Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold298
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: 1060864
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.35
Warning! 20344 characters in sequence are not A, C, G, or T
File 6 of 7
Found at i:806835 original size:21 final size:20
Alignment explanation
Indices: 806810--806862 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
806800 TACAAGCCAA
**
806810 TGTATCGATACAATTTTTTTG
1 TGTATCGATACAA-TACTTTG
806831 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
806850 TGTATCGATACAA
1 TGTATCGATACAA
806863 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 16 0.55
20 2 0.07
21 11 0.38
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:810123 original size:22 final size:22
Alignment explanation
Indices: 810090--810131 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
810080 ATTTCTTTTC
*
810090 TTTTTCTTTTTCCT-TTTTATT
1 TTTTTATTTTTCCTCTTTTATT
810111 TTTTTATTGTTTCCTCTTTTA
1 TTTTTATT-TTTCCTCTTTTA
810132 GGATGGGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTTATTTTTCCTCTTTTATT
Found at i:811447 original size:20 final size:20
Alignment explanation
Indices: 811419--811456 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
811409 AATCAAATGC
*
811419 ATATTTTTATTACTTATTGA
1 ATATATTTATTACTTATTGA
*
811439 ATATATTTATTATTTATT
1 ATATATTTATTACTTATT
811457 TAATTTAAAT
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:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (20 bp):
ATATATTTATTACTTATTGA
Found at i:811478 original size:16 final size:18
Alignment explanation
Indices: 811459--811491 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
811449 TATTTATTTA
811459 ATTT-AAATT-TTTTAAT
1 ATTTAAAATTATTTTAAT
811475 ATTTAAAATTATTTTAA
1 ATTTAAAATTATTTTAA
811492 GTAAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTAAAATTATTTTAAT
Found at i:811641 original size:3 final size:3
Alignment explanation
Indices: 811633--811659 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
811623 TCTCTTTTTC
811633 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
811660 TTTGCATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:815886 original size:3 final size:3
Alignment explanation
Indices: 815878--815903 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
815868 GTCTTTTTAT
815878 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
815904 TGCTCTTGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:816313 original size:2 final size:2
Alignment explanation
Indices: 816306--816335 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
816296 TTAAAAGTTA
816306 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
816336 CAAAATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:818680 original size:8 final size:8
Alignment explanation
Indices: 818667--818711 Score: 54
Period size: 8 Copynumber: 5.1 Consensus size: 8
818657 GTTGAAAATA
818667 AATTTAAT
1 AATTTAAT
818675 AATTTAAT
1 AATTTAAT
818683 AATTTATATT
1 AATTTA-A-T
818693 ATATTTATAT
1 A-ATTTA-AT
818703 AATTTAAT
1 AATTTAAT
818711 A
1 A
818712 TATTATAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
8 17 0.50
9 6 0.18
10 4 0.12
11 7 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
AATTTAAT
Found at i:818707 original size:28 final size:28
Alignment explanation
Indices: 818668--818729 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
818658 TTGAAAATAA
818668 ATTTAATAATTTAATA-ATT-TATATTAT
1 ATTTAATAATTTAATATATTATA-ATTAT
818695 ATTTATATAATTTAATATATTATAATTAT
1 ATTTA-ATAATTTAATATATTATAATTAT
818724 ATTTAA
1 ATTTAA
818730 AATATTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
27 5 0.16
28 12 0.38
29 13 0.41
30 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
ATTTAATAATTTAATATATTATAATTAT
Found at i:818750 original size:20 final size:22
Alignment explanation
Indices: 818708--818750 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
818698 TATATAATTT
*
818708 AATATATTATAATTATATTTAA
1 AATATATTATAATTATATGTAA
*
818730 AATATTTTAT-ATT-TATGTAA
1 AATATATTATAATTATATGTAA
818750 A
1 A
818751 TTTCAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 3 0.16
22 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
AATATATTATAATTATATGTAA
Found at i:819295 original size:22 final size:22
Alignment explanation
Indices: 819270--819324 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
819260 TATATATGAT
819270 TAAATAATAAT-TTATCAAAAAG
1 TAAATAAT-ATCTTATCAAAAAG
*
819292 TAAATTATATCTTATCAAAAAG
1 TAAATAATATCTTATCAAAAAG
*
819314 TAAATTATATC
1 TAAATAATATC
819325 ATGAGCTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (22 bp):
TAAATAATATCTTATCAAAAAG
Found at i:820134 original size:96 final size:96
Alignment explanation
Indices: 820018--820213 Score: 329
Period size: 96 Copynumber: 2.0 Consensus size: 96
820008 CGAATTGAGT
* * *
820018 ATTACAAATATGAAAATGATGCATAATGACATATAACACAAAAGTAAAAATTTCAAATACAATAA
1 ATTACAAATATGAAAATGATGCATAATGACATATAACAAAAAAGTAAAAATTTCAAACACAACAA
* *
820083 GATTATACAATGTAAATATAATTAAAAAATA
66 GATTATACAACGTAAATACAATTAAAAAATA
* *
820114 ATTACAAATATGGAAATGATGCGTAATGACATATAACAAAAAAGTAAAAATTTCAAACACAACAA
1 ATTACAAATATGAAAATGATGCATAATGACATATAACAAAAAAGTAAAAATTTCAAACACAACAA
820179 GATTATACAACGTAAATACAATTAAAAAATA
66 GATTATACAACGTAAATACAATTAAAAAATA
820210 ATTA
1 ATTA
820214 AAAAATGTAA
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.57, C:0.10, G:0.08, T:0.26
Consensus pattern (96 bp):
ATTACAAATATGAAAATGATGCATAATGACATATAACAAAAAAGTAAAAATTTCAAACACAACAA
GATTATACAACGTAAATACAATTAAAAAATA
Found at i:820398 original size:17 final size:18
Alignment explanation
Indices: 820378--820417 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
820368 TTTACATAAC
820378 AAATTAG-TTTTATAAAT
1 AAATTAGATTTTATAAAT
820395 AAATTAGATTTTTATAAAT
1 AAATTAGA-TTTTATAAAT
820414 AAAT
1 AAAT
820418 ATATTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.33
19 14 0.67
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
AAATTAGATTTTATAAAT
Found at i:820434 original size:14 final size:14
Alignment explanation
Indices: 820410--820463 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
820400 AGATTTTTAT
820410 AAATAAATATATTAA
1 AAAT-AATATATTAA
820425 AAATAATATATTATA
1 AAATAATATATTA-A
* *
820440 ACAAAAATTTACTTAA
1 A-AATAATATA-TTAA
820456 AAATAATA
1 AAATAATA
820464 ATTTAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 9 0.28
15 11 0.34
16 9 0.28
17 3 0.09
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAATATATTAA
Found at i:820668 original size:16 final size:15
Alignment explanation
Indices: 820644--820725 Score: 69
Period size: 16 Copynumber: 5.2 Consensus size: 15
820634 AATAAAAAAA
*
820644 TAAATTTAAATTAATT
1 TAAA-TTAAAATAATT
820660 TAAACTT-AAATAAATT
1 TAAA-TTAAAAT-AATT
* *
820676 CAAATATAAAA-AAAT
1 TAAAT-TAAAATAATT
820691 TAAATTTAAAATAATT
1 TAAA-TTAAAATAATT
820707 TAAATATAAAATAATT
1 TAAAT-TAAAATAATT
820723 TAA
1 TAA
820726 TCAAAACTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
15 16 0.30
16 35 0.65
17 3 0.06
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAATTAAAATAATT
Found at i:820700 original size:31 final size:31
Alignment explanation
Indices: 820659--820722 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
820649 TTAAATTAAT
820659 TTAAACTT-AAATAAATTCAAATATAAAAAAA
1 TTAAACTTAAAAT-AATTCAAATATAAAAAAA
* * *
820690 TTAAATTTAAAATAATTTAAATATAAAATAA
1 TTAAACTTAAAATAATTCAAATATAAAAAAA
820721 TT
1 TT
820723 TAATCAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (31 bp):
TTAAACTTAAAATAATTCAAATATAAAAAAA
Found at i:821376 original size:19 final size:20
Alignment explanation
Indices: 821346--821390 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
821336 TTTAAAAAAA
**
821346 TTTTAT-TTTTAAGTATT-T
1 TTTTATATTTTAAAAATTAT
821364 TTTTATATTTTAAAAATTAT
1 TTTTATATTTTAAAAATTAT
821384 TTTTATA
1 TTTTATA
821391 AATGATATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 6 0.26
19 9 0.39
20 8 0.35
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTATATTTTAAAAATTAT
Found at i:824607 original size:152 final size:149
Alignment explanation
Indices: 824173--824608 Score: 487
Period size: 152 Copynumber: 2.9 Consensus size: 149
824163 GATATTTTCG
* * ** ** *
824173 TGTCCTTTAGGGTTACCGAGATACTTTCATATCGAAGGTATACTTATGAGCATTTTAGTAATTTT
1 TGTCCTTTAAGGTTACCGAGATACTTTCATATCGAAAGTATACCCAAAAGCATTTTGGTAATTTT
* * * * *
824238 TTTAAATCCGAGTCCTAGGCCATCACCGAGTCACTTTTATGCCAAAAGTGTGTATTTAGGATATG
66 TTTAAAT-CGAATCTTAGGTCATCA-CGAGTC-CTTTTATGCCAAAGGTGTGTA-TTAGGATAGG
*
824303 TTCATCATTTTATGATCCTTTTG
127 TTCATCATTTTATGATCCTTTTA
* ** * *
824326 TGTCCTTTAAGGTTACCAAGATACTTTCACGTCAAAAGTATACCCAAAAGCATTTTGGTAATTTC
1 TGTCCTTTAAGGTTACCGAGATACTTTCATATCGAAAGTATACCCAAAAGCATTTTGGTAATTTT
* * * * * * *
824391 TTTATAA-CTAAGTCTTAGGTCCTCAACGAGTCGTTCTATTCCAAAGGTGTGTTTTTAAGATAGG
66 TTTA-AATCGAA-TCTTAGGTCATC-ACGAGTCCTTTTATGCCAAAGGTGTG-TATTAGGATAGG
* *
824455 TTCATCATTTTATTATCGTTTTA
127 TTCATCATTTTATGATCCTTTTA
* *
824478 TGTCCTTTAAGGTTACCGAGATACTTTCATTTCGAAAGTATACCCAAAAGTATTTTGGTAATTTT
1 TGTCCTTTAAGGTTACCGAGATACTTTCATATCGAAAGTATACCCAAAAGCATTTTGGTAATTTT
* *
824543 TTTAGAATCGAATCTTAGGTCATCACTAGTCTCTTTTATGCCAAAGGTGTGCATTAGGAGTAGGT
66 TTTA-AATCGAATCTTAGGTCATCACGAGTC-CTTTTATGCCAAAGGTGTGTATTAGGA-TAGGT
824608 T
128 T
824609 TGTCTTGTTA
Statistics
Matches: 233, Mismatches: 43, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
151 11 0.05
152 143 0.61
153 76 0.33
154 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (149 bp):
TGTCCTTTAAGGTTACCGAGATACTTTCATATCGAAAGTATACCCAAAAGCATTTTGGTAATTTT
TTTAAATCGAATCTTAGGTCATCACGAGTCCTTTTATGCCAAAGGTGTGTATTAGGATAGGTTCA
TCATTTTATGATCCTTTTA
Found at i:827019 original size:19 final size:17
Alignment explanation
Indices: 826983--827022 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 17
826973 ACTATATAAA
826983 TTAATTAAATTAAACTT
1 TTAATTAAATTAAACTT
827000 TTAATTTAAATTACAACTT
1 TTAA-TTAAATTA-AACTT
827019 TTAA
1 TTAA
827023 AGTTCATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.19
18 8 0.38
19 9 0.43
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAATTAAATTAAACTT
Found at i:833273 original size:22 final size:20
Alignment explanation
Indices: 833233--833271 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
833223 AATAATATCG
833233 ATAAATATTTTAATAAAATA
1 ATAAATATTTTAATAAAATA
*
833253 ATAATTATATTTAATAAAA
1 ATAAATAT-TTTAATAAAA
833272 ATTTAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAAATATTTTAATAAAATA
Found at i:834785 original size:25 final size:25
Alignment explanation
Indices: 834757--834813 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
834747 AAGATTAAAA
*
834757 AAAAATTCTT-AAAAACTTATTTTTC
1 AAAAATT-TTGAAAAAATTATTTTTC
* * *
834782 AAAACTTTTGAAAAAATTTTTTTTT
1 AAAAATTTTGAAAAAATTATTTTTC
834807 AAAAATT
1 AAAAATT
834814 AAAACTTCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (25 bp):
AAAAATTTTGAAAAAATTATTTTTC
Found at i:834967 original size:35 final size:36
Alignment explanation
Indices: 834917--834993 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 36
834907 TTTTTTTCCT
* *
834917 TTTTTCTCTTTTCTTTTCTT-CTTATTATTTCAATC
1 TTTTTCTCTTCTCTTTTCTTCCTTATTATCTCAATC
*
834952 TTTTTCTCTTCTCTTTTCTTCCTTATTCTCTCAATC
1 TTTTTCTCTTCTCTTTTCTTCCTTATTATCTCAATC
834988 TTTTTC
1 TTTTTC
834994 CTTTCATGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 19 0.50
36 19 0.50
ACGTcount: A:0.09, C:0.25, G:0.00, T:0.66
Consensus pattern (36 bp):
TTTTTCTCTTCTCTTTTCTTCCTTATTATCTCAATC
Found at i:847591 original size:37 final size:37
Alignment explanation
Indices: 847547--847631 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
847537 TGCCACAATC
*
847547 ATGCATTTGTGATATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGAAATTCATAACATTTCATTTTGCATG
*
847584 ATTCATTTGTGAAATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGAAATTCATAACATTTCATTTTGCATG
847621 ATGCATTTGTG
1 ATGCATTTGTG
847632 CTTCATCTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (37 bp):
ATGCATTTGTGAAATTCATAACATTTCATTTTGCATG
Found at i:848096 original size:28 final size:27
Alignment explanation
Indices: 847990--848261 Score: 283
Period size: 29 Copynumber: 9.6 Consensus size: 27
847980 GACATTCCTC
*
847990 ACCTTCCAAAGCCCACTAGTCAGTGGCA
1 ACCTT-CAAAGCCCACAAGTCAGTGGCA
* * *
848018 TCATTTCAAAAGCCCACAAGTCAATGGCA
1 AC-CTTC-AAAGCCCACAAGTCAGTGGCA
*
848047 CCCTTGTCAAAGCCCACAAGTCAGTGGCA
1 ACC-T-TCAAAGCCCACAAGTCAGTGGCA
*
848076 ACCTTCAGAAGCCCACAAGTCGGTGGCA
1 ACCTTCA-AAGCCCACAAGTCAGTGGCA
* *
848104 CCCCTTTCAAAGCCCACAAGTCAGTAGCA
1 -ACC-TTCAAAGCCCACAAGTCAGTGGCA
*
848133 ATCTTCAAAAGCCCACAAGTCAGTGGCA
1 ACCTTC-AAAGCCCACAAGTCAGTGGCA
* *
848161 TCTTTTCAAAAGCCCACAAGTCAGTGGCA
1 AC-CTTC-AAAGCCCACAAGTCAGTGGCA
* * *
848190 TCTTTTCAAAGCCCACAAGTCAATGGCA
1 AC-CTTCAAAGCCCACAAGTCAGTGGCA
* *
848218 ACCTTCAAAGCCCACAAGGCAGTAGCA
1 ACCTTCAAAGCCCACAAGTCAGTGGCA
848245 ACCTTCAAAAGCCCACA
1 ACCTTC-AAAGCCCACA
848262 CAAGTTGGTG
Statistics
Matches: 210, Mismatches: 24, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
27 33 0.16
28 74 0.35
29 97 0.46
30 6 0.03
ACGTcount: A:0.33, C:0.32, G:0.17, T:0.18
Consensus pattern (27 bp):
ACCTTCAAAGCCCACAAGTCAGTGGCA
Found at i:848106 original size:57 final size:56
Alignment explanation
Indices: 847991--848261 Score: 330
Period size: 57 Copynumber: 4.8 Consensus size: 56
847981 ACATTCCTCA
* * * *
847991 CCTTCCAAAGCCCACTAGTCAGTGGCATCATTTCAAAAGCCCACAAGTCAATGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAATGGCAC
* **
848048 CCTTGTCAAAGCCCACAAGTCAGTGGCAACCTTCAGAAGCCCACAAGTCGGTGGCACC
1 CCTT-TCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAATGGCA-C
* * * *
848106 CCTTTCAAAGCCCACAAGTCAGTAGCAATCTTCAAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAATGGCAC
* * * *
848162 CTTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTC-AAAGCCCACAAGTCAATGGCAA
1 CCTTTC-AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAATGGCAC
* *
848219 CC-TTCAAAGCCCACAAGGCAGTAGCAACCTTCAAAAGCCCACA
1 CCTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACA
848262 CAAGTTGGTG
Statistics
Matches: 185, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
54 3 0.02
55 30 0.16
56 8 0.04
57 114 0.62
58 30 0.16
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.18
Consensus pattern (56 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAATGGCAC
Found at i:848496 original size:150 final size:150
Alignment explanation
Indices: 848322--848812 Score: 646
Period size: 150 Copynumber: 3.3 Consensus size: 150
848312 CATATTGGCA
* *
848322 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATC
** *
848387 GCTTACCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAAT
66 GCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTTGCTGGCCTTGAAT
*
848452 CAGTACATTAGCACCTTCAC
131 CAGTACATTAGCACCTTCAT
* * * *
848472 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGTACATTGGCACCTTCATCTTTAAGTCCGATATT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATC
* *
848537 GCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTTACTGGTCTTGAAT
66 GCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTTGCTGGCCTTGAAT
* *
848602 CAGCACATTAGCACCTGCAT
131 CAGTACATTAGCACCTTCAT
* * ** * *
848622 CTTTAAGTCCAATATCGCTTGCCTTGAATCAGCATATTGGTGTCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGG-CAC-CT-TCATCTTTAAGTCCGAT
* * * * * *
848687 GTCGCTGGCCTTGAATCAGCACATTAGCACC--T-TCACCTTTAAGTCCAATGTTGTTGGCCTTG
63 ATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTTGCTGGCCTTG
* *
848749 AATCAGTATATTGGCACCTTCAT
128 AATCAGTACATTAGCACCTTCAT
* ** *
848772 CTTTAAGTCCGATATCGCTACCCTTGAATCAGCATATTGGC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGC
848813 GTCTTTGTCA
Statistics
Matches: 302, Mismatches: 36, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
150 257 0.85
151 2 0.01
152 1 0.00
153 42 0.14
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (150 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATC
GCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTTGCTGGCCTTGAAT
CAGTACATTAGCACCTTCAT
Found at i:848497 original size:101 final size:99
Alignment explanation
Indices: 848322--848812 Score: 565
Period size: 101 Copynumber: 4.9 Consensus size: 99
848312 CATATTGGCA
* * *
848322 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATC
1 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTC
** * *
848387 GCTTACCTTGAATCAGCATATTGGCGCCTTTGTCAT
66 GCTGGCCTTGAATCAGCACATTGGCACC--TGTCAT
* * * * * *
848423 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTAGCACCTTCACCTTTAAGTCCAATGTT
1 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTC
*
848488 GCTGGCCTTGAATCAGTACATTGGCACCT-TCAT
66 GCTGGCCTTGAATCAGCACATTGGCACCTGTCAT
* * *
848521 CTTTAAGTCCGATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAGTCCAAT
** * *
848586 GTTACTGGTCTTGAATCAGCACATTAGCACCTG-CAT
63 GTCGCTGGCCTTGAATCAGCACATTGGCACCTGTCAT
* * * ** *
848622 CTTTAAGTCCAATATCGCTTGCCTTGAATCAGCATATTGGTGTCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCATATTGG-CAC-CT-TCATCTTTAAGTCCAAT
* *
848687 GTCGCTGGCCTTGAATCAGCACATTAGCACCT-TCAC
63 GTCGCTGGCCTTGAATCAGCACATTGGCACCTGTCAT
* * * *
848723 CTTTAAGTCCAATGTTGTTGGCCTTGAATCAGTATATTGGCACCTTCATCTTTAAGTCCGATATC
1 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTC
** *
848788 GCTACCCTTGAATCAGCATATTGGC
66 GCTGGCCTTGAATCAGCACATTGGC
848813 GTCTTTGTCA
Statistics
Matches: 335, Mismatches: 48, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
98 80 0.24
99 2 0.01
100 2 0.01
101 250 0.75
102 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (99 bp):
CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTC
GCTGGCCTTGAATCAGCACATTGGCACCTGTCAT
Found at i:848716 original size:251 final size:251
Alignment explanation
Indices: 848322--848824 Score: 871
Period size: 251 Copynumber: 2.0 Consensus size: 251
848312 CATATTGGCA
* * * *
848322 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATC
1 CTTTAAGTCCAATGTTACTGGCCTTGAATCAGCACATTAGCACCTGCATCTTTAAGTCCAATATC
848387 GCTTACCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAAT
66 GCTTACCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAAT
*
848452 CAGTACATTAGCACCTTCACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGTACATTGGCACCT
131 CAGCACATTAGCACCTTCACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGTACATTGGCACCT
* **
848517 TCATCTTTAAGTCCGATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
196 TCATCTTTAAGTCCGATATCGCTACCCTTGAATCAGCATATTGGCGCCTTTGTCAT
*
848573 CTTTAAGTCCAATGTTACTGGTCTTGAATCAGCACATTAGCACCTGCATCTTTAAGTCCAATATC
1 CTTTAAGTCCAATGTTACTGGCCTTGAATCAGCACATTAGCACCTGCATCTTTAAGTCCAATATC
* * *
848638 GCTTGCCTTGAATCAGCATATTGGTGTCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAAT
66 GCTTACCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAAT
* *
848703 CAGCACATTAGCACCTTCACCTTTAAGTCCAATGTTGTTGGCCTTGAATCAGTATATTGGCACCT
131 CAGCACATTAGCACCTTCACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGTACATTGGCACCT
*
848768 TCATCTTTAAGTCCGATATCGCTACCCTTGAATCAGCATATTGGCGTCTTTGTCAT
196 TCATCTTTAAGTCCGATATCGCTACCCTTGAATCAGCATATTGGCGCCTTTGTCAT
848824 C
1 C
848825 ATCAACATAT
Statistics
Matches: 237, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
251 237 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (251 bp):
CTTTAAGTCCAATGTTACTGGCCTTGAATCAGCACATTAGCACCTGCATCTTTAAGTCCAATATC
GCTTACCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAAT
CAGCACATTAGCACCTTCACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGTACATTGGCACCT
TCATCTTTAAGTCCGATATCGCTACCCTTGAATCAGCATATTGGCGCCTTTGTCAT
Found at i:848833 original size:26 final size:26
Alignment explanation
Indices: 848799--848850 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
848789 CTACCCTTGA
*
848799 ATCAGCATATTGGCG-TCTTTGTCATC
1 ATCAACATATTGGCGCT-TTTGTCATC
848825 ATCAACATATTGGCGCTTTTGTCATC
1 ATCAACATATTGGCGCTTTTGTCATC
848851 TTAAAGTCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (26 bp):
ATCAACATATTGGCGCTTTTGTCATC
Found at i:853708 original size:62 final size:60
Alignment explanation
Indices: 853578--853718 Score: 149
Period size: 61 Copynumber: 2.3 Consensus size: 60
853568 AGTTACGTAT
* * **
853578 AACCAAAAGTCAAAAAAGACAATCTAAGCAAAGCTTAGAGTAAAAAAAATGACATAGTGA
1 AACCAAAAGTCAAAAAAAACAATCTAAGCAAACCTTAGAGTAAAAAAAATGACATAGACA
* * * ** *
853638 AACCAAAAGTCAGAAAAAAATAATCTAGGCAAACCATTA-AGTGAAAAAGGTGACCTAGACA
1 AACCAAAAGTCA-AAAAAAACAATCTAAGCAAACC-TTAGAGTAAAAAAAATGACATAGACA
*
853699 GAACCAAAAGTAAAAAAAAA
1 -AACCAAAAGTCAAAAAAAA
853719 AAAAAACAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
60 12 0.18
61 41 0.61
62 14 0.21
ACGTcount: A:0.57, C:0.14, G:0.15, T:0.13
Consensus pattern (60 bp):
AACCAAAAGTCAAAAAAAACAATCTAAGCAAACCTTAGAGTAAAAAAAATGACATAGACA
Found at i:855648 original size:20 final size:20
Alignment explanation
Indices: 855623--855680 Score: 84
Period size: 19 Copynumber: 3.0 Consensus size: 20
855613 CTGCCAGTTT
*
855623 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTA
*
855643 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGTA
855662 CATGTATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
855681 TCGATACAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 18 0.53
20 15 0.44
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:855682 original size:13 final size:13
Alignment explanation
Indices: 855664--855688 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
855654 ACAATGAACA
855664 TGTATCGATACAT
1 TGTATCGATACAT
855677 TGTATCGATACA
1 TGTATCGATACA
855689 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:855708 original size:33 final size:32
Alignment explanation
Indices: 855645--855709 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
855635 CAATTGTCCA
* *
855645 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCAATACAT
855677 TGTATCGATACAAAGCATA-ATGTATCAATACAT
1 TGTATCGATACAAAG-A-ACATGTATCAATACAT
855710 CTGGGTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCAATACAT
Found at i:855945 original size:21 final size:19
Alignment explanation
Indices: 855921--855959 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
855911 TTTGAGCGAA
855921 CAAAACTTGTTTACGATTTTT
1 CAAAACTT-TTT-CGATTTTT
*
855942 CAAAAGTTTTTCGATTTT
1 CAAAACTTTTTCGATTTT
855960 ATTCAATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 3 0.18
21 7 0.41
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (19 bp):
CAAAACTTTTTCGATTTTT
Found at i:860833 original size:10 final size:10
Alignment explanation
Indices: 860815--860859 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
860805 AATTTTTTTC
*
860815 TTTTCCTCTT
1 TTTTTCTCTT
860825 TTTTTCTCTT
1 TTTTTCTCTT
860835 TTTTTCTACTT
1 TTTTTCT-CTT
*
860846 TTCTCTCTCTT
1 TT-TTTCTCTT
860857 TTT
1 TTT
860860 CCTCTTCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 17 0.55
11 10 0.32
12 4 0.13
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:861011 original size:20 final size:21
Alignment explanation
Indices: 860963--861021 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
860953 TAGGCTTTTC
**
860963 CATGCCACTTATTATC-CCCT
1 CATGCCACTTATTATCTTACT
860983 CATTGCCACTTATTATCTTACT
1 CA-TGCCACTTATTATCTTACT
861005 -ATGCCACCTT-TTATCTT
1 CATGCCA-CTTATTATCTT
861022 TCCTTAACCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 14 0.41
21 18 0.53
22 2 0.06
ACGTcount: A:0.20, C:0.32, G:0.05, T:0.42
Consensus pattern (21 bp):
CATGCCACTTATTATCTTACT
Found at i:861229 original size:7 final size:8
Alignment explanation
Indices: 861204--861229 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
861194 CTTTTCATCA
861204 TTTCAATT
1 TTTCAATT
861212 TTTCAATT
1 TTTCAATT
861220 TTTCAATT
1 TTTCAATT
861228 TT
1 TT
861230 GCACCTCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTCAATT
Found at i:861311 original size:42 final size:42
Alignment explanation
Indices: 861216--861312 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
861206 TCAATTTTTC
* * *
861216 AATTTTTCAATTTTGCACCTCCATCATTTCTTCTTTAATTTTT
1 AATTTTTCAA-TTTGCACCTCCACCATTTCTTCTTTAAATTTA
* *
861259 AGTTCTTCAATTT-CACCCTTCCACCATTTCTT-TTTAAATTTA
1 AATTTTTCAATTTGCA-CC-TCCACCATTTCTTCTTTAAATTTA
861301 AATTTTTCAATT
1 AATTTTTCAATT
861313 ACACTTTTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.04
42 23 0.51
43 20 0.44
ACGTcount: A:0.24, C:0.22, G:0.02, T:0.53
Consensus pattern (42 bp):
AATTTTTCAATTTGCACCTCCACCATTTCTTCTTTAAATTTA
Found at i:861323 original size:42 final size:43
Alignment explanation
Indices: 861235--861372 Score: 120
Period size: 42 Copynumber: 3.3 Consensus size: 43
861225 ATTTTGCACC
* * * * * * *
861235 TCCATCATTTCTTCTTTAATTTTTAGTTCTTCAATTTCACCCT
1 TCCACCATTTCTTCTTTAAATTTAAATTTTTCAATTACACCTT
*
861278 TCCACCATTTCTT-TTTAAATTTAAATTTTTCAATTACACTTT
1 TCCACCATTTCTTCTTTAAATTTAAATTTTTCAATTACACCTT
** * * * *
861320 TCCACTGTTTCTTCTTT-AGTTTCAACTTTAT-AATTCCACCTT
1 TCCACCATTTCTTCTTTAAATTT-AAATTTTTCAATTACACCTT
861362 TCCACCATTTC
1 TCCACCATTTC
861373 AATTTTTCAA
Statistics
Matches: 76, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
42 55 0.72
43 21 0.28
ACGTcount: A:0.22, C:0.25, G:0.02, T:0.51
Consensus pattern (43 bp):
TCCACCATTTCTTCTTTAAATTTAAATTTTTCAATTACACCTT
Found at i:865570 original size:13 final size:14
Alignment explanation
Indices: 865552--865581 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
865542 GTAATGAAAA
865552 AAAATTAAAAT-TT
1 AAAATTAAAATATT
865565 AAAATTAAAATATT
1 AAAATTAAAATATT
865579 AAA
1 AAA
865582 TTATCGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAATTAAAATATT
Found at i:871245 original size:4 final size:4
Alignment explanation
Indices: 871236--871262 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
871226 TCTTTTTCTT
871236 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
871263 TTAAGATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:872870 original size:28 final size:28
Alignment explanation
Indices: 872807--872870 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
872797 AGCTTAAATT
*
872807 ATATATAATAATATTAAATATGAATATA
1 ATATATAATAAAATTAAATATGAATATA
* *
872835 AAAAATAATAAAA-TATAATATG-ATATGA
1 ATATATAATAAAATTA-AATATGAATAT-A
872863 ATATATAA
1 ATATATAA
872871 ATATCTCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (28 bp):
ATATATAATAAAATTAAATATGAATATA
Found at i:872928 original size:17 final size:17
Alignment explanation
Indices: 872878--872931 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
872868 TAAATATCTC
*
872878 AAAATTTATATAA-TAT
1 AAAATTTATATAATTTT
* *
872894 -AAA-TTATTAAAATATT
1 AAAATTTA-TATAATTTT
872910 AAAATTTATATAATTTT
1 AAAATTTATATAATTTT
872927 AAAAT
1 AAAAT
872932 ATTTTAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
14 3 0.10
15 7 0.24
16 1 0.03
17 15 0.52
18 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTTATATAATTTT
Found at i:872941 original size:34 final size:34
Alignment explanation
Indices: 872862--872942 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
872852 ATATGATATG
*
872862 AATATATAAATATCTCAAAATTTATATAATATAA
1 AATATTTAAATATCTCAAAATTTATATAATATAA
* * *
872896 ATTATTAAAATAT-T-AAAATTTATATAATTTTAA
1 AATATTTAAATATCTCAAAATTTATATAA-TATAA
872929 AATATTTTAAATAT
1 AATA-TTTAAATAT
872943 ATTTATAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 13 0.33
33 8 0.21
34 18 0.46
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (34 bp):
AATATTTAAATATCTCAAAATTTATATAATATAA
Found at i:875645 original size:30 final size:30
Alignment explanation
Indices: 875609--875674 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 30
875599 CAAATTTAAT
875609 ATAAAAATA-ATTAAAATATTATAT-AATATA
1 ATAAAAATATATTAAAAT-TTATATAAATA-A
875639 ATAAAAATATATTAAAATTTATATAAATAA
1 ATAAAAATATATTAAAATTTATATAAATAA
875669 ATAAAA
1 ATAAAA
875675 TTTTTAGTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
30 22 0.65
31 12 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (30 bp):
ATAAAAATATATTAAAATTTATATAAATAA
Found at i:875740 original size:11 final size:12
Alignment explanation
Indices: 875719--875748 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
875709 TTATTTATTT
875719 ATTTATTTTTAA
1 ATTTATTTTTAA
875731 ATTT-TTTTTAA
1 ATTTATTTTTAA
875742 ATTTATT
1 ATTTATT
875749 AAAAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTATTTTTAA
Found at i:875788 original size:34 final size:30
Alignment explanation
Indices: 875762--875830 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
875752 AATTTTAAAT
875762 ATATATTTATATTTATTTATTTAAAATTAA
1 ATATATTTATATTTATTTATTTAAAATTAA
875792 ATATATTTATATTTATTTATTT-AAATTAA
1 ATATATTTATATTTATTTATTTAAAATTAA
*
875821 ATAAATTTAT
1 ATATATTTAT
875831 TCATAAATAC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 16 0.42
30 22 0.58
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
ATATATTTATATTTATTTATTTAAAATTAA
Found at i:875844 original size:23 final size:22
Alignment explanation
Indices: 875813--875903 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 22
875803 TTTATTTATT
*
875813 TAAAT-TAAATAAATTTATTCA
1 TAAATATAAATAAATATATTCA
*
875834 TAAATACTAAATAAATATATTTA
1 TAAATA-TAAATAAATATATTCA
*
875857 TAAATAGATAATGAAATATATTCA
1 TAAATATA-AAT-AAATATATTCA
* *
875881 TAAATA-ATTATAAATATGTTCA
1 TAAATATA-AATAAATATATTCA
875903 T
1 T
875904 GCATACTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
21 5 0.08
22 12 0.20
23 27 0.45
24 16 0.27
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (22 bp):
TAAATATAAATAAATATATTCA
Found at i:875861 original size:12 final size:11
Alignment explanation
Indices: 875821--875897 Score: 59
Period size: 12 Copynumber: 6.7 Consensus size: 11
875811 TTTAAATTAA
*
875821 ATAAATTTATT
1 ATAAATATATT
*
875832 CATAAATACTA-A
1 -ATAAATA-TATT
875844 ATAAATATATTT
1 ATAAATATA-TT
* *
875856 ATAAATAGATA
1 ATAAATATATT
875867 ATGAAATATATT
1 AT-AAATATATT
875879 CATAAATA-ATT
1 -ATAAATATATT
875890 ATAAATAT
1 ATAAATAT
875898 GTTCATGCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
10 9 0.17
11 13 0.25
12 26 0.50
13 4 0.08
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.39
Consensus pattern (11 bp):
ATAAATATATT
Found at i:875993 original size:15 final size:15
Alignment explanation
Indices: 875973--876041 Score: 61
Period size: 15 Copynumber: 4.4 Consensus size: 15
875963 TATTAGTTTT
875973 AAATATAAA-ATAATA
1 AAATATAAATA-AATA
*
875988 AAATATTAATATAAATTC
1 AAATA-TAA-ATAAA-TA
*
876006 TAATATAAATAAATA
1 AAATATAAATAAATA
876021 AAATATAAAT-AATA
1 AAATATAAATAAATA
876035 ATAATAT
1 A-AATAT
876042 TATTAATTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
14 5 0.11
15 20 0.44
16 8 0.18
17 6 0.13
18 6 0.13
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATATAAATAAATA
Found at i:876074 original size:45 final size:47
Alignment explanation
Indices: 875973--876085 Score: 127
Period size: 52 Copynumber: 2.3 Consensus size: 47
875963 TATTAGTTTT
*
875973 AAATATAAAATAATAAAATATTAATATAAATTCTAATATAAATAAATA
1 AAATAT-AAATAATAAAATATTAATATAAATTATAATATAAATAAATA
* * *
876021 AAATATAAATAATAATAATATTATTAATTATATTATAATCAAATAATAAATA
1 AAATATAAATAATAA-AATATTAAT-A-TAAATTATAAT-ATA-AATAAATA
*
876073 AAATTTAAATAAT
1 AAATATAAATAAT
876086 TCATTAAATG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
47 9 0.16
48 14 0.25
49 1 0.02
50 9 0.16
51 2 0.04
52 20 0.36
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (47 bp):
AAATATAAATAATAAAATATTAATATAAATTATAATATAAATAAATA
Found at i:876919 original size:22 final size:21
Alignment explanation
Indices: 876892--876945 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
876882 AAAATATGAG
876892 TAATTTTTTTAAAATAAATAAA
1 TAATTTTTTTAAAA-AAATAAA
* *
876914 TAA-TTTATTAAAAATATAAA
1 TAATTTTTTTAAAAAAATAAA
876934 TAATTTTATTTA
1 TAATTTT-TTTA
876946 TTTTTTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.33
21 12 0.44
22 6 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATTTTTTTAAAAAAATAAA
Found at i:876934 original size:20 final size:20
Alignment explanation
Indices: 876880--876939 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
876870 ATGTTACAAG
* * *
876880 TAAAAATATGAGTAATTTTTT
1 TAAAAATATAAATAA-TTTAT
*
876901 TAAAATAAATAAATAATTTAT
1 TAAAA-ATATAAATAATTTAT
876922 TAAAAATATAAATAATTT
1 TAAAAATATAAATAATTT
876940 TATTTATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 12 0.36
21 14 0.42
22 7 0.21
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
TAAAAATATAAATAATTTAT
Found at i:877732 original size:12 final size:12
Alignment explanation
Indices: 877715--877744 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
877705 TTATTAATTT
877715 TTTATAATTATA
1 TTTATAATTATA
877727 TTTATAATTATA
1 TTTATAATTATA
*
877739 ATTATA
1 TTTATA
877745 TCATTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTATAATTATA
Found at i:877974 original size:3 final size:3
Alignment explanation
Indices: 877966--878003 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
877956 AACACACCAA
877966 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
878004 ACATAAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:879777 original size:21 final size:21
Alignment explanation
Indices: 879753--879798 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
879743 TTGGATGTCT
879753 TATTAAATTTTATACGATGAA
1 TATTAAATTTTATACGATGAA
879774 TATTAAATTTTATACGATGAA
1 TATTAAATTTTATACGATGAA
879795 TATT
1 TATT
879799 GACATTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (21 bp):
TATTAAATTTTATACGATGAA
Found at i:886413 original size:21 final size:21
Alignment explanation
Indices: 886389--886454 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
886379 AATACATATC
886389 TTATAATTAATTTTAATTTTA
1 TTATAATTAATTTTAATTTTA
* * *
886410 TTATTA-TAATAATTAATCTTA
1 TTATAATTAAT-TTTAATTTTA
*
886431 TTATTAATATTATTTTAATTTTA
1 TTA-TAAT-TAATTTTAATTTTA
886454 T
1 T
886455 CAAAATTGAT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 4 0.12
21 16 0.47
22 2 0.06
23 9 0.26
24 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATAATTAATTTTAATTTTA
Found at i:886450 original size:27 final size:27
Alignment explanation
Indices: 886391--886443 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
886381 TACATATCTT
* *
886391 ATAATTAATTTTAATTTTATTATTATA
1 ATAATTAATCTTAATTTTAATATTATA
886418 ATAATTAATCTT-ATTATTAATATTAT
1 ATAATTAATCTTAATT-TTAATATTAT
886444 TTTAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
ATAATTAATCTTAATTTTAATATTATA
Found at i:886531 original size:24 final size:25
Alignment explanation
Indices: 886503--886560 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 25
886493 CTATTACAAT
886503 ATTTT-ATCATTTATTATAAATATA
1 ATTTTAATCATTTATTATAAATATA
* *
886527 ATTTTAAATTATTTATTATATATAT-
1 ATTTT-AATCATTTATTATAAATATA
*
886552 ATCTTAATC
1 ATTTTAATC
886561 TAATATTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 8 0.29
25 4 0.14
26 16 0.57
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (25 bp):
ATTTTAATCATTTATTATAAATATA
Found at i:886590 original size:246 final size:244
Alignment explanation
Indices: 886257--886748 Score: 921
Period size: 246 Copynumber: 2.0 Consensus size: 244
886247 AATTTAATAT
886257 ATATTTTATCATTTATTATAAATATAATTTTAAATTATTTATTATATATATCTTAATCTAATATT
1 ATATTTTATCATTTATTATAAATATAATTTTAAATTATTTATTATATATATCTTAATCTAATATT
886322 TGATCATTTTCTCTTTTCAATATAATCATCTAATCGCCACTATTACTTATACATTTAAATACATA
66 TGATCATTTTCTCTTTTCAATATAATCATCTAATCGCCACTATTACTTATACATTTAAATACATA
886387 TCTTATAATTAATTTTAATTTTATTATTATAATAATTAATCTTATTATTAATATTATTTTAATTT
131 TCTTATAATTAATTTTAATTTTATTATTATAATAATTAATCTTATTATTAATATTATTTTAATTT
* *
886452 TATCAAAATTGATCTTATTGCCTATGCAAATGAACTTGCGTCTATTACA
196 TATCAAAATTGATCTTATTACCTATGCAAATGAACTTGCATCTATTACA
886501 ATATTTTATCATTTATTATAAATATAATTTTAAATTATTTATTATATATATATCTTAATCTAATA
1 ATATTTTATCATTTATTATAAATATAATTTTAAATTATTTA-T-TATATATATCTTAATCTAATA
* * *
886566 TTTGATCATTTTCTCTTTTCAATATAATCATCTAATGGCCACTATTATTTATACATTTAAATATA
64 TTTGATCATTTTCTCTTTTCAATATAATCATCTAATCGCCACTATTACTTATACATTTAAATACA
886631 TATCTTATAATTAATTTTAATTTTATTATTATAATAATTAATCTTATTATTAATATTATTTTAAT
129 TATCTTATAATTAATTTTAATTTTATTATTATAATAATTAATCTTATTATTAATATTATTTTAAT
886696 TTTATCAAAATTGATCTTATTACCTATGCAAATGAACTTGCATCTATTACA
194 TTTATCAAAATTGATCTTATTACCTATGCAAATGAACTTGCATCTATTACA
886747 AT
1 AT
886749 TGTTGTGTGG
Statistics
Matches: 241, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
244 41 0.17
245 1 0.00
246 199 0.83
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.50
Consensus pattern (244 bp):
ATATTTTATCATTTATTATAAATATAATTTTAAATTATTTATTATATATATCTTAATCTAATATT
TGATCATTTTCTCTTTTCAATATAATCATCTAATCGCCACTATTACTTATACATTTAAATACATA
TCTTATAATTAATTTTAATTTTATTATTATAATAATTAATCTTATTATTAATATTATTTTAATTT
TATCAAAATTGATCTTATTACCTATGCAAATGAACTTGCATCTATTACA
Found at i:886659 original size:21 final size:21
Alignment explanation
Indices: 886635--886700 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
886625 AATATATATC
886635 TTATAATTAATTTTAATTTTA
1 TTATAATTAATTTTAATTTTA
* * *
886656 TTATTA-TAATAATTAATCTTA
1 TTATAATTAAT-TTTAATTTTA
*
886677 TTATTAATATTATTTTAATTTTA
1 TTA-TAAT-TAATTTTAATTTTA
886700 T
1 T
886701 CAAAATTGAT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 4 0.12
21 16 0.47
22 2 0.06
23 9 0.26
24 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATAATTAATTTTAATTTTA
Found at i:886696 original size:27 final size:27
Alignment explanation
Indices: 886637--886689 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
886627 TATATATCTT
* *
886637 ATAATTAATTTTAATTTTATTATTATA
1 ATAATTAATCTTAATTTTAATATTATA
886664 ATAATTAATCTT-ATTATTAATATTAT
1 ATAATTAATCTTAATT-TTAATATTAT
886690 TTTAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
ATAATTAATCTTAATTTTAATATTATA
Found at i:886713 original size:38 final size:39
Alignment explanation
Indices: 886632--886717 Score: 106
Period size: 38 Copynumber: 2.2 Consensus size: 39
886622 TTAAATATAT
* *
886632 ATCTTATAATTAATTTTAATTTTATTATTATAATAATTA
1 ATCTTATTATTAATATTAATTTTATTATTATAATAATTA
*
886671 ATCTTATTATTAATATT-ATTTTAATT-TTATCAA-AATTG
1 ATCTTATTATTAATATTAATTTT-ATTATTAT-AATAATTA
886709 ATCTTATTA
1 ATCTTATTA
886718 CCTATGCAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 22 0.52
39 20 0.48
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (39 bp):
ATCTTATTATTAATATTAATTTTATTATTATAATAATTA
Found at i:886796 original size:6 final size:6
Alignment explanation
Indices: 886784--886823 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
886774 GGAAAGAGGA
* *
886784 AAAAAT GAAAAT GAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
886824 GTGAAGGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:886807 original size:18 final size:18
Alignment explanation
Indices: 886784--886828 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
886774 GGAAAGAGGA
*
886784 AAAAATGAAAATGAAAAT
1 AAAAATGAAAATAAAAAT
*
886802 AAAAATAAAAATAAAAAT
1 AAAAATGAAAATAAAAAT
*
886820 AAAAGTGAA
1 AAAAATGAA
886829 GGCAAAAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.16
Consensus pattern (18 bp):
AAAAATGAAAATAAAAAT
Found at i:887492 original size:2 final size:2
Alignment explanation
Indices: 887485--887521 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
887475 TTCAACATCT
887485 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
887522 TATCTCTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:888346 original size:15 final size:14
Alignment explanation
Indices: 888323--888362 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
888313 ATTTTTTTTT
*
888323 ATATATTTTATAAAA
1 ATAT-TTTTTTAAAA
888338 ATATTTTTTTAAAA
1 ATATTTTTTTAAAA
888352 ATAATTTTTTT
1 AT-ATTTTTTT
888363 CATACGGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATTTTTTTAAAA
Found at i:888361 original size:14 final size:14
Alignment explanation
Indices: 888327--888361 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
888317 TTTTTTATAT
*
888327 ATTTTATAAAAATA
1 ATTTTTTAAAAATA
*
888341 TTTTTTTAAAAATA
1 ATTTTTTAAAAATA
888355 ATTTTTT
1 ATTTTTT
888362 TCATACGGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTTTAAAAATA
Found at i:891044 original size:13 final size:13
Alignment explanation
Indices: 891022--891052 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
891012 TTTTAATTTT
*
891022 TTTATTATTAATA
1 TTTATAATTAATA
891035 TTTATAATTAATA
1 TTTATAATTAATA
891048 TTTAT
1 TTTAT
891053 TATAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTATAATTAATA
Found at i:891343 original size:4 final size:4
Alignment explanation
Indices: 891334--891364 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
891324 ACTTGAATTC
891334 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
891365 TTGCAAACGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:891842 original size:2 final size:2
Alignment explanation
Indices: 891837--891863 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
891827 GATTGTGCAA
891837 GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT G
891864 CGTCCCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:892393 original size:14 final size:13
Alignment explanation
Indices: 892376--892412 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
892366 GTGTAAATTA
892376 ATTATTTTAAAAAT
1 ATTA-TTTAAAAAT
892390 ATTATTTAAAAAT
1 ATTATTTAAAAAT
892403 -TT-TTTAAAAA
1 ATTATTTAAAAA
892413 AGTTTTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.35
12 2 0.09
13 9 0.39
14 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTATTTAAAAAT
Found at i:895002 original size:33 final size:33
Alignment explanation
Indices: 894965--895031 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
894955 TCAAACTTGT
894965 AAAGACATTAGCCTCTGTTTTCATCTAACAAAG
1 AAAGACATTAGCCTCTGTTTTCATCTAACAAAG
894998 AAAGACATTAGCCTCTGTTTTCATCTAACAAAG
1 AAAGACATTAGCCTCTGTTTTCATCTAACAAAG
895031 A
1 A
895032 GCTGTATCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (33 bp):
AAAGACATTAGCCTCTGTTTTCATCTAACAAAG
Found at i:895590 original size:3 final size:3
Alignment explanation
Indices: 895582--895622 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
895572 TCCTTAAGTA
* *
895582 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT CAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
895623 AGCTAAGGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:896451 original size:18 final size:18
Alignment explanation
Indices: 896413--896464 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
896403 TAATTCCTTT
896413 AATATATTTAATACA-AAAA
1 AATATATTTAA-A-ATAAAA
896432 AATATATTTAAAATAAAA
1 AATATATTTAAAATAAAA
*
896450 AA-ATAATTATAAATA
1 AATATATTTA-AAATA
896465 TCAAAATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.23
18 12 0.40
19 11 0.37
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AATATATTTAAAATAAAA
Found at i:896470 original size:21 final size:21
Alignment explanation
Indices: 896413--896470 Score: 72
Period size: 19 Copynumber: 3.0 Consensus size: 21
896403 TAATTCCTTT
896413 AATATATTT-AATA-CAAAAA
1 AATATATTTAAATATCAAAAA
896432 AATATATTTAAA-AT-AAAAA
1 AATATATTTAAATATCAAAAA
896451 AATA-ATTATAAATATCAAAA
1 AATATATT-TAAATATCAAAA
896471 TTTAAATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.09
19 23 0.68
20 4 0.12
21 4 0.12
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (21 bp):
AATATATTTAAATATCAAAAA
Found at i:897366 original size:2 final size:2
Alignment explanation
Indices: 897359--897394 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
897349 GAGTTACTAA
897359 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
897395 TTCTCTCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:906406 original size:2 final size:2
Alignment explanation
Indices: 906399--906436 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
906389 AAGTAAATAC
*
906399 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
906437 TCTTAGACCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:910919 original size:2 final size:2
Alignment explanation
Indices: 910912--910937 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
910902 TTCATTGCTC
910912 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
910938 AGAGAGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:910942 original size:2 final size:2
Alignment explanation
Indices: 910937--910966 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
910927 GTGTGTGTGT
910937 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
910967 TCACTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:913506 original size:12 final size:12
Alignment explanation
Indices: 913489--913513 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
913479 CCTTTGAATT
913489 TGACAAGAAATA
1 TGACAAGAAATA
913501 TGACAAGAAATA
1 TGACAAGAAATA
913513 T
1 T
913514 ATTCTGTCTA
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:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (12 bp):
TGACAAGAAATA
Found at i:916078 original size:2 final size:2
Alignment explanation
Indices: 916071--916096 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
916061 ACATGCATGC
916071 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
916097 TAAATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:920393 original size:23 final size:19
Alignment explanation
Indices: 920345--920381 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
920335 TTATTTTTTT
920345 TAAAA-TATTTTTTAATTA
1 TAAAATTATTTTTTAATTA
920363 TAAAATTATTTTTTAATTA
1 TAAAATTATTTTTTAATTA
920382 ATTAGCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TAAAATTATTTTTTAATTA
Found at i:920471 original size:13 final size:13
Alignment explanation
Indices: 920453--920477 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
920443 TACTAGAAAA
920453 AATTTAAATTTAT
1 AATTTAAATTTAT
920466 AATTTAAATTTA
1 AATTTAAATTTA
920478 ATATTATATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTAAATTTAT
Found at i:921022 original size:29 final size:27
Alignment explanation
Indices: 920979--921061 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 27
920969 AAATTTGGAG
*
920979 GTAAGTGTATTTTTTGTCAAACTTTAAGA
1 GTAAGTGTATTTTTTCT-AAACTTTAA-A
* *
921008 GTAAGTGAATATTTTCTAAACGTTATAAA
1 GTAAGTGTATTTTTTCTAAAC-TT-TAAA
921037 GTAAGTGTATTTTTTCTAAAACTTT
1 GTAAGTGTATTTTTTCT-AAACTTT
921062 GAAAAATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
28 5 0.11
29 34 0.74
30 7 0.15
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (27 bp):
GTAAGTGTATTTTTTCTAAACTTTAAA
Found at i:922684 original size:2 final size:2
Alignment explanation
Indices: 922679--922711 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
922669 TGTGAGCGAA
922679 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
922712 TCACTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:930757 original size:18 final size:18
Alignment explanation
Indices: 930734--930772 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
930724 AGGTTCTTCC
*
930734 ATATTTTTTTATATT-TTT
1 ATATTTATTTAT-TTATTT
930752 ATATTTATTTATTTATTT
1 ATATTTATTTATTTATTT
930770 ATA
1 ATA
930773 GTATCTCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
ATATTTATTTATTTATTT
Found at i:933282 original size:16 final size:16
Alignment explanation
Indices: 933258--933292 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
933248 TGAAAAAGAA
933258 TTTATTTATTATTTTAT
1 TTTATTTATTATTTT-T
933275 TTTA-TTATTATTTTT
1 TTTATTTATTATTTTT
933290 TTT
1 TTT
933293 GAAAATTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 10 0.56
17 4 0.22
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTATTTATTATTTTT
Found at i:935939 original size:165 final size:166
Alignment explanation
Indices: 935679--935981 Score: 466
Period size: 165 Copynumber: 1.8 Consensus size: 166
935669 AAAATCCAAT
** ** * **
935679 GCTCATGAAAATGAATTAATTTTTTTAAACTGATTTAATATGAATCAAATAATGATATTTAATGA
1 GCTCATGAAAATGAATTAATTTTTAAAAACTGAAATAATATAAATCAAATAAAAATATTTAATGA
*
935744 ATTTTAAAAATTGAAAACCAAAAAAAATCTCCTCGAAAAAATTTACAAAATAGAAAACACCGTAT
66 ATTTTAAAAATTAAAAACCAAAAAAAATCTCCTCGAAAAAATTTACAAAATAGAAAACACCGTAT
*
935809 TTTAAAAAAAGAAAAATTTCAAGAAAAAGAGCAAAA
131 TTCAAAAAAAGAAAAATTTCAAGAAAAAGAGCAAAA
*
935845 GCTCATGAAAATGAATTAATTTTTAAAAACT-AAATAATATCAAAT-AAATAAAAATATTTAATT
1 GCTCATGAAAATGAATTAATTTTTAAAAACTGAAATAATAT-AAATCAAATAAAAATATTTAATG
* * *
935908 AATTTTAAAAATTAAAAACCAAGAAAAATCTCCTCGAAAAAATTTACGAAGTAGAAAACACCGTA
65 AATTTTAAAAATTAAAAACCAAAAAAAATCTCCTCGAAAAAATTTACAAAATAGAAAACACCGTA
935973 TTTCAAAAA
130 TTTCAAAAA
935982 GAAAGAGTTT
Statistics
Matches: 123, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
165 91 0.74
166 32 0.26
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.28
Consensus pattern (166 bp):
GCTCATGAAAATGAATTAATTTTTAAAAACTGAAATAATATAAATCAAATAAAAATATTTAATGA
ATTTTAAAAATTAAAAACCAAAAAAAATCTCCTCGAAAAAATTTACAAAATAGAAAACACCGTAT
TTCAAAAAAAGAAAAATTTCAAGAAAAAGAGCAAAA
Found at i:936068 original size:165 final size:165
Alignment explanation
Indices: 935733--936039 Score: 417
Period size: 165 Copynumber: 1.9 Consensus size: 165
935723 TCAAATAATG
*
935733 ATATTTAATGAATTTTAAAAATTGAAAACCAAAAAAAATCTCCTCGAAAAAATTTACAAAATAGA
1 ATATTTAATGAATTTTAAAAATTAAAAACCAAAAAAAATCTCCTCGAAAAAATTTACAAAATAGA
* * *
935798 AAACACCGTATTTTAAAAAAAGAAAAATTTCAAGAAAAAGAGCAAAAGCTCATGAAAATGAATTA
66 AAACACCGTATTTTAAAAAAAGAAAAATTTCAAGAAAAAGAGCAAAAGATAATGAAAATGAATAA
*
935863 ATTTTTAAAAACTAAATAATATCAAATAAATAAAA
131 ATTTTTAAAAACTAAATAATAGCAAATAAATAAAA
* * * *
935898 ATATTTAATTAATTTTAAAAATTAAAAACCAAGAAAAATCTCCTCGAAAAAATTTACGAAGTAGA
1 ATATTTAATGAATTTTAAAAATTAAAAACCAAAAAAAATCTCCTCGAAAAAATTTACAAAATAGA
* * **
935963 AAACACCGTA-TTT-CAAAAAGAAAGAGTTTCAAGGAAAAA-ATTAAAA-ATGAAT-AGAAATGA
66 AAACACCGTATTTTAAAAAAAGAAA-AATTTCAA-GAAAAAGAGCAAAAGAT-AATGA-AAATGA
*
936023 ATAAATTTTTGAAAACT
127 ATAAATTTTTAAAAACT
936040 GAATCGATGG
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
163 11 0.09
164 38 0.30
165 76 0.61
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (165 bp):
ATATTTAATGAATTTTAAAAATTAAAAACCAAAAAAAATCTCCTCGAAAAAATTTACAAAATAGA
AAACACCGTATTTTAAAAAAAGAAAAATTTCAAGAAAAAGAGCAAAAGATAATGAAAATGAATAA
ATTTTTAAAAACTAAATAATAGCAAATAAATAAAA
Found at i:937398 original size:23 final size:23
Alignment explanation
Indices: 937372--937415 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
937362 TAAACATTTA
*
937372 AATTAATTAATTAATTATTATAT
1 AATTAAATAATTAATTATTATAT
* *
937395 AATTAAATATTTATTTATTAT
1 AATTAAATAATTAATTATTAT
937416 TAGATATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATTAAATAATTAATTATTATAT
Found at i:937422 original size:18 final size:19
Alignment explanation
Indices: 937375--937422 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
937365 ACATTTAAAT
* *
937375 TAATTAATTAATTATTATA
1 TAATTAAATATTTATTATA
937394 TAATTAAATATTTATT-TA
1 TAATTAAATATTTATTATA
* *
937412 TTATTAGATAT
1 TAATTAAATAT
937423 AAATATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TAATTAAATATTTATTATA
Found at i:938452 original size:27 final size:28
Alignment explanation
Indices: 938399--938455 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
938389 AAAAATAGAA
* *
938399 TTTTCTCTATATCTATGCCATTGTTACT
1 TTTTCTCTATAACTATGCCATTATTACT
**
938427 TTTTCT-TATAACTATGTTATTATTACT
1 TTTTCTCTATAACTATGCCATTATTACT
938454 TT
1 TT
938456 GCTTGCAAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTTCTCTATAACTATGCCATTATTACT
Found at i:938990 original size:22 final size:22
Alignment explanation
Indices: 938962--939012 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
938952 ATGGCATAAT
*
938962 TAATGATCGAACACTGCACAAC
1 TAATGATCGAACACTACACAAC
*
938984 TAATGATCGAACACTACACGAC
1 TAATGATCGAACACTACACAAC
*
939006 CAATGAT
1 TAATGAT
939013 TAGACTGAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (22 bp):
TAATGATCGAACACTACACAAC
Found at i:944472 original size:21 final size:21
Alignment explanation
Indices: 944432--944472 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
944422 TTAAGTATAA
*
944432 ATATTTTTCAAGATATAAATC
1 ATATTTTTCAAGATAAAAATC
944453 ATATGTTTTCAAG-TAAAAAT
1 ATAT-TTTTCAAGATAAAAAT
944473 AATCCAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (21 bp):
ATATTTTTCAAGATAAAAATC
Found at i:944609 original size:13 final size:13
Alignment explanation
Indices: 944591--944615 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
944581 CATATTGCTT
944591 TGTATCGATACAA
1 TGTATCGATACAA
944604 TGTATCGATACA
1 TGTATCGATACA
944616 TATTCATTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:944612 original size:33 final size:32
Alignment explanation
Indices: 944570--944634 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
944560 ACACACCTAG
* *
944570 ATGTATCGATACATATTGCTTTGTATCGATACA
1 ATGTATCGATACATATT-CATTATATCGATACA
944603 ATGTATCGATACATATTCATTATATCGATACA
1 ATGTATCGATACATATTCATTATATCGATACA
944635 CACTAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (32 bp):
ATGTATCGATACATATTCATTATATCGATACA
Found at i:944706 original size:20 final size:21
Alignment explanation
Indices: 944681--944735 Score: 80
Period size: 20 Copynumber: 2.7 Consensus size: 21
944671 TAAAACTCAC
944681 ATTGTATCGATACAT-G-AAA
1 ATTGTATCGATACATGGTAAA
944700 GATTGTATCGATACATGGTAAA
1 -ATTGTATCGATACATGGTAAA
944722 A-TGTATCGATACAT
1 ATTGTATCGATACAT
944736 TGAGCCCAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 28 0.85
21 2 0.06
22 3 0.09
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (21 bp):
ATTGTATCGATACATGGTAAA
Found at i:945023 original size:34 final size:35
Alignment explanation
Indices: 944984--945055 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 35
944974 AATTTCTATA
* **
944984 TTTCAAAGAGCTTTTGTATTC-TTTGTTGTTATTC
1 TTTCAAAGAGCATTTGTATTCTTTTGTACTTATTC
**
945018 TTTCAAAGCTCATTTGTATTCTTTTGTACTTATTC
1 TTTCAAAGAGCATTTGTATTCTTTTGTACTTATTC
945053 TTT
1 TTT
945056 TCATGAACAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
34 18 0.56
35 14 0.44
ACGTcount: A:0.18, C:0.14, G:0.11, T:0.57
Consensus pattern (35 bp):
TTTCAAAGAGCATTTGTATTCTTTTGTACTTATTC
Found at i:947914 original size:15 final size:16
Alignment explanation
Indices: 947871--947922 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
947861 AAAGTTTTTA
947871 ATATTTTA-ATTACATTT
1 ATATTTTATA-TA-ATTT
*
947888 ATATTTTTTATAATTT
1 ATATTTTATATAATTT
*
947904 A-ATTTTATATAATTA
1 ATATTTTATATAATTT
947919 ATAT
1 ATAT
947923 AAATCTAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 13 0.43
16 7 0.23
17 9 0.30
18 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATTTTATATAATTT
Found at i:953399 original size:6 final size:6
Alignment explanation
Indices: 953388--953421 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
953378 AGTCATAATA
*
953388 TGGTTC TGGTTC TGGTTC TGGTTC TAGTTC TGGT
1 TGGTTC TGGTTC TGGTTC TGGTTC TGGTTC TGGT
953422 ATCTTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.03, C:0.15, G:0.32, T:0.50
Consensus pattern (6 bp):
TGGTTC
Found at i:955062 original size:2 final size:2
Alignment explanation
Indices: 955055--955091 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
955045 AGATCTTTAC
955055 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
955092 ACACACACAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:956074 original size:2 final size:2
Alignment explanation
Indices: 956067--956096 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
956057 TGCAAAGGAC
956067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
956097 GTAGTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:957016 original size:2 final size:2
Alignment explanation
Indices: 957009--957046 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
956999 TTCATAGATA
957009 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
957047 TTTGATGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:957924 original size:3 final size:3
Alignment explanation
Indices: 957916--957952 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
957906 ATAACCGTTG
957916 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
957953 AAAGAAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:960882 original size:2 final size:2
Alignment explanation
Indices: 960877--960906 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
960867 TAATTATGTC
960877 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
960907 GAAAAATGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:961624 original size:2 final size:2
Alignment explanation
Indices: 961617--961649 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
961607 AAAAGAACCC
961617 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
961650 CTTCTTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:963562 original size:16 final size:16
Alignment explanation
Indices: 963543--963578 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
963533 TTTGAACTTG
963543 AAATTATGTAAATTTA
1 AAATTATGTAAATTTA
* *
963559 AAATTATTTTAATTTA
1 AAATTATGTAAATTTA
963575 AAAT
1 AAAT
963579 GATTAGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
AAATTATGTAAATTTA
Found at i:964282 original size:7 final size:7
Alignment explanation
Indices: 964270--964296 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
964260 TAATTTAATA
964270 AAATTTT
1 AAATTTT
964277 AAATTTT
1 AAATTTT
964284 AAATTTT
1 AAATTTT
964291 AAATTT
1 AAATTT
964297 AGATTCGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AAATTTT
Found at i:964804 original size:22 final size:21
Alignment explanation
Indices: 964769--964809 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
964759 TGTTTATTAG
964769 ATTTAAATAAAAAATTAATAAT
1 ATTTAAATAAAAAA-TAATAAT
**
964791 ATTTAAATTTAAAATAATA
1 ATTTAAATAAAAAATAATA
964810 CAAACTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTTAAATAAAAAATAATAAT
Found at i:964838 original size:16 final size:16
Alignment explanation
Indices: 964817--964851 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
964807 ATACAAACTC
*
964817 AAATAATTCGTATTTA
1 AAATAATTCGTATATA
*
964833 AAATAATTTGTATATA
1 AAATAATTCGTATATA
964849 AAA
1 AAA
964852 AATAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (16 bp):
AAATAATTCGTATATA
Found at i:965582 original size:18 final size:17
Alignment explanation
Indices: 965559--965592 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
965549 CACCAATATT
*
965559 TTTTTATTAATCTTTTTG
1 TTTTTAATAAT-TTTTTG
965577 TTTTTAATAATTTTTT
1 TTTTTAATAATTTTTT
965593 CAACTAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTAATAATTTTTTG
Found at i:966719 original size:2 final size:2
Alignment explanation
Indices: 966712--966741 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
966702 TCCTATCCCC
*
966712 CT CT CT CT CT TT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
966742 TGATTTTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:967997 original size:218 final size:217
Alignment explanation
Indices: 967611--968049 Score: 707
Period size: 218 Copynumber: 2.0 Consensus size: 217
967601 TAGTCACATA
* * **
967611 AACTATTACTCTTAAATTAGAGCCAGATAAATCACACACATAATTGCAATTAAAAAAAAGGCTAT
1 AACTATTACTCTTAAATTAAAGCCAGATAAATCACAAACATAATTGCAATTAAAAAAAAAACTAT
* * * * *
967676 CGTATTGCTTTAGCATTATTATAACCATGGGCTCATCCAGGTTTTATAAATATTTACAAGAGTAA
66 CCTATTGCTTTAGCACTATTATAACCATGGACTCAACCAGGTTTTACAAATATTTACAAGAGTAA
*
967741 AACTCTTAAACTCTTGTTAAAAGCAGCACCACTTCTATATTTATATAGGTGAAATTCTACAATAA
131 AACTCTTAAACTCTTGTTAAAAGCAACACCACTTCTATATTTATATAGGTGAAATTCTACAATAA
*
967806 TATAATTATCTATTAAGAGTTT
196 TATAATTATCTATCAAGAGTTT
*
967828 AACTATTACTCTTAAATTAAAGCCGGATAAATCACAAACATAATTGCAATTAAAAAAAAAAACTA
1 AACTATTACTCTTAAATTAAAGCCAGATAAATCACAAACATAATTGCAATT-AAAAAAAAAACTA
* *
967893 TCCTATTGCTTTAGCACTATTATAACCATGTACTCAACCAGGTTTTACAAATATTTATAAGAGTA
65 TCCTATTGCTTTAGCACTATTATAACCATGGACTCAACCAGGTTTTACAAATATTTACAAGAGTA
* * *
967958 AATCTCTTAAACTGTTGTTAAAAGCAACACCATTTCTATATTTATATAGGTGAAATTCTACAATA
130 AAACTCTTAAACTCTTGTTAAAAGCAACACCACTTCTATATTTATATAGGTGAAATTCTACAATA
*
968023 ATATAATTATCTATCAAGATTTT
195 ATATAATTATCTATCAAGAGTTT
968046 AACT
1 AACT
968050 CATCATCCAA
Statistics
Matches: 203, Mismatches: 18, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
217 48 0.24
218 155 0.76
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.34
Consensus pattern (217 bp):
AACTATTACTCTTAAATTAAAGCCAGATAAATCACAAACATAATTGCAATTAAAAAAAAAACTAT
CCTATTGCTTTAGCACTATTATAACCATGGACTCAACCAGGTTTTACAAATATTTACAAGAGTAA
AACTCTTAAACTCTTGTTAAAAGCAACACCACTTCTATATTTATATAGGTGAAATTCTACAATAA
TATAATTATCTATCAAGAGTTT
Found at i:972551 original size:15 final size:15
Alignment explanation
Indices: 972531--972567 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
972521 GAAATATTAT
972531 TTTAATTTATTTAAA
1 TTTAATTTATTTAAA
**
972546 TTTAATTTATTTTGA
1 TTTAATTTATTTAAA
972561 TTTAATT
1 TTTAATT
972568 ATAAATAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TTTAATTTATTTAAA
Found at i:973315 original size:26 final size:29
Alignment explanation
Indices: 973267--973321 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
973257 ATTTTGAATG
* *
973267 AGAATATTATTATATTTAATAAT-TTTTA
1 AGAATATGATTATATATAATAATCTTTTA
973295 AGAATATGATTAT-TAT-ATAATCTTTTA
1 AGAATATGATTATATATAATAATCTTTTA
973322 TTTAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.21
27 7 0.29
28 12 0.50
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (29 bp):
AGAATATGATTATATATAATAATCTTTTA
Found at i:974202 original size:19 final size:19
Alignment explanation
Indices: 974151--974205 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
974141 AAAATTTATT
*
974151 AAATTAAATTTTTAAAAATAA
1 AAATTAAATATTT--AAATAA
* *
974172 AATTTTAA-ATTTAAATAA
1 AAATTAAATATTTAAATAA
974190 AAATTAAATATTTAAA
1 AAATTAAATATTTAAA
974206 CAGATATCGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 12 0.43
19 7 0.25
20 3 0.11
21 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATTAAATATTTAAATAA
Found at i:974236 original size:24 final size:24
Alignment explanation
Indices: 974191--974236 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
974181 TTTAAATAAA
* * *
974191 AATTAAATATTTAAACAGATATCG
1 AATTAAATATTCAAAAACATATCG
*
974215 AATTAGATATTCAAAAACATAT
1 AATTAAATATTCAAAAACATAT
974237 TTGACTATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.33
Consensus pattern (24 bp):
AATTAAATATTCAAAAACATATCG
Found at i:975896 original size:13 final size:13
Alignment explanation
Indices: 975880--975923 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
975870 TTACTCCCTA
975880 CTTTTTTTCTTTT
1 CTTTTTTTCTTTT
*
975893 CTTTTCTTCTTTT
1 CTTTTTTTCTTTT
* *
975906 TTTTTTTTATTTAT
1 CTTTTTTTCTTT-T
975920 CTTT
1 CTTT
975924 GGGGTCTCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 21 0.84
14 4 0.16
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (13 bp):
CTTTTTTTCTTTT
Found at i:975906 original size:22 final size:22
Alignment explanation
Indices: 975880--975922 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
975870 TTACTCCCTA
* *
975880 CTTTTTTTCTTTTCTTT-TCTT
1 CTTTTTTTTTTTTATTTATCTT
975901 CTTTTTTTTTTTTATTTATCTT
1 CTTTTTTTTTTTTATTTATCTT
975923 TGGGGTCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (22 bp):
CTTTTTTTTTTTTATTTATCTT
Done.