Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 164 of 207
Found at i:50523341 original size:27 final size:27
Alignment explanation
Indices: 50523310--50523396 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
50523300 ATATGTGCAA
*
50523310 AGGGTAAAATGACTGAAATACCCTCG-
1 AGGGTAAAATGACTAAAATACCCTCGT
* * *
50523336 ATGGGTAAAATGGCTAAAATGCCCCCGT
1 A-GGGTAAAATGACTAAAATACCCTCGT
*
50523364 AGGGTAAAATGACCAAAATACCCTCGT
1 AGGGTAAAATGACTAAAATACCCTCGT
50523391 AGGGTA
1 AGGGTA
50523397 GAATATCGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.02
27 49 0.96
28 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (27 bp):
AGGGTAAAATGACTAAAATACCCTCGT
Found at i:50523625 original size:27 final size:27
Alignment explanation
Indices: 50523353--50523654 Score: 268
Period size: 27 Copynumber: 11.2 Consensus size: 27
50523343 AAATGGCTAA
* **
50523353 AATGCCCCCGTAGGGTAAAATGACCAA
1 AATGCCCCTGTAGGGTAAAATGACCGT
* * * *
50523380 AAT-ACCCTCGTAGGGTAGAAT-ATCGA
1 AATGCCCCT-GTAGGGTAAAATGACCGT
* * * *
50523406 AATACCTCC-ATAGGATAAAATAACCGT
1 AATGCC-CCTGTAGGGTAAAATGACCGT
* * * * *
50523433 AATACCCTTATGGGGTAAAATAACCGT
1 AATGCCCCTGTAGGGTAAAATGACCGT
* * *
50523460 AATGCCCCTATAGGGTAAAATAATCGT
1 AATGCCCCTGTAGGGTAAAATGACCGT
* * *
50523487 AATACCCTTGTAGGATAAAATGACCGT
1 AATGCCCCTGTAGGGTAAAATGACCGT
*
50523514 AATGCCCCTGTAGGGTAAAATGATCGT
1 AATGCCCCTGTAGGGTAAAATGACCGT
* * *
50523541 AATACCCCTATAGGGTAAATTGACCGT
1 AATGCCCCTGTAGGGTAAAATGACCGT
**
50523568 AATGCCCCTGTAGGGTAAAATGAATGT
1 AATGCCCCTGTAGGGTAAAATGACCGT
*
50523595 AATGCCCCTGTAGGGTAAAATGATCGT
1 AATGCCCCTGTAGGGTAAAATGACCGT
* * * *
50523622 AATGTCCTTGTAAGGTAAAATGACGGT
1 AATGCCCCTGTAGGGTAAAATGACCGT
50523649 AATGCC
1 AATGCC
50523655 TTAGTGGGTA
Statistics
Matches: 225, Mismatches: 45, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
26 19 0.08
27 204 0.91
28 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATGCCCCTGTAGGGTAAAATGACCGT
Found at i:50523770 original size:24 final size:23
Alignment explanation
Indices: 50523692--50523773 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 23
50523682 CTCGAGGTCA
* * * *
50523692 AATGATTGTTTTGTCTGTGGTTA
1 AATGACTGATTTGTCTGTGTTTG
*
50523715 AATGACTGATTTGTTTGTGTTTGG
1 AATGACTGATTTGTCTGTGTTT-G
* *
50523739 TATAACTGATTTGTCTGTGATTTG
1 AATGACTGATTTGTCTGTG-TTTG
50523763 AATGACTGATT
1 AATGACTGATT
50523774 CTGAGCATGG
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
23 18 0.38
24 26 0.55
25 3 0.06
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.49
Consensus pattern (23 bp):
AATGACTGATTTGTCTGTGTTTG
Found at i:50523959 original size:32 final size:32
Alignment explanation
Indices: 50523918--50524138 Score: 196
Period size: 32 Copynumber: 6.9 Consensus size: 32
50523908 GCTGCGATAC
*
50523918 TACTGATGGCTTTGTGCTGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* *
50523950 TACTGATGGCTTTGTGCTGATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
***
50523982 TACTGATGGCTTTGTGCCGATCATATTACTAC
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * **
50524014 TACCGATGGCTGTGTGTCGATCAT-TTCACTAT
1 TACTGATGGCTTTGTGCCGATCATATT-ACCGT
* * *
50524046 CACTGAT-GTTTGTGTGCCGATCATGTTACCGT
1 TACTGATGGCTT-TGTGCCGATCATATTACCGT
* * * * * *
50524078 TACTAATGGCTGTGT-CCCAGTCATATCACTGC
1 TACTGATGGCTTTGTGCCGA-TCATATTACCGT
* *
50524110 TACTGATGGCTTTGTGCCAATCACATTAC
1 TACTGATGGCTTTGTGCCGATCATATTAC
50524139 TATACTTATG
Statistics
Matches: 152, Mismatches: 31, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
31 7 0.05
32 138 0.91
33 7 0.05
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:50524141 original size:96 final size:95
Alignment explanation
Indices: 50523915--50524152 Score: 241
Period size: 96 Copynumber: 2.5 Consensus size: 95
50523905 TTTGCTGCGA
* ** * *
50523915 TACTACTGATGGCTTTGTGCTGATCATATTACCGTTACTGATGGCTTTGTGCTGATCATAGTACC
1 TACTACTGATGGCTTTGTGCCGATCA-ATTACTATCACTGATGGCTTTGTGCCGATCATAGTACC
* * * *
50523980 GTTACTGATGGCTTTGTGCCGATCATATTAC
65 GTTACTAATGGCTGTGTCCCGATCATATCAC
* * * * *
50524011 TACTACCGATGGCTGTGTGTCGATCATTTCACTATCACTGAT-GTTTGTGTGCCGATCAT-GTTA
1 TACTACTGATGGCTTTGTGCCGATCAATT-ACTATCACTGATGGCTT-TGTGCCGATCATAG-TA
50524074 CCGTTACTAATGGCTGTGTCCC-AGTCATATCAC
63 CCGTTACTAATGGCTGTGTCCCGA-TCATATCAC
* * *
50524107 TGCTACTGATGGCTTTGTGCCAATCACATTACTAT-ACTTATGGCTT
1 TACTACTGATGGCTTTGTGCCGATCA-ATTACTATCACTGATGGCTT
50524153 ATAGCCATTC
Statistics
Matches: 114, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
95 12 0.11
96 100 0.88
97 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (95 bp):
TACTACTGATGGCTTTGTGCCGATCAATTACTATCACTGATGGCTTTGTGCCGATCATAGTACCG
TTACTAATGGCTGTGTCCCGATCATATCAC
Found at i:50524169 original size:22 final size:22
Alignment explanation
Indices: 50524144--50524208 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
50524134 ATTACTATAC
50524144 TTATGGCTTATAGCCATTCTGT
1 TTATGGCTTATAGCCATTCTGT
** * * *
50524166 TTATAACTTATAACTATACTGT
1 TTATGGCTTATAGCCATTCTGT
50524188 TTATGGCTCT-TAGCCATTCTG
1 TTATGGCT-TATAGCCATTCTG
50524209 ACTACTGGCA
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.45
Consensus pattern (22 bp):
TTATGGCTTATAGCCATTCTGT
Found at i:50525475 original size:34 final size:34
Alignment explanation
Indices: 50525432--50525556 Score: 144
Period size: 34 Copynumber: 3.7 Consensus size: 34
50525422 AGGTGGATGG
* *
50525432 ATTTGGTGTGCTGGATGGATTAACTCATACGAGC
1 ATTTGATGTGCTAGATGGATTAACTCATACGAGC
* * * *
50525466 ATTTGGTGTGCTAGATGAATTAGCTCATATGAGC
1 ATTTGATGTGCTAGATGGATTAACTCATACGAGC
* * * *
50525500 ATTTGATGTGCTGGATTGATTAGCTCTTACGAGC
1 ATTTGATGTGCTAGATGGATTAACTCATACGAGC
*
50525534 ATCTGATGTGCTAGATGG-TTAAC
1 ATTTGATGTGCTAGATGGATTAAC
50525557 CGTGTACTCG
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
33 4 0.05
34 73 0.95
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (34 bp):
ATTTGATGTGCTAGATGGATTAACTCATACGAGC
Found at i:50527438 original size:23 final size:23
Alignment explanation
Indices: 50527412--50527528 Score: 87
Period size: 23 Copynumber: 5.1 Consensus size: 23
50527402 CTAGCCATTT
*
50527412 AGGCGCCACAGAATATGCCACAA
1 AGGCTCCACAGAATATGCCACAA
* * *
50527435 AGGCTTCAAAGATTATGCCACAA
1 AGGCTCCACAGAATATGCCACAA
*
50527458 AGGCTCCACA-AA-GTGCGCTACAA
1 AGGCTCCACAGAATATGC-C-ACAA
* * * *
50527481 AGGCTTCATAGATTATACCACAA
1 AGGCTCCACAGAATATGCCACAA
* *
50527504 AGGCTCTATAGAATGA-GCCACAA
1 AGGCTCCACAGAAT-ATGCCACAA
50527527 AG
1 AG
50527529 CCTTCATAGG
Statistics
Matches: 72, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
21 3 0.04
22 2 0.03
23 62 0.86
24 3 0.04
25 2 0.03
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (23 bp):
AGGCTCCACAGAATATGCCACAA
Found at i:50527527 original size:46 final size:46
Alignment explanation
Indices: 50527428--50527537 Score: 141
Period size: 46 Copynumber: 2.4 Consensus size: 46
50527418 CACAGAATAT
* * *
50527428 GCCACAAAGGCTTCAAAGATTATGCCACAAAGGCTCCACAAAGTGC
1 GCCACAAAGGCTTCATAGATTATACCACAAAGGCTCCACAAAGTGA
* * *
50527474 GCTACAAAGGCTTCATAGATTATACCACAAAGGCTCTATAGAA-TGA
1 GCCACAAAGGCTTCATAGATTATACCACAAAGGCTCCACA-AAGTGA
*
50527520 GCCACAAAGCCTTCATAG
1 GCCACAAAGGCTTCATAG
50527538 GTAACTTTCC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 53 0.96
47 2 0.04
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.19
Consensus pattern (46 bp):
GCCACAAAGGCTTCATAGATTATACCACAAAGGCTCCACAAAGTGA
Found at i:50535025 original size:39 final size:40
Alignment explanation
Indices: 50534970--50535098 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 40
50534960 TACAACACCA
* * * * *
50534970 GCACAATGCATGCTAGGTACAAAACCTGATAAACACACTG
1 GCACAAAGCCTGCTAGGCACAAAACCCGATAAATACACTG
* *
50535010 GCACAAA-CCTGCTAGGCACAAACCCCGATAAATACACTA
1 GCACAAAGCCTGCTAGGCACAAAACCCGATAAATACACTG
* * * *
50535049 GCATAAAGCCTACTAGGCACAAAGCCCGATAAATACACCG
1 GCACAAAGCCTGCTAGGCACAAAACCCGATAAATACACTG
50535089 GCACAAAGCC
1 GCACAAAGCC
50535099 ACTAACTCGT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
39 32 0.43
40 43 0.57
ACGTcount: A:0.40, C:0.30, G:0.16, T:0.13
Consensus pattern (40 bp):
GCACAAAGCCTGCTAGGCACAAAACCCGATAAATACACTG
Found at i:50539563 original size:4 final size:4
Alignment explanation
Indices: 50539554--50539599 Score: 74
Period size: 4 Copynumber: 11.0 Consensus size: 4
50539544 CTAGTTTCTC
50539554 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CCTTT CTTT CCTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT -CTTT CTTT -CTTT CTTT
50539600 TTCTCCTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 32 0.80
5 8 0.20
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:50539666 original size:22 final size:22
Alignment explanation
Indices: 50539629--50539697 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 22
50539619 ACTTTTGTTC
50539629 TTTA-TTTATT-TCATTTACTTA
1 TTTATTTTATTAT-ATTTACTTA
50539650 TTTATTTTATTATATTTACCTTA
1 TTTATTTTATTATATTTA-CTTA
50539673 TTATATTATTATATATATTTACTTA
1 TT-TATT-TTAT-TATATTTACTTA
50539698 AATATTAAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.10
22 11 0.26
23 7 0.17
24 4 0.10
25 8 0.19
26 8 0.19
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTATTTTATTATATTTACTTA
Found at i:50539667 original size:14 final size:14
Alignment explanation
Indices: 50539648--50539693 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
50539638 TTCATTTACT
50539648 TATTTATTTTATTA
1 TATTTATTTTATTA
**
50539662 TATTTACCTTATTA
1 TATTTATTTTATTA
*
50539676 TA-TTATTATA-TA
1 TATTTATTTTATTA
50539688 TATTTA
1 TATTTA
50539694 CTTAAATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
12 4 0.15
13 8 0.31
14 14 0.54
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (14 bp):
TATTTATTTTATTA
Found at i:50558663 original size:19 final size:18
Alignment explanation
Indices: 50558626--50558665 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
50558616 CGTAAAAATG
*
50558626 AATTTGAAAATGTATTTT
1 AATTTGAAAATGTAATTT
*
50558644 AATTTGATAAATTTAATTT
1 AATTTGA-AAATGTAATTT
50558663 AAT
1 AAT
50558666 CATTATATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (18 bp):
AATTTGAAAATGTAATTT
Found at i:50569787 original size:34 final size:34
Alignment explanation
Indices: 50569739--50569924 Score: 219
Period size: 34 Copynumber: 5.4 Consensus size: 34
50569729 GGTTAACCAG
* * * *
50569739 CCAACACACTAAATGCTCATATGAGCTAGTCCAT
1 CCAACACACCAAATGCTCGTATGAGCCAATCCAT
* * *
50569773 CCAACACACCAAATGCTCGTCTGAGCTAGTCCAT
1 CCAACACACCAAATGCTCGTATGAGCCAATCCAT
*
50569807 CCAGCACACCAAATGCTCGTATGAGCCAATCCAT
1 CCAACACACCAAATGCTCGTATGAGCCAATCCAT
50569841 CCAGCACACACCAAATGCTCGTATGAGCCAATCCAT
1 CCA--ACACACCAAATGCTCGTATGAGCCAATCCAT
* * *** *
50569877 CCAGCACACCAGATGCTCGTATGAAAAAATCCTT
1 CCAACACACCAAATGCTCGTATGAGCCAATCCAT
*
50569911 CCATCACACCAAAT
1 CCAACACACCAAAT
50569925 AATACGGTAA
Statistics
Matches: 134, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
34 101 0.75
36 33 0.25
ACGTcount: A:0.34, C:0.34, G:0.13, T:0.19
Consensus pattern (34 bp):
CCAACACACCAAATGCTCGTATGAGCCAATCCAT
Found at i:50569882 original size:70 final size:68
Alignment explanation
Indices: 50569743--50569924 Score: 229
Period size: 70 Copynumber: 2.6 Consensus size: 68
50569733 AACCAGCCAA
* * * * * * *
50569743 CACACTAAATGCTCATATGAGCTAGTCCATCCAACACACCAAATGCTCGTCTGAGCTAGTCCATC
1 CACACCAAATGCTCGTATGAGCCAATCCATCCAACACACCAAATGCTCGTATGAGCCAATCCATC
50569808 CAG
66 CAG
50569811 CACACCAAATGCTCGTATGAGCCAATCCATCCAGCACACACCAAATGCTCGTATGAGCCAATCCA
1 CACACCAAATGCTCGTATGAGCCAATCCATCCA--ACACACCAAATGCTCGTATGAGCCAATCCA
50569876 TCCAG
64 TCCAG
* *** * *
50569881 CACACCAGATGCTCGTATGAAAAAATCCTTCCATCACACCAAAT
1 CACACCAAATGCTCGTATGAGCCAATCCATCCAACACACCAAAT
50569925 AATACGGTAA
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
68 39 0.39
70 60 0.61
ACGTcount: A:0.34, C:0.34, G:0.13, T:0.20
Consensus pattern (68 bp):
CACACCAAATGCTCGTATGAGCCAATCCATCCAACACACCAAATGCTCGTATGAGCCAATCCATC
CAG
Found at i:50573469 original size:21 final size:22
Alignment explanation
Indices: 50573439--50573483 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
50573429 GAGCAAATTG
50573439 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
50573461 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
50573482 TT
1 TT
50573484 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:50574712 original size:35 final size:35
Alignment explanation
Indices: 50574665--50574906 Score: 291
Period size: 35 Copynumber: 7.1 Consensus size: 35
50574655 TTCACTTGTC
* * *
50574665 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * * * *
50574700 TTCTGTTACAGGGAATCTTTTCTGTTCA--CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
50574733 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
50574767 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
50574802 TTTTGTTGCAGGGAATCTTTCCTGTTCA--CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
50574835 -TTTCTTGCAGGGAATCTCTCCTGTTCACAG-ATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-GCATTA
* *
50574869 TTTTGTTGCAGGGAATCTCTCCTGTTCATGTATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
50574904 TTT
1 TTT
50574907 CTTTTTGGAC
Statistics
Matches: 178, Mismatches: 21, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
32 47 0.26
33 8 0.04
34 8 0.04
35 115 0.65
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.42
Consensus pattern (35 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:50574779 original size:67 final size:68
Alignment explanation
Indices: 50574665--50574906 Score: 294
Period size: 67 Copynumber: 3.6 Consensus size: 68
50574655 TTCACTTGTC
* * * * * *
50574665 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTACAGGGAATCTTTTCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
*
50574730 TCA
66 TTA
50574733 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTT--CA
50574797 CATTA
64 CATTA
* * * *
50574802 TTTTGTTGCAGGGAATCTTTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCAC-
50574864 GATTA
65 -ATTA
* * *
50574869 TTTTGTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
50574907 CTTTTTGGAC
Statistics
Matches: 152, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
65 3 0.02
67 109 0.72
68 4 0.03
69 9 0.06
70 27 0.18
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.42
Consensus pattern (68 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
TTA
Found at i:50574904 original size:102 final size:102
Alignment explanation
Indices: 50574665--50574906 Score: 387
Period size: 102 Copynumber: 2.4 Consensus size: 102
50574655 TTCACTTGTC
* * * * *
50574665 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTACAGGGAATCTTTTCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTACAGGGAATCTTTCCTGTTCACA
50574730 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
50574767 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTACAGGGAATCTTTCCTGTTCACA
50574832 TCATTTCTTGCAGGGAATCTCTCCTGTTCACAG-ATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCAC-GCATTA
* *
50574869 TTTTGTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
50574907 CTTTTTGGAC
Statistics
Matches: 129, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
102 128 0.99
103 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.42
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTACAGGGAATCTTTCCTGTTCACA
TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:50580552 original size:11 final size:12
Alignment explanation
Indices: 50580536--50580564 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
50580526 TTATTAACGG
50580536 TGAATG-ATATT
1 TGAATGAATATT
50580547 TGAATGAATATT
1 TGAATGAATATT
50580559 TGAATG
1 TGAATG
50580565 TTCTTATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (12 bp):
TGAATGAATATT
Found at i:50587894 original size:44 final size:43
Alignment explanation
Indices: 50587787--50587905 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 43
50587777 TCGTACAACA
* *
50587787 CCAACATCCCAGACGTGGTCTTACATGTAACCACATATAGATG
1 CCAACATCCCAGACGTGGTCTTACACGTAACCACAAATAGATG
* * *
50587830 CC-ACTATCCTAGACAG-GGTCTTACACGTAAGTCACAAATCGATG
1 CCAAC-ATCCCAGAC-GTGGTCTTACACGTAA-CCACAAATAGATG
* *
50587874 CCAACGTCCCAGACGTGGTCTTAGACGATAAC
1 CCAACATCCCAGACGTGGTCTTACACG-TAAC
50587906 ACATAATGAA
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.03
43 24 0.39
44 30 0.49
45 5 0.08
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (43 bp):
CCAACATCCCAGACGTGGTCTTACACGTAACCACAAATAGATG
Found at i:50595187 original size:44 final size:43
Alignment explanation
Indices: 50595092--50595198 Score: 110
Period size: 44 Copynumber: 2.4 Consensus size: 43
50595082 AACATCTCAA
* * *
50595092 ACGTGGTCTTACATGTAACCACATATCGATGCCACTATCCTAG
1 ACGTGGTCTTACACGTAACCACAAATCGATGCCACTATCCCAG
* *
50595135 ACAG-GGTCTTACACGTAAGTCACAAATCGATGCCAAC-GTCCCAG
1 AC-GTGGTCTTACACGTAA-CCACAAATCGATGCC-ACTATCCCAG
*
50595179 ACGTGGTCTTAGACGATAAC
1 ACGTGGTCTTACACG-TAAC
50595199 ACATAATGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
43 16 0.31
44 31 0.60
45 5 0.10
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (43 bp):
ACGTGGTCTTACACGTAACCACAAATCGATGCCACTATCCCAG
Found at i:50607871 original size:18 final size:18
Alignment explanation
Indices: 50607838--50607912 Score: 59
Period size: 18 Copynumber: 4.3 Consensus size: 18
50607828 ATACATACAT
50607838 ATATATAC-TA-AAATAA
1 ATATATACATATAAATAA
*
50607854 ATATATACATATAGATAA
1 ATATATACATATAAATAA
*
50607872 A-AAATTACATATAAATAA
1 ATATA-TACATATAAATAA
* * *
50607890 AAATA-AAATAAAAATAA
1 ATATATACATATAAATAA
*
50607907 TTATAT
1 ATATAT
50607913 TATACTACAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
16 8 0.17
17 17 0.37
18 19 0.41
19 2 0.04
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (18 bp):
ATATATACATATAAATAA
Found at i:50609839 original size:173 final size:172
Alignment explanation
Indices: 50609482--50609862 Score: 393
Period size: 173 Copynumber: 2.2 Consensus size: 172
50609472 AATTTGCTAT
* *
50609482 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCTCTGCAAATTCA
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTATCTACAAATTCA
* * * *
50609547 GAGAGATAAGATCTAAGGTTTTAATCCGCCTCACTACAACTTCAGGGACGTAGGATTTGCCATCT
66 GAGAGATAAGATCCAAAGTCTTAATCCGCCTCACTACAACTTCAGGGACGTAGGATTTGCCAGCT
* * * *
50609612 TCAGTCTGCCTCGCTGCAACTTCAGGAGGATAAGACTTGCTTA
131 TAAATCTGCCTCGC-GCAACTTCAGGAAGATAAGACTTGCGTA
* *
50609655 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA-A-ACGGGATTTGCTATCTACAACTT
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATAC--GATCTGCTATCTACAAATT
* * * **
50609718 CAGAGAGATAAGTTCCAAAGTCTTAATCCG-CTCCGCTGCAACTTCAGGGA-GATAGGATTTGGT
64 CAGAGAGATAAGATCCAAAGTCTTAATCCGCCT-CACTACAACTTCAGGGACG-TAGGATTTGCC
* * * *
50609781 GGCTTAAATCTGCTTC-C-C-ACTATCTTGGAAAGATAAGATTTGCCGT-
127 AGCTTAAATCTGCCTCGCGCAACT-TC-AGG-AAGATAAGACTTG-CGTA
* * *
50609827 CTTCGATCTGCTCCACTACTACTT-AGGGAGATAAGA
1 CTTAG-TCTGCTCCACTGCAACTTCAGGGAGATAAGA
50609863 TCTACAATCT
Statistics
Matches: 175, Mismatches: 24, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
169 3 0.02
170 3 0.02
171 4 0.02
172 32 0.18
173 133 0.76
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (172 bp):
CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTATCTACAAATTCA
GAGAGATAAGATCCAAAGTCTTAATCCGCCTCACTACAACTTCAGGGACGTAGGATTTGCCAGCT
TAAATCTGCCTCGCGCAACTTCAGGAAGATAAGACTTGCGTA
Found at i:50609901 original size:132 final size:132
Alignment explanation
Indices: 50609776--50610302 Score: 816
Period size: 132 Copynumber: 4.0 Consensus size: 132
50609766 GAGATAGGAT
50609776 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCC
* *
50609841 ACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTACTCAGGGAGACAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAG
50609906 GC
131 GC
* * * *
50609908 TTGGTGGCTTAAATCTGCTTCCCGCTATTTTGGAAAGATAAGATTTGCCGTCTTTGATCTGATCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCC
* * * *
50609973 ACTACTGCTTAGGGAGATAGGATCT---A----CAACCTCCTCCGCCGTTGCTCAGGGAGACAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAG
50610031 GC
131 GC
* * * * * *
50610033 TTTGTAGCTTAAATTTGCTTCCCACTATCTTGGAAAGATAAGACTTGTCGTCTTTGATCTGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCC
* * *
50610098 ACTACTGCTTAGGGAGATAAGATCTACAATCTTTAACCTACTCTGCTGCTGCTCAGGGAGACAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAG
50610163 GC
131 GC
*
50610165 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCAGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCC
*
50610230 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAG
50610295 GC
131 GC
50610297 TTGGTG
1 TTGGTG
50610303 TTTCACCGGT
Statistics
Matches: 353, Mismatches: 35, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
125 111 0.31
128 1 0.00
129 1 0.00
132 240 0.68
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (132 bp):
TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCC
ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAG
GC
Found at i:50610217 original size:257 final size:257
Alignment explanation
Indices: 50609782--50610258 Score: 819
Period size: 257 Copynumber: 1.9 Consensus size: 257
50609772 GGATTTGGTG
*
50609782 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACT
1 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGACTTGCCGTCTTCGATCTGCTCCACTACT
*
50609847 ACTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTACTCAGGGAGACAAGGCTTGG
66 ACTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTCAGGGAGACAAGGCTTGG
* * * *
50609912 TGGCTTAAATCTGCTTCCCGCTATTTTGGAAAGATAAGATTTGCCGTCTTTGATCTGATCCACTA
131 TGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCAGATCCACTA
*
50609977 CTGCTTAGGGAGATAGGATCTACAACCTCCTCCGCCGTTGCTCAGGGAGACAAGGCTTTGTA
196 CTGCTTAGGGAGATAAGATCTACAACCTCCTCCGCCGTTGCTCAGGGAGACAAGGCTTTGTA
* * *
50610039 GCTTAAATTTGCTTCCCACTATCTTGGAAAGATAAGACTTGTCGTCTTTGATCTGCTCCACTACT
1 GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGACTTGCCGTCTTCGATCTGCTCCACTACT
* * * *
50610104 GCTTAGGGAGATAAGATCTACAATCTTTAACCTACTCTGCTGCTGCTCAGGGAGACAAGGCTTGG
66 ACTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTCAGGGAGACAAGGCTTGG
*
50610169 TGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCAGCTCCACTA
131 TGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCAGATCCACTA
50610234 CTGCTTAGGGAGATAAGATCTACAA
196 CTGCTTAGGGAGATAAGATCTACAA
50610259 TCTTCAACCT
Statistics
Matches: 205, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
257 205 1.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (257 bp):
GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGACTTGCCGTCTTCGATCTGCTCCACTACT
ACTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTCAGGGAGACAAGGCTTGG
TGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCAGATCCACTA
CTGCTTAGGGAGATAAGATCTACAACCTCCTCCGCCGTTGCTCAGGGAGACAAGGCTTTGTA
Found at i:50614802 original size:36 final size:36
Alignment explanation
Indices: 50614755--50614827 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
50614745 TTTGTGAGGT
50614755 AGGATTTGCTTTTCCTCTTGTTCTACCATCCTCAGC
1 AGGATTTGCTTTTCCTCTTGTTCTACCATCCTCAGC
50614791 AGGATTTGCTTTTCCTCTTGTTCTACCATCCTCAGC
1 AGGATTTGCTTTTCCTCTTGTTCTACCATCCTCAGC
50614827 A
1 A
50614828 AGTCCAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.15, C:0.30, G:0.14, T:0.41
Consensus pattern (36 bp):
AGGATTTGCTTTTCCTCTTGTTCTACCATCCTCAGC
Found at i:50618423 original size:24 final size:24
Alignment explanation
Indices: 50618395--50618440 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
50618385 ATCATTTTTT
* *
50618395 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
50618419 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
50618441 GGACTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:50624709 original size:10 final size:10
Alignment explanation
Indices: 50624696--50624746 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
50624686 AAAATGTTTC
50624696 AAAAATATAA
1 AAAAATATAA
* *
50624706 AAAAATCTTA
1 AAAAATATAA
50624716 AAAAATA-AA
1 AAAAATATAA
50624725 TAAAAATATAA
1 -AAAAATATAA
*
50624736 AATAAT-TAA
1 AAAAATATAA
50624745 AA
1 AA
50624747 TTAATAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 6 0.18
10 26 0.76
11 2 0.06
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAATATAA
Found at i:50624753 original size:30 final size:29
Alignment explanation
Indices: 50624696--50624756 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 29
50624686 AAAATGTTTC
50624696 AAAAATATAAAAAAATCTTAAAAAATAAAT
1 AAAAATATAAAAAAA-CTTAAAAAATAAAT
*
50624726 AAAAATATAAAATAA-TTAAAATTAATAAAT
1 AAAAATATAAAAAAACTTAAAA--AATAAAT
50624756 A
1 A
50624757 TTATAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 6 0.21
30 22 0.79
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (29 bp):
AAAAATATAAAAAAACTTAAAAAATAAAT
Found at i:50630929 original size:6 final size:6
Alignment explanation
Indices: 50630915--50630948 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
50630905 TTATGGAGGG
* *
50630915 ATGTAT ATGTGT ATGTAT ATGTAT ATGAAT ATGT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGT
50630949 GTTTCCTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (6 bp):
ATGTAT
Found at i:50636010 original size:38 final size:38
Alignment explanation
Indices: 50635959--50636031 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
50635949 AAGTCAACCT
* *
50635959 AACTCGTGCAAAGTGAAAATTTTCTATAGAAATTCTCA
1 AACTCGTGCAAAGTAAAAATTCTCTATAGAAATTCTCA
50635997 AACTCGTGCAAAGTAAAAATTCTCTATAGAAATTC
1 AACTCGTGCAAAGTAAAAATTCTCTATAGAAATTC
50636032 CCATAAGGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.30
Consensus pattern (38 bp):
AACTCGTGCAAAGTAAAAATTCTCTATAGAAATTCTCA
Found at i:50637103 original size:34 final size:34
Alignment explanation
Indices: 50637063--50637142 Score: 142
Period size: 34 Copynumber: 2.4 Consensus size: 34
50637053 ATATGTTCAT
*
50637063 ACAACCAATATGCCCAAAGGGCATCTCAATCACA
1 ACAACCAACATGCCCAAAGGGCATCTCAATCACA
50637097 ACAACCAACATGCCCAAAGGGCATCTCAATCACA
1 ACAACCAACATGCCCAAAGGGCATCTCAATCACA
*
50637131 AAAACCAACATG
1 ACAACCAACATG
50637143 TACTACCATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.44, C:0.33, G:0.11, T:0.12
Consensus pattern (34 bp):
ACAACCAACATGCCCAAAGGGCATCTCAATCACA
Found at i:50637802 original size:15 final size:16
Alignment explanation
Indices: 50637773--50637802 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50637763 CAAACATGCT
50637773 TTAACACATTATCAAA
1 TTAACACATTATCAAA
50637789 TTAACACA-TATCAA
1 TTAACACATTATCAA
50637803 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:50655274 original size:22 final size:22
Alignment explanation
Indices: 50655241--50655301 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
50655231 GCCCGGCCCG
* *
50655241 TTTTTAATTAAAATTAAAATTAT
1 TTTTTAA-TAAAATTAAAACTAA
50655264 TTTTTAATAAAATTAAAACTAA
1 TTTTTAATAAAATTAAAACTAA
* *
50655286 TTGTTATTAAAATTAA
1 TTTTTAATAAAATTAA
50655302 TTGTTAGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 27 0.79
23 7 0.21
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTAATAAAATTAAAACTAA
Found at i:50655314 original size:16 final size:16
Alignment explanation
Indices: 50655277--50655316 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
50655267 TTAATAAAAT
* *
50655277 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
50655293 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
50655309 TAAAATTA
1 TAAAATTA
50655317 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:50655395 original size:59 final size:59
Alignment explanation
Indices: 50655327--50655492 Score: 296
Period size: 59 Copynumber: 2.8 Consensus size: 59
50655317 TCAAATTATT
*
50655327 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
50655386 AATTATTAATTGTATTAATTGTTGTAATAAAATTTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
* *
50655445 AATTATTGATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAG
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAG
50655493 GAAAACAAAC
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 102 1.00
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:50657597 original size:10 final size:9
Alignment explanation
Indices: 50657584--50657698 Score: 83
Period size: 9 Copynumber: 12.4 Consensus size: 9
50657574 AAAATTAGAA
50657584 AAAAAGTTAT
1 AAAAA-TTAT
50657594 AAAAATTATT
1 AAAAATTA-T
**
50657604 AAATTTTAAT
1 AAAAATT-AT
50657614 AAAAA-TAT
1 AAAAATTAT
50657622 AAAAAATTAT
1 -AAAAATTAT
50657632 --AAATTAT
1 AAAAATTAT
*
50657639 AAAAATTGT
1 AAAAATTAT
* *
50657648 AAAAAATAA
1 AAAAATTAT
*
50657657 AAAAATTGT
1 AAAAATTAT
*
50657666 AAAATTTTAT
1 AAAA-ATTAT
*
50657676 AAAAATCAT
1 AAAAATTAT
50657685 AAAAAATTAT
1 -AAAAATTAT
50657695 AAAA
1 AAAA
50657699 TGTATCAAAA
Statistics
Matches: 81, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
7 7 0.09
8 2 0.02
9 38 0.47
10 33 0.41
11 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:50657650 original size:26 final size:28
Alignment explanation
Indices: 50657594--50657654 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 28
50657584 AAAAAGTTAT
50657594 AAAAATTATTAAATTTTAATAAAAATATA
1 AAAAATTATTAAA-TTTAATAAAAATATA
*
50657623 AAAAATTA-TAAA-TT-ATAAAAATTGTA
1 AAAAATTATTAAATTTAATAAAAA-TATA
50657649 AAAAAT
1 AAAAAT
50657655 AAAAAAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 7 0.23
26 11 0.37
28 4 0.13
29 8 0.27
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAAATTATTAAATTTAATAAAAATATA
Found at i:50657839 original size:19 final size:19
Alignment explanation
Indices: 50657795--50657877 Score: 73
Period size: 19 Copynumber: 4.4 Consensus size: 19
50657785 TTTATAGTTT
*
50657795 TTTTTTTACGATTTTTATA
1 TTTTTTTACAATTTTTATA
***
50657814 AAATTTTACAACTTTTTAT-
1 TTTTTTTACAA-TTTTTATA
50657833 TTTTTTTACAATTTTTATA
1 TTTTTTTACAATTTTTATA
*
50657852 TTTTTCT--AATTTTTAATA
1 TTTTTTTACAATTTTT-ATA
*
50657870 ATTTTTTA
1 TTTTTTTA
50657878 ATATTTGAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
17 7 0.14
18 15 0.30
19 21 0.42
20 7 0.14
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (19 bp):
TTTTTTTACAATTTTTATA
Found at i:50657854 original size:8 final size:9
Alignment explanation
Indices: 50657805--50657879 Score: 55
Period size: 9 Copynumber: 8.2 Consensus size: 9
50657795 TTTTTTTACG
50657805 ATTTTTATAA
1 ATTTTTAT-A
* *
50657815 AATTTTACA
1 ATTTTTATA
*
50657824 ACTTTTTATT
1 A-TTTTTATA
* *
50657834 TTTTTTACA
1 ATTTTTATA
50657843 ATTTTTAT-
1 ATTTTTATA
*
50657851 ATTTTTCTA
1 ATTTTTATA
50657860 ATTTTTAATA
1 ATTTTT-ATA
50657870 ATTTTT-TA
1 ATTTTTATA
50657878 AT
1 AT
50657880 ATTTGAATTT
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
8 11 0.22
9 20 0.40
10 19 0.38
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:50657865 original size:18 final size:17
Alignment explanation
Indices: 50657826--50657892 Score: 55
Period size: 18 Copynumber: 3.8 Consensus size: 17
50657816 ATTTTACAAC
* *
50657826 TTTTTATTTTTTTTACAA
1 TTTTTATATTTTTTA-AT
50657844 TTTTTATATTTTTCTAAT
1 TTTTTATATTTTT-TAAT
*
50657862 TTTTAATAATTTTTTAAT
1 TTTTTAT-ATTTTTTAAT
* *
50657880 ATTTGA-ATTTTTT
1 TTTTTATATTTTTT
50657893 TAAATTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
16 7 0.17
18 27 0.64
19 8 0.19
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.70
Consensus pattern (17 bp):
TTTTTATATTTTTTAAT
Found at i:50658079 original size:89 final size:89
Alignment explanation
Indices: 50657972--50658164 Score: 243
Period size: 89 Copynumber: 2.2 Consensus size: 89
50657962 TAATAAAATC
* * * * *
50657972 AGGGACTTAATTACTTTTTTTGGAAAA-TTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAG
1 AGGGACTTAATTACTTTTTTT-GAAAAGATTTGAGGGCCTTTTTGATACATTTTAAAAGTTCAAA
* * *
50658036 TATCCAATTGAGTGCAAAAAAAAGT
65 TACCCAAATGAATGCAAAAAAAAGT
* * *
50658061 AGGGGCTTAATTACTTTTTTTGAAAAGATTTGAGGGCCTTTTTGATATATTTTAAAAGTTTAAAT
1 AGGGACTTAATTACTTTTTTTGAAAAGATTTGAGGGCCTTTTTGATACATTTTAAAAGTTCAAAT
50658126 ACCCAAATGAATGCAAAAAAAA--
66 ACCCAAATGAATGCAAAAAAAAGT
50658148 A--GACTTAATTACTTTTT
1 AGGGACTTAATTACTTTTT
50658165 CTTTTTTGAA
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
85 15 0.16
87 1 0.01
88 5 0.05
89 70 0.77
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.38
Consensus pattern (89 bp):
AGGGACTTAATTACTTTTTTTGAAAAGATTTGAGGGCCTTTTTGATACATTTTAAAAGTTCAAAT
ACCCAAATGAATGCAAAAAAAAGT
Found at i:50658170 original size:89 final size:87
Alignment explanation
Indices: 50657974--50658192 Score: 228
Period size: 89 Copynumber: 2.5 Consensus size: 87
50657964 ATAAAATCAG
* * * * * * *
50657974 GGACTTAATTACTTTTTTTGGAAAATTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTAT
1 GGACTTAATTACTTTTTTTTGAAAAATTTGAGGGCCTTTTTGATACATTTTAAAAGTTCAAATAC
* *
50658039 CCAATTGAGTGCAAAAAAAAGTA
66 CCAAATGAATGCAAAAAAAAG-A
* * *
50658062 GGGGCTTAATTAC-TTTTTTTGAAAAGATTTGAGGGCCTTTTTGATATATTTTAAAAGTTTAAAT
1 -GGACTTAATTACTTTTTTTTGAAAA-ATTTGAGGGCCTTTTTGATACATTTTAAAAGTTCAAAT
50658126 ACCCAAATGAATGCAAAAAAAA-A
64 ACCCAAATGAATGCAAAAAAAAGA
*
50658149 -GACTTAATTACTTTTTCTTTTTTGAAAAAATTTGAGGACCTTTT
1 GGACTTAATTAC---TT-TTTTTTG-AAAAATTTGAGGGCCTTTT
50658193 ACCTCCTTAA
Statistics
Matches: 109, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
85 10 0.09
87 1 0.01
88 11 0.10
89 62 0.57
90 21 0.19
91 4 0.04
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (87 bp):
GGACTTAATTACTTTTTTTTGAAAAATTTGAGGGCCTTTTTGATACATTTTAAAAGTTCAAATAC
CCAAATGAATGCAAAAAAAAGA
Found at i:50659594 original size:16 final size:16
Alignment explanation
Indices: 50659573--50659605 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
50659563 TTCGCTGTAT
*
50659573 TGGAATAGAGGCGTAA
1 TGGAATAAAGGCGTAA
50659589 TGGAATAAAGGCGTAA
1 TGGAATAAAGGCGTAA
50659605 T
1 T
50659606 AGAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGAATAAAGGCGTAA
Found at i:50659817 original size:16 final size:16
Alignment explanation
Indices: 50659780--50659847 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 16
50659770 TTAATCATAT
*
50659780 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
50659796 TT-AAATATATTATAA
1 TTAAAATATATTATAA
*
50659811 TTAAAATATATAATTTAA
1 TTAAAATATAT--TATAA
50659829 -TAAAAT-TATTAATAA
1 TTAAAATATATT-ATAA
50659844 TTAA
1 TTAA
50659848 TATTCTTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
14 4 0.09
15 13 0.30
16 16 0.37
17 6 0.14
18 4 0.09
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:50659821 original size:18 final size:18
Alignment explanation
Indices: 50659800--50659847 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
50659790 TTATTATTAA
50659800 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
50659818 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
50659835 -TAT-TAATAATTAA
1 ATATATTATAATTAA
50659848 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:50659828 original size:14 final size:15
Alignment explanation
Indices: 50659789--50659830 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
50659779 TTTAAACATA
*
50659789 ATTATTATTAAATAT
1 ATTATAATTAAATAT
50659804 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
50659818 A-TATAATTTAATA
1 ATTATAATTAAATA
50659831 AAATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:50659941 original size:18 final size:17
Alignment explanation
Indices: 50659918--50659954 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
50659908 AATTATTATT
50659918 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
50659934 AAATATATGATTTAATA
1 AAATATATGATTTAATA
50659951 AAAT
1 AAAT
50659955 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:50659952 original size:59 final size:58
Alignment explanation
Indices: 50659783--50659959 Score: 164
Period size: 59 Copynumber: 3.0 Consensus size: 58
50659773 ATCATATTTA
* * *
50659783 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAAT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAA-TATAAAT
* * * * * *
50659842 AA-TTAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACT-ATAAAATATAAATT
1 AACATAATTATTATTAAAT-ATATTT--T--AATTAAAATATATGAT-TTAATAAAATATAAA-T
*
50659903 AACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATATAAA
50659960 ATAATTATAA
Statistics
Matches: 91, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
57 12 0.13
58 5 0.05
59 28 0.31
60 5 0.05
61 23 0.25
62 5 0.05
63 13 0.14
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (58 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATATAAAT
Found at i:50660003 original size:47 final size:46
Alignment explanation
Indices: 50659937--50660104 Score: 143
Period size: 47 Copynumber: 3.7 Consensus size: 46
50659927 TTAATTAAAA
*
50659937 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * **
50659984 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA-TTTAA
1 TATATGAATTTATATAATTTAAAATAATTA-TAATA-ATA-AATTTTCT
* * *
50660032 TA-AT-AA--TATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAATTTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
*
50660075 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
50660105 ATATTAAATA
Statistics
Matches: 94, Mismatches: 15, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
42 2 0.02
43 8 0.09
44 18 0.19
45 5 0.05
46 5 0.05
47 40 0.43
48 14 0.15
49 2 0.02
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:50660013 original size:101 final size:93
Alignment explanation
Indices: 50659894--50660178 Score: 328
Period size: 91 Copynumber: 3.0 Consensus size: 93
50659884 ATACTATAAA
* * * * *
50659894 ATATAAATTAACATAATTATTATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTA
1 ATATAATTTAAAATAATTATTATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT-
*
50659958 AAATAATTATAACTAATAAATTTTCTTATATGAATTT
64 ---T--CT-TAA-TAATAAATTTTCTTATATGAATTT
* *
50659995 GTATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTC
1 ATATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTC
*
50660058 TTGATAATAAATTTTCTTATATGAATTT
66 TTAATAATAAATTTTCTTATATGAATTT
* * *
50660086 ATACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTC
1 ATATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTC
*
50660149 TTAATAATAAAATGTTCTTATATGAATTT
66 TTAATAAT-AAATTTTCTTATATGAATTT
50660178 A
1 A
50660179 CTAAAATCAA
Statistics
Matches: 166, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
91 89 0.54
92 22 0.13
93 1 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 49 0.30
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTC
TTAATAATAAATTTTCTTATATGAATTT
Found at i:50660026 original size:26 final size:28
Alignment explanation
Indices: 50659996--50660056 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
50659986 TATGAATTTG
*
50659996 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
50660022 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
50660050 TAAAATT
1 TATAATT
50660057 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:50660066 original size:91 final size:91
Alignment explanation
Indices: 50659971--50660178 Score: 344
Period size: 91 Copynumber: 2.3 Consensus size: 91
50659961 TAATTATAAC
* * * *
50659971 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
50660036 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTAA
50660062 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
50660127 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
50660153 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
50660179 CTAAAATCAA
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 89 0.82
92 20 0.18
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:50660138 original size:44 final size:43
Alignment explanation
Indices: 50659996--50660138 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
50659986 TATGAATTTG
* *
50659996 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
50660040 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
50660087 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
50660131 TATAATTT
1 TATAATTT
50660139 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:50660153 original size:47 final size:47
Alignment explanation
Indices: 50660021--50660159 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
50660011 TTATTATTAC
* *
50660021 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
50660068 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
50660112 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
50660159 A
1 A
50660160 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:50663239 original size:15 final size:15
Alignment explanation
Indices: 50663219--50663254 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
50663209 GGTATATGTA
50663219 TAATTGACCTAAAAT
1 TAATTGACCTAAAAT
50663234 TAATTGACCTAAAAT
1 TAATTGACCTAAAAT
50663249 TAATTG
1 TAATTG
50663255 TTGTTATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (15 bp):
TAATTGACCTAAAAT
Found at i:50663476 original size:6 final size:6
Alignment explanation
Indices: 50663465--50663502 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
50663455 TAGTTTGAAC
50663465 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT
50663503 ATAATTTCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:50663963 original size:13 final size:13
Alignment explanation
Indices: 50663945--50663969 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50663935 ATCAAATTTG
50663945 TATGTACTCTTTA
1 TATGTACTCTTTA
50663958 TATGTACTCTTT
1 TATGTACTCTTT
50663970 CACTAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TATGTACTCTTTA
Found at i:50664489 original size:29 final size:29
Alignment explanation
Indices: 50664455--50664523 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
50664445 AAACAAATGC
50664455 AACAATTTCCAGTTTCATTGAAAAC-ATCA
1 AACAATTTCCAGTTTCATTGAAAACTA-CA
*
50664484 GACAATTTCCAGTTTCATTGAAAACTACA
1 AACAATTTCCAGTTTCATTGAAAACTACA
50664513 AACAATTTCCA
1 AACAATTTCCA
50664524 TTGCAACAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 36 0.97
30 1 0.03
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (29 bp):
AACAATTTCCAGTTTCATTGAAAACTACA
Found at i:50665633 original size:15 final size:15
Alignment explanation
Indices: 50665613--50665641 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50665603 GCAATACAAA
50665613 CATACAAAACAGAAC
1 CATACAAAACAGAAC
50665628 CATACAAAACAGAA
1 CATACAAAACAGAA
50665642 ACCACAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.24, G:0.07, T:0.07
Consensus pattern (15 bp):
CATACAAAACAGAAC
Found at i:50669987 original size:21 final size:21
Alignment explanation
Indices: 50669962--50670002 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50669952 GGACTTGAGA
50669962 AATTTTAGATTAGGGATTTTC
1 AATTTTAGATTAGGGATTTTC
* *
50669983 AATTTTGGGTTAGGGATTTT
1 AATTTTAGATTAGGGATTTT
50670003 TGAGTCTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (21 bp):
AATTTTAGATTAGGGATTTTC
Found at i:50671627 original size:22 final size:23
Alignment explanation
Indices: 50671582--50671627 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
50671572 ACATATATTC
*
50671582 TTTTTTAAAGTATTTGTTTTTGT
1 TTTTTTAAAGTATTTGTTTATGT
50671605 TTTTTTATAA-TATTT-TTTATGT
1 TTTTTTA-AAGTATTTGTTTATGT
50671627 T
1 T
50671628 ATTGGTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 12 0.57
24 2 0.10
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.72
Consensus pattern (23 bp):
TTTTTTAAAGTATTTGTTTATGT
Found at i:50686423 original size:3 final size:3
Alignment explanation
Indices: 50686415--50686439 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
50686405 TGCTTTCAAA
50686415 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
50686440 GAGAGTGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:50688318 original size:20 final size:17
Alignment explanation
Indices: 50688284--50688322 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 17
50688274 ATTCTGTAGT
50688284 TAAAAAAAAAAAGAGAG
1 TAAAAAAAAAAAGAGAG
50688301 TAAATAAAACAAATAGAGAG
1 TAAA-AAAA-AAA-AGAGAG
50688321 TA
1 TA
50688323 TAGAAGAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 4 0.21
19 3 0.16
20 8 0.42
ACGTcount: A:0.69, C:0.03, G:0.15, T:0.13
Consensus pattern (17 bp):
TAAAAAAAAAAAGAGAG
Found at i:50704271 original size:13 final size:13
Alignment explanation
Indices: 50704234--50704274 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
50704224 TTTTGCTTTA
50704234 CTGCTTTGCTCTG
1 CTGCTTTGCTCTG
50704247 CT--TTGTGCCTCTG
1 CTGCTT-TG-CTCTG
50704260 CTGCTTTGCTCTG
1 CTGCTTTGCTCTG
50704273 CT
1 CT
50704275 TTGCTTTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
11 2 0.08
12 2 0.08
13 16 0.67
14 2 0.08
15 2 0.08
ACGTcount: A:0.00, C:0.32, G:0.22, T:0.46
Consensus pattern (13 bp):
CTGCTTTGCTCTG
Found at i:50704449 original size:12 final size:12
Alignment explanation
Indices: 50704432--50704456 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50704422 TATTTTAGAG
50704432 TTTACTAATTGC
1 TTTACTAATTGC
50704444 TTTACTAATTGC
1 TTTACTAATTGC
50704456 T
1 T
50704457 AGATCCCCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTACTAATTGC
Found at i:50707815 original size:72 final size:72
Alignment explanation
Indices: 50707720--50707958 Score: 356
Period size: 72 Copynumber: 3.3 Consensus size: 72
50707710 CAATGCTAAA
* *
50707720 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTATTTAT
50707785 GTGTAAT
66 GTGTAAT
* * ** *
50707792 CTAGTTTTATCAATGGCTGTTTATGTTTTCTCTTTAGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTATTTAT
50707857 GTGTAAT
66 GTGTAAT
*
50707864 CTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTATTTAT
* *
50707929 ACT-AAAT
66 -GTGTAAT
*
50707936 -TAATTTTATCAATAGTTGTTTAT
1 CTAGTTTTATCAATAGTTGTTTAT
50707959 ATATGATTTT
Statistics
Matches: 149, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
71 21 0.14
72 127 0.85
73 1 0.01
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:50714012 original size:22 final size:23
Alignment explanation
Indices: 50713982--50714028 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
50713972 AAGTGGGTTA
50713982 TTTACATGTTTAGGG-CTTAGGG
1 TTTACATGTTTAGGGTCTTAGGG
* *
50714004 TTTAGATGTTTAGGGTTTTAGGG
1 TTTACATGTTTAGGGTCTTAGGG
50714027 TT
1 TT
50714029 AGGATTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.17, C:0.04, G:0.32, T:0.47
Consensus pattern (23 bp):
TTTACATGTTTAGGGTCTTAGGG
Found at i:50714139 original size:28 final size:28
Alignment explanation
Indices: 50714086--50714186 Score: 96
Period size: 28 Copynumber: 3.4 Consensus size: 28
50714076 GATTTTGGAG
* * *
50714086 AAAATAAATTGGGTTTTAGGAATTTTAA
1 AAAATAAATTAGGTTTTATGATTTTTAA
50714114 AAAATAAATTAGGTTTTATGATTTTTTTTAA
1 AAAATAAATTAGGTTTTATGA---TTTTTAA
* *
50714145 ATAAATTAAATTAGGATTTATTG-TTTATAA
1 A-AAA-TAAATTAGGTTTTA-TGATTTTTAA
50714175 AAAATAAATTAG
1 AAAATAAATTAG
50714187 AGCCTAGGGA
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
28 27 0.44
29 3 0.05
30 7 0.11
31 7 0.11
32 3 0.05
33 13 0.21
34 2 0.03
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.44
Consensus pattern (28 bp):
AAAATAAATTAGGTTTTATGATTTTTAA
Found at i:50714468 original size:125 final size:127
Alignment explanation
Indices: 50714300--50714569 Score: 354
Period size: 125 Copynumber: 2.2 Consensus size: 127
50714290 TTTTGTTCAG
* ** * *
50714300 TCAGCAAAAGTACT-AAAAAAGCTTCCAGCTGGATGCTATTTTTCTAAAGTAGTTTCTGAAAAAA
1 TCAGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTACTTTTCTAAAGTAGTTTCTAAAAAAA
* * * *
50714364 TTATTTTGAGAAGATGATTCTGAAAAA-TAGGGTCAAAAA-TGCTTTAAGCATGATGCACT-T
66 TAATTTTGAGAAGATGATTCTAAAAAATTAGGGT-AAAAAGTGCTTCAAGCAGGATGCACTGT
* *
50714424 TCAGCAAAAATACTGAAAAAAGCTCCCA-CATGGACACTACTTTTCTATAGTAGTTTCTAAAAAA
1 TCAGCAAAAGTACTGAAAAAAGCTCCCAGC-TGGACACTACTTTTCTAAAGTAGTTTCTAAAAAA
* * *
50714488 ATAATTTTGAGAAGATGGTTCTAAAAAATTAGTGTAAAAAGTGCTTCAAGCAGGATGTACTGT
65 ATAATTTTGAGAAGATGATTCTAAAAAATTAGGGTAAAAAGTGCTTCAAGCAGGATGCACTGT
50714551 T-AGCAAAAGTACTGAAAAA
1 TCAGCAAAAGTACTGAAAAA
50714570 TGGAAGAGTG
Statistics
Matches: 126, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
124 14 0.11
125 71 0.56
126 39 0.31
127 2 0.02
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (127 bp):
TCAGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTACTTTTCTAAAGTAGTTTCTAAAAAAA
TAATTTTGAGAAGATGATTCTAAAAAATTAGGGTAAAAAGTGCTTCAAGCAGGATGCACTGT
Found at i:50715594 original size:59 final size:58
Alignment explanation
Indices: 50715499--50715612 Score: 160
Period size: 59 Copynumber: 1.9 Consensus size: 58
50715489 AAGAACTTCT
*
50715499 ATTTTATTAAATAGGACAAAATATAAAAATAATTTGTATAAATATATTTTAAAAAATTTTG
1 ATTTTATTAAATA-GACAAAATATAAAAATAATTTGTACAAATATA--TTAAAAAATTTTG
*
50715560 ATTTTATTAAAT-GA-AATAATATAAAAATAGTTTGTACAAATATATTAAAAAAT
1 ATTTTATTAAATAGACAA-AATATAAAAATAATTTGTACAAATATATTAAAAAAT
50715613 CAATACATGT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
57 9 0.18
58 2 0.04
59 27 0.54
61 12 0.24
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (58 bp):
ATTTTATTAAATAGACAAAATATAAAAATAATTTGTACAAATATATTAAAAAATTTTG
Found at i:50719942 original size:16 final size:16
Alignment explanation
Indices: 50719921--50719967 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
50719911 TTTAACTGCC
*
50719921 AAATTAAATTAATTCA
1 AAATTAATTTAATTCA
50719937 AAATTAATTTAATTCA
1 AAATTAATTTAATTCA
50719953 AAATTAATTTAATTC
1 AAATTAATTTAATTC
50719968 TTGTGACAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTAATTTAATTCA
Found at i:50730264 original size:25 final size:25
Alignment explanation
Indices: 50730218--50730271 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
50730208 ATTGAAATTT
* **
50730218 AAAATAAATAAAAGGGTAAATTAAA
1 AAAATAAAAAAAAAAGTAAATTAAA
* *
50730243 AAAATAAAAAAAAAAGTTAATTACA
1 AAAATAAAAAAAAAAGTAAATTAAA
50730268 AAAA
1 AAAA
50730272 CATTAAAAGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (25 bp):
AAAATAAAAAAAAAAGTAAATTAAA
Found at i:50730589 original size:19 final size:19
Alignment explanation
Indices: 50730565--50730677 Score: 172
Period size: 19 Copynumber: 5.8 Consensus size: 19
50730555 AATAATATAT
50730565 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
50730584 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
50730603 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
50730622 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
50730643 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
50730662 TCTAAGATTGAATATC
1 TCTAAGATTGCATATC
50730678 CTCAAAAATT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
19 67 0.79
21 18 0.21
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:50730652 original size:40 final size:39
Alignment explanation
Indices: 50730565--50730677 Score: 194
Period size: 40 Copynumber: 2.9 Consensus size: 39
50730555 AATAATATAT
50730565 TCTAAGATTGCATATCATATCTAAGATT-ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGATATATCATA
50730603 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTG-ATATATCATA
*
50730643 TCTAGGATTGCATATCATATCTAAGATTGA-ATATC
1 TCTAAGATTGCATATCATATCTAAGATTGATATATC
50730678 CTCAAAAATT
Statistics
Matches: 72, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
38 33 0.46
39 1 0.01
40 38 0.53
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (39 bp):
TCTAAGATTGCATATCATATCTAAGATTGATATATCATA
Found at i:50730658 original size:59 final size:57
Alignment explanation
Indices: 50730558--50730677 Score: 172
Period size: 59 Copynumber: 2.1 Consensus size: 57
50730548 ATTATAAAAT
*
50730558 AATAT-AT-TCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTG
1 AATATCATATCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
* * *
50730613 CATATCATATCTAAGATTGCATATATCATATCTAGGATTGCATATCATATCTAAGATTG
1 AATATCATATCTAAGATTGC--ATATCATATCTAAGATTACATATCATATCTAAGATTG
50730672 AATATC
1 AATATC
50730678 CTCAAAAATT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
55 4 0.07
56 2 0.04
57 11 0.20
59 39 0.70
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (57 bp):
AATATCATATCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:50730825 original size:44 final size:44
Alignment explanation
Indices: 50730756--50730843 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
50730746 AAGGCCCAAT
* * *
50730756 CGGCCCAAAACAGTTCCTAGTCCAACATTACAAAATTAAACAGA
1 CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
* * * *
50730800 CGGCCCAAAACGGTCCCTGGCCCAACACTACAAAGTTAAGCAGA
1 CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
50730844 AAAACCCTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.39, C:0.31, G:0.16, T:0.15
Consensus pattern (44 bp):
CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
Found at i:50732012 original size:22 final size:22
Alignment explanation
Indices: 50731986--50732027 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
50731976 TTTATTTTCA
50731986 TATTTT-TTTAATATATTATACT
1 TATTTTATTT-ATATATTATACT
*
50732008 TATTTTATTTATATTTTATA
1 TATTTTATTTATATATTATA
50732028 AAGTACATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTTATTTATATATTATACT
Found at i:50744240 original size:44 final size:45
Alignment explanation
Indices: 50744177--50744274 Score: 137
Period size: 44 Copynumber: 2.2 Consensus size: 45
50744167 CAGTAGAATC
* *
50744177 GATCGAAGAAAGCAGATCTTGTCTTCAT-GTATTGG-CGTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTC-TCATACTGGTCGTGAAGTA
* *
50744221 GATCGAAGAAAGTAGATCTTGTCTTCTCATACTGGTGGTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCTCATACTGGTCGTGAAGTA
50744266 GATCGAAGA
1 GATCGAAGA
50744275 TACAAGTCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
43 1 0.02
44 30 0.62
45 17 0.35
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.29
Consensus pattern (45 bp):
GATCGAAGAAAGCAGATCTTGTCTTCTCATACTGGTCGTGAAGTA
Found at i:50744333 original size:44 final size:44
Alignment explanation
Indices: 50744284--50744440 Score: 140
Period size: 44 Copynumber: 3.6 Consensus size: 44
50744274 ATACAAGTCT
* *
50744284 TATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAATAATCGGTCC
1 TATCTCCCAGAAGTTGCAATGGAGTAGACAGAAATAATCGGTCC
* * * ** *
50744328 TATCTCCCAGGAGTTGCAATTGAGTGGACTA-AAACCA-CAGAT-C
1 TATCTCCCAGAAGTTGCAATGGAGTAGAC-AGAAATAATC-GGTCC
* * ** *
50744371 TCATCTCTCTGAAGTTGCAGCGGAGCAGACAGAAATAATCGGTCC
1 T-ATCTCCCAGAAGTTGCAATGGAGTAGACAGAAATAATCGGTCC
*
50744416 TATCTCCCAGGAGTTGCAATGGAGT
1 TATCTCCCAGAAGTTGCAATGGAGT
50744441 GGACTAAAAC
Statistics
Matches: 82, Mismatches: 25, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
43 4 0.05
44 74 0.90
45 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (44 bp):
TATCTCCCAGAAGTTGCAATGGAGTAGACAGAAATAATCGGTCC
Found at i:50744390 original size:88 final size:88
Alignment explanation
Indices: 50744285--50744487 Score: 361
Period size: 88 Copynumber: 2.3 Consensus size: 88
50744275 TACAAGTCTT
* * *
50744285 ATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAATAATCGGTCCTATCTCCCAGGAGTTGCAATTG
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAATAATCGGTCCTATCTCCCAGGAGTTGCAATGG
50744350 AGTGGACTAAAACCACAGATCTC
66 AGTGGACTAAAACCACAGATCTC
*
50744373 ATCTCTCTGAAGTTGCAGCGGAGCAGACAGAAATAATCGGTCCTATCTCCCAGGAGTTGCAATGG
1 ATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAATAATCGGTCCTATCTCCCAGGAGTTGCAATGG
50744438 AGTGGACTAAAACCACAGATCTC
66 AGTGGACTAAAACCACAGATCTC
*
50744461 ATCTCTCTGAAGTTGCAGTAGAGCAGA
1 ATCTCTCTGAAGTTGCAGTGGAGCAGA
50744488 TCACATTAGA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 109 1.00
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (88 bp):
ATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAATAATCGGTCCTATCTCCCAGGAGTTGCAATGG
AGTGGACTAAAACCACAGATCTC
Found at i:50744475 original size:44 final size:44
Alignment explanation
Indices: 50744339--50744477 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 44
50744329 ATCTCCCAGG
*
50744339 AGTTGCAATTGAGTGGACTAAAACCACAGATCTCATCTCTCTGA
1 AGTTGCAATGGAGTGGACTAAAACCACAGATCTCATCTCTCTGA
** ** ** * * * *
50744383 AGTTGCAGCGGAGCAGAC-AGAAATAATC-GGTC-CTATCTCCCAGG
1 AGTTGCAATGGAGTGGACTA-AAACCA-CAGATCTC-ATCTCTCTGA
50744427 AGTTGCAATGGAGTGGACTAAAACCACAGATCTCATCTCTCTGA
1 AGTTGCAATGGAGTGGACTAAAACCACAGATCTCATCTCTCTGA
50744471 AGTTGCA
1 AGTTGCA
50744478 GTAGAGCAGA
Statistics
Matches: 68, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
43 3 0.04
44 62 0.91
45 3 0.04
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (44 bp):
AGTTGCAATGGAGTGGACTAAAACCACAGATCTCATCTCTCTGA
Found at i:50746088 original size:22 final size:22
Alignment explanation
Indices: 50746062--50746103 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
50746052 TTTATTTTCA
50746062 TATTTT-TTTAATATATTATACT
1 TATTTTATTT-ATATATTATACT
*
50746084 TATTTTATTTATATTTTATA
1 TATTTTATTTATATATTATA
50746104 AAGTACATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTTATTTATATATTATACT
Found at i:50748948 original size:98 final size:98
Alignment explanation
Indices: 50748774--50748970 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
50748764 GTACAATAAA
*
50748774 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
50748839 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
50748872 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
50748937 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
50748970 A
1 A
50748971 TTATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:50749666 original size:24 final size:26
Alignment explanation
Indices: 50749637--50749685 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
50749627 ATATAAATAT
50749637 GAAAATATTC-ATT-AAAAAATATAG
1 GAAAATATTCGATTAAAAAAATATAG
*
50749661 GAAAATATTCGTTTAAAAAAATATA
1 GAAAATATTCGATTAAAAAAATATA
50749686 TACATGTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.45
25 2 0.09
26 10 0.45
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (26 bp):
GAAAATATTCGATTAAAAAAATATAG
Found at i:50750322 original size:61 final size:61
Alignment explanation
Indices: 50750256--50750370 Score: 194
Period size: 61 Copynumber: 1.9 Consensus size: 61
50750246 AGCCACCTTT
* * *
50750256 AAAAAACTGCCAATCGTTCTCTTTTTTATTCCTCCCTTTTCTTCCTTTTTTTTTAAAAAAA
1 AAAAAACTACCAATCGTTCTATTTTTTATTCCTCCCCTTTCTTCCTTTTTTTTTAAAAAAA
*
50750317 AAAAAACTACCAATTGTTCTATTTTTTATTCCTCCCCTTTCTTCCTTTTTTTTT
1 AAAAAACTACCAATCGTTCTATTTTTTATTCCTCCCCTTTCTTCCTTTTTTTTT
50750371 CCTTTTACAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.23, C:0.23, G:0.03, T:0.50
Consensus pattern (61 bp):
AAAAAACTACCAATCGTTCTATTTTTTATTCCTCCCCTTTCTTCCTTTTTTTTTAAAAAAA
Found at i:50750526 original size:19 final size:19
Alignment explanation
Indices: 50750502--50750636 Score: 207
Period size: 19 Copynumber: 7.0 Consensus size: 19
50750492 CAAAATCATA
50750502 ATATCTAAGATTGCATATC
1 ATATCTAAGATTGCATATC
** *
50750521 ATATCTAAGATTATATATA
1 ATATCTAAGATTGCATATC
50750540 ATATCTAAGATTGCATATC
1 ATATCTAAGATTGCATATC
50750559 ATATCTAAGATTGCATATATC
1 ATATCTAAGATTGC--ATATC
50750580 ATATCTAAGATTGCATATC
1 ATATCTAAGATTGCATATC
* *
50750599 ATATCTAGGATTACATATC
1 ATATCTAAGATTGCATATC
50750618 ATATCTAAGATTGCATATC
1 ATATCTAAGATTGCATATC
50750637 CTCAAAAATT
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
19 85 0.82
21 19 0.18
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.38
Consensus pattern (19 bp):
ATATCTAAGATTGCATATC
Found at i:50750603 original size:59 final size:59
Alignment explanation
Indices: 50750502--50750635 Score: 209
Period size: 59 Copynumber: 2.3 Consensus size: 59
50750492 CAAAATCATA
* *
50750502 ATATCTAAGATTGC--ATATCATATCTAAGATTATATATAATATCTAAGATTGCATATC
1 ATATCTAAGATTGCATATATCATATCTAAGATTACATATAATATCTAAGATTACATATC
* * *
50750559 ATATCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTACATATC
1 ATATCTAAGATTGCATATATCATATCTAAGATTACATATAATATCTAAGATTACATATC
50750618 ATATCTAAGATTGCATAT
1 ATATCTAAGATTGCATAT
50750636 CCTCAAAAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
57 14 0.20
59 56 0.80
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (59 bp):
ATATCTAAGATTGCATATATCATATCTAAGATTACATATAATATCTAAGATTACATATC
Found at i:50752158 original size:13 final size:13
Alignment explanation
Indices: 50752129--50752161 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
50752119 TAAACTCGTT
*
50752129 AGAAAAAGAAAAG
1 AGAAAAAAAAAAG
50752142 -GAAAAAAAAAAG
1 AGAAAAAAAAAAG
50752154 AGAAAAAA
1 AGAAAAAA
50752162 GAAGGTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAAG
Found at i:50754015 original size:23 final size:21
Alignment explanation
Indices: 50753943--50754023 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
50753933 TGATCAGTAT
*
50753943 ACGACACAT-AAGTGCCTGTA
1 ACGACACATAAAGTGCCTGAA
** *
50753963 ACGACACACGAGGTGCCTGAA
1 ACGACACATAAAGTGCCTGAA
*
50753984 ACGATACATAAAGTGCCTGAGA
1 ACGACACATAAAGTGCCTGA-A
50754006 TACGACACATAAAGTGCC
1 -ACGACACATAAAGTGCC
50754024 GGATCGGCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
20 8 0.16
21 25 0.50
22 1 0.02
23 16 0.32
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (21 bp):
ACGACACATAAAGTGCCTGAA
Found at i:50755234 original size:15 final size:16
Alignment explanation
Indices: 50755216--50755245 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50755206 TAATTAATAT
50755216 AATTT-ATAATATTTG
1 AATTTAATAATATTTG
50755231 AATTTAATAATATTT
1 AATTTAATAATATTT
50755246 TTATAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
AATTTAATAATATTTG
Found at i:50755870 original size:18 final size:19
Alignment explanation
Indices: 50755840--50755881 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
50755830 TATTCCACTA
*
50755840 AAGTT-GTTAATTATATTT
1 AAGTTAGTTAATTATAGTT
50755858 AAGTTAGTT-ATTATAGTT
1 AAGTTAGTTAATTATAGTT
50755876 AA-TTAG
1 AAGTTAG
50755882 ACCAATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 15 0.68
19 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (19 bp):
AAGTTAGTTAATTATAGTT
Found at i:50762745 original size:54 final size:54
Alignment explanation
Indices: 50762687--50762807 Score: 136
Period size: 54 Copynumber: 2.2 Consensus size: 54
50762677 CATGTAACAA
* *
50762687 ACTGTG-TCTGTGTAACTCAAAGTCACATGACCGCGTCGCCAGGCCATGTACCTC
1 ACTGTGATC-GTGTAACTCAAAGTCACACGACCGCGTCACCAGGCCATGTACCTC
* ** * * *
50762741 ACTGTGATCGTGTAATTCAGGGTCACACGACCGTGTCACCAGGTCATGTAACTC
1 ACTGTGATCGTGTAACTCAAAGTCACACGACCGCGTCACCAGGCCATGTACCTC
**
50762795 TTTGTGATCGTGT
1 ACTGTGATCGTGT
50762808 GGACTACCCT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 54 0.96
55 2 0.04
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.28
Consensus pattern (54 bp):
ACTGTGATCGTGTAACTCAAAGTCACACGACCGCGTCACCAGGCCATGTACCTC
Found at i:50769779 original size:27 final size:27
Alignment explanation
Indices: 50769711--50769995 Score: 201
Period size: 27 Copynumber: 10.6 Consensus size: 27
50769701 ATTTTGTTAG
* *
50769711 CCTCTGTGGCAAACTCTGAAAGAATAG
1 CCTCTGTGGCGAACTCTGAAAGAATAT
* * * ** * *
50769738 ACTTTATGGTAAACTTTGAAACAATAT
1 CCTCTGTGGCGAACTCTGAAAGAATAT
* *
50769765 CCTCTATGGCGAACTCTGAAAGAATAG
1 CCTCTGTGGCGAACTCTGAAAGAATAT
* * * * * *
50769792 CCGCTGTAGCTAACTTTGAAATAATAG
1 CCTCTGTGGCGAACTCTGAAAGAATAT
** * * *
50769819 GATTTGTGGCTAACTCTGAAAGAATAG
1 CCTCTGTGGCGAACTCTGAAAGAATAT
** * * *
50769846 GATTTGTGGCAAACTTTGAAAGAATAT
1 CCTCTGTGGCGAACTCTGAAAGAATAT
* * *
50769873 CCTTTGTGGCGAACTTTGAAAGAATAA
1 CCTCTGTGGCGAACTCTGAAAGAATAT
*
50769900 CCTCTGTGGTGAACTCTGAAAGAATAT
1 CCTCTGTGGCGAACTCTGAAAGAATAT
* **
50769927 CCTCTATGATGAACTCTGAAAGAATAT
1 CCTCTGTGGCGAACTCTGAAAGAATAT
* * * * *
50769954 CCTCTATTGTGAACTCTAAAAGAATAG
1 CCTCTGTGGCGAACTCTGAAAGAATAT
* *
50769981 CCTTTGTGGTGAACT
1 CCTCTGTGGCGAACT
50769996 ATAACATACC
Statistics
Matches: 211, Mismatches: 47, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 211 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (27 bp):
CCTCTGTGGCGAACTCTGAAAGAATAT
Found at i:50769947 original size:81 final size:81
Alignment explanation
Indices: 50769711--50769995 Score: 259
Period size: 81 Copynumber: 3.5 Consensus size: 81
50769701 ATTTTGTTAG
* * * * *
50769711 CCTCTGTGGCAAACTCTGAAAGAATAGA-CTTTATGGTAAACTTTGAAACAATATCCTCTATGGC
1 CCTCTGTGGCGAACTCTGAAAGAATA-ACCTTTGTGGTGAACTCTGAAAGAATATCCTCTATGGC
*
50769775 GAACTCTGAAAGAATAG
65 GAACTCTGAAAGAATAT
* * * * * *** *** * *
50769792 CCGCTGTAGCTAACTTTGAAATAATAGGATTTGTGGCT-AACTCTGAAAGAATAGGATTTGTGGC
1 CCTCTGTGGCGAACTCTGAAAGAATAACCTTTGTGG-TGAACTCTGAAAGAATATCCTCTATGGC
* *
50769856 AAACTTTGAAAGAATAT
65 GAACTCTGAAAGAATAT
* * * **
50769873 CCTTTGTGGCGAACTTTGAAAGAATAACCTCTGTGGTGAACTCTGAAAGAATATCCTCTATGATG
1 CCTCTGTGGCGAACTCTGAAAGAATAACCTTTGTGGTGAACTCTGAAAGAATATCCTCTATGGCG
50769938 AACTCTGAAAGAATAT
66 AACTCTGAAAGAATAT
* * * * *
50769954 CCTCTATTGTGAACTCTAAAAGAATAGCCTTTGTGGTGAACT
1 CCTCTGTGGCGAACTCTGAAAGAATAACCTTTGTGGTGAACT
50769996 ATAACATACC
Statistics
Matches: 157, Mismatches: 44, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
80 1 0.01
81 155 0.99
82 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (81 bp):
CCTCTGTGGCGAACTCTGAAAGAATAACCTTTGTGGTGAACTCTGAAAGAATATCCTCTATGGCG
AACTCTGAAAGAATAT
Found at i:50772701 original size:31 final size:32
Alignment explanation
Indices: 50772648--50772712 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
50772638 ATAAGTATTA
*
50772648 TTAAGTATTTATTGGTTTTGGCTT-GTAATTT
1 TTAAGTATTTATTGGTTTTGGCTTGGTAACTT
*
50772679 TTAATTATTT-TTGGTTTGTGGCTTGGTAACTT
1 TTAAGTATTTATTGGTTT-TGGCTTGGTAACTT
50772711 TT
1 TT
50772713 CTTTTGGGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 7 0.23
31 15 0.50
32 8 0.27
ACGTcount: A:0.17, C:0.05, G:0.20, T:0.58
Consensus pattern (32 bp):
TTAAGTATTTATTGGTTTTGGCTTGGTAACTT
Found at i:50773363 original size:81 final size:81
Alignment explanation
Indices: 50773223--50773549 Score: 352
Period size: 81 Copynumber: 4.0 Consensus size: 81
50773213 CAAAGCCCTT
* * * * * * *
50773223 AACTTTGAAAGACTAACCTTTGTGGTGAACTTTGAAAGAATAACCTCTATGGTGAACTCTAAAAG
1 AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATATCCTCTATGGCGAACTCTGAAAG
*
50773288 AATAACCTCTATGGTG
66 AATAACCTCTATGGCG
* * **
50773304 AACTCTGAAAGAATAACCTCTATGGTGAATTATGAAAGAATATCCTCTATGATGAACTCTGAAAG
1 AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATATCCTCTATGGCGAACTCTGAAAG
* * *
50773369 AATATCCTCTATAGCA
66 AATAACCTCTATGGCG
* * * * * *
50773385 AACTCTGAAAGAATAACCTTTGTGGCGAACTATGAAAGAATAGCCT-TCGTGGCGAATTCTTAAA
1 AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATATCCTCT-ATGGCGAACTCTGAAA
* * *
50773449 GAATAGCCTTTGTGGCG
65 GAATAACCTCTATGGCG
* * * *
50773466 AATTCTGAAAGAATAACCTCTGTGGTGAACTCTAAAAGAATAGT-CTTTATGGCGAACTCTGAAA
1 AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATA-TCCTCTATGGCGAACTCTGAAA
* *
50773530 GAATAACCTTTGTGGCG
65 GAATAACCTCTATGGCG
50773547 AAC
1 AAC
50773550 CTTGAATGGA
Statistics
Matches: 204, Mismatches: 39, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
80 1 0.00
81 202 0.99
82 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (81 bp):
AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATATCCTCTATGGCGAACTCTGAAAG
AATAACCTCTATGGCG
Found at i:50773555 original size:27 final size:27
Alignment explanation
Indices: 50773223--50773549 Score: 305
Period size: 27 Copynumber: 12.1 Consensus size: 27
50773213 CAAAGCCCTT
* * * * *
50773223 AACTTTGAAAGACTAACCTTTGTGGTG
1 AACTCTGAAAGAATAACCTCTATGGCG
* *
50773250 AACTTTGAAAGAATAACCTCTATGGTG
1 AACTCTGAAAGAATAACCTCTATGGCG
* *
50773277 AACTCTAAAAGAATAACCTCTATGGTG
1 AACTCTGAAAGAATAACCTCTATGGCG
*
50773304 AACTCTGAAAGAATAACCTCTATGGTG
1 AACTCTGAAAGAATAACCTCTATGGCG
* * * **
50773331 AATTATGAAAGAATATCCTCTATGATG
1 AACTCTGAAAGAATAACCTCTATGGCG
* * *
50773358 AACTCTGAAAGAATATCCTCTATAGCA
1 AACTCTGAAAGAATAACCTCTATGGCG
* *
50773385 AACTCTGAAAGAATAACCTTTGTGGCG
1 AACTCTGAAAGAATAACCTCTATGGCG
* * *
50773412 AACTATGAAAGAATAGCCT-TCGTGGCG
1 AACTCTGAAAGAATAACCTCT-ATGGCG
* * * * *
50773439 AATTCTTAAAGAATAGCCTTTGTGGCG
1 AACTCTGAAAGAATAACCTCTATGGCG
* * *
50773466 AATTCTGAAAGAATAACCTCTGTGGTG
1 AACTCTGAAAGAATAACCTCTATGGCG
* ** *
50773493 AACTCTAAAAGAATAGTCTTTATGGCG
1 AACTCTGAAAGAATAACCTCTATGGCG
* *
50773520 AACTCTGAAAGAATAACCTTTGTGGCG
1 AACTCTGAAAGAATAACCTCTATGGCG
50773547 AAC
1 AAC
50773550 CTTGAATGGA
Statistics
Matches: 257, Mismatches: 41, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.00
27 255 0.99
28 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
AACTCTGAAAGAATAACCTCTATGGCG
Found at i:50776016 original size:124 final size:123
Alignment explanation
Indices: 50775850--50776079 Score: 361
Period size: 124 Copynumber: 1.9 Consensus size: 123
50775840 TTACAATTTG
* *
50775850 ATTACCAACTGTCATCTAAGTAAAGCTAACATGGTAGCTAATGCATTAAGCCAGAAATCTTTGTT
1 ATTACCAACTATCATCTAAGTAAACCTAACATGGTAGCTAATGCATTAAGCCAGAAATCTTT-TT
* * *
50775915 TTTTTAAAGCAATGAACACTCATCTGACTTTGCAACGTGATGGGAAATGTTACGATCTA
65 TTTTTAAAGCAATGAACACTCATCTAAATTTGAAACGTGATGGGAAATGTTACGATCTA
** *
50775974 ATTACCAACTATCATCTGGGTAAACCTAACATGGTAGCTAATGCATTAAGCCATAAATCTTTTTT
1 ATTACCAACTATCATCTAAGTAAACCTAACATGGTAGCTAATGCATTAAGCCAGAAATCTTTTTT
* *
50776039 TTTTGAAGCAATGAACACTTATCTAAATTTGAAACGTGATG
66 TTTTAAAGCAATGAACACTCATCTAAATTTGAAACGTGATG
50776080 ATTCTATTCT
Statistics
Matches: 96, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
123 39 0.41
124 57 0.59
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (123 bp):
ATTACCAACTATCATCTAAGTAAACCTAACATGGTAGCTAATGCATTAAGCCAGAAATCTTTTTT
TTTTAAAGCAATGAACACTCATCTAAATTTGAAACGTGATGGGAAATGTTACGATCTA
Found at i:50777804 original size:19 final size:18
Alignment explanation
Indices: 50777780--50777835 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
50777770 GTAAACTTTT
50777780 TTAATTATAATTAAGTTAG
1 TTAATTATAATTAA-TTAG
*
50777799 TTAATTATAGTTAATTAG
1 TTAATTATAATTAATTAG
* *
50777817 ACTAATTATTGATTAATTA
1 -TTAATTA-TAATTAATTA
50777836 ATGGTTAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 4 0.13
19 19 0.61
20 8 0.26
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (18 bp):
TTAATTATAATTAATTAG
Found at i:50779585 original size:18 final size:19
Alignment explanation
Indices: 50779558--50779600 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
50779548 GTACTCTTGA
* *
50779558 ATAAACAATCAATT-TCAG
1 ATAAATAATCAATTAACAG
*
50779576 ATAAATAATCACTTAACAG
1 ATAAATAATCAATTAACAG
50779595 ATAAAT
1 ATAAAT
50779601 TGGTTTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (19 bp):
ATAAATAATCAATTAACAG
Found at i:50783509 original size:25 final size:25
Alignment explanation
Indices: 50783475--50783549 Score: 132
Period size: 25 Copynumber: 3.0 Consensus size: 25
50783465 TTGGGAGTCA
50783475 TCCACTTCGATGCCCAAGACAAAGC
1 TCCACTTCGATGCCCAAGACAAAGC
50783500 TCCACTTCGATGCCCAAGACAAAGC
1 TCCACTTCGATGCCCAAGACAAAGC
* *
50783525 TCCACTCCAATGCCCAAGACAAAGC
1 TCCACTTCGATGCCCAAGACAAAGC
50783550 ATTTCCCCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.33, C:0.37, G:0.15, T:0.15
Consensus pattern (25 bp):
TCCACTTCGATGCCCAAGACAAAGC
Found at i:50787185 original size:20 final size:19
Alignment explanation
Indices: 50787162--50787214 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
50787152 ATTTTGTACT
50787162 TTTTAAAATAAATTTAATAA
1 TTTTAAAATAAATTTAA-AA
* *
50787182 TTTTAAATTTAAATTTTAAA
1 TTTTAAA-ATAAATTTAAAA
*
50787202 TTTTTAAA-AAATT
1 TTTTAAAATAAATT
50787215 AATTAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 5 0.18
20 15 0.54
21 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAAAATAAATTTAAAA
Found at i:50787185 original size:21 final size:20
Alignment explanation
Indices: 50787161--50787210 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
50787151 AATTTTGTAC
50787161 TTTTTAAAATAAATTTAATAA
1 TTTTTAAAATAAATTTAA-AA
* *
50787182 -TTTTAAATTTAAATTTTAAA
1 TTTTTAAA-ATAAATTTAAAA
50787202 TTTTTAAAA
1 TTTTTAAAA
50787211 AATTAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTTTAAAATAAATTTAAAA
Found at i:50787198 original size:13 final size:15
Alignment explanation
Indices: 50787170--50787204 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
50787160 CTTTTTAAAA
50787170 TAAATTTAATAATTT
1 TAAATTTAATAATTT
50787185 TAAATTT-A-AATTT
1 TAAATTTAATAATTT
50787198 TAAATTT
1 TAAATTT
50787205 TTAAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
14 1 0.05
15 7 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAAATTTAATAATTT
Found at i:50791089 original size:44 final size:46
Alignment explanation
Indices: 50791026--50791120 Score: 151
Period size: 44 Copynumber: 2.1 Consensus size: 46
50791016 TATTACAACA
50791026 CCATTCCATTCAACCAAACACA-AGAA-TA-TTATTACAGCTCTATT
1 CCATTCCATTCAACCAAACA-ATAGAATTACTTATTACAGCTCTATT
*
50791070 CCATTCCATTCAACCAAACAATTGAATTACTTATTACAGCTCTATT
1 CCATTCCATTCAACCAAACAATAGAATTACTTATTACAGCTCTATT
50791116 CCATT
1 CCATT
50791121 ACAGCTCTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.49
45 2 0.04
46 21 0.45
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (46 bp):
CCATTCCATTCAACCAAACAATAGAATTACTTATTACAGCTCTATT
Found at i:50791123 original size:16 final size:16
Alignment explanation
Indices: 50791102--50791173 Score: 99
Period size: 16 Copynumber: 4.5 Consensus size: 16
50791092 TGAATTACTT
50791102 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
50791118 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
* *
50791134 ATTACAGCTTTATTCA
1 ATTACAGCTCTATTCC
* *
50791150 ATTACATCTTTATTCC
1 ATTACAGCTCTATTCC
50791166 ATTACAGC
1 ATTACAGC
50791174 GAACCAAATG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:50806426 original size:35 final size:35
Alignment explanation
Indices: 50806368--50806462 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 35
50806358 ATAAATTTAG
* **
50806368 TATAAATACAATTTAATTTATATTTT-ATTATTTGAT
1 TATAAATATAATTTAA-AAATATTTTGA-TATTTGAT
* *
50806404 T-TAAATATAATTTGTAAAATATTTTGATATTTTAT
1 TATAAATATAATTT-AAAAATATTTTGATATTTGAT
*
50806439 TATGAATATAATTTAAAAATATTT
1 TATAAATATAATTTAAAAATATTT
50806463 AAATTTTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
35 35 0.71
36 14 0.29
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (35 bp):
TATAAATATAATTTAAAAATATTTTGATATTTGAT
Found at i:50808300 original size:22 final size:21
Alignment explanation
Indices: 50808268--50808308 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
50808258 ACGAAAATAT
50808268 AAAGGAAAGAAAGAAAAAGAG
1 AAAGGAAAGAAAGAAAAAGAG
*
50808289 AAAGAGAAAGAAAGATAAAG
1 AAAG-GAAAGAAAGAAAAAG
50808309 TTGACATCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (21 bp):
AAAGGAAAGAAAGAAAAAGAG
Found at i:50808462 original size:5 final size:5
Alignment explanation
Indices: 50808434--50808475 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
50808424 CACTTTGATT
* *
50808434 ATTGA ATTGA TTTAA AGTTG- ATTGA ATTGA ATTGA ATTGA AT
1 ATTGA ATTGA ATTGA A-TTGA ATTGA ATTGA ATTGA ATTGA AT
50808476 ATATGTGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 3 0.10
5 26 0.84
6 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (5 bp):
ATTGA
Found at i:50812745 original size:43 final size:43
Alignment explanation
Indices: 50812683--50812765 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
50812673 GTACAGGTTA
*
50812683 TGCTTCAGTTTATTAGATGATGCACTATGTATGCCAGTATAGT
1 TGCTTCAGTATATTAGATGATGCACTATGTATGCCAGTATAGT
* * *
50812726 TGCTTCAGTATATTTGATGATGCACTGTGTGTGCCAGTAT
1 TGCTTCAGTATATTAGATGATGCACTATGTATGCCAGTAT
50812766 GCACTATATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.40
Consensus pattern (43 bp):
TGCTTCAGTATATTAGATGATGCACTATGTATGCCAGTATAGT
Found at i:50813680 original size:9 final size:9
Alignment explanation
Indices: 50813651--50813687 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
50813641 TGAGTTTTCG
50813651 AATTCGAAT
1 AATTCGAAT
*
50813660 AACTCGAAT
1 AATTCGAAT
50813669 AATTCGAAT
1 AATTCGAAT
*
50813678 AATTTGAAT
1 AATTCGAAT
50813687 A
1 A
50813688 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:50816216 original size:23 final size:23
Alignment explanation
Indices: 50816161--50816243 Score: 80
Period size: 24 Copynumber: 3.6 Consensus size: 23
50816151 ATGCTAGAAA
*
50816161 AAAGTATGTTTCAAATG-C-TACC
1 AAAGTATGTTTTAAATGTCAT-CC
* **
50816183 AAAGTAAGTTTTAAATGTTGTCC
1 AAAGTATGTTTTAAATGTCATCC
*
50816206 AAAATATGTTTTTAAATGTCATCC
1 AAAGTATG-TTTTAAATGTCATCC
*
50816230 AAAGCATGTTTTAA
1 AAAGTATGTTTTAA
50816244 TAATTGTCCA
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
22 15 0.31
23 14 0.29
24 20 0.41
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (23 bp):
AAAGTATGTTTTAAATGTCATCC
Found at i:50816945 original size:35 final size:35
Alignment explanation
Indices: 50816906--50817092 Score: 114
Period size: 35 Copynumber: 5.4 Consensus size: 35
50816896 GGCACCCCAT
*
50816906 TTGTCTATTATACCAACCAGTGTTGGGCACATCTA
1 TTGTCTATTATACCGACCAGTGTTGGGCACATCTA
** *
50816941 TTGTCGGTTATACCGACCAGTGCTT-GGTACATCTA
1 TTGTCTATTATACCGACCAGTG-TTGGGCACATCTA
* * * * *
50816976 TTAT-TGGTTTTACCGACCAGTGCTGGACACATCTA
1 TTGTCT-ATTATACCGACCAGTGTTGGGCACATCTA
** * * **
50817011 TTGT-TGATTATATTGACCAATGCTACGCACATCTA
1 TTGTCT-ATTATACCGACCAGTGTTGGGCACATCTA
* * * * *
50817046 TTGTCAATTTTACC--CTAGTCTTGGGCACATTTA
1 TTGTCTATTATACCGACCAGTGTTGGGCACATCTA
* *
50817079 TTGTCGATTTTACC
1 TTGTCTATTATACC
50817093 AGCCAGCGCA
Statistics
Matches: 117, Mismatches: 31, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
33 25 0.21
34 1 0.01
35 89 0.76
36 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (35 bp):
TTGTCTATTATACCGACCAGTGTTGGGCACATCTA
Found at i:50817043 original size:70 final size:70
Alignment explanation
Indices: 50816916--50817047 Score: 165
Period size: 70 Copynumber: 1.9 Consensus size: 70
50816906 TTGTCTATTA
* * * * ** *
50816916 TACCAACCAGTGTTGGGCACATCTATTGTCGGTTATACCGACCAGTGCTTGGTACATCTATTATT
1 TACCAACCAGTGCTGGACACATCTATTGTCGATTATACCGACCAATGCTACGCACATCTATTATT
50816981 GGTTT
66 GGTTT
* * **
50816986 TACCGACCAGTGCTGGACACATCTATTGTTGATTATATTGACCAATGCTACGCACATCTATT
1 TACCAACCAGTGCTGGACACATCTATTGTCGATTATACCGACCAATGCTACGCACATCTATT
50817048 GTCAATTTTA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
70 51 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (70 bp):
TACCAACCAGTGCTGGACACATCTATTGTCGATTATACCGACCAATGCTACGCACATCTATTATT
GGTTT
Found at i:50817057 original size:70 final size:70
Alignment explanation
Indices: 50816906--50817092 Score: 155
Period size: 70 Copynumber: 2.7 Consensus size: 70
50816896 GGCACCCCAT
* * * * * * ** *
50816906 TTGTCTATTATACCAACCAGTGTTGGGCACATCTATTGTCGGTTATACCGACCAGTGCTTGGTAC
1 TTGTCAATTTTACCAACCAGTGCTGGACACATCTATTGTCGATTATACCGACCAATGCTACGCAC
50816971 ATCTA
66 ATCTA
* *** * * **
50816976 TTATTGGTTTTACCGACCAGTGCTGGACACATCTATTGTTGATTATATTGACCAATGCTACGCAC
1 TTGTCAATTTTACCAACCAGTGCTGGACACATCTATTGTCGATTATACCGACCAATGCTACGCAC
50817041 ATCTA
66 ATCTA
* * * *
50817046 TTGTCAATTTTACC--CTAGT-CTTGGGCACATTTATTGTCGATTTTACC
1 TTGTCAATTTTACCAACCAGTGC-TGGACACATCTATTGTCGATTATACC
50817093 AGCCAGCGCA
Statistics
Matches: 89, Mismatches: 27, Indels: 4
0.74 0.22 0.03
Matches are distributed among these distances:
67 1 0.01
68 24 0.27
70 64 0.72
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (70 bp):
TTGTCAATTTTACCAACCAGTGCTGGACACATCTATTGTCGATTATACCGACCAATGCTACGCAC
ATCTA
Found at i:50824412 original size:17 final size:15
Alignment explanation
Indices: 50824362--50824416 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 15
50824352 AGTACCATTG
*
50824362 AATAAATAATCAATTT
1 AATAAATAAT-TATTT
50824378 CAGATAAATAATTATTT
1 -A-ATAAATAATTATTT
50824395 AATAAATAAATTAGTTT
1 AATAAAT-AATTA-TTT
50824412 AATAA
1 AATAA
50824417 TCGAAGCATG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
15 6 0.18
16 6 0.18
17 13 0.38
18 9 0.26
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (15 bp):
AATAAATAATTATTT
Found at i:50826736 original size:24 final size:23
Alignment explanation
Indices: 50826709--50826768 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 23
50826699 TTATTAACAT
50826709 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTA-A
* ***
50826733 TGTTCATGAACATGTTTGTTTAA
1 TGTTCGTGAACATGTTCAATTAA
50826756 TGTTCGTGAACAT
1 TGTTCGTGAACAT
50826769 TAAACAAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCAATTAA
Done.