Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397259.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_147.0, 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: 10737078
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 75620 characters in sequence are not A, C, G, or T
File 5 of 22
Found at i:1759280 original size:18 final size:18
Alignment explanation
Indices: 1759253--1759290 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1759243 CTCTCTTTCG
1759253 TTTCTCTCTGGTCTC-CTT
1 TTTCTCTCT-GTCTCTCTT
*
1759271 TTTCTGTCTGTCTCTCTT
1 TTTCTCTCTGTCTCTCTT
1759289 TT
1 TT
1759291 CTTTTCCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.00, C:0.29, G:0.11, T:0.61
Consensus pattern (18 bp):
TTTCTCTCTGTCTCTCTT
Found at i:1767588 original size:252 final size:247
Alignment explanation
Indices: 1767055--1768170 Score: 1033
Period size: 252 Copynumber: 4.5 Consensus size: 247
1767045 TAAAAAAAAA
* * ** * * *
1767055 AAGTTTATTATGTCAAATAAACATAATTTTCAAAAAAATTAATTATTTTAATTTTTATTCTCGAA
1 AAGTTAATTATGTAAAATAAACATAATTTTTGAAAAAATTAAATATTTAAATTTTTATTCTCGAG
* * * * * *
1767120 TTTAAAGTGTTTTATGGCTTAC-AATTTTTATGTATAG-ATGAGTAATAGTAAGCATAAAATAAT
66 TTTAAAGTATTTTATGGCTTACAAATTTTAATCTAT-GCATGAATAATAGTAA-AAAAAAATAAT
* * * ** * *
1767183 TATAATATTAATTAATAGTTGAAAAACCTTGAGGTAAAGTGATAAGAATTAACATCAAATATTAT
129 TATAGTATAAATTAGTAGTTGAAAAACCTTGACATAAAGTGATAAAAATTAACATAAAATATTAT
* * ** * * * * * *
1767248 -AAAAGTATAAAAA-AATCAAAATATTGAA-ATAAATGTGTAAGATTTGACGTAAC
194 CAAAGGGA-AAAAATTGTCAAAATATT-AATGTAAATATGTAAAATTTAACATAAT
* *
1767301 AAGTCAATTATGTAAAATAAACATAATTTTTGAAAAAATTAAATATTTAAATTGTTATTCTCGAG
1 AAGTTAATTATGTAAAATAAACATAATTTTTGAAAAAATTAAATATTTAAATTTTTATTCTCGAG
* * *
1767366 TTTAAAGTGTTTTACGGCTTACAAATTTTAATCTATGCATGAATAATAGTATAAAAAAAAGAAAT
66 TTTAAAGTATTTTATGGCTTACAAATTTTAATCTATGCATGAATAATAGTA-AAAAAAAA-TAAT
*
1767431 TATAGTA-AACATTAGTAGTTGAAAAACCTTGACATAAAGT-AGTAAAAATTAACATAAAATACT
129 TATAGTATAA-ATTAGTAGTTGAAAAACCTTGACATAAAGTGA-TAAAAATTAACATAAAATATT
* * * *
1767494 ATCAAAGTGGAACAAATATTCTCAAAATATTAATGTAAATATGTGAGATTTAACGTAAT
192 ATCAAAG-GGAA-AAA-ATTGTCAAAATATTAATGTAAATATGTAAAATTTAACATAAT
* * * * *
1767553 AAGTTAATTATGTCAAATAAACATAATTTTTGAAAAAATTAAAAATTTAAATTTTTATTATTGAA
1 AAGTTAATTATGTAAAATAAACATAATTTTTGAAAAAATTAAATATTTAAATTTTTATTCTCGAG
* * * * *
1767618 TTTAAAGTATTTTATGACTTACAAATTTTAATATATGGATGAGTAATGGTAAAAATAAAATAATT
66 TTTAAAGTATTTTATGGCTTACAAATTTTAATCTATGCATGAATAATAGTAAAAA-AAAATAATT
* * * * * * *
1767683 ATAGTATTAATTAGTAGTTGAAAAACATT-TCTGGTAAAGTGATAAGAATTAACCTAATATATTA
130 ATAGTATAAATTAGTAGTTGAAAAACCTTGAC--ATAAAGTGATAAAAATTAACATAAAATATTA
* * *
1767747 T-AAAGGTGAAAAAATTGTCAAAATATTAATGTAAATGTATAAAATTTAACACAAT
193 TCAAAGG-GAAAAAATTGTCAAAATATTAATGTAAATATGTAAAATTTAACATAAT
* * * * * * *
1767802 AAGTCAATTATTTTAAATAAATATAATTTTTGAAAAAATTAAACT-TTTAAATTATTATTTTCGT
1 AAGTTAATTATGTAAAATAAACATAATTTTTGAAAAAATTAAA-TATTTAAATTTTTATTCTCGA
* * *
1767866 GTTT-AAGTATTTTATGGTTTATAAATTTTAATCTAAGCATGAATAATAGTAAAGATAAAAATAA
65 GTTTAAAGTATTTTATGGCTTACAAATTTTAATCTATGCATGAATAATAGTAAA-A-AAAAATAA
* * * * * *
1767930 TTATAGTGA-AAATTATTAATTGAGAAACTTTGACATAAAGTAATAAAAATT---AT--AA-A-G
128 TTATAGT-ATAAATTAGTAGTTGAAAAACCTTGACATAAAGTGATAAAAATTAACATAAAATATT
* * *
1767987 A-C----GGAACAAGAGTTGTCAAAATATTAACGTAAATATGTAAAATTTAATATAAT
192 ATCAAAGGGAA-AA-AATTGTCAAAATATTAATGTAAATATGTAAAATTTAACATAAT
* * * **
1768040 AAATTAATTATATAAAATAAACATAATTTTT--AAAAATTAAATATTTTAATTTTTATTCTTAAG
1 AAGTTAATTATGTAAAATAAACATAATTTTTGAAAAAATTAAATATTTAAATTTTTATTCTCGAG
* * * * * *
1768103 TTTAAAGTTTTTTACGGCTTATAAGTTTTAATTTATGAATGAATAATAGTAAAGATAAAAATAAT
66 TTTAAAGTATTTTATGGCTTACAAATTTTAATCTATGCATGAATAATAGTAAA-A-AAAAATAAT
1768168 TAT
129 TAT
1768171 TGTGAAAGTT
Statistics
Matches: 725, Mismatches: 117, Indels: 65
0.80 0.13 0.07
Matches are distributed among these distances:
235 1 0.00
236 30 0.04
237 60 0.08
238 63 0.09
241 1 0.00
242 1 0.00
243 1 0.00
245 1 0.00
246 78 0.11
247 30 0.04
248 112 0.15
249 128 0.18
250 13 0.02
251 43 0.06
252 162 0.22
253 1 0.00
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (247 bp):
AAGTTAATTATGTAAAATAAACATAATTTTTGAAAAAATTAAATATTTAAATTTTTATTCTCGAG
TTTAAAGTATTTTATGGCTTACAAATTTTAATCTATGCATGAATAATAGTAAAAAAAAATAATTA
TAGTATAAATTAGTAGTTGAAAAACCTTGACATAAAGTGATAAAAATTAACATAAAATATTATCA
AAGGGAAAAAATTGTCAAAATATTAATGTAAATATGTAAAATTTAACATAAT
Found at i:1768197 original size:237 final size:237
Alignment explanation
Indices: 1767761--1768206 Score: 574
Period size: 237 Copynumber: 1.9 Consensus size: 237
1767751 GGTGAAAAAA
* * * * * *
1767761 TTGTCAAAATATTAATGTAAATGTATAAAATTTAACACAATAAGTCAATTATTTTAAATAAATAT
1 TTGTCAAAATATTAACGTAAATATATAAAATTTAACACAATAAATCAATTATATAAAATAAACAT
* * * *
1767826 AATTTTTGAAAAAATTAAACTTTTAAATTATTATTTTCGTGTTTAAGTATTTTATGGTTTATAAA
66 AATTTTT-AAAAAATTAAACTTTTAAATTATTATTTTAGTGTTAAAGTATTTTACGGCTTATAAA
* * * *
1767891 TTTTAATCTAAGCATGAATAATAGTAAAGATAAAAATAATTATAGTGAAAATTATTAATTGAGAA
130 TTTTAATCTAAGAATGAATAATAGTAAAGATAAAAATAATTATAGTGAAAATTAATAATTAAAAA
*
1767956 ACTTTGACATAAAGTAATAAAAATTATAAAGACGGAACAAGAG
195 ACTTTAACATAAAGTAATAAAAATTATAAAGACGGAACAAGAG
* * * *
1767999 TTGTCAAAATATTAACGTAAATATGTAAAATTTAATATAATAAATTAATTATATAAAATAAACAT
1 TTGTCAAAATATTAACGTAAATATATAAAATTTAACACAATAAATCAATTATATAAAATAAACAT
* * *
1768064 AATTTTT-AAAAATTAAA-TATTTTAATTTTTATTCTTAAGT-TTAAAGTTTTTTACGGCTTATA
66 AATTTTTAAAAAATTAAACT-TTTAAATTATTATT-TT-AGTGTTAAAGTATTTTACGGCTTATA
* * * * * *
1768126 AGTTTTAATTTATGAATGAATAATAGTAAAGATAAAAATAATTATTGTGAAAGTTAATAGTTAAA
128 AATTTTAATCTAAGAATGAATAATAGTAAAGATAAAAATAATTATAGTGAAAATTAATAATTAAA
*
1768191 AAACTTTAATATAAAG
193 AAACTTTAACATAAAG
1768207 CAGTAAGAAT
Statistics
Matches: 176, Mismatches: 29, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
235 1 0.01
236 22 0.12
237 89 0.51
238 64 0.36
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.39
Consensus pattern (237 bp):
TTGTCAAAATATTAACGTAAATATATAAAATTTAACACAATAAATCAATTATATAAAATAAACAT
AATTTTTAAAAAATTAAACTTTTAAATTATTATTTTAGTGTTAAAGTATTTTACGGCTTATAAAT
TTTAATCTAAGAATGAATAATAGTAAAGATAAAAATAATTATAGTGAAAATTAATAATTAAAAAA
CTTTAACATAAAGTAATAAAAATTATAAAGACGGAACAAGAG
Found at i:1778654 original size:41 final size:41
Alignment explanation
Indices: 1778600--1778684 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
1778590 TTTACTTTCA
*
1778600 TTTTTTTTGAAAAGAAAATTTCTATTTTTAT-AATCACCAT
1 TTTTTTTTAAAAAGAAAATTTCTATTTTTATAAATCACCAT
* *
1778640 TTTTTTTATAAAAAGAGAATTTCTATTTTTTTAAATCACCAT
1 TTTTTTT-TAAAAAGAAAATTTCTATTTTTATAAATCACCAT
1778682 TTT
1 TTT
1778685 ATTTCACCCA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 7 0.17
41 21 0.52
42 12 0.30
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (41 bp):
TTTTTTTTAAAAAGAAAATTTCTATTTTTATAAATCACCAT
Found at i:1780559 original size:26 final size:26
Alignment explanation
Indices: 1780529--1780580 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
1780519 TGGTGGAAAG
1780529 GGTCTTTCATAAAAACAAATGGTTAT
1 GGTCTTTCATAAAAACAAATGGTTAT
1780555 GGTCTTTCATAAAAACAAATGGTTAT
1 GGTCTTTCATAAAAACAAATGGTTAT
1780581 ACTTGTGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (26 bp):
GGTCTTTCATAAAAACAAATGGTTAT
Found at i:1793228 original size:2 final size:2
Alignment explanation
Indices: 1793223--1793259 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1793213 TTAAAAAAAG
*
1793223 AT AT AT AC 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 A
1793260 CAGATAATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1799343 original size:20 final size:19
Alignment explanation
Indices: 1799312--1799357 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
1799302 AAATTGAATA
1799312 ATAAAAAA--ATATTACAA-
1 ATAAAAAATTATATTA-AAT
1799329 ATAAATAAATTATATTAAAT
1 ATAAA-AAATTATATTAAAT
1799349 ATAAAAAAT
1 ATAAAAAAT
1799358 AAATAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.20
18 3 0.12
19 6 0.24
20 11 0.44
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAAAAAATTATATTAAAT
Found at i:1799375 original size:23 final size:23
Alignment explanation
Indices: 1799331--1799377 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1799321 TATTACAAAT
*
1799331 AAATAAATTATATTAAATATAAA
1 AAATAAATTAAATTAAATATAAA
*
1799354 AAATAAA-TAAATTACATAATAAA
1 AAATAAATTAAATTAAAT-ATAAA
1799377 A
1 A
1799378 TTTAAGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
AAATAAATTAAATTAAATATAAA
Found at i:1799556 original size:21 final size:20
Alignment explanation
Indices: 1799532--1799578 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
1799522 AGGTCTGAAT
1799532 TATTATCAATTTATCATTTAA
1 TATTAT-AATTTATCATTTAA
*
1799553 TATTAATTATTTATCATTTAA
1 TATT-ATAATTTATCATTTAA
1799574 TATTA
1 TATTA
1799579 ATTATCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 21 0.88
22 2 0.08
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTATAATTTATCATTTAA
Found at i:1799579 original size:21 final size:21
Alignment explanation
Indices: 1799540--1799583 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1799530 ATTATTATCA
1799540 ATTTATCATTTAATATTAATT
1 ATTTATCATTTAATATTAATT
1799561 ATTTATCATTTAATATTAATT
1 ATTTATCATTTAATATTAATT
1799582 AT
1 AT
1799584 CATAAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTATCATTTAATATTAATT
Found at i:1799734 original size:8 final size:8
Alignment explanation
Indices: 1799690--1799748 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
1799680 TTATTAGTAG
1799690 TTAAATTA
1 TTAAATTA
1799698 TT-AATT-
1 TTAAATTA
* *
1799704 TTACATAA
1 TTAAATTA
1799712 TTAAATATA
1 TTAAAT-TA
*
1799721 TAAAATTA
1 TTAAATTA
1799729 TTAAATTAA
1 TTAAATT-A
1799738 TTAAAATTA
1 TT-AAATTA
1799747 TT
1 TT
1799749 TTTTTAACCC
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
6 2 0.05
7 6 0.15
8 15 0.38
9 12 0.30
10 5 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (8 bp):
TTAAATTA
Found at i:1808539 original size:5 final size:5
Alignment explanation
Indices: 1808529--1808553 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1808519 TCCAAGTAAG
1808529 TGTTT TGTTT TGTTT TGTTT TGTTT
1 TGTTT TGTTT TGTTT TGTTT TGTTT
1808554 CAATTAATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TGTTT
Found at i:1839593 original size:14 final size:15
Alignment explanation
Indices: 1839572--1839612 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
1839562 AACTCAACCC
* *
1839572 AGAATCAAGAATCAA
1 AGAATCAAAAAACAA
1839587 A-AATCAAAAAACAA
1 AGAATCAAAAAACAA
1839601 AGAATCAAAAAA
1 AGAATCAAAAAA
1839613 TAAATGTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.71, C:0.12, G:0.07, T:0.10
Consensus pattern (15 bp):
AGAATCAAAAAACAA
Found at i:1840174 original size:17 final size:18
Alignment explanation
Indices: 1840152--1840192 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
1840142 AAGTACACAC
1840152 AATAATTTATA-AATTT-T
1 AATAATTTA-AGAATTTAT
1840169 AATAA-TTAAGAATTTAT
1 AATAATTTAAGAATTTAT
1840186 AATAATT
1 AATAATT
1840193 AAATAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.05
16 8 0.38
17 11 0.52
18 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
AATAATTTAAGAATTTAT
Found at i:1840193 original size:17 final size:16
Alignment explanation
Indices: 1840163--1840194 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1840153 ATAATTTATA
1840163 AATTTTAATAATTAAG
1 AATTTTAATAATTAAG
1840179 AATTTATAATAATTAA
1 AATTT-TAATAATTAA
1840195 ATAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
AATTTTAATAATTAAG
Found at i:1846525 original size:4 final size:4
Alignment explanation
Indices: 1846516--1846543 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
1846506 CTTTAATTGC
1846516 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
1846544 GCTTGATTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:1862335 original size:2 final size:2
Alignment explanation
Indices: 1862328--1862355 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1862318 ACTAATTTTC
1862328 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
1862356 TTAACATAGC
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:1867392 original size:10 final size:10
Alignment explanation
Indices: 1867354--1867403 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 10
1867344 ATTAATCATG
1867354 TTAATTGTGT
1 TTAATTGTGT
* *
1867364 TTAAATGT-A
1 TTAATTGTGT
1867373 TTAA-TGTGT
1 TTAATTGTGT
1867382 TTAATTGTG-
1 TTAATTGTGT
1867391 TT-ATTGTGT
1 TTAATTGTGT
1867400 TTAA
1 TTAA
1867404 ACGTGTATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
8 9 0.27
9 12 0.36
10 12 0.36
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (10 bp):
TTAATTGTGT
Found at i:1867409 original size:18 final size:18
Alignment explanation
Indices: 1867352--1867409 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
1867342 TAATTAATCA
1867352 TGTTAATTGTGTTTAAATG
1 TGTT-ATTGTGTTTAAATG
* * *
1867371 TATTAATGTGTTTAATTG
1 TGTTATTGTGTTTAAATG
*
1867389 TGTTATTGTGTTTAAACG
1 TGTTATTGTGTTTAAATG
1867407 TGT
1 TGT
1867410 ATACATGACA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 29 0.91
19 3 0.09
ACGTcount: A:0.24, C:0.02, G:0.21, T:0.53
Consensus pattern (18 bp):
TGTTATTGTGTTTAAATG
Found at i:1867618 original size:18 final size:19
Alignment explanation
Indices: 1867585--1867624 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
1867575 ATTTGATGTT
* *
1867585 ATTGTTTTTTTCATTA-TA
1 ATTGTTTTTATAATTATTA
1867603 ATTGTTTTTATAATTATTA
1 ATTGTTTTTATAATTATTA
1867622 ATT
1 ATT
1867625 TTAAATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (19 bp):
ATTGTTTTTATAATTATTA
Found at i:1868331 original size:3 final size:3
Alignment explanation
Indices: 1868323--1868348 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1868313 AAGGAATTTA
1868323 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
1868349 GACACCTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1882716 original size:12 final size:12
Alignment explanation
Indices: 1882699--1882748 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
1882689 ATTTTATTTT
1882699 ATTTTTAATATA
1 ATTTTTAATATA
1882711 ATTTTTTATATTATA
1 A-TTTTTA-A-TATA
*
1882726 TTTTTTAATATA
1 ATTTTTAATATA
*
1882738 ATTTTTTATAT
1 ATTTTTAATAT
1882749 TATATATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
12 14 0.44
13 7 0.22
14 7 0.22
15 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATTTTTAATATA
Found at i:1882718 original size:13 final size:13
Alignment explanation
Indices: 1882700--1882745 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
1882690 TTTTATTTTA
1882700 TTTTTAATATAAT
1 TTTTTAATATAAT
1882713 TTTTT-ATATTATAT
1 TTTTTAATA-TA-AT
1882727 TTTTTAATATAAT
1 TTTTTAATATAAT
1882740 TTTTTA
1 TTTTTA
1882746 TATTATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.10
13 15 0.50
14 9 0.30
15 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTTAATATAAT
Found at i:1882770 original size:27 final size:27
Alignment explanation
Indices: 1882700--1882753 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1882690 TTTTATTTTA
1882700 TTTTTAATATAATTTTTTATATTATAT
1 TTTTTAATATAATTTTTTATATTATAT
1882727 TTTTTAATATAATTTTTTATATTATAT
1 TTTTTAATATAATTTTTTATATTATAT
1882754 ATTTATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTTAATATAATTTTTTATATTATAT
Found at i:1890079 original size:12 final size:12
Alignment explanation
Indices: 1890047--1890080 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
1890037 GCACTCATAT
1890047 ATATTCATATCC
1 ATATTCATATCC
1890059 AT-TTCCATATCC
1 ATATT-CATATCC
1890071 ATATTCATAT
1 ATATTCATAT
1890081 AATAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.10
12 16 0.80
13 2 0.10
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (12 bp):
ATATTCATATCC
Found at i:1897357 original size:2 final size:2
Alignment explanation
Indices: 1897350--1897382 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1897340 CTAGCTCCCC
*
1897350 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1897383 TTCTGTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1913730 original size:14 final size:14
Alignment explanation
Indices: 1913708--1913738 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1913698 TCACAACATA
1913708 AAGTAAAGTAAAAT
1 AAGTAAAGTAAAAT
*
1913722 AAGTGAAGTAAAAT
1 AAGTAAAGTAAAAT
1913736 AAG
1 AAG
1913739 CCCAACGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.19
Consensus pattern (14 bp):
AAGTAAAGTAAAAT
Found at i:1928546 original size:14 final size:15
Alignment explanation
Indices: 1928520--1928549 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1928510 TCCATCCCAA
1928520 AATGTTAAATTAATT
1 AATGTTAAATTAATT
1928535 AATGTT-AATTAATT
1 AATGTTAAATTAATT
1928549 A
1 A
1928550 TAATGTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
AATGTTAAATTAATT
Found at i:1933112 original size:23 final size:23
Alignment explanation
Indices: 1933086--1933130 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1933076 CTATCTTTAA
* *
1933086 TTTC-TCCACAACATACACTTTGG
1 TTTCATCCAAAACA-ACAATTTGG
1933109 TTTCATCCAAAACAACAATTTG
1 TTTCATCCAAAACAACAATTTG
1933131 TTGTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (23 bp):
TTTCATCCAAAACAACAATTTGG
Found at i:1939454 original size:2 final size:2
Alignment explanation
Indices: 1939447--1939478 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1939437 GCTTACCTAT
*
1939447 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1939479 CCTCATAGTG
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1939655 original size:31 final size:29
Alignment explanation
Indices: 1939619--1939678 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
1939609 TTATTAAACG
* *
1939619 TTTATTTAATTTAAAATAAAAATATAAAAAT
1 TTTATTAAATATAAAA-AAAAATA-AAAAAT
*
1939650 TTTATTAAATATAATAAAAAATAAAAAAT
1 TTTATTAAATATAAAAAAAAATAAAAAAT
1939679 AATTTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 6 0.23
30 7 0.27
31 13 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (29 bp):
TTTATTAAATATAAAAAAAAATAAAAAAT
Found at i:1939675 original size:27 final size:27
Alignment explanation
Indices: 1939633--1939708 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 27
1939623 TTTAATTTAA
*
1939633 AATAAAAATATAAAAATTTTATTAAATAT
1 AATAAAAA-AT-AAAATATTATTAAATAT
* *
1939662 AATAAAAAATAAAAAATAATTTAAATAT
1 AATAAAAAATAAAATATTA-TTAAATAT
*
1939690 -TTAAAAAATAAAATATTAT
1 AATAAAAAATAAAATATTAT
1939709 GTGGATAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 10 0.25
29 8 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
AATAAAAAATAAAATATTATTAAATAT
Found at i:1940465 original size:19 final size:20
Alignment explanation
Indices: 1940428--1940466 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1940418 GGATTTTGAA
1940428 TTAAAATAAATAAATATTTT
1 TTAAAATAAATAAATATTTT
1940448 TTAAAA-AAATTAAA-ATTTT
1 TTAAAATAAA-TAAATATTTT
1940467 GATTTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAAAATAAATAAATATTTT
Found at i:1940707 original size:15 final size:15
Alignment explanation
Indices: 1940687--1940741 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
1940677 TTTACACTGC
*
1940687 AATGTGATT-ACAGGT
1 AATGTGATTGA-AAGT
1940702 AATGTGATTGAAAGT
1 AATGTGATTGAAAGT
* *
1940717 AATGTGATTGTAAGC
1 AATGTGATTGAAAGT
1940732 AATGTGATTG
1 AATGTGATTG
1940742 TAGAGAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
15 35 0.97
16 1 0.03
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.35
Consensus pattern (15 bp):
AATGTGATTGAAAGT
Found at i:1940975 original size:15 final size:14
Alignment explanation
Indices: 1940959--1941248 Score: 94
Period size: 15 Copynumber: 19.1 Consensus size: 14
1940949 TTTTAATATC
1940959 ATATATTTTATTTT
1 ATATATTTTATTTT
* * *
1940973 CATTTATAATTATAATT
1 -ATATAT-TTTAT-TTT
1940990 ATATATTTTATTTT
1 ATATATTTTATTTT
1941004 -TAATATATTTATATTT
1 AT-ATAT-TTTAT-TTT
1941020 AT-TATTATTAATTTTT
1 ATATATT-TT-A-TTTT
*
1941036 ATATAATATTATCTCTT
1 ATAT-ATTTTAT-T-TT
* *
1941053 AAATATATTTTAATGTC
1 --ATATATTTT-ATTTT
*
1941070 ATACATTTTA-TTT
1 ATATATTTTATTTT
1941083 -T-TA-TTTATTATT
1 ATATATTTTATT-TT
1941095 ATA-ATTTTA-TTT
1 ATATATTTTATTTT
*
1941107 ATTTTATTTTTATGTTT
1 A-TATA-TTTTAT-TTT
*
1941124 AATATATTTTTTATATT
1 -ATATA--TTTTATTTT
1941141 ATATATTTTATTTT
1 ATATATTTTATTTT
* *
1941155 AATTTGTTTTATCTATATT
1 -ATATATTTTA--T-T-TT
1941174 ATATAAATTTTAATTTT
1 ATAT--ATTTT-ATTTT
*
1941191 TTATATTTTATTTT
1 ATATATTTTATTTT
* *
1941205 TTA-ATTTTTATATT
1 ATATA-TTTTATTTT
1941219 ATATATTTTATTTT
1 ATATATTTTATTTT
*
1941233 AATATTTTTTATTTT
1 -ATATATTTTATTTT
1941248 A
1 A
1941249 ATTATAATAA
Statistics
Matches: 209, Mismatches: 27, Indels: 79
0.66 0.09 0.25
Matches are distributed among these distances:
10 4 0.02
11 2 0.01
12 6 0.03
13 7 0.03
14 48 0.23
15 60 0.29
16 25 0.12
17 24 0.11
18 19 0.09
19 9 0.04
20 4 0.02
21 1 0.00
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (14 bp):
ATATATTTTATTTT
Found at i:1941112 original size:33 final size:31
Alignment explanation
Indices: 1941074--1941154 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 31
1941064 AATGTCATAC
*
1941074 ATTTTATTTTTATTTATTATTATAATTTTATT-T
1 ATTTTATTTTTATTT-TTAATAT-ATTTT-TTAT
*
1941107 ATTTTATTTTTATGTTTAATATATTTTTTAT
1 ATTTTATTTTTATTTTTAATATATTTTTTAT
*
1941138 ATTATATATTTTATTTT
1 ATTTTAT-TTTTATTTT
1941155 AATTTGTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 2 0.05
31 12 0.29
32 14 0.33
33 14 0.33
ACGTcount: A:0.27, C:0.00, G:0.01, T:0.72
Consensus pattern (31 bp):
ATTTTATTTTTATTTTTAATATATTTTTTAT
Found at i:1941141 original size:112 final size:112
Alignment explanation
Indices: 1940891--1941118 Score: 359
Period size: 112 Copynumber: 2.0 Consensus size: 112
1940881 AAATATAGAG
* *
1940891 TTAATATATTTATGTTTCTTATTATTAATTTTTATATAATATCATCTCTTAAATATATTTTTAAT
1 TTAATATATTTATATTTATTATTATTAATTTTTATATAATATCATCTCTTAAATATATTTTTAAT
*
1940956 ATCATATATTTTATTTTCATTTATAATTATAATTATATATTTTATTT
66 ATCATACATTTTATTTTCATTTATAATTATAATTATATATTTTATTT
*
1941003 TTAATATATTTATATTTATTATTATTAATTTTTATATAATATTATCTCTTAAATATA-TTTTAAT
1 TTAATATATTTATATTTATTATTATTAATTTTTATATAATATCATCTCTTAAATATATTTTTAAT
* * * *
1941067 GTCATACATTTTATTTTTATTTATTATTATAATTTTATTTATTTTATTT
66 ATCATACATTTTATTTTCATTTATAATTATAA--TTATATATTTTATTT
1941116 TTA
1 TTA
1941119 TGTTTAATAT
Statistics
Matches: 106, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
111 35 0.33
112 54 0.51
113 17 0.16
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (112 bp):
TTAATATATTTATATTTATTATTATTAATTTTTATATAATATCATCTCTTAAATATATTTTTAAT
ATCATACATTTTATTTTCATTTATAATTATAATTATATATTTTATTT
Found at i:1941227 original size:43 final size:42
Alignment explanation
Indices: 1941168--1941251 Score: 109
Period size: 41 Copynumber: 2.0 Consensus size: 42
1941158 TTGTTTTATC
*
1941168 TATATTATATAAATTTTAATTTTTTATATTTTATT-TTTTAATTTT
1 TATATTATAT-AATTTT-A-TTTTAATATTTT-TTATTTTAATTTT
1941213 TATATTATAT-ATTTTATTTTAATATTTTTTATTTTAATT
1 TATATTATATAATTTTATTTTAATATTTTTTATTTTAATT
1941252 ATAATAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
40 2 0.05
41 19 0.51
42 1 0.03
43 5 0.14
45 10 0.27
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (42 bp):
TATATTATATAATTTTATTTTAATATTTTTTATTTTAATTTT
Found at i:1941227 original size:78 final size:79
Alignment explanation
Indices: 1941080--1941256 Score: 224
Period size: 78 Copynumber: 2.3 Consensus size: 79
1941070 ATACATTTTA
* *
1941080 TTTTTATTTATTATTATAATTTTATTTATTTTATTTTTATGTTTAATATATTTTTTATATTATAT
1 TTTTTATTTATTATTATAATTTTAATTATTTTATTTTTATGTTT-ATATAATTTTTATATTATAT
1941145 ATTTTATTTTAAT-T
65 ATTTTATTTTAATAT
1941159 TGTTTTATCTATATTA-TATAAATTTTAATT-TTTTATATTTTAT-TTT-T-TAATTTTTATATT
1 T-TTTTAT-T-TATTATTAT-AATTTTAATTATTTTAT-TTTTATGTTTATATAATTTTTATATT
1941219 ATATATTTTATTTTAATAT
61 ATATATTTTATTTTAATAT
*
1941238 TTTTTATTT-TAATTATAAT
1 TTTTTATTTATTATTATAAT
1941257 AATATAAAAT
Statistics
Matches: 88, Mismatches: 3, Indels: 18
0.81 0.03 0.17
Matches are distributed among these distances:
75 5 0.06
76 4 0.05
77 1 0.01
78 35 0.40
79 4 0.05
80 6 0.07
81 13 0.15
82 20 0.23
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (79 bp):
TTTTTATTTATTATTATAATTTTAATTATTTTATTTTTATGTTTATATAATTTTTATATTATATA
TTTTATTTTAATAT
Found at i:1941247 original size:7 final size:7
Alignment explanation
Indices: 1941181--1941247 Score: 62
Period size: 7 Copynumber: 9.4 Consensus size: 7
1941171 ATTATATAAA
*
1941181 TTTTAAT
1 TTTTTAT
1941188 TTTTTAT
1 TTTTTAT
*
1941195 ATTTTAT
1 TTTTTAT
*
1941202 TTTTTAA
1 TTTTTAT
1941209 TTTTTAT
1 TTTTTAT
* *
1941216 ATTATAT
1 TTTTTAT
*
1941223 ATTTTAT
1 TTTTTAT
*
1941230 TTTAATAT
1 TTT-TTAT
1941238 TTTTTAT
1 TTTTTAT
1941245 TTT
1 TTT
1941248 AATTATAATA
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
7 42 0.88
8 6 0.12
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTAT
Found at i:1941249 original size:15 final size:15
Alignment explanation
Indices: 1941075--1941250 Score: 70
Period size: 14 Copynumber: 11.8 Consensus size: 15
1941065 ATGTCATACA
1941075 TTTTATTTT--TATT
1 TTTTATTTTAATATT
* *
1941088 TATTATTATAAT-TT
1 TTTTATTTTAATATT
1941102 TATTTATTTT-AT-TT
1 T-TTTATTTTAATATT
* * *
1941116 TTATGTTTAATATATT
1 TTTTATTTTA-ATATT
* *
1941132 TTTTATATT-ATATA
1 TTTTATTTTAATATT
1941146 TTTTATTTTAAT-TT
1 TTTTATTTTAATATT
*
1941160 GTTTTA-TCT-ATATT
1 -TTTTATTTTAATATT
**
1941174 ATATAAATTTTAAT-TT
1 -T-TTTATTTTAATATT
1941190 TTTATATTTT-AT-TT
1 TTT-TATTTTAATATT
*
1941204 TTTAATTTTTATATTATAT
1 TTTTA-TTTTA-A-TAT-T
1941223 ATTTTATTTTAATATT
1 -TTTTATTTTAATATT
1941239 TTTTATTTTAAT
1 TTTTATTTTAAT
1941251 TATAATAATA
Statistics
Matches: 120, Mismatches: 23, Indels: 38
0.66 0.13 0.21
Matches are distributed among these distances:
13 15 0.12
14 38 0.32
15 36 0.30
16 13 0.11
17 6 0.05
18 2 0.02
19 6 0.05
20 4 0.03
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (15 bp):
TTTTATTTTAATATT
Found at i:1941454 original size:27 final size:25
Alignment explanation
Indices: 1941402--1941464 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 25
1941392 ATTATGATTT
1941402 TATATTAT-AATAATTTATTATAAAA
1 TATATTATAAATAATTTA-TATAAAA
*
1941427 TAAATATTATAATATAATTTA-ATTAAA
1 T--ATATTATAA-ATAATTTATATAAAA
1941454 TATATTATAAA
1 TATATTATAAA
1941465 AAATATACTC
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
24 1 0.03
25 10 0.30
27 13 0.39
28 1 0.03
29 8 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TATATTATAAATAATTTATATAAAA
Found at i:1944523 original size:92 final size:93
Alignment explanation
Indices: 1944358--1944534 Score: 250
Period size: 92 Copynumber: 1.9 Consensus size: 93
1944348 TCCGTGCAAG
* *
1944358 GTGAATCTGAGCTGTCTATTTTGATATTTAGCATCATACTATTTTCCTTATGTTGTTCAAATTTT
1 GTGAATCTGAGCTGTCCATTTTGATATTTAGCATCATACTATTTTCCTTATCTTGTTCAAATTTT
1944423 AATTTTGTAAATAGGGGGACTAAGACAT
66 AATTTTGTAAATAGGGGGACTAAGACAT
* ** * **
1944451 GTGAATCTGAGCTGTCCA-TTTGATATTTATCATTGTACTATTTTTCTTATCTTGTTCCTATTTT
1 GTGAATCTGAGCTGTCCATTTTGATATTTAGCATCATACTATTTTCCTTATCTTGTTCAAATTTT
*
1944515 -TTTGTTGTAAATAGGGGGAC
66 AATT-TTGTAAATAGGGGGAC
1944535 CGAGACAGAA
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
91 2 0.03
92 55 0.74
93 17 0.23
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (93 bp):
GTGAATCTGAGCTGTCCATTTTGATATTTAGCATCATACTATTTTCCTTATCTTGTTCAAATTTT
AATTTTGTAAATAGGGGGACTAAGACAT
Found at i:1946814 original size:24 final size:23
Alignment explanation
Indices: 1946767--1946820 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
1946757 CTATTAATAA
1946767 AATTTTAAAAATTAAATTTTTATT
1 AATTTTAAAAATT-AATTTTTATT
*
1946791 AATTTTAAAAATT-ATTATTA-T
1 AATTTTAAAAATTAATTTTTATT
*
1946812 ATTTTTAAA
1 AATTTTAAA
1946821 TAAAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 9 0.32
22 6 0.21
24 13 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
AATTTTAAAAATTAATTTTTATT
Found at i:1946821 original size:19 final size:18
Alignment explanation
Indices: 1946778--1946821 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
1946768 ATTTTAAAAA
*
1946778 TTAAATTTTTATTAATTT
1 TTAAATTATTATTAATTT
*
1946796 TAAAAATTATTATTATATTT
1 T-TAAATTATTATTA-ATTT
1946816 TTAAAT
1 TTAAAT
1946822 AAAATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAAATTATTATTAATTT
Found at i:1947017 original size:29 final size:28
Alignment explanation
Indices: 1946959--1947016 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
1946949 TTTTTTAAAA
*
1946959 TAAAAATTAATAAAATTATATAATAATTT
1 TAAAAATTAATAAAA-TATAAAATAATTT
*
1946988 TAAAAATTAATTAAAA-ATAAAATTATTT
1 TAAAAATTAA-TAAAATATAAAATAATTT
1947016 T
1 T
1947017 TTATTTAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 10 0.38
30 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
TAAAAATTAATAAAATATAAAATAATTT
Found at i:1947114 original size:18 final size:20
Alignment explanation
Indices: 1947091--1947137 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1947081 TATACTAAAA
1947091 ATATTTTTTT-AAAA-TAAT
1 ATATTTTTTTAAAAATTAAT
1947109 ATATTTATTTTAAAAATTAAT
1 ATATTT-TTTTAAAAATTAAT
1947130 A-ATTTTTT
1 ATATTTTTT
1947138 ATATAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.23
19 7 0.27
20 8 0.31
21 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTTTTTTAAAAATTAAT
Found at i:1951043 original size:32 final size:32
Alignment explanation
Indices: 1950969--1951044 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
1950959 TCATTCCAGA
* *
1950969 AAACTTAAACCTAGTTGAATAAGTATGAAAAG
1 AAACTTAAACTTAGTTGAATAAGCATGAAAAG
1951001 AAACTTAAACTTAGTTGAATAAGCATGAAAAG
1 AAACTTAAACTTAGTTGAATAAGCATGAAAAG
*
1951033 AAAGTTAAACTT
1 AAACTTAAACTT
1951045 GAAAATTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.50, C:0.09, G:0.14, T:0.26
Consensus pattern (32 bp):
AAACTTAAACTTAGTTGAATAAGCATGAAAAG
Found at i:1958395 original size:13 final size:13
Alignment explanation
Indices: 1958377--1958403 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1958367 AAAAAACCAA
1958377 TTTTTTTTTAATT
1 TTTTTTTTTAATT
1958390 TTTTTTTTTAATT
1 TTTTTTTTTAATT
1958403 T
1 T
1958404 AGAGGTGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTAATT
Found at i:1958915 original size:23 final size:23
Alignment explanation
Indices: 1958889--1958937 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
1958879 GATAAGTGTG
1958889 TAAA-ATAAAAAATAAATGAATAA
1 TAAACATAAAAAATAAAT-AATAA
**
1958912 TAAACATTTAAAATAAATAATAA
1 TAAACATAAAAAATAAATAATAA
1958935 TAA
1 TAA
1958938 CCCATCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (23 bp):
TAAACATAAAAAATAAATAATAA
Found at i:1960213 original size:3 final size:3
Alignment explanation
Indices: 1960207--1960237 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
1960197 TCTCCAAATC
1960207 AAT AAT AAT AAT AAT AAT AAT AAT ATAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
1960238 TGGTTCACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:1965904 original size:28 final size:28
Alignment explanation
Indices: 1965825--1965905 Score: 117
Period size: 28 Copynumber: 2.9 Consensus size: 28
1965815 GACAACAATC
* * *
1965825 TTATTAAGGATGTTTGTGCTCTTCAATA
1 TTATTATGGATGTTTGTGTTCTTGAATA
*
1965853 TTATTATGAATGTTTGTGTTCTTGAATA
1 TTATTATGGATGTTTGTGTTCTTGAATA
*
1965881 TTATTATGGATATTTGTGTTCTTGA
1 TTATTATGGATGTTTGTGTTCTTGA
1965906 TTAATATCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (28 bp):
TTATTATGGATGTTTGTGTTCTTGAATA
Found at i:1966530 original size:2 final size:2
Alignment explanation
Indices: 1966523--1966547 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1966513 ACAAAATAAG
1966523 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 A
1966548 AAGGTTGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1969643 original size:7 final size:7
Alignment explanation
Indices: 1969607--1969633 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1969597 ATATCAACAC
1969607 AATTTTG
1 AATTTTG
1969614 AATTTTG
1 AATTTTG
1969621 AATTTTG
1 AATTTTG
1969628 AATTTT
1 AATTTT
1969634 TTTAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (7 bp):
AATTTTG
Found at i:1986947 original size:2 final size:2
Alignment explanation
Indices: 1986940--1986968 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1986930 GCAGATGTAC
1986940 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 A
1986969 ACACCAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1987702 original size:17 final size:17
Alignment explanation
Indices: 1987664--1987709 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
1987654 TATTATGGGG
1987664 TATTTTT-AAAA-AAAA
1 TATTTTTAAAAATAAAA
*
1987679 -ATCTTTAAAAATAAAA
1 TATTTTTAAAAATAAAA
1987695 TATTTTTAAAAATAA
1 TATTTTTAAAAATAA
1987710 CTCTCTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 5 0.19
15 4 0.15
16 4 0.15
17 13 0.50
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
TATTTTTAAAAATAAAA
Found at i:1987921 original size:76 final size:76
Alignment explanation
Indices: 1987795--1987963 Score: 205
Period size: 76 Copynumber: 2.2 Consensus size: 76
1987785 ACATATCATA
** * * * *
1987795 TACAAAAACATGTGGCATGCTATGATTAGGTTCTTATACGTCATGTTGAAAAAAAATACTATTAT
1 TACAAAAACATGTTACATGCCATGATTAGGTTATTACACGTCAAGTTGAAAAAAAATACTATTAT
* *
1987860 TATATGAC-ATG
66 TACACG-CTATG
* * * *
1987871 TACAAAAATATGTTACATGCCATGGTTAGGTTATTACACGTCAAGTTGAAAAAAAATATTGTTAT
1 TACAAAAACATGTTACATGCCATGATTAGGTTATTACACGTCAAGTTGAAAAAAAATACTATTAT
1987936 TACACGCTATG
66 TACACGCTATG
*
1987947 TACAAATACATGTTACA
1 TACAAAAACATGTTACA
1987964 CATCATATAT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
75 1 0.01
76 77 0.99
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (76 bp):
TACAAAAACATGTTACATGCCATGATTAGGTTATTACACGTCAAGTTGAAAAAAAATACTATTAT
TACACGCTATG
Found at i:1989469 original size:2 final size:2
Alignment explanation
Indices: 1989462--1989486 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1989452 AGAAAACCTA
1989462 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 A
1989487 GAATGTGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1992236 original size:24 final size:24
Alignment explanation
Indices: 1992204--1992253 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
1992194 CTGATACCTT
1992204 CATTAGATAAAGAAGAATAAATAA
1 CATTAGATAAAGAAGAATAAATAA
1992228 CATTAGATAAAGAAGAATAAATAA
1 CATTAGATAAAGAAGAATAAATAA
1992252 CA
1 CA
1992254 AATTTTAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.20
Consensus pattern (24 bp):
CATTAGATAAAGAAGAATAAATAA
Found at i:1992724 original size:16 final size:16
Alignment explanation
Indices: 1992700--1992734 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1992690 TGAATTGACA
1992700 ATTCCAACTAGCATTG
1 ATTCCAACTAGCATTG
* *
1992716 ATTCTAACTATCATTG
1 ATTCCAACTAGCATTG
1992732 ATT
1 ATT
1992735 TTTTGTTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (16 bp):
ATTCCAACTAGCATTG
Found at i:1995716 original size:34 final size:33
Alignment explanation
Indices: 1995673--1995775 Score: 134
Period size: 34 Copynumber: 3.0 Consensus size: 33
1995663 CAAAATAATA
* *
1995673 AAACCTACTAGTAATATAATTGATCATTCTACAT
1 AAACTTACTAGTAATATAATT-ATCATCCTACAT
*
1995707 AAACTTACTAGTAATATAATTAATCATCCTTCAT
1 AAACTTACTAGTAATATAATT-ATCATCCTACAT
*
1995741 AAACCTTACTAGGAATATAATTAGTCATCCTACAT
1 AAA-CTTACTAGTAATATAATTA-TCATCCTACAT
1995776 TATGGTTCCT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
34 34 0.56
35 27 0.44
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (33 bp):
AAACTTACTAGTAATATAATTATCATCCTACAT
Found at i:1998354 original size:88 final size:88
Alignment explanation
Indices: 1998250--1998424 Score: 278
Period size: 88 Copynumber: 2.0 Consensus size: 88
1998240 TCACTAGATA
* ** *
1998250 TATAGTGCCTAGAGCTATATCTTTCAATAAAAATAACTCCGAAAGCTAATACCGATGCAGTTGCG
1 TATAGTGCCTAGAGCTATATCTTTCAATAAAAACAACTCCGAAAGCTAATACCGATGCAACTGCA
1998315 CCCAAAACTGTTGTGTGCAAAGG
66 CCCAAAACTGTTGTGTGCAAAGG
* * *
1998338 TATAGTTCCTAGAGCTATATCTTTCAATAAAAACAACTTCGAAAGCTGATACCGATGCAACTGCA
1 TATAGTGCCTAGAGCTATATCTTTCAATAAAAACAACTCCGAAAGCTAATACCGATGCAACTGCA
*
1998403 CCCATAACTGTTGTGTGCAAAG
66 CCCAAAACTGTTGTGTGCAAAG
1998425 ATTTTTTATC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 79 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (88 bp):
TATAGTGCCTAGAGCTATATCTTTCAATAAAAACAACTCCGAAAGCTAATACCGATGCAACTGCA
CCCAAAACTGTTGTGTGCAAAGG
Found at i:2000893 original size:45 final size:45
Alignment explanation
Indices: 2000807--2000892 Score: 113
Period size: 44 Copynumber: 1.9 Consensus size: 45
2000797 CTAGGTTTGG
* * * *
2000807 ATTAGATTTTTTTTTCTCTCACTATTGATGTCGTAGATTTTTCTT
1 ATTAGATTTTTTTTCCTCTCACAATTAACGTCGTAGATTTTTCTT
2000852 ATTAGA-TTTTTTTCCTCTCACAATTAACGTTC-TAGATTTTT
1 ATTAGATTTTTTTTCCTCTCACAATTAACG-TCGTAGATTTTT
2000893 TTTTACTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 28 0.78
45 8 0.22
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.55
Consensus pattern (45 bp):
ATTAGATTTTTTTTCCTCTCACAATTAACGTCGTAGATTTTTCTT
Found at i:2001098 original size:92 final size:92
Alignment explanation
Indices: 2000962--2001165 Score: 243
Period size: 92 Copynumber: 2.2 Consensus size: 92
2000952 CTCCCATATC
* * * * *
2000962 ATTTTTCAATATTAAATATAATTAATGTAAATAAGTGCATATCAACTAACTAAAGATAG-GATTT
1 ATTTTTCAATGTTAAATGTAACTAATATAAATAAGTGCAAATCAACTAACTAAAGATAGAG-TTT
* *
2001026 TGAGAGAGATTGAATTATTACATGTTCT
65 TGAGAGAGATTGAATTAATACATATTCT
* * **
2001054 ATTTTTCAAGTGTTAAATGTAACTAATATAAA-AGGTTCAAATCAACTAGTTAAAGATAGAGTTT
1 ATTTTTCAA-TGTTAAATGTAACTAATATAAATAAGTGCAAATCAACTAACTAAAGATAGAGTTT
* *
2001118 TGAGAGATATTGAGTTAATACATATTCT
65 TGAGAGAGATTGAATTAATACATATTCT
*
2001146 A-TTTTAAATGTTAAATGTAA
1 ATTTTTCAATGTTAAATGTAA
2001166 TAAATGAAAT
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
90 12 0.12
91 6 0.06
92 59 0.61
93 19 0.20
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (92 bp):
ATTTTTCAATGTTAAATGTAACTAATATAAATAAGTGCAAATCAACTAACTAAAGATAGAGTTTT
GAGAGAGATTGAATTAATACATATTCT
Found at i:2004185 original size:2 final size:2
Alignment explanation
Indices: 2004178--2004214 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2004168 TACGATGGGT
2004178 TA 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 TA T
2004215 TGTATTTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2007523 original size:14 final size:16
Alignment explanation
Indices: 2007488--2007521 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2007478 ATTGATGACA
2007488 TTTTGAATAGAATATT
1 TTTTGAATAGAATATT
*
2007504 TTTTGAATA-ATTATT
1 TTTTGAATAGAATATT
2007519 TTT
1 TTT
2007522 GATTAGATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
TTTTGAATAGAATATT
Found at i:2014178 original size:30 final size:30
Alignment explanation
Indices: 2014142--2014200 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
2014132 TCAAGATCTT
2014142 ATTCAAACTTCAATCTTAATTCACCTCAAA
1 ATTCAAACTTCAATCTTAATTCACCTCAAA
* ** *
2014172 ATTCAAATTTTGATCTTAATTCATCTCAA
1 ATTCAAACTTCAATCTTAATTCACCTCAA
2014201 CGGTGATAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (30 bp):
ATTCAAACTTCAATCTTAATTCACCTCAAA
Found at i:2015151 original size:15 final size:14
Alignment explanation
Indices: 2015125--2015176 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
2015115 AATAAGTATT
2015125 AAATTAAT-TATAA
1 AAATTAATATATAA
2015138 AAATT-ATATATATA
1 AAATTAATATATA-A
* *
2015152 TAATTAAAATATTAA
1 AAATTAATATA-TAA
2015167 AAATTAATAT
1 AAATTAATAT
2015177 TTATTATCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
12 2 0.06
13 9 0.29
14 5 0.16
15 13 0.42
16 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AAATTAATATATAA
Found at i:2018059 original size:74 final size:74
Alignment explanation
Indices: 2017935--2018075 Score: 237
Period size: 74 Copynumber: 1.9 Consensus size: 74
2017925 ATTGTTATAT
* * * * *
2017935 AGGTCTTAACAATCACATTTACATCAGATGTGGGATGTTGGGTATTACAATCTCACCTACTCAAA
1 AGGTCTTAACAATCACATTTACATCAGATATGGCATGGTAGGTATCACAATCTCACCTACTCAAA
2018000 TTTTTGATG
66 TTTTTGATG
2018009 AGGTCTTAACAATCACATTTACATCAGATATGGCATGGTAGGTATCACAATCTCACCTACTCAAA
1 AGGTCTTAACAATCACATTTACATCAGATATGGCATGGTAGGTATCACAATCTCACCTACTCAAA
2018074 TT
66 TT
2018076 CTATCACACA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 62 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (74 bp):
AGGTCTTAACAATCACATTTACATCAGATATGGCATGGTAGGTATCACAATCTCACCTACTCAAA
TTTTTGATG
Found at i:2024902 original size:828 final size:829
Alignment explanation
Indices: 2023264--2024909 Score: 2481
Period size: 828 Copynumber: 2.0 Consensus size: 829
2023254 GAATTATCAA
* *
2023264 CCTATTGGATTGGTTGCAGACATTGTCGTTGCTTCCTAACCAAACCAACTACTTCTTGGATCAAG
1 CCTATTGGATTGGTTGCAGACATTGTCGTTGCTTCCTAACCAAACCAACTACCTCTTGAATCAAG
* ** * * *
2023329 TTCAGTACTTTATCATCATTTTTACCCACAACACATTGTGTCCCCTCGATCGGACTTGTAGGAAG
66 TTCAGTACTCTATCATCATTTCCAACCACAACACATTGTGTCCCCCCGATCGGACTGGTAGGAAG
* *
2023394 TTGGTTTATTCCAATAGTCATCTAAGTGTCTGATGTATTAATATCGTCTTGATTTTGGTTTGGAG
131 TTGGTTTATTCCAATAGTCATCTAAGTGTCTGATGTATTAATATCGTCTTGATTTTGATTTAGAG
* * * * * * *
2023459 GATTTTGGAGTCTCTCAAGACGAAAACCCTTAGTACCAACAACTCTAGCACTAGTTGCAAATTTA
196 GATTTTGAAGTCTCTCAAGACGAAAACCCCTAGCACCAACAACTCTAACACTAGCTACAAATTCA
* * * ** *
2023524 GCAAGATTAGGCTCACGATTTCGACGATGAGGCATATTGATTATTCATAATAAGGGAAATTATTA
261 ACAAGATTAGGCTCACGATTTCGACGATGAGGCATACTGATTATTCATAACAAGAAAAATTATCA
* * *
2023589 TTAGGCATTTTTTTTTATTGAAACACTTAGATATAGCAATCATATGGTGTATCAAATATGAATAG
326 TTAGGCATTTTTTTTTATTGAAACACTAAGATATAACAATCATATGGTGTATCAAACATGAATAG
* *
2023654 AGAAACACGTCCCAATCTTGTTTCTTCTACCCATCTCTCATATCTCGCATAAATGTTAAAATTAT
391 AGAAACACGTCCCAATCTTATTTCTTCTACCCATCTCTCATATCTCGCATAAATGTTAAAACTAT
* * * * ** * *
2023719 ATAATTATGCCTAATATGGACTCTGATACCACTAAATCTGTCACGCCCTAGACTTGAGACGCAAT
456 ATAATTATGCCCAACATAGACTCTGATACCACTAAATCTATCACGCCCTAGACCCGAGACACAAC
**
2023784 AGACGTCACACACCTGCAAGATATAACCTTACAGACATGCAAGGCTCAAAACACATATCTTAACC
521 AGACACCACACACCTGCAAGATATAACCTTACAGACATGCAAGGCTCAAAACACATATCTTAACC
* *
2023849 ACCTAACTAAAATGGATCAAATATATTATGAAGAATAATAATTCTCAAGTCAAGATATTAAGATA
586 AACTAACTAAAATGGATCAAATATATTATGAAGAATAATAATTCTCAAGCCAAGATATTAAGATA
*
2023914 AAACCCTGAATAACAATTTAAAGTAACAAAAGTTCATAACATTTAAGCAATCCTGAAGCAAACTA
651 AAACCCCGAATAACAATTTAAAGTAACAAAAGTTCATAACATTTAAGCAATCCTGAAGCAAACTA
* * * *
2023979 ACACTATATGCTAGCCTACGAGATGTCACTCCCCGAAGTTTCTCACCTACTTGACCAAATCATAA
716 ACACTATATGCTAGCCTACAAGATGTCACTCCCCGAAGTTTCCCACCTACTTAACCAAATCACAA
* *
2024044 CTTGAACAAAAAAAGTGAACGAAGGAGTGAGTCCAACAACTCAATAAGT
781 CCTGAACAAAAAAAGTGAACGAAAGAGTGAGTCCAACAACTCAATAAGT
* * *
2024093 CCTATTGGATTGGTTGCAGACGTTGTCGTTGCTTCCTAACCGAACCAGCTACCTCTTGAATCAAG
1 CCTATTGGATTGGTTGCAGACATTGTCGTTGCTTCCTAACCAAACCAACTACCTCTTGAATCAAG
* * * *
2024158 TTCAGTACTCTATCATCATTTCCAACCACAATACCTTGTGTCCCCCCGATCGGGCTGGTAGGAGG
66 TTCAGTACTCTATCATCATTTCCAACCACAACACATTGTGTCCCCCCGATCGGACTGGTAGGAAG
2024223 TTGGTTTATTCCAATAGTCATCTAAGTGTCTGATG-ATTAATATCGTCTTGATTTTGATTTAGAG
131 TTGGTTTATTCCAATAGTCATCTAAGTGTCTGATGTATTAATATCGTCTTGATTTTGATTTAGAG
* * * * * * *
2024287 GATTTTGAAGTCTTTTAAGACGAGAACCCCTAGCACTAACAGCTTTAACACTAGCTACAAGTTCA
196 GATTTTGAAGTCTCTCAAGACGAAAACCCCTAGCACCAACAACTCTAACACTAGCTACAAATTCA
* * * * *
2024352 ATAAGATTAGGCTCAGGGTTTCGATGATGAGGCATACTGGTTATTCATAACAAGAAAAATTATCA
261 ACAAGATTAGGCTCACGATTTCGACGATGAGGCATACTGATTATTCATAACAAGAAAAATTATCA
*
2024417 TTAGGC-TTTTTTTTTGTTGAAACACTAAGATATAACAATCATATGAGTGTATCAAACATGAATA
326 TTAGGCATTTTTTTTTATTGAAACACTAAGATATAACAATCATATG-GTGTATCAAACATGAATA
* *
2024481 GAGAAACACGTCCCAATTTTATTTCTTCTACCCATCTCTCATATCTCGCATAAGTGTTAAAACTA
390 GAGAAACACGTCCCAATCTTATTTCTTCTACCCATCTCTCATATCTCGCATAAATGTTAAAACTA
* ***
2024546 TATAATTATGCCCAACCTAGACTCTGATACCACTAAATCTATCACGTTTTTA-ACCCGAGACACA
455 TATAATTATGCCCAACATAGACTCTGATACCACTAAATCTATCACG-CCCTAGACCCGAGACACA
* *
2024610 ACAGACACCTCACACCTGCAAGATATAACCTTACAGGCATGCAAGGCTCAAAACACATATCTTAA
519 ACAGACACCACACACCTGCAAGATATAACCTTACAGACATGCAAGGCTCAAAACACATATCTTAA
*
2024675 CCAACTAACTAAAATGGATCAAATATATTATGAAGAATAATAATTCTCAAGCCAAGATATTACGA
584 CCAACTAACTAAAATGGATCAAATATATTATGAAGAATAATAATTCTCAAGCCAAGATATTAAGA
*
2024740 TAAAACCCCGAATAACAATTTAAGGTAACAAAAGTTCATAACATTTAAGCAATCCTGAAGCAAAC
649 TAAAACCCCGAATAACAATTTAAAGTAACAAAAGTTCATAACATTTAAGCAATCCTGAAGCAAAC
* ** * *
2024805 TAACACTATATGCTAGCCTATAAGATGTCACTCCCCGAAGTTTCCCACCTGTTTAATCAATTCAC
714 TAACACTATATGCTAGCCTACAAGATGTCACTCCCCGAAGTTTCCCACCTACTTAACCAAATCAC
* *
2024870 AACCTGAA-AAAAAAATGTGAAGGAAAGAGTGAGTCTAACA
779 AACCTGAACAAAAAAA-GTGAACGAAAGAGTGAGTCCAACA
2024910 GTTCAGTAAG
Statistics
Matches: 730, Mismatches: 84, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
827 43 0.06
828 535 0.73
829 152 0.21
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.30
Consensus pattern (829 bp):
CCTATTGGATTGGTTGCAGACATTGTCGTTGCTTCCTAACCAAACCAACTACCTCTTGAATCAAG
TTCAGTACTCTATCATCATTTCCAACCACAACACATTGTGTCCCCCCGATCGGACTGGTAGGAAG
TTGGTTTATTCCAATAGTCATCTAAGTGTCTGATGTATTAATATCGTCTTGATTTTGATTTAGAG
GATTTTGAAGTCTCTCAAGACGAAAACCCCTAGCACCAACAACTCTAACACTAGCTACAAATTCA
ACAAGATTAGGCTCACGATTTCGACGATGAGGCATACTGATTATTCATAACAAGAAAAATTATCA
TTAGGCATTTTTTTTTATTGAAACACTAAGATATAACAATCATATGGTGTATCAAACATGAATAG
AGAAACACGTCCCAATCTTATTTCTTCTACCCATCTCTCATATCTCGCATAAATGTTAAAACTAT
ATAATTATGCCCAACATAGACTCTGATACCACTAAATCTATCACGCCCTAGACCCGAGACACAAC
AGACACCACACACCTGCAAGATATAACCTTACAGACATGCAAGGCTCAAAACACATATCTTAACC
AACTAACTAAAATGGATCAAATATATTATGAAGAATAATAATTCTCAAGCCAAGATATTAAGATA
AAACCCCGAATAACAATTTAAAGTAACAAAAGTTCATAACATTTAAGCAATCCTGAAGCAAACTA
ACACTATATGCTAGCCTACAAGATGTCACTCCCCGAAGTTTCCCACCTACTTAACCAAATCACAA
CCTGAACAAAAAAAGTGAACGAAAGAGTGAGTCCAACAACTCAATAAGT
Found at i:2026929 original size:21 final size:22
Alignment explanation
Indices: 2026896--2026939 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
2026886 AAGTGGTTAA
2026896 TTTAAGTTATTTTA-GTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
* * *
2026917 TTTATGTTGTTTTATTTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
2026939 T
1 T
2026940 CTTTAAGAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (22 bp):
TTTAAGTTATTTTATGTTAAAT
Found at i:2030465 original size:35 final size:35
Alignment explanation
Indices: 2030399--2030478 Score: 81
Period size: 35 Copynumber: 2.3 Consensus size: 35
2030389 GTTCTCTGTC
* * * *
2030399 TTTATTTTTAAACGTGTTGAGATAAACTGA-TTACT
1 TTTATTTTAAAACATGATAAGATAAACTGATTTA-T
* *
2030434 TTTATTTTAAAACATGATAAGATTAATTGATTTAT
1 TTTATTTTAAAACATGATAAGATAAACTGATTTAT
2030469 TTCTATTTTA
1 TT-TATTTTA
2030479 TTTTATTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
35 27 0.73
36 10 0.27
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (35 bp):
TTTATTTTAAAACATGATAAGATAAACTGATTTAT
Found at i:2038028 original size:21 final size:21
Alignment explanation
Indices: 2038002--2038074 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
2037992 ATTTTTATTT
2038002 TATTTTATTTTTAAATATTAA
1 TATTTTATTTTTAAATATTAA
*
2038023 TATTTTATTTAT-AAT-TTAA
1 TATTTTATTTTTAAATATTAA
* * * *
2038042 TCATTAATATTATAAAATACTAA
1 T-ATT-TTATTTTTAAATATTAA
2038065 TATTTTATTT
1 TATTTTATTT
2038075 ATAATTTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
19 5 0.12
20 6 0.15
21 19 0.47
22 6 0.15
23 4 0.10
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTTATTTTTAAATATTAA
Found at i:2038040 original size:26 final size:26
Alignment explanation
Indices: 2037997--2038052 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
2037987 TATATATTTT
*
2037997 TATTTTATTTTATTTTTAAAT-ATTAA
1 TATTTTATTTTATATTT-AATCATTAA
2038023 TATTTTA-TTTATAATTTAATCATTAA
1 TATTTTATTTTAT-ATTTAATCATTAA
2038049 TATT
1 TATT
2038053 ATAAAATACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (26 bp):
TATTTTATTTTATATTTAATCATTAA
Found at i:2038463 original size:27 final size:27
Alignment explanation
Indices: 2038425--2038482 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
2038415 TTTTTATTTT
* *
2038425 ATTT-TTTTAAATATTAATGATTTATA
1 ATTTATTTAAAATATTAATAATTTATA
*
2038451 ATTTATTTAAAATATTAATAATTTATC
1 ATTTATTTAAAATATTAATAATTTATA
2038478 ATTTA
1 ATTTA
2038483 AATATTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
ATTTATTTAAAATATTAATAATTTATA
Found at i:2038488 original size:22 final size:20
Alignment explanation
Indices: 2038448--2038543 Score: 86
Period size: 22 Copynumber: 4.6 Consensus size: 20
2038438 TTAATGATTT
2038448 ATAATTTATTTAAAATATTA
1 ATAATTTATTTAAAATATTA
*
2038468 ATAATTTATCATTTAAATATTA
1 ATAATTTAT--TTAAAATATTA
* *
2038490 ATATTTTATTTATAAT-TTA
1 ATAATTTATTTAAAATATTA
* *
2038509 ATCATTAAGATTTTAAAATATTA
1 ATAATT--TA-TTTAAAATATTA
*
2038532 ATATTTTATTTA
1 ATAATTTATTTA
2038544 TACTTTAAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
19 7 0.12
20 18 0.31
21 2 0.03
22 25 0.42
23 7 0.12
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (20 bp):
ATAATTTATTTAAAATATTA
Found at i:2038492 original size:155 final size:156
Alignment explanation
Indices: 2038011--2038566 Score: 805
Period size: 155 Copynumber: 3.6 Consensus size: 156
2038001 TTATTTTATT
*
2038011 TTTAAATATTAATATTTTATTTATAATTTAATCATTAATATTATAAAATACTAATATTTTATTTA
1 TTTAAATATTAATATTTTATTTATAATTTAATCATTAACATTATAAAATACTAATATTTTATTTA
* * * *
2038076 TAATTTAAATGTTATTATGATTGTTTACTTTTAATTTA-TTTTTTAAATATTAATAATTTAGAAT
66 TAATTTAAATGTTATTATGATTATTTATTTTTATTTTATTTTTTTAAATATTAATAATTTATAAT
* *
2038140 TTATTTAAAATATTCA-AATTCAATAA
131 TTATTTAAAATATTAATAATT-AATCA
* * **
2038166 TTTAAATAGTAATATTTTATTTATAATTTAGTCATTAACATTATAAAATGTTAATA-TTTATTTA
1 TTTAAATATTAATATTTTATTTATAATTTAATCATTAACATTATAAAATACTAATATTTTATTTA
* * *
2038230 TAATTTAAATTTTATTATGATTATTTATTTTTATTGTATTTTATTTTTAAATACTAATAATTTAT
66 TAATTTAAATGTTATTATGATTATTTATTTTTATT-T-TATT-TTTTTAAATATTAATAATTTAT
* *
2038295 AATTTATTTAAAACATTAATAATTGATCA
128 AATTTATTTAAAATATTAATAATTAATCA
* * *
2038324 TTTAAACATTAATA-TTTCTTTATAATTTAATCATTAACATTATAAAATACTGATATTTTATTTA
1 TTTAAATATTAATATTTTATTTATAATTTAATCATTAACATTATAAAATACTAATATTTTATTTA
*
2038388 TAATTTAAATGTTATTATGATTATTTATTTTTATTTTATTTTTTTAAATATTAATGATTTATAAT
66 TAATTTAAATGTTATTATGATTATTTATTTTTATTTTATTTTTTTAAATATTAATAATTTATAAT
*
2038453 TTATTTAAAATATTAATAATTTATCA
131 TTATTTAAAATATTAATAATTAATCA
* * *
2038479 TTTAAATATTAATATTTTATTTATAATTTAATCATTAAGATTTTAAAATATTAATATTTTATTTA
1 TTTAAATATTAATATTTTATTTATAATTTAATCATTAACATTATAAAATACTAATATTTTATTTA
* * *
2038544 TACTTTAAATATTATAATGATTA
66 TAATTTAAATGTTATTATGATTA
2038567 AAATGTTAAT
Statistics
Matches: 356, Mismatches: 38, Indels: 13
0.87 0.09 0.03
Matches are distributed among these distances:
154 39 0.11
155 112 0.31
156 69 0.19
157 38 0.11
158 94 0.26
159 4 0.01
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (156 bp):
TTTAAATATTAATATTTTATTTATAATTTAATCATTAACATTATAAAATACTAATATTTTATTTA
TAATTTAAATGTTATTATGATTATTTATTTTTATTTTATTTTTTTAAATATTAATAATTTATAAT
TTATTTAAAATATTAATAATTAATCA
Found at i:2038500 original size:42 final size:42
Alignment explanation
Indices: 2038452--2038587 Score: 118
Period size: 42 Copynumber: 3.2 Consensus size: 42
2038442 TGATTTATAA
*
2038452 TTTATTTAAAATATTAATAATTTATCA-TTT-AAATATTAATAT
1 TTTATTTAAAAT-TTAATAA-TTAACATTTTAAAATATTAATAT
* * *
2038494 TTTATTTATAATTTAATCATTAAGATTTTAAAATATTAATAT
1 TTTATTTAAAATTTAATAATTAACATTTTAAAATATTAATAT
* * * *
2038536 TTTATTTATACTTTAA-ATATTATA-ATGATTAAAATGTTAATACT
1 TTTATTTAAAATTTAATA-ATTA-ACAT-TTTAAAATATTAATA-T
2038580 TTTATTTA
1 TTTATTTA
2038588 TTTTTAAATT
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
40 4 0.05
41 9 0.11
42 44 0.55
43 14 0.17
44 9 0.11
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (42 bp):
TTTATTTAAAATTTAATAATTAACATTTTAAAATATTAATAT
Found at i:2038509 original size:26 final size:24
Alignment explanation
Indices: 2038419--2038502 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 24
2038409 TATTTATTTT
2038419 TATTTTATTT-TTTTAAATATTAA
1 TATTTTATTTATTTTAAATATTAA
*
2038442 TGATTTATAATTTATTTAAAATATTAA
1 T-ATTT-T-ATTTATTTTAAATATTAA
* *
2038469 TAATTTA-TCA-TTTAAATATTAA
1 TATTTTATTTATTTTAAATATTAA
2038491 TATTTTATTTAT
1 TATTTTATTTAT
2038503 AATTTAATCA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
22 17 0.35
23 5 0.10
24 5 0.10
25 2 0.04
26 7 0.14
27 13 0.27
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (24 bp):
TATTTTATTTATTTTAAATATTAA
Found at i:2038515 original size:26 final size:26
Alignment explanation
Indices: 2038471--2038523 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2038461 AATATTAATA
* * *
2038471 ATTTATCATTTAAATATTAATATTTT
1 ATTTATAATTTAAACATTAAGATTTT
*
2038497 ATTTATAATTTAATCATTAAGATTTT
1 ATTTATAATTTAAACATTAAGATTTT
2038523 A
1 A
2038524 AAATATTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (26 bp):
ATTTATAATTTAAACATTAAGATTTT
Found at i:2038625 original size:29 final size:28
Alignment explanation
Indices: 2038591--2038647 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
2038581 TTATTTATTT
2038591 TTAAAT-TCAAAATATTTTATAATATATAA
1 TTAAATGTCAAAAT-TTTTATAATA-ATAA
* *
2038620 TTAAATGTTAAAATTTTTATCATAATAA
1 TTAAATGTCAAAATTTTTATAATAATAA
2038648 GATTTAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.16
29 15 0.60
30 6 0.24
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (28 bp):
TTAAATGTCAAAATTTTTATAATAATAA
Found at i:2038780 original size:14 final size:17
Alignment explanation
Indices: 2038748--2038781 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2038738 ACTATTTTAT
2038748 TTATAATTCAAATATTA
1 TTATAATTCAAATATTA
*
2038765 TTATAATTAAAATATTA
1 TTATAATTCAAATATTA
2038782 AAATGTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATAATTCAAATATTA
Found at i:2039077 original size:15 final size:15
Alignment explanation
Indices: 2039057--2039086 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2039047 ACAATAAAAT
*
2039057 CTTGATAAATTAATA
1 CTTGATAAATCAATA
2039072 CTTGATAAATCAATA
1 CTTGATAAATCAATA
2039087 ATTTTGATTA
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:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (15 bp):
CTTGATAAATCAATA
Found at i:2039103 original size:17 final size:18
Alignment explanation
Indices: 2039073--2039111 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
2039063 AAATTAATAC
2039073 TTGA-TAAATCAATAATT
1 TTGATTAAATCAATAATT
*
2039090 TTGATTAAAT-AATATTT
1 TTGATTAAATCAATAATT
2039107 TTGAT
1 TTGAT
2039112 CAATTTCACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (18 bp):
TTGATTAAATCAATAATT
Found at i:2041390 original size:8 final size:8
Alignment explanation
Indices: 2041377--2041415 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
2041367 AGCTTTCCTT
*
2041377 TACATATG
1 TACATACG
2041385 TACATACG
1 TACATACG
2041393 TACATACG
1 TACATACG
*
2041401 TACATACA
1 TACATACG
2041409 TACATAC
1 TACATAC
2041416 ATATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (8 bp):
TACATACG
Found at i:2041410 original size:4 final size:4
Alignment explanation
Indices: 2041385--2041418 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
2041375 TTTACATATG
* *
2041385 TACA TACG TACA TACG TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TA
2041419 TATATATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:2042846 original size:21 final size:22
Alignment explanation
Indices: 2042812--2042873 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 22
2042802 CCTAAAATAT
2042812 AATATCTA-TTTTTTATCTAT-AA
1 AATAT-TATTTTTTTAT-TATAAA
*
2042834 AAT-TTATTTTTTTATTTTAAA
1 AATATTATTTTTTTATTATAAA
2042855 AATATTATTTTTTGTATTA
1 AATATTATTTTTT-TATTA
2042874 AAATGCACTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 4 0.12
21 14 0.41
22 12 0.35
23 4 0.12
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (22 bp):
AATATTATTTTTTTATTATAAA
Found at i:2042876 original size:20 final size:19
Alignment explanation
Indices: 2042812--2042877 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 19
2042802 CCTAAAATAT
*
2042812 AATATCTATTTTTTATCTATAA
1 AATAT-TATTTTTT-TAT-TAA
2042834 AAT-TTATTTTTTTATTTTAAA
1 AATATTATTTTTTTA--TT-AA
2042855 AATATTATTTTTTGTATTAA
1 AATATTATTTTTT-TATTAA
2042875 AAT
1 AAT
2042878 GCACTTTTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
19 1 0.03
20 14 0.37
21 9 0.24
22 12 0.32
23 2 0.05
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (19 bp):
AATATTATTTTTTTATTAA
Found at i:2043334 original size:10 final size:9
Alignment explanation
Indices: 2043306--2043338 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
2043296 AGAAAAAATA
2043306 TTTTAATTT
1 TTTTAATTT
2043315 TTTTAATTT
1 TTTTAATTT
2043324 TTATT-ATTT
1 TT-TTAATTT
2043333 TTTTAA
1 TTTTAA
2043339 AAATTAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 18 0.82
10 2 0.09
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTAATTT
Found at i:2046516 original size:2 final size:2
Alignment explanation
Indices: 2046509--2046537 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2046499 GCCAAACTTC
2046509 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 A
2046538 AAATTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2050413 original size:2 final size:2
Alignment explanation
Indices: 2050406--2050440 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2050396 CAAACCATGT
2050406 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
2050441 TTCACAAATT
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:2053204 original size:18 final size:18
Alignment explanation
Indices: 2053171--2053205 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2053161 TTACTTCTCC
* *
2053171 AGAGAAAAACAGAAAGAA
1 AGAGAAAAAAAAAAAGAA
2053189 AGAGAAAAAAAAAAAGA
1 AGAGAAAAAAAAAAAGA
2053206 TAATAACACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (18 bp):
AGAGAAAAAAAAAAAGAA
Found at i:2064276 original size:22 final size:22
Alignment explanation
Indices: 2064229--2064277 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
2064219 TTAATTATAA
2064229 ATTTTATATTATATAAAAATAT
1 ATTTTATATTATATAAAAATAT
* *
2064251 -TTTTCATATT-TCTAAAAATTT
1 ATTTT-ATATTATATAAAAATAT
2064272 ATTTTA
1 ATTTTA
2064278 AATAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTATATTATATAAAAATAT
Found at i:2073985 original size:2 final size:2
Alignment explanation
Indices: 2073978--2074007 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2073968 AGTATCTGTC
2073978 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2074008 CCAAGCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2084291 original size:14 final size:15
Alignment explanation
Indices: 2084239--2084302 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
2084229 TTTATAGCCA
* *
2084239 ATTTTCCTCCAAAAG
1 ATTTTCCTCAAAAAT
*
2084254 AGTTTCCTCCAAAAAT
1 ATTTTCCT-CAAAAAT
* * *
2084270 -GTTCCCTC-TAAAT
1 ATTTTCCTCAAAAAT
2084283 ATTTTCCTCAAAAAT
1 ATTTTCCTCAAAAAT
2084298 ATTTT
1 ATTTT
2084303 TAGGAGGGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
13 4 0.11
14 7 0.18
15 22 0.58
16 5 0.13
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (15 bp):
ATTTTCCTCAAAAAT
Found at i:2086554 original size:15 final size:15
Alignment explanation
Indices: 2086531--2086575 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
2086521 CCTAAAAATG
2086531 TTTTGGAGGAAATTC
1 TTTTGGAGGAAATTC
* * *
2086546 TTTTAGAGGGAACTC
1 TTTTGGAGGAAATTC
2086561 TTTTGGAGGGAAATT
1 TTTTGGA-GGAAATT
2086576 ACCTATAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.38
Consensus pattern (15 bp):
TTTTGGAGGAAATTC
Found at i:2101844 original size:18 final size:19
Alignment explanation
Indices: 2101805--2101850 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
2101795 TTGGTCATCA
*
2101805 GTTTTTTCAGTATTTATTT
1 GTTTTTTCAGTATTTATCT
2101824 GTTTTTTCAG-ATTT-TCCT
1 GTTTTTTCAGTATTTAT-CT
2101842 GTTCTTTTC
1 GTT-TTTTC
2101851 TTAATTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 8 0.33
19 15 0.62
ACGTcount: A:0.11, C:0.13, G:0.11, T:0.65
Consensus pattern (19 bp):
GTTTTTTCAGTATTTATCT
Found at i:2118856 original size:19 final size:18
Alignment explanation
Indices: 2118817--2118852 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
2118807 TCTAGGTAGA
2118817 TTTCTCTTTTTTGTTTTC
1 TTTCTCTTTTTTGTTTTC
2118835 TTTCTTCTTTTTT-TTTTC
1 TTTC-TCTTTTTTGTTTTC
2118853 CTTTTTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.81
Consensus pattern (18 bp):
TTTCTCTTTTTTGTTTTC
Found at i:2125144 original size:23 final size:23
Alignment explanation
Indices: 2125117--2125161 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
2125107 ATGTTTGTAT
2125117 ATATATTGTTAATAGTAAGCTAC
1 ATATATTGTTAATAGTAAGCTAC
2125140 ATATATTGTTAATAGTAAGCTA
1 ATATATTGTTAATAGTAAGCTA
2125162 GTTTCCATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (23 bp):
ATATATTGTTAATAGTAAGCTAC
Found at i:2130409 original size:102 final size:102
Alignment explanation
Indices: 2130222--2130409 Score: 297
Period size: 102 Copynumber: 1.8 Consensus size: 102
2130212 AGAACAAAAG
* * * *
2130222 GTCAAATCTAAAACACACATGCTGCTAACCAAATTTCCAAAATAAGCTGCTTACCCAGCTATGTC
1 GTCAAATCTAAAACACACAAGCTCCTAACCAAATATCCAAAATAAACTGCTTACCCAGCTATGTC
* *
2130287 TATAAGAAGAATAGTTGGTTCAGAAGAGGAAGAGGAA
66 TATAAGAAGAAGAGTGGGTTCAGAAGAGGAAGAGGAA
2130324 GTCAAATCTAAAACACACAAGCTCCTAACCAAATAT-CAACAATAAACTGCTTACCCAGCTATGT
1 GTCAAATCTAAAACACACAAGCTCCTAACCAAATATCCAA-AATAAACTGCTTACCCAGCTATGT
*
2130388 CTATAAGAAGAAGGGTGGGTTC
65 CTATAAGAAGAAGAGTGGGTTC
2130410 TGTCGAAGAC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 3 0.04
102 75 0.96
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (102 bp):
GTCAAATCTAAAACACACAAGCTCCTAACCAAATATCCAAAATAAACTGCTTACCCAGCTATGTC
TATAAGAAGAAGAGTGGGTTCAGAAGAGGAAGAGGAA
Found at i:2137206 original size:21 final size:21
Alignment explanation
Indices: 2137180--2137219 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2137170 AATATAAAAA
2137180 TATTATGTTATT-TTTTAATGT
1 TATTAT-TTATTATTTTAATGT
2137201 TATTATTTATTATTTTAAT
1 TATTATTTATTATTTTAAT
2137220 TACTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TATTATTTATTATTTTAATGT
Found at i:2137452 original size:15 final size:16
Alignment explanation
Indices: 2137432--2137497 Score: 77
Period size: 15 Copynumber: 4.4 Consensus size: 16
2137422 TTATATTTTC
2137432 AACAATCACAT-TCTT
1 AACAATCACATATCTT
*
2137447 AACAATCATATATC-T
1 AACAATCACATATCTT
*
2137462 AACAATCACATAT-TA
1 AACAATCACATATCTT
*
2137477 AACAATCACAT-TCTC
1 AACAATCACATATCTT
2137492 AACAAT
1 AACAAT
2137498 ATATTAAATG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
14 1 0.02
15 41 0.93
16 2 0.05
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (16 bp):
AACAATCACATATCTT
Found at i:2137466 original size:30 final size:30
Alignment explanation
Indices: 2137430--2137497 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
2137420 AGTTATATTT
* *
2137430 TCAACAATCACAT-TCTTAACAATCATATATC
1 TCAACAATCACATAT-TAAACAATCACAT-TC
2137461 T-AACAATCACATATTAAACAATCACATTC
1 TCAACAATCACATATTAAACAATCACATTC
2137490 TCAACAAT
1 TCAACAAT
2137498 ATATTAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 3 0.09
30 28 0.85
31 2 0.06
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (30 bp):
TCAACAATCACATATTAAACAATCACATTC
Found at i:2139342 original size:21 final size:22
Alignment explanation
Indices: 2139305--2139351 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
2139295 AATTATAAAC
2139305 TTTATATTATATAAAAATCTAT
1 TTTATATTATATAAAAATCTAT
* *
2139327 TTTATATT-TTTAAAAATTTAT
1 TTTATATTATATAAAAATCTAT
2139348 TTTA
1 TTTA
2139352 AATAGATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTATATTATATAAAAATCTAT
Found at i:2143433 original size:14 final size:15
Alignment explanation
Indices: 2143406--2143441 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
2143396 ATTTTGTCAC
2143406 TTTCAATATTTTAAT
1 TTTCAATATTTTAAT
2143421 TTTCAAT-TTTTAAT
1 TTTCAATATTTTAAT
2143435 TATTCAA
1 T-TTCAA
2143442 AAAAATAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTCAATATTTTAAT
Found at i:2152566 original size:31 final size:31
Alignment explanation
Indices: 2152528--2152595 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
2152518 GTTTGTGTAG
*
2152528 ACAAAAATGAAGTTTGGCTTACAAATAAAAA
1 ACAAAAATGAAGTCTGGCTTACAAATAAAAA
*
2152559 ACAAAAATGAAGTCTGGCTTACAAATGAAAA
1 ACAAAAATGAAGTCTGGCTTACAAATAAAAA
2152590 ACAAAA
1 ACAAAA
2152596 CGAAAAAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.56, C:0.12, G:0.13, T:0.19
Consensus pattern (31 bp):
ACAAAAATGAAGTCTGGCTTACAAATAAAAA
Found at i:2163875 original size:14 final size:14
Alignment explanation
Indices: 2163856--2163883 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2163846 AACATGCAAG
2163856 TGTCACGGGCCACA
1 TGTCACGGGCCACA
2163870 TGTCACGGGCCACA
1 TGTCACGGGCCACA
2163884 GCCCAGACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.36, G:0.29, T:0.14
Consensus pattern (14 bp):
TGTCACGGGCCACA
Found at i:2163941 original size:27 final size:27
Alignment explanation
Indices: 2163909--2163966 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
2163899 GAGGCCCAAG
2163909 AGGGTGCCAGCCCACCAAGACCCATGT
1 AGGGTGCCAGCCCACCAAGACCCATGT
2163936 AGGGTGCCAGCCCACCAAGACCCATGT
1 AGGGTGCCAGCCCACCAAGACCCATGT
2163963 AGGG
1 AGGG
2163967 ATTTCCCTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.26, C:0.34, G:0.29, T:0.10
Consensus pattern (27 bp):
AGGGTGCCAGCCCACCAAGACCCATGT
Found at i:2164052 original size:14 final size:14
Alignment explanation
Indices: 2164017--2164058 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
2164007 TCCCAAATGG
2164017 TTTTGGAGGG-AAA
1 TTTTGGAGGGAAAA
2164030 TCCTTTGGAGGGAAAA
1 T--TTTGGAGGGAAAA
2164046 TTTTGGAGGGAAA
1 TTTTGGAGGGAAA
2164059 TGGGTGGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 1 0.04
14 12 0.46
15 9 0.35
16 4 0.15
ACGTcount: A:0.31, C:0.05, G:0.36, T:0.29
Consensus pattern (14 bp):
TTTTGGAGGGAAAA
Found at i:2167458 original size:16 final size:15
Alignment explanation
Indices: 2167433--2167462 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2167423 CATGGTTAAA
2167433 TTTTTTTAGATATTG
1 TTTTTTTAGATATTG
2167448 TTTTATTTAGATATT
1 TTTT-TTTAGATATT
2167463 ATAAACTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (15 bp):
TTTTTTTAGATATTG
Found at i:2177532 original size:20 final size:19
Alignment explanation
Indices: 2177496--2177554 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
2177486 TTAATTTGTT
2177496 AATAGAATAAAAGATAAAATA
1 AATA-AATAAAA-ATAAAATA
*
2177517 AATAAATAAATAAT-AATTA
1 AATAAATAAA-AATAAAATA
*
2177536 AAAAACATAAAAATAAAAT
1 AATAA-ATAAAAATAAAAT
2177555 CAATGGGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 11 0.34
20 16 0.50
21 5 0.16
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (19 bp):
AATAAATAAAAATAAAATA
Found at i:2183440 original size:39 final size:38
Alignment explanation
Indices: 2183397--2183474 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
2183387 AGGGAGCATT
* *
2183397 TGAGGTGAGTTGCTATGGTGTTTTCAAAGTAATTTGATA
1 TGAGGTGAGTT-ATATCGTGTTTTCAAAGTAATTTGATA
*
2183436 TGAGGTGTGTTATATCGTGTTTTCAAAGTAATTTGATA
1 TGAGGTGAGTTATATCGTGTTTTCAAAGTAATTTGATA
2183474 T
1 T
2183475 ATGTAAAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 26 0.72
39 10 0.28
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.44
Consensus pattern (38 bp):
TGAGGTGAGTTATATCGTGTTTTCAAAGTAATTTGATA
Found at i:2183495 original size:29 final size:29
Alignment explanation
Indices: 2183462--2183519 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
2183452 GTGTTTTCAA
2183462 AGTAATTTGATATATGTAAAACATGTGTC
1 AGTAATTTGATATATGTAAAACATGTGTC
*
2183491 AGTAATTTGATATATGTAAAACTTGTGTC
1 AGTAATTTGATATATGTAAAACATGTGTC
2183520 TTTAAATGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (29 bp):
AGTAATTTGATATATGTAAAACATGTGTC
Found at i:2184167 original size:38 final size:38
Alignment explanation
Indices: 2184099--2184187 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
2184089 ATTGGGTACA
* * *
2184099 CATTAATGTTGCCTACAAAGTAGGACGGAAATAGCAC-
1 CATTAATATTGCCTAAAAAGTAGGACGGAAATACCACT
* **
2184136 CTATTAATATTGCCTAAAAAGTGGGTTGGAAATACCACT
1 C-ATTAATATTGCCTAAAAAGTAGGACGGAAATACCACT
*
2184175 CACTAATATTGCC
1 CATTAATATTGCC
2184188 CAAGTAGCGA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
37 1 0.02
38 41 0.95
39 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (38 bp):
CATTAATATTGCCTAAAAAGTAGGACGGAAATACCACT
Found at i:2185011 original size:35 final size:35
Alignment explanation
Indices: 2184962--2185082 Score: 102
Period size: 35 Copynumber: 3.4 Consensus size: 35
2184952 CTTTATTGTT
*
2184962 TAATTCAATCAATTAGGTCTAATAGCTTAAATT-AA
1 TAATTTAATCAATTAGGTCTAATAGCTT-AATTAAA
* *** * *
2184997 TAATTTAATTAATTAAACCTAACAACTTAATTAAA
1 TAATTTAATCAATTAGGTCTAATAGCTTAATTAAA
* * *
2185032 CAATTTTAATCAATTAGGTTTAAT-GATTTAATTAAA
1 TAA-TTTAATCAATTAGGTCTAATAG-CTTAATTAAA
*
2185068 TAATTTAATTAATTA
1 TAATTTAATCAATTA
2185083 ATTTAACACC
Statistics
Matches: 65, Mismatches: 18, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
34 4 0.06
35 36 0.55
36 25 0.38
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.41
Consensus pattern (35 bp):
TAATTTAATCAATTAGGTCTAATAGCTTAATTAAA
Found at i:2185075 original size:13 final size:13
Alignment explanation
Indices: 2185057--2185088 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2185047 AGGTTTAATG
2185057 ATTTAATTAAATA
1 ATTTAATTAAATA
*
2185070 ATTTAATTAATTA
1 ATTTAATTAAATA
2185083 ATTTAA
1 ATTTAA
2185089 CACCTTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTTAATTAAATA
Found at i:2187648 original size:35 final size:34
Alignment explanation
Indices: 2187584--2187804 Score: 205
Period size: 35 Copynumber: 6.3 Consensus size: 34
2187574 TTAATTGTTT
*
2187584 AATTTAATCAATTAAGCCTAATAACTTAATTAAAT
1 AATTTAATCAATTAAGCC-AATAACTTAATTAAAC
* * *
2187619 AATTTAATTAATTAAGCTCAACAAATTAATTAAAC
1 AATTTAATCAATTAAGC-CAATAACTTAATTAAAC
* * *
2187654 AATTTTAATCAATTAGGCTGAATGACTTAATTAAAC
1 AA-TTTAATCAATTAAGC-CAATAACTTAATTAAAC
* *
2187690 AATTTTAATCAACTAAACCCAATAACTTAATTAAAC
1 AA-TTTAATCAA-TTAAGCCAATAACTTAATTAAAC
* * *
2187726 AATTTAATTAATT-AGACCAAATGACTTAATTAAAT
1 AATTTAATCAATTAAG-CC-AATAACTTAATTAAAC
* * *
2187761 AATTTAATTAATT-AGGC-ACAACTTAATTAAAC
1 AATTTAATCAATTAAGCCAATAACTTAATTAAAC
2187793 AATTTTAATCAA
1 AA-TTTAATCAA
2187805 GTGCTTGAAA
Statistics
Matches: 155, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
32 14 0.09
33 9 0.06
34 4 0.03
35 68 0.44
36 57 0.37
37 3 0.02
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (34 bp):
AATTTAATCAATTAAGCCAATAACTTAATTAAAC
Found at i:2187682 original size:71 final size:70
Alignment explanation
Indices: 2187586--2187804 Score: 257
Period size: 71 Copynumber: 3.1 Consensus size: 70
2187576 AATTGTTTAA
* * * *
2187586 TTTAATCAATTAAGCCTAATAACTTAATTAAATAATTTAATTAATTAAGCTCAACAAATTAATTA
1 TTTAATCAATT-AGACTAATGACTTAATTAAATAATTTAATTAATTAAGCCCAACAACTTAATTA
2187651 AACAAT
65 AACAAT
* * * * * *
2187657 TTTAATCAATTAGGCTGAATGACTTAATTAAACAATTTTAATCAACTAAACCCAATAACTTAATT
1 TTTAATCAATTAGACT-AATGACTTAATTAAATAA-TTTAATTAATTAAGCCCAACAACTTAATT
2187722 AAACAA-
64 AAACAAT
* * *
2187728 TTTAATTAATTAGACCAAATGACTTAATTAAATAATTTAATTAATT-AG-GC-ACAACTTAATTA
1 TTTAATCAATTAGA-CTAATGACTTAATTAAATAATTTAATTAATTAAGCCCAACAACTTAATTA
2187790 AACAAT
65 AACAAT
2187796 TTTAATCAA
1 TTTAATCAA
2187805 GTGCTTGAAA
Statistics
Matches: 125, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
67 16 0.13
68 9 0.07
69 1 0.01
70 13 0.10
71 56 0.45
72 30 0.24
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (70 bp):
TTTAATCAATTAGACTAATGACTTAATTAAATAATTTAATTAATTAAGCCCAACAACTTAATTAA
ACAAT
Found at i:2187716 original size:107 final size:102
Alignment explanation
Indices: 2187586--2187804 Score: 273
Period size: 107 Copynumber: 2.1 Consensus size: 102
2187576 AATTGTTTAA
* * * *
2187586 TTTAATCAATTAAGCCTAATAACTTAATTAAATAATTTAATTAATTA-AGCTCAACA-AATTAAT
1 TTTAATCAACTAAACCCAATAACTTAATTAAACAATTTAATTAATTAGA-C-CAA-AGAATTAAT
2187649 TAAACAATTTTAATCAATTAGGCTGA-ATGACTTAATTAAACAAT
63 TAAACAA-TTTAATCAATTAGGC--ACA--ACTTAATTAAACAAT
*
2187693 TTTAATCAACTAAACCCAATAACTTAATTAAACAATTTAATTAATTAGACCAAATGACTTAATTA
1 TTTAATCAACTAAACCCAATAACTTAATTAAACAATTTAATTAATTAGACCAAA-GAATTAATTA
* *
2187758 AATAATTTAATTAATTAGGCACAACTTAATTAAACAAT
65 AACAATTTAATCAATTAGGCACAACTTAATTAAACAAT
2187796 TTTAATCAA
1 TTTAATCAA
2187805 GTGCTTGAAA
Statistics
Matches: 101, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
103 24 0.24
104 1 0.01
105 2 0.02
106 17 0.17
107 56 0.55
108 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (102 bp):
TTTAATCAACTAAACCCAATAACTTAATTAAACAATTTAATTAATTAGACCAAAGAATTAATTAA
ACAATTTAATCAATTAGGCACAACTTAATTAAACAAT
Found at i:2189216 original size:27 final size:27
Alignment explanation
Indices: 2189166--2189217 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
2189156 AAATAAAGAA
*
2189166 ATTAATATTTTAAATGAAATATAAACT
1 ATTAATATTTGAAATGAAATATAAACT
*
2189193 ATTAATATTTGGAAATTAAA-ATAAA
1 ATTAATATTT-GAAATGAAATATAAA
2189218 TAATCATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (27 bp):
ATTAATATTTGAAATGAAATATAAACT
Done.