Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 4 of 66
Found at i:1285357 original size:86 final size:86
Alignment explanation
Indices: 1285212--1285388 Score: 257
Period size: 86 Copynumber: 2.1 Consensus size: 86
1285202 GTCTCTCTTT
* * * * * *
1285212 TCTCTTTGGAACAAGTCAAGGTCTTCAGTGGTGGAGCTAGGATTGCTAGCTAACCCTCAACTTGG
1 TCTCTTTGAAACAAGTCAACGTCTCCAGTGGTGGAGCCAAGATTGCAAGCTAACCCTCAACTTGG
1285277 GAAG-TCAAGGTCTTCTCCCTA
66 GAAGTTC-AGGTCTTCTCCCTA
* * *
1285298 TCTCTTTGAAACAAGTTAACGTCTCCAGTGGTGGAGCCAAGATTGCAAGGTAACCCTCAATTTGG
1 TCTCTTTGAAACAAGTCAACGTCTCCAGTGGTGGAGCCAAGATTGCAAGCTAACCCTCAACTTGG
1285363 GAAGTTCAGGTCTTCTCCCTA
66 GAAGTTCAGGTCTTCTCCCTA
1285384 TCTCT
1 TCTCT
1285389 CATTTCTCTT
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
86 79 0.98
87 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (86 bp):
TCTCTTTGAAACAAGTCAACGTCTCCAGTGGTGGAGCCAAGATTGCAAGCTAACCCTCAACTTGG
GAAGTTCAGGTCTTCTCCCTA
Found at i:1286294 original size:7 final size:7
Alignment explanation
Indices: 1286282--1286308 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1286272 AGAAATTAAA
1286282 ATAAAAT
1 ATAAAAT
1286289 ATAAAAT
1 ATAAAAT
1286296 ATAAAAT
1 ATAAAAT
1286303 ATAAAA
1 ATAAAA
1286309 ATTATAATAA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
ATAAAAT
Found at i:1286317 original size:21 final size:20
Alignment explanation
Indices: 1286279--1286329 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 20
1286269 AAAAGAAATT
*
1286279 AAAAT-AAAATATAAAATATA
1 AAAATAAAAAT-TATAATATA
1286299 AAATATAAAAATTATAATA-A
1 AAA-ATAAAAATTATAATATA
*
1286319 GAAATAAAAAT
1 AAAATAAAAAT
1286330 ATCATATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 8 0.30
20 6 0.22
21 8 0.30
22 5 0.19
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAATAAAAATTATAATATA
Found at i:1286324 original size:7 final size:6
Alignment explanation
Indices: 1286274--1286330 Score: 51
Period size: 7 Copynumber: 8.8 Consensus size: 6
1286264 AAAAAAAAAG
* * *
1286274 AAATTA AAATAA AATATAA AATATAA AATATAA AAATTA TAATAA GAAATAA
1 AAATAA AAATAA AA-ATAA AA-ATAA AA-ATAA AAATAA AAATAA -AAATAA
1286326 AAATA
1 AAATA
1286331 TCATATATGA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
6 19 0.43
7 25 0.57
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (6 bp):
AAATAA
Found at i:1307210 original size:2 final size:2
Alignment explanation
Indices: 1307203--1307228 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1307193 GAAAATTATG
1307203 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
1307229 GTGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1318710 original size:2 final size:2
Alignment explanation
Indices: 1318703--1318736 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1318693 AATAGGACAA
1318703 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1318737 TATGCTGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1318959 original size:29 final size:30
Alignment explanation
Indices: 1318914--1318987 Score: 114
Period size: 29 Copynumber: 2.5 Consensus size: 30
1318904 CATGATGAAT
* *
1318914 TGTCACTTTCTCCCTATTC-ATAAAAGAAG
1 TGTCACTTTCTCACTATTCAATAAAAAAAG
1318943 TGTCACTTTCTCACTATTCAATAAAAAAAG
1 TGTCACTTTCTCACTATTCAATAAAAAAAG
1318973 TGTCACTTTTCTCAC
1 TGTCAC-TTTCTCAC
1318988 ATTAAAAGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
29 18 0.44
30 15 0.37
31 8 0.20
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.36
Consensus pattern (30 bp):
TGTCACTTTCTCACTATTCAATAAAAAAAG
Found at i:1319277 original size:17 final size:15
Alignment explanation
Indices: 1319226--1319342 Score: 65
Period size: 15 Copynumber: 8.2 Consensus size: 15
1319216 TATATTTTTT
1319226 AAATATTAATAATCTA
1 AAATATTAATAAT-TA
1319242 AAA-A-T--TAATTA
1 AAATATTAATAATTA
1319253 AAATATTAATAATT-
1 AAATATTAATAATTA
*
1319267 -AA-ACT-AT-ATTA
1 AAATATTAATAATTA
* *
1319278 AAATATTGATATTTA
1 AAATATTAATAATTA
* *
1319293 AATTATTAATTATTA
1 AAATATTAATAATTA
* *
1319308 ATATTTTAATTAATTA
1 AAATATTAA-TAATTA
1319324 TAAATTATTAAT-ATTA
1 -AAA-TATTAATAATTA
1319340 AAA
1 AAA
1319343 ANNNNNNNNN
Statistics
Matches: 76, Mismatches: 13, Indels: 25
0.67 0.11 0.22
Matches are distributed among these distances:
10 3 0.04
11 7 0.09
12 9 0.12
13 5 0.07
14 3 0.04
15 29 0.38
16 12 0.16
17 3 0.04
18 5 0.07
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (15 bp):
AAATATTAATAATTA
Found at i:1319305 original size:7 final size:7
Alignment explanation
Indices: 1319293--1319340 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
1319283 TTGATATTTA
1319293 AATTATT
1 AATTATT
1319300 AATTATT
1 AATTATT
1319307 AA-TATT
1 AATTATT
1319313 --TTAATT
1 AATT-ATT
*
1319319 AATTATA
1 AATTATT
1319326 AATTATT
1 AATTATT
1319333 AA-TATT
1 AATTATT
1319339 AA
1 AA
1319341 AAANNNNNNN
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
5 1 0.03
6 13 0.37
7 19 0.54
8 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AATTATT
Found at i:1319850 original size:11 final size:11
Alignment explanation
Indices: 1319820--1319868 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
1319810 CGTAAAACCT
1319820 TTTTATTTTTAA
1 TTTT-TTTTTAA
* *
1319832 ATTCTTTTTAA
1 TTTTTTTTTAA
*
1319843 TTTTTTTTT-C
1 TTTTTTTTTAA
1319853 TTTTTTTTTAA
1 TTTTTTTTTAA
1319864 TTTTT
1 TTTTT
1319869 AAATTCATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
10 9 0.30
11 19 0.63
12 2 0.07
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTTTTAA
Found at i:1321466 original size:24 final size:24
Alignment explanation
Indices: 1321422--1321468 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1321412 TGGAACCTGC
*
1321422 CCAAAGGACCATTTGACCATTTGT
1 CCAAAGGACCATTTGAACATTTGT
*
1321446 CCAATGGACCATTAT-AACATTTG
1 CCAAAGGACCATT-TGAACATTTG
1321469 CTATAAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (24 bp):
CCAAAGGACCATTTGAACATTTGT
Found at i:1323156 original size:107 final size:107
Alignment explanation
Indices: 1323024--1323235 Score: 343
Period size: 107 Copynumber: 2.0 Consensus size: 107
1323014 TTTTTTTAAG
*
1323024 CTTTTTCAACCTTTAATTAAATTAGACTCAAACTCTACCATGCTATTGATTTGCAGTAACGTCTA
1 CTTTCTCAACCTTTAATTAAATTAGACTCAAACTCTACCATGCTATTGATTTGCAGTAACGTCTA
* *
1323089 CTTGACTTAGTATACATGCTGACTAGGTTTTTCTTAACTCTA
66 CTTGACTTAGTATACATGCTGACTAAGTTTTTCTCAACTCTA
* * * * * *
1323131 CTTTCTCAGCCTTTGATTGAATTAGACTCAAAGTCTACCATGCTCTTGATTTGCAGTAATGTCTA
1 CTTTCTCAACCTTTAATTAAATTAGACTCAAACTCTACCATGCTATTGATTTGCAGTAACGTCTA
1323196 CTTGACTTAGTATACATGCTGACTAAGTTTTTCTCAACTC
66 CTTGACTTAGTATACATGCTGACTAAGTTTTTCTCAACTC
1323236 CCTGATTTGT
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
107 96 1.00
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (107 bp):
CTTTCTCAACCTTTAATTAAATTAGACTCAAACTCTACCATGCTATTGATTTGCAGTAACGTCTA
CTTGACTTAGTATACATGCTGACTAAGTTTTTCTCAACTCTA
Found at i:1330140 original size:2 final size:2
Alignment explanation
Indices: 1330133--1330160 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1330123 ATAATAAATA
1330133 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1330161 ATATATATAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1330165 original size:2 final size:2
Alignment explanation
Indices: 1330160--1330194 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
1330150 TCTCTCTCTC
1330160 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA NTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
1330195 CTCTCTCTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1330200 original size:2 final size:2
Alignment explanation
Indices: 1330195--1330220 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1330185 ATATANTATA
1330195 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
1330221 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1330270 original size:2 final size:2
Alignment explanation
Indices: 1330220--1330251 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1330210 TCTCTCTCTC
1330220 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
1330252 CACGCACCCA
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1335884 original size:13 final size:12
Alignment explanation
Indices: 1335862--1335895 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 12
1335852 ACAATCAATC
1335862 AAAAAAAAAAGA
1 AAAAAAAAAAGA
1335874 AAAAGAAAAAAGA
1 AAAA-AAAAAAGA
1335887 AAAAAAAAA
1 AAAAAAAAA
1335896 GATAAACCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:1337239 original size:21 final size:19
Alignment explanation
Indices: 1337191--1337240 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
1337181 CCTTTTCTTT
1337191 TAAAACCTCCGAGTACATC
1 TAAAACCTCCGAGTACATC
*
1337210 TCCAAACCTCCGAGTACATC
1 T-AAAACCTCCGAGTACATC
1337230 AATAAAACCTC
1 --TAAAACCTC
1337241 TGGGTACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 17 0.65
21 7 0.27
22 1 0.04
ACGTcount: A:0.38, C:0.34, G:0.08, T:0.20
Consensus pattern (19 bp):
TAAAACCTCCGAGTACATC
Found at i:1337492 original size:167 final size:166
Alignment explanation
Indices: 1337233--1337552 Score: 428
Period size: 167 Copynumber: 1.9 Consensus size: 166
1337223 GTACATCAAT
* * * * * *
1337233 AAAACCTCTGGGTACATTCTTGTAAAACCTCTAGGTAATTAGTATTAATATTTTTTTAAAGTTAC
1 AAAACCTCTAGGTACATTCTTATAAAACCTCGAGGTAATTAGCATTAATATTTGTTTAAAGCTAC
* **
1337298 GTAGCTTCATTTTAAGATAAGGAGCAACCTTTTCTTTTAAAACCTCCGGGTACATCTCCAAAATC
66 ATAGCTTCATTTTAAGATAAGGAGCAACC-TTTCTTTTAAAACCTCCAAGTACATCTCCAAAATC
* * *
1337363 TTTGGGTATATTTTCTAAAACCTCCAAGTATATTTTC
130 TCTAGGTACATTTTCTAAAACCTCCAAGTATATTTTC
* * *
1337400 AAAACTTCTAGGTACATTCTTATGACACCTCGAGGTAATTAGCATTAATATTTGTTTAAAGCTAC
1 AAAACCTCTAGGTACATTCTTATAAAACCTCGAGGTAATTAGCATTAATATTTGTTTAAAGCTAC
* * *
1337465 ATAGCCTT-ATTTTGAGAT-AGTGAGCAACCTTTCTTTTAAAACCTTCAAGTACATCTCTAAAAT
66 ATAG-CTTCATTTTAAGATAAG-GAGCAACCTTTCTTTTAAAACCTCCAAGTACATCTCCAAAAT
*
1337528 CTCTAGTTACATTTTCTAAAACCTC
129 CTCTAGGTACATTTTCTAAAACCTC
1337553 TAGGTACAGT
Statistics
Matches: 132, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
166 53 0.40
167 76 0.58
168 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.38
Consensus pattern (166 bp):
AAAACCTCTAGGTACATTCTTATAAAACCTCGAGGTAATTAGCATTAATATTTGTTTAAAGCTAC
ATAGCTTCATTTTAAGATAAGGAGCAACCTTTCTTTTAAAACCTCCAAGTACATCTCCAAAATCT
CTAGGTACATTTTCTAAAACCTCCAAGTATATTTTC
Found at i:1337674 original size:21 final size:21
Alignment explanation
Indices: 1337648--1337693 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1337638 TTTTTCTTAT
* *
1337648 AAAACCTCCGAGTACATTTTC
1 AAAACCTCCCAGTACATCTTC
1337669 AAAACCTCCCAGTACATCTTC
1 AAAACCTCCCAGTACATCTTC
1337690 AAAA
1 AAAA
1337694 TCTCTAGATA
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:0.30, G:0.07, T:0.24
Consensus pattern (21 bp):
AAAACCTCCCAGTACATCTTC
Found at i:1337699 original size:145 final size:144
Alignment explanation
Indices: 1337372--1337705 Score: 363
Period size: 145 Copynumber: 2.3 Consensus size: 144
1337362 CTTTGGGTAT
* *
1337372 ATTTTCTAAAACCTCCAAGTATATTTTCAAAACTTCTAGGTACATTCTTATGACACCTCGAGGTA
1 ATTTTCTAAAACCTCCAAGTACATTTTCAAAAC-TCTAGGTACAGTCTTATGACACCTCGAGGTA
* * * * * *
1337437 ATTAGCATTAATATTTGTTTAAAGCTACATAGCCTTATTTTGAGATAGTGAGCAACCTTTCTTTT
65 ACTAGCATTAATATTTGTTTAAAGCTACATAACCTCATTTAGAGATAGAGAGCAACCTTTCTTAT
*
1337502 AAAACCTTCAAGTAC
130 AAAACCTCCAAGTAC
* * * *
1337517 A-TCTCTAAAATCT-CTAGTTACATTTTCTAAAACCTCTAGGTACAGTCTTATGACACCTTTG-G
1 ATTTTCTAAAACCTCCAAG-TACATTTTC-AAAA-CTCTAGGTACAGTCTTATGACACC-TCGAG
* * * * *
1337579 GTAACTAGCATTAATATTTTTTTAAAGTTACGTAATCTCATTTAGAGATTA-AGAGCAACTTTTT
62 GTAACTAGCATTAATATTTGTTTAAAGCTACATAACCTCATTTAGAGA-TAGAGAGCAAC-CTTT
*
1337643 CTTATAAAACCTCCGAGTAC
125 CTTATAAAACCTCCAAGTAC
* * *
1337663 ATTTTC-AAAACCTCCCAGTACATCTTCAAAATCTCTAGATACA
1 ATTTTCTAAAACCTCCAAGTACATTTTCAAAA-CTCTAGGTACA
1337706 TCTCCAAGAC
Statistics
Matches: 156, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
143 3 0.02
144 18 0.12
145 89 0.57
146 40 0.26
147 6 0.04
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.37
Consensus pattern (144 bp):
ATTTTCTAAAACCTCCAAGTACATTTTCAAAACTCTAGGTACAGTCTTATGACACCTCGAGGTAA
CTAGCATTAATATTTGTTTAAAGCTACATAACCTCATTTAGAGATAGAGAGCAACCTTTCTTATA
AAACCTCCAAGTAC
Found at i:1338692 original size:38 final size:38
Alignment explanation
Indices: 1338648--1338724 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
1338638 ATATGAAAAG
1338648 TAAAAATAAGTATATAGCTCAATAAAAAACAAATAATA
1 TAAAAATAAGTATATAGCTCAATAAAAAACAAATAATA
1338686 TAAAAATAAGTATATAGCTCAATAAAAAACAAATAATA
1 TAAAAATAAGTATATAGCTCAATAAAAAACAAATAATA
1338724 T
1 T
1338725 CTAGAATTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.25
Consensus pattern (38 bp):
TAAAAATAAGTATATAGCTCAATAAAAAACAAATAATA
Found at i:1338710 original size:22 final size:22
Alignment explanation
Indices: 1338648--1338713 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
1338638 ATATGAAAAG
1338648 TAAAAATAAGTATATAGCTCAA
1 TAAAAATAAGTATATAGCTCAA
*
1338670 TAAAAA-ACA--A-ATA-AT--A
1 TAAAAATA-AGTATATAGCTCAA
1338686 TAAAAATAAGTATATAGCTCAA
1 TAAAAATAAGTATATAGCTCAA
1338708 TAAAAA
1 TAAAAA
1338714 ACAAATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
16 8 0.24
17 1 0.03
18 2 0.06
19 6 0.18
20 2 0.06
21 1 0.03
22 14 0.41
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.24
Consensus pattern (22 bp):
TAAAAATAAGTATATAGCTCAA
Found at i:1350032 original size:2 final size:2
Alignment explanation
Indices: 1350020--1350059 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
1350010 ACTAAATCCT
1350020 TA TA CTA 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 TA T
1350060 NNNNNNNNNN
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1350166 original size:2 final size:2
Alignment explanation
Indices: 1350161--1350200 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1350151 TTTTTTTTTA
1350161 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1350201 GAACATTCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1352993 original size:6 final size:6
Alignment explanation
Indices: 1352982--1353031 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
1352972 AGACACCTCT
* *
1352982 AAAATA AAAATA ATAAT- AAAATA TAAAATA AAATTA AAAATA AAAA-A
1 AAAATA AAAATA AAAATA AAAATA -AAAATA AAAATA AAAATA AAAATA
1353029 AAA
1 AAA
1353032 GAGGAATGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
5 8 0.21
6 24 0.63
7 6 0.16
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:1353013 original size:24 final size:24
Alignment explanation
Indices: 1352981--1353026 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1352971 TAGACACCTC
*
1352981 TAAAATAAAAATAATAATAAAATA
1 TAAAATAAAAATAAAAATAAAATA
*
1353005 TAAAATAAAATTAAAAATAAAA
1 TAAAATAAAAATAAAAATAAAA
1353027 AAAAAGAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (24 bp):
TAAAATAAAAATAAAAATAAAATA
Found at i:1354049 original size:2 final size:2
Alignment explanation
Indices: 1354042--1354087 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
1354032 AGTTATTTAT
*
1354042 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1354083 TA TA T
1 TA TA T
1354088 TATGAATGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1373551 original size:27 final size:27
Alignment explanation
Indices: 1373498--1373559 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
1373488 AGGAGGAAGG
1373498 CTCTCTCTCTCTCTGCCCCCACCCCTC
1 CTCTCTCTCTCTCTGCCCCCACCCCTC
* * *
1373525 TTCTCTCTCTCTCT-CCCTCACTTCCTC
1 CTCTCTCTCTCTCTGCCCCCAC-CCCTC
1373552 CTCTCTCT
1 CTCTCTCT
1373560 TCACCCATCC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.03, C:0.56, G:0.02, T:0.39
Consensus pattern (27 bp):
CTCTCTCTCTCTCTGCCCCCACCCCTC
Found at i:1374791 original size:84 final size:84
Alignment explanation
Indices: 1374679--1375114 Score: 531
Period size: 84 Copynumber: 5.2 Consensus size: 84
1374669 GCATGCAACT
** * * * * *
1374679 TTTCTTCAACAGCC-TC--CTTAGTGGCTTCTGCAATCTTCTTTTGCTCCCCTACGTTAGCCACC
1 TTTCTTCAACAGCCTTCTTCTTAGTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCTTTAGCCATC
1374741 TCCAAATTAGCACGTTTTC
66 TCCAAATTAGCACGTTTTC
* * *
1374760 TTTCTTCAACAGCCTTCTTCTTAGTTTCTTCTGCGAGCTTCCTTTGCTCCTCTGCTTTAGCTATC
1 TTTCTTCAACAGCCTTCTTCTTAGTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCTTTAGCCATC
* *
1374825 TCCATATCT-GCATGTTTTC
66 TCCAAAT-TAGCACGTTTTC
* * **
1374844 TTTCTTCAACAGCCTTCTTCTTAGTTTCTTCTGCAAGCTTCCTTTTCTCCTCCACTTTAGCCATC
1 TTTCTTCAACAGCCTTCTTCTTAGTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCTTTAGCCATC
* *
1374909 TCCATATCT-GCATGTTTTC
66 TCCAAAT-TAGCACGTTTTC
* *
1374928 TTGCTTCAACAGCCTTCTTCTTAGTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCTTGAGCCATC
1 TTTCTTCAACAGCCTTCTTCTTAGTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCTTTAGCCATC
*
1374993 TCCAAATCAGCACGTTTTC
66 TCCAAATTAGCACGTTTTC
* * * * * *
1375012 TTGCTTCAGCCGCTTTCTTCATAGTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCTTTAGCCATA
1 TTTCTTCAACAGCCTTCTTCTTAGTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCTTTAGCCATC
* *
1375077 TACAAATCAGCACGTTTTC
66 TCCAAATTAGCACGTTTTC
* * *
1375096 TTTGTTCAACTGTCTTCTT
1 TTTCTTCAACAGCCTTCTT
1375115 TTTCTCTTCT
Statistics
Matches: 311, Mismatches: 39, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
81 14 0.05
82 2 0.01
84 294 0.95
85 1 0.00
ACGTcount: A:0.15, C:0.31, G:0.11, T:0.43
Consensus pattern (84 bp):
TTTCTTCAACAGCCTTCTTCTTAGTTTCTTCTGCAATCTTCCTTTGCTCCTCTGCTTTAGCCATC
TCCAAATTAGCACGTTTTC
Found at i:1382722 original size:33 final size:33
Alignment explanation
Indices: 1382675--1382748 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
1382665 AATTAACATA
*
1382675 TTATATCAACATCAAAT-ATGATATATCAATATG
1 TTATATCAACATC-AATCAAGATATATCAATATG
** * * *
1382708 TTATATCATTATCAATCAAGATATTTTAGTATG
1 TTATATCAACATCAATCAAGATATATCAATATG
1382741 TTATATCA
1 TTATATCA
1382749 GCATTACGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 3 0.09
33 31 0.91
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.42
Consensus pattern (33 bp):
TTATATCAACATCAATCAAGATATATCAATATG
Found at i:1382842 original size:30 final size:31
Alignment explanation
Indices: 1382803--1382865 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
1382793 TATTAATTAT
1382803 AAGAGTTTATTCT-GCTCAAAATAAAAATATA
1 AAGAGTTTATT-TGGCTCAAAATAAAAATATA
* **
1382834 AAGA-TTTATTTGGTTTGAAATAAAAATATA
1 AAGAGTTTATTTGGCTCAAAATAAAAATATA
1382864 AA
1 AA
1382866 AACTTGATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 1 0.04
30 23 0.82
31 4 0.14
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (31 bp):
AAGAGTTTATTTGGCTCAAAATAAAAATATA
Found at i:1382905 original size:29 final size:29
Alignment explanation
Indices: 1382821--1382907 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
1382811 ATTCTGCTCA
* **
1382821 AAATAAAAATATAAAGATTTATTTGGTTTG
1 AAATAAAAATATAAAAATTTATTT-GAATG
*
1382851 AAATAAAAATATAAAAACTTGA-TTGAATG
1 AAATAAAAATATAAAAA-TTTATTTGAATG
* *
1382880 TAATAAAAGTATAAAAATTTATTTGAAT
1 AAATAAAAATATAAAAATTTATTTGAAT
1382908 TTTCTTTTGG
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 3 0.06
29 24 0.50
30 18 0.38
31 3 0.06
ACGTcount: A:0.53, C:0.01, G:0.10, T:0.36
Consensus pattern (29 bp):
AAATAAAAATATAAAAATTTATTTGAATG
Found at i:1383029 original size:22 final size:22
Alignment explanation
Indices: 1382986--1383029 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1382976 ATATTTAAAA
*
1382986 TTAAAAATAAAACTTAATTTGAT
1 TTAAAAATAAAAC-TAAATTGAT
1383009 TTAAAAATTAAAA-TAAATTGA
1 TTAAAAA-TAAAACTAAATTGA
1383030 ATTCTAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (22 bp):
TTAAAAATAAAACTAAATTGAT
Found at i:1384300 original size:47 final size:47
Alignment explanation
Indices: 1384231--1384333 Score: 170
Period size: 47 Copynumber: 2.2 Consensus size: 47
1384221 GCCACTAATT
1384231 TGAGTCTACCTCAACCCTTATAAAGAAGAGAAACCCTAACACTGATA
1 TGAGTCTACCTCAACCCTTATAAAGAAGAGAAACCCTAACACTGATA
* * * *
1384278 TGAGTCTACCTCAACCCTTATAAAGAAGAGAAACCCTTATACTGGTT
1 TGAGTCTACCTCAACCCTTATAAAGAAGAGAAACCCTAACACTGATA
1384325 TGAGTCTAC
1 TGAGTCTAC
1384334 ATTGACCTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (47 bp):
TGAGTCTACCTCAACCCTTATAAAGAAGAGAAACCCTAACACTGATA
Found at i:1385260 original size:15 final size:15
Alignment explanation
Indices: 1385230--1385270 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
1385220 TGGTTACTTG
1385230 AAATAGAAAGAAGGAAA
1 AAATA-AAA-AAGGAAA
*
1385247 GAATAAAAAAGGAAA
1 AAATAAAAAAGGAAA
1385262 AAATAAAAA
1 AAATAAAAA
1385271 CAAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 15 0.68
16 3 0.14
17 4 0.18
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (15 bp):
AAATAAAAAAGGAAA
Found at i:1400551 original size:12 final size:12
Alignment explanation
Indices: 1400516--1400555 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
1400506 TGATAAACGA
1400516 TATTTTAATTAAT
1 TATTTT-ATTAAT
*
1400529 T-TTTAATTAAT
1 TATTTTATTAAT
1400540 TATTTTATTAAT
1 TATTTTATTAAT
1400552 TATT
1 TATT
1400556 AAAACTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 7 0.29
12 16 0.67
13 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TATTTTATTAAT
Found at i:1400643 original size:18 final size:20
Alignment explanation
Indices: 1400617--1400659 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
1400607 AATAAATAAA
*
1400617 AAATTATTTAA-ATT-TTTT
1 AAATAATTTAAGATTATTTT
1400635 AAATAATTTAAGATTATTTT
1 AAATAATTTAAGATTATTTT
1400655 AAATA
1 AAATA
1400660 TTATACTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 3 0.14
20 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
AAATAATTTAAGATTATTTT
Found at i:1402707 original size:6 final size:6
Alignment explanation
Indices: 1402696--1402726 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
1402686 TTCTCAGACG
1402696 CACTCC CACTCC CACTCC CACTCC CACTCC C
1 CACTCC CACTCC CACTCC CACTCC CACTCC C
1402727 GCCGAAGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.68, G:0.00, T:0.16
Consensus pattern (6 bp):
CACTCC
Found at i:1405990 original size:26 final size:25
Alignment explanation
Indices: 1405954--1406008 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
1405944 ATAAAAGCTT
* *
1405954 ATTTAATTTAAAATAAATATATATAA
1 ATTTAATTTAAAAT-AATAAAAATAA
* *
1405980 ATTTGATTTAACATAATAAAAATAA
1 ATTTAATTTAAAATAATAAAAATAA
1406005 ATTT
1 ATTT
1406009 TTAAAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTTAATTTAAAATAATAAAAATAA
Found at i:1406029 original size:33 final size:35
Alignment explanation
Indices: 1405963--1406029 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 35
1405953 TATTTAATTT
*
1405963 AAAATAAATATATATAAATTTGATTTAACATAATA
1 AAAATAAATATATATAAATTTGATTTAAAATAATA
* * *
1405998 AAAATAAATTTTTA-AAATTT-TTTTAAAATAAT
1 AAAATAAATATATATAAATTTGATTTAAAATAAT
1406030 TGGAGAACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 10 0.36
34 6 0.21
35 12 0.43
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (35 bp):
AAAATAAATATATATAAATTTGATTTAAAATAATA
Found at i:1410376 original size:33 final size:33
Alignment explanation
Indices: 1410334--1410400 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
1410324 CAAATAATAG
*
1410334 AAAAGTCCCTCAACTATGTCTATTTATGCAGCT
1 AAAAGTCCCTCAACTATGTCCATTTATGCAGCT
1410367 AAAAGTCCCTCAACTATGTCCATTTATGCAGCT
1 AAAAGTCCCTCAACTATGTCCATTTATGCAGCT
1410400 A
1 A
1410401 CGCCTCCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (33 bp):
AAAAGTCCCTCAACTATGTCCATTTATGCAGCT
Found at i:1412457 original size:16 final size:17
Alignment explanation
Indices: 1412436--1412472 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
1412426 ATATAAAAAA
1412436 TATTATATAATT-ATAT
1 TATTATATAATTAATAT
*
1412452 TATTATATCATTAATAT
1 TATTATATAATTAATAT
1412469 TATT
1 TATT
1412473 TTTTATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTATATAATTAATAT
Found at i:1412495 original size:13 final size:13
Alignment explanation
Indices: 1412452--1412500 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
1412442 ATAATTATAT
*
1412452 TATTATATCATTAA
1 TATTATAT-GTTAA
* * *
1412466 TATTATTTTTTAT
1 TATTATATGTTAA
1412479 TATTATATGTTAA
1 TATTATATGTTAA
1412492 TATTATATG
1 TATTATATG
1412501 ACATAAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
13 22 0.76
14 7 0.24
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (13 bp):
TATTATATGTTAA
Found at i:1418121 original size:5 final size:6
Alignment explanation
Indices: 1418106--1418135 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
1418096 TGAGTTCGTA
1418106 TTTTTG TTTTTG TTTTTG TTTTATG TTTTT
1 TTTTTG TTTTTG TTTTTG TTTT-TG TTTTT
1418136 AATATGTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:1433251 original size:2 final size:2
Alignment explanation
Indices: 1433244--1433272 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1433234 GTTTTTATTA
1433244 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1433273 GTCCTGAAAA
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1433850 original size:237 final size:239
Alignment explanation
Indices: 1433423--1433906 Score: 803
Period size: 237 Copynumber: 2.0 Consensus size: 239
1433413 ATTGAAAACA
* * *
1433423 GTGTTTTAATGTTTGTTGCATCTAGCAACTAATTAGTTTTTTTTTTTTTTAATCTGAAGAATTTA
1 GTGTTTGAATGTTTGTTGCATCTAGCAACTAATAAG--TTTTTTTTCTTT-ATCTGAAGAATTTA
1433488 TGTAGATCTTTATGTGTTCTCAGTATTAAGAGACCAGTAATTTGGTTACATTCATAGAAGTTGTA
63 TGTAGATCTTTATGTGTTCTCAGTATTAAGAGACCAGTAATTTGGTTACATTCATAGAAGTTGTA
*
1433553 GAGATGTGAAACTTCAGGATCCAATCGGGGTTGGGGACTTGTACCTTGGCCTGCAATTCCCCTTC
128 GAGATGTGAAACTTCAGGATCCAATCGGGGTTGGGGACTTGTACCTTGGCCTGCAATTCCCCTAC
1433618 CTTAAAGGGTGGGGCCTGTCCTTGAACTCAAAGGCCTAAGCGTAGAG
193 CTTAAAGGGTGGGGCCTGTCCTTGAACTCAAAGGCCTAAGCGTAGAG
1433665 GTGTTTGAATGTTTGTTGCATCTAGCAACTAATAAG-TTTTTTTCTTT-TCTGAAGAATTTATGT
1 GTGTTTGAATGTTTGTTGCATCTAGCAACTAATAAGTTTTTTTTCTTTATCTGAAGAATTTATGT
* **
1433728 GGATCTTTATGTGTTCTCAGTATTAAGAGACCAGTAATTTGGTTACATTTGTAGAAGTTGTAGAG
66 AGATCTTTATGTGTTCTCAGTATTAAGAGACCAGTAATTTGGTTACATTCATAGAAGTTGTAGAG
* * *
1433793 GTGTGAAACTTCAGGATCCAAGT-GGGGTTGGGGAGTTGTACGTTGGCCTGCAATTCCCCTACCT
131 ATGTGAAACTTCAGGATCCAA-TCGGGGTTGGGGACTTGTACCTTGGCCTGCAATTCCCCTACCT
* *
1433857 TAAGGGGTGGGGCCTGTCCTTGAACTCAAAGGCCTAAGGGTAGAG
195 TAAAGGGTGGGGCCTGTCCTTGAACTCAAAGGCCTAAGCGTAGAG
1433902 GTGTT
1 GTGTT
1433907 GAAAGTAAAA
Statistics
Matches: 229, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
237 184 0.80
238 1 0.00
239 10 0.04
242 34 0.15
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (239 bp):
GTGTTTGAATGTTTGTTGCATCTAGCAACTAATAAGTTTTTTTTCTTTATCTGAAGAATTTATGT
AGATCTTTATGTGTTCTCAGTATTAAGAGACCAGTAATTTGGTTACATTCATAGAAGTTGTAGAG
ATGTGAAACTTCAGGATCCAATCGGGGTTGGGGACTTGTACCTTGGCCTGCAATTCCCCTACCTT
AAAGGGTGGGGCCTGTCCTTGAACTCAAAGGCCTAAGCGTAGAG
Found at i:1441679 original size:5 final size:5
Alignment explanation
Indices: 1441669--1441693 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1441659 CAACCACTAA
1441669 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
1441694 AACTTATGTG
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:1441831 original size:4 final size:4
Alignment explanation
Indices: 1441822--1441848 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1441812 TTCATGGTTG
1441822 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1441849 TAAGGCTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:1443475 original size:54 final size:54
Alignment explanation
Indices: 1443361--1443475 Score: 119
Period size: 54 Copynumber: 2.1 Consensus size: 54
1443351 ATAGAATGGA
* *
1443361 ATAAAATAAAATAAAGTAAATATTCTATAAAAATATTATTATATAATTCGATTT
1 ATAAAATAAAATAAAGTAAAAATTCTATAAAAATATTATTATATAATTCGATTG
* * ** *
1443415 ACAAAATAAAAT-AAGATAAAAATTACTATTATGAT-TTATTATA-ATATTTGATTG
1 ATAAAATAAAATAAAG-TAAAAATT-CTATAAAAATATTATTATATA-ATTCGATTG
1443469 ATAAAAT
1 ATAAAAT
1443476 TACTTTTAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
53 4 0.08
54 39 0.78
55 7 0.14
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (54 bp):
ATAAAATAAAATAAAGTAAAAATTCTATAAAAATATTATTATATAATTCGATTG
Found at i:1443598 original size:15 final size:15
Alignment explanation
Indices: 1443578--1443609 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1443568 AAATAGATCA
*
1443578 TTTAAATATTTATAT
1 TTTAAATATTAATAT
1443593 TTTAAATATTAATAT
1 TTTAAATATTAATAT
1443608 TT
1 TT
1443610 ATCTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTAAATATTAATAT
Found at i:1453236 original size:19 final size:20
Alignment explanation
Indices: 1453212--1453255 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
1453202 AAATATAATG
1453212 AAATAA-TAAAAAA-TTATTT
1 AAATAATTAAAAAACTT-TTT
1453231 AAATAATTAAAAAACTTTTT
1 AAATAATTAAAAAACTTTTT
1453251 AAATA
1 AAATA
1453256 TTATACTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.26
20 15 0.65
21 2 0.09
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATAATTAAAAAACTTTTT
Found at i:1454473 original size:2 final size:2
Alignment explanation
Indices: 1454466--1454499 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1454456 TTATGTGTAA
1454466 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1454500 TAAATTGGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1463853 original size:9 final size:10
Alignment explanation
Indices: 1463828--1463856 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
1463818 TATATTAATC
1463828 ATAAAAAATT
1 ATAAAAAATT
1463838 ATAAAAAATT
1 ATAAAAAATT
1463848 ATAAAAAAT
1 ATAAAAAAT
1463857 AATATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:1469599 original size:26 final size:25
Alignment explanation
Indices: 1469563--1469629 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
1469553 ACAAAAATTA
* *
1469563 ATTTAATTTAAAATAAAATTATAAAT
1 ATTTAATTTAAAATAAAATAAT-AAC
1469589 ATTTAATTTAACATAATAAAATAATAAC
1 ATTTAATTT-A-A-AATAAAATAATAAC
1469617 ATTT-ATTTAAAAT
1 ATTTAATTTAAAAT
1469630 TTTAAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
24 3 0.08
25 1 0.03
26 10 0.28
27 5 0.14
28 7 0.19
29 10 0.28
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTAATTTAAAATAAAATAATAAC
Found at i:1470185 original size:22 final size:21
Alignment explanation
Indices: 1470157--1470203 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
1470147 ACGACAATTT
1470157 AATTTTT-ATTTTAAATAAAATA
1 AATTTTTAATTTT-AATAAAA-A
1470179 AATTTTTAATTTTAATAAAAA
1 AATTTTTAATTTTAATAAAAA
1470200 AATT
1 AATT
1470204 AACCATCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 5 0.21
22 14 0.58
23 5 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTTTTAATTTTAATAAAAA
Found at i:1473984 original size:27 final size:28
Alignment explanation
Indices: 1473931--1473984 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
1473921 AACAAAAAGC
1473931 AAAATTCAAAAAAAGAAGAAGAGGAAGG
1 AAAATTCAAAAAAAGAAGAAGAGGAAGG
*
1473959 AAAATTCAAGAAGAA-AA-AAGAGGAAG
1 AAAATTCAA-AAAAAGAAGAAGAGGAAG
1473985 CTCTTTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 9 0.38
28 11 0.46
29 4 0.17
ACGTcount: A:0.65, C:0.04, G:0.24, T:0.07
Consensus pattern (28 bp):
AAAATTCAAAAAAAGAAGAAGAGGAAGG
Found at i:1477197 original size:16 final size:15
Alignment explanation
Indices: 1477148--1477202 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
1477138 TACTATTATC
1477148 TATTCTAAGTTGTTTT
1 TATTCTAAGTTG-TTT
* *
1477164 TATT-TAAATT-ATT
1 TATTCTAAGTTGTTT
1477177 TATTCTAAGTTGTTGT
1 TATTCTAAGTTGTT-T
*
1477193 TATTCAAAGT
1 TATTCTAAGT
1477203 ATGCAATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 6 0.19
14 5 0.16
15 6 0.19
16 14 0.45
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.56
Consensus pattern (15 bp):
TATTCTAAGTTGTTT
Found at i:1484072 original size:15 final size:16
Alignment explanation
Indices: 1484024--1484078 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 16
1484014 CATGCAAATC
1484024 ATATATCTATATC-TAT
1 ATATAT-TATATCTTAT
* *
1484040 ATATATTATATATAAT
1 ATATATTATATCTTAT
1484056 ATA-ATTATATCTTAT
1 ATATATTATATCTTAT
1484071 ATTATATT
1 A-TATATT
1484079 TAAATACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 16 0.50
16 13 0.41
17 3 0.09
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATATTATATCTTAT
Found at i:1497610 original size:17 final size:18
Alignment explanation
Indices: 1497584--1497617 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1497574 TGAACCTCCC
1497584 TTTTTCTTTTTT-CTTTT
1 TTTTTCTTTTTTACTTTT
*
1497601 TTTTTGTTTTTTACTTT
1 TTTTTCTTTTTTACTTT
1497618 CATAATCTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.85
Consensus pattern (18 bp):
TTTTTCTTTTTTACTTTT
Found at i:1497681 original size:10 final size:10
Alignment explanation
Indices: 1497668--1497700 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1497658 CCTTTTTTTT
1497668 AAAAAAA-AA
1 AAAAAAATAA
1497677 AAAAAAATAA
1 AAAAAAATAA
*
1497687 ACAAAAATAA
1 AAAAAAATAA
1497697 AAAA
1 AAAA
1497701 GATTTGGCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.91, C:0.03, G:0.00, T:0.06
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:1497692 original size:17 final size:18
Alignment explanation
Indices: 1497667--1497700 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1497657 TCCTTTTTTT
1497667 TAAAAAAAAA-AAAAAAA
1 TAAAAAAAAATAAAAAAA
*
1497684 TAAACAAAAATAAAAAA
1 TAAAAAAAAATAAAAAA
1497701 GATTTGGCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (18 bp):
TAAAAAAAAATAAAAAAA
Found at i:1499451 original size:3 final size:3
Alignment explanation
Indices: 1499443--1499491 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
1499433 TTTCATCTGC
1499443 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1499491 T
1 T
1499492 ATGAATGAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1513339 original size:13 final size:13
Alignment explanation
Indices: 1513321--1513345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1513311 ATATGTATTT
1513321 AATTATGAATGAA
1 AATTATGAATGAA
1513334 AATTATGAATGA
1 AATTATGAATGA
1513346 TTTTAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (13 bp):
AATTATGAATGAA
Found at i:1514174 original size:27 final size:26
Alignment explanation
Indices: 1514124--1514195 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 26
1514114 ATAATAAAAG
* *
1514124 ATTAAAATTAATTATAAATAATATATAT
1 ATTAAAA--AATTAAAAATATTATATAT
*
1514152 A-T-AAAAATCTAAAAATATTATATTT
1 ATTAAAAAAT-TAAAAATATTATATAT
1514177 ATTAAAAAATTAAAAATAT
1 ATTAAAAAATTAAAAATAT
1514196 ACGACCTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
24 3 0.08
25 14 0.37
26 13 0.34
27 7 0.18
28 1 0.03
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (26 bp):
ATTAAAAAATTAAAAATATTATATAT
Found at i:1514344 original size:40 final size:40
Alignment explanation
Indices: 1514289--1514378 Score: 137
Period size: 40 Copynumber: 2.2 Consensus size: 40
1514279 ACCTCATTTC
* * *
1514289 TTACTGATGTGAGATCCATAATATTCTA-CTTCATCCAATT
1 TTACTAATGTAAGATCCATAACATTCTAGC-TCATCCAATT
1514329 TTACTAATGTAAGATCCATAACATTCTAGCTCATCCAATT
1 TTACTAATGTAAGATCCATAACATTCTAGCTCATCCAATT
1514369 TTACTAATGT
1 TTACTAATGT
1514379 GGGATTTGCA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 45 0.98
41 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (40 bp):
TTACTAATGTAAGATCCATAACATTCTAGCTCATCCAATT
Found at i:1517219 original size:14 final size:13
Alignment explanation
Indices: 1517194--1517228 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
1517184 TGAGGATTCA
*
1517194 GAGAGAGGAAGAG
1 GAGAGAGAAAGAG
1517207 GAGGAGAGAAAGAG
1 GA-GAGAGAAAGAG
1517221 GAGAGAGA
1 GAGAGAGA
1517229 TAGCGTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (13 bp):
GAGAGAGAAAGAG
Found at i:1520081 original size:3 final size:3
Alignment explanation
Indices: 1520073--1520102 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1520063 CCATATGTAC
1520073 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1520103 GAGAAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1523151 original size:135 final size:135
Alignment explanation
Indices: 1522906--1523579 Score: 893
Period size: 135 Copynumber: 5.0 Consensus size: 135
1522896 AGTCATAGTC
* * * * * * * *
1522906 AAAGGGGCAAGAATAATGATAGAAAGCAAACAAAAAGTTTAGATGGAAGATCATATAGAGAGAGC
1 AAAGGGGCAAGAAAAATGACAGAAAACAAGCAAAAACTTTAGATGGAAGATCAGACAGACAGAG-
* *
1522971 AAAAGTTTAAAATGGGATCAAAACAGAGAGAAAAACCATGATACCAGTTCTGATGGAGGTTACTC
65 --AAGTTTAAAATGGGATCAAAACAGTGAGAAAATCCATGATACCAGTTCTGATGGAGGTTACTC
1523036 AGACAGCA
128 AGACAGCA
* * *
1523044 AAAGGGGCAAGAAAATTGACAGAAAACGAGCCAAAACTTTAGATGGAAGATCAGACAGACAGAGA
1 AAAGGGGCAAGAAAAATGACAGAAAACAAGCAAAAACTTTAGATGGAAGATCAGACAGACAGAGA
* *
1523109 AGTTTAACATGGGATCAAAACAGTGAGGAAATCCATGATACCAGTTCTTGATGGAGGTTACTCAG
66 AGTTTAAAATGGGATCAAAACAGTGAGAAAATCCATGATACCAGTTC-TGATGGAGGTTACTCAG
*
1523174 ACAGTA
130 ACAGCA
*
1523180 AAAGGGGCAAGAAAAATGACAGAAAACAAGCAAAAACTTTGGATGGAAGATCAGACAGACAGAGA
1 AAAGGGGCAAGAAAAATGACAGAAAACAAGCAAAAACTTTAGATGGAAGATCAGACAGACAGAGA
* * * * *
1523245 AGTTTAAAATGTGATGAAAATAGTGAGAAAATCCATGATACCAGTTCTGATGGAAGTTACTCTGA
66 AGTTTAAAATGGGATCAAAACAGTGAGAAAATCCATGATACCAGTTCTGATGGAGGTTACTCAGA
*
1523310 CAGTA
131 CAGCA
* * * * *
1523315 AAATGGGCAAGAAAAATGACAGAAAACGAGCAAAAACTTTGGATGGAAGATCAGGCAGACAAAGA
1 AAAGGGGCAAGAAAAATGACAGAAAACAAGCAAAAACTTTAGATGGAAGATCAGACAGACAGAGA
* * * * *
1523380 AGTTTAAAATGGGATGAAAACAGTGAGCAAATACATTATACCAGTTCTGATGGAGGTTACTCACA
66 AGTTTAAAATGGGATCAAAACAGTGAGAAAATCCATGATACCAGTTCTGATGGAGGTTACTCAGA
1523445 CAGCA
131 CAGCA
* * *
1523450 AAAGGGGCAAGAAAAATGAAAGAAAAAAAGCAAAAA-TCTTAGATGGAAGATCAGACAGACACAG
1 AAAGGGGCAAGAAAAATGACAGAAAACAAGCAAAAACT-TTAGATGGAAGATCAGACAGACAGAG
* * * * * * *
1523514 AAGTTTAAAATGGGATCAATACAGAGAGAGAA-CTCTTGATACAAGTTCTGATGAAGGTTATTCA
65 AAGTTTAAAATGGGATCAAAACAGTGAGAAAATC-CATGATACCAGTTCTGATGGAGGTTACTCA
1523578 GA
129 GA
1523580 GAGGGACATT
Statistics
Matches: 474, Mismatches: 59, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
134 1 0.00
135 295 0.62
136 125 0.26
138 53 0.11
ACGTcount: A:0.45, C:0.13, G:0.24, T:0.18
Consensus pattern (135 bp):
AAAGGGGCAAGAAAAATGACAGAAAACAAGCAAAAACTTTAGATGGAAGATCAGACAGACAGAGA
AGTTTAAAATGGGATCAAAACAGTGAGAAAATCCATGATACCAGTTCTGATGGAGGTTACTCAGA
CAGCA
Found at i:1524765 original size:14 final size:15
Alignment explanation
Indices: 1524736--1524777 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1524726 TCATTTTAGA
*
1524736 TTTAAATTATTAATT
1 TTTAAAATATTAATT
1524751 TTTAAAATA-TAATT
1 TTTAAAATATTAATT
1524765 TGTTAAAAT-TTAA
1 T-TTAAAATATTAA
1524778 ATGAGTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
TTTAAAATATTAATT
Found at i:1536161 original size:29 final size:29
Alignment explanation
Indices: 1536125--1536181 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
1536115 GTCATTGCAC
*
1536125 GACTAACGCATTAATATTTTCATAAATAT
1 GACTAACGCATGAATATTTTCATAAATAT
*
1536154 GACTAACGCATGAATATTTTTATAAATA
1 GACTAACGCATGAATATTTTCATAAATA
1536182 CGGAAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (29 bp):
GACTAACGCATGAATATTTTCATAAATAT
Found at i:1566871 original size:19 final size:19
Alignment explanation
Indices: 1566847--1566889 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
1566837 CCTGCGTATC
* *
1566847 TTAATTAATTATTTTTTAA
1 TTAATTAATAATTATTTAA
1566866 TTAATTAATAATTATTTAA
1 TTAATTAATAATTATTTAA
1566885 TTAAT
1 TTAAT
1566890 CATGTTTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAATTAATAATTATTTAA
Found at i:1568862 original size:3 final size:3
Alignment explanation
Indices: 1568854--1568890 Score: 56
Period size: 3 Copynumber: 11.7 Consensus size: 3
1568844 CTAAAGATAC
1568854 TAT TAT TAT TAT TAT TAT TAT TAT TAAT TAT TCAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT T-AT TA
1568891 CATAATAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 26 0.81
4 6 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1571313 original size:12 final size:12
Alignment explanation
Indices: 1571296--1571357 Score: 65
Period size: 12 Copynumber: 5.2 Consensus size: 12
1571286 CTTGAGTAAG
1571296 ATACATGAAGAA
1 ATACATGAAGAA
*
1571308 ATACATG-GGAAA
1 ATACATGAAG-AA
1571320 ATACATGAAGAA
1 ATACATGAAGAA
*
1571332 ATACATG-GGAAA
1 ATACATGAAG-AA
*
1571344 ATACATAAAGAA
1 ATACATGAAGAA
1571356 AT
1 AT
1571358 TAAGAATGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
11 2 0.05
12 37 0.90
13 2 0.05
ACGTcount: A:0.56, C:0.08, G:0.18, T:0.18
Consensus pattern (12 bp):
ATACATGAAGAA
Found at i:1571328 original size:24 final size:24
Alignment explanation
Indices: 1571296--1571357 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
1571286 CTTGAGTAAG
1571296 ATACATGAAGAAATACATGGGAAA
1 ATACATGAAGAAATACATGGGAAA
1571320 ATACATGAAGAAATACATGGGAAA
1 ATACATGAAGAAATACATGGGAAA
*
1571344 ATACATAAAGAAAT
1 ATACATGAAGAAAT
1571358 TAAGAATGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.56, C:0.08, G:0.18, T:0.18
Consensus pattern (24 bp):
ATACATGAAGAAATACATGGGAAA
Found at i:1572244 original size:51 final size:52
Alignment explanation
Indices: 1572161--1572261 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 52
1572151 AAGGTTTCTT
* * *
1572161 TTCTTATAACATGGTATTAGAGTTCTAGGTTTGAT-GGATCAAA-ATTTTTTC
1 TTCTTATAACATGGTATCAAAGTTCGAGGTTTGATAGG-TCAAATATTTTTTC
*
1572212 TTCTTTTAACATGGTATCAAAGTTTCGA-GTTTGATAGGTCAAATATTTTT
1 TTCTTATAACATGGTATCAAAG-TTCGAGGTTTGATAGGTCAAATATTTTT
1572262 CGTAACATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
51 31 0.72
52 12 0.28
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.46
Consensus pattern (52 bp):
TTCTTATAACATGGTATCAAAGTTCGAGGTTTGATAGGTCAAATATTTTTTC
Found at i:1574515 original size:2 final size:2
Alignment explanation
Indices: 1574508--1574534 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1574498 TTTAAAGCTA
1574508 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1574535 TATATATATA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1574539 original size:2 final size:2
Alignment explanation
Indices: 1574534--1574561 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1574524 ACACACACAC
1574534 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
1574562 TTGTAACATA
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:1574626 original size:41 final size:44
Alignment explanation
Indices: 1574545--1574632 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 44
1574535 TATATATATA
* *
1574545 TATATATATATATATATTTGTAACATACACAATTTATATTTTTT
1 TATATATATATATATATTTGTAACATACACAAATTATATTTTCT
* *
1574589 TATA-ATATATATA-ATTTTTCACAATACA-AAATT-TATTTTCT
1 TATATATATATATATATTTGTAAC-ATACACAAATTATATTTTCT
1574630 TAT
1 TAT
1574633 GACATGGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
41 10 0.26
42 11 0.28
43 14 0.36
44 4 0.10
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (44 bp):
TATATATATATATATATTTGTAACATACACAAATTATATTTTCT
Found at i:1575649 original size:2 final size:2
Alignment explanation
Indices: 1575642--1575737 Score: 107
Period size: 2 Copynumber: 51.0 Consensus size: 2
1575632 GGTAGCTTAC
* *
1575642 AT AT AT AT AT AT AT ANT AG CT -T A- AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
1575682 AT AT AT AT AT AT AT AT AT AT A- AT A- AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1575721 AT AT A- AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT
1575738 TAGATTTGTT
Statistics
Matches: 81, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
1 7 0.09
2 72 0.89
3 2 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1575670 original size:19 final size:19
Alignment explanation
Indices: 1575643--1575737 Score: 84
Period size: 19 Copynumber: 5.5 Consensus size: 19
1575633 GTAGCTTACA
*
1575643 TATATATATATATANTAGCT
1 TATATATATATATA-TAGAT
*
1575663 TA-ATATATATATATATAT
1 TATATATATATATATAGAT
1575681 TATATATATATATAT--A-
1 TATATATATATATATAGAT
1575697 TATATA-ATA-ATATA-A-
1 TATATATATATATATAGAT
*
1575712 TATATATATATATA-ATAT
1 TATATATATATATATAGAT
1575730 T-TATATAT
1 TATATATAT
1575738 TAGATTTGTT
Statistics
Matches: 67, Mismatches: 2, Indels: 15
0.80 0.02 0.18
Matches are distributed among these distances:
14 4 0.06
15 10 0.15
16 10 0.15
17 12 0.18
18 6 0.09
19 23 0.34
20 2 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.48
Consensus pattern (19 bp):
TATATATATATATATAGAT
Found at i:1575670 original size:21 final size:19
Alignment explanation
Indices: 1575642--1575737 Score: 109
Period size: 17 Copynumber: 5.3 Consensus size: 19
1575632 GGTAGCTTAC
1575642 ATATATATATATATANTAGCTT
1 ATATATATATATATA-TA--TT
1575664 A-ATATATATATATATATT
1 ATATATATATATATATATT
1575682 ATATATATATATATATA-T
1 ATATATATATATATATATT
1575700 ATA-ATA-ATATA-ATA-T
1 ATATATATATATATATATT
1575715 ATATATATATA-ATAT-TT
1 ATATATATATATATATATT
1575732 ATATAT
1 ATATAT
1575738 TAGATTTGTT
Statistics
Matches: 69, Mismatches: 0, Indels: 15
0.82 0.00 0.18
Matches are distributed among these distances:
15 7 0.10
16 9 0.13
17 15 0.22
18 7 0.10
19 15 0.22
20 2 0.03
21 13 0.19
22 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (19 bp):
ATATATATATATATATATT
Found at i:1575713 original size:46 final size:46
Alignment explanation
Indices: 1575642--1575737 Score: 140
Period size: 46 Copynumber: 2.1 Consensus size: 46
1575632 GGTAGCTTAC
* * *
1575642 ATATATATATATATANTAGCTTAATATATATATATATATTATATAT
1 ATATATATATATATAATAGATTAATATATATATATATAATATATAT
*
1575688 ATATATATATATATAATA-ATATAATATATATATATATAATATTTAT
1 ATATATATATATATAATAGAT-TAATATATATATATATAATATATAT
1575734 ATAT
1 ATAT
1575738 TAGATTTGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 1 0.02
46 44 0.98
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (46 bp):
ATATATATATATATAATAGATTAATATATATATATATAATATATAT
Found at i:1575737 original size:23 final size:23
Alignment explanation
Indices: 1575642--1575737 Score: 117
Period size: 23 Copynumber: 4.2 Consensus size: 23
1575632 GGTAGCTTAC
*
1575642 ATATATATATATATANTAGCT-TA-
1 ATATATATATATATAATA--TATAT
*
1575665 ATATATATATATATATTATATAT
1 ATATATATATATATAATATATAT
1575688 ATATATATATATATAATA-ATAT
1 ATATATATATATATAATATATAT
*
1575710 AATATATATATATATAATATTTAT
1 -ATATATATATATATAATATATAT
1575734 ATAT
1 ATAT
1575738 TAGATTTGTT
Statistics
Matches: 66, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
21 1 0.02
22 6 0.09
23 56 0.85
24 3 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (23 bp):
ATATATATATATATAATATATAT
Found at i:1581320 original size:129 final size:129
Alignment explanation
Indices: 1581090--1581346 Score: 433
Period size: 129 Copynumber: 2.0 Consensus size: 129
1581080 TATTAAACGG
* * *
1581090 TCACTGCAGTGGTGGGGGTTTCCGTGGACTGCCTATGAGAGGGGCACGGTAACCCAATTATATAT
1 TCACTGCAGTGGTGGAGGTTTCCGTGGACTGCCTATGAGAGGAGCACGGTAACCCAATTATATAC
1581155 TTACCTCCGGGGAGAGATGTTGGATGAAGTATCTCTTGAGGTAAGATTTGAATGCACCTCACGA
66 TTACCTCCGGGGAGAGATGTTGGATGAAGTATCTCTTGAGGTAAGATTTGAATGCACCTCACGA
*
1581219 TCACTGCAGTGGTGGAGGTTTCCGTGGACTGCCTATGAGAGGAGCACGGTAACTCAATTATATAC
1 TCACTGCAGTGGTGGAGGTTTCCGTGGACTGCCTATGAGAGGAGCACGGTAACCCAATTATATAC
* * * * *
1581284 TTACCTTCGGGGGGAGATGTTGGGTGAAGTATCTCTTGAGGTATGATTTGAGTGCACCTCACG
66 TTACCTCCGGGGAGAGATGTTGGATGAAGTATCTCTTGAGGTAAGATTTGAATGCACCTCACG
1581347 TTCAGGCCAC
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 119 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (129 bp):
TCACTGCAGTGGTGGAGGTTTCCGTGGACTGCCTATGAGAGGAGCACGGTAACCCAATTATATAC
TTACCTCCGGGGAGAGATGTTGGATGAAGTATCTCTTGAGGTAAGATTTGAATGCACCTCACGA
Found at i:1584010 original size:17 final size:16
Alignment explanation
Indices: 1583962--1584015 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
1583952 AAGAGTTTTC
*
1583962 AAATAAAAAAAAGATAAA
1 AAATAAAAAGAA-A-AAA
**
1583980 AAATAAAATTAAAAACA
1 AAATAAAAAGAAAAA-A
1583997 AAATAAAAAGAAAAAA
1 AAATAAAAAGAAAAAA
1584013 AAA
1 AAA
1584016 AGAAATAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 6 0.19
17 15 0.48
18 10 0.32
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.11
Consensus pattern (16 bp):
AAATAAAAAGAAAAAA
Found at i:1584291 original size:18 final size:19
Alignment explanation
Indices: 1584270--1584314 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
1584260 TAAGCTCTTT
1584270 TTTTTTTAAAAAAA-TTAA
1 TTTTTTTAAAAAAAGTTAA
* *
1584288 -TTTTTAAAAAAAAGTTAT
1 TTTTTTTAAAAAAAGTTAA
1584306 TTTTTTTAA
1 TTTTTTTAA
1584315 GAACTTCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 12 0.55
18 3 0.14
19 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTTTTTAAAAAAAGTTAA
Found at i:1584752 original size:2 final size:2
Alignment explanation
Indices: 1584741--1584771 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1584731 TAGATTTGTT
1584741 TA TA -A 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
1584772 NNNNNNNNNN
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1589011 original size:50 final size:50
Alignment explanation
Indices: 1588926--1589030 Score: 117
Period size: 51 Copynumber: 2.1 Consensus size: 50
1588916 CATAACATGA
* * * *
1588926 TATCAGAGTTTTAGATTTGATAGATTAAGAATTTCT-TTTTTTGTAATATAG
1 TATCAAAGTTTTAGATGTAATAGATCAAGAATTTCTCTTTTTT-TAA-ATAG
*
1588977 TATCAAAGTTTTAGA-GTAATAGATCAA-AATTTTCTCTTTTTTTAAATGG
1 TATCAAAGTTTTAGATGTAATAGATCAAGAA-TTTCTCTTTTTTTAAATAG
1589026 TATCA
1 TATCA
1589031 TAGCCATTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
49 10 0.21
50 17 0.36
51 20 0.43
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (50 bp):
TATCAAAGTTTTAGATGTAATAGATCAAGAATTTCTCTTTTTTTAAATAG
Found at i:1589896 original size:17 final size:16
Alignment explanation
Indices: 1589846--1589898 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 16
1589836 TTGTAACATA
*
1589846 TATAATTTAAATTTGTT
1 TATAATATAAATTT-TT
1589863 TATAATATATATAATTTTT
1 TAT-A-ATATA-AATTTTT
1589882 TATAATATAAGATTTTT
1 TATAATATAA-ATTTTT
1589899 ATTCTTATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
16 1 0.03
17 14 0.45
18 2 0.06
19 9 0.29
20 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (16 bp):
TATAATATAAATTTTT
Found at i:1590306 original size:43 final size:43
Alignment explanation
Indices: 1590258--1590353 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 43
1590248 GTAAAAGGTT
* * *
1590258 TTATGGAAATGCA-ACTATAAACCAGTGGGTTACATACAAGGAA
1 TTATGGAAATGCAGA-TATAAACCAGTGCGTTACATAAAAAGAA
* *
1590301 TTATGGAAATGCAGATATGAACTAGTGCGTTACATAAAAAGAA
1 TTATGGAAATGCAGATATAAACCAGTGCGTTACATAAAAAGAA
*
1590344 TTATGAAAAT
1 TTATGGAAAT
1590354 ACAAATTAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.26
Consensus pattern (43 bp):
TTATGGAAATGCAGATATAAACCAGTGCGTTACATAAAAAGAA
Found at i:1590669 original size:18 final size:18
Alignment explanation
Indices: 1590646--1590685 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1590636 TGCTATATCC
* *
1590646 TAAATTCGATTATATATA
1 TAAATTAGATAATATATA
*
1590664 TAAATTATATAATATATA
1 TAAATTAGATAATATATA
1590682 TAAA
1 TAAA
1590686 AGAATTTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
TAAATTAGATAATATATA
Found at i:1606658 original size:19 final size:19
Alignment explanation
Indices: 1606624--1606677 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
1606614 ATTAAATAAT
*
1606624 AAAT-AAAT-AAATAAATA
1 AAATCAAATAAAAAAAATA
*
1606641 AAATCAAGA-AAAAAAAATT
1 AAATCAA-ATAAAAAAAATA
*
1606660 GAATCAAATAAAAAAAAT
1 AAATCAAATAAAAAAAAT
1606678 GAGAGATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 4 0.13
18 3 0.10
19 23 0.77
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (19 bp):
AAATCAAATAAAAAAAATA
Found at i:1612971 original size:18 final size:18
Alignment explanation
Indices: 1612948--1612983 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1612938 TCAATGTATG
*
1612948 AATTTTATATGTTATCAA
1 AATTTTATACGTTATCAA
1612966 AATTTTATACGTTATCAA
1 AATTTTATACGTTATCAA
1612984 TAAATACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (18 bp):
AATTTTATACGTTATCAA
Found at i:1613003 original size:14 final size:14
Alignment explanation
Indices: 1612984--1613014 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1612974 ACGTTATCAA
*
1612984 TAAATACTAAAATT
1 TAAATAATAAAATT
1612998 TAAATAATAAAATT
1 TAAATAATAAAATT
1613012 TAA
1 TAA
1613015 GATTTTGGGT
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:0.03, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAATAATAAAATT
Found at i:1615344 original size:18 final size:18
Alignment explanation
Indices: 1615322--1615365 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
1615312 TAGTTTATGG
1615322 ATTTTAATATATT-TATATT
1 ATTTTAATA-ATTAT-TATT
1615341 -TTTTAATAATTATTATT
1 ATTTTAATAATTATTATT
1615358 ATTTTAAT
1 ATTTTAAT
1615366 TATAACACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTAATAATTATTATT
Found at i:1622567 original size:2 final size:2
Alignment explanation
Indices: 1622560--1622630 Score: 60
Period size: 2 Copynumber: 36.5 Consensus size: 2
1622550 TTACCTGAGG
* * *
1622560 GA GA GA GA GA GA GA GA GA G- GA GA GA G- GA GT GA CA AA GTA NGA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G-A -GA
*
1622602 GG GA G- GA GA GA GA GA GA GA GA G- GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1622631 GAGTGCAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
1 4 0.07
2 49 0.88
3 2 0.04
4 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.51, T:0.03
Consensus pattern (2 bp):
GA
Found at i:1622613 original size:45 final size:42
Alignment explanation
Indices: 1622556--1622639 Score: 141
Period size: 45 Copynumber: 1.9 Consensus size: 42
1622546 CTTTTTACCT
1622556 GAGGGAGAGAGAGAGAGAGAGAGGAGAGAGGAGTGACAAAGTA
1 GAGGGAGAGAGAGAGAGAGAGAGGAGAGAGGAGTG-CAAAGTA
1622599 NGAGGGAGGAGAGAGAGAGAGAGAGGAGAGAGGAGTGCAAA
1 -GAGGGA-GAGAGAGAGAGAGAGAGGAGAGAGGAGTGCAAA
1622640 TGGAAGAAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
44 10 0.26
45 29 0.74
ACGTcount: A:0.43, C:0.02, G:0.50, T:0.04
Consensus pattern (42 bp):
GAGGGAGAGAGAGAGAGAGAGAGGAGAGAGGAGTGCAAAGTA
Found at i:1639758 original size:23 final size:20
Alignment explanation
Indices: 1639730--1639780 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
1639720 TTTACCCTTG
1639730 ATTAATTTTTATAATTATTATT
1 ATTAATTTTTATAATT-TT-TT
*
1639752 ATATAA-TTTTATTATTTTTT
1 AT-TAATTTTTATAATTTTTT
1639772 ATTAATTTT
1 ATTAATTTT
1639781 AAAAAAAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 3 0.12
20 7 0.27
21 2 0.08
22 11 0.42
23 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTAATTTTTATAATTTTTT
Found at i:1639765 original size:19 final size:19
Alignment explanation
Indices: 1639743--1639781 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1639733 AATTTTTATA
1639743 ATTATTATTATA-TAATTTT
1 ATTATT-TTATATTAATTTT
*
1639762 ATTATTTTTTATTAATTTT
1 ATTATTTTATATTAATTTT
1639781 A
1 A
1639782 AAAAAAAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTATTTTATATTAATTTT
Found at i:1642922 original size:15 final size:16
Alignment explanation
Indices: 1642902--1642932 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1642892 TTGGTCAATT
1642902 TGAAAAAGAA-AAAAA
1 TGAAAAAGAAGAAAAA
1642917 TGAAAAAGAAGAAAAA
1 TGAAAAAGAAGAAAAA
1642933 GGATGTAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (16 bp):
TGAAAAAGAAGAAAAA
Found at i:1642976 original size:19 final size:18
Alignment explanation
Indices: 1642945--1642983 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
1642935 ATGTAGGAAT
* *
1642945 AAATAAATGAATAATAAA
1 AAATAAATAAATAAGAAA
1642963 AAATAAAATAAATAAGAAA
1 AAAT-AAATAAATAAGAAA
1642982 AA
1 AA
1642984 TGAAAGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (18 bp):
AAATAAATAAATAAGAAA
Found at i:1644007 original size:42 final size:42
Alignment explanation
Indices: 1643929--1644011 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
1643919 TATTTCATGA
* **
1643929 TAAAAGAAAGTCAAATCTTTTTCTTTTCTTTCCTAGAATCTG
1 TAAAAGAAAGTCAAATCCTTCACTTTTCTTTCCTAGAATCTG
*
1643971 TAAAAGAAAGTCAAATCCTTCACTTCTT-TTTTCTAGAATCT
1 TAAAAGAAAGTCAAATCCTTCACTT-TTCTTTCCTAGAATCT
1644012 ATAAGGGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 34 0.94
43 2 0.06
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (42 bp):
TAAAAGAAAGTCAAATCCTTCACTTTTCTTTCCTAGAATCTG
Found at i:1645152 original size:2 final size:2
Alignment explanation
Indices: 1645133--1645169 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1645123 GCGCACGTGT
* *
1645133 AC AC AC AT AC AC AT AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1645170 TATATATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.43, G:0.00, T:0.05
Consensus pattern (2 bp):
AC
Found at i:1648627 original size:351 final size:351
Alignment explanation
Indices: 1647963--1648668 Score: 845
Period size: 351 Copynumber: 2.0 Consensus size: 351
1647953 GAAAGGATGG
* * * * *
1647963 TGGTGAATTTTCAAGTACAGAGTAGCCCGAGAGATTAAGAACCTTTAGGCTGCTGAGATTTTCAA
1 TGGTAAATTTTCAAGTACAGAGCAGCCCGAGAGATTAAGAACCTTTAGACTGCTGAGATGTCCAA
* ** * ** **
1648028 CTGAAGAGGGAAGTTCTTCAATACCTGTGGCATCTATATGCAGCTCCAGCAAATGTTCCATTTTT
66 ATGAAGAGGGAAGTTCTTCAATACCTGTCCCATCTAAATGCAGCTCCAGCAAACATTCCATTTCC
* * ** **
1648093 CTGGTAATCTCTGGAAACCTTTTAAGATTCTTGCAACCTGAAAGAATCAATGTTTCAAGAGACTC
131 CCGATAATCTCTGGAAACCTTCGAAGATTCGAGCAACCTGAAAGAATCAATGTTTCAAGAGACTC
* *
1648158 CATCTCATTATTGATTGACAAGCTCCTGAGACTTGTGCAGTTCCTTAAATTCAAAAGTTTAAGCT
196 CATCTAATTATTGATTGACAAGCTCCTAAGACTTGTGCAGTTCCTTAAATTCAAAAGTTTAAGCT
1648223 TGGGTAAAATTGAGATGGATGGATGGACATCTACCAAGCTGATACAACCTTCCAAATTCAAACTT
261 TGGGTAAAATTGAGATGGATGGATGGACATCTACCAAGCTGATACAACCTTCCAAATTCAAACTT
*
1648288 T-CAAGATTTTCGATCA-TTGTGAAGTC
326 TCCAA-ATTTTC-AGCACTTGTGAAGTC
** ** *
1648314 TGGTAAATTTTCAAGTTTAGAGCAGCTTGAGAGATTAAGAA-CTTTGAGATTGCTGAGATGTCCA
1 TGGTAAATTTTCAAGTACAGAGCAGCCCGAGAGATTAAGAACCTTT-AGACTGCTGAGATGTCCA
* * * *
1648378 AATGAAGAGGGAAGTTTTTTAATACTTGTCCCATCTAAATAG-AGCTCCAGCAAACATTTCATTT
65 AATGAAGAGGGAAGTTCTTCAATACCTGTCCCATCTAAAT-GCAGCTCCAGCAAACATTCCATTT
* * *
1648442 CCCCGATAATCTTTGGAAACCTTCGAAGATTCGAGCAGCTTGAAAGAA-CAAATGTTTCAAGAGA
129 CCCCGATAATCTCTGGAAACCTTCGAAGATTCGAGCAACCTGAAAGAATC-AATGTTTCAAGAGA
* * * * *
1648506 TTCCATTCTAATT-TTGGTTG-CGAGACTCTTAAGACTTGTGCAGTTTCTTAAATTCAAAAGTTT
193 CTCCA-TCTAATTATTGATTGACAAG-CTCCTAAGACTTGTGCAGTTCCTTAAATTCAAAAGTTT
* * * * * *
1648569 AAGCTTGGGTAGCAA-TGTGATGGATGGATGGACATGT-CCTAAGTTGGTACAGCCTTCCAAATT
256 AAGCTTGGGTA-AAATTGAGATGGATGGATGGACATCTACC-AAGCTGATACAACCTTCCAAATT
* *
1648632 TAAACTTTCCAAATTTTCAGCACTTGTTAAGTC
319 CAAACTTTCCAAATTTTCAGCACTTGTGAAGTC
1648665 TGGT
1 TGGT
1648669 GTCCTGATCA
Statistics
Matches: 299, Mismatches: 47, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
350 13 0.04
351 274 0.92
352 12 0.04
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (351 bp):
TGGTAAATTTTCAAGTACAGAGCAGCCCGAGAGATTAAGAACCTTTAGACTGCTGAGATGTCCAA
ATGAAGAGGGAAGTTCTTCAATACCTGTCCCATCTAAATGCAGCTCCAGCAAACATTCCATTTCC
CCGATAATCTCTGGAAACCTTCGAAGATTCGAGCAACCTGAAAGAATCAATGTTTCAAGAGACTC
CATCTAATTATTGATTGACAAGCTCCTAAGACTTGTGCAGTTCCTTAAATTCAAAAGTTTAAGCT
TGGGTAAAATTGAGATGGATGGATGGACATCTACCAAGCTGATACAACCTTCCAAATTCAAACTT
TCCAAATTTTCAGCACTTGTGAAGTC
Found at i:1650445 original size:66 final size:65
Alignment explanation
Indices: 1650339--1650536 Score: 324
Period size: 66 Copynumber: 3.0 Consensus size: 65
1650329 TAAAGATAAA
*
1650339 GATAAAAGGAGGTATATATTTGTACCCGATAGTGCTGTTGATGACCAGGCACTCAATCGCTTCTG
1 GATAAAAGGAGGTATATATTTGTACCCTATAGTGCTGTTGATGACCAGGC-CTCAATCGCTTCTG
1650404 T
65 T
*
1650405 GATAAAAGGAGGTATATATTTGTACCCTATAGTGCTGTTGATGACCAGGCCCTCAATCGCTTCTT
1 GATAAAAGGAGGTATATATTTGTACCCTATAGTGCTGTTGATGACCAGG-CCTCAATCGCTTCTG
1650470 T
65 T
* * *
1650471 GATAAAAGGAGGTATATATTTGTACACTGTAGTGCTGTTGATGACCATGCCTTCAATCGCTTCTG
1 GATAAAAGGAGGTATATATTTGTACCCTATAGTGCTGTTGATGACCAGGCC-TCAATCGCTTCTG
1650536 T
65 T
1650537 ACCCTAAACA
Statistics
Matches: 124, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
65 2 0.02
66 121 0.98
67 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (65 bp):
GATAAAAGGAGGTATATATTTGTACCCTATAGTGCTGTTGATGACCAGGCCTCAATCGCTTCTGT
Found at i:1655295 original size:26 final size:26
Alignment explanation
Indices: 1655266--1655323 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
1655256 AAGAAAAATA
1655266 TAATTA-TAAATTAAAAAATAACTATT
1 TAATTATTAAATTAAAAAA-AACTATT
* * *
1655292 TAATTATTAATTTAATAAAAATTATT
1 TAATTATTAAATTAAAAAAAACTATT
1655318 TAATTA
1 TAATTA
1655324 CACTAAAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
TAATTATTAAATTAAAAAAAACTATT
Found at i:1655493 original size:78 final size:78
Alignment explanation
Indices: 1655406--1655606 Score: 278
Period size: 78 Copynumber: 2.6 Consensus size: 78
1655396 CACTTATAAA
* *
1655406 AAAAATTATTTGGCTTACATGATATAATTATTTGT-TTCCAAAATAGTAAATTAAATAATAATTA
1 AAAAATTATTTGGTTTACATGATATAATTATTTGTGTT-AAAAATAGTAAATTAAATAATAATTA
*
1655470 TTTATTGATTTCAT
65 TTTAATGATTTCAT
* * *
1655484 AAAAATTATTTCGTTTACATGATCTAATGATTTGTGTTAAAAATAGTAAATTAAATAATAATTAT
1 AAAAATTATTTGGTTTACATGATATAATTATTTGTGTTAAAAATAGTAAATTAAATAATAATTAT
*
1655549 TTAATGATTTGAT
66 TTAATGATTTCAT
* * * * *
1655562 AAAAATTAATTGATTTACATGATGTAATTATTTATTTTAAAAATA
1 AAAAATTATTTGGTTTACATGATATAATTATTTGTGTTAAAAATA
1655607 ATTATCTTTA
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
78 106 0.98
79 2 0.02
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44
Consensus pattern (78 bp):
AAAAATTATTTGGTTTACATGATATAATTATTTGTGTTAAAAATAGTAAATTAAATAATAATTAT
TTAATGATTTCAT
Found at i:1657004 original size:27 final size:27
Alignment explanation
Indices: 1656961--1657169 Score: 195
Period size: 27 Copynumber: 7.7 Consensus size: 27
1656951 TTGTTTATAT
*
1656961 TTTTCAACATAACATATAATAACTAAA
1 TTTTCAACATGACATATAATAACTAAA
* * *
1656988 TTTTCAACATGAAATATAACAACTAAG
1 TTTTCAACATGACATATAATAACTAAA
* * * *
1657015 TCTTT-AATATGACGTGTAATAACTATAT
1 T-TTTCAACATGACATATAATAACTA-AA
*
1657043 TTTTCAACATGACATATAACAACTAAA
1 TTTTCAACATGACATATAATAACTAAA
* * *
1657070 TTTTTAATATGACGTATAATAACTAAA
1 TTTTCAACATGACATATAATAACTAAA
* * *
1657097 TCTTAAACATGACGTATAATAACTAAA
1 TTTTCAACATGACATATAATAACTAAA
* * * * * *
1657124 TCTTAAACATGACGTGTAACAACTATAT
1 TTTTCAACATGACATATAATAACTA-AA
1657152 TTTTCAACATGACATATA
1 TTTTCAACATGACATATA
1657170 TTACATTTTT
Statistics
Matches: 149, Mismatches: 29, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
27 113 0.76
28 36 0.24
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.34
Consensus pattern (27 bp):
TTTTCAACATGACATATAATAACTAAA
Found at i:1657094 original size:82 final size:81
Alignment explanation
Indices: 1656956--1657243 Score: 269
Period size: 82 Copynumber: 3.6 Consensus size: 81
1656946 TGAGTTTGTT
* * * *
1656956 TATATTTTTCAACATAACATATAATAACTAAATTTTCAACATGAAATATAACAACTAAGTCTTTA
1 TATATTTTTCAACATGACATATAACAACTAAATTTTCAACATGACATATAATAACTAA-TCTTTA
1657021 ATATGACGTGTAATAAC
65 ATATGACGTGTAATAAC
* * * *
1657038 TATATTTTTCAACATGACATATAACAACTAAATTTTTAATATGACGTATAATAACTAAATCTTAA
1 TATATTTTTCAACATGACATATAACAACTAAATTTTCAACATGACATATAATAACT-AATCTTTA
* *
1657103 ACATGACGTATAATAAC
65 ATATGACGTGTAATAAC
* * * * * * * *
1657120 TA-AATCTTAAACATGACGTGTAACAACTATATTTTTCAACATGACATAT-ATTAC--ATTTTTC
1 TATATTTTTCAACATGACATATAACAACTA-AATTTTCAACATGACATATAATAACTAATCTTT-
* * *
1657181 AATATGATGTGAAACAAC
64 AATATGACGTGTAATAAC
* * * * * *
1657199 TACATTTTTTAACATGATATGTAAGAACTAAATTTTCAATATGAC
1 TATATTTTTCAACATGACATATAACAACTAAATTTTCAACATGAC
1657244 GCGTAATAAT
Statistics
Matches: 167, Mismatches: 35, Indels: 11
0.78 0.16 0.05
Matches are distributed among these distances:
78 4 0.02
79 28 0.17
80 21 0.13
81 26 0.16
82 86 0.51
83 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (81 bp):
TATATTTTTCAACATGACATATAACAACTAAATTTTCAACATGACATATAATAACTAATCTTTAA
TATGACGTGTAATAAC
Found at i:1657242 original size:27 final size:28
Alignment explanation
Indices: 1657171--1657242 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
1657161 TGACATATAT
* *
1657171 TACATTTTTCAATATGATGTGAAACAAC
1 TACAATTTTCAATATGATATGAAACAAC
* * * * *
1657199 TACATTTTTTAACATGATATGTAAGAAC
1 TACAATTTTCAATATGATATGAAACAAC
1657227 TA-AATTTTCAATATGA
1 TACAATTTTCAATATGA
1657243 CGCGTAATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
27 11 0.31
28 25 0.69
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (28 bp):
TACAATTTTCAATATGATATGAAACAAC
Found at i:1657750 original size:92 final size:91
Alignment explanation
Indices: 1657593--1657775 Score: 348
Period size: 92 Copynumber: 2.0 Consensus size: 91
1657583 TTGTTTTCCG
1657593 ACACCCAAGGCCGGCCCTTGGGTGAAGCCACCCAAGCAAGGGTTTTAGGTCTCCAATTTGGGGAG
1 ACACCCAAGGCCGGCCCTTGGGTGAAGCCACCCAAGCAAGGGTTTTAGGTCTCCAATTTGGGGAG
1657658 GCCTCAATTTTAAGGAACATTTAAAA
66 GCCTCAATTTTAAGGAACATTTAAAA
*
1657684 NACACCCAAGGCCGGGCCTTGGGTGAAGCCACCCAAGCAAGGGTTTTAGGTCTCCAATTTGGGGA
1 -ACACCCAAGGCCGGCCCTTGGGTGAAGCCACCCAAGCAAGGGTTTTAGGTCTCCAATTTGGGGA
1657749 GGCCTCAATTTTAAGGAACATTTAAAA
65 GGCCTCAATTTTAAGGAACATTTAAAA
1657776 TTTTATAATA
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (91 bp):
ACACCCAAGGCCGGCCCTTGGGTGAAGCCACCCAAGCAAGGGTTTTAGGTCTCCAATTTGGGGAG
GCCTCAATTTTAAGGAACATTTAAAA
Found at i:1657827 original size:16 final size:16
Alignment explanation
Indices: 1657808--1657861 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
1657798 ATTTAATTAT
1657808 ATTAAAAATATATAAA
1 ATTAAAAATATATAAA
*
1657824 ATTAAAAAAATATATTAA
1 ATT--AAAAATATATAAA
*
1657842 ATAAAAAAT-TCATAAA
1 ATTAAAAATAT-ATAAA
1657858 ATTA
1 ATTA
1657862 TTTGGTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 1 0.03
16 16 0.52
18 14 0.45
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTAAAAATATATAAA
Found at i:1657834 original size:18 final size:18
Alignment explanation
Indices: 1657811--1657861 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
1657801 TAATTATATT
1657811 AAAAATATATAAAATTAA
1 AAAAATATATAAAATTAA
*
1657829 AAAAATATATTAAA-T-A
1 AAAAATATATAAAATTAA
1657845 AAAAAT-TCATAAAATTA
1 AAAAATAT-ATAAAATTA
1657862 TTTGGTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 1 0.04
16 12 0.43
17 2 0.07
18 13 0.46
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATATATAAAATTAA
Found at i:1667315 original size:9 final size:10
Alignment explanation
Indices: 1667294--1667322 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
1667284 CTAAGGTAGT
1667294 TTTTATGAAA
1 TTTTATGAAA
1667304 TTTTAT-AAA
1 TTTTATGAAA
1667313 TTTTATGAAA
1 TTTTATGAAA
1667323 AATGGATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (10 bp):
TTTTATGAAA
Found at i:1671581 original size:46 final size:46
Alignment explanation
Indices: 1671491--1671590 Score: 125
Period size: 47 Copynumber: 2.2 Consensus size: 46
1671481 GAAAGAGAGT
*
1671491 GGAAAAGGAAAAAGAGAAAAAAAAAAGGAAAAAATAAGAGAAAAGA
1 GGAAAAGGAAAAAGAGAAAAAAAAAAGGAAAAAATAAGAAAAAAGA
* *
1671537 -GAAAAGGAAAAATGAAGTAAAAAAAAA-GAAAAAAGT-GGAAAAAAGA
1 GGAAAAGGAAAAA-G-AGAAAAAAAAAAGGAAAAAA-TAAGAAAAAAGA
1671583 GGAAAAGG
1 GGAAAAGG
1671591 TTAATAAGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
45 12 0.26
46 16 0.34
47 19 0.40
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (46 bp):
GGAAAAGGAAAAAGAGAAAAAAAAAAGGAAAAAATAAGAAAAAAGA
Found at i:1672752 original size:42 final size:42
Alignment explanation
Indices: 1672693--1672773 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
1672683 TATTCCATGA
**
1672693 TAAAAGAAAGTAAAATCTTTTTCTTCTCTTT-CCTAGAATTTG
1 TAAAAGAAAGTAAAATCTTTCACTTCT-TTTCCCTAGAATTTG
*
1672735 TAAAAGAAAGTCAAATCTTTCACTTCTTTTCCCTAGAAT
1 TAAAAGAAAGTAAAATCTTTCACTTCTTTTCCCTAGAAT
1672774 CTATAAGGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 3 0.09
42 32 0.91
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.40
Consensus pattern (42 bp):
TAAAAGAAAGTAAAATCTTTCACTTCTTTTCCCTAGAATTTG
Found at i:1673063 original size:19 final size:22
Alignment explanation
Indices: 1673038--1673083 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
1673028 GACGATTTTA
*
1673038 ATTAAG-AA-GATTGTAATCAG
1 ATTAAGAAATGATGGTAATCAG
1673058 -TTAAGAAATGATGGTAATCAG
1 ATTAAGAAATGATGGTAATCAG
1673079 ATTAA
1 ATTAA
1673084 AGCAATTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 5 0.23
20 2 0.09
21 11 0.50
22 4 0.18
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (22 bp):
ATTAAGAAATGATGGTAATCAG
Found at i:1673649 original size:2 final size:2
Alignment explanation
Indices: 1673642--1673685 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1673632 ACATTACGAA
1673642 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1673684 AT
1 AT
1673686 GTGTGTGTGT
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):
AT
Found at i:1673690 original size:2 final size:2
Alignment explanation
Indices: 1673685--1673711 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1673675 TATATATATA
1673685 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1673712 TTATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Done.