Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold293
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: 1704560
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 6 of 12
Found at i:771140 original size:79 final size:77
Alignment explanation
Indices: 771033--771356 Score: 240
Period size: 79 Copynumber: 4.1 Consensus size: 77
771023 AAAATTGGAT
* ** * * *
771033 ATTTTTAGAGGTAAAACGGGGTTAGAGTATCACCTCAGAAATTGTGGAGTTGGAGTATCCCAAAA
1 ATTTTTAGAAGTAAAAATGGGTTGGAGTATCCCCTCAGAAATAGTGGAGTTGGAGTATCCCAAAA
771098 ATGAAAATTTTG
66 ATGAAAATTTTG
* * * * *
771110 ATTTTTAAGAAGTAAAAACTGGGTTGGAGTATCCCCTCGGAGATAGCGGGGTTGGAGTATCCCGA
1 ATTTTT-AGAAGTAAAAA-TGGGTTGGAGTATCCCCTCAGAAATAGTGGAGTTGGAGTATCCCAA
* *
771175 AGACGAAAATTTTG
64 AAATGAAAATTTTG
* * * * * *
771189 ATTTTTTAAAAAGTAAAAATGGGGTTGGCGTATCCCCTC-GAAAGACGACAGGA-TTAGAGGATC
1 A-TTTTT-AGAAGTAAAAAT-GGGTTGGAGTATCCCCTCAGAAATA-G--TGGAGTTGGAGTAT-
* * * *
771252 CCCGAAGATGAAAAATTGG
59 CCCAAAAATGAAAATTTTG
* * * * * * *
771271 ATATCTTTATAAGTAAAAATGTGATTGGAATATCTCCTAAGAAATGGTAGG-GTTGGAGTATTCC
1 AT-T-TTTAGAAGTAAAAATG-GGTTGGAGTATCCCCTCAGAAATAGT-GGAGTTGGAGTATCCC
771335 AAAAATGAAAATTTTG
62 AAAAATGAAAATTTTG
771351 ATTTTT
1 ATTTTT
771357 TTAGAGATAA
Statistics
Matches: 193, Mismatches: 40, Indels: 27
0.74 0.15 0.10
Matches are distributed among these distances:
77 6 0.03
78 12 0.06
79 56 0.29
80 50 0.26
81 18 0.09
82 44 0.23
83 7 0.04
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (77 bp):
ATTTTTAGAAGTAAAAATGGGTTGGAGTATCCCCTCAGAAATAGTGGAGTTGGAGTATCCCAAAA
ATGAAAATTTTG
Found at i:772624 original size:2 final size:2
Alignment explanation
Indices: 772619--772661 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
772609 TGTGTTTTCA
772619 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
772661 A
1 A
772662 ACTACACTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:773628 original size:17 final size:17
Alignment explanation
Indices: 773603--773635 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
773593 AATTCAATTT
*
773603 TATTTAATTTTTTTTTG
1 TATTAAATTTTTTTTTG
773620 TATTAAATTTTTTTTT
1 TATTAAATTTTTTTTT
773636 ATTTTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TATTAAATTTTTTTTTG
Found at i:773630 original size:16 final size:15
Alignment explanation
Indices: 773600--773638 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
773590 TGAAATTCAA
*
773600 TTTTATTTAATTTTTT
1 TTTTA-TTAAATTTTT
773616 TTTGTATTAAATTTTT
1 TTT-TATTAAATTTTT
773632 TTTTATT
1 TTTTATT
773639 TTATAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 15 0.71
17 2 0.10
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTTATTAAATTTTT
Found at i:778316 original size:5 final size:5
Alignment explanation
Indices: 778293--778327 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
778283 AGGAAAGGGG
778293 AATAT ATATAT ATATAT AATAT AATAT AATAT AAT
1 AATAT A-ATAT A-ATAT AATAT AATAT AATAT AAT
778328 GAAAATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
AATAT
Found at i:779095 original size:23 final size:23
Alignment explanation
Indices: 779062--779136 Score: 78
Period size: 23 Copynumber: 3.1 Consensus size: 23
779052 AATTTAAAAT
779062 TTTATATAATATATTGCCATCAA
1 TTTATATAATATATTGCCATCAA
* ** *
779085 TTTGTATAATAATATTGTTATAGCAG
1 TTTATATAAT-ATATTGCCAT--CAA
*
779111 TTTATATAATACATTGCCATCAA
1 TTTATATAATATATTGCCATCAA
779134 TTT
1 TTT
779137 CAGAAACAGT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
23 14 0.35
24 8 0.20
25 7 0.17
26 11 0.28
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (23 bp):
TTTATATAATATATTGCCATCAA
Found at i:779249 original size:8 final size:8
Alignment explanation
Indices: 779236--779266 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
779226 TATTTAAATT
779236 TAAATATA
1 TAAATATA
779244 TAAATATA
1 TAAATATA
779252 TAAATATA
1 TAAATATA
779260 TAAATAT
1 TAAATAT
779267 TAATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TAAATATA
Found at i:780580 original size:24 final size:24
Alignment explanation
Indices: 780552--780597 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
780542 AATAAAAATT
780552 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAACA
* * *
780576 AGCCACCATTTTTTACATACAA
1 AGCCACCAATTTTGACAAACAA
780598 AAATAACCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.24
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAACA
Found at i:780623 original size:28 final size:28
Alignment explanation
Indices: 780592--780655 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
780582 CATTTTTTAC
780592 ATACAAA-AATAACCACCATATTTGACAA
1 ATACAAAGAA-AACCACCATATTTGACAA
*
780620 ATACAAAGGAAACCACCATATTTGACAA
1 ATACAAAGAAAACCACCATATTTGACAA
780648 ATACAAAG
1 ATACAAAG
780656 GGTGGCATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 33 0.97
29 1 0.03
ACGTcount: A:0.53, C:0.20, G:0.08, T:0.19
Consensus pattern (28 bp):
ATACAAAGAAAACCACCATATTTGACAA
Found at i:780656 original size:28 final size:28
Alignment explanation
Indices: 780602--780656 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
780592 ATACAAAAAT
780602 AACCACCATATTTGACAAATACAAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
780630 AACCACCATATTTGACAAATACAAAGG
1 AACCACCATATTTGACAAATACAAAGG
780657 GTGGCATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.49, C:0.22, G:0.11, T:0.18
Consensus pattern (28 bp):
AACCACCATATTTGACAAATACAAAGGA
Found at i:782597 original size:21 final size:22
Alignment explanation
Indices: 782559--782604 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
782549 ATCTGTTGAA
* **
782559 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
782580 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
782602 ACT
1 ACT
782605 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:785157 original size:24 final size:24
Alignment explanation
Indices: 785129--785174 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
785119 AATAAAAATT
785129 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAACA
* * *
785153 AGCCACCATTTTTTACATACAA
1 AGCCACCAATTTTGACAAACAA
785175 AAATAACCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.24
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAACA
Found at i:785200 original size:28 final size:28
Alignment explanation
Indices: 785169--785233 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
785159 CATTTTTTAC
785169 ATACAAA-AATAACCACCATATTTGACAA
1 ATACAAAGAA-AACCACCATATTTGACAA
*
785197 ATACAAAGGAAACCACCATATTTGACAA
1 ATACAAAGAAAACCACCATATTTGACAA
785225 ATACAAAGA
1 ATACAAAGA
785234 GTAGCATTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 33 0.97
29 1 0.03
ACGTcount: A:0.54, C:0.20, G:0.08, T:0.18
Consensus pattern (28 bp):
ATACAAAGAAAACCACCATATTTGACAA
Found at i:789627 original size:23 final size:23
Alignment explanation
Indices: 789576--789628 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
789566 CAAAATTTTA
*
789576 AATTTTAAATTTAAATTTTGATT
1 AATTTTAAATCTAAATTTTGATT
**
789599 TTTTTTAAATCTAAA-TTTGATAT
1 AATTTTAAATCTAAATTTTGAT-T
789622 AATTTTA
1 AATTTTA
789629 TCCTTTAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (23 bp):
AATTTTAAATCTAAATTTTGATT
Found at i:790039 original size:115 final size:116
Alignment explanation
Indices: 789901--790116 Score: 317
Period size: 115 Copynumber: 1.9 Consensus size: 116
789891 CAATTTTTTT
* * *
789901 AATTTTATAAAATCATTTTTTTTATATTTTTATTTACTTAATTATTTTATTTTATTTATTTTAAA
1 AATTTTATAAAATCAATTATTTTATATTTTTATCTACTTAATTATTTTATTTTATTTATTTTAAA
* * * *
789966 TATGTGAATAT-TTTTTTATTTATTTATGTAATATATTAATCAGCTCTTTA
66 TATCTAAATATATTGTTTATTTATTTACGTAATATATTAATCAGCTCTTTA
* ** *
790016 AATTTTATAAAATTAATTATTTTATATTTTTATCTGTTTAATTGTTTTATTTTATTTATTTTAAA
1 AATTTTATAAAATCAATTATTTTATATTTTTATCTACTTAATTATTTTATTTTATTTATTTTAAA
790081 TATCTAAATATAATTGTTTATTTATTTACGTAATAT
66 TATCTAAATAT-ATTGTTTATTTATTTACGTAATAT
790117 GACGCACCCA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
115 67 0.76
117 21 0.24
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (116 bp):
AATTTTATAAAATCAATTATTTTATATTTTTATCTACTTAATTATTTTATTTTATTTATTTTAAA
TATCTAAATATATTGTTTATTTATTTACGTAATATATTAATCAGCTCTTTA
Found at i:790699 original size:24 final size:25
Alignment explanation
Indices: 790663--790709 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
790653 TTTTATATTT
*
790663 ATATACAACTTTTATCATATAAAAA
1 ATATACAACTTTTATAATATAAAAA
*
790688 ATATATAA-TTTTATAATATAAA
1 ATATACAACTTTTATAATATAAA
790710 CATTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATACAACTTTTATAATATAAAAA
Found at i:790779 original size:15 final size:14
Alignment explanation
Indices: 790754--790788 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
790744 ATTTAATAAA
790754 AAAATATTAAATTATT
1 AAAA-ATTAAATT-TT
790770 AAAAATTAAATTTT
1 AAAAATTAAATTTT
790784 AAAAA
1 AAAAA
790789 AAAACAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 8 0.42
16 4 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAAATTAAATTTT
Found at i:790826 original size:10 final size:10
Alignment explanation
Indices: 790794--790902 Score: 51
Period size: 10 Copynumber: 10.0 Consensus size: 10
790784 AAAAAAAAAC
790794 AAATTTAAAT
1 AAATTTAAAT
790804 AATATTAAATAAAT
1 AA-ATT---TAAAT
790818 AAATTTAAAT
1 AAATTTAAAT
* **
790828 GAGCTTAAAT
1 AAATTTAAAT
* *
790838 -AATATGAAT
1 AAATTTAAAT
790847 AAATTTAAAT
1 AAATTTAAAT
790857 AAAATTTAAAATTT
1 -AAATTT-AAA--T
*
790871 ATATTTAAAATT
1 AAATTT-AAA-T
790883 AAA-TTAAATT
1 AAATTTAAA-T
790893 AAATTTAAAT
1 AAATTTAAAT
790903 TTATATAAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
9 5 0.06
10 30 0.38
11 16 0.21
12 7 0.09
13 12 0.15
14 8 0.10
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (10 bp):
AAATTTAAAT
Found at i:790835 original size:24 final size:24
Alignment explanation
Indices: 790794--790839 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
790784 AAAAAAAAAC
*
790794 AAATTTAAATAATATTAAATAAAT
1 AAATTTAAATAAGATTAAATAAAT
* *
790818 AAATTTAAATGAGCTTAAATAA
1 AAATTTAAATAAGATTAAATAA
790840 TATGAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATTTAAATAAGATTAAATAAAT
Found at i:790855 original size:6 final size:6
Alignment explanation
Indices: 790846--790905 Score: 63
Period size: 6 Copynumber: 10.3 Consensus size: 6
790836 ATAATATGAA
* * *
790846 TAAATT TAAA-T AAAATT TAAAATT TATATT TAAAAT TAAA-T TAAA-T
1 TAAATT TAAATT TAAATT T-AAATT TAAATT TAAATT TAAATT TAAATT
790892 TAAATT TAAATT TA
1 TAAATT TAAATT TA
790906 TATAAATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
5 14 0.30
6 26 0.57
7 6 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
TAAATT
Found at i:790861 original size:24 final size:23
Alignment explanation
Indices: 790794--790861 Score: 55
Period size: 29 Copynumber: 2.7 Consensus size: 23
790784 AAAAAAAAAC
*
790794 AAATTTAAATAATATTAAATAAAT
1 AAATTTAAATAA-AATAAATAAAT
*
790818 AAATTTAAATGAGCTTAAATAATATGAAT
1 AAATTTAAAT-A----AAATAA-ATAAAT
790847 AAATTTAAATAAAAT
1 AAATTTAAATAAAAT
790862 TTAAAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
24 14 0.39
25 1 0.03
28 5 0.14
29 16 0.44
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (23 bp):
AAATTTAAATAAAATAAATAAAT
Found at i:790863 original size:11 final size:11
Alignment explanation
Indices: 790846--790903 Score: 64
Period size: 11 Copynumber: 5.1 Consensus size: 11
790836 ATAATATGAA
790846 TAAATTTAAAT
1 TAAATTTAAAT
*
790857 AAAATTTAAAATT
1 TAAATTT-AAA-T
*
790870 TATATTTAAAAT
1 TAAATTT-AAAT
790882 TAAA-TTAAAT
1 TAAATTTAAAT
790892 TAAATTTAAAT
1 TAAATTTAAAT
790903 T
1 T
790904 TATATAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 8 0.20
11 15 0.38
12 7 0.17
13 10 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TAAATTTAAAT
Found at i:790919 original size:26 final size:26
Alignment explanation
Indices: 790882--790934 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
790872 TATTTAAAAT
790882 TAAATTAAATTAA-ATTTAAATTTATA
1 TAAATTAAATTAATA-TTAAATTTATA
*
790908 TAAA-TAATATTAATATTATATTTATA
1 TAAATTAA-ATTAATATTAAATTTATA
790934 T
1 T
790935 TCAATTCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 3 0.12
26 20 0.83
27 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TAAATTAAATTAATATTAAATTTATA
Found at i:793829 original size:50 final size:50
Alignment explanation
Indices: 793770--794057 Score: 441
Period size: 50 Copynumber: 5.8 Consensus size: 50
793760 TATACTTAGA
* * *
793770 GTCAACAATTATGGTCACCTTTTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
*
793820 GTCAACAATTATGGCCACCTCTCTCTATTATCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* * *
793870 GTCAACAATTATGGTCACCCCTCTCTATTGTCAAAAGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
793920 GTCAACAATTACGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* * * * *
793970 GTCAACAATTACGACCATCTCTCTTTATTATCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
*
794020 GTCAACAATTGTGGCCACCTCTCTCTATTGTCAAAGGT
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGT
794058 ACTTTCCACC
Statistics
Matches: 214, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 214 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:798101 original size:50 final size:50
Alignment explanation
Indices: 798042--798323 Score: 339
Period size: 50 Copynumber: 5.6 Consensus size: 50
798032 ACTTAGAGTC
** * * *
798042 AACAATTATGACCACATTTCTCTATTATCAAAGGTTGGTGAAGAACCGTT
1 AACAATTATGGTCACCTCTCTCTATTATCAAAGGTTGGTGAAGAATCGTT
* * * * * *
798092 AACAATTATGGCCACATTTCTCTATTGTCAAAGGTTGATGAAGAATCGTC
1 AACAATTATGGTCACCTCTCTCTATTATCAAAGGTTGGTGAAGAATCGTT
*
798142 AACAATTATGGTCACCTCTCTTTATTATCAAAGGTTGGTGAAGAATCGTT
1 AACAATTATGGTCACCTCTCTCTATTATCAAAGGTTGGTGAAGAATCGTT
* * * *
798192 AACAATTATGGTCACCTCCCTCTATTGTTAAAGGTCGGTGAAGAATCGTT
1 AACAATTATGGTCACCTCTCTCTATTATCAAAGGTTGGTGAAGAATCGTT
* * * * *
798242 AACAATTACGGTCACCTCTCTCTATTATCAAAGATTGATGAAGAATTGTC
1 AACAATTATGGTCACCTCTCTCTATTATCAAAGGTTGGTGAAGAATCGTT
* * * *
798292 AACAATTATGATCACCTCCCTTTATTGTCAAA
1 AACAATTATGGTCACCTCTCTCTATTATCAAA
798324 AGTATTTTTC
Statistics
Matches: 201, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 201 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (50 bp):
AACAATTATGGTCACCTCTCTCTATTATCAAAGGTTGGTGAAGAATCGTT
Found at i:798215 original size:100 final size:100
Alignment explanation
Indices: 798039--798323 Score: 381
Period size: 100 Copynumber: 2.9 Consensus size: 100
798029 TATACTTAGA
** * * * *
798039 GTCAACAATTATGACCACATTTCTCTATTATCAAAGGTTGGTGAAGAACCGTTAACAATTATGGC
1 GTCAACAATTATGGTCACCTCTCTCTATTATCAAAGGTTGGTGAAGAATCGTTAACAATTATGGT
* ** *
798104 CACATTTCTCTATTGTCAAAGGTTGATGAAGAATC
66 CACCTCCCTCTATTGTCAAAGGTCGATGAAGAATC
*
798139 GTCAACAATTATGGTCACCTCTCTTTATTATCAAAGGTTGGTGAAGAATCGTTAACAATTATGGT
1 GTCAACAATTATGGTCACCTCTCTCTATTATCAAAGGTTGGTGAAGAATCGTTAACAATTATGGT
* *
798204 CACCTCCCTCTATTGTTAAAGGTCGGTGAAGAATC
66 CACCTCCCTCTATTGTCAAAGGTCGATGAAGAATC
* * * * * * *
798239 GTTAACAATTACGGTCACCTCTCTCTATTATCAAAGATTGATGAAGAATTGTCAACAATTATGAT
1 GTCAACAATTATGGTCACCTCTCTCTATTATCAAAGGTTGGTGAAGAATCGTTAACAATTATGGT
*
798304 CACCTCCCTTTATTGTCAAA
66 CACCTCCCTCTATTGTCAAA
798324 AGTATTTTTC
Statistics
Matches: 162, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 162 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (100 bp):
GTCAACAATTATGGTCACCTCTCTCTATTATCAAAGGTTGGTGAAGAATCGTTAACAATTATGGT
CACCTCCCTCTATTGTCAAAGGTCGATGAAGAATC
Found at i:803266 original size:2 final size:2
Alignment explanation
Indices: 803259--803283 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
803249 CATGCAAGTG
803259 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
803284 AACATGCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:806529 original size:2 final size:2
Alignment explanation
Indices: 806522--806566 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
806512 ATGCATGTAC
* *
806522 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
806564 AT A
1 AT A
806567 CTTTTGCCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:807229 original size:19 final size:17
Alignment explanation
Indices: 807176--807230 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 17
807166 AAAAATTAAA
*
807176 TTTAATTAATTTATGTGATT
1 TTTAATTTATTTAT-T-A-T
807196 TTTAATTTATTTATTAT
1 TTTAATTTATTTATTAT
807213 TTTAATATTATTTTATTA
1 TTTAAT-TTA-TTTATTA
807231 GTTGAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
17 7 0.22
18 4 0.12
19 8 0.25
20 13 0.41
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAATTTATTTATTAT
Found at i:807339 original size:23 final size:23
Alignment explanation
Indices: 807309--807354 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
807299 TTTTATATAT
807309 TTTAAATATGT-ATATATATTAAA
1 TTTAAATATGTAATA-ATATTAAA
*
807332 TTTAAATATTTAATAATATTAAA
1 TTTAAATATGTAATAATATTAAA
807355 ATATATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTAAATATGTAATAATATTAAA
Found at i:807366 original size:20 final size:18
Alignment explanation
Indices: 807343--807431 Score: 56
Period size: 19 Copynumber: 4.8 Consensus size: 18
807333 TTAAATATTT
807343 AATAATATTAAAATATATAA
1 AATAA-ATTAAAATA-ATAA
*
807363 AATAAATTTAAATAATAA
1 AATAAATTAAAATAATAA
* ** *
807381 ATTTAAATATTTAATATATTA
1 A-ATAAAT-TAAAATA-ATAA
**
807402 TTTAAATTAAAAT--TAA
1 AATAAATTAAAATAATAA
807418 AATAAATTAAAATA
1 AATAAATTAAAATA
807432 TCAAATATTT
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
16 13 0.24
18 5 0.09
19 17 0.31
20 17 0.31
21 3 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AATAAATTAAAATAATAA
Found at i:807379 original size:13 final size:13
Alignment explanation
Indices: 807363--807389 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
807353 AAATATATAA
807363 AATAAATTTAAAT
1 AATAAATTTAAAT
807376 AATAAATTTAAAT
1 AATAAATTTAAAT
807389 A
1 A
807390 TTTAATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATAAATTTAAAT
Found at i:807379 original size:33 final size:33
Alignment explanation
Indices: 807342--807432 Score: 96
Period size: 32 Copynumber: 2.8 Consensus size: 33
807332 TTTAAATATT
807342 TAATAATATTAAAATATATAAAATA-AATTTAAA
1 TAATAA-ATTAAAATATATAAAATATAATTTAAA
* * * *
807375 TAATAAATTTAAATATTTAATATATTATTTAAA
1 TAATAAATTAAAATATATAAAATATAATTTAAA
* *
807408 TTA-AAATTAAAATAAATTAAAATAT
1 TAATAAATTAAAATATA-TAAAATAT
807433 CAAATATTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
32 25 0.53
33 22 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
TAATAAATTAAAATATATAAAATATAATTTAAA
Found at i:807424 original size:49 final size:52
Alignment explanation
Indices: 807319--807447 Score: 137
Period size: 50 Copynumber: 2.6 Consensus size: 52
807309 TTTAAATATG
* *
807319 TATATATATTAAATTTAAATATTTAATA-A-TATTAAAATATATAAAATAAA
1 TATAAATAATAAATTTAAATATTTAATATATTATTAAAATATATAAAATAAA
* * *
807369 TTTAAATAATAAATTTAAATATTTAATATATTATTTAAAT-TA-AAATTAAA
1 TATAAATAATAAATTTAAATATTTAATATATTATTAAAATATATAAAATAAA
* *
807419 -ATAAATTA-AAATATCAAATATTTAA-ATAT
1 TATAAATAATAAAT-TTAAATATTTAATATAT
807448 CTTTATACGA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
48 8 0.12
49 17 0.25
50 32 0.47
51 3 0.04
52 8 0.12
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.43
Consensus pattern (52 bp):
TATAAATAATAAATTTAAATATTTAATATATTATTAAAATATATAAAATAAA
Found at i:814189 original size:2 final size:2
Alignment explanation
Indices: 814182--814215 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
814172 ATTGTTCTTC
814182 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
814216 TCCCCTTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:816123 original size:2 final size:2
Alignment explanation
Indices: 816116--816157 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
816106 AATTACATAA
* *
816116 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
816158 TAAACCTGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:820376 original size:20 final size:20
Alignment explanation
Indices: 820351--820389 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
820341 TTATTTTTTT
820351 AAATATATAAAA-ATATTTAA
1 AAATAT-TAAAATATATTTAA
820371 AAATATTAAAATATATTTA
1 AAATATTAAAATATATTTA
820390 TATTAAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATATTAAAATATATTTAA
Found at i:820387 original size:10 final size:10
Alignment explanation
Indices: 820351--820387 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
820341 TTATTTTTTT
*
820351 AAATATATAA
1 AAATATATTA
820361 AAATAT-TTA
1 AAATATATTA
820370 AAA-ATATTA
1 AAATATATTA
820379 AAATATATT
1 AAATATATT
820388 TATATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
8 2 0.08
9 11 0.46
10 11 0.46
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAATATATTA
Found at i:820405 original size:17 final size:16
Alignment explanation
Indices: 820373--820410 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
820363 ATATTTAAAA
*
820373 ATATTAAAATATATTT
1 ATATTAAAACATATTT
820389 ATATTAAATACATATTT
1 ATATTAAA-ACATATTT
820406 ATATT
1 ATATT
820411 TCACAATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATTAAAACATATTT
Found at i:823814 original size:19 final size:22
Alignment explanation
Indices: 823769--823814 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
823759 AGATGTGTAC
*
823769 GTATTATTTTTGGTTATAGTTT
1 GTATTATTTTTGCTTATAGTTT
*
823791 TTATTATTTTT-CTTAT-G-TT
1 GTATTATTTTTGCTTATAGTTT
823810 GTATT
1 GTATT
823815 TTGTTGTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.29
20 1 0.05
21 4 0.19
22 10 0.48
ACGTcount: A:0.17, C:0.02, G:0.13, T:0.67
Consensus pattern (22 bp):
GTATTATTTTTGCTTATAGTTT
Found at i:825909 original size:2 final size:2
Alignment explanation
Indices: 825902--825940 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
825892 TACCCTTTAG
*
825902 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
825941 GCTTGTTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:826131 original size:29 final size:29
Alignment explanation
Indices: 826099--826154 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
826089 ATTGTTTAAT
826099 ATTAAATTTT-ACTTTTACTAACTTTTACC
1 ATTAAATTTTCACTTTTACTAA-TTTTACC
* *
826128 ATTATATTTTCACTTTTATTAATTTTA
1 ATTAAATTTTCACTTTTACTAATTTTA
826155 TGACAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (29 bp):
ATTAAATTTTCACTTTTACTAATTTTACC
Found at i:826389 original size:21 final size:21
Alignment explanation
Indices: 826360--826401 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
826350 AACCATTGAA
*
826360 ATAATATTAT-ATTATTATATT
1 ATAAGATTATAATTA-TATATT
826381 ATAAGATTATAATTATATATT
1 ATAAGATTATAATTATATATT
826402 TTTTTAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
ATAAGATTATAATTATATATT
Found at i:826720 original size:16 final size:16
Alignment explanation
Indices: 826699--826755 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
826689 TGAGTTTGGA
*
826699 TCATTTCGAGTTCGGG
1 TCATTTCGGGTTCGGG
* *
826715 TTATTTCGGGTTCGGA
1 TCATTTCGGGTTCGGG
*
826731 TCATTTTGGGTTCGGG
1 TCATTTCGGGTTCGGG
826747 TCATTTCGG
1 TCATTTCGG
826756 ATTTAGGTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.11, C:0.16, G:0.32, T:0.42
Consensus pattern (16 bp):
TCATTTCGGGTTCGGG
Found at i:827135 original size:20 final size:19
Alignment explanation
Indices: 827110--827166 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 19
827100 TTTTCACAAT
827110 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTT-A
*
827130 TTGTATTGATACATTGCTTA
1 TTGTATCGATACATTG-TTA
827150 TTGTATCGATACATTGT
1 TTGTATCGATACATTGT
827167 ATCGATACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 1 0.03
20 31 0.91
21 2 0.06
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (19 bp):
TTGTATCGATACATTGTTA
Found at i:827167 original size:13 final size:13
Alignment explanation
Indices: 827149--827177 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
827139 TACATTGCTT
827149 ATTGTATCGATAC
1 ATTGTATCGATAC
827162 ATTGTATCGATAC
1 ATTGTATCGATAC
827175 ATT
1 ATT
827178 CAGGCATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:829539 original size:51 final size:50
Alignment explanation
Indices: 829456--829592 Score: 139
Period size: 51 Copynumber: 2.7 Consensus size: 50
829446 TGTCATCTCA
* * * * *
829456 GGGATACTCCAATCTCGGTTTCATTTCCAAAACATCAATTTTTCTTAATTG
1 GGGATACTCCAATC-CGATTTTATTTCCAAAACATCAATTTTCCATAATCG
** * *
829507 GGGATACTCCAACTCCGATTTTATTTTTAAAACACCCATTTTCCATAATCG
1 GGGATACTCCAA-TCCGATTTTATTTCCAAAACATCAATTTTCCATAATCG
* * *
829558 GGGATACTTCAATTTCAATTTTATTTCCAAAACAT
1 GGGATACTCCAA-TCCGATTTTATTTCCAAAACAT
829593 AGACTTTTTA
Statistics
Matches: 69, Mismatches: 16, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
51 67 0.97
52 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (50 bp):
GGGATACTCCAATCCGATTTTATTTCCAAAACATCAATTTTCCATAATCG
Found at i:829658 original size:79 final size:79
Alignment explanation
Indices: 829557--829726 Score: 233
Period size: 79 Copynumber: 2.2 Consensus size: 79
829547 TTCCATAATC
*
829557 GGGGATACTTCAATTTCAATTTTATTTCCAAAAC-ATAGACTTTTT-ACAATCGAGG-ATACTCC
1 GGGGATACTCCAATTTCAATTTTATTTCCAAAACAAT-GA-TTTTTCACAATC-AGGAATACTCC
829619 AACCTCGTTA-TTTCTGA
63 AACCTCGTTATTTTC-GA
* * *
829636 GGGGATACTCCAATTTCGATTTTATTTCTAAATCAATGATTTTTCACAATCAGGAATACTCCAAC
1 GGGGATACTCCAATTTCAATTTTATTTCCAAAACAATGATTTTTCACAATCAGGAATACTCCAAC
829701 CTCGTTATTTTCGA
66 CTCGTTATTTTCGA
829715 GGGGATA-TCCAA
1 GGGGATACTCCAA
829727 CCCCGTTATT
Statistics
Matches: 83, Mismatches: 4, Indels: 9
0.86 0.04 0.09
Matches are distributed among these distances:
78 13 0.16
79 64 0.77
80 6 0.07
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (79 bp):
GGGGATACTCCAATTTCAATTTTATTTCCAAAACAATGATTTTTCACAATCAGGAATACTCCAAC
CTCGTTATTTTCGA
Found at i:831453 original size:16 final size:16
Alignment explanation
Indices: 831432--831469 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
831422 ATTGTCCGGG
*
831432 TCATTTCGGGATCGGA
1 TCATTTCAGGATCGGA
*
831448 TCATTTCAGGTTCGGA
1 TCATTTCAGGATCGGA
831464 TCATTT
1 TCATTT
831470 TGAATTCAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.39
Consensus pattern (16 bp):
TCATTTCAGGATCGGA
Found at i:835933 original size:8 final size:8
Alignment explanation
Indices: 835920--835969 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
835910 CACTAACATA
835920 ATATAAAT
1 ATATAAAT
835928 ATATAAAT
1 ATATAAAT
835936 ATATAAA-
1 ATATAAAT
*
835943 ACTATATAT
1 A-TATAAAT
835952 AATATAAAT
1 -ATATAAAT
*
835961 -TATTAAT
1 ATATAAAT
835968 AT
1 AT
835970 TTTAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
7 7 0.20
8 21 0.60
9 6 0.17
10 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATAAAT
Found at i:838776 original size:3 final size:3
Alignment explanation
Indices: 838768--838804 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
838758 AAAAATATGG
838768 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
838805 GTAAAGAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:840923 original size:2 final size:2
Alignment explanation
Indices: 840916--840967 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
840906 AAATACATAC
* *
840916 AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
840958 AT AT AT AT AT
1 AT AT AT AT AT
840968 TATTCACAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:845592 original size:2 final size:2
Alignment explanation
Indices: 845580--845610 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
845570 TTTGAAAATG
*
845580 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
845611 TATTAAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:845921 original size:21 final size:22
Alignment explanation
Indices: 845887--845927 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
845877 AAATTAAAAT
845887 TAAAATATTATAATAAATTATG
1 TAAAATATTATAATAAATTATG
*
845909 TAAAATA-TATAATGAATTA
1 TAAAATATTATAATAAATTA
845928 AAATATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (22 bp):
TAAAATATTATAATAAATTATG
Found at i:845965 original size:20 final size:20
Alignment explanation
Indices: 845937--845981 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
845927 AAAATATGAT
* *
845937 ATAAATAAATTATGAAAAGA
1 ATAATTAAAATATGAAAAGA
* *
845957 ATAATTAAAATATGATACGA
1 ATAATTAAAATATGAAAAGA
845977 ATAAT
1 ATAAT
845982 AATATCAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (20 bp):
ATAATTAAAATATGAAAAGA
Found at i:846033 original size:33 final size:33
Alignment explanation
Indices: 845989--846092 Score: 102
Period size: 32 Copynumber: 3.1 Consensus size: 33
845979 AATAATATCA
*
845989 ATATAATATAAATATATGAACGTATTAAAATTT
1 ATATAAAATAAATATATGAACGTATTAAAATTT
* * *
846022 ATATAAAATAAAT-TATCAACATATTAAAAATT
1 ATATAAAATAAATATATGAACGTATTAAAATTT
* * *
846054 ATATAAATTTATAATATTTTGAATGTATTAAAAATTT
1 ATATAAA-ATA-AATA-TATGAACGTATT-AAAATTT
846091 AT
1 AT
846093 GAACATAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
32 23 0.41
33 14 0.25
34 3 0.05
36 8 0.14
37 8 0.14
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (33 bp):
ATATAAAATAAATATATGAACGTATTAAAATTT
Found at i:847311 original size:12 final size:13
Alignment explanation
Indices: 847286--847320 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
847276 TAAATAATTT
*
847286 ATTTGTTTAATTA
1 ATTTGTTTACTTA
847299 ATTT-TTTACTTA
1 ATTTGTTTACTTA
847311 ATTTGTTTAC
1 ATTTGTTTAC
847321 ATTATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (13 bp):
ATTTGTTTACTTA
Found at i:847358 original size:46 final size:45
Alignment explanation
Indices: 847264--847380 Score: 164
Period size: 46 Copynumber: 2.5 Consensus size: 45
847254 TAAGTTAAAT
*
847264 TTTGTTTAAATTTAAATAATTTATTTGTTTAATTAATTTTTTACTTAA
1 TTTGTTTACATTTAAAT-ATTTA--TGTTTAATTAATTTTTTACTTAA
847312 TTTGTTTACATTATAAATATTTATGATTTAATT-ATTTTTTACTTAA
1 TTTGTTTACATT-TAAATATTTATG-TTTAATTAATTTTTTACTTAA
*
847358 TTTGTTTACATTTAGATATTTAT
1 TTTGTTTACATTTAAATATTTAT
847381 AAAATTATTA
Statistics
Matches: 65, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
45 10 0.15
46 27 0.42
47 7 0.11
48 16 0.25
49 5 0.08
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (45 bp):
TTTGTTTACATTTAAATATTTATGTTTAATTAATTTTTTACTTAA
Found at i:847395 original size:46 final size:47
Alignment explanation
Indices: 847292--847412 Score: 158
Period size: 46 Copynumber: 2.6 Consensus size: 47
847282 ATTTATTTGT
* *
847292 TTAATTAATTTTTTACTTAATTTGTTTACATTATAAATATTTATGAT
1 TTAATTAATTTTTTACTTAATTTGTTTACATTATAAATATTTATAAA
*
847339 TTAATT-ATTTTTTACTTAATTTGTTTACATT-TAGATATTTATAAAA
1 TTAATTAATTTTTTACTTAATTTGTTTACATTATAAATATTTAT-AAA
* *
847385 TT-ATTAATTTTTTATTTTAATTTCTTTA
1 TTAATTAATTTTTTA-CTTAATTTGTTTA
847413 AAATATAATT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
45 13 0.20
46 36 0.55
47 17 0.26
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.60
Consensus pattern (47 bp):
TTAATTAATTTTTTACTTAATTTGTTTACATTATAAATATTTATAAA
Found at i:849484 original size:30 final size:30
Alignment explanation
Indices: 849450--849512 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
849440 TTATTAATAA
*
849450 ATTTTCGATTTATTTA-ATTGTACTTTATTT
1 ATTTTCGATATATTTACATTGTA-TTTATTT
* * *
849480 ATTTTTGATATATTTACATTTTATTTTTTT
1 ATTTTCGATATATTTACATTGTATTTATTT
849510 ATT
1 ATT
849513 ATAATAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (30 bp):
ATTTTCGATATATTTACATTGTATTTATTT
Found at i:850162 original size:19 final size:19
Alignment explanation
Indices: 850138--850176 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
850128 TGAAACCCAG
*
850138 AATCAAGACGAACCATGAA
1 AATCAACACGAACCATGAA
*
850157 AATCAACACGAACTATGAA
1 AATCAACACGAACCATGAA
850176 A
1 A
850177 TTACAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.21, G:0.13, T:0.13
Consensus pattern (19 bp):
AATCAACACGAACCATGAA
Found at i:851162 original size:69 final size:69
Alignment explanation
Indices: 851081--851217 Score: 265
Period size: 69 Copynumber: 2.0 Consensus size: 69
851071 ATTAAATATC
851081 GTTTAAAACTGAAATGAGATAGAATAAATATTTTAATTATTGCTAAATCGAAATCAAACCTCAGT
1 GTTTAAAACTGAAATGAGATAGAATAAATATTTTAATTATTGCTAAATCGAAATCAAACCTCAGT
851146 TTTG
66 TTTG
*
851150 GTTTAAAACTGAAATGAGATAGAATAAATATTTTAATTATTGCTACATCGAAATCAAACCTCAGT
1 GTTTAAAACTGAAATGAGATAGAATAAATATTTTAATTATTGCTAAATCGAAATCAAACCTCAGT
851215 TTT
66 TTT
851218 TTGGTTTTTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (69 bp):
GTTTAAAACTGAAATGAGATAGAATAAATATTTTAATTATTGCTAAATCGAAATCAAACCTCAGT
TTTG
Found at i:854925 original size:23 final size:24
Alignment explanation
Indices: 854877--854926 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
854867 ATATTTTTTA
* *
854877 TTTTTTAAAACAAATAAAGATCAT
1 TTTTTTAAAACAAATAAACATAAT
*
854901 TTTTTTAAAA-AAA-AAACATAAA
1 TTTTTTAAAACAAATAAACATAAT
854923 TTTT
1 TTTT
854927 GAACTTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 10 0.43
23 3 0.13
24 10 0.43
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (24 bp):
TTTTTTAAAACAAATAAACATAAT
Found at i:855481 original size:14 final size:14
Alignment explanation
Indices: 855457--855492 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
855447 CCATTTCATA
855457 TTTTTTCTTTTT-T
1 TTTTTTCTTTTTCT
855470 TTTTTTCTTTTTCT
1 TTTTTTCTTTTTCT
*
855484 TTCTTTCTT
1 TTTTTTCTT
855493 CTTCATCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTCTTTTTCT
Found at i:856785 original size:32 final size:32
Alignment explanation
Indices: 856736--857273 Score: 891
Period size: 32 Copynumber: 16.8 Consensus size: 32
856726 AAAATGGTGA
* * *
856736 TTTGAAAAGGGTTGCCACTGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
856768 TTTTAAATGGGTTGCCACCGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * * *
856800 TTTTAAATGGGTTGCCACCAACTTCTGGGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
** *
856832 TTTGAAAAAGGTTGCCACCGACTTGTGTAGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
856864 TTTGAAATGGGTTGCCACCTACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
856896 TTT-AGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGA-AATGGGTTGCCACCGACTTGTGTGGGC
856928 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
856960 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
856992 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
857024 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
857056 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
857088 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
857120 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
857152 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
857184 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
857216 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
857248 TTTGAAATGGG-TGCCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
857274 GATTTAAAAG
Statistics
Matches: 481, Mismatches: 23, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
31 14 0.03
32 466 0.97
33 1 0.00
ACGTcount: A:0.16, C:0.19, G:0.34, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:857290 original size:27 final size:27
Alignment explanation
Indices: 857256--857792 Score: 876
Period size: 27 Copynumber: 19.7 Consensus size: 27
857246 GCTTTGAAAT
* *
857256 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
857283 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
857310 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
857337 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
857365 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
857393 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
857420 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
857447 AGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** * *
857474 GAATGCCACGAAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
857501 GGGTGCCACGGAGTTGTGGTCTTAAACA
1 GGGTGCCACGGAGTTGTGGACTTAAA-A
*
857529 GGGATGCCACAGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
857557 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
857584 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
857611 AGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
857638 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
857665 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
857692 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
857720 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
857747 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
857774 GGGTGCCACGGAGTTGTGG
1 GGGTGCCACGGAGTTGTGG
857793 TTGTCGCAAC
Statistics
Matches: 476, Mismatches: 30, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
27 369 0.78
28 86 0.18
29 21 0.04
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.22
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:857534 original size:164 final size:163
Alignment explanation
Indices: 857256--857792 Score: 916
Period size: 164 Copynumber: 3.3 Consensus size: 163
857246 GCTTTGAAAT
* *
857256 GGGTGCCACAGAGTTGTGGA-TTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACA
857320 GAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGG
65 GAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGG
857385 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
129 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
**
857420 GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCAC-G
1 GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG
* * *
857484 AAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAACAGGGATGCCACAGAGTTGTGG
66 -AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGGATGCCACGGAGTTGTGG
857549 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
129 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
857584 GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG
* * * *
857649 AGTTGTGGACTAAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGAC
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGAC
857714 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
131 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
857747 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGG
857793 TTGTCGCAAC
Statistics
Matches: 352, Mismatches: 17, Indels: 9
0.93 0.04 0.02
Matches are distributed among these distances:
163 121 0.34
164 222 0.63
165 9 0.03
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.22
Consensus pattern (163 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGAC
TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:860407 original size:17 final size:17
Alignment explanation
Indices: 860385--860420 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
860375 CATTTCATAT
* *
860385 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTCTTTCTTC
860402 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
860419 TT
1 TT
860421 CATCTTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:861718 original size:32 final size:32
Alignment explanation
Indices: 861663--862137 Score: 772
Period size: 32 Copynumber: 14.8 Consensus size: 32
861653 AAAATGGTGA
* * *
861663 TTTGAAAAGGGTTGCCACTGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
861695 TTTTAAATGGGTTGCCATCGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * * *
861727 TTTTAAATGGGTTACCACCAACTTGTGGGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
**
861759 TTTGAAAAAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
861791 TTTGAAATGGGTTGCCACCTACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
861823 TTT-AGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGA-AATGGGTTGCCACCGACTTGTGTGGGC
861855 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
861887 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
861919 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
861951 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
861983 TTTGAAATGGGTTGCCACCAACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
862015 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
862047 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
862079 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
862111 TTTGGAATGGGTTGCCACCGATTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
862138 AATTTAAAAG
Statistics
Matches: 418, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
31 1 0.00
32 416 1.00
33 1 0.00
ACGTcount: A:0.16, C:0.19, G:0.33, T:0.32
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:862189 original size:27 final size:27
Alignment explanation
Indices: 862123--863021 Score: 1338
Period size: 27 Copynumber: 32.9 Consensus size: 27
862113 TGGAATGGGT
* * * *
862123 TGCCACCGATTTGTGAATTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
862150 ATGCCACGGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
862178 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
862205 ATGCCACGGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
862233 ATGCCACGGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
* *
862261 TGCCACAGAGTTGTGGACTAAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
862288 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * *
862316 TGCCACAGAGTTGTGGACTTAAAAAAGA
1 TGCCACGGAGTTGTGGACTT-AAAAGGG
* *
862344 TGCCACAGAGTTATGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
862371 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
862398 TGCTACGGAGTTGTGGTCTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
862425 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
862452 ATGCCATGGAGTTATGGACTTAAAAGAG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
*
862480 TACCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
862507 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
862534 TGCCACGGAGTTGTGGTA-TTAAAAGGAA
1 TGCCACGGAGTTGTGG-ACTTAAAAGG-G
*
862562 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
862589 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
862616 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
862643 TGCCACGGAGTTGTGGTA-TTAAAAGGAA
1 TGCCACGGAGTTGTGG-ACTTAAAAGG-G
*
862671 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
862698 TGCCACGGAGTTGTGGACTTAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
862725 TGCCACGGAGTTGTGGACTTAAAAGGAA
1 TGCCACGGAGTTGTGGACTTAAAAGG-G
**
862753 TGCCATAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
862780 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
862807 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
862834 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
862861 TGCCACAGAGTTGTGGACTAAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
862888 TACCACGGAGTTGTGGATTTTAAAAGGG
1 TGCCACGGAGTTGTGGA-CTTAAAAGGG
*
862916 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
862943 TACCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
*
862971 TGCCAC--AGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
862996 TGCCACAGAGTTGTGGACTTTAAAAG
1 TGCCACGGAGTTGTGGAC-TTAAAAG
863022 AAAATGCCAC
Statistics
Matches: 798, Mismatches: 57, Indels: 32
0.90 0.06 0.04
Matches are distributed among these distances:
25 14 0.02
26 10 0.01
27 507 0.64
28 267 0.33
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:862334 original size:82 final size:81
Alignment explanation
Indices: 862123--863021 Score: 1365
Period size: 82 Copynumber: 11.0 Consensus size: 81
862113 TGGAATGGGT
* * * * *
862123 TGCCACCGATTTGTGAATTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAG
862188 TTGTGGACTTAAAAGGG
65 TTGTGGACTTAAAAGGG
862205 ATGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGA
1 -TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGA
*
862270 GTTGTGGACTAAAAAGGG
64 GTTGTGGACTTAAAAGGG
* * *
862288 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAAGATGCCACAGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACAGA
*
862353 GTTATGGACTTAAAAGGG
64 GTTGTGGACTTAAAAGGG
* * *
862371 TGCCACGGAGTTGTGGACTTAAAAGGGTGCTACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
862436 TGTGGACTTAAAAGGG
66 TGTGGACTTAAAAGGG
* * * * *
862452 ATGCCATGGAGTTATGGACTTAAAAGAGTACCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 -TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAG
862517 TTGTGGACTTAAAAGGG
65 TTGTGGACTTAAAAGGG
* * *
862534 TGCCACGGAGTTGTGGTA-TTAAAAGGAATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGA
1 TGCCACGGAGTTGTGG-ACTTAAAAGG-GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGA
862598 GTTGTGGACTTAAAAGGG
64 GTTGTGGACTTAAAAGGG
*
862616 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTA-TTAAAAGGAATGCCACAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG-ACTTAAAAGG-GTGCCACAGA
862680 GTTGTGGACTTAAAAGGG
64 GTTGTGGACTTAAAAGGG
* * *
862698 TGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAATGCCATAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG-GTGCCACAGAG
862763 TTGTGGACTTAAAAGGG
65 TTGTGGACTTAAAAGGG
862780 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
862845 TGTGGACTTAAAAGGG
66 TGTGGACTTAAAAGGG
* * * *
862861 TGCCACAGAGTTGTGGACTAAAAAGGGTACCACGGAGTTGTGGATTTTAAAAGGGTGCCACAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACAGAG
862926 TTGTGGACTTAAAAGGG
65 TTGTGGACTTAAAAGGG
* *
862943 TACCACGGAGTTGTGGACTTTAAAAGGGTGCCAC--AGTTGTGGACTTAAAAGGATGCCACAGAG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAG
863006 TTGTGGACTTTAAAAG
65 TTGTGGAC-TTAAAAG
863022 AAAATGCCAC
Statistics
Matches: 755, Mismatches: 49, Indels: 26
0.91 0.06 0.03
Matches are distributed among these distances:
80 26 0.03
81 159 0.21
82 424 0.56
83 146 0.19
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (81 bp):
TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
TGTGGACTTAAAAGGG
Found at i:862474 original size:109 final size:109
Alignment explanation
Indices: 862123--863021 Score: 1371
Period size: 109 Copynumber: 8.2 Consensus size: 109
862113 TGGAATGGGT
* * * *
862123 TGCCACCGATTTGTGAATTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TGCCACAGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
862188 TTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGA
65 TTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGA
* * *
862234 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* **
862299 TGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAAGA
66 TGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGA
* *
862344 TGCCACAGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCTACGGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
*
862409 TGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGA
66 TGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGA
** * * *
862453 TGCCATGGAGTTATGGACTTAAAAGAGTACCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
*
862518 TGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTA-TTAAAAGGAA
66 TGTGGACTTAAAAGGGTGCCACGGAGTTGTGG-ACTTAAAAGGGA
862562 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
*
862627 TGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTA-TTAAAAGGAA
66 TGTGGACTTAAAAGGGTGCCACGGAGTTGTGG-ACTTAAAAGGGA
*
862671 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* **
862736 TGTGGACTTAAAAGGAATGCCATAGAGTTGTGGACTTAAAAGGG-
66 TGTGGACTTAAAAGG-GTGCCACGGAGTTGTGGACTTAAAAGGGA
* *
862780 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
862845 TGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGG-
66 TGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGA
* * * * *
862888 TACCACGGAGTTGTGGATTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTACCACGGAG
1 TGCCACAGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
862953 TTGTGGACTTTAAAAGGGTGCCAC--AGTTGTGGACTTAAAA-GGA
65 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGA
862996 TGCCACAGAGTTGTGGACTTTAAAAG
1 TGCCACAGAGTTGTGGAC-TTAAAAG
863022 AAAATGCCAC
Statistics
Matches: 730, Mismatches: 50, Indels: 19
0.91 0.06 0.02
Matches are distributed among these distances:
107 2 0.00
108 78 0.11
109 446 0.61
110 172 0.24
111 32 0.04
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (109 bp):
TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
TGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGA
Found at i:870866 original size:17 final size:17
Alignment explanation
Indices: 870844--870879 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
870834 CATTTCATAT
* *
870844 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTCTTTCTTC
870861 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
870878 TT
1 TT
870880 CATCTTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:871809 original size:27 final size:27
Alignment explanation
Indices: 871779--872339 Score: 870
Period size: 27 Copynumber: 20.5 Consensus size: 27
871769 GGTGTCTACA
*
871779 GTGGTCTTAAAAGGGTGCCACGGAGTT
1 GTGGACTTAAAAGGGTGCCACGGAGTT
*
871806 GTGGACTTAAAAGGGTGCCACAGAGTT
1 GTGGACTTAAAAGGGTGCCACGGAGTT
* *
871833 GTGGACTAAAAAGGGTGCCACGGAATT
1 GTGGACTTAAAAGGGTGCCACGGAGTT
*
871860 GTGGACTTTAAAAGGGTGCCACAGAGTT
1 GTGGAC-TTAAAAGGGTGCCACGGAGTT
*
871888 GTGGACTTAAAAGGGTGCCACAGAGTT
1 GTGGACTTAAAAGGGTGCCACGGAGTT
871915 GTGGACTTAAAAGGGTGCCACGGAGTT
1 GTGGACTTAAAAGGGTGCCACGGAGTT
871942 GTGGACTTAAAAGGGTGCCACGGAGTT
1 GTGGACTTAAAAGGGTGCCACGGAGTT
*
871969 GTGGTCTTTAAAAGGGTGCCACGGAGTT
1 GTGGAC-TTAAAAGGGTGCCACGGAGTT
871997 GTGGACTTAAAAGGGTGCCACGGAGTT
1 GTGGACTTAAAAGGGTGCCACGGAGTT
872024 GTGGACTTAAAAGGGTGCCACGGAGTT
1 GTGGACTTAAAAGGGTGCCACGGAGTT
872051 GTGGACTTAAAAGGGTGCCACGGAGTT
1 GTGGACTTAAAAGGGTGCCACGGAGTT
*
872078 GTGGACTAAAAAGGGTGCCACGGAGTT
1 GTGGACTTAAAAGGGTGCCACGGAGTT
*
872105 GTGGACTTTAAAAGGGTGCCACAGAGTT
1 GTGGAC-TTAAAAGGGTGCCACGGAGTT
*
872133 GTGGACTTAAAAGAGATGCCACGGAGTT
1 GTGGACTTAAAAG-GGTGCCACGGAGTT
* *
872161 ATGGACTTAAAAGGGTGCCACAGAGTT
1 GTGGACTTAAAAGGGTGCCACGGAGTT
* *
872188 GTGGACTAAAAAGGGTACCACGGAGTT
1 GTGGACTTAAAAGGGTGCCACGGAGTT
* *
872215 GTGGATTTTAAAAGGGTGCCACAGAGTT
1 GTGGA-CTTAAAAGGGTGCCACGGAGTT
872243 GTGGACTTAAAAGGGGTGCCACGGAGTT
1 GTGGACTTAAAA-GGGTGCCACGGAGTT
* *
872271 GTGGATTTTAAAAGGGTGCCACAGAGTT
1 GTGGA-CTTAAAAGGGTGCCACGGAGTT
* *
872299 GTGGACTTAAAAGGATGCCACAGAGTT
1 GTGGACTTAAAAGGGTGCCACGGAGTT
872326 GTGGACTTTAAAAG
1 GTGGAC-TTAAAAG
872340 AAAATGCCAC
Statistics
Matches: 493, Mismatches: 33, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
27 320 0.65
28 167 0.34
29 6 0.01
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (27 bp):
GTGGACTTAAAAGGGTGCCACGGAGTT
Found at i:871892 original size:55 final size:54
Alignment explanation
Indices: 871779--872339 Score: 870
Period size: 55 Copynumber: 10.2 Consensus size: 54
871769 GGTGTCTACA
* * *
871779 GTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTT
1 GTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
* * * *
871833 GTGGACTAAAAAGGGTGCCACGGAATTGTGGACTTTAAAAGGGTGCCACAGAGTT
1 GTGGACTTAAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTT
871888 GTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
1 GTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
* *
871942 GTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTTAAAAGGGTGCCACGGAGTT
1 GTGGACTTAAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTT
*
871997 GTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
1 GTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
* *
872051 GTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACGGAGTT
1 GTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
*
872105 GTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTT
1 GTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTT
* * *
872161 ATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGGTACCACGGAGTT
1 GTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
*
872215 GTGGATTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGGTGCCACGGAGTT
1 GTGGA-CTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA-GGGTGCCACGGAGTT
* * *
872271 GTGGATTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTT
1 GTGGA-CTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
872326 GTGGACTTTAAAAG
1 GTGGAC-TTAAAAG
872340 AAAATGCCAC
Statistics
Matches: 475, Mismatches: 25, Indels: 13
0.93 0.05 0.03
Matches are distributed among these distances:
54 177 0.37
55 226 0.48
56 72 0.15
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (54 bp):
GTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
Found at i:871927 original size:82 final size:81
Alignment explanation
Indices: 871779--872339 Score: 879
Period size: 82 Copynumber: 6.8 Consensus size: 81
871769 GGTGTCTACA
* *
871779 GTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAA
1 GTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAA
*
871844 AGGGTGCCACGGAATT
66 AGGGTGCCACGGAGTT
*
871860 GTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAA
1 GTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAA
871925 AAGGGTGCCACGGAGTT
65 AAGGGTGCCACGGAGTT
* *
871942 GTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAA
1 GTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTAA
872007 AAGGGTGCCACGGAGTT
65 AAGGGTGCCACGGAGTT
* *
872024 GTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAA
1 GTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAA
872089 AGGGTGCCACGGAGTT
66 AGGGTGCCACGGAGTT
* * * *
872105 GTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTA
1 GTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACAGAGTTGTGGACTTA
*
872170 AAAGGGTGCCACAGAGTT
64 AAAGGGTGCCACGGAGTT
* * *
872188 GTGGACTAAAAAGGGTACCACGGAGTTGTGGATTTTAAAAGGGTGCCACAGAGTTGTGGACTTAA
1 GTGGACTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACAGAGTTGTGGACTTAA
872253 AAGGGGTGCCACGGAGTT
65 AA-GGGTGCCACGGAGTT
* * *
872271 GTGGATTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTA
1 GTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGAC-TTA
872336 AAAG
64 AAAG
872340 AAAATGCCAC
Statistics
Matches: 444, Mismatches: 28, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
81 83 0.19
82 236 0.53
83 96 0.22
84 29 0.07
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (81 bp):
GTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAA
AGGGTGCCACGGAGTT
Found at i:873410 original size:15 final size:15
Alignment explanation
Indices: 873390--873419 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
873380 AGGGTGAAAA
873390 GGTTTTTTTTTTTTT
1 GGTTTTTTTTTTTTT
873405 GGTTTTTTTTTTTTT
1 GGTTTTTTTTTTTTT
873420 TTAGGATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (15 bp):
GGTTTTTTTTTTTTT
Found at i:880193 original size:17 final size:17
Alignment explanation
Indices: 880171--880206 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
880161 CATTTCATAT
* *
880171 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTCTTTCTTC
880188 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
880205 TT
1 TT
880207 CATCTTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:881355 original size:2 final size:2
Alignment explanation
Indices: 881348--881373 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
881338 TGAAGTAGAT
881348 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
881374 CTTCTCACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:883942 original size:21 final size:21
Alignment explanation
Indices: 883913--883964 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
883903 ATTATTTAAA
*
883913 TAATA-AAAATATTTAA-ATT
1 TAATATAAAATATATAATATT
*
883932 TAATTATAAAAT-TATAATTTT
1 TAA-TATAAAATATATAATATT
883953 TAATATAAAATA
1 TAATATAAAATA
883965 ATATTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 3 0.11
20 14 0.52
21 10 0.37
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATATAAAATATATAATATT
Found at i:883970 original size:19 final size:21
Alignment explanation
Indices: 883930--883973 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
883920 AATATTTAAA
*
883930 TTTAATTATAAAATTATAATT
1 TTTAATTATAAAATAATAATT
883951 TTTAA-TATAAAATAAT-ATT
1 TTTAATTATAAAATAATAATT
883970 TTTA
1 TTTA
883974 TGTATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 10 0.45
21 5 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTAATTATAAAATAATAATT
Found at i:885609 original size:15 final size:14
Alignment explanation
Indices: 885589--885618 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
885579 CATATATATT
885589 AAAAATTATAAGTAA
1 AAAAATTATAA-TAA
885604 AAAAATTATAATAA
1 AAAAATTATAATAA
885618 A
1 A
885619 GAGCGTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AAAAATTATAATAA
Found at i:890265 original size:20 final size:20
Alignment explanation
Indices: 890227--890281 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
890217 TATTTTTATG
*
890227 TATCATA-ATTATATTTAAAA
1 TATCATATATTA-ATATAAAA
*
890247 TATCATATATTAATATAAAT
1 TATCATATATTAATATAAAA
* *
890267 TATGATATGTTAATA
1 TATCATATATTAATA
890282 ATTTATAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 26 0.87
21 4 0.13
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (20 bp):
TATCATATATTAATATAAAA
Found at i:892648 original size:2 final size:2
Alignment explanation
Indices: 892641--892669 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
892631 TCAGAAAAAC
892641 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
892670 AATGTCGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:893023 original size:2 final size:2
Alignment explanation
Indices: 893016--893054 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
893006 AAAAATTCCA
893016 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
893055 ACAAAAGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:894428 original size:21 final size:19
Alignment explanation
Indices: 894378--894463 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 19
894368 AGATTTAATA
894378 ATTTAATA-ATTTATATTAT
1 ATTTAATATATTT-TATTAT
894397 ATTT-ATATATTTTATTAT
1 ATTTAATATATTTTATTAT
**
894415 ATTATAAT-TATATTTAAAAT
1 ATT-TAATATAT-TTTATTAT
*
894435 ATTT-ATAT-TTATATTA-
1 ATTTAATATATTTTATTAT
894451 ATTTTAATATATT
1 A-TTTAATATATT
894464 AATAATTTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
16 1 0.02
17 7 0.13
18 19 0.35
19 16 0.30
20 11 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTAATATATTTTATTAT
Found at i:894442 original size:6 final size:6
Alignment explanation
Indices: 894386--894480 Score: 56
Period size: 6 Copynumber: 15.3 Consensus size: 6
894376 TAATTTAATA
* *
894386 ATTTAT A-TTAT ATTTAT ATATTTT A-TTAT A-TTAT AATTAT ATTTAAAAT
1 ATTTAT ATTTAT ATTTAT AT-TTAT ATTTAT ATTTAT ATTTAT ATTT---AT
*
894435 ATTTAT ATTTAT ATTAAT -TTTAAT ATATTAAT AATTTAT A-TTAT AT
1 ATTTAT ATTTAT ATTTAT ATTT-AT AT-TT-AT -ATTTAT ATTTAT AT
894481 AAATTTTAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
5 21 0.29
6 30 0.41
7 7 0.10
8 7 0.10
9 8 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (6 bp):
ATTTAT
Found at i:894461 original size:56 final size:57
Alignment explanation
Indices: 894349--894463 Score: 157
Period size: 56 Copynumber: 2.0 Consensus size: 57
894339 CCGCATCCAG
894349 TTTTATTATCATTATAATTAGATTTAATAATTTAATAATTTATATTATATTTATATA
1 TTTTATTATCATTATAATTAGATTTAATAATTTAATAATTTATATTATATTTATATA
* *
894406 TTTTATTAT-ATTATAATTATATTTAA-AATATTTAT-ATTTATATTA-ATTTTAATATA
1 TTTTATTATCATTATAATTAGATTTAATAAT-TTAATAATTTATATTATA-TTT-ATATA
894462 TT
1 TT
894464 AATAATTTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
54 1 0.02
55 16 0.30
56 27 0.51
57 9 0.17
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (57 bp):
TTTTATTATCATTATAATTAGATTTAATAATTTAATAATTTATATTATATTTATATA
Found at i:894479 original size:32 final size:33
Alignment explanation
Indices: 894388--894489 Score: 100
Period size: 32 Copynumber: 3.0 Consensus size: 33
894378 ATTTAATAAT
* * *
894388 TTATATT-ATATTTATATATTTTATTATATTATAA
1 TTATATTAATAATT-TATATTATATTA-ATTTTAA
*
894422 TTATATTTAAAATATTTATATTTATATTAATTTTAA
1 TTATA-TTAATA-ATTTATA-TTATATTAATTTTAA
*
894458 -TATATTAATAATTTATATTATATAAATTTTAA
1 TTATATTAATAATTTATATTATATTAATTTTAA
894490 AAATATATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
32 14 0.24
33 7 0.12
34 10 0.17
35 6 0.10
36 12 0.21
37 9 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (33 bp):
TTATATTAATAATTTATATTATATTAATTTTAA
Found at i:894480 original size:20 final size:20
Alignment explanation
Indices: 894380--894481 Score: 63
Period size: 21 Copynumber: 5.0 Consensus size: 20
894370 ATTTAATAAT
894380 TTAATAATTTATATTATAT-
1 TTAATAATTTATATTATATA
894399 TT-ATATATTT-TATTATAT-
1 TTAATA-ATTTATATTATATA
894417 TATAATTATATTTAAAATATT-TATA
1 T-TAA-TA-ATTT---ATATTATATA
* * *
894442 TTTAT-ATTAATTTTAATATA
1 TTAATAATTTATATT-ATATA
894462 TTAATAATTTATATTATATA
1 TTAATAATTTATATTATATA
894482 AATTTTAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 23
0.69 0.06 0.24
Matches are distributed among these distances:
18 16 0.25
19 7 0.11
20 14 0.22
21 17 0.26
23 1 0.02
24 5 0.08
25 5 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTAATAATTTATATTATATA
Found at i:894485 original size:15 final size:15
Alignment explanation
Indices: 894393--894486 Score: 54
Period size: 15 Copynumber: 6.1 Consensus size: 15
894383 ATAATTTATA
*
894393 TTATATT-TATATAT
1 TTATATTATATAAAT
894407 TT-TATTATATTATAA-
1 TTATATTATA-TA-AAT
*
894422 TTATATT-TAAAATAT
1 TTATATTATATAA-AT
*
894437 TTATATTTATATTAAT
1 TTATA-TTATATAAAT
*
894453 TT-TAATATATTAATAAT
1 TTATATTATA-T-A-AAT
894470 TTATATTATATAAAT
1 TTATATTATATAAAT
894485 TT
1 TT
894487 TAAAAATATA
Statistics
Matches: 61, Mismatches: 7, Indels: 23
0.67 0.08 0.25
Matches are distributed among these distances:
13 5 0.08
14 10 0.16
15 19 0.31
16 12 0.20
17 9 0.15
18 6 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATTATATAAAT
Found at i:894639 original size:17 final size:16
Alignment explanation
Indices: 894627--894659 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
894617 ATTTTATACT
894627 TTAAA-TATATTTATA
1 TTAAATTATATTTATA
894642 TTAAATTTATATTTATA
1 TTAAA-TTATATTTATA
894659 T
1 T
894660 CTAATATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
17 11 0.69
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAAATTATATTTATA
Found at i:894675 original size:19 final size:17
Alignment explanation
Indices: 894632--894669 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 17
894622 ATACTTTAAA
894632 TATATTTATATTAAATT
1 TATATTTATATTAAATT
894649 TATATTTATATCTAATATT
1 TATATTTATAT-TAA-ATT
894668 TA
1 TA
894670 ACTTTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
18 3 0.16
19 5 0.26
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TATATTTATATTAAATT
Found at i:895846 original size:15 final size:15
Alignment explanation
Indices: 895826--895870 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
895816 AACCCAAAAC
*
895826 GATGATTATGATAAT
1 GATGATGATGATAAT
* *
895841 GATGATGATAATAAC
1 GATGATGATGATAAT
*
895856 AATGATGATGATAAT
1 GATGATGATGATAAT
895871 AATAATAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.33
Consensus pattern (15 bp):
GATGATGATGATAAT
Found at i:895849 original size:18 final size:18
Alignment explanation
Indices: 895838--895872 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
895828 TGATTATGAT
895838 AATGATGATGATAATAAC
1 AATGATGATGATAATAAC
895856 AATGATGATGATAATAA
1 AATGATGATGATAATAA
895873 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (18 bp):
AATGATGATGATAATAAC
Found at i:895872 original size:3 final size:3
Alignment explanation
Indices: 895866--895908 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
895856 AATGATGATG
895866 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
895909 AAGAGTTTGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:896197 original size:3 final size:3
Alignment explanation
Indices: 896185--896223 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
896175 AGAAACAACT
896185 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
896224 CTGCTCCAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:896519 original size:2 final size:2
Alignment explanation
Indices: 896514--896538 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
896504 ACATATATGC
896514 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
896539 CACTCCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:897252 original size:20 final size:20
Alignment explanation
Indices: 897227--897274 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
897217 TATTGTAACG
* * *
897227 TGTCAAATGTGAATTCGATA
1 TGTCAAATATGAATCCAATA
897247 TGTCAAATATGAATCCAATA
1 TGTCAAATATGAATCCAATA
*
897267 TGTTAAAT
1 TGTCAAAT
897275 TTACATTGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (20 bp):
TGTCAAATATGAATCCAATA
Found at i:898255 original size:28 final size:29
Alignment explanation
Indices: 898219--898282 Score: 96
Period size: 28 Copynumber: 2.2 Consensus size: 29
898209 TAGAATGGTG
*
898219 TTAAAATGCATATAATTACATAATAA-TTC
1 TTAAAATGCATAAAATTACATAA-AAGTTC
898248 -TAAAATGCATAAAATTACATAAAAGTTC
1 TTAAAATGCATAAAATTACATAAAAGTTC
898276 TTAAAAT
1 TTAAAAT
898283 ATAATAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 2 0.06
28 24 0.75
29 6 0.19
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (29 bp):
TTAAAATGCATAAAATTACATAAAAGTTC
Found at i:898436 original size:58 final size:58
Alignment explanation
Indices: 898246--898437 Score: 176
Period size: 58 Copynumber: 3.3 Consensus size: 58
898236 ACATAATAAT
* * *
898246 TCTAAAATGCATAAAATTACATAAA-AGTTCTTAAAATATAATAAATTATTAAAATGAC
1 TCTAAAATGCATAAAATTGCATAAATAG-TCTTAAACTATAACAAATTATTAAAATGAC
* * ** * * *
898304 TTTATAATATATAAAATTGCATAAATAG-CTTTCAAAC-AT-GCTAAATTACTAAAATAAC
1 TCTAAAATGCATAAAATTGCATAAATAGTC-TT-AAACTATAAC-AAATTATTAAAATGAC
* * ** *
898362 TTTAAAACGCACGAAATTGCATAAATAGTCTTAGACTATAACAAATTATTAAAATGAC
1 TCTAAAATGCATAAAATTGCATAAATAGTCTTAAACTATAACAAATTATTAAAATGAC
*
898420 TCTAAAATGCATGAAATT
1 TCTAAAATGCATAAAATT
898438 TCAGAAATGG
Statistics
Matches: 104, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
57 4 0.04
58 93 0.89
59 7 0.07
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.32
Consensus pattern (58 bp):
TCTAAAATGCATAAAATTGCATAAATAGTCTTAAACTATAACAAATTATTAAAATGAC
Found at i:898465 original size:58 final size:57
Alignment explanation
Indices: 898317--898476 Score: 142
Period size: 58 Copynumber: 2.8 Consensus size: 57
898307 ATAATATATA
* * * * *
898317 AAATTGCATAAATAGCTTTCAAACAT-GCTAAATTACTAAAATAACTTTAAAACGCACG
1 AAATTGCAGAAATAG-TCTAAAACATAGC-AAATTACTAAAATGACTCTAAAACGCACG
* * * * * * *
898375 AAATTGCATAAATAGTCTTAGACTATAACAAATTATTAAAATGACTCTAAAATGCATG
1 AAATTGCAGAAATAGTCTAAAAC-ATAGCAAATTACTAAAATGACTCTAAAACGCACG
* * *
898433 AAATTTCAGAAATGGTCCTAAAACATAGCAAATGACTAAAATGA
1 AAATTGCAGAAATAGT-CTAAAACATAGCAAATTACTAAAATGA
898477 TGTAAAAGTA
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
57 5 0.06
58 71 0.87
59 6 0.07
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (57 bp):
AAATTGCAGAAATAGTCTAAAACATAGCAAATTACTAAAATGACTCTAAAACGCACG
Found at i:898954 original size:30 final size:32
Alignment explanation
Indices: 898892--898955 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 32
898882 AAAATGCATA
* * *
898892 GTCATGAAAATCATGATCATCATGCATGAAAAT
1 GTCATGAAAAACATGA-CATCATACATAAAAAT
898925 GTCAT-AAAAACATGA-ATCATACATAAAAAT
1 GTCATGAAAAACATGACATCATACATAAAAAT
898955 G
1 G
898956 GAACATAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 14 0.50
32 9 0.32
33 5 0.18
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.25
Consensus pattern (32 bp):
GTCATGAAAAACATGACATCATACATAAAAAT
Found at i:901067 original size:24 final size:23
Alignment explanation
Indices: 901040--901085 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
901030 TTACATGCAG
901040 TCACTAATTATTTATTTACTTTTC
1 TCACTAATTATTTATTTA-TTTTC
**
901064 TCACTTTTTATTTATTTATTTT
1 TCACTAATTATTTATTTATTTT
901086 GACTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.22, C:0.13, G:0.00, T:0.65
Consensus pattern (23 bp):
TCACTAATTATTTATTTATTTTC
Found at i:901479 original size:2 final size:2
Alignment explanation
Indices: 901472--901529 Score: 82
Period size: 2 Copynumber: 28.5 Consensus size: 2
901462 TTGTTTTTAT
*
901472 TA TA TA TA TA TA TA TA CCA -A GTA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA TA TA TA
901515 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
901530 TCAGCAGAGA
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
1 1 0.02
2 49 0.94
3 2 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:901969 original size:2 final size:2
Alignment explanation
Indices: 901964--902015 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
901954 CTATTATAGA
*
901964 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
902006 AT AT AT AT AT
1 AT AT AT AT AT
902016 CTAGAGAGAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:902866 original size:53 final size:53
Alignment explanation
Indices: 902765--902868 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 53
902755 TCACAAACAT
* *
902765 ACTGTCACAAATTTTTATTCCATTTAAATTCTATCATTATTCTGTTACAAATA
1 ACTGTCACAAATTTTTATTCCATTTAAATTCTATCACTATTCTATTACAAATA
*
902818 ACTGTCACAAATTTTTATTCCATTTAAATTCTGTCACTATT-TCATTACAAA
1 ACTGTCACAAATTTTTATTCCATTTAAATTCTATCACTATTCT-ATTACAAA
902869 ATTCTATCAC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.02
53 46 0.98
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.44
Consensus pattern (53 bp):
ACTGTCACAAATTTTTATTCCATTTAAATTCTATCACTATTCTATTACAAATA
Found at i:902879 original size:53 final size:53
Alignment explanation
Indices: 902769--902883 Score: 153
Period size: 53 Copynumber: 2.2 Consensus size: 53
902759 AAACATACTG
* * *
902769 TCACAAATTTTTATTCCATTTAAATTCTATCATTATTCTGTTACAAATAACTG
1 TCACAAATTTTTATTCCATTTAAATTCTATCACTATTCTATTACAAATAACTA
* *
902822 TCACAAATTTTTATTCCATTTAAATTCTGTCACTATT-TCATTACAAA-ATTCTA
1 TCACAAATTTTTATTCCATTTAAATTCTATCACTATTCT-ATTACAAATA-ACTA
902875 TCACAAATT
1 TCACAAATT
902884 GAAATTGTGT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
52 2 0.04
53 53 0.96
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.44
Consensus pattern (53 bp):
TCACAAATTTTTATTCCATTTAAATTCTATCACTATTCTATTACAAATAACTA
Found at i:902888 original size:18 final size:18
Alignment explanation
Indices: 902867--902901 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
902857 TTTCATTACA
902867 AAATTCTATCACAAATTG
1 AAATTCTATCACAAATTG
* *
902885 AAATTGTGTCACAAATT
1 AAATTCTATCACAAATT
902902 TTTGTTTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (18 bp):
AAATTCTATCACAAATTG
Found at i:903390 original size:12 final size:12
Alignment explanation
Indices: 903373--903398 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
903363 AAATTAAGCT
903373 TCATCAGAATCA
1 TCATCAGAATCA
903385 TCATCAGAATCA
1 TCATCAGAATCA
903397 TC
1 TC
903399 GTCGTCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.27, G:0.08, T:0.27
Consensus pattern (12 bp):
TCATCAGAATCA
Found at i:908930 original size:53 final size:52
Alignment explanation
Indices: 908762--908933 Score: 220
Period size: 53 Copynumber: 3.2 Consensus size: 52
908752 ACACAATTTC
* * * *
908762 AATTTGTGATAG-AATTTTGTAACATAATAGTGACAGAATTTAAATTGAACAAA
1 AATTTGTGATAGTTA-TTTGTAATAGAATAGTGACAGAATTTAAA-TGGACAAA
* * *
908815 AATTTGTGACAGTTATTTGTAATGGAATAGTGACGGAATTTAAATGAGACAAA
1 AATTTGTGATAGTTATTTGTAATAGAATAGTGACAGAATTTAAATG-GACAAA
**
908868 AATTTGTGATAGTTATTTGTAATAGAATAGTGACAGAATTTATGTCGGACAAA
1 AATTTGTGATAGTTATTTGTAATAGAATAGTGACAGAATTTAAAT-GGACAAA
908921 AATTTGTGATAGT
1 AATTTGTGATAGT
908934 AAATTTGTGA
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
52 2 0.02
53 100 0.96
54 2 0.02
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (52 bp):
AATTTGTGATAGTTATTTGTAATAGAATAGTGACAGAATTTAAATGGACAAA
Found at i:909527 original size:18 final size:19
Alignment explanation
Indices: 909504--909553 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
909494 TCATTTAAAA
909504 TATATTAAAATAT-TACTT
1 TATATTAAAATATATACTT
* *
909522 TATATTAATATTATATATTT
1 TATATTAA-AATATATACTT
909542 TATAATTAAAAT
1 TAT-ATTAAAAT
909554 TAAATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.31
19 4 0.15
20 9 0.35
21 5 0.19
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TATATTAAAATATATACTT
Found at i:910624 original size:2 final size:2
Alignment explanation
Indices: 910619--910656 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
910609 AGTGTGTGTG
910619 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
910657 CACCTTAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:911539 original size:14 final size:14
Alignment explanation
Indices: 911520--911562 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
911510 TATTATAATT
911520 ATTAAAATATTAAA
1 ATTAAAATATTAAA
911534 ATTAAAATATT-AA
1 ATTAAAATATTAAA
*
911547 ATTAAAAAATTAAA
1 ATTAAAATATTAAA
911561 AT
1 AT
911563 AATTCTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 12 0.44
14 15 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATTAAAATATTAAA
Found at i:911550 original size:13 final size:13
Alignment explanation
Indices: 911520--911560 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
911510 TATTATAATT
911520 ATTAAAATATTAAA
1 ATTAAAATATT-AA
911534 ATTAAAATATTAA
1 ATTAAAATATTAA
*
911547 ATTAAAAAATTAA
1 ATTAAAATATTAA
911560 A
1 A
911561 ATAATTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATTAAAATATTAA
Found at i:912490 original size:14 final size:14
Alignment explanation
Indices: 912471--912514 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
912461 AATTATTGAT
*
912471 TTTTAATATTAATA
1 TTTTAATAATAATA
**
912485 TTTTAAATAGGAATA
1 TTTT-AATAATAATA
912500 TTTTAATAATAATA
1 TTTTAATAATAATA
912514 T
1 T
912515 ATAATACCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (14 bp):
TTTTAATAATAATA
Found at i:912816 original size:30 final size:30
Alignment explanation
Indices: 912780--912880 Score: 86
Period size: 30 Copynumber: 3.4 Consensus size: 30
912770 TATTTAAATT
* *
912780 TTAAAATATTACTAATATTATA-ATTTATTA
1 TTAAAATA-TAATAATATTATATATATATTA
*
912810 TTAAAATA-AATATTATTATATTATATATTA
1 TTAAAATATAATAATATTATA-TATATATTA
* * *
912840 TTAAAATAT-A-AATATT-TATGTTTAATA
1 TTAAAATATAATAATATTATATATATATTA
912867 TTCAAAATATAATA
1 TT-AAAATATAATA
912881 TTAAAAATTA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
27 8 0.14
28 19 0.33
29 6 0.10
30 25 0.43
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (30 bp):
TTAAAATATAATAATATTATATATATATTA
Found at i:912849 original size:15 final size:15
Alignment explanation
Indices: 912805--912849 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
912795 TATTATAATT
*
912805 TATTATTAAAATAAA
1 TATTATTAAAATATA
* *
912820 TATTATTATATTATA
1 TATTATTAAAATATA
912835 TATTATTAAAATATA
1 TATTATTAAAATATA
912850 AATATTTATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TATTATTAAAATATA
Found at i:912881 original size:14 final size:13
Alignment explanation
Indices: 912792--912903 Score: 64
Period size: 14 Copynumber: 8.0 Consensus size: 13
912782 AAAATATTAC
* *
912792 TAATATTATAATT
1 TAATATTAAAATA
*
912805 TATTATTAAAATA
1 TAATATTAAAATA
912818 -AATATTATTATATTATA
1 TAATATTA--A-A--ATA
*
912835 TATTATTAAAATA
1 TAATATTAAAATA
* ** *
912848 TAAATATTTATGTT
1 T-AATATTAAAATA
912862 TAATATTCAAAATA
1 TAATATT-AAAATA
912876 TAATATTAAAAATTA
1 TAATATT-AAAA-TA
912891 TAATATTAAAATA
1 TAATATTAAAATA
912904 ATTTTAATTT
Statistics
Matches: 75, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
12 6 0.08
13 22 0.29
14 26 0.35
15 11 0.15
16 1 0.01
17 3 0.04
18 6 0.08
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (13 bp):
TAATATTAAAATA
Found at i:912894 original size:15 final size:14
Alignment explanation
Indices: 912862--912901 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
912852 TATTTATGTT
*
912862 TAATATTCAAAATA
1 TAATATTAAAAATA
912876 TAATATTAAAAATTA
1 TAATATTAAAAA-TA
912891 TAATATTAAAA
1 TAATATTAAAA
912902 TAATTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATATTAAAAATA
Done.