Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 102 of 129
Found at i:18615876 original size:21 final size:22
Alignment explanation
Indices: 18615852--18615909 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
18615842 TTTTTATTCA
18615852 AAACTTAAAGATTCACAA-TTG
1 AAACTTAAAGATTCACAATTTG
* * *
18615873 AAACTGAAGGATTCTCAATTTG
1 AAACTTAAAGATTCACAATTTG
18615895 AAATTCTTAAAGATT
1 AAA--CTTAAAGATT
18615910 ATACCTGAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 15 0.52
22 6 0.21
24 8 0.28
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (22 bp):
AAACTTAAAGATTCACAATTTG
Found at i:18618107 original size:19 final size:19
Alignment explanation
Indices: 18618076--18618112 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
18618066 ATTAAAATGA
18618076 TAAAAAAATGAAATCTTAT
1 TAAAAAAATGAAATCTTAT
18618095 TAAATAAAA-GAAATCTTA
1 TAAA-AAAATGAAATCTTA
18618113 GCATTACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (19 bp):
TAAAAAAATGAAATCTTAT
Found at i:18622957 original size:54 final size:54
Alignment explanation
Indices: 18622880--18623198 Score: 258
Period size: 54 Copynumber: 5.9 Consensus size: 54
18622870 ATAAATCTTG
* *
18622880 AAATTATTTTTTGTTTAAGAAAAAATTAATATTTCAACTTTTTTGTCAATTTTTA
1 AAATTA-TTTTTGTTTAAGAAAAAATTGATATTTCAACTTTTTTCTCAATTTTTA
* * * * * *
18622935 AAATTATTTTTGTTTAATAAAAAAGTTGATATTTTAACTCTTTCCTC-ATTCTTG
1 AAATTATTTTTGTTTAAGAAAAAA-TTGATATTTCAACTTTTTTCTCAATTTTTA
* * * ** *
18622989 AAATTA-TTTTGTTTTCAGGAAAAATTAATATTTCAA--TTTTTCTCTGTTTTTG
1 AAATTATTTTTG-TTTAAGAAAAAATTGATATTTCAACTTTTTTCTCAATTTTTA
** * * *
18623041 AAATTATTTTTGTTTAAGAAAATTTTGATATTTTAGCTTTTTTCTCATTTTTTTTA
1 AAATTATTTTTGTTTAAGAAAAAATTGATATTTCAACTTTTTTCTCA--ATTTTTA
* * * * *
18623097 AATTTATTTTTCTCTAAG-AAAAATTGATATTTCAA-TTTTTTCCTTATTTTTTAA
1 AAATTATTTTTGTTTAAGAAAAAATTGATATTTCAACTTTTTT-CTCAATTTTT-A
* * *
18623151 AAATTATTTTTG-TTAAGCAAAATTTGGATAATTT-AACTTTTTCCTCAA
1 AAATTATTTTTGTTTAAGAAAAAATT-GAT-ATTTCAACTTTTTTCTCAA
18623199 ATAATAAATT
Statistics
Matches: 208, Mismatches: 42, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
51 6 0.03
52 28 0.13
53 30 0.14
54 68 0.33
55 47 0.23
56 29 0.14
ACGTcount: A:0.32, C:0.08, G:0.07, T:0.53
Consensus pattern (54 bp):
AAATTATTTTTGTTTAAGAAAAAATTGATATTTCAACTTTTTTCTCAATTTTTA
Found at i:18623224 original size:33 final size:34
Alignment explanation
Indices: 18623170--18623233 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
18623160 TTGTTAAGCA
*
18623170 AAATTTGGATAATTTAACTTTTTCCTCAAATAAT
1 AAATTTGGATAATTCAACTTTTTCCTCAAATAAT
* *
18623204 AAATTT-GATACTTCAACTTTTTTCTCAAAT
1 AAATTTGGATAATTCAACTTTTTCCTCAAAT
18623234 TTTGAAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (34 bp):
AAATTTGGATAATTCAACTTTTTCCTCAAATAAT
Found at i:18624067 original size:6 final size:6
Alignment explanation
Indices: 18624053--18624099 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
18624043 GAAGAAACAC
* * * *
18624053 AAAAAT AAAAGT AAAAAG ATAAA- AAAAAT ACAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
18624100 TTAACAATTA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:18625336 original size:28 final size:28
Alignment explanation
Indices: 18625299--18625355 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
18625289 CAAGTAGTGT
18625299 TCAACATATATGTAT-GTGTTATTTGGTG
1 TCAACATATATGTATAG-GTTATTTGGTG
*
18625327 TCAACATATATGTATAGGTTGTTTGGTG
1 TCAACATATATGTATAGGTTATTTGGTG
18625355 T
1 T
18625356 GCTCTCATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.46
Consensus pattern (28 bp):
TCAACATATATGTATAGGTTATTTGGTG
Found at i:18633122 original size:25 final size:24
Alignment explanation
Indices: 18633076--18633122 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
18633066 AATATTACAA
*
18633076 TTTTTTTTAAAAAATGTATTATTC
1 TTTTTTTTAAAAAATATATTATTC
* *
18633100 TTTTTTATTATAAAATATTTTAT
1 TTTTTT-TTAAAAAATATATTAT
18633123 CACCAAGTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTTTTTTAAAAAATATATTATTC
Found at i:18633672 original size:16 final size:15
Alignment explanation
Indices: 18633651--18633880 Score: 201
Period size: 16 Copynumber: 14.7 Consensus size: 15
18633641 GATTTAAAGG
18633651 TTTGGATTTTAGGAAT
1 TTTGGATTTTAGG-AT
*
18633667 TTTGGATTTTAGGGT
1 TTTGGATTTTAGGAT
*
18633682 TTTGGATTTTAGAGGT
1 TTTGGATTTTAG-GAT
*
18633698 TTTGGATTTTAAGG-G
1 TTTGGATTTT-AGGAT
* *
18633713 TTTAGATTTAAGGGAT
1 TTTGGATTTTA-GGAT
*
18633729 TTTGGATTTAAGGGAT
1 TTTGGATTTTA-GGAT
*
18633745 TTTGGATTTTAGGGT
1 TTTGGATTTTAGGAT
*
18633760 TTTGGATTTTAGAGGT
1 TTTGGATTTTAG-GAT
**
18633776 TTTGGATTTTAGGGG
1 TTTGGATTTTAGGAT
* *
18633791 TTTAGATTTAAAGGAT
1 TTTGGATTT-TAGGAT
*
18633807 TTTGGATTTTAGGGGT
1 TTTGGATTTTA-GGAT
** *
18633823 TTCAGATTTTAGAAT
1 TTTGGATTTTAGGAT
* *
18633838 TTTGGATTTTAAGAC
1 TTTGGATTTTAGGAT
18633853 TTTGGATTTTAGGGGAT
1 TTTGGATTTTA--GGAT
18633870 TTTGGATTTTA
1 TTTGGATTTTA
18633881 AAGGTTTTAG
Statistics
Matches: 178, Mismatches: 27, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
14 1 0.01
15 72 0.40
16 90 0.51
17 15 0.08
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.49
Consensus pattern (15 bp):
TTTGGATTTTAGGAT
Found at i:18633689 original size:31 final size:30
Alignment explanation
Indices: 18633651--18633880 Score: 228
Period size: 31 Copynumber: 7.4 Consensus size: 30
18633641 GATTTAAAGG
*
18633651 TTTGGATTTTAGGAATTTTGGATTTTAGGGT
1 TTTGGATTTTAGG-GTTTTGGATTTTAGGGT
18633682 TTTGGATTTTAGAGGTTTTGGATTTTAAGGG-
1 TTTGGATTTTAG-GGTTTTGGATTTT-AGGGT
* * *
18633713 TTTAGATTTAAGGGATTTTGGATTTAAGGGAT
1 TTTGGATTTTAGGG-TTTTGGATTTTAGGG-T
18633745 TTTGGATTTTAGGGTTTTGGATTTTAGAGGT
1 TTTGGATTTTAGGGTTTTGGATTTTAG-GGT
* * * *
18633776 TTTGGATTTTAGGGGTTTAGATTTAAAGGAT
1 TTTGGATTTTAGGGTTTTGGATTT-TAGGGT
** **
18633807 TTTGGATTTTAGGGGTTTCAGATTTTAGAAT
1 TTTGGATTTTA-GGGTTTTGGATTTTAGGGT
* **
18633838 TTTGGATTTTAAGACTTTGGATTTTAGGGGAT
1 TTTGGATTTTAGGGTTTTGGATTTTA-GGG-T
18633870 TTTGGATTTTA
1 TTTGGATTTTA
18633881 AAGGTTTTAG
Statistics
Matches: 167, Mismatches: 22, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
30 16 0.10
31 107 0.64
32 44 0.26
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.49
Consensus pattern (30 bp):
TTTGGATTTTAGGGTTTTGGATTTTAGGGT
Found at i:18633747 original size:78 final size:78
Alignment explanation
Indices: 18633634--18633863 Score: 340
Period size: 78 Copynumber: 3.0 Consensus size: 78
18633624 TTTGAGGTTT
*
18633634 GGGTTTAGATTTAAAGG--TTTGGATTTTAGGAATTTTGGATTTTAGGGTTTTGGATTTTAGAGG
1 GGGTTTAGATTTAAAGGATTTTGGATTTTAGGGATTTTGGATTTTAGGGTTTTGGATTTTAGAGG
18633697 TTTTGGATTTTAA
66 TTTTGGATTTTAA
* *
18633710 GGGTTTAGATTTAAGGGATTTTGGATTTAAGGGATTTTGGATTTTAGGGTTTTGGATTTTAGAGG
1 GGGTTTAGATTTAAAGGATTTTGGATTTTAGGGATTTTGGATTTTAGGGTTTTGGATTTTAGAGG
*
18633775 TTTTGGATTTTAG
66 TTTTGGATTTTAA
* ** ** *
18633788 GGGTTTAGATTTAAAGGATTTTGGATTTTAGGGGTTTCAGATTTTAGAATTTTGGATTTTA-AGA
1 GGGTTTAGATTTAAAGGATTTTGGATTTTAGGGATTTTGGATTTTAGGGTTTTGGATTTTAGAGG
*
18633852 CTTTGGATTTTA
66 TTTTGGATTTTA
18633864 GGGGATTTTG
Statistics
Matches: 139, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
76 16 0.12
77 13 0.09
78 110 0.79
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.48
Consensus pattern (78 bp):
GGGTTTAGATTTAAAGGATTTTGGATTTTAGGGATTTTGGATTTTAGGGTTTTGGATTTTAGAGG
TTTTGGATTTTAA
Found at i:18633830 original size:23 final size:23
Alignment explanation
Indices: 18633804--18633867 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
18633794 AGATTTAAAG
*
18633804 GATTTTGGATTTTAGGGGTTTCA
1 GATTTTGGATTTTAGGGGTTTAA
* **
18633827 GATTTTAGAATTTT-GGATTTTAA
1 GATTTT-GGATTTTAGGGGTTTAA
*
18633850 GACTTTGGATTTTAGGGG
1 GATTTTGGATTTTAGGGG
18633868 ATTTTGGATT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
22 6 0.19
23 19 0.61
24 6 0.19
ACGTcount: A:0.22, C:0.03, G:0.28, T:0.47
Consensus pattern (23 bp):
GATTTTGGATTTTAGGGGTTTAA
Found at i:18634330 original size:24 final size:21
Alignment explanation
Indices: 18634303--18634347 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
18634293 CTTAAAATAA
18634303 CAAAAATAATAATATAAAAAAATT
1 CAAAAATAA-AA-A-AAAAAAATT
18634327 CAAAAATAAAAAAAAAAAATT
1 CAAAAATAAAAAAAAAAAATT
18634348 TTTTTACCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.43
22 1 0.05
23 2 0.10
24 9 0.43
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (21 bp):
CAAAAATAAAAAAAAAAAATT
Found at i:18635240 original size:11 final size:11
Alignment explanation
Indices: 18635224--18635256 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
18635214 AGGGGATCTA
18635224 GGTGGCTGTAG
1 GGTGGCTGTAG
18635235 GGTGGCTGTA-
1 GGTGGCTGTAG
*
18635245 GGTAGCTGTAG
1 GGTGGCTGTAG
18635256 G
1 G
18635257 CTGGTGAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.12, C:0.09, G:0.52, T:0.27
Consensus pattern (11 bp):
GGTGGCTGTAG
Found at i:18635252 original size:10 final size:10
Alignment explanation
Indices: 18635222--18635256 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
18635212 AAAGGGGATC
18635222 TAGGTGGCTG
1 TAGGTGGCTG
18635232 TAGGGTGGCTG
1 TA-GGTGGCTG
*
18635243 TAGGTAGCTG
1 TAGGTGGCTG
18635253 TAGG
1 TAGG
18635257 CTGGTGAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.14, C:0.09, G:0.49, T:0.29
Consensus pattern (10 bp):
TAGGTGGCTG
Found at i:18635392 original size:3 final size:3
Alignment explanation
Indices: 18635386--18635433 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
18635376 TATTTTTTTA
* * ** *
18635386 ATT ATT ATT ATT ATT ATC AAT ATT ATT ATT AAA ATT ATT AAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18635434 GTGAAATGAA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:18635410 original size:21 final size:21
Alignment explanation
Indices: 18635386--18635433 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
18635376 TATTTTTTTA
**
18635386 ATTATTATTATTATTATCAAT
1 ATTATTATTAAAATTATCAAT
*
18635407 ATTATTATTAAAATTATTAAT
1 ATTATTATTAAAATTATCAAT
18635428 ATTATT
1 ATTATT
18635434 GTGAAATGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATTATTAAAATTATCAAT
Found at i:18635424 original size:15 final size:16
Alignment explanation
Indices: 18635367--18635431 Score: 66
Period size: 15 Copynumber: 4.2 Consensus size: 16
18635357 TTTTTATATA
18635367 ATTAATAATTATT-TT
1 ATTAATAATTATTATT
* *
18635382 TTTAATTATTATTATT
1 ATTAATAATTATTATT
18635398 ATT-ATCAA-TATTATT
1 ATTAAT-AATTATTATT
*
18635413 ATTAA-AATTATTAAT
1 ATTAATAATTATTATT
18635428 ATTA
1 ATTA
18635432 TTGTGAAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
14 2 0.05
15 33 0.80
16 6 0.15
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTAATAATTATTATT
Found at i:18635727 original size:88 final size:88
Alignment explanation
Indices: 18635578--18635747 Score: 259
Period size: 88 Copynumber: 1.9 Consensus size: 88
18635568 AAACACAAAA
* * * * * *
18635578 CGATTGGGATGACACTGTAAGTCAAAAAATAATGAATCGATCGAGATAATATCACGAATCAAATT
1 CGATTCGGATAACACTGGAAGTCAAAAAATAAAGAATCGATCGAGATAACACCACGAATCAAATT
18635643 TATGCCCAGAGGTCTTACAGAAT
66 TATGCCCAGAGGTCTTACAGAAT
* *
18635666 CGATTCGGATAACACTGGAAGTTAAAAAATAAAGAATCGATCGTGATAACACCACGAATCAAATT
1 CGATTCGGATAACACTGGAAGTCAAAAAATAAAGAATCGATCGAGATAACACCACGAATCAAATT
*
18635731 TATGCCTAGAGGTCTTA
66 TATGCCCAGAGGTCTTA
18635748 GACATCATGC
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 73 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (88 bp):
CGATTCGGATAACACTGGAAGTCAAAAAATAAAGAATCGATCGAGATAACACCACGAATCAAATT
TATGCCCAGAGGTCTTACAGAAT
Found at i:18635808 original size:110 final size:110
Alignment explanation
Indices: 18635644--18635857 Score: 270
Period size: 110 Copynumber: 1.9 Consensus size: 110
18635634 AATCAAATTT
** *
18635644 ATGCCCAGAGGTCTTACAGAATCGATTCGGATAACACTGGAAGTTAAAAAATAAAGAATCGATCG
1 ATGCCCAGAGGTCTTACAGAATCGATTCGGATAACACTACAAGTCAAAAAATAAAGAATCGATCG
* * *
18635709 TGATAACACCACGAATCAAATTTATGCCTAGAGGTCTTAGACATC
66 AGATAACACCACAAATCAAATTTATGCCCAGAGGTCTTAGACATC
* * *
18635754 ATGCCC-GAAGGTCTTATAGAATCGATTGGGATAACA-TCACAAGTCAAAAGATAAAGAATCGAT
1 ATGCCCAG-AGGTCTTACAGAATCGATTCGGATAACACT-ACAAGTCAAAAAATAAAGAATCGAT
* * * * *
18635817 TGAGATAACATCGCAAATCGAATTTATGCCCGGAGGTCTTA
64 CGAGATAACACCACAAATCAAATTTATGCCCAGAGGTCTTA
18635858 TAGAATCAAC
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
109 2 0.02
110 86 0.98
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (110 bp):
ATGCCCAGAGGTCTTACAGAATCGATTCGGATAACACTACAAGTCAAAAAATAAAGAATCGATCG
AGATAACACCACAAATCAAATTTATGCCCAGAGGTCTTAGACATC
Found at i:18635910 original size:86 final size:88
Alignment explanation
Indices: 18635754--18635945 Score: 282
Period size: 86 Copynumber: 2.2 Consensus size: 88
18635744 CTTAGACATC
* * * *
18635754 ATGCCCGAAGGTCTTATAGAATCGATTGGGATAACATCACAAGTCAAAAGATAAAGAATCGATTG
1 ATGCCCGAAGGTCTTATAGAATCAACTGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCG
18635819 AGATAACA-TCGCAAATCGAATTT
66 AGATAACACT-GCAAATCGAATTT
*
18635842 ATGCCCGGAGGTCTTATAGAATCAACT-GGATAACACCACAAGT-AAAAGATAAAGAATCGATCG
1 ATGCCCGAAGGTCTTATAGAATCAACTGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCG
* *
18635905 GGATAACACTGCGAATCGAATTT
66 AGATAACACTGCAAATCGAATTT
*
18635928 ATGCTCGAAGGTCTTATA
1 ATGCCCGAAGGTCTTATA
18635946 CATCATGCCT
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
86 54 0.57
87 16 0.17
88 24 0.26
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (88 bp):
ATGCCCGAAGGTCTTATAGAATCAACTGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCG
AGATAACACTGCAAATCGAATTT
Found at i:18635973 original size:196 final size:198
Alignment explanation
Indices: 18635596--18636053 Score: 602
Period size: 196 Copynumber: 2.3 Consensus size: 198
18635586 ATGACACTGT
* * * * * *
18635596 AAGTCAAAAAATAATGAATCGATCGAGATAATATCACGAATCAAATTTATGCCCAGAGGTCTTAC
1 AAGTCAAAAAATAAAGAATCGATTGAGATAACATCGCGAATCGAATTTATGCCCGGAGGTCTTAC
* * *** *
18635661 AGAATCGATTCGGATAACACTGGAAGTTAAAAAATAAAGAATCGATCGTGATAACACCACGAATC
66 AGAATCAACTCGGATAACACCACAAGTTAAAAAATAAAGAATCGATCGGGATAACACCACGAATC
* * * * *
18635726 AAATTTATGCCTAGAGGTCTTAGACATCATGCCCGAAGGTCTTATAGAATCGATTGGGATAACAT
131 AAATTTATGCCGAGAGGTCTTAGACATCATGCCCGAAGGTCTTACAGAATCGATTAGAATAACAC
18635791 CAC
196 CAC
* * *
18635794 AAGTCAAAAGATAAAGAATCGATTGAGATAACATCGCAAATCGAATTTATGCCCGGAGGTCTTAT
1 AAGTCAAAAAATAAAGAATCGATTGAGATAACATCGCGAATCGAATTTATGCCCGGAGGTCTTAC
* **
18635859 AGAATCAACT-GGATAACACCACAAG-TAAAAGATAAAGAATCGATCGGGATAACACTGCGAATC
66 AGAATCAACTCGGATAACACCACAAGTTAAAAAATAAAGAATCGATCGGGATAACACCACGAATC
* * *
18635922 GAATTTATGCTCGA-AGGTCTTATACATCATGCCTGGAA-GTCTTACAGAATCGATTAGAATAAC
131 AAATTTATGC-CGAGAGGTCTTAGACATCATGCC-CGAAGGTCTTACAGAATCGATTAGAATAAC
18635985 ACCAC
194 ACCAC
* *
18635990 AAGTCAAAAAATAAAGAATCGA-TCAGGATAACACCGCGAATCGAATTTATGCCCGGAGGTCTTA
1 AAGTCAAAAAATAAAGAATCGATTGA-GATAACATCGCGAATCGAATTTATGCCCGGAGGTCTTA
18636054 GAAATCATGC
Statistics
Matches: 227, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
195 2 0.01
196 144 0.63
197 17 0.07
198 64 0.28
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (198 bp):
AAGTCAAAAAATAAAGAATCGATTGAGATAACATCGCGAATCGAATTTATGCCCGGAGGTCTTAC
AGAATCAACTCGGATAACACCACAAGTTAAAAAATAAAGAATCGATCGGGATAACACCACGAATC
AAATTTATGCCGAGAGGTCTTAGACATCATGCCCGAAGGTCTTACAGAATCGATTAGAATAACAC
CAC
Found at i:18636029 original size:110 final size:109
Alignment explanation
Indices: 18635842--18636082 Score: 340
Period size: 110 Copynumber: 2.2 Consensus size: 109
18635832 AATCGAATTT
* * * * * * *
18635842 ATGCCCGGAGGTCTTATAGAATCAACT-GGATAACACCACAAGTAAAAGATAAAGAATCGATCGG
1 ATGCCCGGAAGTCTTACAGAATCGATTAGAATAACACCACAAGTAAAAAATAAAGAATCGATCAG
* * * *
18635906 GATAACACTGCGAATCGAATTTATGCTCGAAGGTCTTATACATC
66 GATAACACCGCGAATCGAATTTATGCCCGAAGGTCTTAGAAATC
*
18635950 ATGCCTGGAAGTCTTACAGAATCGATTAGAATAACACCACAAGTCAAAAAATAAAGAATCGATCA
1 ATGCCCGGAAGTCTTACAGAATCGATTAGAATAACACCACAAGT-AAAAAATAAAGAATCGATCA
*
18636015 GGATAACACCGCGAATCGAATTTATGCCCGGAGGTCTTAGAAATC
65 GGATAACACCGCGAATCGAATTTATGCCCGAAGGTCTTAGAAATC
*
18636060 ATGCCCGGAAGTCTTATAGAATC
1 ATGCCCGGAAGTCTTACAGAATC
18636083 ATGCCCGAAG
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
108 22 0.19
109 15 0.13
110 79 0.68
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (109 bp):
ATGCCCGGAAGTCTTACAGAATCGATTAGAATAACACCACAAGTAAAAAATAAAGAATCGATCAG
GATAACACCGCGAATCGAATTTATGCCCGAAGGTCTTAGAAATC
Found at i:18636066 original size:22 final size:22
Alignment explanation
Indices: 18636038--18636102 Score: 94
Period size: 23 Copynumber: 2.9 Consensus size: 22
18636028 AATCGAATTT
18636038 ATGCCCGGAGGTCTTAGAAATC
1 ATGCCCGGAGGTCTTAGAAATC
* *
18636060 ATGCCCGGAAGTCTTATAGAATC
1 ATGCCCGGAGGTCTTAGA-AATC
*
18636083 ATGCCCGAAGGTCTTAGAAA
1 ATGCCCGGAGGTCTTAGAAA
18636103 ATCGACTAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 18 0.49
23 19 0.51
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.23
Consensus pattern (22 bp):
ATGCCCGGAGGTCTTAGAAATC
Found at i:18636086 original size:23 final size:22
Alignment explanation
Indices: 18636038--18636102 Score: 87
Period size: 22 Copynumber: 2.9 Consensus size: 22
18636028 AATCGAATTT
*
18636038 ATGCCCGGAGGTCTTAGAAATC
1 ATGCCCGGAAGTCTTAGAAATC
*
18636060 ATGCCCGGAAGTCTTATAGAATC
1 ATGCCCGGAAGTCTTAGA-AATC
18636083 ATGCCC-GAAGGTCTTAGAAA
1 ATGCCCGGAA-GTCTTAGAAA
18636103 ATCGACTAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 21 0.55
23 17 0.45
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.23
Consensus pattern (22 bp):
ATGCCCGGAAGTCTTAGAAATC
Found at i:18636137 original size:133 final size:133
Alignment explanation
Indices: 18635936--18636370 Score: 524
Period size: 133 Copynumber: 3.3 Consensus size: 133
18635926 TTATGCTCGA
* * * *
18635936 AGGTCTTATA-CATCATGCCTGGAA-GTCTTACAGAATCGATTAGAATAACACCACAAGTCAAAA
1 AGGTCTTATAGAATCATGCC-CGAAGGTCTTACAAAATCGAATAGAATAACACCACAAGTCAAAA
* *
18635999 AATAAAGAATCGATCAGGATAACACCGCGAATCGAATTTATGCCCGGAGGTCTTAGAAATCATGC
65 GATAAAGAATCGATCAGGATAACACCGCAAATCGAATTTATGCCCGGAGGTCTTAGAAATCATGC
18636064 CCGG
130 CCGG
* * * *
18636068 AAGTCTTATAGAATCATGCCCGAAGGTCTTAGAAAATCGACTAGGATAACACCACAAGTCAAAAG
1 AGGTCTTATAGAATCATGCCCGAAGGTCTTACAAAATCGAATAGAATAACACCACAAGTCAAAAG
* * *
18636133 ATAAAGAATCGATC-GGAATAACACCGTAAATCGAATTTATGCCCAGAGGTCTTAGACATCATGC
66 ATAAAGAATCGATCAGG-ATAACACCGCAAATCGAATTTATGCCCGGAGGTCTTAGAAATCATGC
18636197 CCGG
130 CCGG
* * * *
18636201 AGGTCTTATAGAATCATGTCC-AGAGGTCTTACAGAATC-AATTGAAATAACACCACAAGTTAAA
1 AGGTCTTATAGAATCATGCCCGA-AGGTCTTACAAAATCGAATAG-AATAACACCACAAGTCAAA
* * * * * * *
18636264 AGATAAAAAATTGATCAGAATAACATCGCAAATCGAATTTAT-CCTCGGAGCTTTTAAAAATCAT
64 AGATAAAGAATCGATCAGGATAACACCGCAAATCGAATTTATGCC-CGGAGGTCTTAGAAATCAT
*
18636328 GCTCGG
128 GCCCGG
* * *
18636334 AGGTCTTACAGAATCATGCTCGAAGGTATTA-AAAATC
1 AGGTCTTATAGAATCATGCCCGAAGGTCTTACAAAATC
18636371 ATGCCTGGAG
Statistics
Matches: 259, Mismatches: 36, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
132 25 0.10
133 232 0.90
134 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (133 bp):
AGGTCTTATAGAATCATGCCCGAAGGTCTTACAAAATCGAATAGAATAACACCACAAGTCAAAAG
ATAAAGAATCGATCAGGATAACACCGCAAATCGAATTTATGCCCGGAGGTCTTAGAAATCATGCC
CGG
Found at i:18636226 original size:23 final size:23
Alignment explanation
Indices: 18636171--18636239 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
18636161 AATCGAATTT
18636171 ATGCCCAGAGGTC-T-TAGACATC
1 ATGCCCAGAGGTCTTATAGA-ATC
*
18636193 ATGCCCGGAGGTCTTATAGAATC
1 ATGCCCAGAGGTCTTATAGAATC
* *
18636216 ATGTCCAGAGGTCTTACAGAATC
1 ATGCCCAGAGGTCTTATAGAATC
18636239 A
1 A
18636240 ATTGAAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
22 12 0.29
23 25 0.61
24 4 0.10
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (23 bp):
ATGCCCAGAGGTCTTATAGAATC
Found at i:18636335 original size:22 final size:22
Alignment explanation
Indices: 18636307--18636382 Score: 82
Period size: 22 Copynumber: 3.4 Consensus size: 22
18636297 CGAATTTATC
* *
18636307 CTCGGAGCTTTTAAAAATCATG
1 CTCGGAGGTATTAAAAATCATG
* *
18636329 CTCGGAGGTCTTACAGAATCATG
1 CTCGGAGGTATTA-AAAATCATG
*
18636352 CTCGAAGGTATTAAAAATCATG
1 CTCGGAGGTATTAAAAATCATG
18636374 C-CTGGAGGT
1 CTC-GGAGGT
18636383 CTTACAGAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
21 1 0.02
22 25 0.56
23 19 0.42
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (22 bp):
CTCGGAGGTATTAAAAATCATG
Found at i:18636351 original size:23 final size:23
Alignment explanation
Indices: 18636322--18636392 Score: 92
Period size: 23 Copynumber: 3.1 Consensus size: 23
18636312 AGCTTTTAAA
18636322 AATCATGCTCGGAGGTCTTACAG
1 AATCATGCTCGGAGGTCTTACAG
* * *
18636345 AATCATGCTCGAAGGTATTA-AA
1 AATCATGCTCGGAGGTCTTACAG
18636367 AATCATGC-CTGGAGGTCTTACAG
1 AATCATGCTC-GGAGGTCTTACAG
18636390 AAT
1 AAT
18636393 TAATCGAAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 1 0.03
22 17 0.43
23 22 0.55
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (23 bp):
AATCATGCTCGGAGGTCTTACAG
Found at i:18636508 original size:176 final size:178
Alignment explanation
Indices: 18636190--18636527 Score: 403
Period size: 176 Copynumber: 1.9 Consensus size: 178
18636180 GGTCTTAGAC
* *
18636190 ATCATGCCCGGAGGTCTTATAGAATCATGTCCAGAGGTCTTACAGAATCAATTGAAATAACACCA
1 ATCATGCCCGGAGGTCTTACAGAATCATATCCAGAGGTCTTACAGAATCAATTGAAATAACACCA
* * * * *
18636255 CAAGTTAAAAGATAAAAAATTGATCAGAATAACATCGCAAATCGAATTTATCCTCGGAGCTTTTA
66 CAAGTCAAAAAATAAAAAATCGATCAGAATAACATCGCAAATCAAATTTATCCTCGGAGCTCTTA
*
18636320 AAAATCATGCTCGGAGGTCTTACAGAATCATGCTCGAAGGTATTAAAA
131 AAAATCATGCTCGGAGGTCTTACAAAATCATGCTCGAAGGTATTAAAA
* * * * *
18636368 ATCATGCCTGGAGGTCTTACAGAATTA-ATCGA-AGGTTTTACAGAATCGATT-AAGATAACACC
1 ATCATGCCCGGAGGTCTTACAGAATCATATCCAGAGGTCTTACAGAATCAATTGAA-ATAACACC
* * * * ** * *
18636430 ATAAGTCAAAAAATAAAGAATCGATCGGGATAACATCGTGAATCAAATTTATGCTCGGAGGTCTT
65 ACAAGTCAAAAAATAAAAAATCGATCAGAATAACATCGCAAATCAAATTTATCCTCGGAGCTCTT
* * * * * *
18636495 GAAAGTTATGCTCGGGGGTTTTAGAAAATCATG
130 AAAAATCATGCTCGGAGGTCTTACAAAATCATG
18636528 TCCGGAGGTC
Statistics
Matches: 132, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
175 2 0.02
176 103 0.78
177 3 0.02
178 24 0.18
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (178 bp):
ATCATGCCCGGAGGTCTTACAGAATCATATCCAGAGGTCTTACAGAATCAATTGAAATAACACCA
CAAGTCAAAAAATAAAAAATCGATCAGAATAACATCGCAAATCAAATTTATCCTCGGAGCTCTTA
AAAATCATGCTCGGAGGTCTTACAAAATCATGCTCGAAGGTATTAAAA
Found at i:18636647 original size:309 final size:309
Alignment explanation
Indices: 18636088--18636652 Score: 672
Period size: 309 Copynumber: 1.8 Consensus size: 309
18636078 GAATCATGCC
* * *
18636088 CGAAGGTCTTAGAAAATCGACTAGGATAACACCACAAGTCAAAAGATAAAGAATCGATCGGAATA
1 CGAAGGTCTTACAAAATCGACTAAGATAACACCACAAGTCAAAAAATAAAGAATCGATCGGAATA
* * * *
18636153 ACACCGTAAATCGAATTTATGCCCAGAGGTCTTAGACATCATGCCCGGAGGTCTTATAGAATCAT
66 ACACCGTAAATCAAATTTATGCCCAGAGGTCTTAGAAATCATGCCCGGAGGTCTTAGAAAATCAT
* * *
18636218 GTCCAGAGGTCTTACAGAATCAATTGAAATAACACCACAAGTTAAAAGATAAAAAATTGATCAGA
131 GTCCAGAGGTCTTACAGAATCAATCGAAATAACACCACAAGTCAAAAGATAAAAAATCGATCAGA
* * * *
18636283 ATAACATCGCAAATCGAATTTATCCTCGGAGCTTTTAAAAATCATGCTCGGAGGTCTTACAGAAT
196 ATAACATCGCAAATCAAAATTATCCTCGAAGCTCTTAAAAATCATGCTCGGAGGTCTTACAGAAT
18636348 CATGCTCGAAGGTATTAAAAATCATGCCTGGAGGTCTTACAGAATTAAT
261 CATGCTCGAAGGTATTAAAAATCATGCCTGGAGGTCTTACAGAATTAAT
* * * * *
18636397 CGAAGGTTTTACAGAATCGATTAAGATAACACCATAAGTCAAAAAATAAAGAATCGATCGGGATA
1 CGAAGGTCTTACAAAATCGACTAAGATAACACCACAAGTCAAAAAATAAAGAATCGATCGGAATA
* * * * * * * *
18636462 ACATCGTGAATCAAATTTATGCTCGGAGGTCTT-GAAAGTTATGCTCGGGGGTTTTAGAAAATCA
66 ACACCGTAAATCAAATTTATGCCCAGAGGTCTTAGAAA-TCATGCCCGGAGGTCTTAGAAAATCA
* * ** ** * * * *
18636526 TGTCCGGAGGTCTTATAGAATTGATCGGGATAACATCGCAAGTCAAGA-ATAAAGAATCGATCA-
130 TGTCCAGAGGTCTTACAGAATCAATCGAAATAACACCACAAGTCAAAAGATAAAAAATCGATCAG
* ** * *
18636589 AGATAACATTGTGAATCAAAATTATGCCT-GAAAG-TCTTAGAGAATCATGTTCGGAGGTCTTAC
195 A-ATAACATCGCAAATCAAAATTAT-CCTCG-AAGCTCTTA-AAAATCATGCTCGGAGGTCTTAC
18636652 A
256 A
18636653 AAATTGATCA
Statistics
Matches: 209, Mismatches: 42, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
307 1 0.00
308 39 0.19
309 169 0.81
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (309 bp):
CGAAGGTCTTACAAAATCGACTAAGATAACACCACAAGTCAAAAAATAAAGAATCGATCGGAATA
ACACCGTAAATCAAATTTATGCCCAGAGGTCTTAGAAATCATGCCCGGAGGTCTTAGAAAATCAT
GTCCAGAGGTCTTACAGAATCAATCGAAATAACACCACAAGTCAAAAGATAAAAAATCGATCAGA
ATAACATCGCAAATCAAAATTATCCTCGAAGCTCTTAAAAATCATGCTCGGAGGTCTTACAGAAT
CATGCTCGAAGGTATTAAAAATCATGCCTGGAGGTCTTACAGAATTAAT
Found at i:18636667 original size:110 final size:109
Alignment explanation
Indices: 18636515--18636986 Score: 459
Period size: 110 Copynumber: 4.3 Consensus size: 109
18636505 CTCGGGGGTT
* * * *
18636515 TTAGAAAATCATGTCCGGAGGTCTTATAGAATTGATCGGGATAACATCGCAAGTC-AAGAATAAA
1 TTAG-AAATCATGTTCGGAGGTCTTACAGAATCGATCGGGATAACACCGCAAGTCAAAG-ATAAA
* ** *
18636579 GAATCGATCAAGATAACATTGTGAATCAAAATTATGCCTGAAAGTC
64 GAATCGATCGAGATAACACCGCGAATCAAAATTATGCCTGAAAGTC
* * *
18636625 TTAGAGAATCATGTTCGGAGGTCTTACAAAATTGATCAGGATAACACCGCAAGTC-AAGAATAAA
1 TTAGA-AATCATGTTCGGAGGTCTTACAGAATCGATCGGGATAACACCGCAAGTCAAAG-ATAAA
* * * *
18636689 GAATCAATTGAGATAACACCACGAATCAAAATTATGCCTGAAGGTC
64 GAATCGATCGAGATAACACCGCGAATCAAAATTATGCCTGAAAGTC
* * * * * * *
18636735 TTAGAAATCATG-TCTGAAAGTCTTACAGAATCGTTTGGGATAACATCGTAAGTTGAAAGATAAA
1 TTAGAAATCATGTTC-GGAGGTCTTACAGAATCGATCGGGATAACACCGCAAG-TCAAAGATAAA
* * * * * * * *
18636799 AAATCGATTGGGATAATATCGCGAATCGAATTTATGCTTGAAAGTC
64 GAATCGATCGAGATAACACCGCGAATCAAAATTATGCCTGAAAGTC
* * *
18636845 TTAGAAATCATGCTCAGAGGTCTTACAGAATCGA-CTGGGATAACACCGTAAGTCGAAAGATAAA
1 TTAGAAATCATGTTCGGAGGTCTTACAGAATCGATC-GGGATAACACCGCAAGTC-AAAGATAAA
* * * * * * *
18636909 TAATTGATCGAGATAACACCGTGAATCGAAATTATG-CTCGGAGGTT
64 GAATCGATCGAGATAACACCGCGAATCAAAATTATGCCT-GAAAGTC
*
18636955 TTAGAAATCATGTTCGAAGGTCTTACAGAATC
1 TTAGAAATCATGTTCGGAGGTCTTACAGAATC
18636987 ATGTCTAAAG
Statistics
Matches: 299, Mismatches: 55, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
108 2 0.01
109 38 0.13
110 254 0.85
111 5 0.02
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (109 bp):
TTAGAAATCATGTTCGGAGGTCTTACAGAATCGATCGGGATAACACCGCAAGTCAAAGATAAAGA
ATCGATCGAGATAACACCGCGAATCAAAATTATGCCTGAAAGTC
Found at i:18636742 original size:22 final size:22
Alignment explanation
Indices: 18636717--18636759 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18636707 CCACGAATCA
* *
18636717 AAATTATGCCTGAAGGTCTTAG
1 AAATCATGCCTGAAAGTCTTAG
*
18636739 AAATCATGTCTGAAAGTCTTA
1 AAATCATGCCTGAAAGTCTTA
18636760 CAGAATCGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (22 bp):
AAATCATGCCTGAAAGTCTTAG
Found at i:18636965 original size:220 final size:219
Alignment explanation
Indices: 18636495--18636986 Score: 546
Period size: 220 Copynumber: 2.2 Consensus size: 219
18636485 CGGAGGTCTT
* * * * *
18636495 GAAAGTTATGCTCGGGGGTTTTAGAAAATCATGTCCGGAGGTCTTATAGAATTGATCGGGATAAC
1 GAAA-TTATGCTCGGAGGTTTTAG-AAATCATGTCTGAAGGTCTTACAGAATCGATCGGGATAAC
* * * *
18636560 ATCGCAAGTCAAGAATAAAGAATCGATCAAGATAACATTGTGAATCAAAATTATGCCTGAAAGTC
64 ATCGCAAGTAAAGAATAAAAAATCGATCAAGATAACATCGCGAATCAAAATTATGCCTGAAAGTC
* * *
18636625 TTAGAGAATCATGTTCGGAGGTCTTACAAAATTGATCAGGATAACACCGCAAGTCAAGAATAAAG
129 TTAGAGAATCATGCTCAGAGGTCTTACAAAATCGATCAGGATAACACCGCAAGTCAAGAATAAAG
*
18636690 AATCAATTGAGATAACACCACGAATC
194 AATCAATCGAGATAACACCACGAATC
* * * * * *
18636716 AAAATTATGC-CTGAAGGTCTTAGAAATCATGTCTGAAAGTCTTACAGAATCGTTTGGGATAACA
1 GAAATTATGCTC-GGAGGTTTTAGAAATCATGTCTGAAGGTCTTACAGAATCGATCGGGATAACA
* *** * * * *
18636780 TCGTAAGTTGAAAG-ATAAAAAATCGATTGGGATAATATCGCGAATCGAATTTATGCTTGAAAGT
65 TCGCAAG-T-AAAGAATAAAAAATCGATCAAGATAACATCGCGAATCAAAATTATGCCTGAAAGT
* * *
18636844 CTTAGA-AATCATGCTCAGAGGTCTTACAGAATCGA-CTGGGATAACACCGTAAGTCGAA-AGAT
128 CTTAGAGAATCATGCTCAGAGGTCTTACAAAATCGATC-AGGATAACACCGCAAGTC-AAGA-AT
* ** **
18636906 AAATAATTGATCGAGATAACACCGTGAATC
190 AAAGAATCAATCGAGATAACACCACGAATC
18636936 GAAATTATGCTCGGAGGTTTTAGAAATCATGT-TCGAAGGTCTTACAGAATC
1 GAAATTATGCTCGGAGGTTTTAGAAATCATGTCT-GAAGGTCTTACAGAATC
18636987 ATGTCTAAAG
Statistics
Matches: 224, Mismatches: 39, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
218 1 0.00
219 84 0.38
220 132 0.59
221 7 0.03
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (219 bp):
GAAATTATGCTCGGAGGTTTTAGAAATCATGTCTGAAGGTCTTACAGAATCGATCGGGATAACAT
CGCAAGTAAAGAATAAAAAATCGATCAAGATAACATCGCGAATCAAAATTATGCCTGAAAGTCTT
AGAGAATCATGCTCAGAGGTCTTACAAAATCGATCAGGATAACACCGCAAGTCAAGAATAAAGAA
TCAATCGAGATAACACCACGAATC
Found at i:18636975 original size:22 final size:22
Alignment explanation
Indices: 18636936--18636990 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
18636926 ACCGTGAATC
* * * *
18636936 GAAATTATGCTCGGAGGTTTTA
1 GAAATCATGTTCGAAGGTCTTA
18636958 GAAATCATGTTCGAAGGTCTTA
1 GAAATCATGTTCGAAGGTCTTA
*
18636980 CAGAATCATGT
1 GA-AATCATGT
18636991 CTAAAGGTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.33
Consensus pattern (22 bp):
GAAATCATGTTCGAAGGTCTTA
Found at i:18637037 original size:132 final size:134
Alignment explanation
Indices: 18636832--18637118 Score: 368
Period size: 132 Copynumber: 2.2 Consensus size: 134
18636822 AATCGAATTT
* * * * **
18636832 ATGCTTGAAAGTCTTAGA-AATCATG-CTCAGAGGTCTTACAGAATCGACTGGGATAACACCGTA
1 ATGCTCGAAGGTCTTACAGAATCATGTCT-AAAGGTCTTACAGAATCGACTGGGATAACACCACA
* * * * * * * *
18636895 AGTCGAAAGATAAATAATTGATCGA-GATAACACCGTGAATCGAAATTATGCTCGGAGGTTTTAG
65 AGTCAAAAGATAAAGAATCGAT-GAGGATAACACCGCGAATCGAAATTATGCCCAGAGGTCTTAC
18636959 A-AATC
129 AGAATC
*
18636964 ATGTTCGAAGGTCTTACAGAATCATGTCTAAAGGTCTTACAGAATCGACT-GGATAACACCACAA
1 ATGCTCGAAGGTCTTACAGAATCATGTCTAAAGGTCTTACAGAATCGACTGGGATAACACCACAA
*
18637028 GTCAAAAGATAAAGAATCGATTAGGATAACACCGCGAATCGAAATTATGCCCAGAGGTCTTACAG
66 GTCAAAAGATAAAGAATCGATGAGGATAACACCGCGAATCGAAATTATGCCCAGAGGTCTTACAG
18637093 AATC
131 AATC
*
18637097 ATGCTCGGAGGTCTTACAGAAT
1 ATGCTCGAAGGTCTTACAGAAT
18637119 GAACCGGGAT
Statistics
Matches: 133, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
131 1 0.01
132 79 0.59
133 51 0.38
134 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (134 bp):
ATGCTCGAAGGTCTTACAGAATCATGTCTAAAGGTCTTACAGAATCGACTGGGATAACACCACAA
GTCAAAAGATAAAGAATCGATGAGGATAACACCGCGAATCGAAATTATGCCCAGAGGTCTTACAG
AATC
Found at i:18637072 original size:110 final size:110
Alignment explanation
Indices: 18636972--18637227 Score: 288
Period size: 110 Copynumber: 2.3 Consensus size: 110
18636962 TCATGTTCGA
*
18636972 AGGTCTTACAGAATCATG-TCTAAAGGTCTTACAGAATCG-A-CTGGATAACACCACAAGTCAAA
1 AGGTCTTACAGAATCATGCTC-AAAGGTCTTACAGAAT-GAACCGGGATAACACCACAAGTCAAA
* *
18637034 AGATAAAGAATCGAT-TAGGATAACACCGCGAATCGAAATTATGCCCAG
64 A-ATAAAGAATCAATCT-GGATAACACCGCGAATCGAAATCATGCCCAG
** * *
18637082 AGGTCTTACAGAATCATGCTCGGAGGTCTTACAGAATGAACCGGGATAACATCATAAGTCAAAAA
1 AGGTCTTACAGAATCATGCTCAAAGGTCTTACAGAATGAACCGGGATAACACCACAAGTCAAAAA
* * ** * *
18637147 TAAAGAATCAATCTGGATAACACAGTGAATTAAAATTATACCCAG
66 TAAAGAATCAATCTGGATAACACCGCGAATCGAAATCATGCCCAG
* * * *
18637192 AGGTCTTA-AAAATCATGCCCGAAGGTCTTATAGAAT
1 AGGTCTTACAGAATCATGCTCAAAGGTCTTACAGAAT
18637228 CATATCCGGA
Statistics
Matches: 127, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
109 25 0.20
110 79 0.62
111 23 0.18
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (110 bp):
AGGTCTTACAGAATCATGCTCAAAGGTCTTACAGAATGAACCGGGATAACACCACAAGTCAAAAA
TAAAGAATCAATCTGGATAACACCGCGAATCGAAATCATGCCCAG
Found at i:18637217 original size:22 final size:23
Alignment explanation
Indices: 18637177--18637244 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
18637167 CACAGTGAAT
*
18637177 TAAAATTATACCC-AGAGGTCTTA
1 TAAAATCATACCCGA-AGGTCTTA
*
18637200 -AAAATCATGCCCGAAGGTCTTA
1 TAAAATCATACCCGAAGGTCTTA
* * *
18637222 TAGAATCATATCCGGAGGTCTTA
1 TAAAATCATACCCGAAGGTCTTA
18637245 GAGATTATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
22 18 0.49
23 19 0.51
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (23 bp):
TAAAATCATACCCGAAGGTCTTA
Found at i:18637240 original size:23 final size:22
Alignment explanation
Indices: 18637178--18637244 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
18637168 ACAGTGAATT
* *
18637178 AAAATTATACCCAGAGGTCTTA
1 AAAATCATACCCGGAGGTCTTA
* *
18637200 AAAATCATGCCCGAAGGTCTTA
1 AAAATCATACCCGGAGGTCTTA
* *
18637222 TAGAATCATATCCGGAGGTCTTA
1 -AAAATCATACCCGGAGGTCTTA
18637245 GAGATTATGC
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
22 18 0.50
23 18 0.50
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (22 bp):
AAAATCATACCCGGAGGTCTTA
Found at i:18637243 original size:242 final size:243
Alignment explanation
Indices: 18636716--18637244 Score: 593
Period size: 242 Copynumber: 2.2 Consensus size: 243
18636706 ACCACGAATC
* * * * **
18636716 AAAATTATGCCTGAAGGTCTTAGA-AATCATGTCTGAAAGTCTTACAGAATCGTTTGGGATAACA
1 AAAATCATGCCCGAAGGTCTTACAGAATCATGTCTGAAGGTCTTACAGAATCGACTGGGATAACA
* ** ** * * * * **
18636780 TCGTAAGTTGAAAGATAAAAAATCGATTGGGATAATATCGCGAATCGAATTTATGCTTGAAAGTC
66 CCACAAGTCAAAAGATAAAAAATCGATTAGGATAACACCGCGAATCGAAATTATGCCAGAAAGTC
* * * * *
18636845 TTAGAAATCATGCTCAGAGGTCTTACAGAATCGACTGGGATAACACCGTAAGTCGAAAGATAAAT
131 TTACAAATCATGCTCAGAGGTCTTACAGAATCGACCGGGATAACACCATAAGTCGAAAAATAAAG
** * * * * * *
18636910 AATTGATCGAGATAACACCGTGAATCGAAATTATGCTCGGAGGTTTTA
196 AATCAATCGAGATAACACAGTGAATCAAAATTATACCCAGAGGTCTTA
* ** *
18636958 GAAATCATGTTCGAAGGTCTTACAGAATCATGTCTAAAGGTCTTACAGAATCGACT-GGATAACA
1 AAAATCATGCCCGAAGGTCTTACAGAATCATGTCTGAAGGTCTTACAGAATCGACTGGGATAACA
* *
18637022 CCACAAGTCAAAAGATAAAGAATCGATTAGGATAACACCGCGAATCGAAATTATGCCCAG-AGGT
66 CCACAAGTCAAAAGATAAAAAATCGATTAGGATAACACCGCGAATCGAAATTATG-CCAGAAAGT
* *
18637086 CTTACAGAATCATGCTCGGAGGTCTTACAGAAT-GAACCGGGATAACATCATAAGTC-AAAAATA
130 CTTACA-AATCATGCTCAGAGGTCTTACAGAATCG-ACCGGGATAACACCATAAGTCGAAAAATA
*
18637149 AAGAATCAATCTG-GATAACACAGTGAATTAAAATTATACCCAGAGGTCTTA
193 AAGAATCAATC-GAGATAACACAGTGAATCAAAATTATACCCAGAGGTCTTA
* * * *
18637200 AAAATCATGCCCGAAGGTCTTATAGAATCATATCCGGAGGTCTTA
1 AAAATCATGCCCGAAGGTCTTACAGAATCATGTCTGAAGGTCTTA
18637245 GAGATTATGC
Statistics
Matches: 235, Mismatches: 47, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
242 162 0.69
243 73 0.31
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.25
Consensus pattern (243 bp):
AAAATCATGCCCGAAGGTCTTACAGAATCATGTCTGAAGGTCTTACAGAATCGACTGGGATAACA
CCACAAGTCAAAAGATAAAAAATCGATTAGGATAACACCGCGAATCGAAATTATGCCAGAAAGTC
TTACAAATCATGCTCAGAGGTCTTACAGAATCGACCGGGATAACACCATAAGTCGAAAAATAAAG
AATCAATCGAGATAACACAGTGAATCAAAATTATACCCAGAGGTCTTA
Found at i:18637562 original size:41 final size:41
Alignment explanation
Indices: 18637517--18637603 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
18637507 TTCTGAATAA
*
18637517 GGTTCCCTCTAAACAAAGGCTTTGAAATCTTGATTGA-AATT
1 GGTTCCCTCTAAACAAAGGCTTTGAAATCTGGATTGAGAA-T
** * *
18637558 GGTTCTTTTTAAACAGAGGCTTTGAAATCTGGATTGAGAAT
1 GGTTCCCTCTAAACAAAGGCTTTGAAATCTGGATTGAGAAT
18637599 GGTTC
1 GGTTC
18637604 TTCTTAAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 38 0.95
42 2 0.05
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (41 bp):
GGTTCCCTCTAAACAAAGGCTTTGAAATCTGGATTGAGAAT
Found at i:18637604 original size:41 final size:41
Alignment explanation
Indices: 18637526--18637621 Score: 140
Period size: 41 Copynumber: 2.3 Consensus size: 41
18637516 AGGTTCCCTC
* * *
18637526 TAAACAAAGGCTTTGAAATCTTGATTGAAATTGGTTCTTTT
1 TAAACAGAGGCTTTGAAATCTGGATTGAAATTGGTTCTTCT
18637567 TAAACAGAGGCTTTGAAATCTGGATTGAGAA-TGGTTCTTCT
1 TAAACAGAGGCTTTGAAATCTGGATTGA-AATTGGTTCTTCT
*
18637608 TAAACAGAGACTTT
1 TAAACAGAGGCTTT
18637622 AAAACTTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 48 0.96
42 2 0.04
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.36
Consensus pattern (41 bp):
TAAACAGAGGCTTTGAAATCTGGATTGAAATTGGTTCTTCT
Found at i:18639933 original size:9 final size:9
Alignment explanation
Indices: 18639921--18639964 Score: 70
Period size: 9 Copynumber: 4.8 Consensus size: 9
18639911 TTTTTTCCTT
18639921 TTTTTTTTA
1 TTTTTTTTA
18639930 TTTTTTTTA
1 TTTTTTTTA
*
18639939 CTTTTTTTA
1 TTTTTTTTA
18639948 TTTTTTTTTA
1 -TTTTTTTTA
18639958 TTTTTTT
1 TTTTTTT
18639965 AAGTTACTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 24 0.75
10 8 0.25
ACGTcount: A:0.09, C:0.02, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:18639936 original size:21 final size:20
Alignment explanation
Indices: 18639910--18639965 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
18639900 AAAAGAAAAC
* *
18639910 TTTTTTTCCTTTTTTTTTTAT
1 TTTTTTTACTTTTTTTATT-T
18639931 TTTTTTTACTTTTTTTA-TT
1 TTTTTTTACTTTTTTTATTT
18639950 TTTTTTTA-TTTTTTTA
1 TTTTTTTACTTTTTTTA
18639966 AGTTACTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 8 0.24
19 9 0.27
20 1 0.03
21 15 0.45
ACGTcount: A:0.09, C:0.05, G:0.00, T:0.86
Consensus pattern (20 bp):
TTTTTTTACTTTTTTTATTT
Found at i:18645977 original size:16 final size:16
Alignment explanation
Indices: 18645956--18645986 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18645946 TTAGGGTTTT
18645956 GATTTTAGAGTTTGGA
1 GATTTTAGAGTTTGGA
*
18645972 GATTTTAGGGTTTGG
1 GATTTTAGAGTTTGG
18645987 GTTTTGAGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.45
Consensus pattern (16 bp):
GATTTTAGAGTTTGGA
Found at i:18645997 original size:14 final size:15
Alignment explanation
Indices: 18645980--18646008 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18645970 GAGATTTTAG
18645980 GGTTT-GGGTTTTGA
1 GGTTTGGGGTTTTGA
18645994 GGTTTGGGGTTTTGA
1 GGTTTGGGGTTTTGA
18646009 TTTAAGGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.07, C:0.00, G:0.45, T:0.48
Consensus pattern (15 bp):
GGTTTGGGGTTTTGA
Found at i:18646043 original size:16 final size:16
Alignment explanation
Indices: 18646024--18646161 Score: 122
Period size: 16 Copynumber: 8.8 Consensus size: 16
18646014 GGGTTTGAAC
18646024 TTTAGGGATTTTGGAT
1 TTTAGGGATTTTGGAT
*
18646040 TTTAGGG-TTTTAGAT
1 TTTAGGGATTTTGGAT
*
18646055 TTTAGAGG-TTTTAGAT
1 TTTAG-GGATTTTGGAT
* *
18646071 TTTAGGG-GTTAGGAT
1 TTTAGGGATTTTGGAT
*
18646086 TTAAGGGATTTTGGAT
1 TTTAGGGATTTTGGAT
* * *
18646102 ATTAGGGGTTTCGGAT
1 TTTAGGGATTTTGGAT
* *
18646118 TTTA-GAATTTTTGAT
1 TTTAGGGATTTTGGAT
*
18646133 TTTAGGGGATTTTGAAT
1 TTTA-GGGATTTTGGAT
*
18646150 TTTAGGGGTTTT
1 TTTAGGGATTTT
18646162 AGAAACCTAG
Statistics
Matches: 98, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
15 36 0.37
16 50 0.51
17 12 0.12
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.49
Consensus pattern (16 bp):
TTTAGGGATTTTGGAT
Found at i:18646049 original size:51 final size:51
Alignment explanation
Indices: 18645942--18646042 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 51
18645932 AGGATATGAA
* * *
18645942 AGGTTTAGGGTTTTGATTTTAGAGTTTGGAGATTTTAGGGTTTGGGTTTTG
1 AGGTTTAGGGTTTTGATTTAAGAGTTTGGAGACTTTAGGGTTTGGATTTTG
* *
18645993 AGGTTTGGGGTTTTGATTTAAGGGTTT-GA-ACTTTAGGGATTTTGGATTTT
1 AGGTTTAGGGTTTTGATTTAAGAGTTTGGAGACTTTAGGG--TTTGGATTTT
18646043 AGGGTTTTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
49 8 0.19
50 2 0.05
51 33 0.77
ACGTcount: A:0.17, C:0.01, G:0.34, T:0.49
Consensus pattern (51 bp):
AGGTTTAGGGTTTTGATTTAAGAGTTTGGAGACTTTAGGGTTTGGATTTTG
Found at i:18646055 original size:15 final size:15
Alignment explanation
Indices: 18646000--18646164 Score: 104
Period size: 16 Copynumber: 10.7 Consensus size: 15
18645990 TTGAGGTTTG
*
18646000 GGGTTTT-GATTTAA
1 GGGTTTTAGATTTTA
* *
18646014 GGGTTTGA-ACTTTA
1 GGGTTTTAGATTTTA
*
18646028 GGGATTTTGGATTTTA
1 GGG-TTTTAGATTTTA
18646044 GGGTTTTAGATTTTA
1 GGGTTTTAGATTTTA
18646059 GAGGTTTTAGATTTTA
1 G-GGTTTTAGATTTTA
* *
18646075 GGG-GTTAGGATTTAA
1 GGGTTTTA-GATTTTA
* *
18646090 GGGATTTTGGATATTA
1 GGG-TTTTAGATTTTA
**
18646106 GGGGTTTCGGATTTTA
1 -GGGTTTTAGATTTTA
** *
18646122 GAATTTTTGATTTTA
1 GGGTTTTAGATTTTA
18646137 GGGGATTTT-GAATTTTA
1 -GGG-TTTTAG-ATTTTA
18646154 GGGGTTTTAGA
1 -GGGTTTTAGA
18646165 AACCTAGGAT
Statistics
Matches: 118, Mismatches: 21, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
14 16 0.14
15 37 0.31
16 45 0.38
17 20 0.17
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (15 bp):
GGGTTTTAGATTTTA
Found at i:18646072 original size:31 final size:30
Alignment explanation
Indices: 18646000--18646164 Score: 104
Period size: 31 Copynumber: 5.3 Consensus size: 30
18645990 TTGAGGTTTG
* * *
18646000 GGGTTTT-GATTTAAGGGTTTGA-ACTTTA
1 GGGTTTTAGATTTTAGGGTTTTAGATTTTA
*
18646028 GGGATTTTGGATTTTAGGGTTTTAGATTTTA
1 GGG-TTTTAGATTTTAGGGTTTTAGATTTTA
* *
18646059 GAGGTTTTAGATTTTAGGG-GTTAGGATTTAA
1 G-GGTTTTAGATTTTAGGGTTTTA-GATTTTA
* * **
18646090 GGGATTTTGGATATTAGGGGTTTCGGATTTTA
1 GGG-TTTTAGATTTTA-GGGTTTTAGATTTTA
** *
18646122 GAATTTTTGATTTTAGGGGATTTT-GAATTTTA
1 GGGTTTTAGATTTTA-GGG-TTTTAG-ATTTTA
18646154 GGGGTTTTAGA
1 -GGGTTTTAGA
18646165 AACCTAGGAT
Statistics
Matches: 106, Mismatches: 20, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
28 3 0.03
29 4 0.04
30 18 0.17
31 52 0.49
32 21 0.20
33 8 0.08
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (30 bp):
GGGTTTTAGATTTTAGGGTTTTAGATTTTA
Found at i:18646112 original size:47 final size:47
Alignment explanation
Indices: 18646036--18646164 Score: 125
Period size: 47 Copynumber: 2.7 Consensus size: 47
18646026 TAGGGATTTT
* * * **
18646036 GGATTTTAGGG-TTTTAGATTTTAGAGGTTTTAGATTTTAGGGGTTA
1 GGATTTAAGGGATTTTGGATTTTAGGGGTTTTAGATTTTAGAAGTTA
* ** * *
18646082 GGATTTAAGGGATTTTGGATATTAGGGGTTTCGGATTTTAGAATTTT
1 GGATTTAAGGGATTTTGGATTTTAGGGGTTTTAGATTTTAGAAGTTA
* * *
18646129 TGATTTTAGGGGATTTTGAATTTTAGGGGTTTTAGA
1 GGA-TTTAAGGGATTTTGGATTTTAGGGGTTTTAGA
18646165 AACCTAGGAT
Statistics
Matches: 65, Mismatches: 16, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
46 10 0.15
47 28 0.43
48 27 0.42
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (47 bp):
GGATTTAAGGGATTTTGGATTTTAGGGGTTTTAGATTTTAGAAGTTA
Found at i:18646960 original size:12 final size:12
Alignment explanation
Indices: 18646943--18646967 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18646933 GTTTCAGAAA
18646943 AAAGAGAGAGAG
1 AAAGAGAGAGAG
18646955 AAAGAGAGAGAG
1 AAAGAGAGAGAG
18646967 A
1 A
18646968 GCTTTGGGGG
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:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (12 bp):
AAAGAGAGAGAG
Found at i:18647631 original size:8 final size:8
Alignment explanation
Indices: 18647618--18647658 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
18647608 CCCTACTTTC
18647618 TGTTTTTT
1 TGTTTTTT
18647626 TGTTTTTT
1 TGTTTTTT
*
18647634 TATTTTTT
1 TGTTTTTT
*
18647642 TATTTTTT
1 TGTTTTTT
18647650 TGTTTTTT
1 TGTTTTTT
18647658 T
1 T
18647659 ATATAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.05, C:0.00, G:0.07, T:0.88
Consensus pattern (8 bp):
TGTTTTTT
Found at i:18647677 original size:3 final size:3
Alignment explanation
Indices: 18647671--18647732 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
18647661 ATAATTAATA
* * *
18647671 ATT ATT ATT -TT TTT AATT ATT ATT ATT ATT ATC AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** *
18647716 AAA ATT ATT AAT ATT AT
1 ATT ATT ATT ATT ATT AT
18647733 AGTGAAATAA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.91
4 2 0.04
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:18647686 original size:18 final size:18
Alignment explanation
Indices: 18647664--18647732 Score: 68
Period size: 18 Copynumber: 3.6 Consensus size: 18
18647654 TTTTTATATA
18647664 ATTAATAATTATTATT-TT
1 ATTAAT-ATTATTATTATT
*
18647682 TTTAATTATTATTATTATT
1 ATTAA-TATTATTATTATT
*
18647701 ATCAATATTATTATTAAAATT
1 ATTAATATTATTATT---ATT
18647722 ATTAATATTAT
1 ATTAATATTAT
18647733 AGTGAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 23 0.55
19 6 0.14
21 13 0.31
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTAATATTATTATTATT
Found at i:18648134 original size:101 final size:107
Alignment explanation
Indices: 18648002--18648286 Score: 325
Period size: 101 Copynumber: 2.7 Consensus size: 107
18647992 GAAAATTTTG
* ** * ** *
18648002 ATATTTCAACTTTTTCCTCAATTTTTAAAATTATTTTTGTTTAATAAAAAATGATATTTTAACTA
1 ATATTTCAATTTTTTCCTCTTTTTTTAAAATTATTTTTGTTTAAGAAAATTTGATATTTTAACTT
*
18648067 TTTCCTCATTTTTT-ATTT-TTGTT-T-TAAG-GAAAAATTA
66 TTTCCTCATTTTTTAATTTATTGTTCTCTAAGAAAAAAATTA
* *
18648104 ATATTTC-ATTTTTTCCTCTTTTTTTGAAATT-TTTTTGTTTAAGAAAATTTTAATATTTTAACT
1 ATATTTCAATTTTTTCCTCTTTTTTTAAAATTATTTTTGTTTAAGAAAA-TTTGATATTTTAACT
* * *
18648167 TTTTTCTCTTTTTTTAAATTTATTTTTCTCTAAGAAAAAAATTA
65 TTTTCCTCATTTTTT-AATTTATTGTTCTCTAAGAAAAAAATTA
* *
18648211 ATATTTCAACTTTTTT-CTCATTTTTTAAAAAATTATTTTTGTTTAAGGAAAATTTGATAATTTA
1 ATATTTCAA-TTTTTTCCTC-TTTTTT-TAAAATTATTTTTGTTTAA-GAAAATTTGATATTTTA
18648275 ACTTTTTCCTCA
62 ACTTTTTCCTCA
18648287 AATTATGAAA
Statistics
Matches: 151, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
100 15 0.10
101 44 0.29
102 7 0.05
103 4 0.03
104 4 0.03
105 1 0.01
106 4 0.03
107 15 0.10
108 4 0.03
109 12 0.08
110 5 0.03
111 31 0.21
112 5 0.03
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.55
Consensus pattern (107 bp):
ATATTTCAATTTTTTCCTCTTTTTTTAAAATTATTTTTGTTTAAGAAAATTTGATATTTTAACTT
TTTCCTCATTTTTTAATTTATTGTTCTCTAAGAAAAAAATTA
Found at i:18648263 original size:55 final size:54
Alignment explanation
Indices: 18647987--18648428 Score: 241
Period size: 54 Copynumber: 8.2 Consensus size: 54
18647977 GAAATTTAAT
* * **
18647987 TTTAA-GAAAATTTTGATATTTCAACTTTTTCCTCAATTTTTAAAATTATTTTTG
1 TTTAAGGAAAA-TTTAATATTTCAACTTTTTTCTCTTTTTTTAAAATTATTTTTG
* ** * * * * * *
18648041 TTTAA-TAAAAAATGATATTTTAACTATTTCCTCATTTTTT---ATT-TTTGT-
1 TTTAAGGAAAATTTAATATTTCAACTTTTTTCTCTTTTTTTAAAATTATTTTTG
* *
18648089 TTTAAGGAAAAATTAATATTTC-A-TTTTTTCCTCTTTTTTTGAAATT-TTTTTG
1 TTTAAGGAAAATTTAATATTTCAACTTTTTT-CTCTTTTTTTAAAATTATTTTTG
* * *
18648141 TTTAA-GAAAATTTTAATATTTTAACTTTTTTCTCTTTTTTTAAATTTATTTTTC
1 TTTAAGGAAAA-TTTAATATTTCAACTTTTTTCTCTTTTTTTAAAATTATTTTTG
* * * *
18648195 TCTAAGAAAAAAATTAATATTTCAACTTTTTTCTCATTTTTTAAAAAATTATTTTTG
1 TTTAAG-GAAAATTTAATATTTCAACTTTTTTCTC-TTTTTT-TAAAATTATTTTTG
* * *** * * **
18648252 TTTAAGGAAAATTTGATAATTT-AACTTTTTCCTCAAATTATGAAATTATTTTCA
1 TTTAAGGAAAATTTAAT-ATTTCAACTTTTTTCTCTTTTTTTAAAATTATTTTTG
* * ** * * *
18648306 TTTGAA-GAAAATTTGATACTTCAA-TTTTTTCCTCAAATTTTGAAATTTATTTTTTATT
1 TTT-AAGGAAAATTTAATATTTCAACTTTTTT-CTC-TTTTTTTAAAATTA--TTTT-TG
* * * * *
18648364 TTTAA-GAAAAATTAATATTTTAACTTTTTTCT-TACATTTTTGAAATTATTATTG
1 TTTAAGGAAAATTTAATATTTCAACTTTTTTCTCT--TTTTTTAAAATTATTTTTG
18648418 TTTTAAGGAAA
1 -TTTAAGGAAA
18648429 TAAAAAAAAA
Statistics
Matches: 302, Mismatches: 59, Indels: 52
0.73 0.14 0.13
Matches are distributed among these distances:
47 4 0.01
48 15 0.05
49 16 0.05
50 3 0.01
51 12 0.04
52 14 0.05
53 48 0.16
54 54 0.18
55 42 0.14
56 33 0.11
57 52 0.17
58 9 0.03
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.54
Consensus pattern (54 bp):
TTTAAGGAAAATTTAATATTTCAACTTTTTTCTCTTTTTTTAAAATTATTTTTG
Found at i:18648279 original size:56 final size:53
Alignment explanation
Indices: 18648002--18648281 Score: 227
Period size: 53 Copynumber: 5.3 Consensus size: 53
18647992 GAAAATTTTG
* ** * * *
18648002 ATATTTCAACTTTTTCCTCAATTTTTAAAATTATTTTTGTTTAA-TAAAAAATG
1 ATATTT-AACTTTTTTCTCTTTTTTTAAAATTATTTTTGTTTAAGGAAAAATTA
* * * *
18648055 ATATTTTAACTATTTCCTCATTTTTT---ATT-TTTGT-TTTAAGGAAAAATTA
1 ATA-TTTAACTTTTTTCTCTTTTTTTAAAATTATTTTTGTTTAAGGAAAAATTA
* * *
18648104 ATATTTCA-TTTTTTCCTCTTTTTTTGAAATT-TTTTTGTTTAA-GAAAATTTTA
1 ATATTTAACTTTTTT-CTCTTTTTTTAAAATTATTTTTGTTTAAGGAAAA-ATTA
* * * *
18648156 ATATTTTAACTTTTTTCTCTTTTTTTAAATTTATTTTTCTCTAAGAAAAAAATTA
1 ATA-TTTAACTTTTTTCTCTTTTTTTAAAATTATTTTTGTTTAAG-GAAAAATTA
* * *
18648211 ATATTTCAACTTTTTTCTCATTTTTTAAAAAATTATTTTTGTTTAAGGAAAATTTG
1 ATATTT-AACTTTTTTCTC-TTTTTT-TAAAATTATTTTTGTTTAAGGAAAAATTA
18648267 ATAATTTAACTTTTT
1 AT-ATTTAACTTTTT
18648282 CCTCAAATTA
Statistics
Matches: 184, Mismatches: 26, Indels: 31
0.76 0.11 0.13
Matches are distributed among these distances:
47 4 0.02
48 18 0.10
49 13 0.07
50 3 0.02
51 12 0.07
52 11 0.06
53 38 0.21
54 21 0.11
55 18 0.10
56 26 0.14
57 20 0.11
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (53 bp):
ATATTTAACTTTTTTCTCTTTTTTTAAAATTATTTTTGTTTAAGGAAAAATTA
Found at i:18648761 original size:19 final size:19
Alignment explanation
Indices: 18648737--18648781 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
18648727 ACAATTAGGA
18648737 AATCTTGTCGGAACTTGGG
1 AATCTTGTCGGAACTTGGG
*
18648756 AATCTTGTCGGAATTTGGG
1 AATCTTGTCGGAACTTGGG
*
18648775 AGTCTTG
1 AATCTTG
18648782 CCAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.13, G:0.31, T:0.36
Consensus pattern (19 bp):
AATCTTGTCGGAACTTGGG
Found at i:18658966 original size:22 final size:23
Alignment explanation
Indices: 18658941--18658993 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
18658931 AAAGTAAACG
18658941 TTATTTA-AAATTT-TAATAAAAA
1 TTATTTATAAATTTATAA-AAAAA
*
18658963 TTATATATAAATTTAGTAAAAAAA
1 TTATTTATAAATTTA-TAAAAAAA
18658987 TT-TTTAT
1 TTATTTAT
18658994 GTAACATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 6 0.23
23 10 0.38
24 7 0.27
25 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TTATTTATAAATTTATAAAAAAA
Found at i:18659310 original size:2 final size:2
Alignment explanation
Indices: 18659303--18659330 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18659293 ACAGACAGAA
18659303 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
18659331 TAATGATGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18667242 original size:24 final size:24
Alignment explanation
Indices: 18667210--18667256 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
18667200 TATTTCAAAA
*
18667210 TTTCCTTTTATT-TTCTTATTTTCC
1 TTTCATTTTATTCTTCTT-TTTTCC
*
18667234 TTTCATTTTCTTCTTCTTTTTTC
1 TTTCATTTTATTCTTCTTTTTTC
18667257 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTCATTTTATTCTTCTTTTTTCC
Found at i:18671116 original size:28 final size:28
Alignment explanation
Indices: 18671059--18671118 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
18671049 ATATATATAT
* *
18671059 AAATTAAAAATAAAAATTATACATATTA
1 AAATTAAAAATAAAAATTAAACATAATA
* **
18671087 AAATTTAAAATAAAAATTAAATTTAATA
1 AAATTAAAAATAAAAATTAAACATAATA
18671115 AAAT
1 AAAT
18671119 ATATAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (28 bp):
AAATTAAAAATAAAAATTAAACATAATA
Found at i:18671531 original size:24 final size:24
Alignment explanation
Indices: 18671492--18671560 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
18671482 AGTTTGAATT
* *
18671492 TTATTTTCT-TAAAAGAGAATATC-
1 TTATTTTGTATAAAAGA-AAAATCG
18671515 TTATTTTGTATAAAAGAAAAATCG
1 TTATTTTGTATAAAAGAAAAATCG
*
18671539 TAATTTTGTGATAAAA-AAAAAT
1 TTATTTTGT-ATAAAAGAAAAAT
18671561 TATAGATGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
23 13 0.32
24 21 0.52
25 6 0.15
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.39
Consensus pattern (24 bp):
TTATTTTGTATAAAAGAAAAATCG
Found at i:18673654 original size:16 final size:17
Alignment explanation
Indices: 18673630--18673666 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
18673620 TTAAAAATAT
*
18673630 TATATTAAAATTTAT-A
1 TATAATAAAATTTATAA
18673646 TATAATAAAATTTATAA
1 TATAATAAAATTTATAA
18673663 TATA
1 TATA
18673667 TATCTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATAATAAAATTTATAA
Found at i:18674565 original size:76 final size:75
Alignment explanation
Indices: 18674389--18674597 Score: 237
Period size: 75 Copynumber: 2.8 Consensus size: 75
18674379 AGCTATGATT
* * * * * *
18674389 AAAAACATGATTTTTATTAAAAATATGAAAAAAAATTATTTGTCAAAATTCAA-CAAAAATGACA
1 AAAAATATGATTTTTGTTAAAAATATGAAAAAAAATTATTTTTTAAAATT-AATCAAAGACGACA
18674453 TTATTAAAATA
65 TTATTAAAATA
* * * **
18674464 AAAAATATGGTTTTTG-TAAAGAATATGAAAAAAAATTATTTTTTAGAATTGATCAAAGACGATG
1 AAAAATATGATTTTTGTTAAA-AATATGAAAAAAAATTATTTTTTAAAATTAATCAAAGACGACA
*
18674528 TTTTTAAAATAA
65 TTATTAAAAT-A
* *
18674540 AAAAATATAATTTTTGTTAAAAATATGAAAAAATA-TATTTTTTAAAATTAAT-AAAGAC
1 AAAAATATGATTTTTGTTAAAAATATGAAAAAAAATTATTTTTTAAAATTAATCAAAGAC
18674598 TTAAGATAAA
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
74 11 0.10
75 70 0.62
76 28 0.25
77 4 0.04
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (75 bp):
AAAAATATGATTTTTGTTAAAAATATGAAAAAAAATTATTTTTTAAAATTAATCAAAGACGACAT
TATTAAAATA
Found at i:18683601 original size:59 final size:62
Alignment explanation
Indices: 18683468--18683629 Score: 224
Period size: 59 Copynumber: 2.7 Consensus size: 62
18683458 TGCTTTTATA
* * * *
18683468 CAAGAAAAATTGGTACTTTCAACTTTTCCTTAAAA-ATATTTTTCTTGATAATTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTCTTGATAATTTTTAATTT
* * *
18683529 TAAGAAAAATTGATACTTCCAACTTTTTCTCAAAATATTTTTTTC-TGA-AA-TTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTCTTGATAATTTTTAATTT
*
18683588 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTT
18683630 GAAAATTTTT
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
59 46 0.52
60 2 0.02
61 33 0.37
62 8 0.09
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (62 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTCTTGATAATTTTTAATTT
Found at i:18683653 original size:14 final size:15
Alignment explanation
Indices: 18683626--18683658 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
18683616 CTCAAAATGT
*
18683626 TTTTGAAAATTTTTA
1 TTTTGAAAAATTTTA
18683641 TTTT-AAAAATTTTA
1 TTTTGAAAAATTTTA
18683655 TTTT
1 TTTT
18683659 TAAGAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTTGAAAAATTTTA
Found at i:18683666 original size:130 final size:132
Alignment explanation
Indices: 18683520--18683780 Score: 368
Period size: 130 Copynumber: 2.0 Consensus size: 132
18683510 TCTTGATAAT
* *
18683520 TTTTATTTTTAAGAAAAATTGATACTTCCAACTTTTTC-TC-AAAATATTTTTTTCTGAAATTTT
1 TTTTATTTTTAAGAAAAATTGATACTTCCAACTTTTCCTTCAAAAATA-TTTTTT-AGAAATTTT
* * *
18683583 AATTTCAAGAAAAATTGATACTTTCAACTTTTCCTC-AAAAT-GTTTTTGAAAATTTTTATTTTA
64 AATTTCAAGAAAAATTGATAATTTCAACTTTTCCTCAAAAATAGTTTTTAAAAAATTTTATTTTA
18683646 AAAA
129 AAAA
* * * **
18683650 TTTTATTTTTAAGAAAAATTTATACTTTCAACTTTTCCTTTAAAAATATTTTTTAGAAATTTTGT
1 TTTTATTTTTAAGAAAAATTGATACTTCCAACTTTTCCTTCAAAAATATTTTTTAGAAATTTTAA
* *
18683715 TTTCGAGAAAAATTGATAATTTCAACTTTTCCTCAAAAATATTTTTTAAAAAATTTTATTTTAAA
66 TTTCAAGAAAAATTGATAATTTCAACTTTTCCTCAAAAATAGTTTTTAAAAAATTTTATTTTAAA
18683780 A
131 A
18683781 TAAAATTGAT
Statistics
Matches: 115, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
130 75 0.65
131 12 0.10
132 28 0.24
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (132 bp):
TTTTATTTTTAAGAAAAATTGATACTTCCAACTTTTCCTTCAAAAATATTTTTTAGAAATTTTAA
TTTCAAGAAAAATTGATAATTTCAACTTTTCCTCAAAAATAGTTTTTAAAAAATTTTATTTTAAA
AA
Found at i:18683711 original size:59 final size:59
Alignment explanation
Indices: 18683641--18683896 Score: 302
Period size: 59 Copynumber: 4.3 Consensus size: 59
18683631 AAAATTTTTA
* *
18683641 TTTTAAAAATTTTATTTTTAAGAAAAATTTATACTTTCAACTTTTCCTTTAAAAAT-ATT
1 TTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCC-TCAAAAATAATT
* * ** *
18683700 TTTTAGAAATTTTGTTTTCGAGAAAAATTGATAATTTCAACTTTTCCTCAAAAAT-ATT
1 TTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAATT
* * *
18683758 TTTTAAAAAATTTTA-TTTTAAAATAAAATTGATACTTTCAATTTTTTCTCAAAATATAATT
1 TTTT-AAAAATTTTATTTTTAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAA-ATAATT
* * * * **
18683819 TTTAAAAAATTTTATTTTTAAGAAAAATTGATATTTTCAAATTTTCTTCAAAAATGCTTT
1 TTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-AATT
18683879 TTTTAAAAATTTTATTTT
1 TTTTAAAAATTTTATTTT
18683897 ATATTTTATA
Statistics
Matches: 167, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
58 19 0.11
59 78 0.47
60 57 0.34
61 13 0.08
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (59 bp):
TTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAATT
Found at i:18683752 original size:189 final size:191
Alignment explanation
Indices: 18683469--18683873 Score: 484
Period size: 189 Copynumber: 2.2 Consensus size: 191
18683459 GCTTTTATAC
* * *
18683469 AAGAAAAATTGGTACTTTCAACTTTTCCTTAAAAATATTTTTCTTGATAATTTTTATTTTTAAGA
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTCTAGATAATTTTTATTTTCAAGA
* * *** *
18683534 AAAATTGATACTTCCAACTTTTTCTC-AAAATATTTTTTTCTGAAATTTTAATTTCAAGA-AAAA
66 AAAATTGATAATTCCAACTTTTCCTCAAAAATA-TTTTTTAAAAAATTTT-ATTTCAAAATAAAA
18683597 TTGATACTTTCAACTTTTCCTCAAAATGTTTTTGAAAATTTTTATTTTAAAAATTTTATTTTT
129 TTGATACTTTCAACTTTTCCTCAAAATGTTTTTGAAAATTTTTATTTTAAAAATTTTATTTTT
* * *
18683660 AAGAAAAATTTATACTTTCAACTTTTCCTTTAAAAATATTTTT-TAGA-AA-TTTTGTTTTCGAG
1 AAGAAAAATTGATACTTTCAACTTTTCC-TTAAAAATATTTTTCTAGATAATTTTTATTTTCAAG
* *
18683722 AAAAATTGATAATTTCAACTTTTCCTCAAAAATATTTTTTAAAAAATTTTATTTTAAAATAAAAT
65 AAAAATTGATAATTCCAACTTTTCCTCAAAAATATTTTTTAAAAAATTTTATTTCAAAATAAAAT
* * *
18683787 TGATACTTTCAATTTTTTCTCAAAA------T-ATAATTTTTA----AAAAATTTTATTTTT
130 TGATACTTTCAACTTTTCCTCAAAATGTTTTTGAAAATTTTTATTTTAAAAATTTTATTTTT
* *
18683838 AAGAAAAATTGATATTTTCAAATTTT-CTTCAAAAAT
1 AAGAAAAATTGATACTTTCAACTTTTCCTT-AAAAAT
18683874 GCTTTTTTTA
Statistics
Matches: 190, Mismatches: 20, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
176 2 0.01
177 7 0.04
178 38 0.20
182 9 0.05
183 1 0.01
188 7 0.04
189 75 0.39
190 8 0.04
191 29 0.15
192 14 0.07
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.47
Consensus pattern (191 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTCTAGATAATTTTTATTTTCAAGA
AAAATTGATAATTCCAACTTTTCCTCAAAAATATTTTTTAAAAAATTTTATTTCAAAATAAAATT
GATACTTTCAACTTTTCCTCAAAATGTTTTTGAAAATTTTTATTTTAAAAATTTTATTTTT
Found at i:18684636 original size:23 final size:26
Alignment explanation
Indices: 18684610--18684663 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
18684600 TGAATTATGC
18684610 CTTTTATT-TTTT-GCTCTCTATTT-
1 CTTTTATTATTTTCGCTCTCTATTTG
* *
18684633 CTTTTTTTATTTTCTCTCTCTATTTG
1 CTTTTATTATTTTCGCTCTCTATTTG
18684659 CTTTT
1 CTTTT
18684664 TGTTTGTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.27
24 4 0.15
25 10 0.38
26 5 0.19
ACGTcount: A:0.07, C:0.19, G:0.04, T:0.70
Consensus pattern (26 bp):
CTTTTATTATTTTCGCTCTCTATTTG
Found at i:18684639 original size:25 final size:26
Alignment explanation
Indices: 18684611--18684664 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
18684601 GAATTATGCC
*
18684611 TTTTATTTTTTGCTCTCTATTT-CTTT
1 TTTTATTTTCT-CTCTCTATTTGCTTT
18684637 TTTTATTTTCTCTCTCTATTTGCTTT
1 TTTTATTTTCTCTCTCTATTTGCTTT
18684663 TT
1 TT
18684665 GTTTGTGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.07, C:0.17, G:0.04, T:0.72
Consensus pattern (26 bp):
TTTTATTTTCTCTCTCTATTTGCTTT
Found at i:18685317 original size:44 final size:44
Alignment explanation
Indices: 18685254--18685481 Score: 287
Period size: 44 Copynumber: 5.1 Consensus size: 44
18685244 TTTTTTAAAA
*
18685254 AAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACTTTG
1 AAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG
* *
18685298 AAAAAATAAACAAAGCTCCTCTAATCAAAGGTTCAACGACTTTG
1 AAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG
* * * * *
18685342 AAAAAATAAATAAAACTCTTCTAAT-ATGAGGCTCAATGACTTTTAA
1 AAAAAATAAACAAAGCTCCTCTAATCA-GAGGCTCAACGAC-TTT-G
* * * *
18685388 AAAAAAAAAACAAAACTCCTATAATCAGAGGCTCAAGGACTTTG
1 AAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG
* * *
18685432 GAAAAATAAACAAAGCTCTTCTAATCAGAGGCTCAACAACTTTG
1 AAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG
18685476 AAAAAA
1 AAAAAA
18685482 AATAAATTGC
Statistics
Matches: 156, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.01
44 115 0.74
45 6 0.04
46 33 0.21
47 1 0.01
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.22
Consensus pattern (44 bp):
AAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG
Found at i:18685429 original size:90 final size:90
Alignment explanation
Indices: 18685254--18685483 Score: 304
Period size: 90 Copynumber: 2.6 Consensus size: 90
18685244 TTTTTTAAAA
* * * *
18685254 AAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACAAC-TTT-GAAAAAATAAACAAAGCTCC
1 AAAAAATAAACAAAGCTCTTCTAATCAGAGGCTCAACAACTTTTAAAAAAAAAAAACAAAACTCC
* *
18685317 TCTAATCAAAGGTTCAACGACTTTG
66 TATAATCAAAGGCTCAACGACTTTG
* * **
18685342 AAAAAATAAATAAAACTCTTCTAAT-ATGAGGCTCAATGACTTTTAAAAAAAAAAAACAAAACTC
1 AAAAAATAAACAAAGCTCTTCTAATCA-GAGGCTCAACAACTTTTAAAAAAAAAAAACAAAACTC
* *
18685406 CTATAATCAGAGGCTCAAGGACTTTG
65 CTATAATCAAAGGCTCAACGACTTTG
* *
18685432 GAAAAATAAACAAAGCTCTTCTAATCAGAGGCTCAACAACTTTGAAAAAAAA
1 AAAAAATAAACAAAGCTCTTCTAATCAGAGGCTCAACAACTTTTAAAAAAAA
18685484 TAAATTGCTT
Statistics
Matches: 120, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
87 1 0.01
88 33 0.28
89 3 0.03
90 82 0.68
91 1 0.01
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.22
Consensus pattern (90 bp):
AAAAAATAAACAAAGCTCTTCTAATCAGAGGCTCAACAACTTTTAAAAAAAAAAAACAAAACTCC
TATAATCAAAGGCTCAACGACTTTG
Found at i:18685960 original size:114 final size:114
Alignment explanation
Indices: 18685830--18686198 Score: 623
Period size: 114 Copynumber: 3.2 Consensus size: 114
18685820 GTTCACATTT
18685830 AAGAAATCTTAGAGTTTCACATCTAAATTCAAAGGTTCTCACTAAAAAATTTAGAGATTCGCATC
1 AAGAAATCTTAGAGTTTCACATCTAAATTCAAAGGTTCTCACTAAAAAATTTAGAGATTCGCATC
*
18685895 CAAAAGTTGAGTTCAAAGCTTTTTGTTTGAATTTTGGAGATTCATAACC
66 CAAAAGTTGAGTTCAAAGCTTTTTGTTTGAATTTTGGAGATTCATATCC
*
18685944 AAGAAATCTTAGAGTTTCACATCTAAGTTCAAAGGTTCTCACTAAAAAATTTAGAGATTCGCATC
1 AAGAAATCTTAGAGTTTCACATCTAAATTCAAAGGTTCTCACTAAAAAATTTAGAGATTCGCATC
*
18686009 CAAAAGTTGAGTTCAAAGCTTTTTGTTTGAATTTTGGAGATTCACATCC
66 CAAAAGTTGAGTTCAAAGCTTTTTGTTTGAATTTTGGAGATTCATATCC
* * * * *
18686058 AAGAAATCTTAGAGTTTCACATCTAAGTTCAAAGGTTCTTACTCAAAAATTTAAAAATTCGCATC
1 AAGAAATCTTAGAGTTTCACATCTAAATTCAAAGGTTCTCACTAAAAAATTTAGAGATTCGCATC
* *
18686123 CAAAAGTTGAGTTCAAAG-TTTTTCATTTGAATTTTGGAAATTCATATCC
66 CAAAAGTTGAGTTCAAAGCTTTTT-GTTTGAATTTTGGAGATTCATATCC
*
18686172 AAGAAATCTTAGAGTTTCACATATAAA
1 AAGAAATCTTAGAGTTTCACATCTAAA
18686199 AGATTCTCAT
Statistics
Matches: 242, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
113 5 0.02
114 237 0.98
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (114 bp):
AAGAAATCTTAGAGTTTCACATCTAAATTCAAAGGTTCTCACTAAAAAATTTAGAGATTCGCATC
CAAAAGTTGAGTTCAAAGCTTTTTGTTTGAATTTTGGAGATTCATATCC
Found at i:18686242 original size:20 final size:21
Alignment explanation
Indices: 18686197--18686245 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
18686187 TTCACATATA
*
18686197 AAAGATTCTCATTTGAAATTT
1 AAAGATTCTCATTTGAAATTC
18686218 AAAGATTCTCATTT-AAATTC
1 AAAGATTCTCATTTGAAATTC
*
18686238 GAAGATTC
1 AAAGATTC
18686246 ACTTTTAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
AAAGATTCTCATTTGAAATTC
Found at i:18686389 original size:78 final size:79
Alignment explanation
Indices: 18686197--18686394 Score: 299
Period size: 79 Copynumber: 2.5 Consensus size: 79
18686187 TTCACATATA
* * * * * *
18686197 AAAGATTCTCATTTGAAATTTAAAGATTCTCATTTAAATTCGAAGATTCACTTTTAACAAATTTT
1 AAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAGTTCGAAGATTCACATTCAACAAATTTT
18686262 GGGTTTCACACCTT
66 GGGTTTCACACCTT
* *
18686276 AAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAGTTTGAAGATTCACATTCAATAAATTTT
1 AAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAGTTCGAAGATTCACATTCAACAAATTTT
18686341 GGGTTTCACACC-T
66 GGGTTTCACACCTT
* *
18686354 CAAGATTCTCATTTGAAACTCAAAGATTCACATTTGAGTTC
1 AAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAGTTC
18686395 AAAAATCCTC
Statistics
Matches: 108, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
78 39 0.36
79 69 0.64
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.38
Consensus pattern (79 bp):
AAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAGTTCGAAGATTCACATTCAACAAATTTT
GGGTTTCACACCTT
Found at i:18687523 original size:10 final size:10
Alignment explanation
Indices: 18687505--18687635 Score: 77
Period size: 10 Copynumber: 12.5 Consensus size: 10
18687495 TCAATTTAAG
*
18687505 TTTTCCTTTT
1 TTTTTCTTTT
18687515 TTTTTCTTTT
1 TTTTTCTTTT
*
18687525 ATTTTCATTTT
1 TTTTTC-TTTT
* *
18687536 CATTTT-TTCT
1 -TTTTTCTTTT
18687546 TTTTTCTTATT
1 TTTTTCTT-TT
18687557 TTTTCCTCTTTT
1 TTTT--TCTTTT
*
18687569 TCTTTTCTTTC
1 T-TTTTCTTTT
*
18687580 ATTTTCATTTT
1 TTTTTC-TTTT
* *
18687591 CTTTCCTTTT
1 TTTTTCTTTT
18687601 TTTCTT-TTTT
1 TTT-TTCTTTT
* **
18687611 TTTATCCATT
1 TTTTTCTTTT
18687621 TTTTTCTTTT
1 TTTTTCTTTT
18687631 TTTTT
1 TTTTT
18687636 TCTCTCATCT
Statistics
Matches: 93, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
9 5 0.05
10 51 0.55
11 22 0.24
12 8 0.09
13 7 0.08
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:18687570 original size:34 final size:33
Alignment explanation
Indices: 18687532--18687611 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
18687522 TTTATTTTCA
* * *
18687532 TTTTCATTTTTTCTTTTTTC-TTATTTTTTCCTCT
1 TTTTCTTTTTTTC-ATTTTCATT-TTCTTTCCTCT
*
18687566 TTTTCTTTTCTTTCATTTTCATTTTCTTTCCTTT
1 TTTTCTTTT-TTTCATTTTCATTTTCTTTCCTCT
18687600 TTTTCTTTTTTT
1 TTTTCTTTTTTT
18687612 TTATCCATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 3 0.08
34 31 0.77
35 6 0.15
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (33 bp):
TTTTCTTTTTTTCATTTTCATTTTCTTTCCTCT
Found at i:18687577 original size:55 final size:52
Alignment explanation
Indices: 18687510--18687613 Score: 145
Period size: 55 Copynumber: 1.9 Consensus size: 52
18687500 TTAAGTTTTC
* **
18687510 CTTTTTTTTTCTTTTATTTTCATTTTCATTTTTTCTTTTTTCTTATTTTTTCCT
1 CTTTTTTTTTCTTTCATTTTCATTTTC-TTTCCT-TTTTTTCTTATTTTTTCCT
*
18687564 CTTTTTCTTTTCTTTCATTTTCATTTTCTTTCCTTTTTTTCTTTTTTTTT
1 CTTTTT-TTTTCTTTCATTTTCATTTTCTTTCCTTTTTTTCTTATTTTTT
18687614 ATCCATTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
53 15 0.33
54 10 0.22
55 20 0.44
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (52 bp):
CTTTTTTTTTCTTTCATTTTCATTTTCTTTCCTTTTTTTCTTATTTTTTCCT
Found at i:18687624 original size:55 final size:56
Alignment explanation
Indices: 18687510--18687630 Score: 144
Period size: 55 Copynumber: 2.2 Consensus size: 56
18687500 TTAAGTTTTC
* **
18687510 CTTTTT-TTTTCTTTTATTTTCATTTTCATTTTTTCTTTTTTCTTATTTTTTCC-T
1 CTTTTTCTTTTCTTTCATTTTCATTTTCATTTCCTCTTTTTTCTTATTTTTTCCTT
*
18687564 CTTTTTCTTTTCTTTCATTTTCATTTTC-TTTCCT-TTTTTTCTTTTTTTTTATCCATT
1 CTTTTTCTTTTCTTTCATTTTCATTTTCATTTCCTCTTTTTTC-TTATTTTT-TCC-TT
18687621 -TTTTTCTTTT
1 CTTTTTCTTTT
18687631 TTTTTTCTCT
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
53 7 0.12
54 17 0.29
55 23 0.40
56 10 0.17
57 1 0.02
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.77
Consensus pattern (56 bp):
CTTTTTCTTTTCTTTCATTTTCATTTTCATTTCCTCTTTTTTCTTATTTTTTCCTT
Found at i:18691958 original size:14 final size:14
Alignment explanation
Indices: 18691938--18691989 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
18691928 TGGCATTTTG
18691938 GATTTTAGGGTTTC
1 GATTTTAGGGTTTC
* * *
18691952 AATTTTAGGATTTG
1 GATTTTAGGGTTTC
18691966 GATGTTTAGGGTTTC
1 GAT-TTTAGGGTTTC
18691981 GATTTTAGG
1 GATTTTAGG
18691990 ACTTGGAGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.19, C:0.04, G:0.29, T:0.48
Consensus pattern (14 bp):
GATTTTAGGGTTTC
Found at i:18691962 original size:22 final size:21
Alignment explanation
Indices: 18691911--18691964 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
18691901 ATTTTAAGTT
18691911 TTTTGGATTTTAAGGTTTGGCA
1 TTTTGGATTTTAAGGTTT-GCA
*
18691933 TTTTGGATTTTAGGGTTT-CAA
1 TTTTGGATTTTAAGGTTTGC-A
18691954 TTTTAGGATTT
1 TTTT-GGATTT
18691965 GGATGTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 1 0.03
21 5 0.17
22 23 0.79
ACGTcount: A:0.19, C:0.04, G:0.24, T:0.54
Consensus pattern (21 bp):
TTTTGGATTTTAAGGTTTGCA
Found at i:18691975 original size:15 final size:14
Alignment explanation
Indices: 18691934--18691996 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
18691924 GGTTTGGCAT
*
18691934 TTTGGATTTTAGGG
1 TTTGGATTTTAGGA
**
18691948 TTTCAATTTTAGGA
1 TTTGGATTTTAGGA
*
18691962 TTTGGATGTTTAGGG
1 TTTGGAT-TTTAGGA
*
18691977 TTTCGATTTTAGGA
1 TTTGGATTTTAGGA
*
18691991 CTTGGA
1 TTTGGA
18691997 GGGTTTAGGG
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
14 26 0.68
15 12 0.32
ACGTcount: A:0.19, C:0.05, G:0.29, T:0.48
Consensus pattern (14 bp):
TTTGGATTTTAGGA
Found at i:18692005 original size:30 final size:30
Alignment explanation
Indices: 18691941--18692082 Score: 132
Period size: 29 Copynumber: 4.8 Consensus size: 30
18691931 CATTTTGGAT
* *
18691941 TTTAGGGTTTCAATTTTAGGATTTGGA-TG
1 TTTAGGGTTTCGATTTTAGGATTTGGAGGG
*
18691970 TTTAGGGTTTCGATTTTAGGACTTGGAGGG
1 TTTAGGGTTTCGATTTTAGGATTTGGAGGG
* * *
18692000 TTTAGGGTTTAG-TTTTAGGGTTTAGAGGG
1 TTTAGGGTTTCGATTTTAGGATTTGGAGGG
*
18692029 TTTAAGGATTT--ATTTTATGG-TTTGGAGGG
1 TTT-AGGGTTTCGATTTTA-GGATTTGGAGGG
* * * *
18692058 TTTAGAGTTTTGATTTCAGGGTTTG
1 TTTAGGGTTTCGATTTTAGGATTTG
18692083 AAAGGTTTGA
Statistics
Matches: 94, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
28 5 0.05
29 60 0.64
30 29 0.31
ACGTcount: A:0.18, C:0.03, G:0.32, T:0.46
Consensus pattern (30 bp):
TTTAGGGTTTCGATTTTAGGATTTGGAGGG
Found at i:18692018 original size:13 final size:13
Alignment explanation
Indices: 18692000--18692024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18691990 ACTTGGAGGG
18692000 TTTAGGGTTTAGT
1 TTTAGGGTTTAGT
18692013 TTTAGGGTTTAG
1 TTTAGGGTTTAG
18692025 AGGGTTTAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (13 bp):
TTTAGGGTTTAGT
Found at i:18692146 original size:22 final size:22
Alignment explanation
Indices: 18692115--18692157 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18692105 GCGAATCAAA
* * *
18692115 ATTATGCCCGGAGGTTTTAAAG
1 ATTATACCCGAAGGTCTTAAAG
18692137 ATTATACCCGAAGGTCTTAAA
1 ATTATACCCGAAGGTCTTAAA
18692158 AATCATGTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (22 bp):
ATTATACCCGAAGGTCTTAAAG
Found at i:18692232 original size:37 final size:37
Alignment explanation
Indices: 18692191--18692297 Score: 108
Period size: 37 Copynumber: 2.9 Consensus size: 37
18692181 AATCGACTAG
*
18692191 GATAATAATGTAAGTCAAAAAATAAAAAATCGATCGA
1 GATAACAATGTAAGTCAAAAAATAAAAAATCGATCGA
* * * * *
18692228 GATAACACTGTGAGTCAAGAAATAAAGAATCGATTGA
1 GATAACAATGTAAGTCAAAAAATAAAAAATCGATCGA
** * * *
18692265 GATAACACCGCAAGT-TAAAAATAAAGAATCGAT
1 GATAACAATGTAAGTCAAAAAATAAAAAATCGAT
18692298 TGGGACAACA
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
36 16 0.27
37 43 0.73
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (37 bp):
GATAACAATGTAAGTCAAAAAATAAAAAATCGATCGA
Found at i:18692294 original size:36 final size:36
Alignment explanation
Indices: 18692202--18692310 Score: 128
Period size: 37 Copynumber: 3.0 Consensus size: 36
18692192 ATAATAATGT
* * * *
18692202 AAGTCAAAAAATAAAAAATCGATCGAGATAACACTGT
1 AAGTC-AAAAATAAAGAATCGATTGAGATAACACCGC
*
18692239 GAGTCAAGAAATAAAGAATCGATTGAGATAACACCGC
1 AAGTCAA-AAATAAAGAATCGATTGAGATAACACCGC
* * *
18692276 AAGTTAAAAATAAAGAATCGATTGGGACAACACCG
1 AAGTCAAAAATAAAGAATCGATTGAGATAACACCG
18692311 TAAATTGAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
36 28 0.45
37 34 0.55
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.17
Consensus pattern (36 bp):
AAGTCAAAAATAAAGAATCGATTGAGATAACACCGC
Found at i:18692488 original size:22 final size:22
Alignment explanation
Indices: 18692463--18692514 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
18692453 TTATGCCTGA
*
18692463 AGGTCTTA-AAGATTATGTCCGG
1 AGGTCTTAGAA-ATCATGTCCGG
*
18692485 AGGTCTTAGAAATCATGTTCGG
1 AGGTCTTAGAAATCATGTCCGG
18692507 AGGTCTTA
1 AGGTCTTA
18692515 CAGAATCGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (22 bp):
AGGTCTTAGAAATCATGTCCGG
Found at i:18692498 original size:132 final size:132
Alignment explanation
Indices: 18692253--18692602 Score: 373
Period size: 132 Copynumber: 2.7 Consensus size: 132
18692243 CAAGAAATAA
* * * * *
18692253 AGAATCGATTGAGATAACACCGCAAGT-TAAAAATAAAGAATCGATTGGGACAACACCGTAAATT
1 AGAATCGATTGAGATAACACCGCAAGTCAAAAAATAAAGAATCGATCGGGACAACATCGTGAATC
* * * *
18692317 GAAGTTATACCCGGAGGTTTTAAAGATTATGCCTAAAAGCCTTACAAATCAT-TCTCGGAGATCT
66 GAAATTATGCCTGGAGGTCTTAAAGATTATGCCTAAAAGCCTTACAAATCATGT-TCGGAGATCT
18692381 TAC
130 TAC
* * * * * *
18692384 AGAATCGATTGGGATAACATCGCAAGTCAAAAAATAAGGAATCAATCAGGACAATATCGTGAATC
1 AGAATCGATTGAGATAACACCGCAAGTCAAAAAATAAAGAATCGATCGGGACAACATCGTGAATC
* ** * * * *
18692449 GAAATTATGCCTGAAGGTCTTAAAGATTATGTCC-GGAGGTCTTAGAAATCATGTTCGGAGGTCT
66 GAAATTATGCCTGGAGGTCTTAAAGATTATG-CCTAAAAGCCTTACAAATCATGTTCGGAGATCT
18692513 TAC
130 TAC
* * * ** * * *
18692516 AGAATCGACTAAGATAATACCATAAGTCAAAAAATAAAGAATCGATCGGGATAAGATCGCGAATC
1 AGAATCGATTGAGATAACACCGCAAGTCAAAAAATAAAGAATCGATCGGGACAACATCGTGAATC
* *
18692581 AAAATTATGTCTGGAGGTCTTA
66 GAAATTATGCCTGGAGGTCTTA
18692603 GAAATCATGC
Statistics
Matches: 178, Mismatches: 38, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
131 25 0.14
132 150 0.84
133 3 0.02
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (132 bp):
AGAATCGATTGAGATAACACCGCAAGTCAAAAAATAAAGAATCGATCGGGACAACATCGTGAATC
GAAATTATGCCTGGAGGTCTTAAAGATTATGCCTAAAAGCCTTACAAATCATGTTCGGAGATCTT
AC
Found at i:18693018 original size:41 final size:41
Alignment explanation
Indices: 18692972--18693077 Score: 140
Period size: 41 Copynumber: 2.6 Consensus size: 41
18692962 ACAAGTACAA
* *
18692972 ATGCAAGTGATGAAAATACGAATGTCTTTCTTATGATGCAG
1 ATGCAAGTGATGCAAATACAAATGTCTTTCTTATGATGCAG
* * * * * *
18693013 ATGCAAATTATGCAAATACAAATGTCTTTCTTGTGGTGTAT
1 ATGCAAGTGATGCAAATACAAATGTCTTTCTTATGATGCAG
18693054 ATGCAAGTGATGCAAATACAAATG
1 ATGCAAGTGATGCAAATACAAATG
18693078 CCCTTTTCAT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (41 bp):
ATGCAAGTGATGCAAATACAAATGTCTTTCTTATGATGCAG
Found at i:18693334 original size:65 final size:66
Alignment explanation
Indices: 18693245--18693386 Score: 173
Period size: 66 Copynumber: 2.2 Consensus size: 66
18693235 CTTGAAACTT
* * *
18693245 TAAAA-CTCTTTTAGGGCCAGATAAACTGA-G-TTTAAATTTTATTAAGGGCCAGCTAAATTGGG
1 TAAAACCTCATTTAGGACCAGATAAA-TGAGGCTTAAAATTTTATTAAGGGCCAGCTAAATTGGG
18693307 CA
65 CA
* * * *
18693309 TAAAACCTCATTTAGGACTAGATAAATTAGGCTTAAAATTTTTTTAAGGGCCAGTTAAATTGGGC
1 TAAAACCTCATTTAGGACCAGATAAATGAGGCTTAAAATTTTATTAAGGGCCAGCTAAATTGGGC
*
18693374 T
66 A
*
18693375 TAAAACTTCATT
1 TAAAACCTCATT
18693387 GATTGTCAGA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
64 7 0.11
65 18 0.27
66 41 0.62
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (66 bp):
TAAAACCTCATTTAGGACCAGATAAATGAGGCTTAAAATTTTATTAAGGGCCAGCTAAATTGGGC
A
Found at i:18693368 original size:33 final size:33
Alignment explanation
Indices: 18693244--18693379 Score: 107
Period size: 33 Copynumber: 4.2 Consensus size: 33
18693234 CCTTGAAACT
* * * *
18693244 TTAAAACTCTTTT-AGGGCCAGATAAACTGAG-
1 TTAAAATTTTTTTAAGGGCCAGATAAATTGGGC
* * *
18693275 TTTAAATTTTATTAAGGGCCAGCTAAATTGGGC
1 TTAAAATTTTTTTAAGGGCCAGATAAATTGGGC
* * ** * * *
18693308 ATAAAACCTCATTT-AGGACTAGATAAATTAGGC
1 TTAAAA-TTTTTTTAAGGGCCAGATAAATTGGGC
*
18693341 TTAAAATTTTTTTAAGGGCCAGTTAAATTGGGC
1 TTAAAATTTTTTTAAGGGCCAGATAAATTGGGC
18693374 TTAAAA
1 TTAAAA
18693380 CTTCATTGAT
Statistics
Matches: 76, Mismatches: 25, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
31 9 0.12
32 19 0.25
33 45 0.59
34 3 0.04
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.33
Consensus pattern (33 bp):
TTAAAATTTTTTTAAGGGCCAGATAAATTGGGC
Found at i:18693398 original size:66 final size:65
Alignment explanation
Indices: 18693263--18693422 Score: 180
Period size: 66 Copynumber: 2.4 Consensus size: 65
18693253 TTTTAGGGCC
* * *
18693263 AGATAAACTGAG-TTTAAATTTTATTAAGGGCCAGCTAAATTGGGCATAAAACCTCATTTAGGAC
1 AGATAAACTG-GCTTAAAATTTTTTTAAGGGCCAGCTAAATTGGGCATAAAACCTCATTGAGGAC
18693327 T
65 T
* * * * * *
18693328 AGATAAATTAGGCTTAAAATTTTTTTAAGGGCCAGTTAAATTGGGCTTAAAACTTCATTGATTGT
1 AGATAAACT-GGCTTAAAATTTTTTTAAGGGCCAGCTAAATTGGGCATAAAACCTCATTGA-GGA
18693393 C-
64 CT
* *
18693394 AGATAAACTGGCTTAAAATTCTTTGAAGG
1 AGATAAACTGGCTTAAAATTTTTTTAAGG
18693423 TCAAATAAAC
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
65 27 0.34
66 51 0.64
67 2 0.03
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.34
Consensus pattern (65 bp):
AGATAAACTGGCTTAAAATTTTTTTAAGGGCCAGCTAAATTGGGCATAAAACCTCATTGAGGACT
Found at i:18693434 original size:31 final size:33
Alignment explanation
Indices: 18693364--18693442 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 33
18693354 AAGGGCCAGT
* ** *
18693364 TAAATTGGGCTTAAAACTTCATTGATTGTCAGA
1 TAAACTGGGCTTAAAACTTCATTGAAGGTCAAA
*
18693397 TAAACT-GGCTTAAAA-TTCTTTGAAGGTCAAA
1 TAAACTGGGCTTAAAACTTCATTGAAGGTCAAA
18693428 TAAACTGGGCTTAAA
1 TAAACTGGGCTTAAA
18693443 GATTGACGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
31 18 0.45
32 17 0.43
33 5 0.12
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (33 bp):
TAAACTGGGCTTAAAACTTCATTGAAGGTCAAA
Found at i:18693527 original size:33 final size:33
Alignment explanation
Indices: 18693326--18693529 Score: 93
Period size: 33 Copynumber: 6.4 Consensus size: 33
18693316 TCATTTAGGA
* ** * *
18693326 CTAGATAAATTAGGCTTAAAATTTTTTTAAGGG
1 CTAGATAAACTAGGCTTAAAATTTCATTGATGG
* * * * * *
18693359 CCAGTTAAATTGGGCTTAAAACTTCATTGATTG
1 CTAGATAAACTAGGCTTAAAATTTCATTGATGG
* *
18693392 -TCAGATAAACT-GGCTTAAAA-TTCTTTGAAGG
1 CT-AGATAAACTAGGCTTAAAATTTCATTGATGG
* * * * *
18693423 -TCAAATAAACTGGGCTT-AAA---GATTGACGA
1 CT-AGATAAACTAGGCTTAAAATTTCATTGATGG
* * * * *
18693452 CAAAATAAAATGGGCTTAAAATTTCCTT-AGTGG
1 CTAGATAAACTAGGCTTAAAATTTCATTGA-TGG
* *
18693485 CCAGTTAAACTAGGCTTAAAATTTCATTGATGG
1 CTAGATAAACTAGGCTTAAAATTTCATTGATGG
18693518 CTAGATAAACTA
1 CTAGATAAACTA
18693530 AGCTAAGATT
Statistics
Matches: 128, Mismatches: 34, Indels: 18
0.71 0.19 0.10
Matches are distributed among these distances:
29 19 0.15
30 3 0.02
31 21 0.16
32 15 0.12
33 69 0.54
34 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (33 bp):
CTAGATAAACTAGGCTTAAAATTTCATTGATGG
Found at i:18693879 original size:22 final size:22
Alignment explanation
Indices: 18693848--18693899 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
18693838 AAACTTCATT
*
18693848 GGTGCCAGATAATTCGGGTTTA
1 GGTGCCAGATAATTCGGATTTA
*
18693870 GGTGCTAGATAATTCGGATTTA
1 GGTGCCAGATAATTCGGATTTA
18693892 GGTGCCAG
1 GGTGCCAG
18693900 CTAAATTGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.23, C:0.13, G:0.33, T:0.31
Consensus pattern (22 bp):
GGTGCCAGATAATTCGGATTTA
Found at i:18694814 original size:28 final size:27
Alignment explanation
Indices: 18694783--18694843 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
18694773 TGCTTTTCAC
*
18694783 TTATTCATTTCTTTTCTTT-TTTTTTCTT
1 TTATTC-TTCCTTTTCTTTATTTTTT-TT
18694811 TTATTCTTCCTTTTCTTTCATTTTTTTT
1 TTATTCTTCCTTTTCTTT-ATTTTTTTT
18694839 TTATT
1 TTATT
18694844 TTACATTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 11 0.37
28 13 0.43
29 6 0.20
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (27 bp):
TTATTCTTCCTTTTCTTTATTTTTTTT
Found at i:18697678 original size:4 final size:4
Alignment explanation
Indices: 18697652--18697722 Score: 54
Period size: 4 Copynumber: 17.8 Consensus size: 4
18697642 TGCATTATAT
* * * **
18697652 TGAA TGAA T-ACA TAAA TGGA TGAA TGAA TGAA TGAA TGAA TGCA CAAA
1 TGAA TGAA TGA-A TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA
* * *
18697700 TGAG TGAA TGAG TGAA TGCA TGA
1 TGAA TGAA TGAA TGAA TGAA TGA
18697723 TTGATAAAAC
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
3 1 0.02
4 48 0.96
5 1 0.02
ACGTcount: A:0.45, C:0.06, G:0.25, T:0.24
Consensus pattern (4 bp):
TGAA
Found at i:18697693 original size:24 final size:24
Alignment explanation
Indices: 18697652--18697722 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
18697642 TGCATTATAT
* *
18697652 TGAATGAAT-ACATAAATGGATGAA
1 TGAATGAATGA-ATGAATGCATGAA
**
18697676 TGAATGAATGAATGAATGCACAAA
1 TGAATGAATGAATGAATGCATGAA
* *
18697700 TGAGTGAATGAGTGAATGCATGA
1 TGAATGAATGAATGAATGCATGA
18697723 TTGATAAAAC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
24 37 0.97
25 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.25, T:0.24
Consensus pattern (24 bp):
TGAATGAATGAATGAATGCATGAA
Found at i:18697701 original size:16 final size:16
Alignment explanation
Indices: 18697652--18697709 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
18697642 TGCATTATAT
*
18697652 TGAATGAATACATAAA
1 TGAATGAATGCATAAA
* * *
18697668 TGGATGAATGAATGAA
1 TGAATGAATGCATAAA
*
18697684 TGAATGAATGCACAAA
1 TGAATGAATGCATAAA
*
18697700 TGAGTGAATG
1 TGAATGAATG
18697710 AGTGAATGCA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.47, C:0.05, G:0.24, T:0.24
Consensus pattern (16 bp):
TGAATGAATGCATAAA
Found at i:18701833 original size:61 final size:58
Alignment explanation
Indices: 18701762--18701952 Score: 203
Period size: 61 Copynumber: 3.3 Consensus size: 58
18701752 CATTTGGAGG
18701762 TTTTTATTTTAAGAAAAATTGATACTTTTAACTTTTCCTTAAAA--ATATTTTTCTTGATAA
1 TTTTTATTTTAAGAAAAATTGATACTTTTAACTTTTCCTTAAAATGAT-TTTTTC-T-A-AA
* * *
18701822 TTTTTATTTTTAAGAAAAATTGGTACTTCTAACTTTTCCTTAAAATGCTTTTTTCTAAAA
1 TTTTTA-TTTTAAGAAAAATTGATACTTTTAACTTTTCCTTAAAATGATTTTTTCT-AAA
* * * * * **
18701882 TTTTAATTTCAAGAAAAATTGATACTTTTAACTTTTTCTCAAAAT-A-CTTTTGAAAA
1 TTTTTATTTTAAGAAAAATTGATACTTTTAACTTTTCCTTAAAATGATTTTTTCTAAA
18701938 TTTTTATTTT-AGAAA
1 TTTTTATTTTAAGAAA
18701953 TTTTATTTTT
Statistics
Matches: 112, Mismatches: 16, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
55 5 0.04
56 11 0.10
57 4 0.04
59 34 0.30
60 13 0.12
61 38 0.34
62 6 0.05
63 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (58 bp):
TTTTTATTTTAAGAAAAATTGATACTTTTAACTTTTCCTTAAAATGATTTTTTCTAAA
Found at i:18701914 original size:59 final size:61
Alignment explanation
Indices: 18701762--18701932 Score: 206
Period size: 59 Copynumber: 2.8 Consensus size: 61
18701752 CATTTGGAGG
* * *
18701762 TTTTTATTTTAAGAAAAATTGATACTTTTAACTTTTCCTTAAAAAT-ATTTTTCTTGATAAT
1 TTTTAATTTTAAGAAAAATTGATACTTTTAACTTTTCCTT-AAAATCTTTTTTCTTGATAAA
* * *
18701823 TTTTATTTTTAAGAAAAATTGGTACTTCTAACTTTTCCTTAAAATGCTTTTTTC-T-A-AAA
1 TTTTAATTTTAAGAAAAATTGATACTTTTAACTTTTCCTTAAAAT-CTTTTTTCTTGATAAA
* * *
18701882 TTTTAATTTCAAGAAAAATTGATACTTTTAACTTTTTCTCAAAATACTTTT
1 TTTTAATTTTAAGAAAAATTGATACTTTTAACTTTTCCTTAAAAT-CTTTT
18701933 GAAAATTTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
59 46 0.48
60 6 0.06
61 37 0.39
62 6 0.06
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (61 bp):
TTTTAATTTTAAGAAAAATTGATACTTTTAACTTTTCCTTAAAATCTTTTTTCTTGATAAA
Found at i:18701961 original size:130 final size:133
Alignment explanation
Indices: 18701823--18702081 Score: 339
Period size: 132 Copynumber: 2.0 Consensus size: 133
18701813 TCTTGATAAT
* * * **
18701823 TTTTATTTTTAAGAAAAATTGGTACTTCT-AACTTTTCCT-TAAAATGCTTTTTTCTAAAATTTT
1 TTTTATTTTTAAGAAAAATTGATA-TTCTCAACTTTTCCTCAAAAATACTTTTTTAAAAAATTTT
* * * * *
18701886 AATTT-CAAGAAAAATTGATACTTTTAACTTTTTCTCAAAATA-CT-TTTGAAAATTTTTATTTT
65 AATTTACAAAAAAAATTAATACTTTCAACTTTTCCTCAAAATATATATTTGAAAA-TTTTATTTT
18701948 AGAAA
129 AGAAA
* * *
18701953 TTTTATTTTTAAGAAAAATTGATATTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAAATTTTA
1 TTTTATTTTTAAGAAAAATTGATATTCTCAACTTTTCCTCAAAAATACTTTTTTAAAAAATTTTA
*
18702018 TTTTACAAAAAAAATTAATACTTTCAACTTTTCCTCAAAATATATATTTGAAAATTTTATTTTA
66 ATTTACAAAAAAAATTAATACTTTCAACTTTTCCTCAAAATATATATTTGAAAATTTTATTTTA
18702082 TATTTTTTCT
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
129 3 0.03
130 32 0.29
131 23 0.21
132 33 0.30
133 11 0.10
134 8 0.07
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (133 bp):
TTTTATTTTTAAGAAAAATTGATATTCTCAACTTTTCCTCAAAAATACTTTTTTAAAAAATTTTA
ATTTACAAAAAAAATTAATACTTTCAACTTTTCCTCAAAATATATATTTGAAAATTTTATTTTAG
AAA
Found at i:18702011 original size:15 final size:16
Alignment explanation
Indices: 18701992--18702028 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
18701982 AACTTTTTCT
18701992 CAAAAATATTT-TTTTA
1 CAAAAAT-TTTATTTTA
18702008 -AAAAATTTTATTTTA
1 CAAAAATTTTATTTTA
18702023 CAAAAA
1 CAAAAA
18702029 AAATTAATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.16
15 11 0.58
16 5 0.26
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (16 bp):
CAAAAATTTTATTTTA
Found at i:18702016 original size:60 final size:59
Alignment explanation
Indices: 18701945--18702081 Score: 168
Period size: 61 Copynumber: 2.3 Consensus size: 59
18701935 AAATTTTTAT
* * * * * * * *
18701945 TTTAGAAATTTTATTTT-TAAGAAAAATTGATATTTTCAACTTTTTCTCAAAAATATTTT
1 TTTAAAAATTTTATTTTACAAAAAAAATTAATACTTTCAACTTTTCCTC-AAAATATATA
18702004 TTTAAAAAATTTTATTTTACAAAAAAAATTAATACTTTCAACTTTTCCTCAAAATATATA
1 TTT-AAAAATTTTATTTTACAAAAAAAATTAATACTTTCAACTTTTCCTCAAAATATATA
*
18702064 TTTGAAAATTTTATTTTA
1 TTTAAAAATTTTATTTTA
18702082 TATTTTTTCT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 17 0.25
60 24 0.36
61 26 0.39
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.48
Consensus pattern (59 bp):
TTTAAAAATTTTATTTTACAAAAAAAATTAATACTTTCAACTTTTCCTCAAAATATATA
Found at i:18702303 original size:10 final size:11
Alignment explanation
Indices: 18702290--18702319 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
18702280 GGCTGAGATG
18702290 CGGATCAAA-C
1 CGGATCAAACC
18702300 CGGATCAAACC
1 CGGATCAAACC
18702311 CGGATCAAA
1 CGGATCAAA
18702320 AACGGGTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.40, C:0.30, G:0.20, T:0.10
Consensus pattern (11 bp):
CGGATCAAACC
Found at i:18702475 original size:21 final size:21
Alignment explanation
Indices: 18702445--18702490 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
18702435 CTACTTCAGA
18702445 TCTT-CCCTTTCCCTTCTCTC
1 TCTTCCCCTTTCCCTTCTCTC
**
18702465 TCTTCCCCTTTCTTTTCTCTC
1 TCTTCCCCTTTCCCTTCTCTC
*
18702486 CCTTC
1 TCTTC
18702491 TCTCTCTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (21 bp):
TCTTCCCCTTTCCCTTCTCTC
Found at i:18706274 original size:11 final size:12
Alignment explanation
Indices: 18706231--18706274 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
18706221 TATAAATTGA
*
18706231 AAATTAAATTTT
1 AAATCAAATTTT
* *
18706243 AAATCAAGTTTA
1 AAATCAAATTTT
18706255 AAATCAAATTTT
1 AAATCAAATTTT
18706267 AAAT-AAAT
1 AAATCAAAT
18706275 CTAATTCAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 4 0.15
12 23 0.85
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (12 bp):
AAATCAAATTTT
Found at i:18706327 original size:12 final size:12
Alignment explanation
Indices: 18706310--18706376 Score: 61
Period size: 12 Copynumber: 5.7 Consensus size: 12
18706300 TAAAATTATT
18706310 TTTAATTATTTA
1 TTTAATTATTTA
*
18706322 TTTAATTTTTTA
1 TTTAATTATTTA
*
18706334 TTT-A-TATATA
1 TTTAATTATTTA
18706344 TTT-ATATATTTA
1 TTTAAT-TATTTA
18706356 TTTAATT-TTATA
1 TTTAATTATT-TA
18706368 TTTATATTA
1 TTTA-ATTA
18706377 AAAATAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.18
11 3 0.07
12 29 0.64
13 5 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTAATTATTTA
Found at i:18706334 original size:26 final size:26
Alignment explanation
Indices: 18706305--18706377 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
18706295 ATATATAAAA
18706305 TTATTTTTAATTATTTATTTAATTT-T
1 TTATTTTT-ATTATTTATTTAATTTAT
* *
18706331 TTATTTATATATATTTATAT-ATTTAT
1 TTATTTTTAT-TATTTATTTAATTTAT
*
18706357 TTAATTTTA-TATTTATATTAA
1 TTATTTTTATTATTTAT-TTAA
18706378 AAATAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
24 7 0.18
25 7 0.18
26 24 0.63
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
TTATTTTTATTATTTATTTAATTTAT
Found at i:18706336 original size:16 final size:16
Alignment explanation
Indices: 18706316--18706377 Score: 79
Period size: 16 Copynumber: 3.7 Consensus size: 16
18706306 TATTTTTAAT
*
18706316 TATTTATTTAATTTTT
1 TATTTATTTAATTTTA
*
18706332 TATTTATATATATTTATA
1 TATTTATTTA-ATTT-TA
18706350 TATTTATTTAATTTTA
1 TATTTATTTAATTTTA
18706366 TATTTATATTAA
1 TATTTAT-TTAA
18706378 AAATAATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
16 18 0.45
17 12 0.30
18 10 0.25
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTATTTAATTTTA
Found at i:18706392 original size:23 final size:23
Alignment explanation
Indices: 18706358--18706401 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18706348 TATATTTATT
*
18706358 TAATTTTATATTTATATTAAAAA
1 TAATTTTATATTAATATTAAAAA
* *
18706381 TAATTTTTTATTAATTTTAAA
1 TAATTTTATATTAATATTAAA
18706402 TTGAATCAAG
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TAATTTTATATTAATATTAAAAA
Found at i:18708562 original size:27 final size:27
Alignment explanation
Indices: 18708522--18708574 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
18708512 AATTTCACAA
18708522 AATTAAATTATATG-TTTATCATATTAT
1 AATTAAATTATATGATTTAT-ATATTAT
* *
18708549 AATTAGATTTTATGATTTATATATTA
1 AATTAAATTATATGATTTATATATTA
18708575 ATATTGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.53
Consensus pattern (27 bp):
AATTAAATTATATGATTTATATATTAT
Found at i:18710248 original size:32 final size:32
Alignment explanation
Indices: 18710211--18710273 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
18710201 TGTTTCTAGC
* *
18710211 AAAAATGTCTTAAACAATCTACTCTAATTTTT
1 AAAAATGTATTAAACAATCCACTCTAATTTTT
* * *
18710243 AAAAATGTATTGAATAATCCCCTCTAATTTT
1 AAAAATGTATTAAACAATCCACTCTAATTTT
18710274 GAGATTATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (32 bp):
AAAAATGTATTAAACAATCCACTCTAATTTTT
Found at i:18710425 original size:59 final size:60
Alignment explanation
Indices: 18710343--18710474 Score: 155
Period size: 59 Copynumber: 2.2 Consensus size: 60
18710333 AAATTGGGTT
* *
18710343 ATTCAAGGCATTTCTGCCAAAAAACGCTTTGAATAATTCCT-TT-CCA-TTTTTTTGGGATA
1 ATTCAAGACATTTCTGCCAAAAAACGCTTTCAATAA-T-CTATTCCCATTTTTTTTGGGATA
* * * *
18710402 ATTCAAGACGTTTACTGCC-AAAAATGCTTTCAATAATCTATTCCCATTTTTTTTTGGATT
1 ATTCAAGACATTT-CTGCCAAAAAACGCTTTCAATAATCTATTCCCATTTTTTTTGGGATA
18710462 ATTCAAGACATTT
1 ATTCAAGACATTT
18710475 TTGATCAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
57 2 0.03
58 3 0.05
59 29 0.47
60 28 0.45
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (60 bp):
ATTCAAGACATTTCTGCCAAAAAACGCTTTCAATAATCTATTCCCATTTTTTTTGGGATA
Found at i:18711374 original size:325 final size:325
Alignment explanation
Indices: 18710784--18711425 Score: 885
Period size: 325 Copynumber: 2.0 Consensus size: 325
18710774 ATTAAAAGTC
* * *
18710784 AAAGTATATAAGGCGTTTAGGACAACAAAAGCCACAAAAATATATTTTTAGTAGTGTTTTTAAAT
1 AAAGTATATAAGGCATTTAGGACAACAAAAGCCACAAAAATATATTTTTAATAATGTTTTTAAAT
* * ** * * *
18710849 CCAAATGCCACTATATAAAGATTAATAGTGTTTTATAAAAAAAATGTTGCTAATCTTATAAAAAC
66 CCAAATACCACTATATAAAAATTAATAACGTTGTATAAAAAAAACGTCGCTAATCTTATAAAAAC
* * **
18710914 ATGAAACTTTGTAGCGTTTATTTAAAAATGTCACCAAAAAACAATCACTAAATCTCCATTTTCAT
131 ACGAAACTTTATAGCGTTTATTTAAAAAAATCACCAAAAAACAATCACTAAATCTCCATTTTCAT
* *
18710979 GTAATGATTATAATTTACGTCGATATAAGTATATAAAACATTTTTTAATTTTTTAAAATTTATAT
196 GTAATGATTATAATTTACGTCGATATAAATATATAAAACATTTTTTAATTTTCTAAAATTTATAT
18711044 ATAATTTTTATAAAAAATTTTAAATCTTATAATATTGTTGTACGCATCTAAAATTATAAAAAATT
261 ATAATTTTTATAAAAAATTTTAAATCTTATAATATTGTTGTACGCATCTAAAATTATAAAAAATT
* * * * *
18711109 AAAGTATATAGCGGCATTTAGGTCAACAAACGCTATAAAAATATA-TTTTAATAATGTTTTTAAA
1 AAAGTATATA-AGGCATTTAGGACAACAAAAGCCACAAAAATATATTTTTAATAATGTTTTTAAA
*** * *
18711173 TCCAAATACTGTTATATAAAAATTTAATAACGTTGTAT-AGAAAAACGTCGTTAATCTTATAAAA
65 TCCAAATACCACTATATAAAAA-TTAATAACGTTGTATAAAAAAAACGTCGCTAATCTTATAAAA
* *** * * * **
18711237 ACACGAAATTTTATA-CGTTTATTTAAAAAAATCGTTAAAAAACAGTTACTAAATTTTTATTTTC
129 ACACGAAACTTTATAGCGTTTATTTAAAAAAATCACCAAAAAACAATCACTAAATCTCCATTTTC
* * *
18711301 ATGTAGTGATTATAATTTATGTTGATATAAATATATAAAACATATTTTTAATTTTCTAAAATTTA
194 ATGTAATGATTATAATTTACGTCGATATAAATATATAAAACAT-TTTTTAATTTTCTAAAATTTA
*
18711366 TATATAATTTTTATAAAAAATTTTAAATCTTATAGTATTGTTGTACGCATCTAAAATTAT
258 TATATAATTTTTATAAAAAATTTTAAATCTTATAATATTGTTGTACGCATCTAAAATTAT
18711426 CAATTAATTT
Statistics
Matches: 275, Mismatches: 39, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
324 78 0.28
325 157 0.57
326 40 0.15
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (325 bp):
AAAGTATATAAGGCATTTAGGACAACAAAAGCCACAAAAATATATTTTTAATAATGTTTTTAAAT
CCAAATACCACTATATAAAAATTAATAACGTTGTATAAAAAAAACGTCGCTAATCTTATAAAAAC
ACGAAACTTTATAGCGTTTATTTAAAAAAATCACCAAAAAACAATCACTAAATCTCCATTTTCAT
GTAATGATTATAATTTACGTCGATATAAATATATAAAACATTTTTTAATTTTCTAAAATTTATAT
ATAATTTTTATAAAAAATTTTAAATCTTATAATATTGTTGTACGCATCTAAAATTATAAAAAATT
Found at i:18725006 original size:28 final size:27
Alignment explanation
Indices: 18724935--18725006 Score: 74
Period size: 29 Copynumber: 2.6 Consensus size: 27
18724925 TATATTAATT
*
18724935 ATATTAATTATTAA-TTTTATAATTTAA
1 ATATTAATTA-TAATTTTTAAAATTTAA
* *
18724962 ATATTTTATTAAAAATTTTTAAAATTTAA
1 ATA-TTAATT-ATAATTTTTAAAATTTAA
18724991 ATATTACATTATAATT
1 ATATTA-ATTATAATT
18725007 CAAGAATCCC
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
27 3 0.08
28 14 0.39
29 19 0.53
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (27 bp):
ATATTAATTATAATTTTTAAAATTTAA
Found at i:18726558 original size:16 final size:17
Alignment explanation
Indices: 18726533--18726574 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
18726523 GTTATAGGAT
*
18726533 TTTATGAGATAGACA-C
1 TTTATAAGATAGACACC
18726549 TTTATAAGATAGACACC
1 TTTATAAGATAGACACC
*
18726566 CTTATAAGA
1 TTTATAAGA
18726575 GTATTAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (17 bp):
TTTATAAGATAGACACC
Done.