Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 271 of 344
Found at i:90637912 original size:11 final size:11
Alignment explanation
Indices: 90637898--90637930 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
90637888 AATTTTATAA
90637898 TTATTTTTATT
1 TTATTTTTATT
*
90637909 TTATTTTTATA
1 TTATTTTTATT
90637920 TTA-TTTTATT
1 TTATTTTTATT
90637930 T
1 T
90637931 ATTCAACCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:90649772 original size:81 final size:81
Alignment explanation
Indices: 90649635--90649825 Score: 301
Period size: 81 Copynumber: 2.4 Consensus size: 81
90649625 TTATTCGGAT
* * * *
90649635 GATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCTCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCATTTTCTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
*
90649700 CATTTGCGCTAGTGAC
66 CATTTGCGCGAGTGAC
90649716 GATATCCGGGCTAAGACCCGAAGGCATTTTCTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCATTTTCTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
* *
90649781 CATTTGTGCGAGTTAC
66 CATTTGCGCGAGTGAC
* *
90649797 TATATCCGGGCTAAGTCCCGAAGGCATTT
1 GATATCCGGGCTAAGACCCGAAGGCATTT
90649826 GTGCGATTTG
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 101 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
GATATCCGGGCTAAGACCCGAAGGCATTTTCTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
CATTTGCGCGAGTGAC
Found at i:90649827 original size:40 final size:40
Alignment explanation
Indices: 90649636--90649859 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
90649626 TATTCGGATG
*
90649636 ATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * * *
90649677 ATATCCGGGTTAAGTCTCGAAGGCATTTGCGCTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
90649717 ATATCCGGGCTAAGACCCGAAGGCATTTTCTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* *
90649758 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
90649798 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
* *
90649838 ATATCC-GGTTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
90649860 TACTTGGGTT
Statistics
Matches: 162, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 14 0.09
40 89 0.55
41 59 0.36
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:90652587 original size:27 final size:27
Alignment explanation
Indices: 90652533--90652643 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
90652523 AGCATGGCTG
* * *
90652533 CCAGAACAGATAA-TGTGACAGTGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
90652559 CCAGAACAGATAATTGTGGCAAAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
90652586 CCAGAACAGAT-ATATGTGGCAGTGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
90652613 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
90652640 CCAG
1 CCAG
90652644 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 56 0.77
28 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:90652617 original size:54 final size:53
Alignment explanation
Indices: 90652533--90652643 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 53
90652523 AGCATGGCTG
*
90652533 CCAGAACAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAAAGCCA
1 CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAAAGCCA
* * *
90652586 CCAGAACAGATATATGTGGCAGTGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGTGCCACCAGAACAGATAATTGTGGCAAAGCCA
90652640 CCAG
1 CCAG
90652644 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 12 0.23
54 41 0.77
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAAAGCCA
Found at i:90654147 original size:24 final size:25
Alignment explanation
Indices: 90654072--90654148 Score: 106
Period size: 24 Copynumber: 3.2 Consensus size: 25
90654062 CCAACACCGT
*
90654072 TCTCCCTAATCAGCTC-CTAAATCC
1 TCTCCCTTATCAGCTCTCTAAATCC
*
90654096 TCTACCTTATCAGCT-TCTAAATCC
1 TCTCCCTTATCAGCTCTCTAAATCC
*
90654120 TCTCCCTTATCAGCTCTC-AAATCT
1 TCTCCCTTATCAGCTCTCTAAATCC
90654144 TCTCC
1 TCTCC
90654149 TAACAGCCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 45 0.96
25 2 0.04
ACGTcount: A:0.22, C:0.39, G:0.04, T:0.35
Consensus pattern (25 bp):
TCTCCCTTATCAGCTCTCTAAATCC
Found at i:90663134 original size:4 final size:4
Alignment explanation
Indices: 90663127--90663156 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
90663117 TTAAATAAAA
90663127 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
90663157 AACCTAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:90669644 original size:13 final size:13
Alignment explanation
Indices: 90669622--90669653 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
90669612 ATTCAGTTCC
90669622 AAAT-TGAAATTA
1 AAATGTGAAATTA
90669634 AAATGTGAAATTA
1 AAATGTGAAATTA
90669647 AAATGTG
1 AAATGTG
90669654 TCTTTCCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (13 bp):
AAATGTGAAATTA
Found at i:90670414 original size:48 final size:48
Alignment explanation
Indices: 90670319--90670416 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 48
90670309 AATTCTAAAA
* *
90670319 AAATTCAAAAAATATATAAAAATACATAAATCTTTAAAATAATATAAT
1 AAATTCAAAAAACATATAAAAATACATAAATCTTTAAAATAAAATAAT
* *
90670367 AAATTCAAAAAAACATATAAAAATACATTATAT-TTT-ATATAAAATAAT
1 AAATTC-AAAAAACATATAAAAATACA-TAAATCTTTAAAATAAAATAAT
90670415 AA
1 AA
90670417 GTTAATCCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
48 18 0.41
49 22 0.50
50 4 0.09
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (48 bp):
AAATTCAAAAAACATATAAAAATACATAAATCTTTAAAATAAAATAAT
Found at i:90672051 original size:6 final size:6
Alignment explanation
Indices: 90672040--90672066 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
90672030 TCCCTAGATT
90672040 ATATAA ATATAA ATATAA ATATAA ATA
1 ATATAA ATATAA ATATAA ATATAA ATA
90672067 ATTCCTGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:90678800 original size:14 final size:15
Alignment explanation
Indices: 90678773--90678801 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
90678763 TGTTTGATAA
90678773 ACTGAAATATTAAAT
1 ACTGAAATATTAAAT
90678788 ACTGAAA-ATTAAAT
1 ACTGAAATATTAAAT
90678802 GTTTAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (15 bp):
ACTGAAATATTAAAT
Found at i:90684802 original size:44 final size:44
Alignment explanation
Indices: 90684362--90684836 Score: 334
Period size: 44 Copynumber: 10.7 Consensus size: 44
90684352 AAAATCAGCC
* ** *
90684362 ACAAATCTTATCTCCCTAAAGTTGCAATATAGCAGATTAAAGCC
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * * * *
90684406 AAAAATCTTATCTCCCTGAAGTTGCAATGAAGTAGATTGAAA-AT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAGCT
** * *
90684450 AACAAATCTTATCTTTCTAAAGTTGCAGTAGAGTAGATTAAAGCT
1 -ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * *
90684495 ACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGGT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * * *
90684539 ACAAACCTTATCTCCCTAAAGTTACAGTGGAGCATATTTAAGTT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * * * *
90684583 ACAAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATTGAAGTT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * * *
90684627 AGAAATCTCATCTCCTTAAAGTTGCAGTAGAGCATATTAAAGC-
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * *
90684670 AGCAAAT-TCTATGTCTCC-AAAGTTGCAGTAGG-TCGGATTAAATCAAGT
1 A-CAAATCT-TATCTC-CCTAAAGTTGCAGT-GGAGCAGATTAAAGC---T
* * * * * *
90684718 CACAAATATTATCTCCCTGAAGTTGCAGTGAAACATATTGAAGCT
1 -ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * *
90684763 ACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTGAAG-T
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * *
90684806 AACAAATCATATAC-CTCTGAAGTTGCAGTGG
1 -ACAAATCTTAT-CTCCCTAAAGTTGCAGTGG
90684837 GTTAGAATGA
Statistics
Matches: 342, Mismatches: 72, Indels: 34
0.76 0.16 0.08
Matches are distributed among these distances:
43 3 0.01
44 268 0.78
45 39 0.11
47 3 0.01
48 27 0.08
49 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
Found at i:90685019 original size:6 final size:6
Alignment explanation
Indices: 90685008--90685037 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
90684998 CAGCAACCAA
*
90685008 AAAAAT AAAAAT AAAGAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
90685038 TAACAGTCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:90687328 original size:29 final size:30
Alignment explanation
Indices: 90687264--90687328 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 30
90687254 AATCTTAAAA
*
90687264 TTATACATGAATTATGGTTTAATGTGCAACT
1 TTATACATGAATTATGATTT-ATGTGCAACT
* *
90687295 ATATACATGAACTT-TGATTT-TGTGCAATT
1 TTATACATGAA-TTATGATTTATGTGCAACT
90687324 TTATA
1 TTATA
90687329 AATAAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
29 12 0.41
31 15 0.52
32 2 0.07
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (30 bp):
TTATACATGAATTATGATTTATGTGCAACT
Found at i:90687561 original size:29 final size:31
Alignment explanation
Indices: 90687518--90687596 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
90687508 TTTGAACCAC
* * *
90687518 AATTAGAGTTTCATGTGTATAATTGCAC-T-A
1 AATTAAAG-TTCATGTATACAATTGCACATAA
*
90687548 AATTAAAGTTCATGTATACAATTGTACATAA
1 AATTAAAGTTCATGTATACAATTGCACATAA
*
90687579 AATCAAAGTTCATGTATA
1 AATTAAAGTTCATGTATA
90687597 ATTTTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 16 0.38
30 8 0.19
31 18 0.43
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.37
Consensus pattern (31 bp):
AATTAAAGTTCATGTATACAATTGCACATAA
Found at i:90688528 original size:29 final size:30
Alignment explanation
Indices: 90688471--90688531 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
90688461 ATAAACCTAT
**
90688471 ATTTTTAAATTTAAAAAATAAAGAGATTAA
1 ATTTTTAAAAATAAAAAATAAAGAGATTAA
90688501 ATTTTTAAAAATAAAAATATAAA-A-ATTAA
1 ATTTTTAAAAATAAAAA-ATAAAGAGATTAA
90688530 AT
1 AT
90688532 ATATGAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 7 0.25
30 16 0.57
31 5 0.18
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (30 bp):
ATTTTTAAAAATAAAAAATAAAGAGATTAA
Found at i:90690459 original size:22 final size:22
Alignment explanation
Indices: 90690431--90690495 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
90690421 GGGTATGAAA
90690431 CTGCATTTG-ATTCTGATCTGTT
1 CTGCATTTGTA-TCTGATCTGTT
*
90690453 CTGCATTTGTATCTGATTTGTT
1 CTGCATTTGTATCTGATCTGTT
* * *
90690475 CTACATCT-TATCTGAACTGTT
1 CTGCATTTGTATCTGATCTGTT
90690496 ATGATAATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 11 0.30
22 25 0.68
23 1 0.03
ACGTcount: A:0.17, C:0.18, G:0.15, T:0.49
Consensus pattern (22 bp):
CTGCATTTGTATCTGATCTGTT
Found at i:90695716 original size:32 final size:32
Alignment explanation
Indices: 90695672--90695735 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
90695662 TAAGACGTTT
*
90695672 TATTCTCTTATCAAGCTAGTTTTCTACTTCTA
1 TATTCTCCTATCAAGCTAGTTTTCTACTTCTA
90695704 TATTCTCCTATCAAGCTAGTTTTCTACTTCTA
1 TATTCTCCTATCAAGCTAGTTTTCTACTTCTA
90695736 CTTTATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.22, C:0.23, G:0.06, T:0.48
Consensus pattern (32 bp):
TATTCTCCTATCAAGCTAGTTTTCTACTTCTA
Found at i:90698234 original size:61 final size:58
Alignment explanation
Indices: 90698151--90698266 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 58
90698141 AGTGATTATC
90698151 TTAATATTAAATTAAATTTAATATTTATCTTATAGATAAATACTATATTAATTTAATAGAT
1 TTAATATTAAATTAAATTTAATATTTATC-T-T-GATAAATACTATATTAATTTAATAGAT
* * * *
90698212 TTAATATTAAATT-TATTCTAATATTTATCTTGATAAGTATTATATTATTTTAATA
1 TTAATATTAAATTAAATT-TAATATTTATCTTGATAAATACTATATTAATTTAATA
90698267 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
58 21 0.42
59 1 0.02
60 4 0.08
61 24 0.48
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (58 bp):
TTAATATTAAATTAAATTTAATATTTATCTTGATAAATACTATATTAATTTAATAGAT
Found at i:90700613 original size:43 final size:43
Alignment explanation
Indices: 90700552--90700639 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
90700542 TAAAAAGTAA
90700552 GGCTATATATAAACCCTCTTAATAGCCTATACTTAACCAATGT
1 GGCTATATATAAACCCTCTTAATAGCCTATACTTAACCAATGT
90700595 GGCTATATATAAACCCTCTTAATAGCCTATACTTAACCAATGT
1 GGCTATATATAAACCCTCTTAATAGCCTATACTTAACCAATGT
90700638 GG
1 GG
90700640 GATATACCCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (43 bp):
GGCTATATATAAACCCTCTTAATAGCCTATACTTAACCAATGT
Found at i:90701267 original size:87 final size:86
Alignment explanation
Indices: 90701114--90701278 Score: 258
Period size: 87 Copynumber: 1.9 Consensus size: 86
90701104 AAATTTAGAT
** * *
90701114 TCGGTGAATTCATCAAGTTTGTCTCAATAGGACCACCCAAACTCTGGGATATGAACTCATTGAGA
1 TCGGTGAATTCATCAAGTTCATCTCAATAGGACCACCCAAACTCTAGGATATGAACTCATTAAGA
90701179 GTAATAAACTCAACCTCTCAAA
66 GTAA-AAACTCAACCTCTCAAA
* * *
90701201 TCGGTGAATTCATCAAGTTCATCTCAATAGGACCACCCAAACTCTAGGATGTGAATTTATTAAGA
1 TCGGTGAATTCATCAAGTTCATCTCAATAGGACCACCCAAACTCTAGGATATGAACTCATTAAGA
90701266 GTAAAAACTCAAC
66 GTAAAAACTCAAC
90701279 TTTATGCATG
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 9 0.13
87 62 0.87
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (86 bp):
TCGGTGAATTCATCAAGTTCATCTCAATAGGACCACCCAAACTCTAGGATATGAACTCATTAAGA
GTAAAAACTCAACCTCTCAAA
Found at i:90705607 original size:41 final size:43
Alignment explanation
Indices: 90705562--90705658 Score: 108
Period size: 47 Copynumber: 2.2 Consensus size: 43
90705552 GTGATGGATG
*
90705562 TGAATGTG-T-ATATATGAGCTAAGGCCGAATGGCAAATGTGA
1 TGAATGTGATCATATATGAGCTAAGGCCGAATGGAAAATGTGA
* * *
90705603 TGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGAAAATGTGA
1 TGAATGTG---AT-CATATATGAGCTAAGGCCGAATGGAAAATGTGA
90705650 TGAATGTGA
1 TGAATGTGA
90705659 ACATGCATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
41 8 0.17
44 1 0.02
45 1 0.02
47 36 0.78
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (43 bp):
TGAATGTGATCATATATGAGCTAAGGCCGAATGGAAAATGTGA
Found at i:90705610 original size:47 final size:47
Alignment explanation
Indices: 90705581--90705747 Score: 271
Period size: 47 Copynumber: 3.6 Consensus size: 47
90705571 ATATATGAGC
* *
90705581 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
* *
90705628 TAAGGCCGAATGGAAAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
* *
90705675 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
*
90705722 TAAGGCCGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCAAATGTGATGAA
90705748 CGAGGAAGTG
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 113 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:90705648 original size:94 final size:94
Alignment explanation
Indices: 90705550--90705747 Score: 270
Period size: 94 Copynumber: 2.1 Consensus size: 94
90705540 TTAGGATTTT
* ** * * *
90705550 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGACCGAATGGCAAATGTGATGAATGTGAACA
* *
90705615 TGCATTTGTGTGCTAAGGCCGAATGGAAA
66 TGCATATGTGTGATAAGGCCGAATGGAAA
* * * *
90705644 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGACCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGACCGAATGGCAAATGTGATGAATGTGAACA
**
90705709 TGCATATGTGTGATAAGGCCGAATGGCCA
66 TGCATATGTGTGATAAGGCCGAATGGAAA
90705738 ATGTGATGAA
1 ATGTGATGAA
90705748 CGAGGAAGTG
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGACCGAATGGCAAATGTGATGAATGTGAACA
TGCATATGTGTGATAAGGCCGAATGGAAA
Found at i:90705777 original size:47 final size:47
Alignment explanation
Indices: 90705585--90705781 Score: 157
Period size: 47 Copynumber: 4.2 Consensus size: 47
90705575 ATGAGCTAAG
* * * * * ** *
90705585 GCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGCTAAG
1 GCCGAATGGCCAATGTGATGAACGGGAACATGCATATATGTGAGAAA
** * * *
90705632 GCCGAATGGAAAATGTGATGAATGTGAACATGCAT-T-TGTGTGATAA
1 GCCGAATGGCCAATGTGATGAACGGGAACATGCATATATGTGAGA-AA
* * * * *
90705678 GACCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAG
1 G-CCGAATGGCCAATGTGATGAACGGGAACATGCATATATGTGAGAAA
* * *
90705726 GCCGAATGGCCAATGTGATGAACGAGGAA-GTGTATATATGTGGGAAA
1 GCCGAATGGCCAATGTGATGAACG-GGAACATGCATATATGTGAGAAA
90705773 GCCGAATGG
1 GCCGAATGG
90705782 TTAATGCGAA
Statistics
Matches: 128, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
45 5 0.04
46 3 0.02
47 109 0.85
48 6 0.05
49 5 0.04
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.25
Consensus pattern (47 bp):
GCCGAATGGCCAATGTGATGAACGGGAACATGCATATATGTGAGAAA
Found at i:90705778 original size:94 final size:94
Alignment explanation
Indices: 90705567--90705781 Score: 256
Period size: 94 Copynumber: 2.3 Consensus size: 94
90705557 GGATGTGAAT
* * * * *
90705567 GTGTATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGCTAAG
1 GTGTATATATGTGCGAAAGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGATAAG
* *
90705632 GCCGAATGGAAAATGTGATGAATGTGAAC
66 GCCGAATGGAAAATGTGATGAACGGGAAC
* * * *
90705661 ATGCAT-T-TGTGTGATAAGACCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATA
1 GTGTATATATGTGCGA-AAG-CCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGATA
**
90705724 AGGCCGAATGGCCAATGTGATGAACGAGGAA-
64 AGGCCGAATGGAAAATGTGATGAACG-GGAAC
*
90705755 GTGTATATATGTGGGAAAGCCGAATGG
1 GTGTATATATGTGCGAAAGCCGAATGG
90705782 TTAATGCGAA
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
92 4 0.04
93 3 0.03
94 80 0.80
95 7 0.07
96 6 0.06
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.26
Consensus pattern (94 bp):
GTGTATATATGTGCGAAAGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGATAAG
GCCGAATGGAAAATGTGATGAACGGGAAC
Found at i:90705820 original size:46 final size:46
Alignment explanation
Indices: 90705761--90705851 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
90705751 GGAAGTGTAT
* * *
90705761 ATATGTGGGAAAGCCGAATGGTTAATGCGA-AATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAA-ATGTATGAGATGG
* *
90705807 ATATGTGGTAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAAATGTATGAGATG
90705852 TGTATACATA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 37 0.95
47 2 0.05
ACGTcount: A:0.35, C:0.07, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAGAAATGTATGAGATGG
Found at i:90712494 original size:18 final size:19
Alignment explanation
Indices: 90712471--90712506 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
90712461 AGTTTTTTAT
90712471 TAAACATTA-ATCTCATTA
1 TAAACATTATATCTCATTA
90712489 TAAACATTATATCTCATT
1 TAAACATTATATCTCATT
90712507 TTTTGATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAACATTATATCTCATTA
Found at i:90713574 original size:23 final size:23
Alignment explanation
Indices: 90713518--90713565 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
90713508 GAACTATAAC
*
90713518 TAGGTCTTCAAGTTTATAAAGGT
1 TAGGGCTTCAAGTTTATAAAGGT
*
90713541 TAGGGCTTCAAGTTTATAAATGT
1 TAGGGCTTCAAGTTTATAAAGGT
90713564 TA
1 TA
90713566 TGTTGTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (23 bp):
TAGGGCTTCAAGTTTATAAAGGT
Found at i:90716726 original size:55 final size:55
Alignment explanation
Indices: 90716661--90716792 Score: 169
Period size: 55 Copynumber: 2.4 Consensus size: 55
90716651 GCCCTTAGCC
* * * *
90716661 CATGTGCAACACTGATTTTGAAACACGGCCATGACACACGCCCATGTGGCCTGCT
1 CATGTACAACACTGACTTTAAAACACGGCCACGACACACGCCCATGTGGCCTGCT
* *
90716716 CATGTACAACACTGACTTTAAAACACGGCCACGACACACGCTCGTGTGGCCTG-T
1 CATGTACAACACTGACTTTAAAACACGGCCACGACACACGCCCATGTGGCCTGCT
*
90716770 CCGTGTACTAA-ACTGACTTTAAA
1 -CATGTAC-AACACTGACTTTAAA
90716793 TTTTAAGTGT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
54 1 0.01
55 65 0.96
56 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (55 bp):
CATGTACAACACTGACTTTAAAACACGGCCACGACACACGCCCATGTGGCCTGCT
Found at i:90728754 original size:9 final size:8
Alignment explanation
Indices: 90728736--90728767 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
90728726 TAACTTATAA
90728736 ATTTAAAT
1 ATTTAAAT
90728744 ATTTAAAAT
1 ATTT-AAAT
90728753 ATTTAAAT
1 ATTTAAAT
90728761 ATTTAAA
1 ATTTAAA
90728768 AGACTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTTAAAT
Found at i:90728756 original size:17 final size:17
Alignment explanation
Indices: 90728736--90728768 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
90728726 TAACTTATAA
90728736 ATTTAAATATTTAAAAT
1 ATTTAAATATTTAAAAT
90728753 ATTTAAATATTTAAAA
1 ATTTAAATATTTAAAA
90728769 GACTTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAATATTTAAAAT
Found at i:90728775 original size:17 final size:17
Alignment explanation
Indices: 90728738--90728777 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
90728728 ACTTATAAAT
* *
90728738 TTAAATATTTAAAATAT
1 TTAAATATTTAAAAGAC
90728755 TTAAATATTTAAAAGAC
1 TTAAATATTTAAAAGAC
90728772 TTAAAT
1 TTAAAT
90728778 TACACACTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (17 bp):
TTAAATATTTAAAAGAC
Found at i:90730115 original size:31 final size:32
Alignment explanation
Indices: 90730061--90730122 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
90730051 ATTTAATAGC
*
90730061 TTAGTGACTTTTAATAAAAACTTTCGAATAAT
1 TTAGTGACTTTAAATAAAAACTTTCGAATAAT
*
90730093 TTAGTGAC-TTAAATGAAAACTTTCGAATAA
1 TTAGTGACTTTAAATAAAAACTTTCGAATAA
90730123 CTTAATGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (32 bp):
TTAGTGACTTTAAATAAAAACTTTCGAATAAT
Found at i:90731252 original size:13 final size:13
Alignment explanation
Indices: 90731236--90731260 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90731226 TTTTTTTAAA
90731236 TTTTTAATTAATG
1 TTTTTAATTAATG
90731249 TTTTTAATTAAT
1 TTTTTAATTAAT
90731261 AAATATATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:90741303 original size:28 final size:27
Alignment explanation
Indices: 90741269--90741423 Score: 130
Period size: 28 Copynumber: 5.5 Consensus size: 27
90741259 AACCGATCTT
*
90741269 GCACACACAGTGCTTGGTTACGAAACTC
1 GCACACACAGTGCTCGGTTACG-AACTC
**** *
90741297 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGGTTA-CGAACTC
90741326 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTAC-GAACTC
* **** *
90741354 GCACACACAATGCCTCAACAACTGATCTC
1 GCACACACAGTG-CTCGGTTAC-GAACTC
*
90741383 GCACACACAGTGCTCGGTTACAGAACTT
1 GCACACACAGTGCTCGGTTAC-GAACTC
90741411 GCACACACAGTGC
1 GCACACACAGTGC
90741424 CTCAACAACC
Statistics
Matches: 97, Mismatches: 26, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
27 1 0.01
28 54 0.56
29 40 0.41
30 2 0.02
ACGTcount: A:0.30, C:0.34, G:0.19, T:0.17
Consensus pattern (27 bp):
GCACACACAGTGCTCGGTTACGAACTC
Found at i:90741330 original size:57 final size:57
Alignment explanation
Indices: 90741239--90741452 Score: 322
Period size: 57 Copynumber: 3.7 Consensus size: 57
90741229 GATCTCATTT
* * * *
90741239 CACACACTTAGTGCCCCAAGAACCGATCTTGCACACACAGTGCTTGGTTACGAAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
*
90741298 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
* * *
90741355 CACACACAATGCCTCAACAACTGATCTCGCACACACAGTGCTCGGTTAC-AGAACTTG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGA-AACTCG
90741412 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGC
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGC
90741453 CTATGTTCAC
Statistics
Matches: 143, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
57 136 0.95
59 7 0.05
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
Found at i:90741335 original size:29 final size:29
Alignment explanation
Indices: 90741294--90741454 Score: 173
Period size: 29 Copynumber: 5.6 Consensus size: 29
90741284 GGTTACGAAA
90741294 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
**** * *
90741323 CTCGCACACACAGTG-CTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
* *
90741351 CTCGCACACACAATGCCTCAACAACTGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
**** * *
90741380 CTCGCACACACAGTG-CTCGGTTACAGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
90741408 CTTGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
90741437 CTCGCACACACAGTGCCT
1 CTCGCACACACAGTGCCT
90741455 ATGTTCACTT
Statistics
Matches: 102, Mismatches: 28, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
28 42 0.41
29 60 0.59
ACGTcount: A:0.29, C:0.37, G:0.17, T:0.17
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACCGAT
Found at i:90743449 original size:26 final size:26
Alignment explanation
Indices: 90743420--90743479 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
90743410 TCCCTTTGAA
* * *
90743420 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
90743446 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
90743474 CCATTC
1 TCATTC
90743480 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:90743465 original size:28 final size:28
Alignment explanation
Indices: 90743434--90743505 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
90743424 TCGATATTTT
*
90743434 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
90743462 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
90743490 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
90743506 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:90770805 original size:144 final size:144
Alignment explanation
Indices: 90770657--90770925 Score: 412
Period size: 144 Copynumber: 1.9 Consensus size: 144
90770647 AAGGTGGTCA
* *
90770657 ATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATAAGGTGGCCAATGCCATGTCCCAGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCAATGCCATGTCCCAGACA
* * * * *
90770722 TGGTCTTACTCTATCACACACATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCAC
66 TGGTCTTACACTAGCACACACATCAATGCCAAAGCCATGTCCCAAACATGGTCTTACACTAGCAC
90770787 ACACATCAATACCG
131 ACACATCAATACCG
* *** * * *
90770801 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATGTTGTGGCCGATGCCATTTCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCAATGCCATGTCCCAGACA
90770866 TGGTCTTACACTAGCACACACATCAATGCCAAAGCCATGTCCCAAACATGGTCTTACACT
66 TGGTCTTACACTAGCACACACATCAATGCCAAAGCCATGTCCCAAACATGGTCTTACACT
90770926 GGAACGCATA
Statistics
Matches: 111, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
144 111 1.00
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (144 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCAATGCCATGTCCCAGACA
TGGTCTTACACTAGCACACACATCAATGCCAAAGCCATGTCCCAAACATGGTCTTACACTAGCAC
ACACATCAATACCG
Found at i:90770903 original size:48 final size:48
Alignment explanation
Indices: 90770557--90770925 Score: 277
Period size: 48 Copynumber: 7.7 Consensus size: 48
90770547 ACATGTCGAG
* * * * * *
90770557 GCCGATGTCAGGTCCCGGACATGGTCTTACACTAGCTCTCATC-TCATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACA-CATCAAT
* * * * * * *
90770605 ACCGATGCCATGTCCCAGACATAGTGTTATACT-G-GCTCTCAT-AAGGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAA--T
* * * * * *
90770652 GGTCAATGCCATGTCCCATACATGGTCTTACACT-G-GCTCTCAT-AAGGT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAA--T
* * * *
90770700 GGCCAATGCCATGTCCCAGTCATGGTCTTACTCTATCACACACATCAAT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAT
90770749 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAT
* * * * * ** **
90770797 ACCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATGT-TGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAT
* *
90770844 GGCCGATGCCATTTCCTAGACATGGTCTTACACTAGCACACACATCAAT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAT
* * *
90770893 GCCAAAGCCATGTCCCAAACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
90770926 GGAACGCATA
Statistics
Matches: 258, Mismatches: 54, Indels: 18
0.78 0.16 0.05
Matches are distributed among these distances:
45 2 0.01
46 4 0.02
47 3 0.01
48 240 0.93
49 2 0.01
50 5 0.02
51 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAT
Found at i:90775192 original size:74 final size:74
Alignment explanation
Indices: 90775112--90775264 Score: 288
Period size: 74 Copynumber: 2.1 Consensus size: 74
90775102 TGAATCGAAT
90775112 AAATTTTCCAAGTATAATAATAATGGAGTAAAACCTTTCACAAGCGAAGTTAAAATATTATCAAT
1 AAATTTTCCAAGTATAATAATAATGGAGTAAAACCTTTCACAAGCGAAGTTAAAATATTATCAAT
90775177 AATAATAAA
66 AATAATAAA
*
90775186 AAATTTTCCAAGTATAATAATAATGGAGTAAAACCTTTCACAAGCTAAGTTAAAATATTATCAAT
1 AAATTTTCCAAGTATAATAATAATGGAGTAAAACCTTTCACAAGCGAAGTTAAAATATTATCAAT
*
90775251 AATAATAAT
66 AATAATAAA
90775260 AAATT
1 AAATT
90775265 ATTTAATACA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.31
Consensus pattern (74 bp):
AAATTTTCCAAGTATAATAATAATGGAGTAAAACCTTTCACAAGCGAAGTTAAAATATTATCAAT
AATAATAAA
Found at i:90777346 original size:16 final size:17
Alignment explanation
Indices: 90777325--90777383 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 17
90777315 ATATTTAGTC
90777325 ATATAATAAATTA-TTA
1 ATATAATAAATTATTTA
90777341 ATATAATAAATATAATTTA
1 ATATAATAAAT-T-ATTTA
90777360 TTATATTAATAAATTATTTA
1 --ATA-TAATAAATTATTTA
90777380 ATAT
1 ATAT
90777384 TTTAATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
16 11 0.30
17 2 0.05
18 4 0.11
19 3 0.08
20 5 0.14
21 4 0.11
22 8 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATAATAAATTATTTA
Found at i:90777355 original size:22 final size:22
Alignment explanation
Indices: 90777330--90777373 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
90777320 TAGTCATATA
90777330 ATAAATTATTA-ATATAATAAAT
1 ATAAATTATTATAT-TAATAAAT
*
90777352 ATAATTTATTATATTAATAAAT
1 ATAAATTATTATATTAATAAAT
90777374 TATTTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTATATTAATAAAT
Found at i:90777409 original size:13 final size:14
Alignment explanation
Indices: 90777393--90777434 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
90777383 TTTTAATTTT
90777393 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
90777406 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
90777421 ATTTTAAATAATAT
1 ATTTT-AATAATAT
90777435 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:90777419 original size:16 final size:16
Alignment explanation
Indices: 90777397--90777433 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
90777387 AATTTTATTT
90777397 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
90777414 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
90777429 TAATA
1 TAATA
90777434 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:90777519 original size:46 final size:48
Alignment explanation
Indices: 90777421--90777519 Score: 118
Period size: 46 Copynumber: 2.1 Consensus size: 48
90777411 AAAAATAATA
*
90777421 ATTTTAAATAATATTATTCACATATTATTAAAAATATTCAATATTAAT
1 ATTTTAAATAATATTATTCACATATTATTAAAAATATTCAATATAAAT
*
90777469 ATTTT-AATAAATATTTATT-ACA-ATTA-TAAATATATT-AATAATAAAT
1 ATTTTAAAT-AATA-TTATTCACATATTATTAAAAATATTCAAT-ATAAAT
90777515 ATTTT
1 ATTTT
90777520 GTAATATAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
45 3 0.07
46 19 0.41
47 7 0.15
48 12 0.26
49 5 0.11
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.47
Consensus pattern (48 bp):
ATTTTAAATAATATTATTCACATATTATTAAAAATATTCAATATAAAT
Found at i:90780837 original size:71 final size:71
Alignment explanation
Indices: 90780721--90780867 Score: 249
Period size: 71 Copynumber: 2.1 Consensus size: 71
90780711 CTCGTCTCAA
* * *
90780721 CTTACATAATTTTCATGTATCAACATATCAAAGATATTCGTATATGTACATGTCATGATACATAC
1 CTTACATAATTTTCATGTATCAACATATAAAAAATATTCATATATGTACATGTCATGATACATAC
90780786 CATTCT
66 CATTCT
* *
90780792 CTTACATAATTTTCATGTATTAACATATAAAAAATATTCATATATGTACATGTCATGATACATAT
1 CTTACATAATTTTCATGTATCAACATATAAAAAATATTCATATATGTACATGTCATGATACATAC
90780857 CATTCT
66 CATTCT
90780863 CTTAC
1 CTTAC
90780868 TGTTTCTTCT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (71 bp):
CTTACATAATTTTCATGTATCAACATATAAAAAATATTCATATATGTACATGTCATGATACATAC
CATTCT
Found at i:90781142 original size:24 final size:26
Alignment explanation
Indices: 90781085--90781147 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
90781075 GTACATGTAT
* *
90781085 GCTCATACAAGCTCTAAATTGATATA
1 GCTCATACGAGCTGTAAATTGATATA
*
90781111 -CTCTTACGAGCTGTAAA-TGATA-A
1 GCTCATACGAGCTGTAAATTGATATA
90781134 GCTCATACGAGCTG
1 GCTCATACGAGCTG
90781148 AATATCGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 1 0.03
24 17 0.53
25 14 0.44
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (26 bp):
GCTCATACGAGCTGTAAATTGATATA
Found at i:90782392 original size:23 final size:23
Alignment explanation
Indices: 90782362--90782408 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
90782352 TAGAAATGAG
90782362 ATCCTGATACCTCATTTTCTAAA
1 ATCCTGATACCTCATTTTCTAAA
90782385 ATCCTGATACCTCATTTTCTAAA
1 ATCCTGATACCTCATTTTCTAAA
90782408 A
1 A
90782409 CCACTTGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (23 bp):
ATCCTGATACCTCATTTTCTAAA
Found at i:90785147 original size:40 final size:40
Alignment explanation
Indices: 90784975--90785140 Score: 271
Period size: 40 Copynumber: 4.2 Consensus size: 40
90784965 AACCCAAGTA
* * *
90784975 CCTTCGGGATTTAG-ACGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
90785014 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
90785054 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
90785094 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
90785134 CCTTCGG
1 CCTTCGG
90785141 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 13 0.11
40 106 0.89
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:90796471 original size:25 final size:24
Alignment explanation
Indices: 90796443--90796498 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
90796433 CCGGAGGACC
*
90796443 AATCATATAACTCATGATAATGATT
1 AATCATATAACTCATCATAATGA-T
* * *
90796468 AATCACATAATTCTTCATAATGAT
1 AATCATATAACTCATCATAATGAT
90796492 AATCATA
1 AATCATA
90796499 AAGATAATCG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (24 bp):
AATCATATAACTCATCATAATGAT
Found at i:90816997 original size:27 final size:27
Alignment explanation
Indices: 90816966--90817143 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
90816956 TAAATTGTAC
90816966 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
90816993 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90817019 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
90817047 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
90817075 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90817102 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
90817129 AGCCCTGAGTGTGCG
1 AGCACTAAGTGTGCG
90817144 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:90817080 original size:82 final size:81
Alignment explanation
Indices: 90816967--90817122 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90816957 AAATTGTACA
* *
90816967 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
90817031 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
90817048 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
90817113 TGCGAGTTGA
65 TGCGAATTGA
90817123 TTATATAGCC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:90819525 original size:25 final size:24
Alignment explanation
Indices: 90819488--90819555 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
90819478 ATGCATACAT
90819488 ATATATCATATTGACTGTTCGACTAAA
1 ATATATC--ATTGACTGTT-GACTAAA
* *
90819515 ATATTTCATTGACTGATTGACTGAA
1 ATATATCATTGACTG-TTGACTAAA
* *
90819540 ATGTATGATTGACTGT
1 ATATATCATTGACTGT
90819556 CCAACTAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 26 0.74
26 2 0.06
27 6 0.17
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (24 bp):
ATATATCATTGACTGTTGACTAAA
Found at i:90822484 original size:42 final size:42
Alignment explanation
Indices: 90822348--90822504 Score: 200
Period size: 40 Copynumber: 3.8 Consensus size: 42
90822338 ATGACAATTT
90822348 GACTATGTATGGCACTTA--GTGT-ACGATTCGAGATAGCTTC
1 GACTATGTATGGCACTTAGTGTGTGA-GATTCGAGATAGCTTC
* *
90822388 GGCTATGTATGGCACTTAGTGTGTG-G-TTCGAGATAGCTTT
1 GACTATGTATGGCACTTAGTGTGTGAGATTCGAGATAGCTTC
* *
90822428 GGCTATGTATGGCACTTAGTGTGTGAGATT-GAAATAGCTTC
1 GACTATGTATGGCACTTAGTGTGTGAGATTCGAGATAGCTTC
*
90822469 AACTATGTATTGGCACTTAGTGTGTGAGAATTCGAG
1 GACTATGTA-TGGCACTTAGTGTGTGAG-ATTCGAG
90822505 TGTTCGACAT
Statistics
Matches: 102, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
40 55 0.54
41 18 0.18
42 24 0.24
43 3 0.03
44 2 0.02
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (42 bp):
GACTATGTATGGCACTTAGTGTGTGAGATTCGAGATAGCTTC
Found at i:90822492 original size:80 final size:79
Alignment explanation
Indices: 90822345--90822494 Score: 196
Period size: 82 Copynumber: 1.8 Consensus size: 79
90822335 TTGATGACAA
* **
90822345 TTTGACTATGTATGGCACTTAGTGTACGATTCGAGATAGCTTCGGCTATGTATGGCACTTAGTGT
1 TTTGACTATGTATGGCACTTAGTGTACGATTCGAAATAGCTTCAACTATGTATGGCACTTAG-GT
90822410 GTGGTTCGAGATAGC
65 GTGGTTCGAGATAGC
*
90822425 TTTGGCTATGTATGGCACTTAGTGTGTGA-GATT-GAAATAGCTTCAACTATGTATTGGCACTTA
1 TTTGACTATGTATGGCACTTA--GTGT-ACGATTCGAAATAGCTTCAACTATGTA-TGGCACTTA
90822488 GTGTGTG
62 G-GTGTG
90822495 AGAATTCGAG
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
80 20 0.32
81 17 0.27
82 24 0.39
83 1 0.02
ACGTcount: A:0.22, C:0.13, G:0.28, T:0.37
Consensus pattern (79 bp):
TTTGACTATGTATGGCACTTAGTGTACGATTCGAAATAGCTTCAACTATGTATGGCACTTAGGTG
TGGTTCGAGATAGC
Found at i:90829489 original size:24 final size:24
Alignment explanation
Indices: 90829462--90829510 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
90829452 AGTTTGATGA
90829462 TAGAATTTGAATAGTTATTGATAG
1 TAGAATTTGAATAGTTATTGATAG
90829486 TAGAATTTGAATAGTTATTGATAG
1 TAGAATTTGAATAGTTATTGATAG
90829510 T
1 T
90829511 TAAACAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (24 bp):
TAGAATTTGAATAGTTATTGATAG
Found at i:90830045 original size:40 final size:40
Alignment explanation
Indices: 90830001--90830184 Score: 199
Period size: 40 Copynumber: 4.5 Consensus size: 40
90829991 CAATTCGACA
* *
90830001 ATGTATGGCACTTAGTGTGCGATTCGAGATAACTTCGGCT
1 ATGTATGGCACTTAGTGTGCGATTCGAAATAACTTCAGCT
* *
90830041 ATGTATGGCACTCAGTGTGTGATTCGAAATAGA-TTCAGCT
1 ATGTATGGCACTTAGTGTGCGATTCGAAATA-ACTTCAGCT
* * * * * * *
90830081 ATGTACGGCACTTAATGTGTGATTTGAGATAGCTTTAGCT
1 ATGTATGGCACTTAGTGTGCGATTCGAAATAACTTCAGCT
* * * *
90830121 ATGTATGACACTTAGTGTGCGATATTGAAATAGCTTCGGCT
1 ATGTATGGCACTTAGTGTGCGAT-TCGAAATAACTTCAGCT
90830162 ATGTATTGGCACTTAGTGTGCGA
1 ATGTA-TGGCACTTAGTGTGCGA
90830185 GAATTTGAGT
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
40 85 0.70
41 20 0.17
42 16 0.13
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (40 bp):
ATGTATGGCACTTAGTGTGCGATTCGAAATAACTTCAGCT
Found at i:90830138 original size:80 final size:81
Alignment explanation
Indices: 90830001--90830184 Score: 235
Period size: 80 Copynumber: 2.3 Consensus size: 81
90829991 CAATTCGACA
* * *
90830001 ATGTATGGCACTTAGTGTGCGATTCGAGATAACTTCGGCTATGTATGGCACTCAGTGTGTGAT-T
1 ATGTATGGCACTTAGTGTGCGATTCGAGATAACTTCAGCTATGTATGACACTCAGTGTGCGATAT
90830065 CGAAATAGATTCAGCT
66 CGAAATAGATTCAGCT
* * * * * * *
90830081 ATGTACGGCACTTAATGTGTGATTTGAGATAGCTTTAGCTATGTATGACACTTAGTGTGCGATAT
1 ATGTATGGCACTTAGTGTGCGATTCGAGATAACTTCAGCTATGTATGACACTCAGTGTGCGATAT
* * *
90830146 TGAAATAGCTTCGGCT
66 CGAAATAGATTCAGCT
90830162 ATGTATTGGCACTTAGTGTGCGA
1 ATGTA-TGGCACTTAGTGTGCGA
90830185 GAATTTGAGT
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 53 0.62
81 19 0.22
82 14 0.16
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (81 bp):
ATGTATGGCACTTAGTGTGCGATTCGAGATAACTTCAGCTATGTATGACACTCAGTGTGCGATAT
CGAAATAGATTCAGCT
Found at i:90836747 original size:13 final size:13
Alignment explanation
Indices: 90836729--90836753 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90836719 CTCGGCAGGG
90836729 ACACGCCCGTGTC
1 ACACGCCCGTGTC
90836742 ACACGCCCGTGT
1 ACACGCCCGTGT
90836754 GCGATTGCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.44, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTC
Found at i:90840137 original size:44 final size:44
Alignment explanation
Indices: 90840074--90840160 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
90840064 CAGGCCAGCA
90840074 GGCCCATTTTGATATGGTTTTACAAATACTTAAATATAAGCGTT
1 GGCCCATTTTGATATGGTTTTACAAATACTTAAATATAAGCGTT
*
90840118 GGCCCATTTTTATATGGTTTTACAAATACTTAAATATAAGCGT
1 GGCCCATTTTGATATGGTTTTACAAATACTTAAATATAAGCGT
90840161 ATTGAAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (44 bp):
GGCCCATTTTGATATGGTTTTACAAATACTTAAATATAAGCGTT
Found at i:90842096 original size:48 final size:45
Alignment explanation
Indices: 90841946--90842111 Score: 136
Period size: 46 Copynumber: 3.6 Consensus size: 45
90841936 GATATGTGTC
* * * * **
90841946 CTAGTGTAAGACATGTCTGGGACATGTATCGACCACATTACGAGAG
1 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGA-GAGAG
* * * ** *
90841992 CCAGTGTAAGACAAGTCT-GGAACATGCATCGGCATTGAGACAAGAG
1 CTAGTGTAAGACATGTCTAGG-ACATGCATCGGCCTCAAGA-GAGAG
*
90842038 CTTGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATGTACGAG
1 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGA-G-A-GAG
* *
90842086 CTAGTGTAAGACCTGCCTAGGACATG
1 CTAGTGTAAGACATGTCTAGGACATG
90842112 GCGTCAGCTT
Statistics
Matches: 94, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
45 2 0.02
46 63 0.67
47 3 0.03
48 26 0.28
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (45 bp):
CTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGAGAGAG
Found at i:90842193 original size:49 final size:49
Alignment explanation
Indices: 90842131--90842258 Score: 141
Period size: 49 Copynumber: 2.6 Consensus size: 49
90842121 TGTTGTGTGT
* * * *
90842131 CAGTGTAAAACCTGTCTGGGGCATGGCAT-TGACACCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGGAC-CCGATAGATGAAAGC
* * * * * * *
90842180 CAGTGTAAGACCTGTCTAGGACACGACATCGGGCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGGACCCGATAGATGAAAGC
90842229 CAGTGTAAGACCTGTCTGGGACATGGCATC
1 CAGTGTAAGACCTGTCTGGGACATGGCATC
90842259 CACTTTGATG
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
49 62 0.97
50 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGGACCCGATAGATGAAAGC
Found at i:90843062 original size:66 final size:66
Alignment explanation
Indices: 90842990--90843117 Score: 247
Period size: 66 Copynumber: 1.9 Consensus size: 66
90842980 ATGGGATAAA
90842990 ATTTATATAATTGGAATCCTTAATGAGTATATTTTCAAAATAAACAAACAGAAACATCATTCTAA
1 ATTTATATAATTGGAATCCTTAATGAGTATATTTTCAAAATAAACAAACAGAAACATCATTCTAA
90843055 T
66 T
*
90843056 ATTTATATGATTGGAATCCTTAATGAGTATATTTTCAAAATAAACAAACAGAAACATCATTC
1 ATTTATATAATTGGAATCCTTAATGAGTATATTTTCAAAATAAACAAACAGAAACATCATTC
90843118 GAATCCCGTG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (66 bp):
ATTTATATAATTGGAATCCTTAATGAGTATATTTTCAAAATAAACAAACAGAAACATCATTCTAA
T
Found at i:90849077 original size:49 final size:48
Alignment explanation
Indices: 90849014--90849116 Score: 136
Period size: 47 Copynumber: 2.1 Consensus size: 48
90849004 TTGTCTAGGG
* *
90849014 CATGACATCGACTTTGATAAATGAGAGCCAGTGTAAGACC-TGTTTGGGA
1 CATGGCATCCACTTTGAT--ATGAGAGCCAGTGTAAGACCATGTTTGGGA
* **
90849063 CATGGCATCCACTTTGATGTGCTAGCCAGTGTAAGACCATGTTTGGGA
1 CATGGCATCCACTTTGATATGAGAGCCAGTGTAAGACCATGTTTGGGA
90849111 CATGGC
1 CATGGC
90849117 GTCGGCATCT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
47 17 0.35
48 15 0.31
49 16 0.33
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (48 bp):
CATGGCATCCACTTTGATATGAGAGCCAGTGTAAGACCATGTTTGGGA
Found at i:90850773 original size:30 final size:30
Alignment explanation
Indices: 90850739--90850797 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
90850729 CATGTGAAAT
90850739 GGGATAGCTTCGGCTATCGAATGTAAAAAA
1 GGGATAGCTTCGGCTATCGAATGTAAAAAA
*
90850769 GGGATAGCTTCGGCTATCGAATGTGAAAA
1 GGGATAGCTTCGGCTATCGAATGTAAAAA
90850798 GGTTAGGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.24
Consensus pattern (30 bp):
GGGATAGCTTCGGCTATCGAATGTAAAAAA
Found at i:90850868 original size:32 final size:32
Alignment explanation
Indices: 90850792--90850917 Score: 171
Period size: 32 Copynumber: 3.9 Consensus size: 32
90850782 CTATCGAATG
* * * *
90850792 TGAAAAGGTTAGGTATACTTTGTGTATACCACA
1 TGAAAAGGTTATGTACACTTTGTGTGTA-CACT
*
90850825 TGAAAATGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACT
90850857 TGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACT
** *
90850889 TGAAAAGGAAATGTATACTTTGTGTGTAC
1 TGAAAAGGTTATGTACACTTTGTGTGTAC
90850918 CGCTCAGAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
32 60 0.71
33 24 0.29
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (32 bp):
TGAAAAGGTTATGTACACTTTGTGTGTACACT
Found at i:90866893 original size:27 final size:24
Alignment explanation
Indices: 90866865--90866920 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 24
90866855 AGTTAATAAA
90866865 TTTTCTTTGAGTTTTTCTTTTCAAGAAT
1 TTTTC-TTGAG-TTTTCTTTT--AGAAT
90866893 TTTTCTTGAGTTTTCTTTTAGAAT
1 TTTTCTTGAGTTTTCTTTTAGAAT
90866917 TTTT
1 TTTT
90866921 TTTTCTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.32
26 9 0.32
27 5 0.18
28 5 0.18
ACGTcount: A:0.16, C:0.09, G:0.11, T:0.64
Consensus pattern (24 bp):
TTTTCTTGAGTTTTCTTTTAGAAT
Found at i:90872131 original size:20 final size:21
Alignment explanation
Indices: 90872102--90872152 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
90872092 ATAGATTTTC
* * *
90872102 TTTAATATAATTAATTATT-T
1 TTTAAAATAATCAAATATTAT
90872122 TTTAAAATAATCAAATATTAT
1 TTTAAAATAATCAAATATTAT
90872143 TTTCAAAATA
1 TTT-AAAATA
90872153 GTCTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 16 0.62
21 4 0.15
22 6 0.23
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAAAATAATCAAATATTAT
Found at i:90875603 original size:18 final size:19
Alignment explanation
Indices: 90875580--90875616 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
90875570 TTGCTATTTT
90875580 TATA-TTACAAAATATCTA
1 TATATTTACAAAATATCTA
90875598 TATATTTTACAAAATATCT
1 TATA-TTTACAAAATATCT
90875617 GCTCTCACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
20 13 0.76
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (19 bp):
TATATTTACAAAATATCTA
Found at i:90890362 original size:15 final size:15
Alignment explanation
Indices: 90890339--90890377 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
90890329 ACGAAGTACG
*
90890339 TTAATTAATGCAACA
1 TTAAGTAATGCAACA
90890354 TTAAGTAATGCAACA
1 TTAAGTAATGCAACA
90890369 TTAAGTAAT
1 TTAAGTAAT
90890378 AATAGAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (15 bp):
TTAAGTAATGCAACA
Found at i:90891092 original size:31 final size:31
Alignment explanation
Indices: 90891057--90891118 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
90891047 TTGATGTCAT
90891057 TCCCTAATACGTATTTCTAGATCAAACATCG
1 TCCCTAATACGTATTTCTAGATCAAACATCG
*
90891088 TCCCTAATACGTATTTCTAGATCGAACATCG
1 TCCCTAATACGTATTTCTAGATCAAACATCG
90891119 ACCCACCAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (31 bp):
TCCCTAATACGTATTTCTAGATCAAACATCG
Found at i:90892012 original size:126 final size:125
Alignment explanation
Indices: 90891720--90892239 Score: 677
Period size: 125 Copynumber: 4.2 Consensus size: 125
90891710 AAGGCCAAAC
* * * ** * *
90891720 AGGAACTACTGTAAAAAAAGAGCATACACATGGGAGCTTTTTTCAGTAATTTTGCT-ACAATGCG
1 AGGAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* *
90891784 TCCTGCTTGAAGCATTTTTGACACTATTTTTTTAGAACCGTCTTCTCAAAATTATTTTTT
66 TCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTTTCAAAATTATTTTTT
* *
90891844 AGGAATTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* * *
90891909 TCCTGCTTGAAGCATTTTTGACACTATTTTTTCATAATCATCTTTTCAAAATTATTTTTTT
66 TCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTTTCAAAATTA-TTTTTT
* *
90891970 AGGAACTACTGTAGAAAAAGAGCGTCCATGTGAGAGCTTTTTTCAGTAATTTTGCTAACAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* *
90892035 TCTTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTT-AAAATTATTTTTC
66 TCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTT-TTCAAAATTATTTTTT
* * * * * *
90892095 AAGAACTACTGTAGAAAAAAAGTGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGATAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* * * * * * * *
90892160 TCCTACTTGAACCGTTTTTGACATTATCTTTTCAGAACTGT-TTTCTCAAAATTAAATTTTC
66 TCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTT-TCAAAATT-ATTTTTT
* *
90892221 AGAAACTACTGTAAAAAAA
1 AGGAACTACTGTAGAAAAA
90892240 TAAAAAATAA
Statistics
Matches: 348, Mismatches: 42, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
123 1 0.00
124 52 0.15
125 157 0.45
126 136 0.39
127 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (125 bp):
AGGAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
TCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTTTCAAAATTATTTTTT
Found at i:90892162 original size:251 final size:250
Alignment explanation
Indices: 90891720--90892239 Score: 724
Period size: 251 Copynumber: 2.1 Consensus size: 250
90891710 AAGGCCAAAC
*
90891720 AGGAACTACTGTAAAAAAAGAGCATACACATGGGAGCTTTTTTCAGTAATTTTGCTACAATGCGT
1 AGGAACTACTGTAAAAAAAGAGCATACACATGGGAGCTTTTTTCAGTAATTTTGCTACAATGCAT
* * * *
90891785 CCTGCTTGAAGCATTTTTGACACTATTTTTTTAGAACCGTCTTCTCAAAATTATTTTTTAGGAAT
66 CCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAAGAAC
* * *
90891850 TACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCCTGC
131 TACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCCTAC
* *
90891915 TTGAAGCATTTTTGACACTATTTTTTCATAATCATCTTTTCAAAATTATTTTTTT
196 TTGAACCATTTTTGACACTATCTTTTCATAATCATCTTTTCAAAATTATTTTTTT
* * *
90891970 AGGAACTACTGTAGAAAAAGAGCGT-C-CATGTGAGAGCTTTTTTCAGTAATTTTGCTAACAGTG
1 AGGAACTACTGTAAAAAAAGAGCATACACATG-G-GAGCTTTTTTCAGTAATTTTGCT-ACAATG
* *
90892033 CATCTTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTTAAAATTATTTTTCAAG
63 CATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAAG
* * * *
90892098 AACTACTGTAGAAAAAAAGTGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGATAGTGCATCC
128 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCC
* * * * ** *
90892163 TACTTGAACCGTTTTTGACATTATCTTTTCAGAA-C-TGTTTTCTCAAAATTAAATTTTC
193 TACTTGAACCATTTTTGACACTATCTTTTCATAATCAT-CTTT-TCAAAATTATTTTTTT
*
90892221 AGAAACTACTGTAAAAAAA
1 AGGAACTACTGTAAAAAAA
90892240 TAAAAAATAA
Statistics
Matches: 237, Mismatches: 28, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
248 4 0.02
249 3 0.01
250 50 0.21
251 180 0.76
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (250 bp):
AGGAACTACTGTAAAAAAAGAGCATACACATGGGAGCTTTTTTCAGTAATTTTGCTACAATGCAT
CCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAAGAAC
TACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCCTAC
TTGAACCATTTTTGACACTATCTTTTCATAATCATCTTTTCAAAATTATTTTTTT
Found at i:90892381 original size:33 final size:32
Alignment explanation
Indices: 90892328--90892402 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 32
90892318 AAACACAAAA
90892328 TTATTTTTTAAAAGACTAAACCCTAATTTAAT
1 TTATTTTTTAAAAGACTAAACCCTAATTTAAT
90892360 TTATTTTTTAAAA-ACTATAAACCCTAATTTAAT
1 TTATTTTTTAAAAGAC--TAAACCCTAATTTAAT
*
90892393 TAATTATTTT
1 TTATT-TTTT
90892403 TTTAAATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
31 2 0.05
32 13 0.33
33 20 0.51
34 4 0.10
ACGTcount: A:0.40, C:0.11, G:0.01, T:0.48
Consensus pattern (32 bp):
TTATTTTTTAAAAGACTAAACCCTAATTTAAT
Found at i:90897852 original size:11 final size:11
Alignment explanation
Indices: 90897836--90897860 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
90897826 AGCTTTCATG
90897836 ATTAATTAATT
1 ATTAATTAATT
90897847 ATTAATTAATT
1 ATTAATTAATT
90897858 ATT
1 ATT
90897861 TTAACATATT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTAATTAATT
Found at i:90900291 original size:25 final size:24
Alignment explanation
Indices: 90900262--90900313 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
90900252 ATAATGGATA
* *
90900262 TTAATTAATAATTGTTTAAAAATAT
1 TTAATT-ATAAATGTTTAAAAAAAT
*
90900287 TTAATTTTAAATGTTTAAAAAAAT
1 TTAATTATAAATGTTTAAAAAAAT
90900311 TTA
1 TTA
90900314 GATGCAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
TTAATTATAAATGTTTAAAAAAAT
Found at i:90907316 original size:17 final size:17
Alignment explanation
Indices: 90907289--90907354 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
90907279 TACCATTTGT
*
90907289 TTTATTTTATTATTGTTA
1 TTTAGTTTATTATT-TTA
90907307 TTTA-TTTATTATTCTTA
1 TTTAGTTTATTATT-TTA
90907324 -TTAGTTATATTATTTTA
1 TTTAGTT-TATTATTTTA
90907341 TTT-GTTTATTATTT
1 TTTAGTTTATTATTT
90907355 GTGGTTATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
16 11 0.25
17 20 0.45
18 13 0.30
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTAGTTTATTATTTTA
Found at i:90915103 original size:40 final size:40
Alignment explanation
Indices: 90914787--90915096 Score: 521
Period size: 40 Copynumber: 7.8 Consensus size: 40
90914777 GCATGAGCAT
*
90914787 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
90914827 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
90914867 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
90914907 TTGATAAATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
90914947 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
90914987 TTGATAAATCCGGGCTAAGACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
90915027 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
90915067 TTGCTATACCCGGGTTAAGACCCGAAGGCA
1 TTGATATATCCGGGCTAAGACCCGAAGGCA
90915097 ATCGTGCTTG
Statistics
Matches: 253, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 253 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:90916765 original size:32 final size:32
Alignment explanation
Indices: 90916729--90916792 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
90916719 CCCATCATAG
* * *
90916729 TATCAATTGGGCCTAGCCCATCTCATAATCAA
1 TATCAATTGGACCTAGCCCATATCAGAATCAA
90916761 TATCAATTGGACCTAGCCCATATCAGAATCAA
1 TATCAATTGGACCTAGCCCATATCAGAATCAA
90916793 ACCCATATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (32 bp):
TATCAATTGGACCTAGCCCATATCAGAATCAA
Found at i:90917134 original size:27 final size:27
Alignment explanation
Indices: 90917097--90917163 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
90917087 CGAGGGCAAA
* * *
90917097 CAGTCATTTTACCCTACAGGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
90917124 CAGTAATTTTACACTACAAGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
90917151 CAGTAATTTTACA
1 CAGTAATTTTACA
90917164 AACCGAGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (27 bp):
CAGTAATTTTACACTACAAGGGTATTT
Found at i:90917172 original size:27 final size:27
Alignment explanation
Indices: 90917097--90917176 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
90917087 CGAGGGCAAA
* * * *
90917097 CAGTCATTTTACCCTACAGGGGTATTT
1 CAGTAATTTTACACAACAAGGGTATTT
*
90917124 CAGTAATTTTACACTACAAGGGTATTT
1 CAGTAATTTTACACAACAAGGGTATTT
*
90917151 CAGTAATTTTACA-AACCGAGGGTATT
1 CAGTAATTTTACACAA-CAAGGGTATT
90917177 AATGACCCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.02
27 46 0.98
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (27 bp):
CAGTAATTTTACACAACAAGGGTATTT
Found at i:90928507 original size:18 final size:19
Alignment explanation
Indices: 90928472--90928509 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
90928462 TGAATTGACC
90928472 AAATGGGCCAGAATGGGCT
1 AAATGGGCCAGAATGGGCT
*
90928491 AAATGGGCCCG-ATGGGCT
1 AAATGGGCCAGAATGGGCT
90928509 A
1 A
90928510 TTGGGCCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.29, C:0.18, G:0.37, T:0.16
Consensus pattern (19 bp):
AAATGGGCCAGAATGGGCT
Found at i:90928620 original size:29 final size:27
Alignment explanation
Indices: 90928587--90928678 Score: 96
Period size: 28 Copynumber: 3.3 Consensus size: 27
90928577 TGTAAATAGT
90928587 GGCCATATGAATGTGATTTGGGCCTAATG
1 GGCCATATGAATGTGA-TTGGG-CTAATG
* * *
90928616 GGCCACATAAATGTGAATGGGTCTAATG
1 GGCCATATGAATGTGATTGGG-CTAATG
* *
90928644 GGCCATATGGAA-GAGATTGGGCTAGTG
1 GGCCATAT-GAATGTGATTGGGCTAATG
90928671 GGCCATAT
1 GGCCATAT
90928679 ATATAGGTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
27 13 0.25
28 24 0.45
29 16 0.30
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.26
Consensus pattern (27 bp):
GGCCATATGAATGTGATTGGGCTAATG
Found at i:90936931 original size:43 final size:43
Alignment explanation
Indices: 90936768--90936931 Score: 131
Period size: 43 Copynumber: 3.8 Consensus size: 43
90936758 ATAGGATTCT
* * *
90936768 GATATTTGATTTCGTGTAAGACCACGTTTGGGAC-GTTGGCATC
1 GATATTTGATTACGTGTAAGACCACGTCTGGGACAG-TGGAATC
* * *
90936811 GAT-TTGAGATTTACGTGTAAAACCATGTCTGGGACA-TCGGAATC
1 GATATT-TGA-TTACGTGTAAGACCACGTCTGGGACAGT-GGAATC
* * * * *
90936855 G-TATTTGATTTCCTGTAAGATCC-TGTCTAGGACAGTGGTATC
1 GATATTTGATTACGTGTAAGA-CCACGTCTGGGACAGTGGAATC
* *
90936897 GATATTTGATTACATGTAAGACCACATCTGGGACA
1 GATATTTGATTACGTGTAAGACCACGTCTGGGACA
90936932 TTGGCATTGT
Statistics
Matches: 95, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
42 29 0.31
43 37 0.39
44 29 0.31
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
GATATTTGATTACGTGTAAGACCACGTCTGGGACAGTGGAATC
Found at i:90937597 original size:34 final size:34
Alignment explanation
Indices: 90937559--90937632 Score: 148
Period size: 34 Copynumber: 2.2 Consensus size: 34
90937549 GGCCTAGTGA
90937559 GAAATGGTCTTTTTGGTAAGTTAGTTTTGTGGTT
1 GAAATGGTCTTTTTGGTAAGTTAGTTTTGTGGTT
90937593 GAAATGGTCTTTTTGGTAAGTTAGTTTTGTGGTT
1 GAAATGGTCTTTTTGGTAAGTTAGTTTTGTGGTT
90937627 GAAATG
1 GAAATG
90937633 TTTATAAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.20, C:0.03, G:0.30, T:0.47
Consensus pattern (34 bp):
GAAATGGTCTTTTTGGTAAGTTAGTTTTGTGGTT
Found at i:90943871 original size:27 final size:27
Alignment explanation
Indices: 90943840--90944017 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
90943830 TAAATTGTAC
90943840 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
90943867 TGCACTAAGTGTGCCAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90943893 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
90943921 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
90943949 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90943976 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
90944003 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90944018 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:90943981 original size:82 final size:81
Alignment explanation
Indices: 90943841--90943996 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
90943831 AAATTGTACA
* *
90943841 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCCAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCCAAATGAATACGATGCACTAAGTGT
90943906 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
90943922 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCCAAATGAATACGAT-GCACTAAGT
*
90943986 GTGCGAGTTGA
64 GTGCGAATTGA
90943997 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCCAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:90944008 original size:82 final size:81
Alignment explanation
Indices: 90943837--90944017 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
90943827 GATTAAATTG
* *
90943837 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCCAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCCAAATGAATACGATGCACTAA
90943902 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
90943918 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCCAAATGAATACGAT-GCACT
* **
90943982 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
90944000 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
90944018 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCCAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:90950782 original size:25 final size:25
Alignment explanation
Indices: 90950736--90950786 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
90950726 CCCTTATAAT
* *
90950736 GTGAAAATGACCTTTTTGCCCCTAG
1 GTGAAAATGACCTTTATACCCCTAG
90950761 GTGAAAATGA-CTATTATACCCCTAG
1 GTGAAAATGACCT-TTATACCCCTAG
90950786 G
1 G
90950787 GTTATGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
GTGAAAATGACCTTTATACCCCTAG
Found at i:90950845 original size:10 final size:10
Alignment explanation
Indices: 90950830--90950864 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
90950820 TTTGTACATA
90950830 ATATGCCATG
1 ATATGCCATG
90950840 ATATGCACATG
1 ATATGC-CATG
*
90950851 ATATTCCATG
1 ATATGCCATG
90950861 ATAT
1 ATAT
90950865 ATACATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (10 bp):
ATATGCCATG
Found at i:90950849 original size:21 final size:21
Alignment explanation
Indices: 90950825--90950864 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
90950815 ACTGATTTGT
90950825 ACATAATATGCCATGATATGC
1 ACATAATATGCCATGATATGC
* *
90950846 ACATGATATTCCATGATAT
1 ACATAATATGCCATGATAT
90950865 ATACATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (21 bp):
ACATAATATGCCATGATATGC
Found at i:90950870 original size:21 final size:20
Alignment explanation
Indices: 90950824--90950876 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
90950814 TACTGATTTG
*
90950824 TACATAATATGCCATGATATG
1 TACAT-ATATGCCATGATATA
* *
90950845 CACATGATATTCCATGATATA
1 TACAT-ATATGCCATGATATA
90950866 TACATATATGC
1 TACATATATGC
90950877 ATGGGTTGGG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (20 bp):
TACATATATGCCATGATATA
Found at i:90951213 original size:31 final size:31
Alignment explanation
Indices: 90951175--90951253 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
90951165 CGTTTATAGT
*
90951175 AAAGGCTTCAGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
90951206 AAAGGCTTCGGCCCAGTGGTATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
90951237 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
90951254 ATGTGCTGAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:90954111 original size:48 final size:47
Alignment explanation
Indices: 90954051--90954190 Score: 140
Period size: 48 Copynumber: 2.9 Consensus size: 47
90954041 TAGGTGGAAG
90954051 TATATGGCAGTTTATCTGCATTAATGTGACACTGTTCACAATTTTGAT
1 TATATGGCAGTTTATCTGCATT-ATGTGACACTGTTCACAATTTTGAT
* * * * * *
90954099 TATATGGTAGTTTATCTGTGACTT-TGGTGGC-TTGTCCACAATTTTGTT
1 TATATGGCAGTTTATCTG-CA-TTAT-GTGACACTGTTCACAATTTTGAT
** *
90954147 TATATGGCAGTTTATCTGTGTTACTATGACACTGTTCACAATTT
1 TATATGGCAGTTTATCTGCATTA-TGTGACACTGTTCACAATTT
90954191 GGTATGTTGG
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
46 2 0.03
47 3 0.04
48 61 0.84
49 5 0.07
50 2 0.03
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (47 bp):
TATATGGCAGTTTATCTGCATTATGTGACACTGTTCACAATTTTGAT
Found at i:90957798 original size:9 final size:9
Alignment explanation
Indices: 90957777--90957824 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
90957767 AAATAATTGA
*
90957777 ATTTTTTCG
1 ATTTATTCG
*
90957786 ATTTATTCA
1 ATTTATTCG
90957795 ATTT-TTCG
1 ATTTATTCG
*
90957803 GTTTATTCG
1 ATTTATTCG
90957812 ATTT-TTCG
1 ATTTATTCG
90957820 ATTTA
1 ATTTA
90957825 ATCTGTTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
8 14 0.44
9 18 0.56
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.60
Consensus pattern (9 bp):
ATTTATTCG
Found at i:90957801 original size:17 final size:17
Alignment explanation
Indices: 90957779--90957824 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
90957769 ATAATTGAAT
90957779 TTTTTCGATTTATTCAA
1 TTTTTCGATTTATTCAA
* *
90957796 TTTTTCGGTTTATTCGA
1 TTTTTCGATTTATTCAA
90957813 TTTTTCGATTTA
1 TTTTTCGATTTA
90957825 ATCTGTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.61
Consensus pattern (17 bp):
TTTTTCGATTTATTCAA
Found at i:90957821 original size:8 final size:8
Alignment explanation
Indices: 90957779--90957823 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
90957769 ATAATTGAAT
90957779 TTTTTCGA
1 TTTTTCGA
*
90957787 TTTATTCAA
1 TTT-TTCGA
*
90957796 TTTTTCGG
1 TTTTTCGA
90957804 TTTATTCGA
1 TTT-TTCGA
90957813 TTTTTCGA
1 TTTTTCGA
90957821 TTT
1 TTT
90957824 AATCTGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
8 17 0.55
9 14 0.45
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.62
Consensus pattern (8 bp):
TTTTTCGA
Found at i:90958535 original size:19 final size:18
Alignment explanation
Indices: 90958513--90958570 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
90958503 TTTATGGATT
90958513 TTTTATAATTTTT-AATGAA
1 TTTTATAATTTTTAAAT--A
90958532 TTTTGAT--TTTTTAAATA
1 TTTT-ATAATTTTTAAATA
*
90958549 TTTTTTAATTTTTAAATTA
1 TTTTATAATTTTTAAA-TA
90958568 TTT
1 TTT
90958571 GATGATGTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
16 1 0.03
17 5 0.15
18 13 0.39
19 12 0.36
20 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTATAATTTTTAAATA
Found at i:90958553 original size:18 final size:19
Alignment explanation
Indices: 90958519--90958570 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
90958509 GATTTTTTAT
* *
90958519 AATTTTT-AATGAATTTTG
1 AATTTTTAAATTATTTTTG
* *
90958537 ATTTTTTAAA-TATTTTTT
1 AATTTTTAAATTATTTTTG
90958555 AATTTTTAAATTATTT
1 AATTTTTAAATTATTT
90958571 GATGATGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (19 bp):
AATTTTTAAATTATTTTTG
Found at i:90962674 original size:10 final size:10
Alignment explanation
Indices: 90962645--90962702 Score: 73
Period size: 10 Copynumber: 5.8 Consensus size: 10
90962635 AACATTCTAG
90962645 AAGATAAATA
1 AAGATAAATA
*
90962655 CAA-TTAAATA
1 -AAGATAAATA
*
90962665 AAGATGAATA
1 AAGATAAATA
*
90962675 AGGATAAATA
1 AAGATAAATA
90962685 AAGATAAATA
1 AAGATAAATA
90962695 AAGATAAA
1 AAGATAAA
90962703 AGCTAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
9 2 0.05
10 36 0.90
11 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.21
Consensus pattern (10 bp):
AAGATAAATA
Found at i:90963381 original size:16 final size:16
Alignment explanation
Indices: 90963346--90963382 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
90963336 TTTTTTTTCT
*
90963346 TTTTTCTATTTTTCTA
1 TTTTTCTATTTTTCCA
*
90963362 TTTTTCTATTTTTCCC
1 TTTTTCTATTTTTCCA
90963378 TTTTT
1 TTTTT
90963383 TTTTCTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCTATTTTTCCA
Found at i:90963392 original size:8 final size:8
Alignment explanation
Indices: 90963339--90963375 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
90963329 CATCACTTTT
90963339 TTTTTCT-
1 TTTTTCTA
90963346 TTTTTCTA
1 TTTTTCTA
90963354 TTTTTCTA
1 TTTTTCTA
90963362 TTTTTCTA
1 TTTTTCTA
90963370 TTTTTC
1 TTTTTC
90963376 CCTTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTCTA
Found at i:90963581 original size:99 final size:99
Alignment explanation
Indices: 90963409--90963592 Score: 296
Period size: 99 Copynumber: 1.9 Consensus size: 99
90963399 ATTATTATTG
* * * * *
90963409 CTTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGATAGCCAAGTACCCCACCCCGGTTAC
1 CTTAAGAACATAATGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCAGTTAC
*
90963474 TCAGTCCAACATACTCCTAATTTATTATATTTTT
66 TCAATCCAACATACTCCTAATTTATTATATTTTT
*
90963508 CTTAAGAACATAATGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCTACCCCAGTTAC
1 CTTAAGAACATAATGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCAGTTAC
*
90963573 TCAATCCAACATATTCCTAA
66 TCAATCCAACATACTCCTAA
90963593 AAAGAATTTA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.27
Consensus pattern (99 bp):
CTTAAGAACATAATGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCAGTTAC
TCAATCCAACATACTCCTAATTTATTATATTTTT
Found at i:90966176 original size:29 final size:26
Alignment explanation
Indices: 90966136--90966228 Score: 84
Period size: 25 Copynumber: 3.5 Consensus size: 26
90966126 AATTTGTTAT
* * *
90966136 TTATTCATTTTAAATCTTTTTTCCTCATA
1 TTATTTATTTTAAAT-TTGTTTCAT--TA
90966165 TTATTTATTTTAAA-TTGTTTCATTA
1 TTATTTATTTTAAATTTGTTTCATTA
*
90966190 TTATTTATTTTAAA--TGTTTCACATA
1 TTATTTATTTTAAATTTGTTTCA-TTA
*
90966215 TTATGTATTTTAAA
1 TTATTTATTTTAAA
90966229 CTATTATCCA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
24 7 0.12
25 31 0.53
27 7 0.12
29 13 0.22
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (26 bp):
TTATTTATTTTAAATTTGTTTCATTA
Found at i:90966191 original size:25 final size:25
Alignment explanation
Indices: 90966161--90966228 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
90966151 CTTTTTTCCT
90966161 CATATTATTTATTTTAAATTGTTTCA
1 CATATTATTTATTTTAAA-TGTTTCA
*
90966187 -TTATTATTTATTTTAAATGTTTCA
1 CATATTATTTATTTTAAATGTTTCA
*
90966211 CATATTATGTATTTTAAA
1 CATATTATTTATTTTAAA
90966229 CTATTATCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.18
25 31 0.82
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.57
Consensus pattern (25 bp):
CATATTATTTATTTTAAATGTTTCA
Found at i:90966268 original size:26 final size:25
Alignment explanation
Indices: 90966243--90966488 Score: 110
Period size: 26 Copynumber: 9.5 Consensus size: 25
90966233 TATCCAATTA
*
90966243 TATATATTGTTTATTTTAAACTA-T
1 TATATATTATTTATTTTAAACTATT
* * *
90966267 TATATATTATTTATTTCGAATTATTTTT
1 TATATATTATTTATTT-TAA--ACTATT
** *
90966295 TATGTATATCT-TTTATTTTTAAGTTGTTT
1 TA--TATAT-TATTTA-TTTTAAACT-ATT
* *
90966324 TGTATATTATTTATTTTAAATTTCTTTT
1 TATATATTATTTATTTTAAA---CTATT
* *
90966352 TACATATTATTTATTTTAAACTCTT
1 TATATATTATTTATTTTAAACTATT
** *
90966377 T-TATA-T-GCTATTTTAAAGTATT
1 TATATATTATTTATTTTAAACTATT
*
90966399 ATATATATTATTTATTTTAAATTACTT
1 -TATATATTATTTATTTTAAACTA-TT
* ** *
90966426 TGTATATTATTTATTTTAATTTGTT
1 TATATATTATTTATTTTAAACTATT
* *
90966451 T-TACGTATTATTTATCTTAAATTATT
1 TATA--TATTATTTATTTTAAACTATT
*
90966477 T-TATCTTATTTA
1 TATATATTATTTA
90966489 CTTCAATTTG
Statistics
Matches: 175, Mismatches: 27, Indels: 40
0.72 0.11 0.17
Matches are distributed among these distances:
22 12 0.07
23 2 0.01
24 32 0.18
25 11 0.06
26 59 0.34
27 13 0.07
28 26 0.15
29 5 0.03
30 11 0.06
31 4 0.02
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (25 bp):
TATATATTATTTATTTTAAACTATT
Found at i:90966291 original size:24 final size:24
Alignment explanation
Indices: 90966238--90966291 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
90966228 ACTATTATCC
* *
90966238 AATTA-TATATATTGTTTATTTTA
1 AATTATTATATATTATTTATTTCA
* *
90966261 AACTATTATATATTATTTATTTCG
1 AATTATTATATATTATTTATTTCA
90966285 AATTATT
1 AATTATT
90966292 TTTTATGTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (24 bp):
AATTATTATATATTATTTATTTCA
Found at i:90966297 original size:28 final size:27
Alignment explanation
Indices: 90966266--90966478 Score: 120
Period size: 26 Copynumber: 8.0 Consensus size: 27
90966256 TTTTAAACTA
**
90966266 TTATATATTATTTATTTCGAATTATTTT
1 TTATATATTATTTATTTTAAATT-TTTT
* * *
90966294 TTATGTATATCT-TTTATTTTTAAGTTGTT
1 TTA--TATAT-TATTTATTTTAAATTTTTT
*
90966323 TTGTATATTATTTATTTTAAATTTCTTT
1 TTATATATTATTTATTTTAAATTT-TTT
* * *
90966351 TTACATATTATTTATTTTAAA--CTCT
1 TTATATATTATTTATTTTAAATTTTTT
** * *
90966376 TT-TATA-T-GCTATTTTAAA-GTATT
1 TTATATATTATTTATTTTAAATTTTTT
* **
90966399 ATATATATTATTTATTTTAAA-TTACT
1 TTATATATTATTTATTTTAAATTTTTT
* *
90966425 TTGTATATTATTTATTTT-AATTTGTT
1 TTATATATTATTTATTTTAAATTTTTT
** * *
90966451 TTACGTATTATTTATCTTAAATTATTT
1 TTATATATTATTTATTTTAAATTTTTT
90966478 T
1 T
90966479 ATCTTATTTA
Statistics
Matches: 141, Mismatches: 33, Indels: 23
0.72 0.17 0.12
Matches are distributed among these distances:
22 9 0.06
23 3 0.02
24 7 0.05
25 7 0.05
26 46 0.33
27 24 0.17
28 24 0.17
29 5 0.04
30 15 0.11
31 1 0.01
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (27 bp):
TTATATATTATTTATTTTAAATTTTTT
Found at i:90966403 original size:22 final size:22
Alignment explanation
Indices: 90966363--90966404 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
90966353 ACATATTATT
* *
90966363 TATTTTAAACTCTTTTATATGC
1 TATTTTAAACTATTATATATGC
*
90966385 TATTTTAAAGTATTATATAT
1 TATTTTAAACTATTATATAT
90966405 ATTATTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (22 bp):
TATTTTAAACTATTATATATGC
Found at i:90966410 original size:22 final size:22
Alignment explanation
Indices: 90966362--90966411 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
90966352 TACATATTAT
* * *
90966362 TTATTTTAAACTCTTTTATATG
1 TTATTTTAAACTATTATATATA
* *
90966384 CTATTTTAAAGTATTATATATA
1 TTATTTTAAACTATTATATATA
90966406 TTATTT
1 TTATTT
90966412 ATTTTAAATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (22 bp):
TTATTTTAAACTATTATATATA
Found at i:90966510 original size:50 final size:52
Alignment explanation
Indices: 90966400--90966513 Score: 151
Period size: 50 Copynumber: 2.2 Consensus size: 52
90966390 TAAAGTATTA
* * * *
90966400 TATATATTATTTATTTTAAATTACTTTGTATATTATTTATTTTAATTTGTTT
1 TATATATTATTTATCTTAAATTACTTTGTATATTATTTACTTCAATTTGCTT
** *
90966452 TACGTATTATTTATCTTAAATTA-TTT-TATCTTATTTACTTCAATTTGCTT
1 TATATATTATTTATCTTAAATTACTTTGTATATTATTTACTTCAATTTGCTT
90966502 TATATATTATTT
1 TATATATTATTT
90966514 TGTTTCGTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 30 0.57
51 3 0.06
52 20 0.38
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (52 bp):
TATATATTATTTATCTTAAATTACTTTGTATATTATTTACTTCAATTTGCTT
Found at i:90968469 original size:46 final size:47
Alignment explanation
Indices: 90968419--90968586 Score: 232
Period size: 47 Copynumber: 3.6 Consensus size: 47
90968409 TTCTGAGGCC
* ** **
90968419 GATG-CATGTCCTAGACATACCTTACACTAGCACTTATCTCAATGCT
1 GATGCCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCT
* *
90968465 GATGCCATGTCCCAAACATGTCTTACACTAGCACTCGTTTCAATGCT
1 GATGCCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCT
* * *
90968512 GATG-CATGTCCTAGACATGTCTTATACTGGCACTCGTCTCAATGCT
1 GATGCCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCT
90968558 GATGCCATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACATGTCTTACACT
90968587 GGCTCACACA
Statistics
Matches: 106, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
46 45 0.42
47 61 0.58
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCT
Found at i:90968484 original size:93 final size:92
Alignment explanation
Indices: 90968273--90968590 Score: 298
Period size: 93 Copynumber: 3.4 Consensus size: 92
90968263 GTAAGGTGCC
* * *
90968273 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGAGGCCGATACTATGTCCCAGA
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-TTCAAGGCCGATGC-ATGTCCTAGA
** * * * * *
90968338 CATGGTCTTACATTAGCTCTCGTATATTC-GTGCC
62 CAT-ACCTTACACTAGCACTC--AT-CTCAATGCT
* * *
90968372 GATGCCATGTCCTAGACATGTCTTATACTGGCTTACA-TTCTGAGGCCGATGCATGTCCTAGACA
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTT-CATTTC-AAGGCCGATGCATGTCCTAGACA
*
90968436 TACCTTACACTAGCACTTATCTCAATGCT
64 TACCTTACACTAGCACTCATCTCAATGCT
* * * * * *
90968465 GATGCCATGTCCCAAACATGTCTTACACTAGCACTCGTTTCAATGCTGATGCATGTCCTAGACAT
1 GATGCCATGTCCCAGACATGTCTTACACTGGC-TTCATTTCAAGGCCGATGCATGTCCTAGACAT
** * * *
90968530 GTCTTATACTGGCACTCGTCTCAATGCT
65 ACCTTACACTAGCACTCATCTCAATGCT
90968558 GATGCCATGTCCCAGACATGTCTTACACTGGCT
1 GATGCCATGTCCCAGACATGTCTTACACTGGCT
90968591 CACACACAAA
Statistics
Matches: 184, Mismatches: 30, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
92 2 0.01
93 107 0.58
94 4 0.02
95 12 0.07
96 15 0.08
97 11 0.06
98 15 0.08
99 18 0.10
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.31
Consensus pattern (92 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTTCATTTCAAGGCCGATGCATGTCCTAGACATA
CCTTACACTAGCACTCATCTCAATGCT
Found at i:90968588 original size:47 final size:47
Alignment explanation
Indices: 90968269--90968589 Score: 251
Period size: 46 Copynumber: 6.8 Consensus size: 47
90968259 TAGGGTAAGG
* *
90968269 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATCTTCGA
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGC-ACTCGTC-TCAA
* * * * * * * *
90968318 GGCCGATACTATGTCCCAGACATGGTCTTACATTAGCTCTCGTAT-ATTCG
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCACTCGTCTCA---A
* * *
90968368 TGCCGATGCCATGTCCTAGACATGTCTTATACTGGCTTACAT--TCT-GA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTGGC--AC-TCGTCTCAA
* * ** * **
90968415 GGCCGATG-CATGTCCTAGACATACCTTACACTAGCACTTATCTCAA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCACTCGTCTCAA
* * * *
90968461 TGCTGATGCCATGTCCCAAACATGTCTTACACTAGCACTCGTTTCAA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCACTCGTCTCAA
* * *
90968508 TGCTGATG-CATGTCCTAGACATGTCTTATACTGGCACTCGTCTCAA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCACTCGTCTCAA
*
90968554 TGCTGATGCCATGTCCCAGACATGTCTTACACTGGC
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTGGC
90968590 TCACACACAA
Statistics
Matches: 217, Mismatches: 43, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
43 1 0.00
44 2 0.01
45 3 0.01
46 71 0.33
47 71 0.33
48 1 0.00
49 45 0.21
50 21 0.10
51 1 0.00
52 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCACTCGTCTCAA
Found at i:90977221 original size:55 final size:55
Alignment explanation
Indices: 90977121--90977240 Score: 141
Period size: 55 Copynumber: 2.2 Consensus size: 55
90977111 TTACTTCTCC
* * * * *
90977121 CACGCCCGTGTTAATTTGACAGGTTCAACCACGGGTGTTAGACACGGGCGTGTCA
1 CACGCCCGTGCTAATTTAACAGGTTCAACCACGGGTCTTACACACGAGCGTGTCA
* * * * *
90977176 CACGCCCGTGCTATTTTAACAGGTTCATCCACGGTTCTTCCACACGAGCGTGTCG
1 CACGCCCGTGCTAATTTAACAGGTTCAACCACGGGTCTTACACACGAGCGTGTCA
*
90977231 CACACCCGTG
1 CACGCCCGTG
90977241 TTGTTTTGGC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.20, C:0.31, G:0.25, T:0.24
Consensus pattern (55 bp):
CACGCCCGTGCTAATTTAACAGGTTCAACCACGGGTCTTACACACGAGCGTGTCA
Found at i:90982686 original size:30 final size:30
Alignment explanation
Indices: 90982628--90982688 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
90982618 ATTTCCGAGC
**
90982628 TTGGGGACAAAAGTGTAATTATGTAAAAGT
1 TTGGGGACAAAAGTGTAATTATCAAAAAGT
* * *
90982658 TTGGGGGCAAAATTGTAATTTTCAAAAAGT
1 TTGGGGACAAAAGTGTAATTATCAAAAAGT
90982688 T
1 T
90982689 GGGTGGTGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (30 bp):
TTGGGGACAAAAGTGTAATTATCAAAAAGT
Found at i:90983200 original size:104 final size:104
Alignment explanation
Indices: 90983020--90983243 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
90983010 TGTATATAAA
** * *
90983020 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
90983085 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
90983124 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
90983188 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
90983228 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
90983244 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Done.