Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 140 of 292
Found at i:41663455 original size:28 final size:27
Alignment explanation
Indices: 41663422--41663474 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
41663412 TTAGAATACT
*
41663422 TTAGTTTACTAAAATTACCGAAATACGC
1 TTAGTTT-CTAAAAATACCGAAATACGC
* *
41663450 TTAGTTTGTAAAAATACTGAAATAC
1 TTAGTTTCTAAAAATACCGAAATAC
41663475 CCTCGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACCGAAATACGC
Found at i:41663461 original size:27 final size:27
Alignment explanation
Indices: 41663431--41663529 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
41663421 TTTAGTTTAC
41663431 TAAAATTACCGAAATACGCTTAG-TTTG
1 TAAAATTACCGAAATAC-CTTAGATTTG
* * * *
41663458 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTAGATTTG
* * *
41663485 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTAGATTTG
41663512 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
41663530 CCGATTTACA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.10
27 56 0.90
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTAGATTTG
Found at i:41663530 original size:54 final size:53
Alignment explanation
Indices: 41663431--41663536 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 53
41663421 TTTAGTTTAC
* *
41663431 TAAAATTACCGAAATACGCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCC-CGATTTG
* * *
41663485 TAAAATTACTGAAATAC-CTTCGACTTGTAAAATTAC-CAAAGTACCCCGATTT
1 TAAAATTACCGAAATACGCTTAG-CTTGTAAAAATACTCAAA-TACCCCGATTT
41663537 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 13 0.29
54 32 0.71
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (53 bp):
TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCGATTTG
Found at i:41663547 original size:26 final size:27
Alignment explanation
Indices: 41663515--41663575 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
41663505 CGACTTGTAA
41663515 AATTACCAAAGTA-CCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
*** *
41663541 AATTACCATTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
41663568 AATTACCA
1 AATTACCA
41663576 TTTTACCCCC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.36, C:0.28, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:41663566 original size:27 final size:27
Alignment explanation
Indices: 41663526--41663719 Score: 138
Period size: 27 Copynumber: 6.8 Consensus size: 27
41663516 ATTACCAAAG
41663526 TACCC-CGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
41663552 TACCCCCGATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
41663579 TACCCCCGTTTTACCCTCGACTTACAGAATTACCATTT
1 TACCCTCG-ATT----T--AC--AG--AATTACCATTT
* *
41663617 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * ***
41663644 TATCATCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
41663671 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
41663698 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
41663720 TAAAATACCC
Statistics
Matches: 136, Mismatches: 20, Indels: 23
0.76 0.11 0.13
Matches are distributed among these distances:
26 5 0.04
27 101 0.74
28 2 0.01
29 1 0.01
31 2 0.01
32 1 0.01
33 1 0.01
34 2 0.01
36 1 0.01
37 2 0.01
38 18 0.13
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:41663591 original size:38 final size:38
Alignment explanation
Indices: 41663549--41663630 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
41663539 AGAATTACCA
* *
41663549 TTTTACCCCCGATTTACATAATTACCATTTTACCCCCG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
* *
41663587 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
*
41663625 ATTTAC
1 TTTTAC
41663631 AGAATTATCG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.24, C:0.32, G:0.06, T:0.38
Consensus pattern (38 bp):
TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
Found at i:41663720 original size:27 final size:27
Alignment explanation
Indices: 41663587--41663721 Score: 164
Period size: 27 Copynumber: 5.0 Consensus size: 27
41663577 TTTACCCCCG
* *
41663587 TTTTACCCTCGACTTACAGAATTACCA
1 TTTTACCCTCGATTTACAGAATTACTA
*
41663614 TTTTACCCTCGATTTACAGAATTA-TCG
1 TTTTACCCTCGATTTACAGAATTACT-A
* * * * *
41663641 TTTTATCATCGATTTATAGAATTATTG
1 TTTTACCCTCGATTTACAGAATTACTA
*
41663668 TTTTACCCTTGATTTACAGAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTA
*
41663695 TTTTACCCTCGATTTACAAAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTA
41663722 AAATACCCTT
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
27 91 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAGAATTACTA
Found at i:41663728 original size:27 final size:27
Alignment explanation
Indices: 41663671--41663919 Score: 162
Period size: 27 Copynumber: 9.1 Consensus size: 27
41663661 ATTATTGTTT
* * ***
41663671 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACCAAAA
* *
41663698 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* **
41663725 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* **
41663752 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCAAAA
* *** *
41663779 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
** **
41663806 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* * *
41663833 TACCCCTGATTTACAAAGTTACAAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
*
41663860 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACCA-AAA
* * **
41663889 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
41663916 TACC
1 TACC
41663920 TTTGGTTTGT
Statistics
Matches: 180, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
27 155 0.86
28 8 0.04
29 17 0.09
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:41663772 original size:81 final size:81
Alignment explanation
Indices: 41663698--41663865 Score: 196
Period size: 81 Copynumber: 2.1 Consensus size: 81
41663688 ATTACTATTT
* ***
41663698 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTT
41663763 TGTAAAATTACCAAAA
66 TGTAAAATTACCAAAA
* * *** * *
41663779 TACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GAT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTT
*
41663843 T-TACAAAGTTACAAAAA
66 TGTA-AAA-TTACCAAAA
41663860 TACCCT
1 TACCCT
41663866 TGACTTTCTA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
79 2 0.03
80 6 0.08
81 65 0.89
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.30
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTT
TGTAAAATTACCAAAA
Found at i:41663865 original size:54 final size:53
Alignment explanation
Indices: 41663671--41663919 Score: 180
Period size: 54 Copynumber: 4.6 Consensus size: 53
41663661 ATTATTGTTT
* * *** * ** *
41663671 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACA-AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
*
41663725 TACCCTTGGTTTGTA-AAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTTGG-TT-TACAAATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAA
** *
41663779 TACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTT-ACAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
* * * * * * *
41663833 TACCCCTGATTTACAAAGTTACAAAAATACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTTGGTTTACAAA-TTACCAAAATACCC-TCAATTTGT-AAAATTACCA-AAA
* **
41663889 TACCATTGGTTTACAAAATTACTGAAATACC
1 TACCCTTGGTTTAC-AAATTACCAAAATACC
41663920 TTTGGTTTGT
Statistics
Matches: 156, Mismatches: 28, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
52 1 0.01
53 6 0.04
54 101 0.65
55 11 0.07
56 34 0.22
57 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (53 bp):
TACCCTTGGTTTACAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
Found at i:41663924 original size:27 final size:27
Alignment explanation
Indices: 41663876--41663927 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
41663866 TGACTTTCTA
41663876 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
41663903 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
41663928 GTTGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:41664019 original size:27 final size:27
Alignment explanation
Indices: 41663979--41664046 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
41663969 ATGCCCCTAT
*
41663979 TAGGGTAAAGTGACCGTAA-AGCCCCTG
1 TAGGGTAAAATGACCGTAATA-CCCCTG
41664006 TAGGGTAAAATGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* *
41664033 CATGGTAAAATGAC
1 TAGGGTAAAATGAC
41664047 GAATATGCCC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATACCCCTG
Found at i:41665119 original size:25 final size:25
Alignment explanation
Indices: 41665090--41665137 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41665080 TTATAACATG
* * *
41665090 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
41665115 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
41665138 GTTTGTGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:41665221 original size:11 final size:11
Alignment explanation
Indices: 41665185--41665240 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
41665175 CATGGTATGT
41665185 ATGATATGCAC
1 ATGATATGCAC
* *
41665196 ATGACATG--T
1 ATGATATGCAC
41665205 ATGATATGCAC
1 ATGATATGCAC
*
41665216 ATGATATG--T
1 ATGATATGCAC
41665225 ATGATATGCAC
1 ATGATATGCAC
41665236 ATGAT
1 ATGAT
41665241 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:41665240 original size:20 final size:20
Alignment explanation
Indices: 41665174--41665240 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
41665164 ATTTTGATAA
*
41665174 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
41665194 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
41665214 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
41665234 ACATGAT
1 ACATGAT
41665241 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:41665346 original size:24 final size:23
Alignment explanation
Indices: 41665290--41665441 Score: 214
Period size: 24 Copynumber: 6.4 Consensus size: 23
41665280 GAGGAAGTGA
41665290 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
41665313 TAAAGGGCTTATGCCCAAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
41665336 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
41665360 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
41665384 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
41665407 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
41665432 AAAAGAGGCT
1 AAAAG-GGCT
41665442 AGGCCTCCAA
Statistics
Matches: 116, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
23 42 0.36
24 69 0.59
25 5 0.04
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:41665359 original size:47 final size:47
Alignment explanation
Indices: 41665290--41665441 Score: 216
Period size: 47 Copynumber: 3.2 Consensus size: 47
41665280 GAGGAAGTGA
* *
41665290 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCAAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
41665336 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
41665384 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
41665432 AAAAGAGGCT
1 AAAAG-GGCT
41665442 AGGCCTCCAA
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
47 65 0.69
48 25 0.27
49 4 0.04
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:41665406 original size:71 final size:71
Alignment explanation
Indices: 41665290--41665441 Score: 250
Period size: 71 Copynumber: 2.1 Consensus size: 71
41665280 GAGGAAGTGA
* *
41665290 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCAAGTTATAAAAAGGGCTTATGCCCCA
41665355 GTTATC
66 GTTATC
* *
41665361 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCAAGTTATAAAAAGGGCTTATGCCCCA
*
41665426 GTTATT
66 GTTATC
41665432 AAAAGAGGCT
1 AAAAG-GGCT
41665442 AGGCCTCCAA
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 71 0.95
72 4 0.05
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCAAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:41665684 original size:31 final size:31
Alignment explanation
Indices: 41665649--41665712 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
41665639 CGTTTACAGT
*
41665649 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
**
41665680 AAAGGCTTCGGCCCAGTGTTATGAAAAATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
41665711 AA
1 AA
41665713 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAAAATGA
Found at i:41668514 original size:28 final size:27
Alignment explanation
Indices: 41668481--41668533 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
41668471 TTAGAATACT
*
41668481 TTAGTTTACTAAAATTACCGAAATACGC
1 TTAGTTT-CTAAAAATACCGAAATACGC
* *
41668509 TTAGTTTGTAAAAATACTGAAATAC
1 TTAGTTTCTAAAAATACCGAAATAC
41668534 CCTCGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACCGAAATACGC
Found at i:41668520 original size:27 final size:27
Alignment explanation
Indices: 41668490--41668588 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
41668480 TTTAGTTTAC
41668490 TAAAATTACCGAAATACGCTTAG-TTTG
1 TAAAATTACCGAAATAC-CTTAGATTTG
* * * *
41668517 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTAGATTTG
* * *
41668544 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTAGATTTG
41668571 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
41668589 CCCGATTTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.10
27 56 0.90
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTAGATTTG
Found at i:41668589 original size:54 final size:54
Alignment explanation
Indices: 41668490--41668596 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
41668480 TTTAGTTTAC
* * *
41668490 TAAAATTACCGAAATACGCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
41668544 TAAAATTACTGAAATAC-CTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACGCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
41668597 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 7 0.16
54 38 0.84
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:41668604 original size:27 final size:27
Alignment explanation
Indices: 41668574--41668635 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
41668564 CGACTTGTAA
41668574 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
*** *
41668601 AATTACCATTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
41668628 AATTACCA
1 AATTACCA
41668636 TTTTACCCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:41668636 original size:27 final size:27
Alignment explanation
Indices: 41668585--41668778 Score: 113
Period size: 27 Copynumber: 6.8 Consensus size: 27
41668575 ATTACCAAAG
41668585 TACCCCCGATTTACAGAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
*
41668612 TACCCCCGATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
* * * *
41668639 TACCCTCGTTTTACCCTCGACTTACAGAATTACCGTTT
1 TACCCCCG-ATT----T--AC--AG--AATTACCATTT
* * *
41668677 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
* ** *
41668704 TATCGTCGATTTATAGAATTA-C-TGTT
1 TACCCCCGATTTACAGAATTACCAT-TT
** *
41668730 TACCCTTGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
41668757 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
41668779 TAAAATACCC
Statistics
Matches: 135, Mismatches: 18, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
25 1 0.01
26 20 0.15
27 83 0.61
28 3 0.02
29 1 0.01
31 2 0.01
32 1 0.01
33 1 0.01
34 2 0.01
36 1 0.01
37 2 0.01
38 18 0.13
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCATTT
Found at i:41668651 original size:38 final size:38
Alignment explanation
Indices: 41668609--41668690 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
41668599 AGAATTACCA
* *
41668609 TTTTACCCCCGATTTACATAATTACCATTTTACCCTCG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCTCG
* *
41668647 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCTCG
*
41668685 ATTTAC
1 TTTTAC
41668691 AGAATTATCG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.39
Consensus pattern (38 bp):
TTTTACCCCCGACTTACAGAATTACCATTTTACCCTCG
Found at i:41668779 original size:27 final size:27
Alignment explanation
Indices: 41668647--41668780 Score: 155
Period size: 27 Copynumber: 5.0 Consensus size: 27
41668637 TTTACCCTCG
* **
41668647 TTTTACCCTCGACTTACAGAATTACCG
1 TTTTACCCTCGATTTACAGAATTACTA
*
41668674 TTTTACCCTCGATTTACAGAATTA-TCG
1 TTTTACCCTCGATTTACAGAATTACT-A
* * *
41668701 TTTTATCGTCGATTTATAGAATTACT-
1 TTTTACCCTCGATTTACAGAATTACTA
* *
41668727 GTTTACCCTTGATTTACAGAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTA
*
41668754 TTTTACCCTCGATTTACAAAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTA
41668781 AAATACCCTT
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 21 0.23
27 69 0.76
28 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAGAATTACTA
Found at i:41668779 original size:53 final size:54
Alignment explanation
Indices: 41668647--41668779 Score: 171
Period size: 53 Copynumber: 2.5 Consensus size: 54
41668637 TTTACCCTCG
* * *
41668647 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTATCG
1 TTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTATCA
* * * *
41668701 TTTTATCGTCGATTTATAGAATTACTG-TTTACCCTTGATTTACAGAATTA-CTA
1 TTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTATC-A
*
41668754 TTTTACCCTCGATTTACAAAATTACT
1 TTTTACCCTCGATTTACAGAATTACT
41668780 AAAATACCCT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
52 1 0.01
53 44 0.66
54 22 0.33
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (54 bp):
TTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTATCA
Found at i:41668787 original size:27 final size:27
Alignment explanation
Indices: 41668730--41668969 Score: 162
Period size: 27 Copynumber: 8.8 Consensus size: 27
41668720 AATTACTGTT
* * ***
41668730 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACCAAAA
* *
41668757 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* **
41668784 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* **
41668811 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCAAAA
* *** *
41668838 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
** **
41668865 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* * *
41668892 TACCCCTGATTTACAAAGTTACAAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
*
41668919 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACCA-AAA
* *
41668948 TACCATTGGTTTACAAAATTAC
1 TACCCTTGATTTACAAAATTAC
41668970 TGAAATACTT
Statistics
Matches: 172, Mismatches: 33, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
27 148 0.86
28 7 0.04
29 17 0.10
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:41668815 original size:54 final size:55
Alignment explanation
Indices: 41668730--41668969 Score: 184
Period size: 54 Copynumber: 4.4 Consensus size: 55
41668720 AATTACTGTT
* * * *** * *
41668730 TACCCTTGATTTACAGAATTACTATTTTACCCTCGA-TTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCTCGACTTTGCAAAATTACCAAAA
** * * *
41668784 TACCCTTGGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCTCGACTTTGCAAAATTACCAAAA
*** * * *
41668838 TACCCTTGGTTTGTGAAATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCTCGACTTTGCAAAATTACCAAAA
* * * * * *
41668892 TACCCCTGATTTACAAAGTTACAAAAATACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCTCGACTTTGC--AAAATTACCA-AAA
*
41668948 TACCATTGGTTTACAAAATTAC
1 TACCCTTGGTTTACAAAATTAC
41668970 TGAAATACTT
Statistics
Matches: 149, Mismatches: 31, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
53 2 0.01
54 113 0.76
55 6 0.04
56 28 0.19
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (55 bp):
TACCCTTGGTTTACAAAATTACCAAAATACCCTCGACTTTGCAAAATTACCAAAA
Found at i:41668866 original size:81 final size:81
Alignment explanation
Indices: 41668772--41668926 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
41668762 TCGATTTACA
* *** * *
41668772 AAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA-AAA-TTACCA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTACAA
41668835 AAATACCCTTGGTTTGTG
64 AAATACCCTTGGTTTGTG
*
41668853 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAAAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAAAA
41668918 ATACCCTTG
66 ATACCCTTG
41668927 ACTTTCTAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
79 2 0.03
80 6 0.09
81 57 0.88
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAAAA
ATACCCTTGGTTTGTG
Found at i:41668974 original size:27 final size:27
Alignment explanation
Indices: 41668935--41668986 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
41668925 TGACTTTCTA
41668935 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
**
41668962 AAAATTACT-GAAATACTTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
41668987 CTTGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:41669078 original size:27 final size:27
Alignment explanation
Indices: 41669038--41669105 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
41669028 ATGCCCCTAT
* *
41669038 TAGGGTAAAGTGACCGTAA-AGCCCCTG
1 TAGGGTAAAATGACCGTAATA-CCACTG
41669065 TAGGGTAAAATGACCGTAATACCACTG
1 TAGGGTAAAATGACCGTAATACCACTG
*
41669092 TATGGTAAAATGAC
1 TAGGGTAAAATGAC
41669106 GAATATGCCC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATACCACTG
Found at i:41670175 original size:25 final size:25
Alignment explanation
Indices: 41670146--41670193 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41670136 TTATAACATG
* * *
41670146 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
41670171 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
41670194 GTTTGTGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:41670264 original size:9 final size:9
Alignment explanation
Indices: 41670236--41670288 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
41670226 ATAAACATGG
41670236 TATGTATGA
1 TATGTATGA
*
41670245 TATGCACATGA
1 TATG--TATGA
*
41670256 CATGTATGA
1 TATGTATGA
41670265 TATGCATATGA
1 TATG--TATGA
41670276 TATGTATGA
1 TATGTATGA
41670285 TATG
1 TATG
41670289 CACATGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (9 bp):
TATGTATGA
Found at i:41670274 original size:11 final size:11
Alignment explanation
Indices: 41670240--41670296 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
41670230 ACATGGTATG
41670240 TATGATATGCA
1 TATGATATGCA
* *
41670251 CATGACATG--
1 TATGATATGCA
41670260 TATGATATGCA
1 TATGATATGCA
41670271 TATGATATG--
1 TATGATATGCA
41670280 TATGATATGCA
1 TATGATATGCA
*
41670291 CATGAT
1 TATGAT
41670297 GTAATCATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (11 bp):
TATGATATGCA
Found at i:41670296 original size:20 final size:20
Alignment explanation
Indices: 41670230--41670296 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
41670220 ATTTTGATAA
*
41670230 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
41670250 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
41670270 ATATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
41670290 ACATGAT
1 ACATGAT
41670297 GTAATCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:41670402 original size:24 final size:23
Alignment explanation
Indices: 41670346--41670513 Score: 228
Period size: 24 Copynumber: 7.0 Consensus size: 23
41670336 GAGGAAGTGA
41670346 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
41670369 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
41670392 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
41670416 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
41670440 TAAAGGGATTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
41670463 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
41670488 AAAAGGGGCTTTTGCCTCCAGTTAT
1 AAAA-GGGCTTATGCC-CCAGTTAT
41670513 A
1 A
41670514 TGATAAAGCA
Statistics
Matches: 131, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
23 42 0.32
24 68 0.52
25 14 0.11
26 7 0.05
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:41670415 original size:47 final size:47
Alignment explanation
Indices: 41670346--41670513 Score: 230
Period size: 47 Copynumber: 3.5 Consensus size: 47
41670336 GAGGAAGTGA
*
41670346 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
41670392 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
41670440 TAAAGGGATTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
41670488 AAAAGGGGCTTTTGCCTCCAGTTATA
1 AAAA-GGGCTTATGCC-CCAGTTATA
41670514 TGATAAAGCA
Statistics
Matches: 107, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
47 64 0.60
48 25 0.23
49 9 0.08
50 9 0.08
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:41670462 original size:71 final size:71
Alignment explanation
Indices: 41670346--41670512 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
41670336 GAGGAAGTGA
* *
41670346 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGATTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
41670411 GTTATC
66 GTTATC
* *
41670417 AAAAGGGCTTACGCCCCAGTTATTAAAGGGATTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGATTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
41670482 GTTATT
66 GTTATC
*
41670488 AAAAGGGGCTTTTGCCTCCAGTTAT
1 AAAA-GGGCTTATGCC-CCAGTTAT
41670513 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
71 70 0.80
72 9 0.10
73 8 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGATTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:41670741 original size:31 final size:31
Alignment explanation
Indices: 41670706--41670769 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
41670696 CGTTTACAGT
*
41670706 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
**
41670737 AAAGGCTTCGGCCCAGTGTTATGAAAAATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
41670768 AA
1 AA
41670770 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAAAATGA
Found at i:41675867 original size:50 final size:50
Alignment explanation
Indices: 41675792--41676017 Score: 212
Period size: 50 Copynumber: 4.5 Consensus size: 50
41675782 TGAATACACG
* *
41675792 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGAGTCGCA
* * * * *
41675842 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTGAGTCGCA
* * *
41675893 TGTGTAGTACTAAGTGCAGGATACTACGTGTATCAGA-TGGTGAG--GTCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGAGTCG-CA
* ** * * *
41675941 TGTGTTTAGTACTAAGTGCAGGCTAATATATGTATCGGATTGTTG-GTCGCA
1 TGTG--TAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGAGTCGCA
41675992 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
41676018 TGCGCATCAG
Statistics
Matches: 143, Mismatches: 22, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
47 1 0.01
48 9 0.06
49 22 0.15
50 61 0.43
51 43 0.30
52 4 0.03
53 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGAGTCGCA
Found at i:41676017 original size:99 final size:99
Alignment explanation
Indices: 41675792--41676017 Score: 246
Period size: 101 Copynumber: 2.3 Consensus size: 99
41675782 TGAATACACG
* *
41675792 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTGAAGTC-CATGTGTAGTACTAAGT
* * *
41675857 GCAGGCTACTATGCGTACTCAATGACTTCGATCACG
65 GCAGGCTAATATACGTACTCAATGA-TTCGATCACA
* * *
41675893 TGTGTAGTACTAAGTGCAGGATACTACGTGTATCAGA-TGGTGAGGT-CATGTGTTTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTGAAGTCCATGTG--TAGTACTAA
* * * *
41675956 GTGCAGGCTAATATATGTA-TCGGATTG-TT-GGTCGCA
63 GTGCAGGCTAATATACGTACTC--AATGATTCGATCACA
41675992 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
41676018 TGCGCATCAG
Statistics
Matches: 107, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
99 35 0.33
100 5 0.05
101 64 0.60
102 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (99 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTGAAGTCCATGTGTAGTACTAAGTG
CAGGCTAATATACGTACTCAATGATTCGATCACA
Found at i:41677756 original size:27 final size:27
Alignment explanation
Indices: 41677726--41677924 Score: 204
Period size: 27 Copynumber: 7.4 Consensus size: 27
41677716 GGCATAATCG
* **
41677726 TCATTTTACCATATAGGGATATTACGA
1 TCATTTTACCCTATAGGGGCATTACGA
* * *
41677753 TCATTTTATCCTACAAGGGCATTAC-A
1 TCATTTTACCCTATAGGGGCATTACGA
* *
41677779 GTCATTTTACCCTACAGGGGCATTACGG
1 -TCATTTTACCCTATAGGGGCATTACGA
* * * * *
41677807 TAATTTTACCCTACAAGGGTATTATGA
1 TCATTTTACCCTATAGGGGCATTACGA
* *
41677834 TCATTTTACCCTATAGGGGCATTATGG
1 TCATTTTACCCTATAGGGGCATTACGA
*
41677861 TCATTTTACCCTACAGGGGCATTAC-A
1 TCATTTTACCCTATAGGGGCATTACGA
* *
41677887 GTCATTTTACCCTATAGGGGCATTATGG
1 -TCATTTTACCCTATAGGGGCATTACGA
41677915 TCATTTTACC
1 TCATTTTACC
41677925 TATTTTGGGG
Statistics
Matches: 143, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGCATTACGA
Found at i:41677783 original size:54 final size:54
Alignment explanation
Indices: 41677725--41677924 Score: 276
Period size: 54 Copynumber: 3.7 Consensus size: 54
41677715 GGGCATAATC
* ** * *
41677725 GTCATTTTACCATATAGGGATATTACGATCATTTTATCCTACAAGGGCATTACA
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAAGGGCATTACA
* * * *
41677779 GTCATTTTACCCTACAGGGGCATTACGGTAATTTTACCCTACAAGGGTATTA-T
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAAGGGCATTACA
* *
41677832 GATCATTTTACCCTATAGGGGCATTATGGTCATTTTACCCTACAGGGGCATTACA
1 G-TCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAAGGGCATTACA
*
41677887 GTCATTTTACCCTATAGGGGCATTATGGTCATTTTACC
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACC
41677925 TATTTTGGGG
Statistics
Matches: 129, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 127 0.98
55 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (54 bp):
GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAAGGGCATTACA
Found at i:41677830 original size:81 final size:80
Alignment explanation
Indices: 41677740--41677926 Score: 248
Period size: 81 Copynumber: 2.3 Consensus size: 80
41677730 TTTACCATAT
*
41677740 AGGGATATTACGATCATTTTATCCTACAAGGGCATTACAGTCATTTTACCCTACAGGGGCATTAC
1 AGGG-TATTATGATCATTTTA-CCTACAAGGGCATTACAGTCATTTTACCCTACAGGGGCATTAC
*
41677805 GGTAATTTTACCCTACA
64 AGTAATTTTACCCTACA
* * **
41677822 AGGGTATTATGATCATTTTACCCTATAGGGGCATTATGGTCATTTTACCCTACAGGGGCATTACA
1 AGGGTATTATGATCATTTTA-CCTACAAGGGCATTACAGTCATTTTACCCTACAGGGGCATTACA
* *
41677887 GTCATTTTACCCTATA
65 GTAATTTTACCCTACA
* * *
41677903 GGGGCATTATGGTCATTTTACCTA
1 AGGGTATTATGATCATTTTACCTA
41677927 TTTTGGGGTT
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 4 0.04
81 85 0.91
82 4 0.04
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (80 bp):
AGGGTATTATGATCATTTTACCTACAAGGGCATTACAGTCATTTTACCCTACAGGGGCATTACAG
TAATTTTACCCTACA
Found at i:41686557 original size:27 final size:27
Alignment explanation
Indices: 41686492--41686549 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
41686482 ATAATCATAC
41686492 ATCACATAGGGGCATAACAGTCATTTT
1 ATCACATAGGGGCATAACAGTCATTTT
* *
41686519 ATCACATGGGGGCATAATAGTCATTTT
1 ATCACATAGGGGCATAACAGTCATTTT
41686546 ATCA
1 ATCA
41686550 GTTAGGGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (27 bp):
ATCACATAGGGGCATAACAGTCATTTT
Found at i:41693869 original size:40 final size:40
Alignment explanation
Indices: 41693820--41694007 Score: 281
Period size: 40 Copynumber: 4.7 Consensus size: 40
41693810 GCTACTTGCT
*
41693820 CAAACGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
41693860 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
41693900 CAAGTGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * *
41693940 CAAATGCCTTCGGG-CTTAGCCC-GAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
41693979 CAAATGCCTTTGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
41694008 CATCCGAATA
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
38 3 0.02
39 31 0.23
40 99 0.73
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:41699140 original size:30 final size:31
Alignment explanation
Indices: 41699082--41699141 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
41699072 TACTAATAAG
**
41699082 AAACGAGCTAGAAGGAAGCTAAAATGAGCTC
1 AAACGAGCTAGAAACAAGCTAAAATGAGCTC
* *
41699113 AAACGAGCT-GAAACAAGCTTAAGTGAGCT
1 AAACGAGCTAGAAACAAGCTAAAATGAGCT
41699142 GGTTGGGGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.15
Consensus pattern (31 bp):
AAACGAGCTAGAAACAAGCTAAAATGAGCTC
Found at i:41703090 original size:40 final size:40
Alignment explanation
Indices: 41703035--41703186 Score: 250
Period size: 40 Copynumber: 3.8 Consensus size: 40
41703025 TATTCGGATG
* * *
41703035 ATATCCAGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
41703075 ATATCCGGGCTAAGTCCAGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
41703115 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
41703155 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
41703187 GAGTTTGTGA
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:41709540 original size:40 final size:40
Alignment explanation
Indices: 41709485--41709726 Score: 373
Period size: 40 Copynumber: 6.1 Consensus size: 40
41709475 CGGATGATAA
* * *
41709485 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAATGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
41709525 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
41709565 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTA-TATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
41709603 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
41709643 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
41709683 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
41709723 CCGG
1 CCGG
41709727 TTAAAGCCCG
Statistics
Matches: 188, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
38 16 0.09
39 44 0.23
40 127 0.68
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:41709693 original size:118 final size:119
Alignment explanation
Indices: 41709485--41709714 Score: 374
Period size: 118 Copynumber: 1.9 Consensus size: 119
41709475 CGGATGATAA
*
41709485 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAATGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
** *
41709550 TGCGAGTTACTATATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTATATAT
66 TGCGAACTACTATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTATATAT
* * *
41709603 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATATCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTT
41709667 GTGCGAACTACTATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
65 GTGCGAACTACTATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
41709715 GGCTATATCC
Statistics
Matches: 103, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
117 3 0.03
118 81 0.79
119 19 0.18
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAACTACTATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTATATAT
Found at i:41714008 original size:29 final size:29
Alignment explanation
Indices: 41713975--41714048 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
41713965 GTGACGAGAT
41713975 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
41714004 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
41714033 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41714049 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:41714064 original size:29 final size:29
Alignment explanation
Indices: 41714032--41714107 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
41714022 CTGGAAATAT
* *
41714032 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
41714061 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
41714090 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
41714108 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:41714075 original size:58 final size:58
Alignment explanation
Indices: 41713975--41714107 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
41713965 GTGACGAGAT
* * * * * *
41713975 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
41714033 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
41714091 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
41714108 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:41716936 original size:26 final size:26
Alignment explanation
Indices: 41716907--41716957 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
41716897 TGCATTACTG
41716907 TTACTGGCAGCTCTACTGTGATATTA
1 TTACTGGCAGCTCTACTGTGATATTA
* *
41716933 TTACTGGCAGCTTTGCTGTGATATT
1 TTACTGGCAGCTCTACTGTGATATT
41716958 GGTGTGTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.41
Consensus pattern (26 bp):
TTACTGGCAGCTCTACTGTGATATTA
Found at i:41718275 original size:14 final size:16
Alignment explanation
Indices: 41718251--41718283 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
41718241 ATTTTCTATG
41718251 TTTATTATGTGT-GAA
1 TTTATTATGTGTGGAA
41718266 TTTA-TATGTGTGGAA
1 TTTATTATGTGTGGAA
41718281 TTT
1 TTT
41718284 TCATGATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (16 bp):
TTTATTATGTGTGGAA
Found at i:41722220 original size:40 final size:40
Alignment explanation
Indices: 41722167--41722362 Score: 277
Period size: 40 Copynumber: 4.9 Consensus size: 40
41722157 CGGATTAGCT
* * *
41722167 ACTCGCTCAAATGCCTTCGGGACATAGCACGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * *
41722207 GCTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
41722247 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
41722287 ACTCACACAAATGCCTTCGGGACTTAGCTCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
41722327 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTT
41722363 CATCCGAATA
Statistics
Matches: 138, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 136 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:41728056 original size:3 final size:3
Alignment explanation
Indices: 41728041--41728083 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
41728031 ATTTCTTTTA
41728041 TAT TAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
41728084 ACCTATATGG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:41730097 original size:40 final size:40
Alignment explanation
Indices: 41730053--41730391 Score: 491
Period size: 40 Copynumber: 8.4 Consensus size: 40
41730043 ACTCGATTGT
* * * * *
41730053 CTTCGGGACATAGCCCGGTTATAGTAA-TCCGCACAATTGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACT-CGCACAAATGC
*
41730093 CTTCGGGACTTAACCCGGTTTTGGTAACTTGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
41730133 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
* * * *
41730173 CTTCGGGACTTAACCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
41730213 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
41730253 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
41730293 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
* * * * * * *
41730333 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGTTTTGGTAAC-TCGCACAAATGC
*
41730374 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
41730392 ATACCATTCG
Statistics
Matches: 272, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
40 246 0.90
41 26 0.10
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
Found at i:41739440 original size:27 final size:27
Alignment explanation
Indices: 41739416--41739621 Score: 187
Period size: 27 Copynumber: 7.6 Consensus size: 27
41739406 TTAGTTTACC
*
41739416 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
41739443 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
41739470 AAATTACTAAAATAGCCTTTGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
*
41739497 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* ** * *
41739524 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCTTGGTTTATA
** ***
41739551 AAATTACTGAAATACCCTTGACCTATA
1 AAATTACCAAAATACCCTTGGTTTATA
** * ** *
41739578 AAATTATTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*
41739605 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
41739622 CTAATTTATA
Statistics
Matches: 145, Mismatches: 34, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTATA
Found at i:41739549 original size:81 final size:81
Alignment explanation
Indices: 41739416--41739637 Score: 266
Period size: 81 Copynumber: 2.7 Consensus size: 81
41739406 TTAGTTTACC
** * **
41739416 AAATTACCAAAATACCCTTGGTTTACAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAA
* **
41739481 ATAGCCTTTG-TTTATA
66 ATA-CCCTTGACCTATA
* *
41739497 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAA
41739562 ATACCCTTGACCTATA
66 ATACCCTTGACCTATA
** * ** * * *
41739578 AAATTATTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCTAATTTATAGAATTA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTA
41739638 TCGTTTTACC
Statistics
Matches: 121, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
80 5 0.04
81 116 0.96
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAA
ATACCCTTGACCTATA
Found at i:41739647 original size:27 final size:26
Alignment explanation
Indices: 41739620--41739863 Score: 190
Period size: 27 Copynumber: 9.1 Consensus size: 26
41739610 ACCAAAGTAC
*
41739620 CCCT-AATTTATAGAATTATCGTTTTA
1 CCCTCAATTTACAGAATTA-CGTTTTA
* *
41739646 CCCTCGATTTTACAAAATTATCGTTTTA
1 CCCTC-AATTTACAGAATTA-CGTTTTA
* *
41739674 CCCTCGA-TTATAGAATTACCGTTTTA
1 CCCTCAATTTACAGAATTA-CGTTTTA
41739700 CCCT-AGATTTACAGAATTATCGTTTTA
1 CCCTCA-ATTTACAGAATTA-CGTTTTA
* * *
41739727 CCCTCGATTGA-AGAATTACTATTTTA
1 CCCTCAATTTACAGAATTAC-GTTTTA
* * *
41739753 CCCCCGATTTACAAAATTACTGTTTTA
1 CCCTCAATTTACAGAATTAC-GTTTTA
* * *
41739780 CCCTCGATTTAAAAAATTACTGTTTTA
1 CCCTCAATTTACAGAATTAC-GTTTTA
*
41739807 CCCTCAATTTACAGAATTACCATTTTA
1 CCCTCAATTTACAGAATTA-CGTTTTA
* * * *
41739834 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCAATTTACAGAATTA-CGTTTTA
41739861 CCC
1 CCC
41739864 CTAGGGTGTT
Statistics
Matches: 183, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
25 1 0.01
26 46 0.25
27 111 0.61
28 25 0.14
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (26 bp):
CCCTCAATTTACAGAATTACGTTTTA
Found at i:41739734 original size:53 final size:54
Alignment explanation
Indices: 41739625--41739863 Score: 279
Period size: 54 Copynumber: 4.4 Consensus size: 54
41739615 AGTACCCCTA
* *
41739625 ATTTATAGAATTATCGTTTTACCCTCGATTTTACAAAATTATCGTTTTACCCTCG
1 ATTTATAGAATTACCGTTTTACCCTAGA-TTTACAAAATTATCGTTTTACCCTCG
*
41739680 A-TTATAGAATTACCGTTTTACCCTAGATTTACAGAATTATCGTTTTACCCTCG
1 ATTTATAGAATTACCGTTTTACCCTAGATTTACAAAATTATCGTTTTACCCTCG
* ** **
41739733 ATTGA-AGAATTACTATTTTACCCCCGATTTACAAAATTA-CTGTTTTACCCTCG
1 ATTTATAGAATTACCGTTTTACCCTAGATTTACAAAATTATC-GTTTTACCCTCG
* * * * * *
41739786 ATTTAAAAAATTACTGTTTTACCCTCA-ATTTACAGAATTACCATTTTACCCTCG
1 ATTTATAGAATTACCGTTTTACCCT-AGATTTACAAAATTATCGTTTTACCCTCG
* *
41739840 ATTTATAAAATTACCATTTTACCC
1 ATTTATAGAATTACCGTTTTACCC
41739864 CTAGGGTGTT
Statistics
Matches: 160, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
52 1 0.01
53 71 0.44
54 86 0.54
55 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (54 bp):
ATTTATAGAATTACCGTTTTACCCTAGATTTACAAAATTATCGTTTTACCCTCG
Found at i:41740332 original size:6 final size:6
Alignment explanation
Indices: 41740323--41740399 Score: 102
Period size: 6 Copynumber: 12.8 Consensus size: 6
41740313 ATTTTGTTAC
* **
41740323 CTGATA CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CCAATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT
*
41740371 CTGATT CCGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGA-TT CTGAT
41740400 AATGTTTCTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
5 1 0.02
6 60 0.97
7 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.45
Consensus pattern (6 bp):
CTGATT
Found at i:41742370 original size:27 final size:27
Alignment explanation
Indices: 41742346--41742624 Score: 234
Period size: 27 Copynumber: 10.3 Consensus size: 27
41742336 TTAGTTTACC
* *
41742346 AAATTACAAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
41742373 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
41742400 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
41742427 AAATTACCAAAATACCCCTTAGTTTGTA
1 AAATTACCAAAATA-CCCTTGGTTTATA
* * *
41742455 AAATTACCAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * * *
41742482 AAATTATCAAAATACCCCTAGTTTTTA
1 AAATTACCAAAATACCCTTGGTTTATA
* ** * *
41742509 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCTTGGTTTATA
* * * *
41742536 AAATTACTAAAATACCCTTGATCTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*** **** *
41742563 AAATTATTGAAATACCCTCAACTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
41742590 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
*
41742617 GAATTACC
1 AAATTACC
41742625 GTTTTACCCT
Statistics
Matches: 209, Mismatches: 42, Indels: 2
0.83 0.17 0.01
Matches are distributed among these distances:
27 184 0.88
28 25 0.12
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTATA
Found at i:41742412 original size:54 final size:54
Alignment explanation
Indices: 41742346--41742606 Score: 265
Period size: 54 Copynumber: 4.8 Consensus size: 54
41742336 TTAGTTTACC
* * * *
41742346 AAATTACAAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTAGTTTGTA
*
41742400 AAATTACTAAAATACCCTTTG-TTTATAAAATTACCAAAATACCCCTTAGTTTGTA
1 AAATTACCAAAATACCC-TTGATTTATAAAATTACCAAAATACCCC-TAGTTTGTA
* * * *
41742455 AAATTACCAAAATACCCCTGATTTGTAAAATTATCAAAATACCCCTAGTTTTTA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTAGTTTGTA
* * * * * * *
41742509 AAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAATA-CCCTTGATCTGTA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTAG-TTTGTA
*** ** * * *
41742563 AAATTATTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCC
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCC
41742607 TTGATTTATA
Statistics
Matches: 178, Mismatches: 24, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
53 5 0.03
54 122 0.69
55 51 0.29
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:41742480 original size:82 final size:81
Alignment explanation
Indices: 41742336--41742606 Score: 312
Period size: 81 Copynumber: 3.3 Consensus size: 81
41742326 TTAGAATACT
** * * ** *
41742336 TTAGTTTACCAAATTACAAAAATA-CCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
1 TTAGTTTATAAAATTACCAAAATACCCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
41742400 AAATTACTAAAATACCC
66 AAATTA-TAAAATACCC
*
41742417 TTTGTTTATAAAATTACCAAAATACCCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
1 TTAGTTTATAAAATTACCAAAATACCCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
41742482 AAATTATCAAAATACCC
66 AAATTAT-AAAATACCC
* * * * * * *
41742499 CTAGTTTTTAAAATTACCAAAATACCCC-TAATTTGTGAAATTACTAAAATACCCTTGATCTGTA
1 TTAGTTTATAAAATTACCAAAATACCCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
*
41742563 AAATTATTGAAATACCC
66 AAATTA-TAAAATACCC
* ** * *
41742580 TCAACTTGTAAAATTACCAAAGTACCC
1 TTAGTTTATAAAATTACCAAAATACCC
41742607 TTGATTTATA
Statistics
Matches: 164, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
81 87 0.53
82 77 0.47
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.32
Consensus pattern (81 bp):
TTAGTTTATAAAATTACCAAAATACCCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
AAATTATAAAATACCC
Found at i:41742632 original size:27 final size:27
Alignment explanation
Indices: 41742602--41742876 Score: 334
Period size: 27 Copynumber: 10.2 Consensus size: 27
41742592 ATTACCAAAG
* *
41742602 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * **
41742629 TACCCTCAATTTACAAAATTATTGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* ***
41742656 TACCCTCGATTTATAGAATTATTTTTT
1 TACCCTCGATTTATAAAATTACCGTTT
41742683 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* **
41742710 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * *
41742737 TACCTTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * * *
41742764 TACCCTCGATTGACAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
**
41742791 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTATAAAATTACCGTTT
*
41742818 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
*
41742845 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTT
41742872 TACCC
1 TACCC
41742877 CTAGGGTGTT
Statistics
Matches: 215, Mismatches: 33, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 215 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCGTTT
Found at i:41742647 original size:81 final size:81
Alignment explanation
Indices: 41742562--41742730 Score: 194
Period size: 81 Copynumber: 2.1 Consensus size: 81
41742552 CTTGATCTGT
* * *
41742562 AAAATTATTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCCTTGATTTATAGAATTACCGT
1 AAAATTATTGAAATACCCTCAACTTATAAAATTACCAAAGTACCCTCGATTTATAAAATTACCGT
41742627 TTTACCCTCAATTTAC
66 TTTACCCTCAATTTAC
*** * * * ******
41742643 AAAATTATTGTTTTACCCTCGATTTATAGAATTATTTTTTTACCCTCGATTTATAAAATTACCGT
1 AAAATTATTGAAATACCCTCAACTTATAAAATTACCAAAGTACCCTCGATTTATAAAATTACCGT
*
41742708 TTTACCCTCGATTTAC
66 TTTACCCTCAATTTAC
41742724 AAAATTA
1 AAAATTA
41742731 CTATTTTACC
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (81 bp):
AAAATTATTGAAATACCCTCAACTTATAAAATTACCAAAGTACCCTCGATTTATAAAATTACCGT
TTTACCCTCAATTTAC
Found at i:41742738 original size:81 final size:81
Alignment explanation
Indices: 41742602--41742876 Score: 406
Period size: 81 Copynumber: 3.4 Consensus size: 81
41742592 ATTACCAAAG
* * * * *
41742602 TACCCTTGATTTATAGAATTACCGTTTTACCCTCAATTTACAAAATTATTGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
***
41742667 TATAGAATTATTTTTT
66 TATAGAATTACCGTTT
*
41742683 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCTTCGATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
*
41742748 TACAGAATTACCGTTT
66 TATAGAATTACCGTTT
* * * * *
41742764 TACCCTCGATTGACAGAATTACTGTTTTACCCTCGATTTATAAAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
41742829 TATAGAATTACCGTTT
66 TATAGAATTACCGTTT
*
41742845 TACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTATAAAATTACCGTTTTACCC
41742877 CTAGGGTGTT
Statistics
Matches: 172, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 172 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
TATAGAATTACCGTTT
Found at i:41743302 original size:6 final size:6
Alignment explanation
Indices: 41743271--41743333 Score: 67
Period size: 6 Copynumber: 10.3 Consensus size: 6
41743261 TTGCATTCAC
* *
41743271 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
41743320 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
41743334 AAAGTTTCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
5 3 0.06
6 40 0.83
7 4 0.08
8 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:41745732 original size:48 final size:48
Alignment explanation
Indices: 41745661--41745951 Score: 537
Period size: 48 Copynumber: 6.1 Consensus size: 48
41745651 TGTACAAGAT
*
41745661 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
41745709 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATTTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
41745757 AAATATGTGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
41745805 AAATATGTGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
41745853 AAATATGTGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
41745901 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
41745949 AAA
1 AAA
41745952 GGTGTGTATT
Statistics
Matches: 238, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 238 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:41746101 original size:37 final size:37
Alignment explanation
Indices: 41746057--41746159 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
41746047 GGAATTATAT
41746057 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
41746094 TCCGGGTAAGACTCGATGACTACATGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
41746131 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
41746160 GGACTATTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:41754325 original size:39 final size:39
Alignment explanation
Indices: 41754227--41754415 Score: 319
Period size: 39 Copynumber: 4.9 Consensus size: 39
41754217 AATGTTCGAG
41754227 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
41754266 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
41754304 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
41754343 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
41754382 TGATATCCGGGTTAAGTCCC-AAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
41754416 GGTTACCATA
Statistics
Matches: 144, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
38 38 0.26
39 103 0.72
40 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:41754431 original size:78 final size:78
Alignment explanation
Indices: 41754226--41754445 Score: 318
Period size: 78 Copynumber: 2.8 Consensus size: 78
41754216 GAATGTTCGA
41754226 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGAT-ACCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATAACCGGGCTAAGCCCGAAGGC
41754290 AATTGTGCGAGCT
66 AATTGTGCGAGCT
* *
41754303 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATAACCGGGCTAAGCCCGAAGGC
*
41754368 AATTGTGCGAGTT
66 AATTGTGCGAGCT
* * * * ** *
41754381 GTGATATCCGGGTTAAGTCCC-AAGGCATTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTATGATAACCGGGCTAAG-CCCGAAG
41754445 G
64 G
41754446 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
77 43 0.34
78 74 0.58
79 11 0.09
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.22
Consensus pattern (78 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATAACCGGGCTAAGCCCGAAGGC
AATTGTGCGAGCT
Found at i:41762301 original size:39 final size:39
Alignment explanation
Indices: 41762203--41762340 Score: 269
Period size: 39 Copynumber: 3.6 Consensus size: 39
41762193 AATGTTCGAG
41762203 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
41762242 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
41762280 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
41762319 TGATATCCGGGCTAAGCCCGAA
1 TGATATCCGGGCTAAGCCCGAA
41762341 TTGCGAGTTG
Statistics
Matches: 98, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
38 38 0.39
39 60 0.61
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:41762355 original size:32 final size:32
Alignment explanation
Indices: 41762310--41762372 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
41762300 AAGGCAATTG
41762310 TGCGAGCTATGATATCCGGGCTAAG-CCCGAAT
1 TGCGAGCTATGATAT-CGGGCTAAGTCCCGAAT
* * *
41762342 TGCGAGTTGTGATATCGGGTTAAGTCCCGAA
1 TGCGAGCTATGATATCGGGCTAAGTCCCGAA
41762373 GGCATTTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (32 bp):
TGCGAGCTATGATATCGGGCTAAGTCCCGAAT
Found at i:41762400 original size:71 final size:72
Alignment explanation
Indices: 41762203--41762412 Score: 212
Period size: 71 Copynumber: 2.9 Consensus size: 72
41762193 AATGTTCGAG
**
41762203 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGAT-ACCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGTCCC----G-
41762266 AATTGTGCGAGCTA
61 AA-T-TGCGAGCTA
** *
41762280 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAG-CCCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGTCCCGAATTG
* *
41762344 CGAGTTG
66 CGAGCTA
* * * * *
41762351 TGATAT-CGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGTCCCGAA
41762413 GGTGTTTTGA
Statistics
Matches: 119, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
70 8 0.07
71 45 0.38
72 7 0.06
73 2 0.02
74 1 0.01
77 43 0.36
78 13 0.11
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.22
Consensus pattern (72 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGTCCCGAATTG
CGAGCTA
Found at i:41770806 original size:25 final size:25
Alignment explanation
Indices: 41770796--41770848 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
41770786 TTGTGTGGGT
41770796 ATACTTATTCACAGCTCATGTGAGC
1 ATACTTATTCACAGCTCATGTGAGC
* *
41770821 ATACTTATTCATAGCTCGTGTGAGC
1 ATACTTATTCACAGCTCATGTGAGC
41770846 ATA
1 ATA
41770849 TATGTAAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (25 bp):
ATACTTATTCACAGCTCATGTGAGC
Found at i:41775564 original size:15 final size:15
Alignment explanation
Indices: 41775544--41775588 Score: 90
Period size: 15 Copynumber: 3.0 Consensus size: 15
41775534 CAAGGTCGTC
41775544 AAGCAACCATGCGAT
1 AAGCAACCATGCGAT
41775559 AAGCAACCATGCGAT
1 AAGCAACCATGCGAT
41775574 AAGCAACCATGCGAT
1 AAGCAACCATGCGAT
41775589 CCTCATATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (15 bp):
AAGCAACCATGCGAT
Found at i:41776114 original size:57 final size:57
Alignment explanation
Indices: 41776060--41776168 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 57
41776050 CTATATATAG
* *
41776060 CCCACTAGGCCC-AATCTCTTTCATATGGCCCATGAGGCCCAAATCACATTTATATGT
1 CCCACTAGGCCCAAATCACATTCATATGG-CCATGAGGCCCAAATCACATTTATATGT
* *
41776117 CCCATTAGGCCCAAATCACATTCATATGGCCATTAGGCCCAAATCACATTTA
1 CCCACTAGGCCCAAATCACATTCATATGGCCATGAGGCCCAAATCACATTTA
41776169 CAGTCATGCT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
57 33 0.70
58 14 0.30
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (57 bp):
CCCACTAGGCCCAAATCACATTCATATGGCCATGAGGCCCAAATCACATTTATATGT
Found at i:41776115 original size:29 final size:29
Alignment explanation
Indices: 41776053--41776168 Score: 148
Period size: 28 Copynumber: 4.1 Consensus size: 29
41776043 CACATACCTA
* * *
41776053 TATATAGCCCACTAGGCCC-AATCTC-TT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
41776080 TCATATGGCCCATGAGGCCCAAATCACATT
1 T-ATATGGCCCATTAGGCCCAAATCACATT
*
41776110 TATATGTCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
41776139 CATATGG-CCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
41776167 TA
1 TA
41776169 CAGTCATGCT
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
27 1 0.01
28 37 0.48
29 36 0.47
30 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:41776164 original size:28 final size:28
Alignment explanation
Indices: 41776065--41776166 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 28
41776055 TATAGCCCAC
* *
41776065 TAGGCCC-AATCTCTTTCATATGGCCCAT
1 TAGGCCCAAATCACATTCATATGG-CCAT
* * *
41776093 GAGGCCCAAATCACATTTATATGTCCCAT
1 TAGGCCCAAATCACATTCATATG-GCCAT
41776122 TAGGCCCAAATCACATTCATATGGCCAT
1 TAGGCCCAAATCACATTCATATGGCCAT
41776150 TAGGCCCAAATCACATT
1 TAGGCCCAAATCACATT
41776167 TACAGTCATG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
28 27 0.42
29 37 0.58
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
TAGGCCCAAATCACATTCATATGGCCAT
Found at i:41783374 original size:27 final size:27
Alignment explanation
Indices: 41783111--41783373 Score: 305
Period size: 27 Copynumber: 9.7 Consensus size: 27
41783101 TACTGAAATG
** *
41783111 CCCTCGATTTGTAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
**
41783138 CCCTC-AGTTTACAGAATTACTATTTTA
1 CCCTCGA-TTTACAGAATTACCGTTTTA
* *
41783165 CCCTCGATATATAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
41783192 CCC-CTAATTTACATAATTACCATTTTA
1 CCCTC-GATTTACAGAATTACCGTTTTA
* * *
41783219 CCCCCGATTTACATAATTATCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
41783246 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
41783273 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* **
41783300 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
41783327 CCCTTGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
41783354 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTACAGAATTAC
41783374 TAAAATACCC
Statistics
Matches: 202, Mismatches: 30, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 198 0.98
28 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:41783384 original size:81 final size:81
Alignment explanation
Indices: 41783111--41783373 Score: 352
Period size: 81 Copynumber: 3.2 Consensus size: 81
41783101 TACTGAAATG
** * *
41783111 CCCTCGATTTGTAAAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATAT
1 CCCTCGATTTACAAAATTACCATTTTACCCTCGA-TTTACAGAATTACTATTTTACCCTCGATTT
41783175 ATAGAATTACCGTTTTA
65 ATAGAATTACCGTTTTA
* * * * *
41783192 CCC-CTAATTTACATAATTACCATTTTACCCCCGATTTACATAATTA-TCGTTTTACCCTCGATT
1 CCCTC-GATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACT-ATTTTACCCTCGATT
41783255 TATAGAATTACCGTTTTA
64 TATAGAATTACCGTTTTA
* * *
41783273 CCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTA
1 CCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTA
* *
41783338 CAGAATTACTGTTTTA
66 TAGAATTACCGTTTTA
41783354 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTACAAAATTAC
41783374 TAAAATACCC
Statistics
Matches: 158, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
80 2 0.01
81 153 0.97
82 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
CCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTA
TAGAATTACCGTTTTA
Found at i:41783397 original size:27 final size:27
Alignment explanation
Indices: 41783366--41783437 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
41783356 CTCGATTTAC
**
41783366 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTTAATTTGT
* **
41783393 GAAATTACTGCAATACCCTTAATTTGT
1 AAAATTACTAAAATACCCTTAATTTGT
* *
41783420 AAAACTACCAAAATACCC
1 AAAATTACTAAAATACCC
41783438 CTGTATGGTA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTAATTTGT
Found at i:41783410 original size:81 final size:81
Alignment explanation
Indices: 41783244--41783417 Score: 188
Period size: 81 Copynumber: 2.1 Consensus size: 81
41783234 ATTATCGTTT
* * * ***
41783244 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
***
41783309 TATAGAATTACTATTT
66 TATAGAATTACTACAA
* * * *
41783325 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* *
41783390 TGT-GAAATTACTGCAA
66 TATAG-AATTACTACAA
*
41783406 TACCCTTAATTT
1 TACCCTTGATTT
41783418 GTAAAACTAC
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
80 1 0.01
81 75 0.99
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
TATAGAATTACTACAA
Found at i:41784802 original size:24 final size:24
Alignment explanation
Indices: 41784745--41784958 Score: 310
Period size: 24 Copynumber: 9.0 Consensus size: 24
41784735 GGAGGAAGTG
41784745 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
41784769 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
41784792 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
41784816 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
41784840 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
41784863 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
41784887 -TAAAGGGCTTATGCCCCAGTGAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
41784910 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
41784934 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
41784959 ATGATAAAGC
Statistics
Matches: 174, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
23 65 0.37
24 98 0.56
25 11 0.06
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:41784814 original size:47 final size:47
Alignment explanation
Indices: 41784746--41784958 Score: 313
Period size: 47 Copynumber: 4.5 Consensus size: 47
41784736 GAGGAAGTGC
*
41784746 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
41784792 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
*
41784840 TAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
* * * *
41784887 TAAAGGGCTTATGCCCCAGTGATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
*
41784935 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
41784959 ATGATAAAGC
Statistics
Matches: 154, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
47 112 0.73
48 32 0.21
49 10 0.06
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:41784861 original size:71 final size:71
Alignment explanation
Indices: 41784745--41784958 Score: 342
Period size: 71 Copynumber: 3.0 Consensus size: 71
41784735 GGAGGAAGTG
41784745 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
41784810 AGTTAT
66 AGTTAT
41784816 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
41784881 AGTTAT
66 AGTTAT
* * * * *
41784887 -TAAAGGGCTTATGCCCCAGTGATTAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCC
1 CAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC
41784950 TCCAGTTAT
64 -CCAGTTAT
41784959 ATGATAAAGC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
70 22 0.16
71 102 0.76
72 11 0.08
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:41787456 original size:55 final size:55
Alignment explanation
Indices: 41787350--41787477 Score: 132
Period size: 55 Copynumber: 2.3 Consensus size: 55
41787340 CGAGCCTGCC
* * *
41787350 AAAACAACACAGGCGTGTGACACACCTGTGTGGAAGAACTGTGGGCGAACCTATT
1 AAAACAACACAGGCGTGTGACACACCTGTGTGGAACAACTATGGGCAAACCTATT
* * * * * *
41787405 AAAACAGCACGGGCGT-TCGACACGCCTGTGTGGAACACCTATGGTCAAACCTGTT
1 AAAACAACACAGGCGTGT-GACACACCTGTGTGGAACAACTATGGGCAAACCTATT
**
41787460 AAATTAACACAGGGCGTG
1 AAAACAACACA-GGCGTG
41787478 GGGCTTGTAC
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
54 1 0.02
55 51 0.89
56 5 0.09
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (55 bp):
AAAACAACACAGGCGTGTGACACACCTGTGTGGAACAACTATGGGCAAACCTATT
Found at i:41788105 original size:120 final size:121
Alignment explanation
Indices: 41787888--41788108 Score: 293
Period size: 122 Copynumber: 1.8 Consensus size: 121
41787878 TCATTTTTCC
* ** * * *
41787888 ATCATTTAATTTGCATTCTTAGATTAGTTATCATACATTTTATGTTAAGTCAAGTTATTAGGAAC
1 ATCATTTAATTTGCATTCTAAGATTAGTTATCATACATTCCATATTAAATCAAG-TATTAGGAAA
* *
41787953 ACCTCATACCCATGACATTACTATTTTTATTCTCATGCTATTACCATGCCAATGTAT
65 ACCTCATACCCATGACATTACTATTCTCATTCTCATGCTATTACCATGCCAATGTAT
* **
41788010 ATCATTTAATTTGCATTCCTAAG-TTAGTTATCATACATTCCGTATTAAATTGAG-ATTAGGAAA
1 ATCATTTAATTTGCATT-CTAAGATTAGTTATCATACATTCCATATTAAATCAAGTATTAGGAAA
* *
41788073 ACCTCATACCCATTACATTTCTATTCTCATTCTCAT
65 ACCTCATACCCATGACATTACTATTCTCATTCTCAT
41788109 TGTTAGTGTG
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
120 40 0.47
122 41 0.48
123 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (121 bp):
ATCATTTAATTTGCATTCTAAGATTAGTTATCATACATTCCATATTAAATCAAGTATTAGGAAAA
CCTCATACCCATGACATTACTATTCTCATTCTCATGCTATTACCATGCCAATGTAT
Found at i:41793232 original size:30 final size:30
Alignment explanation
Indices: 41793196--41793255 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
41793186 TTCCCGAGTC
41793196 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
41793226 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
41793256 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:41793979 original size:49 final size:50
Alignment explanation
Indices: 41793899--41794131 Score: 299
Period size: 49 Copynumber: 4.7 Consensus size: 50
41793889 AGCTATTGTG
*
41793899 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
41793949 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * **
41793999 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
41794049 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
41794099 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
41794132 TGCGTACCTG
Statistics
Matches: 160, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
49 73 0.46
50 48 0.30
51 39 0.24
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:41811480 original size:39 final size:40
Alignment explanation
Indices: 41811399--41811564 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
41811389 AAATTGAATG
* * ** *
41811399 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * *
41811438 ATATCCGGGTTAA-ACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* *
41811477 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
41811517 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
41811557 ATATCCGG
1 ATATCCGG
41811565 TTATATTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
39 45 0.43
40 57 0.55
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:41819439 original size:40 final size:40
Alignment explanation
Indices: 41819380--41819521 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
41819370 AAATTGAATG
* * *
41819380 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
41819420 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
41819460 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
41819500 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
41819522 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:41819522 original size:40 final size:39
Alignment explanation
Indices: 41819419--41819547 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
41819409 TGCTGGAAAT
* * *
41819419 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
41819459 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
41819499 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
41819539 TATATCCGG
1 TATATCCGG
41819548 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:41822859 original size:14 final size:13
Alignment explanation
Indices: 41822836--41822867 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
41822826 GGGCTATCAA
41822836 AACAATAATTAAG
1 AACAATAATTAAG
41822849 AACACATAATTAAG
1 AACA-ATAATTAAG
41822863 AACAA
1 AACAA
41822868 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:41825621 original size:25 final size:25
Alignment explanation
Indices: 41825593--41825643 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
41825583 CCCTTATAAC
* * *
41825593 GTGAAAATGACCTTTTTACCCTTAG
1 GTGAAAATGACCATTATACCCCTAG
41825618 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
41825643 G
1 G
41825644 GTTATGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:41825708 original size:21 final size:22
Alignment explanation
Indices: 41825683--41825733 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
41825673 CTGTTTTTGT
41825683 ACATGATATGC-CATGATATGC
1 ACATGATATGCACATGATATGC
41825704 ACATGATATGCACATGATATGC
1 ACATGATATGCACATGATATGC
41825726 -CATGATAT
1 ACATGATAT
41825734 ATTCACATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (22 bp):
ACATGATATGCACATGATATGC
Found at i:41825710 original size:11 final size:11
Alignment explanation
Indices: 41825683--41825733 Score: 88
Period size: 11 Copynumber: 4.8 Consensus size: 11
41825673 CTGTTTTTGT
41825683 ACATGATATGC
1 ACATGATATGC
41825694 -CATGATATGC
1 ACATGATATGC
41825704 ACATGATATGC
1 ACATGATATGC
41825715 ACATGATATGC
1 ACATGATATGC
41825726 -CATGATAT
1 ACATGATAT
41825734 ATTCACATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.46
11 21 0.54
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (11 bp):
ACATGATATGC
Found at i:41825814 original size:25 final size:25
Alignment explanation
Indices: 41825780--41825849 Score: 140
Period size: 25 Copynumber: 2.8 Consensus size: 25
41825770 AGGAAGTGCT
41825780 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
41825805 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
41825830 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
41825850 ATTAAAAGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:41829345 original size:29 final size:29
Alignment explanation
Indices: 41829288--41829373 Score: 84
Period size: 29 Copynumber: 3.0 Consensus size: 29
41829278 AATTTAAGCC
* **
41829288 CGCACACACAGTGCCATA-CCTTCCGAGCT
1 CGCACACCCAGTGCCATATATTTCC-AGCT
* *
41829317 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACCCAGTGCCATATATTTCCAGCT
* **
41829346 TGCACACTTAGTGCCATATATTTCCAGC
1 CGCACACCCAGTGCCATATATTTCCAGC
41829374 AAGCACACTT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 43 0.91
30 4 0.09
ACGTcount: A:0.22, C:0.36, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACCCAGTGCCATATATTTCCAGCT
Found at i:41829379 original size:29 final size:29
Alignment explanation
Indices: 41829326--41829389 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
41829316 TCGCACACCC
* * **
41829326 AGTGCCGTATTTTTCCAGCTTGCACACTT
1 AGTGCCATATATTTCCAGCAAGCACACTT
41829355 AGTGCCATATATTTCCAGCAAGCACACTT
1 AGTGCCATATATTTCCAGCAAGCACACTT
41829384 AGTGCC
1 AGTGCC
41829390 GATCTCGTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.31
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCAAGCACACTT
Found at i:41831167 original size:16 final size:17
Alignment explanation
Indices: 41831148--41831189 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
41831138 ATCTAATAAA
41831148 AATAAAAAGT-AGTTTT
1 AATAAAAAGTAAGTTTT
*
41831164 AATAAAAATTAAAGTTTT
1 AATAAAAAGT-AAGTTTT
41831182 AATAAAAA
1 AATAAAAA
41831190 TTAAAAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.39
18 14 0.61
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (17 bp):
AATAAAAAGTAAGTTTT
Found at i:41831181 original size:18 final size:18
Alignment explanation
Indices: 41831158--41831194 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
41831148 AATAAAAAGT
41831158 AGTTTTAATAAAAATTAA
1 AGTTTTAATAAAAATTAA
41831176 AGTTTTAATAAAAATTAA
1 AGTTTTAATAAAAATTAA
41831194 A
1 A
41831195 AACATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AGTTTTAATAAAAATTAA
Found at i:41832842 original size:33 final size:32
Alignment explanation
Indices: 41832804--41832869 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
41832794 TTTGAGACCT
41832804 CCACATACTGAGTCCAGCATCAGAGTTGAGAAA
1 CCACATACTGAGTCCAGCATCAGA-TTGAGAAA
* * *
41832837 CCACATACTTAGTCCATCGTCAGATTGAGAAA
1 CCACATACTGAGTCCAGCATCAGATTGAGAAA
41832869 C
1 C
41832870 GTACCTGCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 9 0.30
33 21 0.70
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (32 bp):
CCACATACTGAGTCCAGCATCAGATTGAGAAA
Found at i:41834585 original size:17 final size:18
Alignment explanation
Indices: 41834565--41834612 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 18
41834555 AATAATAATT
41834565 AAATAAAATAAATA-AAC
1 AAATAAAATAAATATAAC
*
41834582 AAATAAAATATATATAAC
1 AAATAAAATAAATATAAC
41834600 AAAGTAATAATAA
1 AAA-TAA-AATAA
41834613 TAATAACACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 13 0.50
18 6 0.23
19 3 0.12
20 4 0.15
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (18 bp):
AAATAAAATAAATATAAC
Found at i:41835566 original size:15 final size:15
Alignment explanation
Indices: 41835542--41835573 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
41835532 TATGCATGCA
*
41835542 AAATATAAAAGACAT
1 AAATACAAAAGACAT
41835557 AAATACAAAAGACAT
1 AAATACAAAAGACAT
41835572 AA
1 AA
41835574 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:41837733 original size:255 final size:254
Alignment explanation
Indices: 41837276--41837787 Score: 862
Period size: 255 Copynumber: 2.0 Consensus size: 254
41837266 TAGTTCTCCC
* * *
41837276 TATTCTGAAATTTCACTAAAAAGTAGTTGTTTTCAACATCCATGAGTTGAAACAAATGTGTAAGT
1 TATTCTGAAATTTCACTAAAAAGTAGTTGTTTTCAACAGCCATGAGCTGAAACAAATGTATAAGT
* * * *
41837341 TTCCAGATACTAAAGATCCTTTTATGGTGAGTAGAATATGCCAAATTCCATCCCACTAATTTCAC
66 TTCCAAAGACTAAAGATCCTATTATGGCGAGTAGAATATGCCAAATTCCATCCCACTAATTTCAC
* *
41837406 CACCACCGTGGTTTCCATATCCATTATCATGATTTTCTTTATCCGATCAGAAAAATTAATTGTTG
131 CACCACCATGGTTTCCATATCCATTATCATGATTTGCTTTATCCGATCAGAAAAATTAATTGTTG
41837471 ATATCCATTAACCATAGTTCTCATGATGTCTCCCTCCTAAAATTCAATCTCCTCTTCACT
196 ATATCCATT-ACCATAGTTCTCATGATGTCTCCCTCCTAAAATTCAATCTCCTCTTCACT
* **
41837531 TATTCTGAAATTTCACTAGAAAGTAGTTGTTTTCAACAGCCATGAGCTGAAACAAATGTATTGGT
1 TATTCTGAAATTTCACTAAAAAGTAGTTGTTTTCAACAGCCATGAGCTGAAACAAATGTATAAGT
* * *
41837596 TTCCAAAGACTAAAGATCCTATTATGGCGAGTAGAATTTGCCAAATTCCTTCCCATTAATTTCAC
66 TTCCAAAGACTAAAGATCCTATTATGGCGAGTAGAATATGCCAAATTCCATCCCACTAATTTCAC
*
41837661 TACCACCATGGTTTCCATATCCATTATCATGATTTGCTTTATCCGATCAGAAAAATTAATTGTTG
131 CACCACCATGGTTTCCATATCCATTATCATGATTTGCTTTATCCGATCAGAAAAATTAATTGTTG
*
41837726 GTATCCATTACCATAGTTCTCATGATGTCTCCCTCCTAAAATTCAATCTCCTCTTCACT
196 ATATCCATTACCATAGTTCTCATGATGTCTCCCTCCTAAAATTCAATCTCCTCTTCACT
41837785 TAT
1 TAT
41837788 AGACTTAGAT
Statistics
Matches: 240, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
254 53 0.22
255 187 0.78
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (254 bp):
TATTCTGAAATTTCACTAAAAAGTAGTTGTTTTCAACAGCCATGAGCTGAAACAAATGTATAAGT
TTCCAAAGACTAAAGATCCTATTATGGCGAGTAGAATATGCCAAATTCCATCCCACTAATTTCAC
CACCACCATGGTTTCCATATCCATTATCATGATTTGCTTTATCCGATCAGAAAAATTAATTGTTG
ATATCCATTACCATAGTTCTCATGATGTCTCCCTCCTAAAATTCAATCTCCTCTTCACT
Found at i:41841056 original size:47 final size:47
Alignment explanation
Indices: 41840879--41841070 Score: 249
Period size: 47 Copynumber: 4.1 Consensus size: 47
41840869 TTAGGATTTT
* ** *
41840879 AATGTGATGAATGTGAACATGCGTATGCGTGATAAGGACGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
41840926 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
41840973 AATGTGATGAATGTGAACATGCATACATGAGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * * * *
41841020 GATATGATGAATGTGAACATGTATATATGTGGTAAGGCCAAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
41841067 AATG
1 AATG
41841071 CGAAATGTGT
Statistics
Matches: 128, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 128 1.00
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.24
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:41841180 original size:46 final size:46
Alignment explanation
Indices: 41841044--41841180 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
41841034 GAACATGTAT
* *
41841044 ATATGTGGTAAGGCCAAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
41841090 ATATGAGATAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
41841136 ATATGTGGTAAAGCCAAATGGATAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATG
41841181 TGTATATATA
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.36, C:0.08, G:0.30, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:41842725 original size:40 final size:40
Alignment explanation
Indices: 41842670--41842941 Score: 427
Period size: 40 Copynumber: 6.8 Consensus size: 40
41842660 GAGAATTGAG
* * *
41842670 AGTGATATACCCGGGCTAAGTCCCTAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
41842710 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
41842750 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
41842790 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
41842830 AGTGATGTATCCGGGCTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
41842870 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
41842910 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
41842942 ATCATGCAGG
Statistics
Matches: 215, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:41846230 original size:94 final size:93
Alignment explanation
Indices: 41846130--41846321 Score: 269
Period size: 94 Copynumber: 2.0 Consensus size: 93
41846120 TTAGGATTTT
* * * * *
41846130 AATGTGATGAATGTGAACATGCGTATGCGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAAC
1 AATGTGATGAATGTGAACATGCATATACGAGATAAGGCCGAATGGCCGATATGATGAATGTGAAC
*
41846195 A-TACGTATGTGCGATAAGGCCAAATGGCC
66 AGTACATATGTG-G-TAAGGCCAAATGGCC
*
41846224 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCGATATGATGAATGTGAAC
1 AATGTGATGAATGTGAACATGCATATACGAGATAAGGCCGAATGGCCGATATGATGAATGTGAAC
* *
41846289 ATGTATATATGTGGTAAGGCCAAATGGCT
66 A-GTACATATGTGGTAAGGCCAAATGGCC
41846318 AATG
1 AATG
41846322 CGAAATGTGT
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
94 78 0.90
95 1 0.01
96 8 0.09
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (93 bp):
AATGTGATGAATGTGAACATGCATATACGAGATAAGGCCGAATGGCCGATATGATGAATGTGAAC
AGTACATATGTGGTAAGGCCAAATGGCC
Found at i:41846297 original size:47 final size:47
Alignment explanation
Indices: 41846130--41846321 Score: 240
Period size: 47 Copynumber: 4.1 Consensus size: 47
41846120 TTAGGATTTT
* ** *
41846130 AATGTGATGAATGTGAACATGCGTATGCGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCAAATGGCC
* * * * *
41846177 TATGTGATGAATGTGAACATACGTATGTGCGATAAGGCCAAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCAAATGGCC
* *
41846224 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCAAATGGCC
* * * * *
41846271 GATATGATGAATGTGAACATGTATATATGTGGTAAGGCCAAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCAAATGGCC
41846318 AATG
1 AATG
41846322 CGAAATGTGT
Statistics
Matches: 125, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCAAATGGCC
Found at i:41846431 original size:46 final size:46
Alignment explanation
Indices: 41846295--41846431 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
41846285 GAACATGTAT
* *
41846295 ATATGTGGTAAGGCCAAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
41846341 ATATGAGATAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
41846387 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATG
41846432 TGTATATATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:41852359 original size:35 final size:36
Alignment explanation
Indices: 41852312--41852410 Score: 107
Period size: 35 Copynumber: 2.8 Consensus size: 36
41852302 TATATCTGAG
* *
41852312 TATACAATTTCAATATAAG-TTCACATGTAATCGAA
1 TATACAAATTCAATATAAGCTTCACATGTAACCGAA
* * *
41852347 TACTA-AAATTCAATAT-AGCCTCACATGCAGCCGAA
1 TA-TACAAATTCAATATAAGCTTCACATGTAACCGAA
*
41852382 TATACAAGTTCAATATAAGCTT-ACATGTA
1 TATACAAATTCAATATAAGCTTCACATGTA
41852411 CTTACCTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
34 4 0.08
35 42 0.81
36 6 0.12
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.30
Consensus pattern (36 bp):
TATACAAATTCAATATAAGCTTCACATGTAACCGAA
Found at i:41860616 original size:18 final size:18
Alignment explanation
Indices: 41860581--41860647 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
41860571 GCCTAATTCG
* *
41860581 GTAATAGTAAATAGTGCA
1 GTAATAGTAAACAATGCA
*
41860599 GTAATATTAAACAATGCA
1 GTAATAGTAAACAATGCA
*
41860617 AT-ATCAGTAAACAATGCA
1 GTAAT-AGTAAACAATGCA
41860635 GT-ATCAGTAAACA
1 GTAAT-AGTAAACA
41860648 GTATGCAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
17 2 0.05
18 40 0.95
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (18 bp):
GTAATAGTAAACAATGCA
Found at i:41861033 original size:27 final size:27
Alignment explanation
Indices: 41860973--41861158 Score: 210
Period size: 27 Copynumber: 6.9 Consensus size: 27
41860963 AAACATACAT
* * * *
41860973 CACATAGGGGCAAAACAGTCATCTGAG
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
41861000 CATATAAGGGCAATATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* ** *
41861027 TACATAAGGGCAAAACAACCATTCTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
41861054 CACATAAGGGCAAAACAGTCATGTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
41861081 CACATAAGGGCAAAATAGTCGTTCTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
41861108 CACATAAGGGCAAAACAATCACTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
41861135 CACATAAGGGCAAAATAGTCATTT
1 CACATAAGGGCAAAACAGTCATTT
41861159 CATCAAATTA
Statistics
Matches: 128, Mismatches: 31, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:41861113 original size:81 final size:81
Alignment explanation
Indices: 41860973--41861156 Score: 253
Period size: 81 Copynumber: 2.3 Consensus size: 81
41860963 AAACATACAT
* * * * * *
41860973 CACATAGGGGCAAAACAGTCATCTGAGCATATAAGGGCAATATAGTCATTTTACTACATAAGGGC
1 CACATAAGGGCAAAACAGTCATCTGACCACATAAGGGCAAAATAGTCATTCTACCACATAAGGGC
41861038 AAAACAACCA-TTCTAC
66 AAAACAACCACTT-TAC
* * *
41861054 CACATAAGGGCAAAACAGTCATGTTACCACATAAGGGCAAAATAGTCGTTCTACCACATAAGGGC
1 CACATAAGGGCAAAACAGTCATCTGACCACATAAGGGCAAAATAGTCATTCTACCACATAAGGGC
*
41861119 AAAACAATCACTTTAC
66 AAAACAACCACTTTAC
*
41861135 CACATAAGGGCAAAATAGTCAT
1 CACATAAGGGCAAAACAGTCAT
41861157 TTCATCAAAT
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
81 89 0.98
82 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.21
Consensus pattern (81 bp):
CACATAAGGGCAAAACAGTCATCTGACCACATAAGGGCAAAATAGTCATTCTACCACATAAGGGC
AAAACAACCACTTTAC
Done.