Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 16 of 125
Found at i:2709400 original size:124 final size:124
Alignment explanation
Indices: 2709002--2709752 Score: 723
Period size: 124 Copynumber: 6.0 Consensus size: 124
2708992 AATAAACAAA
* * * * * **
2709002 GCTCCTCTAAATAGAGGTTCAACAAC-TTTAAAAAATAAAAGGCCCCTCTAAACAGAGGTTCAAC
1 GCTCCTCTAAGTAGAGGCTCAATAACTTTTGAAAAATAAAAGGCTCCTCTAAACAGAGGCACAAC
* * * * * *
2709066 AACTTTTAAAAAAAAAAAAAAAAAACTCCTCTAAATAGAGGTATAACAACTTT-AGAACATAAAA
66 AAC-TTT-----AAAAAATAAAAAGCTCCTCTAAACAGAGGCACAACAACTTTGA-AAAATAAAA
2709130 G
124 G
* * *
2709131 GCTCCTCTAA-TCAGAGGCACAATAACTTTTAAAAAATAAAAAGCTCCTCTAAACAGAGGCACAA
1 GCTCCTCTAAGT-AGAGGCTCAATAACTTTTGAAAAATAAAAGGCTCCTCTAAACAGAGGCACAA
* * * *
2709195 CAACTTTTAAAAA-AAAAGGCTCCTCTAAACAGAAGCACAACAACTTTGAAAAATAAAAA
65 CAACTTTAAAAAATAAAAAGCTCCTCTAAACAGAGGCACAACAACTTTGAAAAATAAAAG
* * ** * * * * *
2709254 GTTACTCTAAGTAGAGATTCAATGATTTTTGAAAAATAAAAAGCTCCTCTAAATAGAGGCACTAC
1 GCTCCTCTAAGTAGAGGCTCAATAACTTTTGAAAAATAAAAGGCTCCTCTAAACAGAGGCACAAC
* *
2709319 AACTTTAAAAAATAAAAAGCTCCTCTAAATATAGGCACAACAACTTTGAAAAATAAAAG
66 AACTTTAAAAAATAAAAAGCTCCTCTAAACAGAGGCACAACAACTTTGAAAAATAAAAG
* * * * *
2709378 GTTCCTCTAAGCAGATGCTCAATAACTTTTG-AAAATAAAAGGCTCCTCTAAACAGAGGCATAAT
1 GCTCCTCTAAGTAGAGGCTCAATAACTTTTGAAAAATAAAAGGCTCCTCTAAACAGAGGCACAAC
* * *
2709442 AACTTTTAAAAAATAAAAGGCTCCTCTAAGCAGAGGCATAACAACTTTGAAAAATAAAAG
66 AAC-TTTAAAAAATAAAAAGCTCCTCTAAACAGAGGCACAACAACTTTGAAAAATAAAAG
* ** * * *
2709502 GCTCCTCTAAATAGAGGCTCAACGACTTTT-AAAAATAAAAGGCTCCTATAAATAGAGACACAAC
1 GCTCCTCTAAGTAGAGGCTCAATAACTTTTGAAAAATAAAAGGCTCCTCTAAACAGAGGCACAAC
* * * * *
2709566 AAATTTTGAAAAAT-AAAAGACTCCTCTAAACAGAGACACAATAACTTT-AGAAAATAAAAT
66 -AACTTTAAAAAATAAAAAG-CTCCTCTAAACAGAGGCACAACAACTTTGA-AAAATAAAAG
* * ** * * * * *
2709626 GCTCTTC-AAGTATAGGCTCAATAACTTTTG-AAAATAAAAGGCTTTTTTAAGCAGAAGCTCAAT
1 GCTCCTCTAAGTAGAGGCTCAATAACTTTTGAAAAATAAAAGGCTCCTCTAAACAGAGGCACAAC
* *** * * *
2709689 GACTTTTGTAAAT-AAAAGCTCCTCTAAATAGAGACACAATAACTTTGAAAAATAAAAG
66 AACTTTAAAAAATAAAAAGCTCCTCTAAACAGAGGCACAACAACTTTGAAAAATAAAAG
2709747 GCTCCT
1 GCTCCT
2709753 TGACAATCAT
Statistics
Matches: 520, Mismatches: 90, Indels: 32
0.81 0.14 0.05
Matches are distributed among these distances:
121 41 0.08
122 14 0.03
123 178 0.34
124 223 0.43
125 2 0.00
128 1 0.00
129 24 0.05
130 37 0.07
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (124 bp):
GCTCCTCTAAGTAGAGGCTCAATAACTTTTGAAAAATAAAAGGCTCCTCTAAACAGAGGCACAAC
AACTTTAAAAAATAAAAAGCTCCTCTAAACAGAGGCACAACAACTTTGAAAAATAAAAG
Found at i:2709584 original size:83 final size:83
Alignment explanation
Indices: 2709002--2709752 Score: 566
Period size: 83 Copynumber: 9.1 Consensus size: 83
2708992 AATAAACAAA
* * * * * **
2709002 GCTCCTCTAAATAGAGGTTCAACAACTTTAAAAAATAAAAGGCCCCTCTAAACAGAGGTTCAAC-
1 GCTCCTCTAAACAGAGGCTCAACAACTTTTAAAAATAAAAGGCTCCTCTAAATAGAGGCACAACA
* * *
2709066 AACTTTTAAAAAAAAAAAAAAAAA
66 AAC-TTT-----GAAAAATAAAAG
* * * *
2709090 ACTCCTCTAAATAGAGG-TATAACAAC-TTTAGAACATAAAAGGCTCCTCT-AATCAGAGGCACA
1 GCTCCTCTAAACAGAGGCT-CAACAACTTTTA-AAAATAAAAGGCTCCTCTAAAT-AGAGGCACA
* * *
2709152 A-TAACTTTTAAAAAATAAAAA
63 ACAAAC-TTTGAAAAATAAAAG
* * *
2709173 GCTCCTCTAAACAGAGGCACAACAACTTTTAAAAA-AAAAGGCTCCTCTAAACAGAAGCACAAC-
1 GCTCCTCTAAACAGAGGCTCAACAACTTTTAAAAATAAAAGGCTCCTCTAAATAGAGGCACAACA
*
2709236 AACTTTGAAAAATAAAAA
66 AACTTTGAAAAATAAAAG
* * ** ** ** * * *
2709254 GTTACTCTAAGTAGAGATTCAATGATTTTTGAAAAATAAAAAGCTCCTCTAAATAGAGGCACTAC
1 GCTCCTCTAAACAGAGGCTCAACAACTTTT-AAAAATAAAAGGCTCCTCTAAATAGAGGCACAAC
* *
2709319 -AACTTTAAAAAATAAAAA
65 AAACTTTGAAAAATAAAAG
* * * * * ** * * *
2709337 GCTCCTCTAAATATAGGCACAACAACTTTGAAAAATAAAAGGTTCCTCTAAGCAGATGCTCAA-T
1 GCTCCTCTAAACAGAGGCTCAACAACTTTTAAAAATAAAAGGCTCCTCTAAATAGAGGCACAACA
2709401 AACTTTTG-AAAATAAAAG
66 AAC-TTTGAAAAATAAAAG
* ** *
2709419 GCTCCTCTAAACAGAGGCAT-AATAACTTTTAAAAAATAAAAGGCTCCTCTAAGCAGAGGCATAA
1 GCTCCTCTAAACAGAGGC-TCAACAACTTTT-AAAAATAAAAGGCTCCTCTAAATAGAGGCACAA
2709483 C-AACTTTGAAAAATAAAAG
64 CAAACTTTGAAAAATAAAAG
* * * *
2709502 GCTCCTCTAAATAGAGGCTCAACGACTTTTAAAAATAAAAGGCTCCTATAAATAGAGACACAACA
1 GCTCCTCTAAACAGAGGCTCAACAACTTTTAAAAATAAAAGGCTCCTCTAAATAGAGGCACAACA
*
2709567 AATTTTGAAAAATAAAAG
66 AACTTTGAAAAATAAAAG
* * * * * * * * *
2709585 ACTCCTCTAAACAGAGACACAATAAC-TTTAGAAAATAAAATGCTCTTC-AAGTATAGGCTCAA-
1 GCTCCTCTAAACAGAGGCTCAACAACTTTTA-AAAATAAAAGGCTCCTCTAAATAGAGGCACAAC
*
2709647 TAACTTTTG-AAAATAAAAG
65 AAAC-TTTGAAAAATAAAAG
** * * * ** ** * *
2709666 GCTTTTTTAAGCAGAAGCTCAATGACTTTTGTAAATAAAA-GCTCCTCTAAATAGAGACACAA-T
1 GCTCCTCTAAACAGAGGCTCAACAACTTTTAAAAATAAAAGGCTCCTCTAAATAGAGGCACAACA
2709729 AACTTTGAAAAATAAAAG
66 AACTTTGAAAAATAAAAG
2709747 GCTCCT
1 GCTCCT
2709753 TGACAATCAT
Statistics
Matches: 537, Mismatches: 103, Indels: 53
0.77 0.15 0.08
Matches are distributed among these distances:
80 10 0.02
81 99 0.18
82 147 0.27
83 218 0.41
84 4 0.01
87 6 0.01
88 53 0.10
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCTCAACAACTTTTAAAAATAAAAGGCTCCTCTAAATAGAGGCACAACA
AACTTTGAAAAATAAAAG
Found at i:2709658 original size:165 final size:165
Alignment explanation
Indices: 2708985--2709752 Score: 674
Period size: 165 Copynumber: 4.6 Consensus size: 165
2708975 CTTTTTTTTT
* * * *
2708985 TTTATAAAATAAACAAAGCTCCTCTAAATAGAGGTTCAACAACTTTAAAAAATAAAAGGCCCCTC
1 TTTAAAAAAT-AA-AAAGCTCCTCTAAATAGAGGCTCAACAACTTTTAAAAATAAAAGGCTCCTC
*** * * * * * ** * *
2709050 TAAACAGAGGTTCAACAACTTTTAAAAAAAAAAAAAAAAAACTCCTCTAAATAGAGGTATAACAA
64 TAAACAGAGACACAACAAATTTT-----GAAAAATAAAAGACTCCTCTAAACAGAGACACAATAA
* *
2709115 CTTTAGAACATAAAAGGCTCCTCTAA-TCAGAGGCACAATAAC
124 CTTTAGAAAATAAAAGGCTCCTCTAAGT-AGAGGCACAACAAC
* *
2709157 TTTTAAAAAATAAAAAGCTCCTCTAAACAGAGGCACAACAACTTTTAAAAA-AAAAGGCTCCTCT
1 -TTTAAAAAATAAAAAGCTCCTCTAAATAGAGGCTCAACAACTTTTAAAAATAAAAGGCTCCTCT
* * * ** ** * *
2709221 AAACAGA-AGCACAAC-AACTTTGAAAAATAAAA-AGTTACTCTAAGTAGAGATTCAATGATTTT
65 AAACAGAGA-CACAACAAATTTTGAAAAATAAAAGA-CTCCTCTAAACAGAGACACAATAACTTT
* * * *
2709283 TGAAAAATAAAAAGCTCCTCTAAATAGAGGCACTACAAC
128 AG-AAAATAAAAGGCTCCTCTAAGTAGAGGCACAACAAC
* * * *
2709322 TTTAAAAAATAAAAAGCTCCTCTAAATATAGGCACAACAACTTTGAAAAATAAAAGGTTCCTCTA
1 TTTAAAAAATAAAAAGCTCCTCTAAATAGAGGCTCAACAACTTTTAAAAATAAAAGGCTCCTCTA
* * * * * * *
2709387 AGCAGATG-CTCAATAACTTTTG-AAAATAAAAGGCTCCTCTAAACAGAGGCATAATAACTTTTA
66 AACAGA-GACACAACAAATTTTGAAAAATAAAAGACTCCTCTAAACAGAGACACAATAAC-TTTA
* * *
2709450 AAAAATAAAAGGCTCCTCTAAGCAGAGGCATAACAAC
129 GAAAATAAAAGGCTCCTCTAAGTAGAGGCACAACAAC
* * * *
2709487 TTTGAAAAATAAAAGGCTCCTCTAAATAGAGGCTCAACGACTTTTAAAAATAAAAGGCTCCTATA
1 TTTAAAAAATAAAAAGCTCCTCTAAATAGAGGCTCAACAACTTTTAAAAATAAAAGGCTCCTCTA
*
2709552 AATAGAGACACAACAAATTTTGAAAAATAAAAGACTCCTCTAAACAGAGACACAATAACTTTAGA
66 AACAGAGACACAACAAATTTTGAAAAATAAAAGACTCCTCTAAACAGAGACACAATAACTTTAGA
* * * * *
2709617 AAATAAAATGCTCTTC-AAGTATAGGCTCAATAAC
131 AAATAAAAGGCTCCTCTAAGTAGAGGCACAACAAC
** * ** * ** * ** **
2709651 TTTTGAAAATAAAAGGCTTTTTTAAGCAGAAGCTCAATGACTTTTGTAAATAAAA-GCTCCTCTA
1 TTTAAAAAATAAAAAGCTCCTCTAAATAGAGGCTCAACAACTTTTAAAAATAAAAGGCTCCTCTA
* * * *
2709715 AATAGAGACACAA-TAACTTTGAAAAATAAAAGGCTCCT
66 AACAGAGACACAACAAATTTTGAAAAATAAAAGACTCCT
2709753 TGACAATCAT
Statistics
Matches: 490, Mismatches: 93, Indels: 35
0.79 0.15 0.06
Matches are distributed among these distances:
162 22 0.04
163 22 0.04
164 134 0.27
165 198 0.40
166 42 0.09
169 4 0.01
170 23 0.05
171 34 0.07
172 2 0.00
173 9 0.02
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (165 bp):
TTTAAAAAATAAAAAGCTCCTCTAAATAGAGGCTCAACAACTTTTAAAAATAAAAGGCTCCTCTA
AACAGAGACACAACAAATTTTGAAAAATAAAAGACTCCTCTAAACAGAGACACAATAACTTTAGA
AAATAAAAGGCTCCTCTAAGTAGAGGCACAACAAC
Found at i:2711719 original size:20 final size:20
Alignment explanation
Indices: 2711694--2711734 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2711684 TCAGCAAGTT
*
2711694 ATGCCACATCATTGAAGTCA
1 ATGCCACATCATTAAAGTCA
2711714 ATGCCACATCATTAAAGTCA
1 ATGCCACATCATTAAAGTCA
2711734 A
1 A
2711735 CACCATGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (20 bp):
ATGCCACATCATTAAAGTCA
Found at i:2712864 original size:20 final size:20
Alignment explanation
Indices: 2712810--2712864 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
2712800 GTAAAAACAA
*
2712810 TAAAATATTACATA-TAAAAT
1 TAAAATTTTA-ATATTAAAAT
* *
2712830 TAAAATTTGATTATTAAAAT
1 TAAAATTTTAATATTAAAAT
2712850 TAAAATTTTAATATT
1 TAAAATTTTAATATT
2712865 TTACAATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TAAAATTTTAATATTAAAAT
Found at i:2713441 original size:187 final size:185
Alignment explanation
Indices: 2713204--2713541 Score: 479
Period size: 187 Copynumber: 1.8 Consensus size: 185
2713194 GACAGTTAAG
* *
2713204 TTTTTTAATTCCACAAATAGGATTAAAATGGAAACACAAGTCTTTTATATATTTAAAAAAATTAA
1 TTTTTTAACTCCACAAATAGGATTAAAATAGAAACACAAGTCTTTTATATATTTAAAAAAATTAA
**
2713269 TTTTAAAAAGAAATAAAATGCATGT-T-ATCATCTTAATTTCGTTTGTGAAATT-AAAAAA-TTT
66 TTTT--AAA-AAATAAAA--CATGTGTCATCATCTTAATTTCACTTGTGAAATTAAAAAAACTTT
*
2713330 CACTATCAGTATATCAAATAATTTCTCTTAAGAAAAAAAAAATTATCACTGACGATAAAAT
126 -ACTATCAATATATCAAATAATTTCTCTTAAGAAAAAAAAAATTATCACTGACGATAAAAT
* * *
2713391 TTTTTTAACTCCATAAAT-GAGATTAAGATAGAAACACATGTCTTTTATATATTTAAAAAAATTA
1 TTTTTTAACTCCACAAATAG-GATTAAAATAGAAACACAAGTCTTTTATATATTTAAAAAAATTA
* *
2713455 ATTTTAAAAAATAAAACATGTGTCATCATCTTAATTTTACTTGTGAAATTAAAAAAAACTTTATT
65 ATTTTAAAAAATAAAACATGTGTCATCATCTTAATTTCACTTGTGAAATT-AAAAAAACTTTACT
2713520 ATCAATATATCAAATAATTTCT
129 ATCAATATATCAAATAATTTCT
2713542 TCTGAAATAA
Statistics
Matches: 135, Mismatches: 10, Indels: 13
0.85 0.06 0.08
Matches are distributed among these distances:
182 5 0.04
183 1 0.01
184 31 0.23
185 3 0.02
186 30 0.22
187 65 0.48
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (185 bp):
TTTTTTAACTCCACAAATAGGATTAAAATAGAAACACAAGTCTTTTATATATTTAAAAAAATTAA
TTTTAAAAAATAAAACATGTGTCATCATCTTAATTTCACTTGTGAAATTAAAAAAACTTTACTAT
CAATATATCAAATAATTTCTCTTAAGAAAAAAAAAATTATCACTGACGATAAAAT
Found at i:2728598 original size:2 final size:2
Alignment explanation
Indices: 2728591--2728650 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
2728581 AAGACATATA
2728591 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2728633 AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG
2728651 TAGCCATAAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2735364 original size:181 final size:181
Alignment explanation
Indices: 2735030--2735364 Score: 383
Period size: 180 Copynumber: 1.9 Consensus size: 181
2735020 AATAATATGA
* *
2735030 TAATTATTTTTTATTGAAATTTCATTGAAATTCTTCCACAATTTAGGACAAATTTAAAAAAATTT
1 TAATTATTTGTTATTGAAATTTCATTGAAATTATTCCACAATTTAGGACAAATTTAAAAAAATTT
* * * *
2735095 CTCACCTAAAAATTTCTTAGAAATTTATAATTTAAAATTTCTAAGAATCTCATCATTGGATAATT
66 CTCACATAAAAATTTCTTAAAAATTTACAATTAAAAATTTCTAAGAATCTCATCATTGGATAATT
* * **
2735160 GTCAAATATTTTTAACTAAAATTTTTTATTTTTTTGATTGAAAATAAATAT
131 ATCAAATATTTCTAAAAAAAATTTTTTATTTTTTTGATTGAAAATAAATAT
* * * * *
2735211 TAATTA-TTGTTATTGAAATTTTATTTAAATTATTTCACAATTTGGGACAAATTTAGACAAAATT
1 TAATTATTTGTTATTGAAATTTCATTGAAATTATTCCACAATTTAGGACAAATTTA-AAAAAATT
* ** * *
2735275 TCTTACATAGGAATTT-TATAAAAAATTTACCATATAAAAATTT-TAA-AATTTTCATCATTGGA
65 TCTCACATAAAAATTTCT-T-AAAAATTTACAAT-TAAAAATTTCTAAGAA-TCTCATCATTGGA
* **
2735337 TAATTATTATTTA-TTCTAAAAAAAATTT
126 TAATTATCAAATATTTCTAAAAAAAATTT
2735365 ATTTTGTTTT
Statistics
Matches: 126, Mismatches: 23, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
180 44 0.35
181 40 0.32
182 34 0.27
183 8 0.06
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.44
Consensus pattern (181 bp):
TAATTATTTGTTATTGAAATTTCATTGAAATTATTCCACAATTTAGGACAAATTTAAAAAAATTT
CTCACATAAAAATTTCTTAAAAATTTACAATTAAAAATTTCTAAGAATCTCATCATTGGATAATT
ATCAAATATTTCTAAAAAAAATTTTTTATTTTTTTGATTGAAAATAAATAT
Found at i:2736639 original size:44 final size:44
Alignment explanation
Indices: 2736593--2737082 Score: 342
Period size: 43 Copynumber: 11.6 Consensus size: 44
2736583 GAGACTCCAC
** * * *
2736593 AACTTTTGAAAAATAAACGAGGCTCCTCTAAATAAAGGCTTAAC
1 AACTTTTGAAAAATAAATAAAGCTCCTCTAAGTAAAGGCTTAAT
*
2736637 AACTTTTGAAAAATAAATAAAGCTCTTCTAAGTAGAA-GCTTAAT
1 AACTTTTGAAAAATAAATAAAGCTCCTCTAAGTA-AAGGCTTAAT
* * * *
2736681 AA-TTTTAAAAAATAAATAAAGCTCCTCTAAGCAAAAGCTCAAT
1 AACTTTTGAAAAATAAATAAAGCTCCTCTAAGTAAAGGCTTAAT
** *
2736724 AACTTTTG----A-AAATAAAGCTCCTCTAAACAGAGGCTTAAT
1 AACTTTTGAAAAATAAATAAAGCTCCTCTAAGTAAAGGCTTAAT
* * *
2736763 GA-TTTTGAAAAATAAATAAAGC-CTCTCTAAGTAGAGGCTCAAT
1 AACTTTTGAAAAATAAATAAAGCTC-CTCTAAGTAAAGGCTTAAT
* ** * * *
2736806 AACTTTTGAAAAATAAATAAAACTTATCTAAATAGA-GCTCAA-
1 AACTTTTGAAAAATAAATAAAGCTCCTCTAAGTAAAGGCTTAAT
* ** * * * *
2736848 AGAC-TTTGAAAAATAAATAAAGTTTTTCTAAGCAAAGACTCAAC
1 A-ACTTTTGAAAAATAAATAAAGCTCCTCTAAGTAAAGGCTTAAT
** ** *
2736892 AAC-TTTG--AAA-AAATAAAGCTAATCTAAACAAAGGCTTAAC
1 AACTTTTGAAAAATAAATAAAGCTCCTCTAAGTAAAGGCTTAAT
* * ** * * *
2736932 AA-TTTT--TAAA-AAATAAAGCTCTTCTAAACAGAGGTTTAAC
1 AACTTTTGAAAAATAAATAAAGCTCCTCTAAGTAAAGGCTTAAT
* * * * *
2736972 AACTTTTGAAAAATAAATAAAGTTCTTCTAAGCAAAGGCTCAAC
1 AACTTTTGAAAAATAAATAAAGCTCCTCTAAGTAAAGGCTTAAT
* * *
2737016 AAC-TTTGAAAAATAAATAAAGCTCATCTAAGCAGAGG-TTCAAT
1 AACTTTTGAAAAATAAATAAAGCTCCTCTAAGTAAAGGCTT-AAT
2737059 AAC-TTTGAAAAATAAATAAAGCTC
1 AACTTTTGAAAAATAAATAAAGCTC
2737083 TTTGACAATC
Statistics
Matches: 373, Mismatches: 52, Indels: 43
0.80 0.11 0.09
Matches are distributed among these distances:
38 5 0.01
39 27 0.07
40 61 0.16
41 7 0.02
42 32 0.09
43 141 0.38
44 98 0.26
45 2 0.01
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.27
Consensus pattern (44 bp):
AACTTTTGAAAAATAAATAAAGCTCCTCTAAGTAAAGGCTTAAT
Found at i:2736774 original size:82 final size:83
Alignment explanation
Indices: 2736577--2737074 Score: 339
Period size: 82 Copynumber: 5.9 Consensus size: 83
2736567 AAAACTCCTT
* ** ** * ** * * *
2736577 TAAACAGAGACTCCACAACTTTTGAAAAATAAACGAGGCTCCTCTAAATAAAGGCTTAACAACTT
1 TAAACAGAGGCTTAACAA-TTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAATAACTT
*
2736642 TTGAAAAATAAATAAAGCTCTTC
65 TTG---AA-AAATAAAGCTCATC
** * * * * *
2736665 TAAGTAGAAGCTTAATAATTTTAAAAAATAAATAAAGCTCCTCTAAGCAAAAGCTCAATAACTTT
1 TAAACAGAGGCTTAACAATTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAATAACTTT
*
2736730 TG-AAAATAAAGCTCCTC
66 TGAAAAATAAAGCTCATC
** *
2736747 TAAACAGAGGCTTAATGATTTTGAAAAATAAATAAAGC-CTCTCTAAGTAGAGGCTCAATAACTT
1 TAAACAGAGGCTTAACAATTTTGAAAAATAAATAAAGCTC-CTCTAAGCAGAGGCTCAATAACTT
* *
2736811 TTGAAAAATAAATAAAACTTATC
65 TTG---AA-AAATAAAGCTCATC
* * * * ** * * *
2736834 TAAATAGA-GCTCAA-AGACTTTGAAAAATAAATAAAGTTTTTCTAAGCAAAGACTCAACAAC-T
1 TAAACAGAGGCTTAACA-ATTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAATAACTT
*
2736896 TTGAAAAAATAAAGCTAATC
65 TTG-AAAAATAAAGCTCATC
* * * * * * *
2736916 TAAACAAAGGCTTAACAATTTT--TAAA-AAATAAAGCTCTTCTAAACAGAGGTTTAACAACTTT
1 TAAACAGAGGCTTAACAATTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAATAACTTT
* *
2736978 TGAAAAATAAATAAAGTTCTTC
66 TG---AA-AAATAAAGCTCATC
* * * * * *
2737000 TAAGCAAAGGCTCAACAACTTTGAAAAATAAATAAAGCTCATCTAAGCAGAGGTTCAATAAC-TT
1 TAAACAGAGGCTTAACAATTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAATAACTTT
2737064 TGAAAAATAAA
66 TGAAAAATAAA
2737075 TAAAGCTCTT
Statistics
Matches: 329, Mismatches: 64, Indels: 40
0.76 0.15 0.09
Matches are distributed among these distances:
80 26 0.08
81 8 0.02
82 95 0.29
83 18 0.05
84 31 0.09
85 4 0.01
86 49 0.15
87 87 0.26
88 11 0.03
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (83 bp):
TAAACAGAGGCTTAACAATTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAATAACTTT
TGAAAAATAAAGCTCATC
Found at i:2736775 original size:39 final size:39
Alignment explanation
Indices: 2736694--2736778 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
2736684 TTTAAAAAAT
*
2736694 AAATAAAGCTCCTCTAAGCAAAAGCTCAATAACTTTTGA
1 AAATAAAGCTCCTCTAAACAAAAGCTCAATAACTTTTGA
* * * *
2736733 AAATAAAGCTCCTCTAAACAGAGGCTTAATGA-TTTTGAA
1 AAATAAAGCTCCTCTAAACAAAAGCTCAATAACTTTTG-A
2736772 AAATAAA
1 AAATAAA
2736779 TAAAGCCTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 5 0.12
39 35 0.88
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (39 bp):
AAATAAAGCTCCTCTAAACAAAAGCTCAATAACTTTTGA
Found at i:2736845 original size:125 final size:125
Alignment explanation
Indices: 2736614--2736864 Score: 314
Period size: 125 Copynumber: 2.0 Consensus size: 125
2736604 AATAAACGAG
* *
2736614 GCTCCTCTAAATAAAGGCTTAACAACTTTTGAAAAATAAATAAAGCTCTTCTAAGTAGAAGCTTA
1 GCTCCTCTAAACAAAGGCTTAACAACTTTTGAAAAATAAATAAAGCTCTTCTAAGTAGAAGCTCA
* *
2736679 ATAATTTTAAAAAATAAATAAAGCTCCTCTAAGCAAAAGCTCAATA-ACTTTTG-AAAATAAA
66 ATAATTTTAAAAAATAAATAAAACTCATCTAA-CAAAAGCTCAA-AGAC-TTTGAAAAATAAA
* ** *
2736740 GCTCCTCTAAACAGAGGCTTAATGA-TTTTGAAAAATAAATAAAGC-CTCTCTAAGTAGAGGCTC
1 GCTCCTCTAAACAAAGGCTTAACAACTTTTGAAAAATAAATAAAGCTCT-TCTAAGTAGAAGCTC
* * *
2736803 AATAACTTTTGAAAAATAAATAAAACTTATCTAA-ATAGAGCTCAAAGACTTTGAAAAATAAA
65 AATAA-TTTTAAAAAATAAATAAAACTCATCTAACA-AAAGCTCAAAGACTTTGAAAAATAAA
2736865 TAAAGTTTTT
Statistics
Matches: 109, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
124 8 0.07
125 56 0.51
126 45 0.41
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (125 bp):
GCTCCTCTAAACAAAGGCTTAACAACTTTTGAAAAATAAATAAAGCTCTTCTAAGTAGAAGCTCA
ATAATTTTAAAAAATAAATAAAACTCATCTAACAAAAGCTCAAAGACTTTGAAAAATAAA
Found at i:2738456 original size:38 final size:41
Alignment explanation
Indices: 2738414--2738514 Score: 111
Period size: 38 Copynumber: 2.5 Consensus size: 41
2738404 ATTTTTTCTC
*
2738414 TTTTTATATTTTTTCTTTTTCATTTTTCATTTT-CCC-T-T
1 TTTTTATCTTTTTTCTTTTTCATTTTTCATTTTCCCCTTAT
* **
2738452 TTTTTCTCTTTTTT-TTTCTTTTTTTTTCATTTTCCCCTTAT
1 TTTTTATCTTTTTTCTTT-TTCATTTTTCATTTTCCCCTTAT
2738493 TTTTTCATCTTTTTCTCTTTTT
1 TTTTT-ATCTTTTT-TCTTTTT
2738515 TTATTATTGA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
37 3 0.06
38 25 0.49
39 3 0.06
40 1 0.02
41 6 0.12
42 7 0.14
43 3 0.06
44 3 0.06
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (41 bp):
TTTTTATCTTTTTTCTTTTTCATTTTTCATTTTCCCCTTAT
Found at i:2738462 original size:10 final size:10
Alignment explanation
Indices: 2738443--2738516 Score: 53
Period size: 10 Copynumber: 7.4 Consensus size: 10
2738433 TCATTTTTCA
*
2738443 TTTTCCCTTT
1 TTTTCTCTTT
2738453 TTTTCTCTTT
1 TTTTCTCTTT
*
2738463 TTTTTTCTTT
1 TTTTCTCTTT
* *
2738473 TTTTTTC-AT
1 TTTTCTCTTT
* *
2738482 TTTCCCCTTAT
1 TTTTCTCTT-T
*
2738493 TTTT-TCATCT
1 TTTTCTC-TTT
2738503 TTTTCTCTTT
1 TTTTCTCTTT
2738513 TTTT
1 TTTT
2738517 ATTATTGATA
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
9 5 0.10
10 37 0.76
11 7 0.14
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTCTCTTT
Found at i:2738490 original size:39 final size:39
Alignment explanation
Indices: 2738422--2738516 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 39
2738412 TCTTTTTATA
*
2738422 TTTTTTCTTTTTCATTTTTCATTTTCCCTT-TTTTTCTC-TTT
1 TTTTTTC-TTTT--TTTTTCATTTTCCCTTATTTTT-TCATCT
2738463 TTTTTTCTTTTTTTTTCATTTTCCCCTTATTTTTTCATCT
1 TTTTTTCTTTTTTTTTCATTTT-CCCTTATTTTTTCATCT
*
2738503 TTTTCTCTTTTTTT
1 TTTTTTCTTTTTTT
2738517 ATTATTGATA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
38 11 0.22
39 7 0.14
40 24 0.49
41 7 0.14
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (39 bp):
TTTTTTCTTTTTTTTTCATTTTCCCTTATTTTTTCATCT
Found at i:2748898 original size:22 final size:24
Alignment explanation
Indices: 2748850--2748899 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
2748840 AAACTCAAAA
2748850 TTTAACAAATATAATATAATATCAT
1 TTTAACAAATATAATATAATA-CAT
*
2748875 TTTAACAAATTTAATAT-ATA-AT
1 TTTAACAAATATAATATAATACAT
2748897 TTT
1 TTT
2748900 TCAATTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
24 3 0.12
25 16 0.67
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTAACAAATATAATATAATACAT
Found at i:2749826 original size:9 final size:8
Alignment explanation
Indices: 2749805--2749934 Score: 54
Period size: 9 Copynumber: 15.5 Consensus size: 8
2749795 ATACTATTAC
2749805 TATTAGTAT
1 TATTA-TAT
2749814 TATTATAT
1 TATTATAT
2749822 ATATTATAT
1 -TATTATAT
*
2749831 T-GTATAT
1 TATTATAT
2749838 TATTAATAT
1 TATT-ATAT
* *
2749847 TGTGATCTAT
1 TAT--TATAT
*
2749857 TAGTACTAT
1 TATTA-TAT
2749866 TATTATA-
1 TATTATAT
2749873 T-TTATCAT
1 TATTAT-AT
*
2749881 TATTCTAT
1 TATTATAT
*
2749889 TA-TACCA-
1 TATTA-TAT
2749896 TATTACTAT
1 TATTA-TAT
*
2749905 TATGATTAT
1 TATTA-TAT
2749914 TATTAGTAT
1 TATTA-TAT
*
2749923 TATTGTAT
1 TATTATAT
2749931 TATT
1 TATT
2749935 TTTATTTTTA
Statistics
Matches: 92, Mismatches: 17, Indels: 25
0.69 0.13 0.19
Matches are distributed among these distances:
6 4 0.04
7 11 0.12
8 25 0.27
9 47 0.51
10 4 0.04
11 1 0.01
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.55
Consensus pattern (8 bp):
TATTATAT
Found at i:2749846 original size:16 final size:16
Alignment explanation
Indices: 2749817--2749849 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2749807 TTAGTATTAT
2749817 TATATATATTATATTG
1 TATATATATTATATTG
2749833 TATAT-TATTAATATTG
1 TATATATATT-ATATTG
2749849 T
1 T
2749850 GATCTATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TATATATATTATATTG
Found at i:2749924 original size:12 final size:11
Alignment explanation
Indices: 2749799--2749926 Score: 55
Period size: 12 Copynumber: 10.6 Consensus size: 11
2749789 GATACTATAC
*
2749799 TATTACTATTA
1 TATTATTATTA
2749810 GTATTATTATATA
1 -TATTATTAT-TA
*
2749823 TATTA-TATTG
1 TATTATTATTA
2749833 TA-TATTATTAA
1 TATTATTATT-A
2749844 TATTGTGATCTATTA
1 TA-T-T-AT-TATTA
*
2749859 GTACTATTATTA
1 -TATTATTATTA
*
2749871 TATTTATCATTA
1 TA-TTATTATTA
*
2749883 T-TCTATTATACCA
1 TAT-TATTAT--TA
*
2749896 TATTACTATTA
1 TATTATTATTA
2749907 TGATTATTATTA
1 T-ATTATTATTA
2749919 GTATTATT
1 -TATTATT
2749927 GTATTATTTT
Statistics
Matches: 89, Mismatches: 11, Indels: 32
0.67 0.08 0.24
Matches are distributed among these distances:
9 2 0.02
10 8 0.09
11 14 0.16
12 41 0.46
13 12 0.13
14 3 0.03
15 3 0.03
16 6 0.07
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (11 bp):
TATTATTATTA
Found at i:2750778 original size:18 final size:18
Alignment explanation
Indices: 2750745--2750835 Score: 60
Period size: 18 Copynumber: 5.0 Consensus size: 18
2750735 TCATTTTCTT
* *
2750745 TTTATTTTCTAATTTTTA
1 TTTATTTTATATTTTTTA
*
2750763 TTTATTTTATATTTTTAA
1 TTTATTTTATATTTTTTA
* * *
2750781 TTGATTTCATTTTATTTTA
1 TTTATTTTATATT-TTTTA
* *
2750800 -TT-TTTAATCTTTTTTA
1 TTTATTTTATATTTTTTA
*
2750816 TTTGTTTTATTGATTTTTTA
1 TTTATTTTA-T-ATTTTTTA
2750836 CTGTTTATTT
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
16 5 0.09
17 9 0.16
18 30 0.54
19 5 0.09
20 7 0.12
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTATTTTATATTTTTTA
Found at i:2750818 original size:26 final size:26
Alignment explanation
Indices: 2750729--2750826 Score: 73
Period size: 26 Copynumber: 3.8 Consensus size: 26
2750719 CGTAGGTTTT
*
2750729 TCTTTTTCATTTTCTTTTTATTTTCTAA
1 TCTTTTTCATTTT-ATTTTATTTT-TAA
2750757 --TTTTT-A-TTTATTTTATATTTTTAA
1 TCTTTTTCATTTTA-TTT-TATTTTTAA
*
2750781 T-TGATTTCATTTTATTTTATTTTTAA
1 TCT-TTTTCATTTTATTTTATTTTTAA
* *
2750807 TCTTTTTTA-TTTGTTTTATT
1 TCTTTTTCATTTTATTTTATT
2750827 GATTTTTTAC
Statistics
Matches: 58, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
24 9 0.16
25 18 0.31
26 22 0.38
27 5 0.09
28 4 0.07
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.73
Consensus pattern (26 bp):
TCTTTTTCATTTTATTTTATTTTTAA
Found at i:2750834 original size:21 final size:21
Alignment explanation
Indices: 2750762--2750831 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 21
2750752 TCTAATTTTT
*
2750762 ATTTATTTTATATTTTTAATTG
1 ATTTATTTTAT-TTTTTTATTG
*
2750784 ATTTCATTTTATTTTATTT-TTA
1 ATTT-ATTTTATTTT-TTTATTG
2750806 ATCTT-TTTTATTTGTTTTATTG
1 AT-TTATTTTATTT-TTTTATTG
2750828 ATTT
1 ATTT
2750832 TTTACTGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
21 13 0.32
22 16 0.40
23 11 0.28
ACGTcount: A:0.21, C:0.03, G:0.04, T:0.71
Consensus pattern (21 bp):
ATTTATTTTATTTTTTTATTG
Found at i:2751713 original size:42 final size:41
Alignment explanation
Indices: 2751665--2751779 Score: 142
Period size: 42 Copynumber: 2.8 Consensus size: 41
2751655 ATTTTATCAT
2751665 TTTTCATTGCTTATACTTGCTTAATTATTTATTT-TCTATTCC
1 TTTTCATTGCTTATACTTGCTTAATTATTTATTTGT-T-TTCC
* * **
2751707 TTTTCATTGTTTATACTTGCTTAATTATTCATTTGTTTTTT
1 TTTTCATTGCTTATACTTGCTTAATTATTTATTTGTTTTCC
**
2751748 TTATTCATTGCTTATGTTTGCTTAATTATTTA
1 TT-TTCATTGCTTATACTTGCTTAATTATTTA
2751780 GATATTGTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.92
43 1 0.02
ACGTcount: A:0.19, C:0.12, G:0.07, T:0.62
Consensus pattern (41 bp):
TTTTCATTGCTTATACTTGCTTAATTATTTATTTGTTTTCC
Found at i:2755162 original size:29 final size:29
Alignment explanation
Indices: 2755115--2755293 Score: 109
Period size: 30 Copynumber: 6.1 Consensus size: 29
2755105 AAGATTCGGA
* * *
2755115 TTTTAAGGGTTTGGATTTAAATTTTGAGGG
1 TTTT-AGGGTTTGGTTTTAAAGTTTGAAGG
* *
2755145 TTTTAGGGTTTGGTTTTAAGGTATGAAAGG
1 TTTTAGGGTTTGGTTTTAAAGTTTG-AAGG
* * *
2755175 -TTTAGGGTTTTGATTTTAGAGTTTGAAGA
1 TTTTAGGG-TTTGGTTTTAAAGTTTGAAGG
* *
2755204 TTTTAGGGTTTCGCTTTTAAAATTTG-AGG
1 TTTTAGGGTTT-GGTTTTAAAGTTTGAAGG
* * *
2755233 -TTTGGGGTTTTGATTTAAAGGTTTGAA--
1 TTTTAGGGTTTGGTTTTAAA-GTTTGAAGG
* *
2755260 TTTTAGGGGGTTTGGATTTAAGAG-TTAAAGG
1 TTTTA--GGGTTTGGTTTTAA-AGTTTGAAGG
2755291 TTT
1 TTT
2755294 GAGATTTCGG
Statistics
Matches: 115, Mismatches: 22, Indels: 23
0.72 0.14 0.14
Matches are distributed among these distances:
27 6 0.05
28 16 0.14
29 37 0.32
30 52 0.45
31 4 0.03
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (29 bp):
TTTTAGGGTTTGGTTTTAAAGTTTGAAGG
Found at i:2755332 original size:16 final size:16
Alignment explanation
Indices: 2755296--2755414 Score: 98
Period size: 16 Copynumber: 7.4 Consensus size: 16
2755286 AAAGGTTTGA
*
2755296 GATTTCGGATTTTATGG
1 GATTTTGGATTTTA-GG
*
2755313 GGTTTTGGATTTTAGG
1 GATTTTGGATTTTAGG
* * * *
2755329 GGTTTTAGATCTAAGG
1 GATTTTGGATTTTAGG
** *
2755345 GATTTTTCATTTTA-A
1 GATTTTGGATTTTAGG
*
2755360 GAGTTTTGAATTTTA-G
1 GA-TTTTGGATTTTAGG
2755376 GATTTTGGATTTTATGG
1 GATTTTGGATTTTA-GG
2755393 GATTTTGGATTTTAGG
1 GATTTTGGATTTTAGG
*
2755409 GCTTTT
1 GATTTT
2755415 AGAAACCTAG
Statistics
Matches: 83, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
15 13 0.16
16 43 0.52
17 27 0.33
ACGTcount: A:0.19, C:0.03, G:0.27, T:0.50
Consensus pattern (16 bp):
GATTTTGGATTTTAGG
Found at i:2756166 original size:15 final size:15
Alignment explanation
Indices: 2756146--2756185 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
2756136 ACCCTCTTTT
*
2756146 TTTTATTTTTTTATA
1 TTTTATTATTTTATA
2756161 TTTTA-TATTTTATA
1 TTTTATTATTTTATA
2756175 TTATTATTATT
1 TT-TTATTATT
2756186 ATTAAATAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 10 0.45
15 8 0.36
16 4 0.18
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTATTATTTTATA
Found at i:2756531 original size:10 final size:10
Alignment explanation
Indices: 2756516--2756546 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
2756506 GGGAAAAATA
2756516 TTTTCTTTTT
1 TTTTCTTTTT
2756526 TTTTCTTTTTT
1 TTTTC-TTTTT
2756537 TTTTCTTTTT
1 TTTTCTTTTT
2756547 CATGCATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:2756537 original size:11 final size:11
Alignment explanation
Indices: 2756516--2756546 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
2756506 GGGAAAAATA
2756516 TTTTC-TTTTT
1 TTTTCTTTTTT
2756526 TTTTCTTTTTT
1 TTTTCTTTTTT
2756537 TTTTCTTTTT
1 TTTTCTTTTT
2756547 CATGCATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:2764892 original size:227 final size:228
Alignment explanation
Indices: 2764494--2765122 Score: 585
Period size: 227 Copynumber: 2.8 Consensus size: 228
2764484 CTCAATCTTA
* * * ** * ***
2764494 GTCACTCTCAAACTCATAGCATCATCTCAGTCATCCAATCTTAGTTCAAGTTAGATCATTTTTTG
1 GTCACTTTCAAACTCACAGCATCATCTCAATCATCCAATCTTAACTCAAGCTAGATCATTTCAAG
* ** ** *
2764559 ATTCGTGACATTGTCCCGATCATTCATCTATGACCTTGACTTGATTGT-GGTCATTTTTAGACTT
66 ACTCACGACATCATCTCGATCATTCATCTATGACCTTGACTTGATT-TAGGTCATTTTTAGACTT
** ** * * *
2764623 ATGACATCTTTTCAGTCATTCGATTTCGATTCAAGTTAGATCACTT-CAAGACTCGTGGCGTCGT
130 GCGACATCTCCTCAATCATTCGATTTCGATTCAAGCTAGATCA-TTCCAAGACTCGTGGCATCGT
* * * * *
2764687 CTCGATCATTCATCTATGACTTTGACTCAGTCTAG
194 ATCAATCATTCATCCATGACCTTGACGCAGTCTAG
* * * * * * *
2764722 GTTACTTTCAAACTCATA-TATTATCTCAATTATCCAATCTTAACT-GAGATCAGATCATTTCAA
1 GTCACTTTCAAACTCACAGCATCATCTCAATCATCCAATCTTAACTCAAGCT-AGATCATTTCAA
* * *
2764785 GACTTACGACATCATCTCGATCATTCATCTATGATCTTGACTTGATTTAGGTCATTTTTAAACTT
65 GACTCACGACATCATCTCGATCATTCATCTATGACCTTGACTTGATTTAGGTCATTTTTAGACTT
** * *
2764850 GCGACATCATCCT-AATCAATT-GATTTC-AGTTC-AGACTAGATCATTCCCTGATTCGTGGTAT
130 GCGACATC-TCCTCAATC-ATTCGATTTCGA-TTCAAG-CTAGATCATTCCAAGACTCGTGGCAT
*
2764911 CGTATCAATCATTCATCCATGACCTTGACGCAGTCTTG
191 CGTATCAATCATTCATCCATGACCTTGACGCAGTCTAG
* * * * ** *
2764949 GTCACTTTTAAACTCACAGCATCGTCTCAGTCATCTAATCTTGGCTCAAGCTAGATCATTTTAAG
1 GTCACTTTCAAACTCACAGCATCATCTCAATCATCCAATCTTAACTCAAGCTAGATCATTTCAAG
* * * *
2765014 ACTCACGACATCATCTCGATCATTCATCTATGACCTTAACTCGATCTAGGTCACTTTTAGACTTG
66 ACTCACGACATCATCTCGATCATTCATCTATGACCTTGACTTGATTTAGGTCATTTTTAGACTTG
* * * * *
2765079 C-AGCATCTTCTCAGTCATCCAATCTT-GACTCAAGCTAGATCATT
131 CGA-CATCTCCTCAATCATTCGAT-TTCGATTCAAGCTAGATCATT
2765123 TTTAGATTCA
Statistics
Matches: 321, Mismatches: 65, Indels: 30
0.77 0.16 0.07
Matches are distributed among these distances:
226 9 0.03
227 172 0.54
228 132 0.41
229 8 0.02
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (228 bp):
GTCACTTTCAAACTCACAGCATCATCTCAATCATCCAATCTTAACTCAAGCTAGATCATTTCAAG
ACTCACGACATCATCTCGATCATTCATCTATGACCTTGACTTGATTTAGGTCATTTTTAGACTTG
CGACATCTCCTCAATCATTCGATTTCGATTCAAGCTAGATCATTCCAAGACTCGTGGCATCGTAT
CAATCATTCATCCATGACCTTGACGCAGTCTAG
Found at i:2765123 original size:114 final size:113
Alignment explanation
Indices: 2764451--2765298 Score: 392
Period size: 114 Copynumber: 7.5 Consensus size: 113
2764441 TCAGACTTAC
* * * * * * *
2764451 GACATCATTTCGATCATTCATCTAGGACTTTAACTCAATCTTA-GTCACTCTCAAAC-TCATAGC
1 GACATCATCTCGATCATTCATCTATGACCTTGACTCGATC-TAGGTCACTTTTAAACTTC--AGC
* * * ** * *
2764514 ATCATCTCAGTCATCCAATCTT-AGTTCAAGTTAGATCATTTTTTGATTCGT
63 ATCTTCTCAGTCATCCAATCTTGA-CTCAAGCTAGATCATTTTAAGACTCAT
** * * * * *
2764565 GACATTGTCCCGATCATTCATCTATGACCTTGACTTGAT-TGTGGTCATTTTTAGACTT-ATGAC
1 GACATCATCTCGATCATTCATCTATGACCTTGACTCGATCT-AGGTCACTTTTAAACTTCA-G-C
* * * * * * * *
2764628 ATCTTTTCAGTCATTCGAT-TTCGATTCAAGTTAGATCACTTCAAGACTCGT
63 ATCTTCTCAGTCATCCAATCTT-GACTCAAGCTAGATCATTTTAAGACTCAT
* * * * * * *
2764679 GGCGTCGTCTCGATCATTCATCTATGACTTTGACTC-AGTCTAGGTTACTTTCAAAC-TCA-TAT
1 GACATCATCTCGATCATTCATCTATGACCTTGACTCGA-TCTAGGTCACTTTTAAACTTCAGCAT
* * * * * * * * *
2764741 ATTATCTCAATTATCCAATCTTAACT-GAGATCAGATCATTTCAAGACTTAC
65 -CT-TCTCAGTCATCCAATCTTGACTCAAGCT-AGATCATTTTAAGACTCAT
* * * *
2764792 GACATCATCTCGATCATTCATCTATGATCTTGACTTGATTTAGGTCATTTTTAAACTTGC-GACA
1 GACATCATCTCGATCATTCATCTATGACCTTGACTCGATCTAGGTCACTTTTAAACTT-CAG-CA
* * ** * * **** * *
2764856 TCATC-CTAATCAAT-TGAT-TTCAGTTC-AGACTAGATCATTCCCTGATTCGT
64 TCTTCTC-AGTC-ATCCAATCTTGA-CTCAAG-CTAGATCATTTTAAGACTCAT
** * * * * * * *
2764906 GGTATCGTATCAATCATTCATCCATGACCTTGACGC-AGTCTTGGTCACTTTTAAACTCACAGCA
1 GACATCATCTCGATCATTCATCTATGACCTTGACTCGA-TCTAGGTCACTTTTAAACT-TCAGCA
* * * *
2764970 TCGTCTCAGTCATCTAATCTTGGCTCAAGCTAGATCATTTTAAGACTCAC
64 TCTTCTCAGTCATCCAATCTTGACTCAAGCTAGATCATTTTAAGACTCAT
* *
2765020 GACATCATCTCGATCATTCATCTATGACCTTAACTCGATCTAGGTCACTTTTAGACTTGCAGCAT
1 GACATCATCTCGATCATTCATCTATGACCTTGACTCGATCTAGGTCACTTTTAAACTT-CAGCAT
* *
2765085 CTTCTCAGTCATCCAATCTTGACTCAAGCTAGATCATTTTTAGATTCAT
65 CTTCTCAGTCATCCAATCTTGACTCAAGCTAGATCATTTTAAGACTCAT
* * * * * * *
2765134 GGCATCTTCTCGATAATTCATCTACGA-CTTGACTCAAAT-TTGGTCA-TTTCTAGAC-TCATGA
1 GACATCATCTCGATCATTCATCTATGACCTTGACTC-GATCTAGGTCACTTT-TAAACTTCA-G-
* *** * * * *
2765195 CAT-TGCCTCAGTCATTTGATC-TCAGTTCAAG-TCAGATCATTTTCAGACTCGT
62 CATCT-TCTCAGTCATCCAATCTTGA-CTCAAGCT-AGATCATTTTAAGACTCAT
* * * * * *
2765247 AACATCATCTCAATCATTCATTTATGACCTCGACTCGATCTTGATCACTTTT
1 GACATCATCTCGATCATTCATCTATGACCTTGACTCGATCTAGGTCACTTTT
2765299 TGACTTGCGA
Statistics
Matches: 547, Mismatches: 144, Indels: 86
0.70 0.19 0.11
Matches are distributed among these distances:
111 4 0.01
112 15 0.03
113 159 0.29
114 350 0.64
115 17 0.03
116 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (113 bp):
GACATCATCTCGATCATTCATCTATGACCTTGACTCGATCTAGGTCACTTTTAAACTTCAGCATC
TTCTCAGTCATCCAATCTTGACTCAAGCTAGATCATTTTAAGACTCAT
Found at i:2765127 original size:54 final size:54
Alignment explanation
Indices: 2764954--2765144 Score: 147
Period size: 54 Copynumber: 3.4 Consensus size: 54
2764944 TCTTGGTCAC
* * *
2764954 TTTTAAAC-TCACAGCATCGTCTCAGTCATCTAATCTTGGCTCAAGCTAGATCAT
1 TTTTAGACTTCAC-GCATCTTCTCAGTCATCTAATCTTGACTCAAGCTAGATCAT
* * * * * * * *
2765008 TTTAAGAC-TCACGACATCATCTCGATCATTCATCTATGACCTTAACTCGATCTAGGTCAC
1 TTTTAGACTTCACG-CATC-T-TC--TCAGTCATCTA--ATCTTGACTCAAGCTAGATCAT
*
2765068 TTTTAGACTTGCA-GCATCTTCTCAGTCATCCAATCTTGACTCAAGCTAGATCAT
1 TTTTAGACTT-CACGCATCTTCTCAGTCATCTAATCTTGACTCAAGCTAGATCAT
*
2765122 TTTTAGA-TTCATGGCATCTTCTC
1 TTTTAGACTTCA-CGCATCTTCTC
2765145 GATAATTCAT
Statistics
Matches: 106, Mismatches: 20, Indels: 22
0.72 0.14 0.15
Matches are distributed among these distances:
52 2 0.02
53 3 0.03
54 47 0.44
56 11 0.10
58 12 0.11
59 1 0.01
60 26 0.25
61 2 0.02
62 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (54 bp):
TTTTAGACTTCACGCATCTTCTCAGTCATCTAATCTTGACTCAAGCTAGATCAT
Found at i:2765541 original size:6 final size:6
Alignment explanation
Indices: 2765525--2765573 Score: 91
Period size: 6 Copynumber: 8.3 Consensus size: 6
2765515 CATATTATGA
2765525 TACTA- TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT
1 TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT
2765572 TA
1 TA
2765574 TTATATCATA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.12
6 38 0.88
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (6 bp):
TACTAT
Found at i:2765577 original size:3 final size:3
Alignment explanation
Indices: 2765533--2765675 Score: 60
Period size: 3 Copynumber: 47.3 Consensus size: 3
2765523 GATACTATAC
* * * * * *
2765533 TAT TAC TAT TAC TAT TAC TAT TAC TAT TAC TAT TAC TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
2765580 CAT ATAG TAT AAT ATAT TAGA TAG TA- TAT TAT TAA TAT TAT GAT CTAT
1 TAT -TAT TAT TAT -TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * * *
2765628 TAG TAC TAT TAT TA- TATT TAT CAT TAT T-C TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
2765672 TAT T
1 TAT T
2765676 TTCTTTTTTC
Statistics
Matches: 100, Mismatches: 31, Indels: 18
0.67 0.21 0.12
Matches are distributed among these distances:
2 7 0.07
3 84 0.84
4 9 0.09
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (3 bp):
TAT
Found at i:2772854 original size:2 final size:2
Alignment explanation
Indices: 2772847--2772890 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2772837 TCGTTTTGTT
2772847 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2772889 TA
1 TA
2772891 AAATCATCAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2773408 original size:16 final size:16
Alignment explanation
Indices: 2773387--2773447 Score: 70
Period size: 16 Copynumber: 3.7 Consensus size: 16
2773377 TATTTTTAGT
2773387 TATTTATTTAATTTTA
1 TATTTATTTAATTTTA
*
2773403 TATTTA-TAAATTTTTTA
1 TATTTATTTAA--TTTTA
*
2773420 TATTTATTTAAATTTA
1 TATTTATTTAATTTTA
2773436 TATTTATATTAA
1 TATTTAT-TTAA
2773448 AAAATATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.08
16 17 0.45
17 15 0.39
18 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTATTTAATTTTA
Found at i:2773420 original size:17 final size:17
Alignment explanation
Indices: 2773398--2773467 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
2773388 ATTTATTTAA
2773398 TTTTATATTTATAAATT
1 TTTTATATTTATAAATT
2773415 TTTTATATTTATTTAAATTT
1 TTTTATATTTA--TAAA-TT
* * *
2773435 ATATTTATATTAAAAAATA
1 -T-TTTATATTTATAAATT
2773454 TTTTATATTT-TAAA
1 TTTTATATTTATAAA
2773468 AATAATATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
16 3 0.07
17 19 0.44
18 1 0.02
19 5 0.12
20 5 0.12
21 1 0.02
22 9 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTATATTTATAAATT
Found at i:2773476 original size:21 final size:22
Alignment explanation
Indices: 2773432--2773480 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 22
2773422 TTTATTTAAA
2773432 TTTATATTTATATTAAAAAATAT
1 TTTATATTTATA-TAAAAAATAT
2773455 TTTATATTT-TA-AAAATAATAT
1 TTTATATTTATATAAAA-AATAT
2773476 TTTAT
1 TTTAT
2773481 TAATTTCGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.16
21 10 0.40
22 2 0.08
23 9 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTATATTTATATAAAAAATAT
Found at i:2778133 original size:13 final size:13
Alignment explanation
Indices: 2778115--2778162 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
2778105 ATAATTTTAT
*
2778115 ATATGATATAATA
1 ATATGATATAAAA
2778128 ATATGATATAAAA
1 ATATGATATAAAA
2778141 ATA--ATA-AAAA
1 ATATGATATAAAA
2778151 ATTAT-ATATAAA
1 A-TATGATATAAA
2778163 TTTAATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
10 5 0.16
11 5 0.16
12 3 0.10
13 18 0.58
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (13 bp):
ATATGATATAAAA
Found at i:2778413 original size:18 final size:16
Alignment explanation
Indices: 2778382--2778424 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
2778372 ATATTTAATT
*
2778382 TTTAAATAATTTTTTG
1 TTTAAATAATTTTTTA
2778398 TTTAAATATTATTTTTTA
1 TTTAAATA--ATTTTTTA
2778416 TTTAAATAA
1 TTTAAATAA
2778425 ATAAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 9 0.38
18 15 0.62
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTAAATAATTTTTTA
Found at i:2781730 original size:3 final size:3
Alignment explanation
Indices: 2781709--2781742 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
2781699 AATGGTTAGT
* *
2781709 AGA AGA CGA AGA TGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
2781743 AAGGAAGAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.03, G:0.32, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:2782216 original size:17 final size:16
Alignment explanation
Indices: 2782190--2782236 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 16
2782180 ATTATTAAAA
2782190 TATTAGAAATTATTTAT
1 TATTA-AAATTATTTAT
2782207 TATTTAAAATTATTTAT
1 TA-TTAAAATTATTTAT
2782224 TATTAAAATTATT
1 TATTAAAATTATT
2782237 AATATTCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.38
17 15 0.52
18 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
TATTAAAATTATTTAT
Found at i:2782430 original size:15 final size:16
Alignment explanation
Indices: 2782410--2782445 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
2782400 TTAAAATAGT
2782410 AATATTTAT-TATTAA
1 AATATTTATATATTAA
2782425 AATATTTATACTATTAA
1 AATATTTATA-TATTAA
2782442 AATA
1 AATA
2782446 GTAATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
17 10 0.53
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
AATATTTATATATTAA
Found at i:2782464 original size:17 final size:16
Alignment explanation
Indices: 2782443--2782486 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
2782433 TACTATTAAA
2782443 ATAGTAATATAAATAT
1 ATAGTAATATAAATAT
2782459 ATTAGTCAATA-AAATAT
1 A-TAGT-AATATAAATAT
*
2782476 AAAGTAATATA
1 ATAGTAATATA
2782487 TTTCCAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 4 0.17
16 5 0.21
17 11 0.46
18 4 0.17
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (16 bp):
ATAGTAATATAAATAT
Found at i:2782524 original size:17 final size:19
Alignment explanation
Indices: 2782502--2782544 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
2782492 AAATGATTAA
2782502 AAAATAATTA-TATT-ATT
1 AAAATAATTATTATTGATT
2782519 AAAATAA-TATTATTGATT
1 AAAATAATTATTATTGATT
2782537 AAAATAAT
1 AAAATAAT
2782545 AGAATATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 2 0.09
17 11 0.48
18 10 0.43
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
AAAATAATTATTATTGATT
Found at i:2782537 original size:18 final size:19
Alignment explanation
Indices: 2782494--2782545 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
2782484 ATATTTCCAA
2782494 ATGATTAAAA-AATAATTAT
1 ATGATTAAAATAAT-ATTAT
*
2782513 ATTATTAAAATAATATTAT
1 ATGATTAAAATAATATTAT
2782532 -TGATTAAAATAATA
1 ATGATTAAAATAATA
2782546 GAATATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 13 0.43
19 14 0.47
20 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
ATGATTAAAATAATATTAT
Found at i:2782643 original size:23 final size:23
Alignment explanation
Indices: 2782615--2782701 Score: 68
Period size: 25 Copynumber: 3.7 Consensus size: 23
2782605 TTTATGATTG
2782615 AATATTAAAATATTTAAAATTAA
1 AATATTAAAATATTTAAAATTAA
* **
2782638 AATATTAGAAAATTTTTAATGTTAA
1 AATATT--AAAATATTTAAAATTAA
* * *
2782663 TATTTTAAAATATTT-TAATTAA
1 AATATTAAAATATTTAAAATTAA
*
2782685 AATTAAATAAAATATTT
1 AA-T-ATTAAAATATTT
2782702 TTATTAATAT
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
22 5 0.10
23 15 0.31
24 10 0.21
25 18 0.38
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AATATTAAAATATTTAAAATTAA
Found at i:2782720 original size:20 final size:18
Alignment explanation
Indices: 2782686--2782727 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
2782676 TTTAATTAAA
*
2782686 ATTAAATAAAATATTTTT
1 ATTAAATAAAATATTTTG
2782704 ATTAATATAATAATATTTTG
1 ATTAA-ATAA-AATATTTTG
2782724 ATTA
1 ATTA
2782728 GGTCAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 4 0.19
20 12 0.57
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTAAATAAAATATTTTG
Found at i:2786095 original size:19 final size:19
Alignment explanation
Indices: 2786071--2786107 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2786061 TGTCAAGCAC
2786071 ACCAGCAACTCTAGACCAG
1 ACCAGCAACTCTAGACCAG
*
2786090 ACCAGCGACTCTAGACCA
1 ACCAGCAACTCTAGACCA
2786108 CTCAGCAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.38, G:0.16, T:0.11
Consensus pattern (19 bp):
ACCAGCAACTCTAGACCAG
Found at i:2794381 original size:41 final size:41
Alignment explanation
Indices: 2794336--2794418 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
2794326 TCGTTCTGGT
*
2794336 ACTTTCTTGTCTTTAACTGTTAACTGGAAAAAAAAAAAAAA
1 ACTTTCTTGTCTTTAACTGTTAACTGAAAAAAAAAAAAAAA
*
2794377 ACTTTCTTTTCTTTAACTGTTAACTGAAAAAAAAAAAAAAA
1 ACTTTCTTGTCTTTAACTGTTAACTGAAAAAAAAAAAAAAA
2794418 A
1 A
2794419 AGCAAACTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (41 bp):
ACTTTCTTGTCTTTAACTGTTAACTGAAAAAAAAAAAAAAA
Found at i:2801475 original size:35 final size:34
Alignment explanation
Indices: 2801400--2801482 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 34
2801390 AGAGAGAAAG
*
2801400 ATTATATAATAAT-ACATTTTTATTTATTAATTC
1 ATTATATAATAATAAAATTTTTATTTATTAATTC
* * *
2801433 ATAATATAATAATAAAATTTATT-TATTATTAGTTT
1 ATTATATAATAATAAAATTT-TTAT-TTATTAATTC
2801468 ATTATATAATAATAA
1 ATTATATAATAATAA
2801483 TTAATAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 12 0.29
34 6 0.14
35 24 0.57
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (34 bp):
ATTATATAATAATAAAATTTTTATTTATTAATTC
Found at i:2803306 original size:17 final size:18
Alignment explanation
Indices: 2803286--2803323 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
2803276 TTTTATAATT
*
2803286 TTAAATTTATTTTTTA-A
1 TTAAATTTAATTTTTATA
*
2803303 TTAACTTTAATTTTTATA
1 TTAAATTTAATTTTTATA
2803321 TTA
1 TTA
2803324 TCTTAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TTAAATTTAATTTTTATA
Found at i:2805010 original size:14 final size:14
Alignment explanation
Indices: 2804991--2805020 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2804981 AGCCAATGTT
*
2804991 TTTTTTTTTTTCTC
1 TTTTTTTTTTTATC
2805005 TTTTTTTTTTTATC
1 TTTTTTTTTTTATC
2805019 TT
1 TT
2805021 AATATTTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTTTTTTTATC
Found at i:2805125 original size:20 final size:20
Alignment explanation
Indices: 2805100--2805138 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2805090 GATTATGATA
2805100 TTATTTTTATATTTTTAAAC
1 TTATTTTTATATTTTTAAAC
*
2805120 TTATTTTTTTATTTTTAAA
1 TTATTTTTATATTTTTAAA
2805139 AATATTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATTTTTATATTTTTAAAC
Found at i:2805144 original size:20 final size:20
Alignment explanation
Indices: 2805101--2805144 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2805091 ATTATGATAT
**
2805101 TATTTTTATATTTTTAAACT
1 TATTTTTATATTTTTAAAAA
*
2805121 TATTTTTTTATTTTTAAAAA
1 TATTTTTATATTTTTAAAAA
2805141 TATT
1 TATT
2805145 GCATATATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTTTTATATTTTTAAAAA
Found at i:2805726 original size:166 final size:159
Alignment explanation
Indices: 2805521--2805922 Score: 540
Period size: 166 Copynumber: 2.5 Consensus size: 159
2805511 AAAATATGAT
* * * *
2805521 AATTTAAAATTTATGTTAAATTTTTAATCTTTAATAGATTTTGATTTAAATTTAAATAATTATAT
1 AATTTAAAATTTATGCTAAATTTTTAATTTTTGATAGATTTTGATTTAAATTTAAATAATTATAC
* *
2805586 AACAATATTAAATAGAATTATTAT-GTAATTTATTAAGTATATATTTTTAGAACTGTAATTGAAT
66 AAAAATATTAAATAGAATTATT-TCGCAATTTATTAAGTATATATTTTTAGAACTGTAATTGAAT
2805650 TTAAAAAGAAAAGATAAATTATGATTTAATATATTTA
130 TT------AAAA-ATAAATTATGATTTAATATATTTA
* *
2805687 AATTTAAAATTTATGCTAAATTTTTAATTTTTGATAGATTTTGATTTGAATTTAAATAATTATCC
1 AATTTAAAATTTATGCTAAATTTTTAATTTTTGATAGATTTTGATTTAAATTTAAATAATTATAC
* * *
2805752 AAAAATATTAAATAGAATTATTTCGCAATTTATTAAGTATATATTTTTGGAATTGTGATTGAATT
66 AAAAATATTAAATAGAATTATTTCGCAATTTATTAAGTATATATTTTTAGAACTGTAATTGAATT
*
2805817 TAAAAATAAATTATGATTTAATATATTTG
131 TAAAAATAAATTATGATTTAATATATTTA
* * ** *
2805846 AATTCAAAATTTATGCAAAATTTTT-ATTATCAGATAAATTTTGATTTAAATTTAAATAATTA-A
1 AATTTAAAATTTATGCTAAATTTTTAATT-TTTGATAGATTTTGATTTAAATTTAAATAATTATA
*
2805909 CCAAAATATTAAAT
65 CAAAAATATTAAAT
2805923 TTAAATAATT
Statistics
Matches: 214, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
158 16 0.07
159 75 0.35
160 4 0.02
165 1 0.00
166 118 0.55
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (159 bp):
AATTTAAAATTTATGCTAAATTTTTAATTTTTGATAGATTTTGATTTAAATTTAAATAATTATAC
AAAAATATTAAATAGAATTATTTCGCAATTTATTAAGTATATATTTTTAGAACTGTAATTGAATT
TAAAAATAAATTATGATTTAATATATTTA
Found at i:2806085 original size:19 final size:18
Alignment explanation
Indices: 2806052--2806089 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
2806042 GTATATTGCA
2806052 ATTTAATATATATTATAAT
1 ATTTAATATATATTA-AAT
2806071 ATTTAA-ATATAATTAAAT
1 ATTTAATATAT-ATTAAAT
2806089 A
1 A
2806090 AAAATTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTAATATATATTAAAT
Found at i:2807475 original size:30 final size:30
Alignment explanation
Indices: 2807441--2807504 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
2807431 ATTTAATGTG
* *
2807441 TTTTTGTATAAAAAATACCTTAAATAATTTT
1 TTTTTGCA-AAAAAATACCTTAAATAATTCT
* *
2807472 TTTTTGCACAAAAATATCTTAAATAA-TCT
1 TTTTTGCAAAAAAATACCTTAAATAATTCT
2807501 TTTT
1 TTTT
2807505 ATTTTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 6 0.21
30 16 0.55
31 7 0.24
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.48
Consensus pattern (30 bp):
TTTTTGCAAAAAAATACCTTAAATAATTCT
Found at i:2807885 original size:10 final size:10
Alignment explanation
Indices: 2807870--2807900 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
2807860 AATCGAATTT
2807870 ATATATTTTA
1 ATATATTTTA
2807880 ATATATTTTA
1 ATATATTTTA
2807890 AT-TATTTTA
1 ATATATTTTA
2807899 AT
1 AT
2807901 TAATAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATATATTTTA
Found at i:2807895 original size:9 final size:9
Alignment explanation
Indices: 2807873--2807902 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
2807863 CGAATTTATA
2807873 TATTTTAAT
1 TATTTTAAT
2807882 ATATTTTAAT
1 -TATTTTAAT
2807892 TATTTTAAT
1 TATTTTAAT
2807901 TA
1 TA
2807903 ATAAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:2808995 original size:20 final size:21
Alignment explanation
Indices: 2808962--2809020 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
2808952 ATAGTTATAA
* *
2808962 AATATTAA-AATAAAAAATTC
1 AATATAAACAATAAAAAAATC
*
2808982 AA-ATAATCAATAAAAAAATC
1 AATATAAACAATAAAAAAATC
*
2809002 AATATAAACAACAAAAAAA
1 AATATAAACAATAAAAAAA
2809021 CCATGATCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 3 0.09
20 15 0.47
21 14 0.44
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.20
Consensus pattern (21 bp):
AATATAAACAATAAAAAAATC
Found at i:2809017 original size:21 final size:20
Alignment explanation
Indices: 2808973--2809020 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
2808963 ATATTAAAAT
* * *
2808973 AAAAAATTCAAATAATCAAT
1 AAAAAAATCAAATAAACAAC
2808993 AAAAAAATCAATATAAACAAC
1 AAAAAAATCAA-ATAAACAAC
2809014 AAAAAAA
1 AAAAAAA
2809021 CCATGATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAAAAATCAAATAAACAAC
Found at i:2810228 original size:20 final size:20
Alignment explanation
Indices: 2810180--2810229 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2810170 TAAATTGCAG
*
2810180 TTTTCTTTTTTTTTTTAAAG
1 TTTTCTTTTTTTTTTTAAAA
* **
2810200 GTTGGTTTTTTTTTTTAAAA
1 TTTTCTTTTTTTTTTTAAAA
2810220 TTTT-TTTTTT
1 TTTTCTTTTTT
2810230 ACATGGAAAC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (20 bp):
TTTTCTTTTTTTTTTTAAAA
Found at i:2817936 original size:24 final size:26
Alignment explanation
Indices: 2817888--2817944 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 26
2817878 TATATATATA
* *
2817888 TATATATTTATATTTATTAGTTTTTT
1 TATATATTTATATTTATAAGGTTTTT
2817914 TATATATTTATA-TTA-AAGGTTTTT
1 TATATATTTATATTTATAAGGTTTTT
*
2817938 TAAATAT
1 TATATAT
2817945 GATTGTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 13 0.46
25 3 0.11
26 12 0.43
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.61
Consensus pattern (26 bp):
TATATATTTATATTTATAAGGTTTTT
Found at i:2817944 original size:26 final size:26
Alignment explanation
Indices: 2817889--2817944 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
2817879 ATATATATAT
* *
2817889 ATATATTTATATTTATTAGTTTTTTT
1 ATATATTTATATTTATAAGTTTTTTA
2817915 ATATATTTATA-TTA-AAGGTTTTTTA
1 ATATATTTATATTTATAA-GTTTTTTA
2817940 A-ATAT
1 ATATAT
2817945 GATTGTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 5 0.19
25 11 0.41
26 11 0.41
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (26 bp):
ATATATTTATATTTATAAGTTTTTTA
Found at i:2820241 original size:3 final size:3
Alignment explanation
Indices: 2820233--2820268 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
2820223 CTTTCAACAT
*
2820233 TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
2820269 CCATCTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:2829006 original size:30 final size:28
Alignment explanation
Indices: 2828965--2829051 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 28
2828955 TAATTTATGT
*
2828965 TAAGAATTTATTTAGATATAAATTAAAGAT
1 TAAG-ATTTATTTAGATATAAATTAAA-AA
2828995 TACTAG-TTTATTTAGATATAAATTAAAAA
1 TA--AGATTTATTTAGATATAAATTAAAAA
2829024 TAAGATCTTATTTAGATATAAATTAAAA
1 TAAGAT-TTATTTAGATATAAATTAAAA
2829052 TTTAAAAATT
Statistics
Matches: 52, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
27 2 0.04
28 1 0.02
29 24 0.46
30 23 0.44
32 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.40
Consensus pattern (28 bp):
TAAGATTTATTTAGATATAAATTAAAAA
Found at i:2829094 original size:59 final size:58
Alignment explanation
Indices: 2828965--2829096 Score: 144
Period size: 59 Copynumber: 2.2 Consensus size: 58
2828955 TAATTTATGT
** * *
2828965 TAAGAATTTATTTAGATATAAATTAAAGATTACTAGTTTATTTAGATATAAATTAAAAA
1 TAAG-ATTTATTTAGATATAAATTAAAGATTAAAAATTTATTTAGATATAAATAAAAAA
*
2829024 TAAGATCTTATTTAGATATAAATTAAA-ATTTAAAAATTTATTT-GA-ATGTAATAAAAATA
1 TAAGAT-TTATTTAGATATAAATTAAAGA-TTAAAAATTTATTTAGATAT-AAATAAAAA-A
2829083 TAAAGATTTATTTA
1 T-AAGATTTATTTA
2829097 AATAGAGTGA
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
57 2 0.03
58 12 0.19
59 44 0.70
60 5 0.08
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.42
Consensus pattern (58 bp):
TAAGATTTATTTAGATATAAATTAAAGATTAAAAATTTATTTAGATATAAATAAAAAA
Found at i:2837748 original size:19 final size:20
Alignment explanation
Indices: 2837724--2837803 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 20
2837714 TTTGAAATTA
2837724 ATAAAATAT-TTTTTAAAAT
1 ATAAAATATATTTTTAAAAT
*
2837743 ATAAAATATTATTTTTTAAAT
1 ATAAAATA-TATTTTTAAAAT
* *
2837764 ATAAATATATATATTAAAAAT
1 ATAAA-ATATATTTTTAAAAT
* * *
2837785 TTAAAA-ATAATTTAAAAAT
1 ATAAAATATATTTTTAAAAT
2837804 CAATTTTTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
19 19 0.37
20 2 0.04
21 27 0.53
22 3 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAAAATATATTTTTAAAAT
Found at i:2837758 original size:22 final size:23
Alignment explanation
Indices: 2837729--2837778 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 23
2837719 AATTAATAAA
2837729 ATATTTTTTAAAATATAAA-ATAT
1 ATATTTTTT-AAATATAAATATAT
2837752 -TATTTTTTAAATATAAATATAT
1 ATATTTTTTAAATATAAATATAT
2837774 ATATT
1 ATATT
2837779 AAAAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.36
22 12 0.48
23 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATTTTTTAAATATAAATATAT
Found at i:2838789 original size:18 final size:19
Alignment explanation
Indices: 2838768--2838803 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2838758 TTATATTTCA
2838768 AAAATAATAT-TTAATATT
1 AAAATAATATATTAATATT
*
2838786 AAAATATTATATTAATAT
1 AAAATAATATATTAATAT
2838804 AATACTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATAATATATTAATATT
Found at i:2838845 original size:19 final size:21
Alignment explanation
Indices: 2838821--2838881 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
2838811 AAAATAAAAC
*
2838821 TATTTATTAT-TCTT-TATAT
1 TATTTATTATATATTATATAT
2838840 TATTTATTAATATATTATATAT
1 TATTTATT-ATATATTATATAT
*
2838862 TATTTATTAATAAATTATAT
1 TATTTATT-ATATATTATAT
2838882 TAATAGTAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 8 0.22
20 2 0.05
21 3 0.08
22 24 0.65
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTATTATATATTATATAT
Found at i:2838853 original size:15 final size:15
Alignment explanation
Indices: 2838852--2839070 Score: 90
Period size: 15 Copynumber: 15.0 Consensus size: 15
2838842 TTTATTAATA
2838852 TATT-ATATATTATT
1 TATTAATATATTATT
*
2838866 TATTAATAAATTATAT
1 TATTAATATATTAT-T
* * *
2838882 TAATAGTAGATTATT
1 TATTAATATATTATT
*
2838897 TATTAATAATACTA-T
1 TATTAAT-ATATTATT
* * *
2838912 TATAAATTTATTAAT
1 TATTAATATATTATT
* **
2838927 TA-AAATAATAAAATT
1 TATTAAT-ATATTATT
*
2838942 TATT-ATCAGATTATT
1 TATTAAT-ATATTATT
*
2838957 ATATTAATATAATATT
1 -TATTAATATATTATT
* *
2838973 TATT--TAT-TAATA
1 TATTAATATATTATT
*
2838985 AATT-ATAATATTATT
1 TATTAAT-ATATTATT
2839000 TATTAATAGTATATTATT
1 TATT-A-A-TATATTATT
*
2839018 TATGAATATATT-TT
1 TATTAATATATTATT
2839032 TA-TAATAT-TTA-T
1 TATTAATATATTATT
2839044 TA-T--TATATTATT
1 TATTAATATATTATT
*
2839056 TATTAATATAATATT
1 TATTAATATATTATT
2839071 ATTGTTTACT
Statistics
Matches: 152, Mismatches: 32, Indels: 41
0.68 0.14 0.18
Matches are distributed among these distances:
10 3 0.02
11 3 0.02
12 14 0.09
13 10 0.07
14 18 0.12
15 61 0.40
16 27 0.18
17 3 0.02
18 12 0.08
19 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (15 bp):
TATTAATATATTATT
Found at i:2839015 original size:18 final size:17
Alignment explanation
Indices: 2838855--2839097 Score: 96
Period size: 18 Copynumber: 13.8 Consensus size: 17
2838845 ATTAATATAT
2838855 TATATATTATTTATTAA
1 TATATATTATTTATTAA
2838872 TA-A-ATTA--TATTAA
1 TATATATTATTTATTAA
*
2838885 TAGTAGATTATTTATTAA
1 TA-TATATTATTTATTAA
*
2838903 TA-ATACTA-TTA-TAA
1 TATATATTATTTATTAA
* * *
2838917 -ATTTATTAATTA-AAA
1 TATATATTATTTATTAA
**
2838932 TA-ATAAAATTTATT-A
1 TATATATTATTTATTAA
* *
2838947 T-CAGATTATTATATTAA
1 TATATATTATT-TATTAA
2838964 TATAATATTTATTTATTAATAAA
1 TAT-ATA-TTATTTA-T--T-AA
2838987 TTATAATATTATTTATTAA
1 -TAT-ATATTATTTATTAA
*
2839006 TAGTATATTATTTATGAA
1 TA-TATATTATTTATTAA
* * *
2839024 TATATTTTTATAATATTTAT
1 TATA-TATTAT-TTA-TTAA
2839044 TATTATATTATTTATTAA
1 TA-TATATTATTTATTAA
*
2839062 TATAATATTATTGTTTACTAA
1 TAT-ATATTA---TTTATTAA
2839083 TATAATATTATTTAT
1 TAT-ATATTATTTAT
2839098 AAGTAGAATT
Statistics
Matches: 172, Mismatches: 25, Indels: 57
0.68 0.10 0.22
Matches are distributed among these distances:
13 9 0.05
14 7 0.04
15 26 0.15
16 14 0.08
17 7 0.04
18 45 0.26
19 11 0.06
20 16 0.09
21 19 0.11
22 2 0.01
23 9 0.05
24 7 0.04
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (17 bp):
TATATATTATTTATTAA
Found at i:2839019 original size:76 final size:78
Alignment explanation
Indices: 2838836--2839020 Score: 177
Period size: 76 Copynumber: 2.4 Consensus size: 78
2838826 ATTATTCTTT
*
2838836 ATATTATTTATTAATATAT-TATATATTATTTATTAATAAATTATATTAATAGTAGATTATTTAT
1 ATATTATTTATTAATATATAT-TAT-TTA-TTATCAATAAATTATATTAATAGTAGATTATTTAT
*
2838900 TAATAATACTATTATA
63 TAATAATACAATTATA
* * ** *
2838916 A-ATTTATTAATTAAAATAATAAAATTTATTATCAGAT-TATTATATTAATA-TA-A-TATTTAT
1 ATA-TTATTTATTAATAT-ATATTATTTATTATCA-ATAAATTATATTAATAGTAGATTATTTA-
*
2838976 TTATTAATA-AATTATA
62 TTAATAATACAATTATA
2838992 ATATTATTTATTAATAGTATATTATTTAT
1 ATATTATTTATTAATA-TATATTATTTAT
2839021 GAATATATTT
Statistics
Matches: 86, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
76 33 0.38
77 11 0.13
78 2 0.02
79 18 0.21
80 18 0.21
81 4 0.05
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (78 bp):
ATATTATTTATTAATATATATTATTTATTATCAATAAATTATATTAATAGTAGATTATTTATTAA
TAATACAATTATA
Found at i:2839040 original size:23 final size:24
Alignment explanation
Indices: 2839009--2839064 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
2838999 TTATTAATAG
*
2839009 TATATTATTTATGAATATATT-TT
1 TATAATATTTATGAATATATTATT
* *
2839032 TATAATATTTATTATTATATTATT
1 TATAATATTTATGAATATATTATT
2839056 TATTAATAT
1 TA-TAATAT
2839065 AATATTATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 18 0.64
24 4 0.14
25 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
TATAATATTTATGAATATATTATT
Found at i:2839046 original size:26 final size:29
Alignment explanation
Indices: 2838956--2839073 Score: 96
Period size: 26 Copynumber: 4.3 Consensus size: 29
2838946 ATCAGATTAT
*
2838956 TATATTAATATAATATTTATTTA-T--TAA
1 TATATTATTATAATA-TTATTTATTAATAA
*
2838983 TA-A--ATTATAATATTATTTATTAATAG
1 TATATTATTATAATATTATTTATTAATAA
2839009 TATATTATTTATGAATA-TATTT-TT-ATAA
1 TATATTA-TTAT-AATATTATTTATTAATAA
*
2839037 TAT-TTATTATTATATTATTTATTAAT-A
1 TATATTATTATAATATTATTTATTAATAA
2839064 TAATATTATT
1 T-ATATTATT
2839074 GTTTACTAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 24
0.73 0.04 0.24
Matches are distributed among these distances:
23 7 0.09
24 9 0.12
25 3 0.04
26 14 0.19
27 10 0.14
28 10 0.14
29 8 0.11
30 9 0.12
31 4 0.05
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (29 bp):
TATATTATTATAATATTATTTATTAATAA
Found at i:2839078 original size:21 final size:21
Alignment explanation
Indices: 2839049--2839094 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
2839039 TTTATTATTA
*
2839049 TATTATTTATTAATATAATAT
1 TATTATTTACTAATATAATAT
*
2839070 TATTGTTTACTAATATAATAT
1 TATTATTTACTAATATAATAT
2839091 TATT
1 TATT
2839095 TATAAGTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TATTATTTACTAATATAATAT
Found at i:2839476 original size:23 final size:23
Alignment explanation
Indices: 2839450--2839658 Score: 146
Period size: 23 Copynumber: 8.9 Consensus size: 23
2839440 CTTATAAATA
2839450 ATATTATATTAATAAATAATATT
1 ATATTATATTAATAAATAATATT
* * * *
2839473 ATA-TA-AATAATATATTATTAAT
1 ATATTATATTAATA-AATAATATT
*
2839495 ATAGTATATTAATAAATAATATT
1 ATATTATATTAATAAATAATATT
* *
2839518 ATAATATATTCATAAATAATATT
1 ATATTATATTAATAAATAATATT
2839541 ATAAATCATATATTAA-AAATAATATT
1 AT--AT--TATATTAATAAATAATATT
*
2839567 ATATTA-ATAAATAATATAATA--
1 ATATTATATTAATAA-ATAATATT
* *
2839588 AAAATATTATTAATATAAT-ATATT
1 ATATTA-TATTAATA-AATAATATT
*
2839612 AATAAATATTATTAATAAATAATATT
1 -AT-ATTA-TATTAATAAATAATATT
*
2839638 AT-TCTATATTAATAAGTAATA
1 ATAT-TATATTAATAAATAATA
2839659 CAAAGAAAAA
Statistics
Matches: 149, Mismatches: 19, Indels: 36
0.73 0.09 0.18
Matches are distributed among these distances:
21 14 0.09
22 18 0.12
23 62 0.42
24 11 0.07
25 7 0.05
26 30 0.20
27 7 0.05
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (23 bp):
ATATTATATTAATAAATAATATT
Found at i:2839535 original size:12 final size:12
Alignment explanation
Indices: 2839455--2839639 Score: 109
Period size: 13 Copynumber: 14.6 Consensus size: 12
2839445 AAATAATATT
2839455 ATATTAATAAATA
1 ATATT-ATAAATA
2839468 ATATTATATAAATAA
1 ATA-T-TATAAAT-A
2839483 TATATTATTAATATA
1 -ATATTA-TAA-ATA
2839498 GTATATTAATAAATA
1 --ATATT-ATAAATA
2839513 ATATTAT-AAT-
1 ATATTATAAATA
2839523 ATATTCATAAATA
1 ATATT-ATAAATA
2839536 ATATTATAAATCA
1 ATATTATAAAT-A
*
2839549 TATATTAAAAATA
1 -ATATTATAAATA
2839562 ATATTAT--AT-
1 ATATTATAAATA
2839571 -TA--ATAAATA
1 ATATTATAAATA
*
2839580 ATATAATAAA-A
1 ATATTATAAATA
2839591 ATATTATTAATATAA
1 ATATTA-TAA-AT-A
2839606 TATATTAATAAATA
1 -ATATT-ATAAATA
*
2839620 TTATTAATAAATA
1 ATATT-ATAAATA
2839633 ATATTAT
1 ATATTAT
2839640 TCTATATTAA
Statistics
Matches: 142, Mismatches: 5, Indels: 51
0.72 0.03 0.26
Matches are distributed among these distances:
6 2 0.01
8 4 0.03
10 9 0.06
11 11 0.08
12 27 0.19
13 32 0.23
14 20 0.14
15 13 0.09
16 22 0.15
17 2 0.01
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.43
Consensus pattern (12 bp):
ATATTATAAATA
Found at i:2839779 original size:26 final size:26
Alignment explanation
Indices: 2839750--2839828 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 26
2839740 ATTATTTTTT
2839750 AATTTTAATAATTTTAATAATAAATA
1 AATTTTAATAATTTTAATAATAAATA
* * *
2839776 AA-TTCAATATTTTTTAATAATAAATC
1 AATTTTAATA-ATTTTAATAATAAATA
* *
2839802 ATTTTTAAT-ATTATTAA-AAAAAATA
1 AATTTTAATAATT-TTAATAATAAATA
2839827 AA
1 AA
2839829 AATTTCAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
25 15 0.37
26 21 0.51
27 5 0.12
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTTTAATAATTTTAATAATAAATA
Found at i:2842527 original size:2 final size:2
Alignment explanation
Indices: 2842520--2842551 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2842510 TACATCATAC
*
2842520 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2842552 GTATGCACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2842706 original size:2 final size:2
Alignment explanation
Indices: 2842699--2842728 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2842689 TACTATTGTC
2842699 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
2842729 TATATATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2845712 original size:16 final size:15
Alignment explanation
Indices: 2845691--2845721 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
2845681 TGGTAGATTG
2845691 AGAAAGAGAGAGAGAT
1 AGAAAGAG-GAGAGAT
2845707 AGAAAGAGGAGAGAT
1 AGAAAGAGGAGAGAT
2845722 CAGTTTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAAAGAGGAGAGAT
Found at i:2847201 original size:16 final size:17
Alignment explanation
Indices: 2847180--2847213 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2847170 GAAAATAAGA
2847180 TATTTTA-AATTAAATT
1 TATTTTATAATTAAATT
*
2847196 TATTTTATCATTAAATT
1 TATTTTATAATTAAATT
2847213 T
1 T
2847214 TAAATTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTTATAATTAAATT
Found at i:2852137 original size:23 final size:25
Alignment explanation
Indices: 2852092--2852137 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
2852082 TGTCTTTGAA
*
2852092 TATTGATTGTTATCTATTACTTCTG
1 TATTGATTGTGATCTATTACTTCTG
*
2852117 TATTG-TTGTGAT-TATTGCTTC
1 TATTGATTGTGATCTATTACTTC
2852138 AGGCGCAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 6 0.32
25 5 0.26
ACGTcount: A:0.17, C:0.11, G:0.15, T:0.57
Consensus pattern (25 bp):
TATTGATTGTGATCTATTACTTCTG
Found at i:2855352 original size:19 final size:19
Alignment explanation
Indices: 2855326--2855371 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
2855316 TCTAAATTTA
2855326 TATATATATATATATAAAT
1 TATATATATATATATAAAT
* *
2855345 TTTATATATATATATGAAT
1 TATATATATATATATAAAT
2855364 TATATATA
1 TATATATA
2855372 AATTAATTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TATATATATATATATAAAT
Found at i:2855367 original size:11 final size:11
Alignment explanation
Indices: 2855318--2855376 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
2855308 TGGTCTAATC
2855318 TAAATT-TATA
1 TAAATTATATA
*
2855328 TATATATATATA
1 TAAAT-TATATA
2855340 TAAATT-T-TA
1 TAAATTATATA
*
2855349 TATA-TATATA
1 TAAATTATATA
*
2855359 TGAATTATATA
1 TAAATTATATA
2855370 TAAATTA
1 TAAATTA
2855377 ATTCACATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
8 1 0.03
9 6 0.16
10 9 0.24
11 14 0.37
12 8 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (11 bp):
TAAATTATATA
Found at i:2855379 original size:15 final size:15
Alignment explanation
Indices: 2855334--2855395 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 15
2855324 TATATATATA
2855334 TATATATAAATT--T
1 TATATATAAATTAAT
*
2855347 TATATATATATATGAAT
1 TATATATA-A-ATTAAT
2855364 TATATATAAATTAAT
1 TATATATAAATTAAT
2855379 TCACATATATAAATTAA
1 T---ATATATAAATTAA
2855396 AAAATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 8 0.20
14 1 0.03
15 8 0.20
16 1 0.03
17 9 0.22
18 13 0.32
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (15 bp):
TATATATAAATTAAT
Found at i:2855404 original size:18 final size:18
Alignment explanation
Indices: 2855364--2855406 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
2855354 ATATATGAAT
***
2855364 TATATATAAATTAATTCA
1 TATATATAAATTAAAAAA
*
2855382 CATATATAAATTAAAAAA
1 TATATATAAATTAAAAAA
2855400 TATATAT
1 TATATAT
2855407 TTTTATTAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
TATATATAAATTAAAAAA
Found at i:2855801 original size:22 final size:21
Alignment explanation
Indices: 2855773--2855818 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
2855763 TGAGAGTTTT
2855773 AAATACA-CTGTACATTTTTTAA
1 AAATACACCT-TA-ATTTTTTAA
*
2855795 AAATACACCTTATTTTTTTAA
1 AAATACACCTTAATTTTTTAA
2855816 AAA
1 AAA
2855819 AAATTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 9 0.41
23 2 0.09
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.41
Consensus pattern (21 bp):
AAATACACCTTAATTTTTTAA
Found at i:2857978 original size:14 final size:14
Alignment explanation
Indices: 2857959--2858007 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
2857949 AACATTTCAT
2857959 TTATAATTTTTATA
1 TTATAATTTTTATA
***
2857973 TTATAA-TAAAATAA
1 TTATAATTTTTAT-A
2857987 TTATAATTTTTATA
1 TTATAATTTTTATA
2858001 TTATAAT
1 TTATAAT
2858008 ACAATAATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 3 0.11
14 21 0.78
15 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTATAATTTTTATA
Found at i:2857999 original size:28 final size:28
Alignment explanation
Indices: 2857959--2858017 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
2857949 AACATTTCAT
2857959 TTATAATTTTTATATTATAATAAAATAA
1 TTATAATTTTTATATTATAATAAAATAA
*
2857987 TTATAATTTTTATATTATAATACAATAA
1 TTATAATTTTTATATTATAATAAAATAA
2858015 TTA
1 TTA
2858018 ATCAATTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
TTATAATTTTTATATTATAATAAAATAA
Found at i:2860260 original size:27 final size:26
Alignment explanation
Indices: 2860208--2860265 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
2860198 AAAAAATAAA
*
2860208 ATAATATTATTTAATTTAATCTTATT
1 ATAATATCATTTAATTTAATCTTATT
* *
2860234 CATAATATCATTTTATCTTATTC-TATT
1 -ATAATATCATTTAAT-TTAATCTTATT
2860261 ATAAT
1 ATAAT
2860266 TTAATACATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 5 0.19
27 17 0.63
28 5 0.19
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (26 bp):
ATAATATCATTTAATTTAATCTTATT
Found at i:2861091 original size:15 final size:15
Alignment explanation
Indices: 2861071--2861100 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2861061 GCTCCAGTCA
2861071 AAAATAAAAAGCAAT
1 AAAATAAAAAGCAAT
*
2861086 AAAATAAAAATCAAT
1 AAAATAAAAAGCAAT
2861101 TTTACATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.07, G:0.03, T:0.17
Consensus pattern (15 bp):
AAAATAAAAAGCAAT
Found at i:2861205 original size:14 final size:16
Alignment explanation
Indices: 2861186--2861217 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
2861176 ATAATCTTTC
2861186 TTTTTTTC-GTT-TTT
1 TTTTTTTCTGTTGTTT
2861200 TTTTTTTCTGTTGTTT
1 TTTTTTTCTGTTGTTT
2861216 TT
1 TT
2861218 GTTTAAAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.84
Consensus pattern (16 bp):
TTTTTTTCTGTTGTTT
Found at i:2863511 original size:20 final size:20
Alignment explanation
Indices: 2863465--2863511 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 20
2863455 AATTGTTTGG
2863465 GGGGAATTTTTCTTAATTTA
1 GGGGAATTTTTCTTAATTTA
*
2863485 GGTGGAATTTTTTTTAATTTA
1 GG-GGAATTTTTCTTAATTTA
2863506 GGGGAA
1 GGGGAA
2863512 AACTTTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.47
Consensus pattern (20 bp):
GGGGAATTTTTCTTAATTTA
Found at i:2863518 original size:21 final size:22
Alignment explanation
Indices: 2863472--2863518 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
2863462 TGGGGGGAAT
*
2863472 TTTTCTTAATTTAGGTGG-AAT
1 TTTTCTTAATTTAGGTGGAAAC
*
2863493 TTTTTTTAATTTAGG-GGAAAAC
1 TTTTCTTAATTTAGGTGG-AAAC
2863515 TTTT
1 TTTT
2863519 AGGAGGGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 14 0.64
22 6 0.27
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.53
Consensus pattern (22 bp):
TTTTCTTAATTTAGGTGGAAAC
Found at i:2866121 original size:2 final size:2
Alignment explanation
Indices: 2866116--2866147 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2866106 CTCTCTCTTT
2866116 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
2866148 GAGAACTGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2866659 original size:2 final size:2
Alignment explanation
Indices: 2866652--2866678 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2866642 GAATGGCATA
2866652 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2866679 GTTTTCTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2872609 original size:78 final size:78
Alignment explanation
Indices: 2872475--2872633 Score: 212
Period size: 78 Copynumber: 2.0 Consensus size: 78
2872465 GTGCTATGTC
* * *
2872475 AAAATTTTTGTTAAACTGCAGCATTTAAGTCTATTGTAGCAGCATGTTACATTGATTTCAACATT
1 AAAACTTTTGTTAAACTACAGCATTTAAGTCTATTATAGCAGCATGTTACATTGATTTCAACATT
*
2872540 TGAGGAAGTACTT
66 TGAGAAAGTACTT
* * * ** *
2872553 AAAACTTTTGTTAAACTACAGTATTTAAAGTCTTTTATAGCTGCATGTT-GGTTGATTTCAATAT
1 AAAACTTTTGTTAAACTACAGCATTT-AAGTCTATTATAGCAGCATGTTACATTGATTTCAACAT
2872617 TTGAGAAAGTACTT
65 TTGAGAAAGTACTT
2872631 AAA
1 AAA
2872634 TGGTCAATTG
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
78 51 0.73
79 19 0.27
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (78 bp):
AAAACTTTTGTTAAACTACAGCATTTAAGTCTATTATAGCAGCATGTTACATTGATTTCAACATT
TGAGAAAGTACTT
Found at i:2879579 original size:22 final size:21
Alignment explanation
Indices: 2879531--2879579 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
2879521 AATATTAATG
* *
2879531 AAATTTAATATATATATATAT
1 AAATTTAATATATACATAAAT
*
2879552 ATATTTAATAATATACATAAAT
1 AAATTTAAT-ATATACATAAAT
2879574 AAATTT
1 AAATTT
2879580 GTCACATAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATTTAATATATACATAAAT
Found at i:2879797 original size:21 final size:21
Alignment explanation
Indices: 2879772--2879823 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2879762 ATAAAATATG
*
2879772 AATTTTATTTTTTTAAT-AAAT
1 AATTTTATTTGTTT-ATCAAAT
*
2879793 AATTTTAGTTGTTTATCAAAT
1 AATTTTATTTGTTTATCAAAT
2879814 AATTTTATTT
1 AATTTTATTT
2879824 AAAAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
AATTTTATTTGTTTATCAAAT
Found at i:2880722 original size:30 final size:32
Alignment explanation
Indices: 2880675--2880743 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
2880665 AAAGATTTAA
*
2880675 ATATAATTTTGAAAAAAAAATAATTTGTATAT
1 ATATAATTTTGAAAAAAAATTAATTTGTATAT
*
2880707 ATATAATTTTGAAAAAAAATTACTTTGTATAT
1 ATATAATTTTGAAAAAAAATTAATTTGTATAT
2880739 ATATA
1 ATATA
2880744 TACATATTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.42
Consensus pattern (32 bp):
ATATAATTTTGAAAAAAAATTAATTTGTATAT
Found at i:2882574 original size:3 final size:3
Alignment explanation
Indices: 2882566--2882600 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2882556 ACTTACTCTC
2882566 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
2882601 AAAGCTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:2885683 original size:16 final size:16
Alignment explanation
Indices: 2885633--2885683 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
2885623 TTCTGTGTTA
2885633 AAATTTTAATATTTTT
1 AAATTTTAATATTTTT
* *
2885649 AATTTTTTATATTTTT
1 AAATTTTAATATTTTT
* *
2885665 AAATTATAATATTTGT
1 AAATTTTAATATTTTT
2885681 AAA
1 AAA
2885684 CATGATGATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
AAATTTTAATATTTTT
Found at i:2886574 original size:13 final size:13
Alignment explanation
Indices: 2886547--2886583 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
2886537 TAATTTTAAA
2886547 TTATATTA-A-TT
1 TTATATTATATTT
*
2886558 TTATATTTTATTT
1 TTATATTATATTT
2886571 TTATATTATATTT
1 TTATATTATATTT
2886584 ATGTCCTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 7 0.32
12 1 0.05
13 14 0.64
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATATTATATTT
Found at i:2889164 original size:14 final size:15
Alignment explanation
Indices: 2889145--2889212 Score: 63
Period size: 14 Copynumber: 4.6 Consensus size: 15
2889135 AACAAGAAAT
2889145 ATAATAATGCAA-AA
1 ATAATAATGCAATAA
2889159 ATAATATATTGCAATAA
1 ATAATA-A-TGCAATAA
*
2889176 A-CAT-ATGGCAATAA
1 ATAATAAT-GCAATAA
2889190 ATAATAAT-CAATAA
1 ATAATAATGCAATAA
*
2889204 TTAATAATG
1 ATAATAATG
2889213 TAAAAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
13 1 0.02
14 28 0.64
15 3 0.07
16 9 0.20
17 3 0.07
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.29
Consensus pattern (15 bp):
ATAATAATGCAATAA
Found at i:2896465 original size:2 final size:2
Alignment explanation
Indices: 2896458--2896490 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2896448 AATCAAAGAC
2896458 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2896491 AAAGTGTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2896571 original size:2 final size:2
Alignment explanation
Indices: 2896564--2896598 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2896554 TAGCTTTGAT
2896564 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2896599 GTTACTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2900569 original size:15 final size:14
Alignment explanation
Indices: 2900551--2900591 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 14
2900541 AATTTTAGTA
2900551 AAATTTATTTAATAT
1 AAATTT-TTTAATAT
2900566 AAATTTTTT-AT-T
1 AAATTTTTTAATAT
*
2900578 AATTTTTTTAATAT
1 AAATTTTTTAATAT
2900592 GTCGTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 9 0.39
13 4 0.17
14 4 0.17
15 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AAATTTTTTAATAT
Found at i:2902596 original size:2 final size:2
Alignment explanation
Indices: 2902589--2902641 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
2902579 AGATCTTGTT
* * *
2902589 TA TA TA TA TA TA TA TA TA TA TA CA TA TA CA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2902631 TA TA TA TA TA T
1 TA TA TA TA TA T
2902642 GAAATTTATC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2906487 original size:2 final size:2
Alignment explanation
Indices: 2906480--2906518 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2906470 CAAAGACTGA
2906480 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2906519 GATAGAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2914518 original size:22 final size:22
Alignment explanation
Indices: 2914472--2914516 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
2914462 TTTAATTAAA
*
2914472 TTAAATTAAATTATATTTTATT
1 TTAAATTAAATCATATTTTATT
*
2914494 TTAAATT-AATCATTTTTTATT
1 TTAAATTAAATCATATTTTATT
2914515 TT
1 TT
2914517 TATGCATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTAAATTAAATCATATTTTATT
Found at i:2918137 original size:21 final size:21
Alignment explanation
Indices: 2918111--2918158 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
2918101 TTGATACCAA
*
2918111 TTAATCCTTCCCCTCATGCTT
1 TTAATCCTTCCCCTCACGCTT
2918132 TTAATCCTTCCCCTCACGCTT
1 TTAATCCTTCCCCTCACGCTT
2918153 TTAATC
1 TTAATC
2918159 ATTCATTCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.17, C:0.38, G:0.04, T:0.42
Consensus pattern (21 bp):
TTAATCCTTCCCCTCACGCTT
Found at i:2921639 original size:14 final size:13
Alignment explanation
Indices: 2921620--2921650 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
2921610 GGGGTATGTC
2921620 AAAAAAAATGAAA
1 AAAAAAAATGAAA
2921633 GAAAAAAAATGAAA
1 -AAAAAAAATGAAA
2921647 AAAA
1 AAAA
2921651 GATTATGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (13 bp):
AAAAAAAATGAAA
Found at i:2922239 original size:15 final size:14
Alignment explanation
Indices: 2922217--2922252 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
2922207 GAGAAAAGTT
2922217 AAAAAAAATAAACA
1 AAAAAAAATAAACA
*
2922231 AAGAAAAAATAAATA
1 AA-AAAAAATAAACA
2922246 AAAAAAA
1 AAAAAAA
2922253 GAAAAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.86, C:0.03, G:0.03, T:0.08
Consensus pattern (14 bp):
AAAAAAAATAAACA
Found at i:2922255 original size:20 final size:19
Alignment explanation
Indices: 2922217--2922260 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
2922207 GAGAAAAGTT
*
2922217 AAAAA-AAATAAACAAAGA
1 AAAAATAAATAAAAAAAGA
2922235 AAAAATAAATAAAAAAAAGA
1 AAAAATAAAT-AAAAAAAGA
2922255 AAAAAT
1 AAAAAT
2922261 TGATGATGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.22
19 4 0.17
20 14 0.61
ACGTcount: A:0.84, C:0.02, G:0.05, T:0.09
Consensus pattern (19 bp):
AAAAATAAATAAAAAAAGA
Found at i:2924330 original size:20 final size:20
Alignment explanation
Indices: 2924307--2924363 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
2924297 GAGAAAGTCT
*
2924307 ATAAAAAAGTGAAAAAGAAA
1 ATAAAAAAGAGAAAAAGAAA
*
2924327 ATAAAAATAGCA-AAAAATAAA
1 ATAAAAA-AG-AGAAAAAGAAA
*
2924348 ACAAAAAAGAGAAAAA
1 ATAAAAAAGAGAAAAA
2924364 AAATCTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 1 0.03
20 14 0.45
21 16 0.52
ACGTcount: A:0.77, C:0.04, G:0.11, T:0.09
Consensus pattern (20 bp):
ATAAAAAAGAGAAAAAGAAA
Found at i:2924697 original size:23 final size:24
Alignment explanation
Indices: 2924667--2924714 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
2924657 TAAGTTTTCT
*
2924667 TCAAAGATTTCTTAG-TGGTGATA
1 TCAAAGATCTCTTAGATGGTGATA
*
2924690 TCAAAGATCTCTTTGATGGTGATA
1 TCAAAGATCTCTTAGATGGTGATA
2924714 T
1 T
2924715 TTGGGCTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (24 bp):
TCAAAGATCTCTTAGATGGTGATA
Found at i:2925079 original size:24 final size:23
Alignment explanation
Indices: 2925052--2925104 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
2925042 CTAAAAAATG
* *
2925052 AAAAAAAAAGCCACAAAAAAAAA
1 AAAAAAAAAACAACAAAAAAAAA
*
2925075 AAAAACAAAAACAACAAAAAAAGA
1 AAAAA-AAAAACAACAAAAAAAAA
2925099 AAAAAA
1 AAAAAA
2925105 TTAAGATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.85, C:0.11, G:0.04, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAACAACAAAAAAAAA
Done.