Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 55 of 344
Found at i:17857003 original size:6 final size:6
Alignment explanation
Indices: 17856994--17857021 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
17856984 AATAAAAGTA
17856994 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
17857022 CAAATCTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:17860662 original size:41 final size:41
Alignment explanation
Indices: 17860505--17860651 Score: 276
Period size: 41 Copynumber: 3.6 Consensus size: 41
17860495 AGTGAAATTA
17860505 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
17860546 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
17860587 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
* *
17860628 TTCGGATTATAAGTCTAGCAGGCT
1 TTCAGACTATAAGTCTAGCAGGCT
17860652 AAGAGCCGGT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 104 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
Found at i:17860928 original size:33 final size:32
Alignment explanation
Indices: 17860868--17860931 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
17860858 AGATATGTAT
*
17860868 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGACATAGGTGG
* *
17860900 ATATATTTATGTGTATGCATTCGACATAGGTG
1 ATATATATATATGT-TGCATTCGACATAGGTG
17860932 AAAATAAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGACATAGGTGG
Found at i:17862196 original size:26 final size:26
Alignment explanation
Indices: 17862131--17862203 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
17862121 TATTTTCTTG
* **
17862131 AAATTTTACTAGAGCCAAAATCGTCT
1 AAATTTTACTAGGGGTAAAATCGTCT
* * *
17862157 AAGTTATACCAGGGGTAAAATCGT-T
1 AAATTTTACTAGGGGTAAAATCGTCT
17862182 AAAATTTTACTAGGGGTAAAAT
1 -AAATTTTACTAGGGGTAAAAT
17862204 AGGGATGAGA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
25 1 0.03
26 36 0.97
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (26 bp):
AAATTTTACTAGGGGTAAAATCGTCT
Found at i:17862678 original size:21 final size:21
Alignment explanation
Indices: 17862652--17862692 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
17862642 TTTCATTTTT
17862652 ACCCTAAAAAGAGAGAACTTC
1 ACCCTAAAAAGAGAGAACTTC
*
17862673 ACCCTAAAAGGAGAGAACTT
1 ACCCTAAAAAGAGAGAACTT
17862693 TTTCTAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.22, G:0.17, T:0.15
Consensus pattern (21 bp):
ACCCTAAAAAGAGAGAACTTC
Found at i:17866830 original size:2 final size:2
Alignment explanation
Indices: 17866819--17866851 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
17866809 GAAATCCAAA
*
17866819 AT AT -T AT AT AT AA AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17866852 TTTTGTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17876726 original size:20 final size:20
Alignment explanation
Indices: 17876698--17876739 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
17876688 AAAAAGACAC
*
17876698 ATAATTATTCAACTAATATT
1 ATAACTATTCAACTAATATT
*
17876718 ATAACTATTCAAGTAATATT
1 ATAACTATTCAACTAATATT
17876738 AT
1 AT
17876740 TTGAATAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAACTATTCAACTAATATT
Found at i:17881027 original size:57 final size:57
Alignment explanation
Indices: 17880955--17881080 Score: 198
Period size: 57 Copynumber: 2.2 Consensus size: 57
17880945 CATGGGTGTA
* * * *
17880955 GATTCTGATAGACAATTGAAATGATCAAACTTTTTAAGAACTTTTTCAATGTAATGG
1 GATTATGATAAACAATTGAAAAGATCAAACTTTTTAAGAACTTCTTCAATGTAATGG
* *
17881012 GATTTTGATAAACAATTGAAAAGATCAAACTTTTTAAGAACTTCTTCAATGTAATGT
1 GATTATGATAAACAATTGAAAAGATCAAACTTTTTAAGAACTTCTTCAATGTAATGG
17881069 GATTATGATAAA
1 GATTATGATAAA
17881081 GCTATGTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 63 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (57 bp):
GATTATGATAAACAATTGAAAAGATCAAACTTTTTAAGAACTTCTTCAATGTAATGG
Found at i:17884730 original size:29 final size:27
Alignment explanation
Indices: 17884660--17884730 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 27
17884650 TAAAAATCAC
*
17884660 TAAAAGTTATAAAATTATTAAATTTTAA
1 TAAAAATT-TAAAATTATTAAATTTTAA
* *
17884688 TAAAAATATAAAAATATATTTAAATTTTAT
1 TAAAAAT-TTAAAAT-TA-TTAAATTTTAA
17884718 TAAAAATTTAAAA
1 TAAAAATTTAAAA
17884731 AATTATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 11 0.31
29 8 0.22
30 17 0.47
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (27 bp):
TAAAAATTTAAAATTATTAAATTTTAA
Found at i:17884746 original size:17 final size:17
Alignment explanation
Indices: 17884716--17884754 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
17884706 TTTAAATTTT
*
17884716 ATTA-AAAATTTAAAAA
1 ATTATAAAATATAAAAA
*
17884732 ATTATAAAATATAAAGA
1 ATTATAAAATATAAAAA
17884749 ATTATA
1 ATTATA
17884755 TTTTTTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
ATTATAAAATATAAAAA
Found at i:17888362 original size:23 final size:23
Alignment explanation
Indices: 17888317--17888362 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17888307 CGAATAGCCA
* *
17888317 TATATCGAGAAGTTCAAGCGAGC
1 TATATCGAGAAGCTCAAGAGAGC
* *
17888340 TATATCGGGAAGCTCTAGAGAGC
1 TATATCGAGAAGCTCAAGAGAGC
17888363 CATTAATCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (23 bp):
TATATCGAGAAGCTCAAGAGAGC
Found at i:17888426 original size:26 final size:26
Alignment explanation
Indices: 17888374--17888436 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
17888364 ATTAATCAAA
* *
17888374 AAGCTCACAAAGATCCTTTAATGGGG
1 AAGCTCATAAAGAGCCTTTAATGGGG
*
17888400 AAGCTCATGAAGAGCCTTATAAT-GGG
1 AAGCTCATAAAGAGCCTT-TAATGGGG
*
17888426 ACGCTCATAAA
1 AAGCTCATAAA
17888437 AGCTACGGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 27 0.87
27 4 0.13
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (26 bp):
AAGCTCATAAAGAGCCTTTAATGGGG
Found at i:17895561 original size:73 final size:73
Alignment explanation
Indices: 17895449--17895585 Score: 170
Period size: 73 Copynumber: 1.9 Consensus size: 73
17895439 TCATAAGAGT
* * * *
17895449 CATATTCAAGAAGCTCATGCGAGCCAATAGCGGGTAGCTCCGA-AGAGCTATTAATCAGGAAGCT
1 CATATTCAAGAAGCTCAAGCGAGCCAATAGCGGGAAGCT-CGAGAGAGCCATTAATCAAGAAGCT
17895513 CCGGATAGC
65 CCGGATAGC
* * * *
17895522 CATATATCAAGAAGTTCAAGTGAGCC-ATATCGGGAAGCTCTAGAGAGCCATTAATCAAGAAGCT
1 CATAT-TCAAGAAGCTCAAGCGAGCCAATAGCGGGAAGCTCGAGAGAGCCATTAATCAAGAAGCT
17895586 TACAAAAAAC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
72 2 0.04
73 35 0.65
74 17 0.31
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.20
Consensus pattern (73 bp):
CATATTCAAGAAGCTCAAGCGAGCCAATAGCGGGAAGCTCGAGAGAGCCATTAATCAAGAAGCTC
CGGATAGC
Found at i:17896875 original size:38 final size:38
Alignment explanation
Indices: 17896804--17896876 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
17896794 ACAAAAAAAA
* *
17896804 AGTAGACATGGTTAACATGTATTTAGTTTAACAATGGC
1 AGTAGACATGGTTAACATGTATTTAGATCAACAATGGC
* * * *
17896842 AGTAGACATGTTTAATATGTTTTTGGATCAACAAT
1 AGTAGACATGGTTAACATGTATTTAGATCAACAAT
17896877 AATAGTAGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (38 bp):
AGTAGACATGGTTAACATGTATTTAGATCAACAATGGC
Found at i:17899793 original size:9 final size:9
Alignment explanation
Indices: 17899779--17899803 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17899769 TAAGTATAAA
17899779 AATTAACCG
1 AATTAACCG
17899788 AATTAACCG
1 AATTAACCG
17899797 AATTAAC
1 AATTAAC
17899804 AAAAACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:17902710 original size:19 final size:19
Alignment explanation
Indices: 17902686--17902724 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
17902676 ATCTTAAACT
17902686 AAATAAATTACAGCAATAA
1 AAATAAATTACAGCAATAA
* *
17902705 AAATAATTTACAGTAATAA
1 AAATAAATTACAGCAATAA
17902724 A
1 A
17902725 TTACAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (19 bp):
AAATAAATTACAGCAATAA
Found at i:17912092 original size:22 final size:23
Alignment explanation
Indices: 17912067--17912112 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
17912057 CAACCAAATC
17912067 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
17912089 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
17912112 A
1 A
17912113 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:17912118 original size:23 final size:23
Alignment explanation
Indices: 17912074--17912118 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17912064 ATCAATTCAA
*
17912074 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
17912097 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
17912119 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:17916129 original size:22 final size:22
Alignment explanation
Indices: 17916101--17916179 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 22
17916091 CTATATATCC
17916101 ATATTTTAAATTAATAAAAATA
1 ATATTTTAAATTAATAAAAATA
**
17916123 ATATTTTAAAATT-AT-AATCT-
1 ATATTTT-AAATTAATAAAAATA
*
17916143 AT-TTTTAAATTAATAGAAAACA
1 ATATTTTAAATTAATA-AAAATA
*
17916165 ATA-TTAAAATTAATA
1 ATATTTTAAATTAATA
17916180 TAACTAGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
18 5 0.11
19 6 0.13
20 2 0.04
21 5 0.11
22 22 0.49
23 5 0.11
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (22 bp):
ATATTTTAAATTAATAAAAATA
Found at i:17925403 original size:96 final size:96
Alignment explanation
Indices: 17925296--17925487 Score: 312
Period size: 96 Copynumber: 2.0 Consensus size: 96
17925286 CTTACTTTCT
** * * *
17925296 TCTCTAGTTGGATATTTAATTGGACACTGGAAATCCTTATGATCTTTTGAACTACACCAATAACA
1 TCTCTAGTTGGATATTTAATTGGACACTAAAAACCCTTATGATCATTTGAACTACACCAACAACA
17925361 TTGCACAAAAGGTGATAGCTCAATCGTATTC
66 TTGCACAAAAGGTGATAGCTCAATCGTATTC
* * *
17925392 TCTCTATTTGGATATTTATTTGGACATTAAAAACCCTTATGATCATTTGAACTACACCAACAACA
1 TCTCTAGTTGGATATTTAATTGGACACTAAAAACCCTTATGATCATTTGAACTACACCAACAACA
17925457 TTGCACAAAAGGTGATAGCTCAATCGTATTC
66 TTGCACAAAAGGTGATAGCTCAATCGTATTC
17925488 CTTCTTTCGC
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 88 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (96 bp):
TCTCTAGTTGGATATTTAATTGGACACTAAAAACCCTTATGATCATTTGAACTACACCAACAACA
TTGCACAAAAGGTGATAGCTCAATCGTATTC
Found at i:17927453 original size:48 final size:48
Alignment explanation
Indices: 17927336--17927553 Score: 213
Period size: 48 Copynumber: 4.5 Consensus size: 48
17927326 TGAGATCCCG
* * * * * *
17927336 TGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATTGACGT-TGATATGTGTGCCAA
*
17927385 TGTAAGACCATGTCTAGGACATGGCATTGACGTTGATATGTGTGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATTGACGTTGATATGTGTGCCAA
* * * *
17927433 TGTAAGACCACGTCTGGGACATGGCATCGGCGTTGACATGTGTGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATTGACGTTGATATGTGTGCCAA
* * * * * * * *
17927481 TTTAAGACCATATCTGGGATATAGCATCGGA-GATGATATGTGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCAT-TGACGTTGATATGTGTGCCAA
* * *
17927529 TGTAAGACCATATTTGGGATATGGC
1 TGTAAGACCATGTCTGGGACATGGC
17927554 GTCGACATGT
Statistics
Matches: 142, Mismatches: 26, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
48 111 0.78
49 31 0.22
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATTGACGTTGATATGTGTGCCAA
Found at i:17927547 original size:96 final size:97
Alignment explanation
Indices: 17927335--17927553 Score: 244
Period size: 96 Copynumber: 2.3 Consensus size: 97
17927325 ATGAGATCCC
* * * *
17927335 GTGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGCCAGTGTAAGACCATGTCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCTGACATGAGAGCCAATGTAAGACCATATCT
* * *
17927400 AGGACATGGCATTGACGTTGATATGTGTGCCA
66 AGGACATAGCATGGACGATGATATGTGTGCCA
* * * * * *
17927432 ATGTAAGACCACGTCTGGGACATGGCATCGGCGT-TGACATGTGTGCCAATTTAAGACCATATCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCTGACATGAGAGCCAATGTAAGACCATATCT
* * *
17927496 GGGATATAGCATCGGA-GATGATATGTGTGCTA
66 AGGACATAGCAT-GGACGATGATATGTGTGCCA
* * *
17927528 GTGTAAGACCATATTTGGGATATGGC
1 GTGTAAGACCATGTCTGGGACATGGC
17927554 GTCGACATGT
Statistics
Matches: 100, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
96 68 0.68
97 32 0.32
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (97 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATCTGACATGAGAGCCAATGTAAGACCATATCT
AGGACATAGCATGGACGATGATATGTGTGCCA
Found at i:17929414 original size:97 final size:97
Alignment explanation
Indices: 17929248--17929443 Score: 392
Period size: 97 Copynumber: 2.0 Consensus size: 97
17929238 GCCAAATGAA
17929248 TATGATTTGGTATGTCTAGACTTGATATAAAATGAGTATGAGAAACACAAGTATGATGACATGCA
1 TATGATTTGGTATGTCTAGACTTGATATAAAATGAGTATGAGAAACACAAGTATGATGACATGCA
17929313 AATGCTATGTTTGTGACTTAATTGAGGGTGTT
66 AATGCTATGTTTGTGACTTAATTGAGGGTGTT
17929345 TATGATTTGGTATGTCTAGACTTGATATAAAATGAGTATGAGAAACACAAGTATGATGACATGCA
1 TATGATTTGGTATGTCTAGACTTGATATAAAATGAGTATGAGAAACACAAGTATGATGACATGCA
17929410 AATGCTATGTTTGTGACTTAATTGAGGGTGTT
66 AATGCTATGTTTGTGACTTAATTGAGGGTGTT
17929442 TA
1 TA
17929444 ATCGTTAAAT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 99 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.35
Consensus pattern (97 bp):
TATGATTTGGTATGTCTAGACTTGATATAAAATGAGTATGAGAAACACAAGTATGATGACATGCA
AATGCTATGTTTGTGACTTAATTGAGGGTGTT
Found at i:17933454 original size:17 final size:18
Alignment explanation
Indices: 17933427--17933461 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
17933417 AACTGTGTTA
17933427 TAATGTGTGAGCTCTATT
1 TAATGTGTGAGCTCTATT
17933445 TAAT-TGTGAGCTCTATT
1 TAATGTGTGAGCTCTATT
17933462 ATACTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (18 bp):
TAATGTGTGAGCTCTATT
Found at i:17933922 original size:17 final size:17
Alignment explanation
Indices: 17933857--17933922 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 17
17933847 CAATGTGGTA
* *
17933857 TGAATGAATTATTACAT
1 TGAATGAACTATTATAT
* **
17933874 TGAATGAGCTGCTATAT
1 TGAATGAACTATTATAT
* * * *
17933891 TGTAGGAAGTGTTATAT
1 TGAATGAACTATTATAT
17933908 TGAATGAACTATTAT
1 TGAATGAACTATTAT
17933923 TATGCATAAA
Statistics
Matches: 35, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (17 bp):
TGAATGAACTATTATAT
Found at i:17939972 original size:6 final size:6
Alignment explanation
Indices: 17939961--17939996 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
17939951 GGTTTTCTCA
*
17939961 AAATGG AAATGG AAATGG AAATGA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
17939997 AGTCATTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:17950256 original size:17 final size:18
Alignment explanation
Indices: 17950236--17950272 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
17950226 TTTTAATGAC
17950236 TCTTTTACT-TTGAAATT
1 TCTTTTACTATTGAAATT
17950253 TCTTTTACTAATTGAAATT
1 TCTTTTACT-ATTGAAATT
17950272 T
1 T
17950273 TTCTCTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.57
Consensus pattern (18 bp):
TCTTTTACTATTGAAATT
Found at i:17956201 original size:95 final size:94
Alignment explanation
Indices: 17956033--17956258 Score: 267
Period size: 95 Copynumber: 2.4 Consensus size: 94
17956023 CACAGTATGT
* * * * *
17956033 CAACCAGTATAGTCTACTGGAACAATAAACACGGGGTAGTCCACTAGACATTAAACATGGGGTGA
1 CAACCAGTATAGTCTGCTGGGACAGTAAACACGAGGTAGTCCACAAGACATTAAACATGGGGTGA
* *
17956098 AAGGGTGTAAAACCATAACTCGGCTAAGG
66 AAGGGTGTAAAACAATAACTCAGCTAAGG
* * * *
17956127 CAACTAGTATAGTCTGCTGGGACAGTAAACACGATGTAGTCTATCAAGATATTAAACATGGGGTG
1 CAACCAGTATAGTCTGCTGGGACAGTAAACACGAGGTAGTCCA-CAAGACATTAAACATGGGGTG
* * * *
17956192 AGAGGGTGTAAGACAATAGCTCAGCTATGG
65 AAAGGGTGTAAAACAATAACTCAGCTAAGG
* *
17956222 CAACCATTATAGTCTG-TCGGGA-AGTAAACGCGAGGTA
1 CAACCAGTATAGTCTGCT-GGGACAGTAAACACGAGGTA
17956259 ATCTGTTGGG
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
94 50 0.45
95 61 0.55
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (94 bp):
CAACCAGTATAGTCTGCTGGGACAGTAAACACGAGGTAGTCCACAAGACATTAAACATGGGGTGA
AAGGGTGTAAAACAATAACTCAGCTAAGG
Found at i:17956285 original size:27 final size:26
Alignment explanation
Indices: 17956234--17956289 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
17956224 ACCATTATAG
*
17956234 TCTGTCGGGAAGTAAACGCGAGGTAA
1 TCTGTCGGGAAGTAAACACGAGGTAA
*
17956260 TCTGTTGGGATAGTAAACAC-ATGGTAA
1 TCTGTCGGGA-AGTAAACACGA-GGTAA
17956287 TCT
1 TCT
17956290 ACCGGAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (26 bp):
TCTGTCGGGAAGTAAACACGAGGTAA
Found at i:17979418 original size:19 final size:19
Alignment explanation
Indices: 17979390--17979432 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
17979380 TTGTTTGAAA
17979390 AAAT-ATTTGCTTGTACAT
1 AAATAATTTGCTTGTACAT
17979408 AAATAATTTGCTTGTACAT
1 AAATAATTTGCTTGTACAT
17979427 AAATAA
1 AAATAA
17979433 ATAACTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (19 bp):
AAATAATTTGCTTGTACAT
Found at i:17979452 original size:17 final size:17
Alignment explanation
Indices: 17979427--17979463 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
17979417 GCTTGTACAT
*
17979427 AAATAAATAACTAAATA
1 AAATAAATAAATAAATA
*
17979444 AAATGAATAAATAAATA
1 AAATAAATAAATAAATA
17979461 AAA
1 AAA
17979464 GCTCAAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (17 bp):
AAATAAATAAATAAATA
Found at i:17993082 original size:30 final size:30
Alignment explanation
Indices: 17993046--17993103 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
17993036 GTGCCTTTTA
17993046 AAAAAATTATTTTAGGTTTAAATTATGTTT
1 AAAAAATTATTTTAGGTTTAAATTATGTTT
17993076 AAAAAATTATTTTAGGTTTAAATTATGT
1 AAAAAATTATTTTAGGTTTAAATTATGT
17993104 AAAAGGATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (30 bp):
AAAAAATTATTTTAGGTTTAAATTATGTTT
Found at i:18002328 original size:20 final size:21
Alignment explanation
Indices: 18002297--18002339 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
18002287 CACCAGAAAC
18002297 CCTAGAGGTTTCTGGAATACG
1 CCTAGAGGTTTCTGGAATACG
18002318 CCTAG-GGTTTCTGGAATACG
1 CCTAGAGGTTTCTGGAATACG
18002338 CC
1 CC
18002340 AATGCTGCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (21 bp):
CCTAGAGGTTTCTGGAATACG
Found at i:18003531 original size:25 final size:25
Alignment explanation
Indices: 18003470--18003533 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
18003460 TATTTTGAAG
* *
18003470 TTTTTATAT-TATATTATTTTAACA
1 TTTTTATATATATTTTATTTAAACA
* *
18003494 TTATGTATA-ATATTTTATTTAAATA
1 TT-TTTATATATATTTTATTTAAACA
18003519 TTTTTATATATATTT
1 TTTTTATATATATTT
18003534 ATACATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTTATATATATTTTATTTAAACA
Found at i:18006868 original size:23 final size:22
Alignment explanation
Indices: 18006825--18006882 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
18006815 AAAAGGTATC
* *
18006825 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
18006846 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
18006869 TGCATATCATATCT
1 TACAAATCATATCT
18006883 AAGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:18006885 original size:19 final size:19
Alignment explanation
Indices: 18006861--18006988 Score: 228
Period size: 19 Copynumber: 6.9 Consensus size: 19
18006851 AATCATATCT
18006861 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
18006880 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
18006897 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
18006916 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
18006933 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
18006952 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
18006971 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
18006989 TGAAGATTAT
Statistics
Matches: 105, Mismatches: 0, Indels: 8
0.93 0.00 0.07
Matches are distributed among these distances:
17 34 0.32
19 71 0.68
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:18006924 original size:55 final size:56
Alignment explanation
Indices: 18006854--18006988 Score: 226
Period size: 55 Copynumber: 2.5 Consensus size: 56
18006844 ATTACAAAAT
18006854 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTGATATCATATCTAAGATTG
18006907 CATATCATATCTAAGATTG--TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG-ATATCATATCTAAGATTG
18006962 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTGCATATCAT
18006989 TGAAGATTAT
Statistics
Matches: 76, Mismatches: 0, Indels: 8
0.90 0.00 0.10
Matches are distributed among these distances:
53 23 0.30
54 1 0.01
55 46 0.61
57 6 0.08
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.39
Consensus pattern (56 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:18006996 original size:36 final size:36
Alignment explanation
Indices: 18006861--18006988 Score: 238
Period size: 36 Copynumber: 3.5 Consensus size: 36
18006851 AATCATATCT
18006861 TCTAAGATTGCATATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGTATCATA
18006897 TCTAAGATTGCATATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGTATCATA
18006933 TCTAAGATTGCATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTG--TATCATA
18006971 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
18006989 TGAAGATTAT
Statistics
Matches: 90, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
36 65 0.72
38 25 0.28
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (36 bp):
TCTAAGATTGCATATCATATCTAAGATTGTATCATA
Found at i:18007136 original size:21 final size:20
Alignment explanation
Indices: 18007107--18007146 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
18007097 TTGGACTTCG
*
18007107 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGATTTATTA
18007127 TTTTTGTTTTTGGATTTATT
1 TTTTT-TTTTTGGATTTATT
18007147 TCTGGGCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.10, C:0.00, G:0.15, T:0.75
Consensus pattern (20 bp):
TTTTTTTTTTGGATTTATTA
Found at i:18007446 original size:45 final size:45
Alignment explanation
Indices: 18007346--18007449 Score: 154
Period size: 45 Copynumber: 2.3 Consensus size: 45
18007336 GATATCTACT
* *
18007346 ATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATT
1 ATCTTAGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATC
* ** *
18007391 ATGTCCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTC
1 ATCTTAGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATC
18007436 ATCTTAGATCTGCT
1 ATCTTAGATCTGCT
18007450 TCGATGTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (45 bp):
ATCTTAGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATC
Found at i:18007592 original size:78 final size:78
Alignment explanation
Indices: 18007463--18007819 Score: 493
Period size: 78 Copynumber: 4.4 Consensus size: 78
18007453 ATGTAAACAC
* *
18007463 ATGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCT
18007528 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
18007541 ATGAAGGTCCA-ATCTGTTATGTCTTCAATCTGCTCCCCATCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATC
18007605 TTGGATCTGCTTCAATGTAAACA
65 TTGGATCTG---C--T-T---CA
* *
18007628 CATGAAGGTCAGATCCGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 -ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATC
18007693 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
*
18007707 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATC
* * *
18007771 TTAGATCTACTGCA
65 TTGGATCTGCTTCA
*
18007785 ATGAAGGTCAGATCTGCTATGTATTCGATCTGCTC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC
18007820 TCTGTCGAAT
Statistics
Matches: 249, Mismatches: 16, Indels: 28
0.85 0.05 0.10
Matches are distributed among these distances:
77 2 0.01
78 166 0.67
79 5 0.02
81 1 0.00
82 1 0.00
83 2 0.01
84 1 0.00
85 1 0.00
87 4 0.02
88 66 0.27
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:18007676 original size:166 final size:166
Alignment explanation
Indices: 18007398--18007787 Score: 672
Period size: 166 Copynumber: 2.3 Consensus size: 166
18007388 ATTATGTCCG
* *
18007398 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTAGATCTGCTTCGATGTAAACAC
1 ATCTGCTCCCCATCTAATACAGAGATGCCAAA----TCATCTTAGATCTGCTTCAATGTAAACAC
* *
18007463 ATGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
62 ATGAAGGTCAGATCCGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
18007528 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCA
127 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCA
*
18007568 ATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGTAAACACATGA
1 ATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGTAAACACATGA
18007633 AGGTCAGATCCGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
66 AGGTCAGATCCGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
*
18007698 TCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCG
131 TCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCA
* *
18007734 ATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTAGATCTACTGCAATG
1 ATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATG
18007788 AAGGTCAGAT
Statistics
Matches: 211, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
166 180 0.85
170 31 0.15
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.31
Consensus pattern (166 bp):
ATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGTAAACACATGA
AGGTCAGATCCGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
TCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCA
Found at i:18007690 original size:88 final size:83
Alignment explanation
Indices: 18007383--18007819 Score: 446
Period size: 78 Copynumber: 5.3 Consensus size: 83
18007373 AGAGATGCCA
* * *
18007383 AATCTATTATGTC--CGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTAGATC
1 AATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAA----TCATCTTGGATC
* *
18007446 TGCTTCGATGTAAACACATGAAGGT-T
62 TGC-TCAATGT---CA-ATGAAGGTCC
* *
18007472 AGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG-
1 A-ATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGC
18007536 -C--T-TCAATGAAGGTCC
65 TCAATGTCAATGAAGGTCC
*
18007551 AATCTGTTATGTCTTCAATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
1 AATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGC-
18007616 TCAATGTAAACACATGAAGGT-C
65 TCAATGT---CA-ATGAAGGTCC
* * *
18007638 AGATCCGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG-
1 A-ATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGC
18007702 -C--T-TCAATGAAGGTCC
65 TCAATGTCAATGAAGGTCC
*
18007717 AATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTAGA--T-CT
1 AATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
18007779 -ACTG-CAATGAAGGT-C
66 CAATGTCAATGAAGGTCC
* *
18007794 AGATCTGCTATGTATTCGATCTGCTC
1 A-ATCTGTTATGTCTTCGATCTGCTC
18007820 TCTGTCGAAT
Statistics
Matches: 309, Mismatches: 17, Indels: 55
0.81 0.04 0.14
Matches are distributed among these distances:
76 1 0.00
77 2 0.01
78 162 0.52
79 7 0.02
81 1 0.00
82 2 0.01
83 3 0.01
84 1 0.00
85 2 0.01
87 4 0.01
88 79 0.26
89 1 0.00
90 10 0.03
92 34 0.11
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (83 bp):
AATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
CAATGTCAATGAAGGTCC
Found at i:18007837 original size:78 final size:78
Alignment explanation
Indices: 18007629--18007845 Score: 310
Period size: 78 Copynumber: 2.8 Consensus size: 78
18007619 ATGTAAACAC
*
18007629 ATGAAGGTCAGATCCGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* * *
18007694 TGGATCTGCTTCA
66 TAGATCTACTGCA
* *
18007707 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
18007771 TTAGATCTACTGCA
65 TTAGATCTACTGCA
* * * * **
18007785 ATGAAGGTCAGATCTGCTATGTATTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
18007846 TGTTTCTTCG
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
77 2 0.02
78 119 0.97
79 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TAGATCTACTGCA
Found at i:18007866 original size:44 final size:43
Alignment explanation
Indices: 18007808--18008019 Score: 137
Period size: 43 Copynumber: 4.9 Consensus size: 43
18007798 CTGCTATGTA
*
18007808 TTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTTTC
1 TTCGATCTGTTCTCTGTC-AATATGGAGATGCCAAATCTGTTTC
* * * ** *
18007852 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATC---ATC
1 TTCGATCTGTTCTCTGTCAATATGGAGATGCCAAATCTGTTTC
* * * * * *
18007892 TTAGATCTGCTTCAAC-GTAAACACGTGA-AAGCCAAATCTGCTATGTC
1 TTCGATCTG-TTC-TCTGTCAATATG-GAGATGCCAAATCTG-T-T-TC
* * *
18007939 TTCGATCTGCTCTCCGTCGAATATGGAGTTGCCAAATCTGTTTC
1 TTCGATCTGTTCTCTGTC-AATATGGAGATGCCAAATCTGTTTC
* * * *
18007983 TTCGATTTGTTCTCTGACAGTATAGAGATGCCAAATC
1 TTCGATCTGTTCTCTGTCAATATGGAGATGCCAAATC
18008020 ATCTTAAATC
Statistics
Matches: 124, Mismatches: 32, Indels: 25
0.69 0.18 0.14
Matches are distributed among these distances:
40 9 0.07
41 16 0.13
42 3 0.02
43 32 0.26
44 31 0.25
45 2 0.02
46 7 0.06
47 24 0.19
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (43 bp):
TTCGATCTGTTCTCTGTCAATATGGAGATGCCAAATCTGTTTC
Found at i:18008031 original size:131 final size:131
Alignment explanation
Indices: 18007796--18008081 Score: 509
Period size: 131 Copynumber: 2.2 Consensus size: 131
18007786 TGAAGGTCAG
* *
18007796 ATCTGCTATGTATTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTG
1 ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTG
*
18007861 TTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAACGTAAACACGTGAAAGCCA
66 TTCTCTGACAGTACAGAGATGCCAAATCATCTTAAATCTGCTTCAACGTAAACACGTGAAAGCCA
18007926 A
131 A
*
18007927 ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGTTGCCAAATCTGTTTCTTCGATTTG
1 ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTG
* * *
18007992 TTCTCTGACAGTATAGAGATGCCAAATCATCTTAAATCTGCTTCACCGTAAACACGTGAATGCCA
66 TTCTCTGACAGTACAGAGATGCCAAATCATCTTAAATCTGCTTCAACGTAAACACGTGAAAGCCA
18008057 A
131 A
18008058 ATCTGCTATGTCTTCGATCTGCTC
1 ATCTGCTATGTCTTCGATCTGCTC
18008082 ATTGTCAACA
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 148 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (131 bp):
ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTG
TTCTCTGACAGTACAGAGATGCCAAATCATCTTAAATCTGCTTCAACGTAAACACGTGAAAGCCA
A
Found at i:18008267 original size:78 final size:78
Alignment explanation
Indices: 18008138--18008317 Score: 290
Period size: 78 Copynumber: 2.3 Consensus size: 78
18008128 GAAAACATCC
* * *
18008138 GAAGGTTAGATCTGCTATGTCTTTGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAAAGATGCCAAATCATCTTG
18008203 GATCTGCTTCAAT
66 GATCTGCTTCAAT
* * *
18008216 GAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAAAGATGCTAAATCATCTT
1 GAAGGT-CAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAAAGATGCCAAATCATCTT
18008280 GGATCTGCTTCAAT
65 GGATCTGCTTCAAT
18008294 GAAGGTCAGATCTGCTATGTCTTC
1 GAAGGTCAGATCTGCTATGTCTTC
18008318 AGCCCGTTAC
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
77 2 0.02
78 90 0.97
79 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (78 bp):
GAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAAAGATGCCAAATCATCTTG
GATCTGCTTCAAT
Found at i:18010466 original size:23 final size:25
Alignment explanation
Indices: 18010440--18010486 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18010430 TATCATTCAT
*
18010440 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
18010463 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
18010487 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:18010807 original size:46 final size:46
Alignment explanation
Indices: 18010747--18011047 Score: 413
Period size: 46 Copynumber: 6.7 Consensus size: 46
18010737 TTTGACGTGA
* * ** * * *
18010747 TGCCATAGTGTCTTTCAACTGTGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
18010793 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
18010839 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
18010885 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
18010931 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
18010969 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
18011015 TGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA
18011048 CAGGTTGTCA
Statistics
Matches: 232, Mismatches: 14, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
38 33 0.14
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 5 0.02
46 185 0.80
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:18010864 original size:92 final size:88
Alignment explanation
Indices: 18010747--18011096 Score: 455
Period size: 84 Copynumber: 4.0 Consensus size: 88
18010737 TTTGACGTGA
* * ** *
18010747 TGCCATAGTGTCTTTCAACTGTGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CA--TTCT-TCAGGTTGCCATGGTATCTTTCAAC
** * * *
18010812 CATGGTCTTATTCTTTTCATGTCACGT
62 CATGGTCTTACACATTTCATATCAGGT
18010839 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CAT-TC-T-TCAGGTTGCCATGGTATCTTTCAAC
18010904 CATGGTCTTACACATTTCATATCAGGT
62 CATGGTCTTACACATTTCATATCAGGT
*
18010931 TGCCATGGTATCTTTCAACCATGGTCTTA-CA--C-ACAGGTTGCCATGGTATCTTTCAACCATG
1 TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATG
18010992 GTCTTACACATTTCATATCAGGT
66 GTCTTACACATTTCATATCAGGT
* *
18011015 TGCCATGGTATCTTTCAACCATGGTCTTA-CA--C-ACAGGTTGTCATGGTATCTTTCAACCATG
1 TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATG
18011076 GTCTTACACATTTCATATCAG
66 GTCTTACACATTTCATATCAG
18011097 AGAGCACACT
Statistics
Matches: 242, Mismatches: 14, Indels: 12
0.90 0.05 0.04
Matches are distributed among these distances:
84 132 0.55
87 1 0.00
90 3 0.01
91 2 0.01
92 104 0.43
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (88 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATG
GTCTTACACATTTCATATCAGGT
Found at i:18010977 original size:38 final size:38
Alignment explanation
Indices: 18010926--18011085 Score: 239
Period size: 38 Copynumber: 4.0 Consensus size: 38
18010916 CATTTCATAT
18010926 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
18010964 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
18011009 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
18011048 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
18011086 TTTCATATCA
Statistics
Matches: 113, Mismatches: 1, Indels: 16
0.87 0.01 0.12
Matches are distributed among these distances:
38 70 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 33 0.29
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:18013528 original size:16 final size:16
Alignment explanation
Indices: 18013507--18013540 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
18013497 ATATTTACTC
18013507 TTGTGCAACAAAACTT
1 TTGTGCAACAAAACTT
18013523 TTGTGCAACAAAACTT
1 TTGTGCAACAAAACTT
18013539 TT
1 TT
18013541 CTCACTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (16 bp):
TTGTGCAACAAAACTT
Found at i:18020607 original size:23 final size:23
Alignment explanation
Indices: 18020581--18020627 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
18020571 TTAAAAGGTA
*
18020581 TATACAAATTAAATC-TCTAAGAT
1 TATA-AAATCAAATCTTCTAAGAT
*
18020604 TATAAAATCATATCTTCTAAGAT
1 TATAAAATCAAATCTTCTAAGAT
18020627 T
1 T
18020628 GCATATCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (23 bp):
TATAAAATCAAATCTTCTAAGAT
Found at i:18020681 original size:54 final size:54
Alignment explanation
Indices: 18020619--18020763 Score: 281
Period size: 54 Copynumber: 2.7 Consensus size: 54
18020609 AATCATATCT
18020619 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
18020673 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
18020727 TCTAAGATTGCATATCATATCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCAT
18020764 TGAAGATTAT
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
54 85 0.94
55 5 0.06
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:18020700 original size:73 final size:71
Alignment explanation
Indices: 18020612--18020764 Score: 247
Period size: 73 Copynumber: 2.1 Consensus size: 71
18020602 ATTATAAAAT
18020612 CATATC-TTCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTG-TATCATATC
1 CATATCATTCTAAGATTGCA-ATCATATCTAAGATTG-AATCATATCTAAGATTGATATCATATC
18020675 TAAGATTG
64 TAAGATTG
*
18020683 CATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCATATCATATC
1 CATATCAT-TCTAAGATTGCAATCATATCTAAGATTGAATCATATCTAAGATTG-ATATCATATC
18020748 TAAGATTG
64 TAAGATTG
18020756 CATATCATT
1 CATATCATT
18020765 GAAGATTATA
Statistics
Matches: 77, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
71 22 0.29
72 18 0.23
73 37 0.48
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (71 bp):
CATATCATTCTAAGATTGCAATCATATCTAAGATTGAATCATATCTAAGATTGATATCATATCTA
AGATTG
Found at i:18020771 original size:17 final size:19
Alignment explanation
Indices: 18020619--18020763 Score: 248
Period size: 19 Copynumber: 7.9 Consensus size: 19
18020609 AATCATATCT
18020619 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
18020638 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
18020656 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
18020673 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
18020692 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
18020710 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
18020727 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
18020746 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
18020764 TGAAGATTAT
Statistics
Matches: 120, Mismatches: 0, Indels: 12
0.91 0.00 0.09
Matches are distributed among these distances:
17 32 0.27
18 32 0.27
19 56 0.47
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:18020919 original size:21 final size:20
Alignment explanation
Indices: 18020882--18020920 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18020872 TTGGACTTCG
**
18020882 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
18020902 TTTTATTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
18020921 TCTGAGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.13, C:0.03, G:0.13, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:18028727 original size:10 final size:11
Alignment explanation
Indices: 18028711--18028740 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
18028701 ACCAACTGAG
18028711 AAAAATAAAAT
1 AAAAATAAAAT
18028722 -AAAATAAAAT
1 AAAAATAAAAT
18028732 AAAAATAAA
1 AAAAATAAA
18028741 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:18040282 original size:21 final size:21
Alignment explanation
Indices: 18040233--18040273 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
18040223 AAGACACCAT
*
18040233 AACTTATACCTTTTTACACCC
1 AACTTATACCCTTTTACACCC
18040254 AACTTATACCCTTTTACACC
1 AACTTATACCCTTTTACACC
18040274 AGCTTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (21 bp):
AACTTATACCCTTTTACACCC
Found at i:18043147 original size:31 final size:30
Alignment explanation
Indices: 18043091--18043148 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
18043081 CATCTAAGTA
*
18043091 AATTAATTAATTTTTTAATTAAATAAATTT
1 AATTAATTAATTTTCTAATTAAATAAATTT
18043121 AATTAATTGAATTTTCTAGATT-AATAAA
1 AATTAATT-AATTTTCTA-ATTAAATAAA
18043149 AGGAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 8 0.32
31 14 0.56
32 3 0.12
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (30 bp):
AATTAATTAATTTTCTAATTAAATAAATTT
Found at i:18047501 original size:25 final size:26
Alignment explanation
Indices: 18047464--18047516 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
18047454 TCAAACATGC
18047464 ATTTAGGTCAATTTAACC-CTAGGGGT
1 ATTTAGGTCAATTT-ACCACTAGGGGT
*
18047490 ATTTCGGT-AATTTACCTACTAGGGGT
1 ATTTAGGTCAATTTACC-ACTAGGGGT
18047516 A
1 A
18047517 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (26 bp):
ATTTAGGTCAATTTACCACTAGGGGT
Found at i:18049033 original size:26 final size:26
Alignment explanation
Indices: 18049003--18049058 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
18048993 TGAAATTCCC
18049003 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18049029 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18049055 ATCA
1 ATCA
18049059 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:18050359 original size:26 final size:26
Alignment explanation
Indices: 18050330--18050437 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
18050320 TGGTACAAAT
18050330 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
18050356 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18050382 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18050408 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18050434 TGAT
1 TGAT
18050438 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18051953 original size:26 final size:26
Alignment explanation
Indices: 18051924--18051976 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
18051914 TTTACAGTTT
18051924 TACCCCTAGGAGATAAATT-ACCAAAA
1 TACCCCTAGG-GATAAATTGACCAAAA
* *
18051950 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCAAAA
18051976 T
1 T
18051977 GCATATTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCAAAA
Found at i:18054145 original size:24 final size:24
Alignment explanation
Indices: 18054099--18054145 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
18054089 AGGACCGTAA
* *
18054099 AGGAGTTCCAAGATGTTTTTCCGG
1 AGGAGTTCCAAGATGTGTCTCCGG
18054123 AGGAGCTTCCAAGAT-TGTCTCCG
1 AGGAG-TTCCAAGATGTGTCTCCG
18054146 AACCGAGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (24 bp):
AGGAGTTCCAAGATGTGTCTCCGG
Found at i:18057334 original size:26 final size:26
Alignment explanation
Indices: 18057305--18057412 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
18057295 TGGTACAAAT
18057305 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
18057331 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
18057357 TGATAATGGGTTAGGTAAATGTGCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18057383 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18057409 TGAT
1 TGAT
18057413 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18058923 original size:26 final size:26
Alignment explanation
Indices: 18058894--18058943 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
18058884 TACAGTTTTA
18058894 CCCTAGGAGATAAATT-ACCAAAATAC
1 CCCTAGG-GATAAATTGACCAAAATAC
* *
18058920 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGGGATAAATTGACCAAAAT
18058944 GCATGTTGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.24
Consensus pattern (26 bp):
CCCTAGGGATAAATTGACCAAAATAC
Found at i:18061303 original size:19 final size:19
Alignment explanation
Indices: 18061279--18061364 Score: 100
Period size: 19 Copynumber: 4.2 Consensus size: 19
18061269 AATCTTTAAG
18061279 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
18061298 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
18061317 GATACAATATGCAATCTTAGAGAT
1 G-----ATATGCAATCTTAGATAT
18061341 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
18061362 GAT
1 GAT
18061365 CTTGTAATCT
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
19 32 0.55
21 8 0.14
24 18 0.31
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:18061328 original size:43 final size:44
Alignment explanation
Indices: 18061280--18061364 Score: 145
Period size: 43 Copynumber: 1.9 Consensus size: 44
18061270 ATCTTTAAGG
*
18061280 ATATGCAATCTTAGATATGATATGCAATCTT-AGATATGATACA
1 ATATGCAATCTTAGAGATGATATGCAATCTTAAGATATGATACA
18061323 ATATGCAATCTTAGAGATGATATGCAATCTTGAAGATATGAT
1 ATATGCAATCTTAGAGATGATATGCAATCTT-AAGATATGAT
18061365 CTTGTAATCT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
43 30 0.77
45 9 0.23
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (44 bp):
ATATGCAATCTTAGAGATGATATGCAATCTTAAGATATGATACA
Found at i:18063248 original size:14 final size:15
Alignment explanation
Indices: 18063226--18063258 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18063216 TGGCACGTCT
18063226 TTGTCTTG-ATTTTC
1 TTGTCTTGAATTTTC
*
18063240 TTGTTTTGAATTTTC
1 TTGTCTTGAATTTTC
18063255 TTGT
1 TTGT
18063259 ATTATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.09, C:0.09, G:0.15, T:0.67
Consensus pattern (15 bp):
TTGTCTTGAATTTTC
Found at i:18074019 original size:12 final size:12
Alignment explanation
Indices: 18074002--18074026 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18073992 TTGTGTGTTC
18074002 TTTATTTTATTT
1 TTTATTTTATTT
18074014 TTTATTTTATTT
1 TTTATTTTATTT
18074026 T
1 T
18074027 ATTTTACTTT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:18077017 original size:70 final size:70
Alignment explanation
Indices: 18076938--18077077 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
18076928 AAAATATATG
*
18076938 GGTTAATTCAATCAATTAATCGAAATTTATTTTTTGTTGTTAAAATAAGTATAAAACTTATAAAA
1 GGTTAATTCAATCAATTAATCGAAATTTATTTTTTGTTGTTAAAATAAGTATAAAAATTATAAAA
18077003 AAATT
66 AAATT
18077008 GGTTAATTCAATCAATTAATCGAAATTTATTTTTTGTTGTTAAAATAAGTATAAAAATTATAAAA
1 GGTTAATTCAATCAATTAATCGAAATTTATTTTTTGTTGTTAAAATAAGTATAAAAATTATAAAA
18077073 AAATT
66 AAATT
18077078 AAATTGATAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (70 bp):
GGTTAATTCAATCAATTAATCGAAATTTATTTTTTGTTGTTAAAATAAGTATAAAAATTATAAAA
AAATT
Found at i:18077836 original size:7 final size:6
Alignment explanation
Indices: 18077802--18077835 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
18077792 ATAATTTAAT
18077802 AAATAAA AAATAA AAATAA AAATAA AAATAA AAA
1 AAAT-AA AAATAA AAATAA AAATAA AAATAA AAA
18077836 AATATAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 23 0.85
7 4 0.15
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:18077882 original size:9 final size:9
Alignment explanation
Indices: 18077854--18077921 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
18077844 TTTATACAAA
*
18077854 TAATTCGAT
1 TAATTCGGT
*
18077863 TAATTAAGG-
1 TAATT-CGGT
*
18077872 TAATTCGGG
1 TAATTCGGT
*
18077881 TAATTTGGT
1 TAATTCGGT
*
18077890 TAATTCGAT
1 TAATTCGGT
*
18077899 TAATTCGAT
1 TAATTCGGT
18077908 TAATTCGGT
1 TAATTCGGT
18077917 TAATT
1 TAATT
18077922 TTATACTTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 2 0.04
9 46 0.94
10 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:18081193 original size:30 final size:30
Alignment explanation
Indices: 18081157--18081214 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
18081147 TTTTCAGGAT
18081157 CCATACAGGCTGGACACACGCCCATGTGAG
1 CCATACAGGCTGGACACACGCCCATGTGAG
* *
18081187 CCATACAGGTTGGACACATGCCCATGTG
1 CCATACAGGCTGGACACACGCCCATGTG
18081215 CCAACTTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17
Consensus pattern (30 bp):
CCATACAGGCTGGACACACGCCCATGTGAG
Found at i:18082321 original size:19 final size:18
Alignment explanation
Indices: 18082288--18082323 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18082278 TAAATTAGCC
18082288 ATTTTTATTTTTAGTTTA
1 ATTTTTATTTTTAGTTTA
*
18082306 ATTTTTGTTTTCTAGTTT
1 ATTTTTATTTT-TAGTTT
18082324 TTCTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.72
Consensus pattern (18 bp):
ATTTTTATTTTTAGTTTA
Found at i:18086536 original size:143 final size:143
Alignment explanation
Indices: 18086278--18086570 Score: 586
Period size: 143 Copynumber: 2.0 Consensus size: 143
18086268 TGTTTCGATA
18086278 ATTTTAAATTGTTTAAATTTTCGTAGCTAATGTCGTGCCGGAAACATCGTCTAAGAAGGGGAAAG
1 ATTTTAAATTGTTTAAATTTTCGTAGCTAATGTCGTGCCGGAAACATCGTCTAAGAAGGGGAAAG
18086343 AGAAAGTTGATGAGGAATAACACGAGGATATACGGTTTGTATTACTATAATTCAAATCTATTTAT
66 AGAAAGTTGATGAGGAATAACACGAGGATATACGGTTTGTATTACTATAATTCAAATCTATTTAT
18086408 TATTAATTGTTAT
131 TATTAATTGTTAT
18086421 ATTTTAAATTGTTTAAATTTTCGTAGCTAATGTCGTGCCGGAAACATCGTCTAAGAAGGGGAAAG
1 ATTTTAAATTGTTTAAATTTTCGTAGCTAATGTCGTGCCGGAAACATCGTCTAAGAAGGGGAAAG
18086486 AGAAAGTTGATGAGGAATAACACGAGGATATACGGTTTGTATTACTATAATTCAAATCTATTTAT
66 AGAAAGTTGATGAGGAATAACACGAGGATATACGGTTTGTATTACTATAATTCAAATCTATTTAT
18086551 TATTAATTGTTAT
131 TATTAATTGTTAT
18086564 ATTTTAA
1 ATTTTAA
18086571 TTAAAATGCA
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
143 150 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (143 bp):
ATTTTAAATTGTTTAAATTTTCGTAGCTAATGTCGTGCCGGAAACATCGTCTAAGAAGGGGAAAG
AGAAAGTTGATGAGGAATAACACGAGGATATACGGTTTGTATTACTATAATTCAAATCTATTTAT
TATTAATTGTTAT
Found at i:18088342 original size:3 final size:3
Alignment explanation
Indices: 18088334--18088394 Score: 53
Period size: 3 Copynumber: 22.3 Consensus size: 3
18088324 ATCATTGAGT
* * *
18088334 TTA TTA TTA TTA TTA TTA TTA TTT TTG TT- TTA TT- TTA TTT TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18088379 TTA TT- TT- TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA T
18088395 GTTTCTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
2 12 0.24
3 37 0.76
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (3 bp):
TTA
Found at i:18088368 original size:11 final size:12
Alignment explanation
Indices: 18088352--18088398 Score: 71
Period size: 11 Copynumber: 4.1 Consensus size: 12
18088342 ATTATTATTA
18088352 TTATTTT-TGTT
1 TTATTTTATGTT
18088363 TTATTTTAT-TT
1 TTATTTTATGTT
*
18088374 TTATTTTATTTT
1 TTATTTTATGTT
18088386 TTATTTTATGTT
1 TTATTTTATGTT
18088398 T
1 T
18088399 CTTTTTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
11 18 0.55
12 15 0.45
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (12 bp):
TTATTTTATGTT
Found at i:18088372 original size:34 final size:35
Alignment explanation
Indices: 18088333--18088398 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
18088323 TATCATTGAG
18088333 TTTATTATTATTATTA-TTATTATTTT-TGTTTTAT
1 TTTATTATTATT-TTATTTATTATTTTATGTTTTAT
* *
18088367 TTTATTTTTATTTTATTTTTTATTTTATGTTT
1 TTTATTATTATTTTATTTATTATTTTATGTTT
18088399 CTTTTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 3 0.11
34 20 0.71
35 5 0.18
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (35 bp):
TTTATTATTATTTTATTTATTATTTTATGTTTTAT
Found at i:18088403 original size:11 final size:11
Alignment explanation
Indices: 18088333--18088394 Score: 72
Period size: 12 Copynumber: 5.5 Consensus size: 11
18088323 TATCATTGAG
*
18088333 TTTATTATTAT
1 TTTATTTTTAT
*
18088344 TATTATTATTAT
1 T-TTATTTTTAT
18088356 TTT-TGTTTTAT
1 TTTAT-TTTTAT
18088367 TTTATTTTTAT
1 TTTATTTTTAT
18088378 TTTATTTTTTAT
1 TTTA-TTTTTAT
18088390 TTTAT
1 TTTAT
18088395 GTTTCTTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
10 1 0.02
11 22 0.48
12 23 0.50
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:18102326 original size:8 final size:8
Alignment explanation
Indices: 18102301--18102374 Score: 73
Period size: 8 Copynumber: 9.2 Consensus size: 8
18102291 AGTGCTATTT
18102301 TTGTGTTG
1 TTGTGTTG
18102309 TTGGTGTTG
1 TT-GTGTTG
*
18102318 TTTTGTTG
1 TTGTGTTG
18102326 TTGTGTTG
1 TTGTGTTG
*
18102334 GTGTTGTT-
1 TTG-TGTTG
18102342 TTAGTGTTG
1 TT-GTGTTG
*
18102351 TTTTGTTG
1 TTGTGTTG
18102359 TTGTGTTG
1 TTGTGTTG
18102367 --GTGTTG
1 TTGTGTTG
18102373 TT
1 TT
18102375 TTGGTGCTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
6 6 0.11
8 33 0.61
9 15 0.28
ACGTcount: A:0.01, C:0.00, G:0.35, T:0.64
Consensus pattern (8 bp):
TTGTGTTG
Found at i:18102329 original size:11 final size:11
Alignment explanation
Indices: 18102304--18102409 Score: 115
Period size: 11 Copynumber: 9.6 Consensus size: 11
18102294 GCTATTTTTG
18102304 TGTTGTTGGTGT
1 TGTT-TTGGTGT
*
18102316 TGTTTTGTTGT
1 TGTTTTGGTGT
*
18102327 TGTGTTGGTGT
1 TGTTTTGGTGT
*
18102338 TGTTTTAGTGT
1 TGTTTTGGTGT
*
18102349 TGTTTTGTTGT
1 TGTTTTGGTGT
*
18102360 TGTGTTGGTGT
1 TGTTTTGGTGT
*
18102371 TGTTTTGGTGC
1 TGTTTTGGTGT
* *
18102382 TGTTTTGTTGC
1 TGTTTTGGTGT
*
18102393 TG-TTTGGTGC
1 TGTTTTGGTGT
18102403 TGTTTTG
1 TGTTTTG
18102410 TTACTATTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
10 9 0.11
11 67 0.84
12 4 0.05
ACGTcount: A:0.01, C:0.03, G:0.35, T:0.61
Consensus pattern (11 bp):
TGTTTTGGTGT
Found at i:18102352 original size:33 final size:33
Alignment explanation
Indices: 18102312--18102408 Score: 151
Period size: 33 Copynumber: 3.0 Consensus size: 33
18102302 TGTGTTGTTG
18102312 GTGTTGTTTTGTTGTTGTGTTGGTGTTGTTTTA
1 GTGTTGTTTTGTTGTTGTGTTGGTGTTGTTTTA
*
18102345 GTGTTGTTTTGTTGTTGTGTTGGTGTTGTTTTG
1 GTGTTGTTTTGTTGTTGTGTTGGTGTTGTTTTA
* * *
18102378 GTGCTGTTTTGTTGCTGT-TTGGTGCTGTTTT
1 GTGTTGTTTTGTTGTTGTGTTGGTGTTGTTTT
18102409 GTTACTATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 12 0.20
33 48 0.80
ACGTcount: A:0.01, C:0.03, G:0.34, T:0.62
Consensus pattern (33 bp):
GTGTTGTTTTGTTGTTGTGTTGGTGTTGTTTTA
Found at i:18102403 original size:10 final size:11
Alignment explanation
Indices: 18102243--18102409 Score: 94
Period size: 11 Copynumber: 15.5 Consensus size: 11
18102233 ATTTGCAGGT
*
18102243 TTTTGGTGCTA
1 TTTTGGTGCTG
*
18102254 TTTTGGTGTTG
1 TTTTGGTGCTG
* * *
18102265 TTGGTGATGCTA
1 TT-TTGGTGCTG
18102277 TGTTT-GTGCTG
1 T-TTTGGTGCTG
* *
18102288 -TTTAGTGCTA
1 TTTTGGTGCTG
18102298 TTTT--TG-TG
1 TTTTGGTGCTG
*
18102306 TTGTTGGTGTTG
1 TT-TTGGTGCTG
* *
18102318 TTTTGTTGTTG
1 TTTTGGTGCTG
* *
18102329 TGTTGGTGTTG
1 TTTTGGTGCTG
* *
18102340 TTTTAGTGTTG
1 TTTTGGTGCTG
* *
18102351 TTTTGTTGTTG
1 TTTTGGTGCTG
* *
18102362 TGTTGGTGTTG
1 TTTTGGTGCTG
18102373 TTTTGGTGCTG
1 TTTTGGTGCTG
*
18102384 TTTTGTTGCTG
1 TTTTGGTGCTG
18102395 -TTTGGTGCTG
1 TTTTGGTGCTG
18102405 TTTTG
1 TTTTG
18102410 TTACTATTTT
Statistics
Matches: 123, Mismatches: 24, Indels: 18
0.75 0.15 0.11
Matches are distributed among these distances:
8 3 0.02
9 7 0.06
10 14 0.11
11 87 0.71
12 11 0.09
13 1 0.01
ACGTcount: A:0.04, C:0.04, G:0.33, T:0.59
Consensus pattern (11 bp):
TTTTGGTGCTG
Found at i:18103145 original size:11 final size:11
Alignment explanation
Indices: 18103123--18103164 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
18103113 TAAACCTTAA
*
18103123 TGCTGCTTTGG
1 TGCTGTTTTGG
*
18103134 TGTTGTTTTGG
1 TGCTGTTTTGG
18103145 TGCTGTTTTGG
1 TGCTGTTTTGG
*
18103156 TGGTGTTTT
1 TGCTGTTTT
18103165 ATTGTTCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.00, C:0.07, G:0.36, T:0.57
Consensus pattern (11 bp):
TGCTGTTTTGG
Found at i:18103154 original size:22 final size:22
Alignment explanation
Indices: 18103123--18103164 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18103113 TAAACCTTAA
*
18103123 TGCTGCTTTGGTGTTGTTTTGG
1 TGCTGCTTTGGTGGTGTTTTGG
*
18103145 TGCTGTTTTGGTGGTGTTTT
1 TGCTGCTTTGGTGGTGTTTT
18103165 ATTGTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.00, C:0.07, G:0.36, T:0.57
Consensus pattern (22 bp):
TGCTGCTTTGGTGGTGTTTTGG
Found at i:18105236 original size:3 final size:3
Alignment explanation
Indices: 18105228--18105261 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
18105218 AGGTTGAGAA
18105228 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18105262 TCGTAGGGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:18110948 original size:16 final size:16
Alignment explanation
Indices: 18110927--18110987 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
18110917 CAGTAAATGA
18110927 TTAACTCCATTCCAAT
1 TTAACTCCATTCCAAT
* ** *
18110943 TTAACTTCATTTGATTCT
1 TTAACTCCATTCCA--AT
18110961 TTAACTCCATTCCAAT
1 TTAACTCCATTCCAAT
*
18110977 TTAACTTCATT
1 TTAACTCCATT
18110988 TGATTCTTTT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
16 22 0.65
18 12 0.35
ACGTcount: A:0.28, C:0.25, G:0.02, T:0.46
Consensus pattern (16 bp):
TTAACTCCATTCCAAT
Found at i:18110965 original size:18 final size:18
Alignment explanation
Indices: 18110942--18110996 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
18110932 TCCATTCCAA
18110942 TTTAACTTCATTTGATTC
1 TTTAACTTCATTTGATTC
* ** *
18110960 TTTAACTCCATTCCA--A
1 TTTAACTTCATTTGATTC
18110976 TTTAACTTCATTTGATTC
1 TTTAACTTCATTTGATTC
18110994 TTT
1 TTT
18110997 TTAATAGTAT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
16 12 0.44
18 15 0.56
ACGTcount: A:0.24, C:0.20, G:0.04, T:0.53
Consensus pattern (18 bp):
TTTAACTTCATTTGATTC
Found at i:18110965 original size:34 final size:34
Alignment explanation
Indices: 18110927--18110996 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
18110917 CAGTAAATGA
18110927 TTAACTCCATTCCAATTTAACTTCATTTGATTCT
1 TTAACTCCATTCCAATTTAACTTCATTTGATTCT
18110961 TTAACTCCATTCCAATTTAACTTCATTTGATTCT
1 TTAACTCCATTCCAATTTAACTTCATTTGATTCT
18110995 TT
1 TT
18110997 TTAATAGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.49
Consensus pattern (34 bp):
TTAACTCCATTCCAATTTAACTTCATTTGATTCT
Found at i:18115108 original size:49 final size:50
Alignment explanation
Indices: 18115050--18115194 Score: 175
Period size: 49 Copynumber: 2.9 Consensus size: 50
18115040 GTAGCCAAAC
* *
18115050 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-T
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACAAAGT
* * ***
18115099 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCAAAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CAAAGT
** * *
18115150 TATTGGGTACGCATAGTAGCCTGTACTTAGTACTGCACATGCGAC
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC
18115195 TAGCTACATA
Statistics
Matches: 78, Mismatches: 16, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
49 38 0.49
50 4 0.05
51 36 0.46
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (50 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACAAAGT
Found at i:18116036 original size:30 final size:30
Alignment explanation
Indices: 18116002--18116062 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
18115992 TCCTTAACTC
18116002 AAACTTTGGAAAATTTACAATTTTACCCCT
1 AAACTTTGGAAAATTTACAATTTTACCCCT
* * * * *
18116032 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTACCCCT
18116062 A
1 A
18116063 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTACCCCT
Found at i:18119834 original size:14 final size:14
Alignment explanation
Indices: 18119815--18119844 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18119805 AAATAAAATT
*
18119815 TATTTTTTTAATAA
1 TATTTTTTTAACAA
18119829 TATTTTTTTAACAA
1 TATTTTTTTAACAA
18119843 TA
1 TA
18119845 ATAATTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTTTTTTAACAA
Found at i:18126081 original size:20 final size:20
Alignment explanation
Indices: 18126056--18126093 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18126046 CTCAATTTAG
*
18126056 GATAATTAATGATTTAATTA
1 GATAATTAAGGATTTAATTA
*
18126076 GATAATTAGGGATTTAAT
1 GATAATTAAGGATTTAAT
18126094 CAATTATAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (20 bp):
GATAATTAAGGATTTAATTA
Found at i:18126879 original size:21 final size:20
Alignment explanation
Indices: 18126833--18126880 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
18126823 ATGTGATAAT
*
18126833 AATAAAAGTAATATTAATTA
1 AATAATAGTAATATTAATTA
18126853 ATATAATAGT-ATATTAATGTGA
1 A-ATAATAGTAATATTAAT-T-A
18126875 AATAAT
1 AATAAT
18126881 TATTCTGATC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 9 0.38
21 13 0.54
22 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (20 bp):
AATAATAGTAATATTAATTA
Found at i:18127329 original size:25 final size:24
Alignment explanation
Indices: 18127290--18127345 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
18127280 CATTTAATTC
* *
18127290 AAAAATATATTTTTAAAAAATTTT
1 AAAAATACATTTTTAAAAAATTTA
*
18127314 AAAAATACATTATTTAATAAATTTA
1 AAAAATACATT-TTTAAAAAATTTA
18127339 AAAAATA
1 AAAAATA
18127346 AACACGTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
AAAAATACATTTTTAAAAAATTTA
Found at i:18127338 original size:24 final size:23
Alignment explanation
Indices: 18127285--18127342 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
18127275 ATTCTCATTT
* *
18127285 AATTCAAAAATATATTTTTAAAA
1 AATTTAAAAATACATTTTTAAAA
*
18127308 AATTTTAAAAATACATTATTTAATA
1 AA-TTTAAAAATACATT-TTTAAAA
18127333 AATTTAAAAA
1 AATTTAAAAA
18127343 ATAAACACGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.07
24 20 0.67
25 8 0.27
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (23 bp):
AATTTAAAAATACATTTTTAAAA
Found at i:18128164 original size:125 final size:127
Alignment explanation
Indices: 18128008--18128249 Score: 301
Period size: 125 Copynumber: 1.9 Consensus size: 127
18127998 CTTCTATTTC
* * * *
18128008 ATTTAAAACTCATGCATTTAAATTTTAAAAAGGACATTCGGATATTTAGATCAAACGGAAAA-TC
1 ATTTAAAACTCATGCATTTAAATTTTAAAAAGGACAATCAGATACTTAGATCAAACGAAAAACT-
* * * * *
18128072 GAAACTCAATACGTTAGGGCACGACTACTCAAATTTCTAAATACGGAATATTGTCTTCGTTTT
65 GAAACCCAATACGTTAGGACACAACTACTCAAATTTCCAAATACCGAATATTGTCTTCGTTTT
* * * *
18128135 ATTTAAAACTCATGTATTTTAA-TTT-AAAAGGATAATCAGTTACTTAGATCAAACGAAAAACTG
1 ATTTAAAACTCATGCATTTAAATTTTAAAAAGGACAATCAGATACTTAGATCAAACGAAAAACTG
* * * *
18128198 AAACCCAGTACGTTAGGACACAATTTCTCGAATTTCCAAATACCGAATATTG
66 AAACCCAATACGTTAGGACACAACTACTCAAATTTCCAAATACCGAATATTG
18128250 CCCTTACTTG
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
125 73 0.75
126 4 0.04
127 20 0.21
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (127 bp):
ATTTAAAACTCATGCATTTAAATTTTAAAAAGGACAATCAGATACTTAGATCAAACGAAAAACTG
AAACCCAATACGTTAGGACACAACTACTCAAATTTCCAAATACCGAATATTGTCTTCGTTTT
Found at i:18128457 original size:22 final size:21
Alignment explanation
Indices: 18128416--18128467 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
18128406 ATAGGATGGT
*
18128416 TAATAAAAATAATAGTAATAA
1 TAATAAAAATAATAGAAATAA
*
18128437 TAATAAAATATAATGGAAATAA
1 TAATAAAA-ATAATAGAAATAA
*
18128459 TATTAAAAA
1 TAATAAAAA
18128468 AGTAAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
TAATAAAAATAATAGAAATAA
Found at i:18128460 original size:31 final size:31
Alignment explanation
Indices: 18128422--18128482 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
18128412 TGGTTAATAA
18128422 AAATAATAGTAATAATAA-TAAA-ATATAATGG
1 AAATAATAGTAA-AA-AAGTAAATATATAATGG
*
18128453 AAATAATATTAAAAAAGTAAATATATAATG
1 AAATAATAGTAAAAAAGTAAATATATAATG
18128483 AACAAATGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 2 0.07
30 6 0.22
31 19 0.70
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (31 bp):
AAATAATAGTAAAAAAGTAAATATATAATGG
Found at i:18128514 original size:24 final size:23
Alignment explanation
Indices: 18128486--18128557 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
18128476 TATAATGAAC
*
18128486 AAATGAAATATTAATGATAATAGA
1 AAATGAAATA-TAATAATAATAGA
* *
18128510 AAATG-ATTATAATAATAATGGA
1 AAATGAAATATAATAATAATAGA
18128532 AGTAATGAAA-ATAATAATAATAGA
1 A--AATGAAATATAATAATAATAGA
18128556 AA
1 AA
18128558 CAATAGTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
22 13 0.32
23 3 0.08
24 23 0.57
25 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (23 bp):
AAATGAAATATAATAATAATAGA
Found at i:18128526 original size:3 final size:3
Alignment explanation
Indices: 18128518--18128820 Score: 55
Period size: 3 Copynumber: 100.0 Consensus size: 3
18128508 GAAAATGATT
*
18128518 ATA ATA ATA ATGGA AGTA ATGA A-A ATA ATA ATA ATA GA-A ACA ATA
1 ATA ATA ATA AT--A A-TA AT-A ATA ATA ATA ATA ATA -ATA ATA ATA
* * * *
18128563 GTA ATA A-A AGTA ATA ATA A-A ATA GAAA ATA ACA ATG ATA CATTA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -A-TA ATA
* * * * *
18128610 ATA ATA AT- ATA CGTT CTA ATA ATA ATA ACA AT- ATA A-A A-A AGA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
18128652 GGA-A ATA ATA CT- ATA TTA ATA AAA ATA ATA ATA GTA ATA AAA AGGTA
1 --ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA
* * * * * * *
18128699 A-A AGTA ATA ATA A-A ATA ATA AAA ACA CTA TTA CGTA CTA CTA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * *
18128744 ATA ATA A-A A-A AGA AAA CATA ATA GTA TATA GA-A A-A ATA GTA A-A
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA -ATA ATA ATA ATA ATA
* *
18128787 AGTA ATA AAA ATA ATA ATA ATA GTA ATA ATA ATA
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18128821 CTCTCCCCCT
Statistics
Matches: 222, Mismatches: 45, Indels: 66
0.67 0.14 0.20
Matches are distributed among these distances:
2 30 0.14
3 160 0.72
4 24 0.11
5 7 0.03
6 1 0.00
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:18128720 original size:20 final size:20
Alignment explanation
Indices: 18128668--18128721 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 20
18128658 AATACTATAT
*
18128668 TAATAAAAATAATAATAGTAA
1 TAAT-AAAATAATAAAAGTAA
**
18128689 T-A-AAAA-GGTAAAAGTAA
1 TAATAAAATAATAAAAGTAA
18128706 TAATAAAATAATAAAA
1 TAATAAAATAATAAAA
18128722 ACACTATTAC
Statistics
Matches: 25, Mismatches: 5, Indels: 7
0.68 0.14 0.19
Matches are distributed among these distances:
17 9 0.36
18 5 0.20
19 4 0.16
20 6 0.24
21 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (20 bp):
TAATAAAATAATAAAAGTAA
Found at i:18130274 original size:25 final size:26
Alignment explanation
Indices: 18130240--18130292 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
18130230 AGTAAATATG
*
18130240 TATATATATTT-TTAAATTTATAAAAA
1 TATATATATTTAATAAATTT-TAAAAA
18130266 TATAT-TATTTAATAAATTTTAAAAA
1 TATATATATTTAATAAATTTTAAAAA
18130291 TA
1 TA
18130293 AACAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TATATATATTTAATAAATTTTAAAAA
Found at i:18132370 original size:7 final size:8
Alignment explanation
Indices: 18132343--18132369 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
18132333 AAGTGGTAGG
18132343 TTTTATTT
1 TTTTATTT
18132351 TTTTATTT
1 TTTTATTT
18132359 TTTTATTT
1 TTTTATTT
18132367 TTT
1 TTT
18132370 AAATAAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTATTT
Found at i:18133021 original size:14 final size:14
Alignment explanation
Indices: 18132995--18133024 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18132985 GATTTTTGAA
18132995 TAGTTCGATTTGTG
1 TAGTTCGATTTGTG
18133009 TAGTTCGATTTGTG
1 TAGTTCGATTTGTG
18133023 TA
1 TA
18133025 ATTCATATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.27, T:0.50
Consensus pattern (14 bp):
TAGTTCGATTTGTG
Found at i:18134730 original size:19 final size:20
Alignment explanation
Indices: 18134701--18134738 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
18134691 AAACAATCTT
*
18134701 AAAACTCAAAAAATTATAAA
1 AAAACTCAAAAAATCATAAA
18134721 AAAACT-AAAAAATCATAA
1 AAAACTCAAAAAATCATAA
18134739 TATATTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAACTCAAAAAATCATAAA
Found at i:18134878 original size:25 final size:24
Alignment explanation
Indices: 18134825--18134885 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
18134815 GGAAATTTAG
*
18134825 TTTTTTTTTAAATTAAATTTTATA
1 TTTTTTTTTAAATGAAATTTTATA
* *
18134849 ATTTTTTTTAAA-GAAATTTATGGTA
1 TTTTTTTTTAAATGAAATTT-T-ATA
*
18134874 TTTTTTATTAAA
1 TTTTTTTTTAAA
18134886 AAACTCAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 6 0.20
24 12 0.40
25 12 0.40
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (24 bp):
TTTTTTTTTAAATGAAATTTTATA
Found at i:18137588 original size:3 final size:3
Alignment explanation
Indices: 18137573--18137900 Score: 77
Period size: 3 Copynumber: 109.7 Consensus size: 3
18137563 TTCAAAATTA
* *
18137573 ATT ATT TTT ATT ATT ATT TTCT ATT ATT A-T ATTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT A-TT ATT ATT ATT ATT
* * * * * * * * * *
18137619 ATT GTT -TT ACT ACT ATT ACT ACT ATT ATC CTT GTT GACAT AGT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -A-TT ATT ATT
* * * * **
18137664 ATTT ATT -TCT ATT ATT TTCT ATT ATT GTC ATT ATT AAT -TT A-T ACC
1 A-TT ATT AT-T ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
18137709 ATT ATT ATT AAT A-T ATT ATT ATT AAT ATT ATC ATT ATTT ACAT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT
* * * * * ** *
18137755 ATT ATTT CTT TTT CTT TTT ATT ATG GCT -TT ATT ATT ATT ACT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
18137800 ATT ACT ATT TTT ATCT -TT ATT ATT ATT ATT ATC ATC A-T CTT ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
18137844 -TT ATT ACT ATT ATC ATT TTT GTA ATT ATT ATT ACT ATT -GT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
18137890 ACT ATT ATT AT
1 ATT ATT ATT AT
18137901 ATTTTCATCT
Statistics
Matches: 231, Mismatches: 72, Indels: 44
0.67 0.21 0.13
Matches are distributed among these distances:
2 17 0.07
3 196 0.85
4 17 0.07
5 1 0.00
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:18137728 original size:14 final size:14
Alignment explanation
Indices: 18137709--18137760 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
18137699 AATTTATACC
18137709 ATTATTATTAATAT
1 ATTATTATTAATAT
18137723 ATTATTATTAATATT
1 ATTATTATTAATA-T
* * *
18137738 ATCATTATTTACAT
1 ATTATTATTAATAT
*
18137752 GTTATTATT
1 ATTATTATT
18137761 TCTTTTTCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (14 bp):
ATTATTATTAATAT
Found at i:18137949 original size:17 final size:17
Alignment explanation
Indices: 18137924--18137962 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
18137914 TTTATTTTCT
*
18137924 TATTACTTATCTATTTA
1 TATTTCTTATCTATTTA
*
18137941 TATTTCTTATTTATTTA
1 TATTTCTTATCTATTTA
18137958 TATTT
1 TATTT
18137963 TTGTTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTCTTATCTATTTA
Found at i:18137987 original size:17 final size:17
Alignment explanation
Indices: 18137955--18137989 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18137945 TCTTATTTAT
* *
18137955 TTATATTTTTGTTATTA
1 TTATATTTTAGGTATTA
18137972 TTATATTTTAGGTATTA
1 TTATATTTTAGGTATTA
18137989 T
1 T
18137990 ATCTCTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (17 bp):
TTATATTTTAGGTATTA
Found at i:18138024 original size:26 final size:26
Alignment explanation
Indices: 18137968--18138025 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
18137958 TATTTTTGTT
18137968 ATTA-TTATATTTTAGGTATTATATC
1 ATTATTTATATTTTAGGTATTATATC
*
18137993 -TCTATTTATA-TTTATGTATTAATATC
1 AT-TATTTATATTTTAGGTATT-ATATC
18138019 ATTATTT
1 ATTATTT
18138026 TACTATTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 1 0.04
25 11 0.39
26 15 0.54
27 1 0.04
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (26 bp):
ATTATTTATATTTTAGGTATTATATC
Found at i:18138186 original size:14 final size:14
Alignment explanation
Indices: 18138142--18138201 Score: 54
Period size: 13 Copynumber: 4.4 Consensus size: 14
18138132 TTCAAATATT
18138142 TTTTAGCTTATTTA
1 TTTTAGCTTATTTA
**
18138156 TTATTTCCTT-TTTA
1 TT-TTAGCTTATTTA
*
18138170 TTTTAGCTTATTCA
1 TTTTAGCTTATTTA
18138184 TTTT--CTTTATTTA
1 TTTTAGC-TTATTTA
18138197 TTTTA
1 TTTTA
18138202 TTTTTGCTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
12 1 0.03
13 15 0.42
14 15 0.42
15 5 0.14
ACGTcount: A:0.18, C:0.10, G:0.03, T:0.68
Consensus pattern (14 bp):
TTTTAGCTTATTTA
Found at i:18140742 original size:25 final size:25
Alignment explanation
Indices: 18140714--18140773 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
18140704 TTTTGGTGTT
*
18140714 TTATGATAGAATATGAGGTTTTAAA
1 TTATGTTAGAATATGAGGTTTTAAA
18140739 TTATGTTAGAATATGAGGTTTTAAA
1 TTATGTTAGAATATGAGGTTTTAAA
18140764 TTATGTTAGA
1 TTATGTTAGA
18140774 CAACTTGTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (25 bp):
TTATGTTAGAATATGAGGTTTTAAA
Found at i:18141485 original size:46 final size:46
Alignment explanation
Indices: 18141425--18141600 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
18141415 TATTTGGGCA
*
18141425 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *** * * * *
18141471 TTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCG
* *
18141518 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
18141564 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18141601 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 70 0.66
47 36 0.34
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:18141580 original size:93 final size:93
Alignment explanation
Indices: 18141421--18141592 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
18141411 GGGATATTTG
* **
18141421 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTTCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
18141486 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
* * *
18141514 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
18141579 TTGAGTCCAAGTTC
66 TTGAGTCCAAGTTC
18141593 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:18144573 original size:14 final size:15
Alignment explanation
Indices: 18144524--18144573 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
18144514 GTATCTTGGG
*
18144524 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
18144539 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
18144554 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
18144568 TTTCTT
1 TTTCTT
18144574 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:18147018 original size:46 final size:46
Alignment explanation
Indices: 18146958--18147133 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
18146948 TATTTGGGCA
*
18146958 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *** * * * *
18147004 TTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCG
* *
18147051 TCCGATCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
18147097 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18147134 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 70 0.66
47 36 0.34
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Done.