCAGACATGGTCTTACACGAAATCACA
* *
31780051 TATCGATGCCAATGTCCCAGACATGGTCTTACACGAAGTCTCA
1 TATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
* * * * * *
31780094 TATCGATGTC-ATATCCTAGATATGGTCTTTCACGTAATC
1 TATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATC
31780133 TCAGTAACCC
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 24 0.35
43 45 0.65
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (43 bp):
TATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
Found at i:31787685 original size:25 final size:27
Alignment explanation
Indices: 31787657--31787714 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
31787647 ATCATAGGCA
31787657 ATATATAAT-TACT-TCATGT-CAAAAC
1 ATATATAATATA-TATCATGTCCAAAAC
31787682 ATATAT-ATATATATCATGTCCAAAAC
1 ATATATAATATATATCATGTCCAAAAC
31787708 -TATATAA
1 ATATATAA
31787715 CCCAAGCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
24 3 0.10
25 19 0.66
26 7 0.24
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (27 bp):
ATATATAATATATATCATGTCCAAAAC
Found at i:31789960 original size:43 final size:43
Alignment explanation
Indices: 31789899--31790056 Score: 212
Period size: 43 Copynumber: 3.7 Consensus size: 43
31789889 TAACAATGCC
*
31789899 ATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGTCA
1 ATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGTCA
** * *
31789942 ATATCCCAGCCATGGTCTTACACGAAATCACATATCGATGTCA
1 ATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGTCA
* * * *
31789985 ATGTCCCAGATATGGTCTTACACG-AAGTCTTAGATCGATG-CC
1 ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCGATGTCA
31790027 ATATCCCAGATATGGTCTTACACGTAATCT
1 ATATCCCAGATATGGTCTTACACGTAATCT
31790057 TGGAAACCCT
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
42 29 0.29
43 71 0.71
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGTCA
Found at i:31791433 original size:22 final size:22
Alignment explanation
Indices: 31791403--31791445 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
31791393 AATTTCTAAA
*
31791403 TTTCAAAAGATATTAATAAATC
1 TTTCAAAAGATATTAAAAAATC
* *
31791425 TTTCCAAAGATGTTAAAAAAT
1 TTTCAAAAGATATTAAAAAAT
31791446 AATTAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (22 bp):
TTTCAAAAGATATTAAAAAATC
Found at i:31793345 original size:113 final size:114
Alignment explanation
Indices: 31792979--31793525 Score: 622
Period size: 114 Copynumber: 4.8 Consensus size: 114
31792969 CAAAATACAT
* * * * * *
31792979 AAGCACAACGACCCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGTCGCTA
1 AAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTA
* * *
31793044 ATGCTCCGGGCTTTAGTGGCGTTTTTGAGAAAGCGCCACCAAAAAACCA
66 ATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCA
* * *
31793093 AAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATTTAGTGGCATTTTTTAGT-AGACACCGCT
1 AAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATTTAGTGGCGTTTTTAAGTAAG-CGCCGCT
* * * *
31793157 AATGCTCAGGGCTTTAGCGGCGTTTTCGGGAAAGCGCCGA-AAAAATACCT
65 AATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCC-ACAAAAAAACCA
* * * * *
31793207 AAGCCCAACGACGCCGTTTTCTGAGCATTCGAGGATTTAGTGGTGTTTTTAGGTAAGTGCCACTA
1 AAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTA
* * *
31793272 ATGCTCA-AGCTTTAGCAGCGCTTTTGAGAAAGCGCCACAAAAAAACCA
66 ATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCA
* * * *
31793320 AAGCCCAACGACGCCATTTTTTGAGCTTCCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTA
1 AAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTA
* * *
31793385 ATGTTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAACAAAAACTA
66 ATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCACAA-AAAAACCA
* * * * * * * * *
31793435 AA-TCGAACTACACTGTTTTCTGA-CAATTCGTGGGCTTTAGCGGCG-TTTTAAG-AATGCGCCG
1 AAGCCCAACGACGCCGTTTTCTGAGC-TTTCG-AGGATTTAGTGGCGTTTTTAAGTAA-GCGCCG
*
31793496 CTAATGCTTAGGGCTTTAGCGGCGTTTTTG
63 CTAATGCTCAGGGCTTTAGCGGCGTTTTTG
31793526 TTCAAGCGGC
Statistics
Matches: 365, Mismatches: 59, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
112 1 0.00
113 99 0.27
114 241 0.66
115 24 0.07
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (114 bp):
AAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTA
ATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCA
Found at i:31793545 original size:227 final size:226
Alignment explanation
Indices: 31792944--31793525 Score: 676
Period size: 227 Copynumber: 2.6 Consensus size: 226
31792934 AAAATAAGCA
* * * * * * * *
31792944 TTAGCGGCG-TTTCCATAAAGCGCCG-CAAAATACATAAGCACAACGACCCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTCGAGAAAGCGCCGAAAAAATACCTAAACCCAACGACACCGTTTTCTGAGCAT
* * *
31793007 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGTCGCTAATGCTCCGGGCTTTAGTGGCGTTTTTGA
66 TCGGGGATTTAGCGGCGTTTTTAAG-AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
* *
31793072 GAAAGCGCCACCAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATTTAGTGGC
130 GAAAGCGCCA-CAAAAAACCAAAGCCCAACGACGCCATTTTCTGAGCTTCCGAGGATTTAGTGGC
*
31793137 ATTTTTTAGTAGACACCGCTAATGCTCAGGGCT
194 ATTTTTAAGTAGACACCGCTAATGCTCAGGGCT
* * *
31793170 TTAGCGGCGTTTTCGGGAAAGCGCCGAAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCAT
1 TTAGCGGCGTTTTCGAGAAAGCGCCGAAAAAATACCTAAACCCAACGACACCGTTTTCTGAGCAT
* * * * * * * * *
31793235 TCGAGGATTTAGTGGTGTTTTTAGGTAAGTGCCACTAATGCTCA-AGCTTTAGCAGCGCTTTTGA
66 TCGGGGATTTAGCGGCGTTTTTAAG-AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
* *
31793299 GAAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCATTTTTTGAGCTTCCGGGGATTTAGTGGC
130 GAAAGCGCCAC-AAAAAACCAAAGCCCAACGACGCCATTTTCTGAGCTTCCGAGGATTTAGTGGC
* * *
31793364 GTTTTTAAGTA-AGCGCCGCTAATGTTCAGGGCT
194 ATTTTTAAGTAGA-CACCGCTAATGCTCAGGGCT
* * * * *
31793397 TTAGCGGCGTTTTTGAGAAAGCGCCGCAACAAAA-A-CTAAATCGAACTACACTGTTTTCTGA-C
1 TTAGCGGCGTTTTCGAGAAAGCGCCG-AA-AAAATACCTAAACCCAACGACACCGTTTTCTGAGC
* *
31793459 AATTCGTGGGCTTTAGCGGCG-TTTTAAGAATGCGCCGCTAATGCTTAGGGCTTTAGCGGCGTTT
64 -ATTCG-GGGATTTAGCGGCGTTTTTAAGAA-GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTT
31793523 TTG
126 TTG
31793526 TTCAAGCGGC
Statistics
Matches: 298, Mismatches: 48, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
226 14 0.05
227 183 0.61
228 97 0.33
229 4 0.01
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (226 bp):
TTAGCGGCGTTTTCGAGAAAGCGCCGAAAAAATACCTAAACCCAACGACACCGTTTTCTGAGCAT
TCGGGGATTTAGCGGCGTTTTTAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
AAAGCGCCACAAAAAACCAAAGCCCAACGACGCCATTTTCTGAGCTTCCGAGGATTTAGTGGCAT
TTTTAAGTAGACACCGCTAATGCTCAGGGCT
Found at i:31794199 original size:14 final size:15
Alignment explanation
Indices: 31794175--31794215 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
31794165 ATTAAATAAG
*
31794175 GTTTA-GGGTTAGTA
1 GTTTAGGGGTTAATA
31794189 G-TTAGGGGTTAATA
1 GTTTAGGGGTTAATA
31794203 GTTTA-GGGTTAAT
1 GTTTAGGGGTTAAT
31794216 GGTTAGAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 3 0.12
14 18 0.75
15 3 0.12
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.41
Consensus pattern (15 bp):
GTTTAGGGGTTAATA
Found at i:31794227 original size:28 final size:28
Alignment explanation
Indices: 31794171--31794233 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
31794161 GTATATTAAA
* **
31794171 TAAG-GTTTAGGGTTAGTAGTTAGGGGT
1 TAAGAGTTTAGGGTTAATAGTTAGAAGT
* *
31794198 TAATAGTTTAGGGTTAATGGTTAGAAGT
1 TAAGAGTTTAGGGTTAATAGTTAGAAGT
31794226 TAAGAGTT
1 TAAGAGTT
31794234 AGTGATTTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
27 3 0.10
28 26 0.90
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (28 bp):
TAAGAGTTTAGGGTTAATAGTTAGAAGT
Found at i:31794587 original size:14 final size:14
Alignment explanation
Indices: 31794568--31794616 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
31794558 GGAATATTAC
31794568 GGTTTAAGATTTGG
1 GGTTTAAGATTTGG
* *
31794582 GGTTTAGGGTTTGG
1 GGTTTAAGATTTGG
* *
31794596 GGTTT-GGTTTTGG
1 GGTTTAAGATTTGG
31794609 GGTTTAAG
1 GGTTTAAG
31794617 GTTTAGAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.12, C:0.00, G:0.43, T:0.45
Consensus pattern (14 bp):
GGTTTAAGATTTGG
Found at i:31794609 original size:13 final size:14
Alignment explanation
Indices: 31794577--31794620 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
31794567 CGGTTTAAGA
31794577 TTTGGGGTTTAGGG
1 TTTGGGGTTTAGGG
*
31794591 TTTGGGGTTT-GGT
1 TTTGGGGTTTAGGG
*
31794604 TTTGGGGTTTAAGG
1 TTTGGGGTTTAGGG
31794618 TTT
1 TTT
31794621 AGAATTTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.07, C:0.00, G:0.43, T:0.50
Consensus pattern (14 bp):
TTTGGGGTTTAGGG
Found at i:31795819 original size:147 final size:146
Alignment explanation
Indices: 31795668--31795946 Score: 321
Period size: 146 Copynumber: 1.9 Consensus size: 146
31795658 CAAAACGCTA
* ** *
31795668 CAAAATTGTTCTAACATTTATAGAAACGCTGCCATTTTG-TAAATGTTATTAGTGGCGTTT-TTG
1 CAAAAATGTTCTAACATTTATAGAAACGAGGCCATTTTGCT--ATATTATTAGTGGCGTTTATT-
* * * * * * *
31795731 CAAAAACGCCACGGGTTTGAGGTAAGTGTTGATGAAGCGACTGCGTTTTGA-TTTATAGTTTGTG
63 CAAAAACACCACAGGTGTGAGCTAAGTATTGATGAAACGACTGCGTTTTGACTTT-TAGTTAGTG
31795795 GCGCTTCGGTTAAAATGCCG
127 GCGCTTCGGTTAAAATGCCG
* * * * *
31795815 CAAAAATGTTTTAACATTTATTGATACGAGGCCGTTTTGCTGTATTATTAGTGGCGTTTATTCAA
1 CAAAAATGTTCTAACATTTATAGAAACGAGGCCATTTTGCTATATTATTAGTGGCGTTTATTCAA
** * *
31795880 AAACACCACAGGTGTGAGCTATTTATTGATGAAACGGCTTCGTTTTGACTTTTAGTTAGTGGCGC
66 AAACACCACAGGTGTGAGCTAAGTATTGATGAAACGACTGCGTTTTGACTTTTAGTTAGTGGCGC
31795945 TT
131 TT
31795947 ATTTATAAAC
Statistics
Matches: 109, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
146 71 0.65
147 37 0.34
148 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (146 bp):
CAAAAATGTTCTAACATTTATAGAAACGAGGCCATTTTGCTATATTATTAGTGGCGTTTATTCAA
AAACACCACAGGTGTGAGCTAAGTATTGATGAAACGACTGCGTTTTGACTTTTAGTTAGTGGCGC
TTCGGTTAAAATGCCG
Found at i:31796927 original size:15 final size:15
Alignment explanation
Indices: 31796907--31796938 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
31796897 AGGGTTGAAG
31796907 TATTTGGTACTAATT
1 TATTTGGTACTAATT
31796922 TATTTGGTACTAATT
1 TATTTGGTACTAATT
31796937 TA
1 TA
31796939 CTGTTATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (15 bp):
TATTTGGTACTAATT
Found at i:31797928 original size:13 final size:13
Alignment explanation
Indices: 31797912--31798076 Score: 136
Period size: 13 Copynumber: 12.5 Consensus size: 13
31797902 TTACTAAAAT
*
31797912 TTACTTTAATATA
1 TTACTTAAATATA
*
31797925 TTACTTTAATATA
1 TTACTTAAATATA
*
31797938 TTACTTAAATAAA
1 TTACTTAAATATA
*
31797951 TTACTTAAATACA
1 TTACTTAAATATA
*
31797964 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
31797978 TTGGTTAAATTTA
1 TTACTTAAATATA
*
31797991 TTACTTAAATATG
1 TTACTTAAATATA
*
31798004 TTACTTAAATACA
1 TTACTTAAATATA
*
31798017 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
31798031 TTGTTTAAATTTA
1 TTACTTAAATATA
*
31798044 TTACTTAAATATG
1 TTACTTAAATATA
*
31798057 TTACTTAAATACA
1 TTACTTAAATATA
31798070 TTACTTA
1 TTACTTA
31798077 CTAAAATTTA
Statistics
Matches: 119, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
12 6 0.05
13 97 0.82
14 10 0.08
15 6 0.05
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.47
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:31797994 original size:53 final size:53
Alignment explanation
Indices: 31797936--31798085 Score: 273
Period size: 53 Copynumber: 2.8 Consensus size: 53
31797926 TACTTTAATA
**
31797936 TATTACTTAAATAAATTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
*
31797989 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGTTTAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
31798042 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
31798086 AAGTATATAT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 94 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.45
Consensus pattern (53 bp):
TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
Found at i:31798315 original size:156 final size:155
Alignment explanation
Indices: 31798217--31798546 Score: 446
Period size: 156 Copynumber: 2.1 Consensus size: 155
31798207 GTATGTACAA
31798217 GAACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAA
1 GAACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAA
* ** ** *
31798282 CTTACATAATACATAACTTATATGTAAACATACATAATACATAACTTATAATTTTTTTTATATAA
66 CTTACATAATACATAACTTACATGTAAACATACATAATACATAAC-TATAATTCATCATACATAA
* *
31798347 ACTTACATAATACATTACTTACATAT
130 ACTTACATAAAAAATTACTTACATAT
*
31798373 TAACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAA
1 GAACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAA
* * * ** *
31798438 CTTACATAATACATAACTTACATGTTAACTTACATAATACATAACTTATAAAATT-TTTTTATAT
66 CTTACATAATACATAACTTACATGTAAACATACATAATACATAAC-TAT--AATTCATCATACAT
* *
31798502 AAACTTACATAACACATTACTTACATAT
128 AAACTTACATAAAAAATTACTTACATAT
* *
31798530 TAACTTACATAAGTTAT
1 GAACTTACATAACTTAT
31798547 CTACAAGCTT
Statistics
Matches: 166, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
156 110 0.66
157 52 0.31
158 4 0.02
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.39
Consensus pattern (155 bp):
GAACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAA
CTTACATAATACATAACTTACATGTAAACATACATAATACATAACTATAATTCATCATACATAAA
CTTACATAAAAAATTACTTACATAT
Found at i:31798358 original size:66 final size:64
Alignment explanation
Indices: 31798278--31798457 Score: 178
Period size: 66 Copynumber: 2.8 Consensus size: 64
31798268 AACTTATATG
*
31798278 TAAACTTACATAATACATAACTTATATGTAAACATACATAATACATAACTTA-TAATTTTTTTTA
1 TAAACTTACATAATACATAACTTATATGTAAACATACATAATACATAACTTATTAA---TATTTA
31798342 TA
63 TA
* * **
31798344 TAAACTTACATAATACATTACTTACA--T-ATTA-AC-T--TACATAACTTATTAATATTTATA
1 TAAACTTACATAATACATAACTTATATGTAAACATACATAATACATAACTTATTAATATTTATA
*
31798401 TAAACTTACATAACTATCACATAAACTTATATGTAAACTTACATAATACATAACTTA
1 TAAACTTACAT-A--AT-ACAT-AACTTATATGTAAACATACATAATACATAACTTA
31798458 CATGTTAACT
Statistics
Matches: 91, Mismatches: 10, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
57 18 0.20
58 1 0.01
59 11 0.12
60 5 0.05
61 5 0.05
62 8 0.09
63 2 0.02
64 2 0.02
65 1 0.01
66 26 0.29
67 1 0.01
69 11 0.12
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.39
Consensus pattern (64 bp):
TAAACTTACATAATACATAACTTATATGTAAACATACATAATACATAACTTATTAATATTTATA
Found at i:31798372 original size:28 final size:28
Alignment explanation
Indices: 31798341--31798485 Score: 123
Period size: 28 Copynumber: 5.0 Consensus size: 28
31798331 AATTTTTTTT
*
31798341 ATATAAACTTACATAATACATTACTTAC
1 ATATAAACTTACATAATACATAACTTAC
* * **
31798369 ATATTAACTTACATAACTTA-TTAA-TATTT
1 ATATAAACTTACATAA--TACATAACT-TAC
*
31798398 ATATAAACTTACATAACTATCACATAAACTTAT
1 ATATAAACTTACAT-A--AT-ACAT-AACTTAC
*
31798431 ATGTAAACTTACATAATACATAACTTAC
1 ATATAAACTTACATAATACATAACTTAC
* *
31798459 ATGTTAACTTACATAATACATAACTTA
1 ATATAAACTTACATAATACATAACTTA
31798486 TAAAATTTTT
Statistics
Matches: 96, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
28 48 0.50
29 20 0.21
30 6 0.06
31 1 0.01
32 3 0.03
33 17 0.18
34 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.37
Consensus pattern (28 bp):
ATATAAACTTACATAATACATAACTTAC
Found at i:31798457 original size:16 final size:16
Alignment explanation
Indices: 31798436--31798485 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
31798426 CTTATATGTA
31798436 AACTTACATAATACAT
1 AACTTACATAATACAT
*
31798452 AACTTACAT-GT---T
1 AACTTACATAATACAT
31798464 AACTTACATAATACAT
1 AACTTACATAATACAT
31798480 AACTTA
1 AACTTA
31798486 TAAAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
15 1 0.04
16 16 0.57
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:31798621 original size:25 final size:25
Alignment explanation
Indices: 31798593--31798723 Score: 117
Period size: 25 Copynumber: 5.1 Consensus size: 25
31798583 ATAACATAAC
*
31798593 AACTTACATAA-TACATAGCATACGT
1 AACTTACATAACTACATA-CATACAT
*
31798618 AACTTACATAACTTACATA-ATACAA
1 AACTTACATAAC-TACATACATACAT
*
31798643 AACTTACATAACTTACATAACCTACAT
1 AACTTACATAAC-TACAT-ACATACAT
* *
31798670 AACCTACATAA-TACATTTAACTTACAT
1 AACTTACATAACTACA--T-ACATACAT
31798697 AACTTACATAACTTACATA-ATACAT
1 AACTTACATAAC-TACATACATACAT
31798722 AA
1 AA
31798724 TAACTTACAA
Statistics
Matches: 90, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
25 44 0.49
26 2 0.02
27 40 0.44
29 4 0.04
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (25 bp):
AACTTACATAACTACATACATACAT
Found at i:31798629 original size:9 final size:9
Alignment explanation
Indices: 31798593--31798841 Score: 195
Period size: 9 Copynumber: 28.8 Consensus size: 9
31798583 ATAACATAAC
31798593 AACTTACAT
1 AACTTACAT
31798602 AA--TACAT
1 AACTTACAT
* * *
31798609 AGCATACGT
1 AACTTACAT
31798618 AACTTACAT
1 AACTTACAT
31798627 AACTTACAT
1 AACTTACAT
*
31798636 AA--TACAA
1 AACTTACAT
31798643 AACTTACAT
1 AACTTACAT
31798652 AACTTACAT
1 AACTTACAT
*
31798661 AACCTACAT
1 AACTTACAT
*
31798670 AACCTACAT
1 AACTTACAT
31798679 AA--TACATTT
1 AACTTACA--T
31798688 AACTTACAT
1 AACTTACAT
31798697 AACTTACAT
1 AACTTACAT
31798706 AACTTACAT
1 AACTTACAT
*
31798715 AATACATA-AT
1 -A-ACTTACAT
31798725 AACTTAC--
1 AACTTACAT
*
31798732 AACTTAAAT
1 AACTTACAT
*
31798741 AACATACAT
1 AACTTACAT
* **
31798750 TACTTTGAT
1 AACTTACAT
31798759 AACTTACAT
1 AACTTACAT
31798768 AACTTACAT
1 AACTTACAT
*
31798777 AA--TACAC
1 AACTTACAT
31798784 AACTTACAT
1 AACTTACAT
* *
31798793 AGCTTACTT
1 AACTTACAT
31798802 AAC--ACAT
1 AACTTACAT
31798809 AACTT--AT
1 AACTTACAT
*
31798816 ACACGTACAT
1 A-ACTTACAT
31798826 AACTTACAT
1 AACTTACAT
*
31798835 AATTTAC
1 AACTTAC
31798842 TTAATACATA
Statistics
Matches: 191, Mismatches: 29, Indels: 40
0.73 0.11 0.15
Matches are distributed among these distances:
7 37 0.19
8 7 0.04
9 133 0.70
10 6 0.03
11 8 0.04
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Done.