Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 10 of 147
Found at i:2120883 original size:22 final size:23
Alignment explanation
Indices: 2120839--2120886 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
2120829 TATTTTTTAC
**
2120839 ATATAGATTTTTATATATTTAAT
1 ATATAGATTTTTATATAAATAAT
2120862 ATATAGATTTTTAT-TAAATAAT
1 ATATAGATTTTTATATAAATAAT
2120884 ATA
1 ATA
2120887 AATTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
ATATAGATTTTTATATAAATAAT
Found at i:2120895 original size:20 final size:19
Alignment explanation
Indices: 2120849--2120896 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
2120839 ATATAGATTT
* *
2120849 TTATATATTTAATATATAGA
1 TTAT-TATTAAATATATAAA
*
2120869 TTTTTATTAAATAATATAAA
1 TTATTATTAAAT-ATATAAA
2120889 TTATTATT
1 TTATTATT
2120897 TTAGATTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TTATTATTAAATATATAAA
Found at i:2125264 original size:9 final size:9
Alignment explanation
Indices: 2125252--2125282 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
2125242 TTTATTAATT
2125252 TTTTAAATA
1 TTTTAAATA
2125261 TTTTAAATA
1 TTTTAAATA
2125270 TTTTAAAT-
1 TTTTAAATA
2125278 TTTTA
1 TTTTA
2125283 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.23
9 17 0.77
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTAAATA
Found at i:2125792 original size:10 final size:10
Alignment explanation
Indices: 2125756--2125809 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
2125746 ATTTTATATT
*
2125756 TATATTTATA
1 TATATTTAAA
*
2125766 T-TATTTTAA
1 TATATTTAAA
*
2125775 TATAATTTTAA
1 TAT-ATTTAAA
2125786 TATATTTAAA
1 TATATTTAAA
*
2125796 TAAATTTAAA
1 TATATTTAAA
2125806 TATA
1 TATA
2125810 AAATAATTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 7 0.19
10 20 0.54
11 10 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TATATTTAAA
Found at i:2129407 original size:21 final size:21
Alignment explanation
Indices: 2129362--2129407 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2129352 TTTACAATGT
*
2129362 ATTTTTTACTTTATTTTTGTT
1 ATTTTTTACTTTATTTTTGTA
*
2129383 ATTTTTTATGTTTA-TTTTGTA
1 ATTTTTTA-CTTTATTTTTGTA
2129404 ATTT
1 ATTT
2129408 GCTTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (21 bp):
ATTTTTTACTTTATTTTTGTA
Found at i:2133025 original size:2 final size:2
Alignment explanation
Indices: 2133018--2133051 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
2133008 CCTAAATCTA
2133018 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2133052 CTAACATACA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2133311 original size:29 final size:30
Alignment explanation
Indices: 2133242--2133313 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
2133232 AAAATTATTT
*
2133242 TTTAAAAAAATTTACGTAAGACATTAAAAA
1 TTTAAAAAATTTTACGTAAGACATTAAAAA
* * * * **
2133272 TTCAGATAATTTTATG-AAGATTTTAAAAA
1 TTTAAAAAATTTTACGTAAGACATTAAAAA
2133301 TTTAAAAAATTTT
1 TTTAAAAAATTTT
2133314 CATCCTAAAT
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
29 21 0.66
30 11 0.34
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTAAAAAATTTTACGTAAGACATTAAAAA
Found at i:2135709 original size:22 final size:23
Alignment explanation
Indices: 2135665--2135712 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
2135655 TATTTTTTAC
**
2135665 ATATAGATTTTTATATATTTAAT
1 ATATAGATTTTTATATAAATAAT
2135688 ATATAGATTTTTAT-TAAATAAT
1 ATATAGATTTTTATATAAATAAT
2135710 ATA
1 ATA
2135713 AATTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
ATATAGATTTTTATATAAATAAT
Found at i:2135721 original size:20 final size:19
Alignment explanation
Indices: 2135675--2135722 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
2135665 ATATAGATTT
* *
2135675 TTATATATTTAATATATAGA
1 TTAT-TATTAAATATATAAA
*
2135695 TTTTTATTAAATAATATAAA
1 TTATTATTAAAT-ATATAAA
2135715 TTATTATT
1 TTATTATT
2135723 TAGATTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TTATTATTAAATATATAAA
Found at i:2142219 original size:24 final size:23
Alignment explanation
Indices: 2142177--2142223 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
2142167 CTAAACAGAT
2142177 ATACTTTTTCTTTTATTTTTTTA
1 ATACTTTTTCTTTTATTTTTTTA
2142200 ATACTTTTTCTTTTATTTTTTTA
1 ATACTTTTTCTTTTATTTTTTTA
2142223 A
1 A
2142224 ATCGTAACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (23 bp):
ATACTTTTTCTTTTATTTTTTTA
Found at i:2145551 original size:13 final size:13
Alignment explanation
Indices: 2145510--2145554 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
2145500 GGACGGCCGT
2145510 AAAAGAAGAAAAA
1 AAAAGAAGAAAAA
* *
2145523 GAAAGGAGACAAAA
1 AAAAGAAGA-AAAA
2145537 AAAA-AAGAAAAA
1 AAAAGAAGAAAAA
2145549 AAAAGA
1 AAAAGA
2145555 CTAAAACCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 8 0.31
13 11 0.42
14 7 0.27
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAGAAGAAAAA
Found at i:2146114 original size:6 final size:6
Alignment explanation
Indices: 2146103--2146130 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2146093 ATAATTCTTT
2146103 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
2146131 TTTTAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:2147759 original size:103 final size:104
Alignment explanation
Indices: 2147619--2147824 Score: 344
Period size: 103 Copynumber: 2.0 Consensus size: 104
2147609 AAAGCTAAGA
*
2147619 ATAAATTCCAAAAGTTAATGGTTGTGCCATCAACTTTATTGGATTTGTGGAAATTTTGCAATGCA
1 ATAAATTCCAAAAGTTAATGGTTGTGCCATCAACTTTATTGGATTTGTGGAAATTGTGCAATGCA
*
2147684 ACATGGATTTTGTTTTTCCATCATTCCT-TTTTCTCGAGT
66 ACATGGATTTTGTTTTCCCATCA-TCCTCTTTTCTCGAGT
* * *
2147723 ATAAATTCC-AAGGTTAATGGTTGTGGCATCAACTTTATTGGATTTGTGGAAATTGTGTAATGCA
1 ATAAATTCCAAAAGTTAATGGTTGTGCCATCAACTTTATTGGATTTGTGGAAATTGTGCAATGCA
2147787 ACATGGATTTTGTTTTCCCATCATCCTCTTTTCTCGAG
66 ACATGGATTTTGTTTTCCCATCATCCTCTTTTCTCGAG
2147825 GAAAAAATTT
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
102 4 0.04
103 83 0.86
104 9 0.09
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (104 bp):
ATAAATTCCAAAAGTTAATGGTTGTGCCATCAACTTTATTGGATTTGTGGAAATTGTGCAATGCA
ACATGGATTTTGTTTTCCCATCATCCTCTTTTCTCGAGT
Found at i:2148326 original size:29 final size:29
Alignment explanation
Indices: 2148289--2148348 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
2148279 AGTTAATAAA
*
2148289 TTTATAATTTAAATAATATATTAAAAATT
1 TTTAAAATTTAAATAATATATTAAAAATT
* *
2148318 TTTAAAATTTAAATATTATATTAAATATT
1 TTTAAAATTTAAATAATATATTAAAAATT
2148347 TT
1 TT
2148349 ATTATAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TTTAAAATTTAAATAATATATTAAAAATT
Found at i:2153587 original size:7 final size:7
Alignment explanation
Indices: 2153571--2153615 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
2153561 TTTATTCAAA
2153571 TAAAACT
1 TAAAACT
*
2153578 TAAAAGT
1 TAAAACT
2153585 TAAAACT
1 TAAAACT
*
2153592 TTAAA--
1 TAAAACT
2153597 TAAAACT
1 TAAAACT
2153604 TAAAACT
1 TAAAACT
2153611 TAAAA
1 TAAAA
2153616 AATGACGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 4 0.12
7 28 0.88
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (7 bp):
TAAAACT
Found at i:2155830 original size:14 final size:14
Alignment explanation
Indices: 2155811--2155838 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2155801 CTCTCATGTC
2155811 CCTCTCTCTTTCTT
1 CCTCTCTCTTTCTT
2155825 CCTCTCTCTTTCTT
1 CCTCTCTCTTTCTT
2155839 TTTCTTGTGA
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:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (14 bp):
CCTCTCTCTTTCTT
Found at i:2160214 original size:16 final size:16
Alignment explanation
Indices: 2160195--2160225 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2160185 AATATTATGT
2160195 TATATAAATATTTTAG
1 TATATAAATATTTTAG
*
2160211 TATATTAATATTTTA
1 TATATAAATATTTTA
2160226 ATGAGTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATAAATATTTTAG
Found at i:2160692 original size:26 final size:26
Alignment explanation
Indices: 2160663--2160714 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2160653 ATACATTCTC
*
2160663 ATTTAATTT-AAAGATAATACAAATCT
1 ATTT-ATTTAAAAAATAATACAAATCT
*
2160689 ATTTTTTTAAAAAATAATACAAATCT
1 ATTTATTTAAAAAATAATACAAATCT
2160715 TGATGCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (26 bp):
ATTTATTTAAAAAATAATACAAATCT
Found at i:2161773 original size:16 final size:16
Alignment explanation
Indices: 2161752--2161782 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2161742 AAACACTCCC
2161752 AAAAAAGAAAAAAAAG
1 AAAAAAGAAAAAAAAG
*
2161768 AAAAAATAAAAAAAA
1 AAAAAAGAAAAAAAA
2161783 TCTCTAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.06, T:0.03
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAG
Found at i:2164704 original size:28 final size:28
Alignment explanation
Indices: 2164672--2164728 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
2164662 CCCTACTCAA
*
2164672 TTTCAAAAACCTTAACATAGTATAGGTG
1 TTTCAAAAACCTTAACATAGTATAAGTG
**
2164700 TTTCAAAAACCTTAATTTAGTATAAGTG
1 TTTCAAAAACCTTAACATAGTATAAGTG
2164728 T
1 T
2164729 CTTACTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (28 bp):
TTTCAAAAACCTTAACATAGTATAAGTG
Found at i:2166466 original size:27 final size:27
Alignment explanation
Indices: 2166435--2166491 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
2166425 AAAAAATAAT
*
2166435 AAAAATTACTATAGTTATGATTGAAAA
1 AAAAATTACTATAATTATGATTGAAAA
* * *
2166462 AAAAATTATTGTAATTATGATTTAAAA
1 AAAAATTACTATAATTATGATTGAAAA
2166489 AAA
1 AAA
2166492 CTTAATGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.35
Consensus pattern (27 bp):
AAAAATTACTATAATTATGATTGAAAA
Found at i:2170714 original size:21 final size:21
Alignment explanation
Indices: 2170669--2170714 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
2170659 TTTACAATGT
*
2170669 ATTTTTTATTTTATTTTTGTT
1 ATTTTTTATTTTATTTTTGTA
2170690 ATTTTTTATGTTTA-TTTTGTA
1 ATTTTTTAT-TTTATTTTTGTA
2170711 ATTT
1 ATTT
2170715 GCTTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (21 bp):
ATTTTTTATTTTATTTTTGTA
Found at i:2171441 original size:20 final size:18
Alignment explanation
Indices: 2171416--2171455 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
2171406 AATTCTTTTA
*
2171416 ATTATCTATTTAAATTTAGT
1 ATTATC-ATATAAATTT-GT
2171436 ATTATCATATAAATTTGT
1 ATTATCATATAAATTTGT
2171454 AT
1 AT
2171456 CCAATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 9 0.47
20 6 0.32
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (18 bp):
ATTATCATATAAATTTGT
Found at i:2174442 original size:17 final size:16
Alignment explanation
Indices: 2174400--2174442 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
2174390 TTTTTAATTA
*
2174400 AAATAAATATTAAAAT
1 AAATAAATTTTAAAAT
*
2174416 AAAAAGAATTTTAAAAT
1 AAATA-AATTTTAAAAT
2174433 AAATTAAATT
1 AAA-TAAATT
2174443 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.18
17 17 0.77
18 1 0.05
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
AAATAAATTTTAAAAT
Found at i:2176270 original size:16 final size:18
Alignment explanation
Indices: 2176239--2176276 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
2176229 AAATATTTTT
2176239 ATTAAATAAAATTAAAAA
1 ATTAAATAAAATTAAAAA
*
2176257 ATTAAA-AAAA-TAAAAT
1 ATTAAATAAAATTAAAAA
2176273 ATTA
1 ATTA
2176277 TATTCAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 4 0.21
18 6 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
ATTAAATAAAATTAAAAA
Found at i:2176365 original size:10 final size:10
Alignment explanation
Indices: 2176350--2176386 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
2176340 ATAATTATTT
2176350 TATATTTAAA
1 TATATTTAAA
2176360 TATATTTAAA
1 TATATTTAAA
*
2176370 TATATTAAAA
1 TATATTTAAA
2176380 TAATATT
1 T-ATATT
2176387 AAAAAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 20 0.80
11 5 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TATATTTAAA
Found at i:2176388 original size:20 final size:21
Alignment explanation
Indices: 2176350--2176403 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
2176340 ATAATTATTT
*
2176350 TATATTTAAAT-ATATTTAAA
1 TATATTAAAATAATATTTAAA
2176370 TATATTAAAATAATA-TTAAA
1 TATATTAAAATAATATTTAAA
*
2176390 -AAATTAAAAATAAT
1 TATATT-AAAATAAT
2176404 CTATTCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.13
20 23 0.77
21 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATATTAAAATAATATTTAAA
Found at i:2176839 original size:11 final size:9
Alignment explanation
Indices: 2176807--2176831 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2176797 TTTATTTAAT
2176807 AAATATTTA
1 AAATATTTA
2176816 AAATATTTA
1 AAATATTTA
2176825 AAATATT
1 AAATATT
2176832 AATAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AAATATTTA
Found at i:2180458 original size:13 final size:12
Alignment explanation
Indices: 2180436--2180474 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
2180426 TTTAATTAAT
2180436 ATAAAAAAATAA
1 ATAAAAAAATAA
2180448 ATAATAAAAATAA
1 ATAA-AAAAATAA
*
2180461 ATAAAAATATAA
1 ATAAAAAAATAA
2180473 AT
1 AT
2180475 GATAACTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 13 0.52
13 12 0.48
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
ATAAAAAAATAA
Found at i:2180462 original size:17 final size:17
Alignment explanation
Indices: 2180432--2180474 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
2180422 TTGATTTAAT
2180432 TAATATAAAA-AAATAAA
1 TAATA-AAAATAAATAAA
2180449 TAATAAAAATAAATAAA
1 TAATAAAAATAAATAAA
*
2180466 -AATATAAAT
1 TAATAAAAAT
2180475 GATAACTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
TAATAAAAATAAATAAA
Found at i:2181498 original size:9 final size:9
Alignment explanation
Indices: 2181484--2181509 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2181474 AAAAAATTTT
2181484 TTTTTTTAA
1 TTTTTTTAA
2181493 TTTTTTTAA
1 TTTTTTTAA
2181502 TTTTTTTA
1 TTTTTTTA
2181510 TATATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:2181524 original size:19 final size:19
Alignment explanation
Indices: 2181483--2181529 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
2181473 TAAAAAATTT
* *
2181483 TTTTTTTTA-ATTTTTTTA
1 TTTTTTTTATATATTATTA
*
2181501 ATTTTTTTATATATTATTA
1 TTTTTTTTATATATTATTA
*
2181520 TTTTTGTTAT
1 TTTTTTTTAT
2181530 TTTAAGTATC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTTTTATATATTATTA
Found at i:2181946 original size:15 final size:15
Alignment explanation
Indices: 2181928--2182000 Score: 51
Period size: 15 Copynumber: 4.9 Consensus size: 15
2181918 TACTAATTCA
2181928 TAAAATCCAGAATCC-
1 TAAAATCCA-AATCCG
* *
2181943 TAAATTCCAAACCCG
1 TAAAATCCAAATCCG
*
2181958 TAAAATCCAAAATCCC
1 TAAAATCC-AAATCCG
* * *
2181974 TCAAA-CCAAAACCT
1 TAAAATCCAAATCCG
*
2181988 TAAAATCTAAATC
1 TAAAATCCAAATC
2182001 TTCAAAATCT
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
14 13 0.30
15 22 0.50
16 9 0.20
ACGTcount: A:0.48, C:0.29, G:0.03, T:0.21
Consensus pattern (15 bp):
TAAAATCCAAATCCG
Found at i:2181983 original size:30 final size:29
Alignment explanation
Indices: 2181928--2181994 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
2181918 TACTAATTCA
* *
2181928 TAAAATCCAGAATCCTAAATTCCAAACCCG
1 TAAAATCCAAAATCCTAAA-TCCAAAACCG
*
2181958 TAAAATCCAAAATCCCTCAAA-CCAAAACCT
1 TAAAATCCAAAAT-CCT-AAATCCAAAACCG
2181988 TAAAATC
1 TAAAATC
2181995 TAAATCTTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 26 0.81
31 3 0.09
32 3 0.09
ACGTcount: A:0.48, C:0.30, G:0.03, T:0.19
Consensus pattern (29 bp):
TAAAATCCAAAATCCTAAATCCAAAACCG
Found at i:2193425 original size:26 final size:28
Alignment explanation
Indices: 2193395--2193455 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
2193385 ATATTTTACT
*
2193395 TAAAAAAAAC-AAA-AAAAATAAAAATA
1 TAAAAAAAACAAAACAAAAATAAAAAGA
*
2193421 TAAAAAATACAAAACAAAAATAAAAAGA
1 TAAAAAAAACAAAACAAAAATAAAAAGA
2193449 -AAAAAAA
1 TAAAAAAA
2193456 GAAAGAAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 9 0.30
27 9 0.30
28 12 0.40
ACGTcount: A:0.84, C:0.05, G:0.02, T:0.10
Consensus pattern (28 bp):
TAAAAAAAACAAAACAAAAATAAAAAGA
Found at i:2194685 original size:107 final size:106
Alignment explanation
Indices: 2194554--2196253 Score: 1259
Period size: 107 Copynumber: 15.7 Consensus size: 106
2194544 CTACTTGCGA
* * * ** * *
2194554 TTTAATTCCAGTCACTTTTATTTTTCTAACTTGCAGTTCAGTGACAGTCGTCATTAATCTTTGAC
1 TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGTCCCAGTCATCGTTAATCTTTGAC
2194619 TCGTGGTTTAATCCCAGTCATTCCTATGTTTTAGACTTACGG
66 TCGTGGTTTAATCCC-GTCATTCCTATGTTTTAGACTTACGG
* * * * * *
2194661 TTTAATCCCAATCACTTTTATTTTTTTTGACTTGCGGTTTAATCCCAATCATTGTTAAT-TTCTG
1 TTTAATCCCAGTCACTTTTA-TTTTTTTAACTTGCGGTTCAGTCCCAGTCATCGTTAATCTT-TG
** * * *
2194725 ACTTATGGTTTAAACCCGATCATTCCTATAGCTTTTCGACTTACGA
64 ACTCGTGGTTTAATCCCG-TCATTCCTAT-G-TTTTAGACTTACGG
* * * * * *
2194771 TTTAATCCCAATCACTTTTATTTTTTTAACTTGTGGCTCAGTCCTAGTCATCATTGATCTTTGAC
1 TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGTCCCAGTCATCGTTAATCTTTGAC
** * * **
2194836 TTATGGTTTAATCTCGGTCATTCTTATGTTCCAGACTTGA-GG
66 TCGTGGTTTAATC-CCGTCATTCCTATGTTTTAGACTT-ACGG
* * * * * * * * *
2194878 TTTAATCCTAATCACTTTTATTTTTTTTGACTTGCGATTTAATCCCAATCATTGTTAGT-TTCTG
1 TTTAATCCCAGTCACTTTTA-TTTTTTTAACTTGCGGTTCAGTCCCAGTCATCGTTAATCTT-TG
* * * * * * *
2194942 ACTCATGGCTTAAACTCGATCATTCCTATAGCTTCTCGACTTGCGG
64 ACTCGTGGTTTAATCCCG-TCATTCCTAT-G-TTTTAGACTTACGG
* * * * *
2194988 TTTAATCCCAATCACTTTTATTTTTTTAACTTACGATTCA-ACCCTAGTCGTCGTTAATCTTTGA
1 TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGTCCC-AGTCATCGTTAATCTTTGA
* * ***
2195052 CTCATGGTTTAATCTCGGTCATTCCTATGTTCCCGACTTACGG
65 CTCGTGGTTTAATC-CCGTCATTCCTATGTTTTAGACTTACGG
* ** * *
2195095 TTTAATCCCAGTCACTTTTATTTTTCTAACTTGCAACTT-AGTCCCAGTCGTCGTTGATCTTTGA
1 TTTAATCCCAGTCACTTTTATTTTTTTAACTTGC-GGTTCAGTCCCAGTCATCGTTAATCTTTGA
* *
2195159 CTCGTGATTTAATCCCGATCATTCCTATGTTCTAGACTTGA-GG
65 CTCGTGGTTTAATCCCG-TCATTCCTATGTTTTAGACTT-ACGG
* * * * * * * * *
2195202 TTTAATCCCAGTCACTTCTATTTTTTTGACTTGCAGTTTAATCACAATCATTGTTAATCTCTGAC
1 TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGTCCCAGTCATCGTTAATCTTTGAC
* * *** **
2195267 TCGTGGTTTAAACTCGGTCATTCCTATAGCTTCCCGACTTGTGG
66 TCGTGGTTTAATC-CCGTCATTCCTAT-G-TTTTAGACTTACGG
* * * * * ** *
2195311 TTTAATCCCAATCATTTTTATTTTTTTACCTTGCAGTTCAGCCCCAGTTGTCATTAATCTTTGAC
1 TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGTCCCAGTCATCGTTAATCTTTGAC
* * * *
2195376 TTGTGGTTTAATCTCGGTTATTCCTATGTTTTTGACTTACGG
66 TCGTGGTTTAATC-CCGTCATTCCTATGTTTTAGACTTACGG
* * * ** * **
2195418 TTTAATCTCAGTCACTTTTATTTTTCTAACTTACGGTTCAGTCTTAGTCGTTATTAATCTTTGAC
1 TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGTCCCAGTCATCGTTAATCTTTGAC
* *
2195483 TCATGGTTTAATCCCGATCATTCCTATGTTTCAGACTTACGG
66 TCGTGGTTTAATCCCG-TCATTCCTATGTTTTAGACTTACGG
* * * * * * *
2195525 TTTAATCCCAGTCACTTCTATTTTTTTTGACTTGCGGTTTAATCCCAATCATTGTTAATCTCTGA
1 TTTAATCCCAGTCACTTTTA-TTTTTTTAACTTGCGGTTCAGTCCCAGTCATCGTTAATCTTTGA
* *
2195590 CTCGTGGTTTAAACCCGATCATTCCTATAACTTTCT-GACTTACGG
65 CTCGTGGTTTAATCCCG-TCATTCCTAT--GTTT-TAGACTTACGG
* * * *
2195635 TTTAATCACAGTTACTTTTATTTTTCTAACTTGCGATTCAG-CCCTAGTCATCGTTAATCTTTGA
1 TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGTCCC-AGTCATCGTTAATCTTTGA
* ** * *
2195699 CTTGTGGTTTAATCTTGATCATTCCTATATTCCTA-ACTTACGG
65 CTCGTGGTTTAATCCCG-TCATTCCTATGTT-TTAGACTTACGG
* *
2195742 TTTAATCCCAGTCACTTTTATTTTTATAACTTGCGGTTCAGTCCCAGTCTTCGTTAATCTTTGAC
1 TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGTCCCAGTCATCGTTAATCTTTGAC
* ** **
2195807 TCGTGGTTTAATTTCATTCATTCCTATGTTCTT-GACTTATAG
66 TCGTGGTTTAA-TCCCGTCATTCCTATGTT-TTAGACTTACGG
** * * * * * * * *
2195849 TTTAATCTTAGTCACTTCTATTTTTTCTGACTTGTGGTTCAATCCTAATCATTGTTAATCTCTGA
1 TTTAATCCCAGTCACTTTTATTTTTT-TAACTTGCGGTTCAGTCCCAGTCATCGTTAATCTTTGA
* * * * * ** *
2195914 CTCATGGTTTAAACCCAATCATTCTTATAGCTTTTCGACTTGTGA
65 CTCGTGGTTTAATCCC-GTCATTCCTAT-G-TTTTAGACTTACGG
* * * * **
2195959 TTTAATCCTAGTCACTTTTATTTTTCTAACTTGCGGTTCAGTCCTAATTGTCGTTAATCTTTGAC
1 TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGTCCCAGTCATCGTTAATCTTTGAC
* * **
2196024 TCGTGGTTCAATCCCAGTCATTCCTATAGTTACCT-GACTTGTGG
66 TCGTGGTTTAATCCC-GTCATTCCTAT-GTT--TTAGACTTACGG
* * * * * ** * * *
2196068 TTTAGTCTCGGTCATTTTTATTTTTTCTGACTTGCGGTTCAGT-CTTGCTCACCGTTAATCTCTC
1 TTTAATCCCAGTCACTTTTATTTTTT-TAACTTGCGGTTCAGTCCCAG-TCATCGTTAATCTTTG
* * * *
2196132 ACTTGTGGTTTAGTCCCAGTCATTCCTATAGCTCTCT-GACTTATGG
64 ACTCGTGGTTTAATCCC-GTCATTCCTAT-G-T-TTTAGACTTACGG
** * * * * ** * *
2196178 TTTAATCCTGGTCGCTTTTATTCTTTCTAACATACGGTTCAACCCCGGTCATCGTTAATCTCTGA
1 TTTAATCCCAGTCACTTTTATT-TTTTTAACTTGCGGTTCAGTCCCAGTCATCGTTAATCTTTGA
2196243 CAT-GTGGTTTA
65 C-TCGTGGTTTA
2196254 GTCCTGATCA
Statistics
Matches: 1281, Mismatches: 261, Indels: 99
0.78 0.16 0.06
Matches are distributed among these distances:
106 7 0.01
107 450 0.35
108 236 0.18
109 335 0.26
110 245 0.19
111 7 0.01
112 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.44
Consensus pattern (106 bp):
TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGTCCCAGTCATCGTTAATCTTTGAC
TCGTGGTTTAATCCCGTCATTCCTATGTTTTAGACTTACGG
Found at i:2194701 original size:37 final size:36
Alignment explanation
Indices: 2194613--2195577 Score: 162
Period size: 36 Copynumber: 26.8 Consensus size: 36
2194603 GTCATTAATC
* * * * *
2194613 TTTGACTCGTGGTTTAATCCCAGTCATTCCTATGTT
1 TTTGACTTGCGGTTTAATCCCAATCATTCTTATTTT
* *
2194649 TTAGACTTACGGTTTAATCCCAATCACTT-TTATTTTT
1 TTTGACTTGCGGTTTAATCCCAATCA-TTCTTA-TTTT
* *
2194686 TTTGACTTGCGGTTTAATCCCAATCATTGTTA-ATT
1 TTTGACTTGCGGTTTAATCCCAATCATTCTTATTTT
* ** * * **
2194721 TCTGACTTATGGTTTAAACCCGATCATTCCTATAGCTT
1 TTTGACTTGCGGTTTAATCCCAATCATT-CT-TATTTT
* * *
2194759 TTCGACTTACGATTTAATCCCAATCACTT-TTATTTT
1 TTTGACTTGCGGTTTAATCCCAATCA-TTCTTATTTT
* * * * * * * *
2194795 TTTAACTTGTGGCTCAGTCCTAGTCA-TC--ATTGATC
1 TTTGACTTGCGGTTTAATCCCAATCATTCTTATT--TT
** * ** *
2194830 TTTGACTTATGGTTTAATCTCGGTCATTCTTATGTT
1 TTTGACTTGCGGTTTAATCCCAATCATTCTTATTTT
*** * *
2194866 CCAGACTTGAGGTTTAATCCTAATCACTT-TTATTTTT
1 TTTGACTTGCGGTTTAATCCCAATCA-TTCTTA-TTTT
* * *
2194903 TTTGACTTGCGATTTAATCCCAATCATTGTTA-GTT
1 TTTGACTTGCGGTTTAATCCCAATCATTCTTATTTT
* *** * * * * **
2194938 TCTGACTCATGGCTTAAACTCGATCATTCCTATAGCTT
1 TTTGACTTGCGGTTTAATCCCAATCATT-CT-TATTTT
* *
2194976 CTCGACTTGCGGTTTAATCCCAATCACTT-TTATTTT
1 TTTGACTTGCGGTTTAATCCCAATCA-TTCTTATTTT
* * * * * * * *
2195012 TTTAACTTACGATTCAA-CCCTAGTC-GTCGTTA-ATC
1 TTTGACTTGCGGTTTAATCCC-AATCATTC-TTATTTT
*** * ** * *
2195047 TTTGACTCATGGTTTAATCTCGGTCATTCCTATGTT
1 TTTGACTTGCGGTTTAATCCCAATCATTCTTATTTT
*** * *
2195083 CCCGACTTACGGTTTAATCCCAGTCACTT-TTATTTT
1 TTTGACTTGCGGTTTAATCCCAATCA-TTCTTATTTT
* * *** * * * *
2195119 TCTAACTTGCAACTTAGTCCCAGTC-GTCGTTGA--TC
1 TTTGACTTGCGGTTTAATCCCAATCATTC-TT-ATTTT
* * * * * *
2195154 TTTGACTCGTGATTTAATCCCGATCATTCCTATGTT
1 TTTGACTTGCGGTTTAATCCCAATCATTCTTATTTT
* * * *
2195190 CTAGACTTGAGGTTTAATCCCAGTCACTTC-TATTTT
1 TTTGACTTGCGGTTTAATCCCAATCA-TTCTTATTTT
* * * * *
2195226 TTTGACTTGCAGTTTAATCACAATCATTGTTA-ATC
1 TTTGACTTGCGGTTTAATCCCAATCATTCTTATTTT
* * * * * ** **
2195261 TCTGACTCGTGGTTTAAACTCGGTCATTCCTATAGCTT
1 TTTGACTTGCGGTTTAATCCCAATCATT-CT-TATTTT
*** * *
2195299 CCCGACTTGTGGTTTAATCCCAATCATTTTTATTTT
1 TTTGACTTGCGGTTTAATCCCAATCATTCTTATTTT
* * ** * * *
2195335 TTT-ACCTTGCAGTTCAGCCCCAGT--TGTCATTA-ATC
1 TTTGA-CTTGCGGTTTAATCCCAATCAT-TC-TTATTTT
* * ** * * *
2195370 TTTGACTTGTGGTTTAATCTCGGTTATTCCTATGTT
1 TTTGACTTGCGGTTTAATCCCAATCATTCTTATTTT
* * *
2195406 TTTGACTTACGGTTTAATCTCAGTCACTT-TTATTTT
1 TTTGACTTGCGGTTTAATCCCAATCA-TTCTTATTTT
* * * * * ** * * * * *
2195442 TCTAACTTACGGTTCAGTCTTAGTCGTTATTA-ATC
1 TTTGACTTGCGGTTTAATCCCAATCATTCTTATTTT
*** * * *
2195477 TTTGACTCATGGTTTAATCCCGATCATTCCTATGTT
1 TTTGACTTGCGGTTTAATCCCAATCATTCTTATTTT
** * *
2195513 TCAGACTTACGGTTTAATCCCAGTCACTTC-TATTTTT
1 TTTGACTTGCGGTTTAATCCCAATCA-TTCTTA-TTTT
2195550 TTTGACTTGCGGTTTAATCCCAATCATT
1 TTTGACTTGCGGTTTAATCCCAATCATT
2195578 GTTAATCTCT
Statistics
Matches: 641, Mismatches: 238, Indels: 100
0.65 0.24 0.10
Matches are distributed among these distances:
33 3 0.00
34 5 0.01
35 169 0.26
36 290 0.45
37 106 0.17
38 64 0.10
39 4 0.01
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (36 bp):
TTTGACTTGCGGTTTAATCCCAATCATTCTTATTTT
Found at i:2194735 original size:35 final size:35
Alignment explanation
Indices: 2194623--2195022 Score: 130
Period size: 37 Copynumber: 11.0 Consensus size: 35
2194613 TTTGACTCGT
* * *
2194623 GGTTTAATCCCAGTCATTCCTATGTTT-TAGACTTAC
1 GGTTTAATCCCAATCATT-TTATATTTCT-GACTTAC
* * *
2194659 GGTTTAATCCCAATCACTTTTATTTTTTTTGACTTGC
1 GGTTTAATCCCAATCA-TTTTA-TATTTCTGACTTAC
*
2194696 GGTTTAATCCCAATCATTGTTA-ATTTCTGACTTAT
1 GGTTTAATCCCAATCATT-TTATATTTCTGACTTAC
* * *
2194731 GGTTTAAACCCGATCATTCCTATAGCTTT-TCGACTTAC
1 GGTTTAATCCCAATCATT-TTATA--TTTCT-GACTTAC
* * * * **
2194769 GATTTAATCCCAATCACTTTTATTTTTTTAACTTGT
1 GGTTTAATCCCAATCA-TTTTATATTTCTGACTTAC
* * * * * * * *
2194805 GGCTCAGTCCTAGTCATCATTGAT-CTT-TGACTTAT
1 GGTTTAATCCCAATCAT--TTTATATTTCTGACTTAC
* ** * * *
2194840 GGTTTAATCTCGGTCATTCTTATGTTCCAGACTTGA-
1 GGTTTAATCCCAATCATT-TTATATTTCTGACTT-AC
* * * *
2194876 GGTTTAATCCTAATCACTTTTATTTTTTTTGACTTGC
1 GGTTTAATCCCAATCA-TTTTA-TATTTCTGACTTAC
* * * *
2194913 GATTTAATCCCAATCATTGTTA-GTTTCTGACTCAT
1 GGTTTAATCCCAATCATT-TTATATTTCTGACTTAC
* * * * * * *
2194948 GGCTTAAACTCGATCATTCCTATAGCTTCTCGACTTGC
1 GGTTTAATCCCAATCATT-TTATA-TTTCT-GACTTAC
* * *
2194986 GGTTTAATCCCAATCACTTTTATTTTTTTAACTTAC
1 GGTTTAATCCCAATCA-TTTTATATTTCTGACTTAC
2195022 G
1 G
2195023 ATTCAACCCT
Statistics
Matches: 261, Mismatches: 79, Indels: 48
0.67 0.20 0.12
Matches are distributed among these distances:
33 1 0.00
34 3 0.01
35 69 0.26
36 67 0.26
37 72 0.28
38 45 0.17
39 4 0.02
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (35 bp):
GGTTTAATCCCAATCATTTTATATTTCTGACTTAC
Found at i:2194766 original size:73 final size:72
Alignment explanation
Indices: 2194684--2195001 Score: 184
Period size: 73 Copynumber: 4.4 Consensus size: 72
2194674 ACTTTTATTT
*
2194684 TTTTTGACTTGCGGTTTAATCCCAATCATTGTTAATTTCTGACTTATGGTTTAAACCCGATCATT
1 TTTTCGACTTGCGGTTTAATCCCAATCATTGTTAATTTCTGACTTATGGTTTAAACCCGATCATT
2194749 CCTATAGC
66 -CTATAGC
* * * * * * * * ** *
2194757 TTTTCGACTTACGATTTAATCCCAATCACTT-TTATTTTTTTAACTTGTGG-CTCAGTCCTAGTC
1 TTTTCGACTTGCGGTTTAATCCCAATCA-TTGTTA-ATTTCTGACTTATGGTTTAAACCCGA-TC
* *
2194820 A-TC-ATTGA
63 ATTCTATAGC
** * ** * * * **
2194828 TCTTT-GACTTATGGTTTAATCTCGGTCATTCTT-ATGTTCCAGACTTGA-GGTTTAATCCTAAT
1 T-TTTCGACTTGCGGTTTAATCCCAATCATTGTTAAT-TT-CTGACTT-ATGGTTTAAACCCGAT
* **
2194890 CACTTTTAT-TT
62 CA-TTCTATAGC
* * * * * *
2194901 TTTTTGACTTGCGATTTAATCCCAATCATTGTTAGTTTCTGACTCATGGCTTAAACTCGATCATT
1 TTTTCGACTTGCGGTTTAATCCCAATCATTGTTAATTTCTGACTTATGGTTTAAACCCGATCATT
2194966 CCTATAGC
66 -CTATAGC
*
2194974 TTCTCGACTTGCGGTTTAATCCCAATCA
1 TTTTCGACTTGCGGTTTAATCCCAATCA
2195002 CTTTTATTTT
Statistics
Matches: 174, Mismatches: 54, Indels: 34
0.66 0.21 0.13
Matches are distributed among these distances:
69 1 0.01
70 4 0.02
71 36 0.21
72 30 0.17
73 84 0.48
74 19 0.11
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.43
Consensus pattern (72 bp):
TTTTCGACTTGCGGTTTAATCCCAATCATTGTTAATTTCTGACTTATGGTTTAAACCCGATCATT
CTATAGC
Found at i:2194845 original size:217 final size:214
Alignment explanation
Indices: 2194554--2196253 Score: 1385
Period size: 217 Copynumber: 7.9 Consensus size: 214
2194544 CTACTTGCGA
* * * * * *
2194554 TTTAATTCCAGTCACTTTTATTTTTCTAACTTGCAGTTCAGTGAC-AGTCGTCATTAATCTTTGA
1 TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGT-CCTAGTCATCGTTAATCTTTGA
* * ** *
2194618 CTCGTGGTTTAATCCCAGTCATTCCTATGTTTTAGACTTACGGTTTAATCCCAATCACTTTTATT
65 CTCATGGTTTAATCCCGGTCATTCCTATGTTCCAGACTTACGGTTTAATCCCAGTCACTTTTA-T
* **
2194683 TTTTTTGACTTGCGGTTTAATCCCAATCATTGTTAAT-TTCTGACTTATGGTTTAAACCCGATCA
129 TTTTTTAACTTGCGGTTTAATCCCAATCATTGTTAATCTT-TGACTCGTGGTTTAAACCCGATCA
*
2194747 TTCCTATAGCTTTTCGACTTACGA
193 TTCCTAT-G-TTTTCGACTTACGG
* * * * *
2194771 TTTAATCCCAATCACTTTTATTTTTTTAACTTGTGGCTCAGTCCTAGTCATCATTGATCTTTGAC
1 TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGTCCTAGTCATCGTTAATCTTTGAC
* * * * *
2194836 TTATGGTTTAATCTCGGTCATTCTTATGTTCCAGACTTGA-GGTTTAATCCTAATCACTTTTATT
66 TCATGGTTTAATCCCGGTCATTCCTATGTTCCAGACTT-ACGGTTTAATCCCAGTCACTTTTA-T
* * * * * *
2194900 TTTTTTGACTTGCGATTTAATCCCAATCATTGTTAGT-TTCTGACTCATGGCTTAAACTCGATCA
129 TTTTTTAACTTGCGGTTTAATCCCAATCATTGTTAATCTT-TGACTCGTGGTTTAAACCCGATCA
* *
2194964 TTCCTATAGCTTCTCGACTTGCGG
193 TTCCTAT-G-TTTTCGACTTACGG
* * * ** *
2194988 TTTAATCCCAATCACTTTTATTTTTTTAACTTACGATTCAACCCTAGTCGTCGTTAATCTTTGAC
1 TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGTCCTAGTCATCGTTAATCTTTGAC
* *
2195053 TCATGGTTTAATCTCGGTCATTCCTATGTTCCCGACTTACGGTTTAATCCCAGTCACTTTTATTT
66 TCATGGTTTAATCCCGGTCATTCCTATGTTCCAGACTTACGGTTTAATCCCAGTCACTTTTATTT
* *** * * * * * * *
2195118 TTCTAACTTGCAACTTAGTCCCAGTCGTCGTTGATCTTTGACTCGTGATTTAATCCCGATCATTC
131 TTTTAACTTGCGGTTTAATCCCAATCATTGTTAATCTTTGACTCGTGGTTTAAACCCGATCATTC
* *
2195183 CTATGTTCTAGACTTGA-GG
196 CTATGTTTTCGACTT-ACGG
* * * * * * * *
2195202 TTTAATCCCAGTCACTTCTATTTTTTTGACTTGCAGTTTAATCAC-AATCATTGTTAATCTCTGA
1 TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGTC-CTAGTCATCGTTAATCTTTGA
* * * * ** * *
2195266 CTCGTGGTTTAAACTCGGTCATTCCTATAGCTTCCCGACTTGTGGTTTAATCCCAATCATTTTTA
65 CTCATGGTTTAATCCCGGTCATTCCTAT-G-TTCCAGACTTACGGTTTAATCCCAGTCACTTTTA
* * * ** * ** ** * * * * *
2195331 TTTTTTTACCTTGCAGTTCAGCCCCAGTTGTCATTAATCTTTGACTTGTGGTTTAATCTCGGTTA
128 TTTTTTTAACTTGCGGTTTAATCCCAATCATTGTTAATCTTTGACTCGTGGTTTAAACCCGATCA
*
2195396 TTCCTATGTTTTTGACTTACGG
193 TTCCTATGTTTTCGACTTACGG
* * * * * **
2195418 TTTAATCTCAGTCACTTTTATTTTTCTAACTTACGGTTCAGTCTTAGTCGTTATTAATCTTTGAC
1 TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGTCCTAGTCATCGTTAATCTTTGAC
* * *
2195483 TCATGGTTTAATCCCGATCATTCCTATGTTTCAGACTTACGGTTTAATCCCAGTCACTTCTATTT
66 TCATGGTTTAATCCCGGTCATTCCTATGTTCCAGACTTACGGTTTAATCCCAGTCACTTTTA-TT
* *
2195548 TTTTTGACTTGCGGTTTAATCCCAATCATTGTTAATCTCTGACTCGTGGTTTAAACCCGATCATT
130 TTTTTAACTTGCGGTTTAATCCCAATCATTGTTAATCTTTGACTCGTGGTTTAAACCCGATCATT
**
2195613 CCTATAACTTTCTGACTTACGG
195 CCTAT-GTTTTC-GACTTACGG
* * * * *
2195635 TTTAATCACAGTTACTTTTATTTTTCTAACTTGCGATTCAGCCCTAGTCATCGTTAATCTTTGAC
1 TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGTCCTAGTCATCGTTAATCTTTGAC
** ** * *
2195700 TTGTGGTTTAATCTTGATCATTCCTATATTCCTA-ACTTACGGTTTAATCCCAGTCACTTTTATT
66 TCATGGTTTAATCCCGGTCATTCCTATGTTCC-AGACTTACGGTTTAATCCCAGTCACTTTTATT
* * * * ***
2195764 TTTATAACTTGCGGTTCAGTCCCAGTC-TTCGTTAATCTTTGACTCGTGGTTTAATTTC-ATTCA
130 TTTTTAACTTGCGGTTTAATCCCAATCATT-GTTAATCTTTGACTCGTGGTTTAAACCCGA-TCA
**
2195827 TTCCTATGTTCTT-GACTTATAG
193 TTCCTATGTT-TTCGACTTACGG
** * * * * * * *
2195849 TTTAATCTTAGTCACTTCTATTTTTTCTGACTTGTGGTTCAATCCTAATCATTGTTAATCTCTGA
1 TTTAATCCCAGTCACTTTTATTTTTT-TAACTTGCGGTTCAGTCCTAGTCATCGTTAATCTTTGA
* ** * * ** * *
2195914 CTCATGGTTTAAACCCAATCATTCTTATAGCTTTTC-GACTTGTGATTTAATCCTAGTCACTTTT
65 CTCATGGTTTAATCCCGGTCATTCCTAT-G--TTCCAGACTTACGGTTTAATCCCAGTCACTTTT
* * * * ** * * *
2195978 ATTTTTCTAACTTGCGGTTCAGTCCTAATTGTCGTTAATCTTTGACTCGTGGTTCAATCCC-AGT
127 ATTTTTTTAACTTGCGGTTTAATCCCAATCATTGTTAATCTTTGACTCGTGGTTTAAACCCGA-T
** **
2196042 CATTCCTATAGTTACCTGACTTGTGG
191 CATTCCTAT-GTTTTC-GACTTACGG
* * * * * * * * *
2196068 TTTAGTCTCGGTCATTTTTATTTTTTCTGACTTGCGGTTCAGT-CTTGCTCACCGTTAATCTCTC
1 TTTAATCCCAGTCACTTTTATTTTTT-TAACTTGCGGTTCAGTCCTAG-TCATCGTTAATCTTTG
** * * * * * ** *
2196132 ACTTGTGGTTTAGTCCCAGTCATTCCTATAGCTCTCTGACTTATGGTTTAATCCTGGTCGCTTTT
64 ACTCATGGTTTAATCCCGGTCATTCCTAT-GTTC-CAGACTTACGGTTTAATCCCAGTCACTTTT
* * * * * ** * *
2196197 ATTCTTTCTAACATACGGTTCAACCCCGGTCATCGTTAATCTCTGACAT-GTGGTTTA
127 ATT-TTTTTAACTTGCGGTTTAATCCCAATCATTGTTAATCTTTGAC-TCGTGGTTTA
2196254 GTCCTGATCA
Statistics
Matches: 1215, Mismatches: 237, Indels: 59
0.80 0.16 0.04
Matches are distributed among these distances:
214 142 0.12
215 115 0.09
216 292 0.24
217 505 0.42
218 12 0.01
219 108 0.09
220 40 0.03
221 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.44
Consensus pattern (214 bp):
TTTAATCCCAGTCACTTTTATTTTTTTAACTTGCGGTTCAGTCCTAGTCATCGTTAATCTTTGAC
TCATGGTTTAATCCCGGTCATTCCTATGTTCCAGACTTACGGTTTAATCCCAGTCACTTTTATTT
TTTTAACTTGCGGTTTAATCCCAATCATTGTTAATCTTTGACTCGTGGTTTAAACCCGATCATTC
CTATGTTTTCGACTTACGG
Found at i:2195118 original size:324 final size:324
Alignment explanation
Indices: 2194607--2196111 Score: 1661
Period size: 324 Copynumber: 4.6 Consensus size: 324
2194597 ACAGTCGTCA
* * * * * *
2194607 TTAATCTTTGACTCGTGGTTTAATCCC-AGTCATTCCTAT-G-TTTTAGACTTACGGTTTAATCC
1 TTAATCTCTGACTCATGGTTTAAACCCGA-TCATTCCTATAGCTTCTCGACTTGCGGTTTAATCC
* * * * * * * *
2194669 CAATCACTTTTATTTTTTTTGACTTGCGGTTTAATCCC-AATCATTGTTAAT-TTCTGACTTATG
65 CAATCACTTTTA-TTTTTTTAACTTGC-GATTCAGCCCTAGTCGTCGTTAATCTT-TGACTTGTG
* * * * * *
2194732 GTTTAAACCCGATCATTCCTATAGCTT-TTCGACTTACGATTTAATCCCAATCACTTTTATTTTT
127 GTTTAATCTCGGTCATTCCTAT-G-TTCCT-GACTTACGGTTTAATCCCAGTCACTTTTATTTTT
* * * * * * * * * *
2194796 TTAACTTGTGGCTCAGTCCTAGTCATCATTGATCTTTGACTTATGGTTTAATCTCGGTCATTCTT
189 CTAACTTGCGGTTCAGTCCCAGTCGTCATTAATCTTTGACTCATGGTTTAATCCCGATCATTCCT
* * *
2194861 ATGTTCCAGACTTGA-GGTTTAATCCTAATCACTTTTATTTTTTTTGACTTGCGATTTAATCCCA
254 ATGTTCCAGACTT-ACGGTTTAATCCCAGTCACTTCTATTTTTTTTGACTTGCGATTTAATCCCA
2194925 ATCATTG
318 ATCATTG
* * * *
2194932 TTAGTTTCTGACTCATGGCTTAAACTCGATCATTCCTATAGCTTCTCGACTTGCGGTTTAATCCC
1 TTAATCTCTGACTCATGGTTTAAACCCGATCATTCCTATAGCTTCTCGACTTGCGGTTTAATCCC
* * **
2194997 AATCACTTTTATTTTTTTAACTTACGATTCAACCCTAGTCGTCGTTAATCTTTGACTCATGGTTT
66 AATCACTTTTATTTTTTTAACTTGCGATTCAGCCCTAGTCGTCGTTAATCTTTGACTTGTGGTTT
*
2195062 AATCTCGGTCATTCCTATGTTCCCGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTT
131 AATCTCGGTCATTCCTATGTTCCTGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTT
** * * * *
2195127 GCAACTT-AGTCCCAGTCGTCGTTGATCTTTGACTCGTGATTTAATCCCGATCATTCCTATGTTC
196 GC-GGTTCAGTCCCAGTCGTCATTAATCTTTGACTCATGGTTTAATCCCGATCATTCCTATGTTC
* *
2195191 TAGACTTGA-GGTTTAATCCCAGTCACTTCTA-TTTTTTTGACTTGC-AGTTTAATCACAATCAT
260 CAGACTT-ACGGTTTAATCCCAGTCACTTCTATTTTTTTTGACTTGCGA-TTTAATCCCAATCAT
2195253 TG
323 TG
* * * * *
2195255 TTAATCTCTGACTCGTGGTTTAAACTCGGTCATTCCTATAGCTTCCCGACTTGTGGTTTAATCCC
1 TTAATCTCTGACTCATGGTTTAAACCCGATCATTCCTATAGCTTCTCGACTTGCGGTTTAATCCC
* * * * *
2195320 AATCATTTTTATTTTTTTACCTTGC-AGTTCAGCCCCAGTTGTCATTAATCTTTGACTTGTGGTT
66 AATCACTTTTATTTTTTTAACTTGCGA-TTCAGCCCTAGTCGTCGTTAATCTTTGACTTGTGGTT
* ** *
2195384 TAATCTCGGTTATTCCTATGTTTTTGACTTACGGTTTAATCTCAGTCACTTTTATTTTTCTAACT
130 TAATCTCGGTCATTCCTATGTTCCTGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACT
* ** * *
2195449 TACGGTTCAGTCTTAGTCGTTATTAATCTTTGACTCATGGTTTAATCCCGATCATTCCTATGTTT
195 TGCGGTTCAGTCCCAGTCGTCATTAATCTTTGACTCATGGTTTAATCCCGATCATTCCTATGTTC
*
2195514 CAGACTTACGGTTTAATCCCAGTCACTTCTATTTTTTTTGACTTGCGGTTTAATCCCAATCATTG
260 CAGACTTACGGTTTAATCCCAGTCACTTCTATTTTTTTTGACTTGCGATTTAATCCCAATCATTG
* * * *
2195579 TTAATCTCTGACTCGTGGTTTAAACCCGATCATTCCTATAACTT-TCTGACTTACGGTTTAATCA
1 TTAATCTCTGACTCATGGTTTAAACCCGATCATTCCTATAGCTTCTC-GACTTGCGGTTTAATCC
* * * *
2195643 CAGTTACTTTTATTTTTCTAACTTGCGATTCAGCCCTAGTCATCGTTAATCTTTGACTTGTGGTT
65 CAATCACTTTTATTTTTTTAACTTGCGATTCAGCCCTAGTCGTCGTTAATCTTTGACTTGTGGTT
* * * * *
2195708 TAATCTTGATCATTCCTATATTCCTAACTTACGGTTTAATCCCAGTCACTTTTATTTTTATAACT
130 TAATCTCGGTCATTCCTATGTTCCTGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACT
* * * **
2195773 TGCGGTTCAGTCCCAGTCTTCGTTAATCTTTGACTCGTGGTTTAATTTC-ATTCATTCCTATGTT
195 TGCGGTTCAGTCCCAGTCGTCATTAATCTTTGACTCATGGTTTAATCCCGA-TCATTCCTATGTT
** ** ** * * * * *
2195837 CTTGACTTATAGTTTAATCTTAGTCACTTCTATTTTTTCTGACTTGTGGTTCAATCCTAATCATT
259 CCAGACTTACGGTTTAATCCCAGTCACTTCTATTTTTTTTGACTTGCGATTTAATCCCAATCATT
2195902 G
324 G
* * * * * *
2195903 TTAATCTCTGACTCATGGTTTAAACCCAATCATTCTTATAGCTTTTCGACTTGTGATTTAATCCT
1 TTAATCTCTGACTCATGGTTTAAACCCGATCATTCCTATAGCTTCTCGACTTGCGGTTTAATCCC
* * * * * * * *
2195968 AGTCACTTTTATTTTTCTAACTTGCGGTTCAGTCCTAATTGTCGTTAATCTTTGACTCGTGGTTC
66 AATCACTTTTATTTTTTTAACTTGCGATTCAGCCCTAGTCGTCGTTAATCTTTGACTTGTGGTTT
* * ** * * * * *
2196033 AATCCCAGTCATTCCTATAGTTACCTGACTTGTGGTTTAGTCTCGGTCATTTTTATTTTTTCTGA
131 AATCTCGGTCATTCCTAT-GTT-CCTGACTTACGGTTTAATCCCAGTCACTTTTA-TTTTTCTAA
2196098 CTTGCGGTTCAGTC
193 CTTGCGGTTCAGTC
2196112 TTGCTCACCG
Statistics
Matches: 1004, Mismatches: 156, Indels: 38
0.84 0.13 0.03
Matches are distributed among these distances:
322 5 0.00
323 282 0.28
324 543 0.54
325 44 0.04
326 76 0.08
327 54 0.05
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (324 bp):
TTAATCTCTGACTCATGGTTTAAACCCGATCATTCCTATAGCTTCTCGACTTGCGGTTTAATCCC
AATCACTTTTATTTTTTTAACTTGCGATTCAGCCCTAGTCGTCGTTAATCTTTGACTTGTGGTTT
AATCTCGGTCATTCCTATGTTCCTGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTT
GCGGTTCAGTCCCAGTCGTCATTAATCTTTGACTCATGGTTTAATCCCGATCATTCCTATGTTCC
AGACTTACGGTTTAATCCCAGTCACTTCTATTTTTTTTGACTTGCGATTTAATCCCAATCATTG
Found at i:2195914 original size:35 final size:36
Alignment explanation
Indices: 2195874--2196037 Score: 91
Period size: 35 Copynumber: 4.6 Consensus size: 36
2195864 TTCTATTTTT
2195874 TCTGACTTGTGGTTCAATCCTAATCATTGTTA-ATC
1 TCTGACTTGTGGTTCAATCCTAATCATTGTTATATC
** * * * * *
2195909 TCTGACTCATGGTTTAAACCCAATCATTCTTATAGC
1 TCTGACTTGTGGTTCAATCCTAATCATTGTTATATC
* * * * * *
2195945 TTTTCGACTTGTGATTTAATCCTAGTCACTT-TTATTTT
1 -TCT-GACTTGTGGTTCAATCCTAATCA-TTGTTATATC
* * * ** *
2195983 TCTAACTTGCGGTTCAGTCCTAATTGTCGTTA-ATC
1 TCTGACTTGTGGTTCAATCCTAATCATTGTTATATC
* *
2196018 TTTGACTCGTGGTTCAATCC
1 TCTGACTTGTGGTTCAATCC
2196038 CAGTCATTCC
Statistics
Matches: 90, Mismatches: 34, Indels: 10
0.67 0.25 0.07
Matches are distributed among these distances:
35 43 0.48
36 20 0.22
37 4 0.04
38 21 0.23
39 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (36 bp):
TCTGACTTGTGGTTCAATCCTAATCATTGTTATATC
Found at i:2196364 original size:36 final size:35
Alignment explanation
Indices: 2196286--2196373 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 35
2196276 CCTAGCTCGT
*
2196286 GATTTAATCTTAGTCACTTTTATTTTCTTGACTTA
1 GATTTAATCTTAGTCACTTTTATTTTCTTCACTTA
* * *
2196321 TAGTTTAATCCTAGTCACTTTTATTTT-TCTCACTTGC
1 GA-TTTAATCTTAGTCACTTTTATTTTCT-TCACTT-A
2196358 GATTTAATCTTAGTCA
1 GATTTAATCTTAGTCA
2196374 TCCTTATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
35 2 0.05
36 41 0.93
37 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.09, T:0.51
Consensus pattern (35 bp):
GATTTAATCTTAGTCACTTTTATTTTCTTCACTTA
Found at i:2196681 original size:15 final size:15
Alignment explanation
Indices: 2196663--2196708 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
2196653 TTTAATGAAT
*
2196663 ATAAAAAAATAAATA
1 ATAAAAAAATAAAAA
*
2196678 ATAAAAATATAAAAA
1 ATAAAAAAATAAAAA
2196693 ATAATAAAAATAAAAA
1 ATAA-AAAAATAAAAA
2196709 TGATAACTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 17 0.63
16 10 0.37
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
ATAAAAAAATAAAAA
Found at i:2196696 original size:18 final size:17
Alignment explanation
Indices: 2196660--2196708 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
2196650 TGATTTAATG
*
2196660 AATATAAAA-AAATAAAT
1 AATA-AAAATAAAAAAAT
2196677 AATAAAAATATAAAAAAT
1 AATAAAAATA-AAAAAAT
2196695 AATAAAAATAAAAA
1 AATAAAAATAAAAA
2196709 TGATAACTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 4 0.14
17 9 0.31
18 16 0.55
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AATAAAAATAAAAAAAT
Found at i:2196703 original size:9 final size:9
Alignment explanation
Indices: 2196673--2196705 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
2196663 ATAAAAAAAT
2196673 AAATAATAA
1 AAATAATAA
2196682 AAAT-ATAAA
1 AAATAAT-AA
2196691 AAATAATAA
1 AAATAATAA
2196700 AAATAA
1 AAATAA
2196706 AAATGATAAC
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:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAATAATAA
Found at i:2196714 original size:9 final size:8
Alignment explanation
Indices: 2196660--2196714 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
2196650 TGATTTAATG
2196660 AATATAAA
1 AATATAAA
*
2196668 AAAATAAA
1 AATATAAA
*
2196676 TA-ATAAA
1 AATATAAA
2196683 AATATAAA
1 AATATAAA
2196691 AA-ATAATA
1 AATATAA-A
*
2196699 AAAATAAA
1 AATATAAA
2196707 AATGATAA
1 AAT-ATAA
2196715 CTGATAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 10 0.26
8 21 0.54
9 8 0.21
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (8 bp):
AATATAAA
Found at i:2196714 original size:18 final size:18
Alignment explanation
Indices: 2196673--2196708 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2196663 ATAAAAAAAT
2196673 AAATAATAAAAATATAAA
1 AAATAATAAAAATATAAA
2196691 AAATAATAAAAATA-AAA
1 AAATAATAAAAATATAAA
2196708 A
1 A
2196709 TGATAACTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (18 bp):
AAATAATAAAAATATAAA
Found at i:2196721 original size:25 final size:24
Alignment explanation
Indices: 2196660--2196714 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
2196650 TGATTTAATG
2196660 AATAT-AAAAA-AATAAATAATAAA
1 AATATAAAAAATAATAAA-AATAAA
2196683 AATATAAAAAATAATAAAAATAAA
1 AATATAAAAAATAATAAAAATAAA
2196707 AATGATAA
1 AAT-ATAA
2196715 CTGATAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.17
24 14 0.48
25 10 0.34
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (24 bp):
AATATAAAAAATAATAAAAATAAA
Found at i:2197761 original size:21 final size:21
Alignment explanation
Indices: 2197732--2197771 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2197722 TTTTATATAT
2197732 TATTATTTTTGTTAT-TTTAAG
1 TATTATTTTT-TTATATTTAAG
*
2197753 TATTTTTTTTTTATATTTA
1 TATTATTTTTTTATATTTA
2197772 TGCATGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (21 bp):
TATTATTTTTTTATATTTAAG
Found at i:2198158 original size:15 final size:14
Alignment explanation
Indices: 2198140--2198213 Score: 60
Period size: 15 Copynumber: 5.0 Consensus size: 14
2198130 ATACTAATTT
2198140 CTAAAATCCAGAATC
1 CTAAAATCCA-AATC
*
2198155 CTAAAATCCAAACCC
1 CTAAAATCCAAA-TC
2198170 CTAAAATCCAAAATC
1 CTAAAATCC-AAATC
* * *
2198185 TCTCAAA-CTAAAACC
1 -CTAAAATC-CAAATC
2198200 CTAAAATCCAAATC
1 CTAAAATCCAAATC
2198214 TTTAAAATCT
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
14 11 0.24
15 27 0.59
16 8 0.17
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (14 bp):
CTAAAATCCAAATC
Found at i:2198174 original size:30 final size:30
Alignment explanation
Indices: 2198140--2198222 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
2198130 ATACTAATTT
*
2198140 CTAAAATCCAGAATC-CTAAAATCCAAACCC
1 CTAAAATCCA-AATCTCTAAAATCCAAAACC
* *
2198170 CTAAAATCCAAAATCTCTCAAA-CTAAAACC
1 CTAAAATCC-AAATCTCTAAAATCCAAAACC
*
2198200 CTAAAATCCAAATCTTTAAAATC
1 CTAAAATCCAAATCTCTAAAATC
2198223 TTAAAATCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
29 10 0.22
30 29 0.64
31 6 0.13
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (30 bp):
CTAAAATCCAAATCTCTAAAATCCAAAACC
Found at i:2205598 original size:6 final size:6
Alignment explanation
Indices: 2205587--2205611 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2205577 TTATTAATTT
2205587 TTTATA TTTATA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA T
2205612 AAATTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:2205669 original size:20 final size:19
Alignment explanation
Indices: 2205643--2205686 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
2205633 ATTTTTATTT
2205643 TATAAAAATT-TAAAATATA
1 TATAAAAATTATAAAA-ATA
2205662 TATAAAAATTAATAAAAATA
1 TATAAAAATT-ATAAAAATA
2205682 TATAA
1 TATAA
2205687 TTTTATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.43
20 8 0.35
21 5 0.22
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TATAAAAATTATAAAAATA
Found at i:2205818 original size:21 final size:21
Alignment explanation
Indices: 2205794--2205836 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2205784 TATTCTACAT
2205794 TTTGAATAGATTTTTCTCACC
1 TTTGAATAGATTTTTCTCACC
2205815 TTTGAATAGATTTTTCTCACC
1 TTTGAATAGATTTTTCTCACC
2205836 T
1 T
2205837 CTACTGTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (21 bp):
TTTGAATAGATTTTTCTCACC
Found at i:2220105 original size:334 final size:332
Alignment explanation
Indices: 2219252--2220189 Score: 1213
Period size: 333 Copynumber: 2.8 Consensus size: 332
2219242 TACAGAAGGC
* * *** *
2219252 GTTTGTTAGA-AACAAACGGCTTCAAAATTTTCTCACTAAATATTTTGGGAATTACTAAAGGTAT
1 GTTTGTTA-ATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTAAAAATTATTAAAGGTAT
* * *
2219316 TTTCTACTGTAAAATACCTTTTATATACCACTACATATATTGTAACACTGTTATTGAAGGCGTAT
65 TTTCTATTGTAAAATACCTTTTATATACCGCTACACATATTGTAACACTGTTATTGAAGGCGTAT
** * *
2219381 ATTTAAGATAAACACCTTTAATAATTCCTATCACAGTTTGTATATAATTACTGAAGGCGATTTTA
130 ATTTAAGATAAATGCCTTTAATAATTCTTATCACAGTTTGTATATAATTACTGAAGGCGATTTCA
* *
2219446 GATAACAACGCCTTCAATAATTTTCCTAATAAAAGCTTTCAGGATTATTAAAAGCGTCTTTTATT
195 AATAACAACGCCTTCAATAATTTTTCTAATAAAAGCTTTCAGGATTATTAAAAGCGTCTTTTATT
* * * ** *
2219511 ATAAGTCGCCTTCGATATACTACGATGGTAATCGAAGGCGAGTAGTAGAAAATGTGCCTTCCATT
260 ATAAGCCGCCTTCGATATACCACGATGGTAATCGAA-GCGAGTAGTAGAAAAAGCACCTTCAATT
2219576 ACTGAAAGT
324 ACTGAAAGT
* * ***
2219585 TTTTGTTAATAACAGACGCTTTCAAAATTTTCTCACTAAATATTTTAAAAATTATTAAAAACA-T
1 GTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTAAAAATTATTAAAGGTATT
* * * * * *
2219649 TTCTATTGTAAAATACCTTCTATATACTGTTACACATATTGTAACATTGTTATTGAATGTGTATA
66 TTCTATTGTAAAATACCTTTTATATACCGCTACACATATTGTAACACTGTTATTGAAGGCGTATA
* * *
2219714 TTTAAGATAGATGCCTTTAATAATT-TCTATTCACAGTTTATATATAATTACTGAAGGCGGTTTC
131 TTTAAGATAAATGCCTTTAATAATTCT-TA-TCACAGTTTGTATATAATTACTGAAGGCGATTTC
* *
2219778 AAATAAAAACGCCTTCAATAATTTTTCTAATAAAAGTTTTCAGGATTATTAAATA-CGTCTTTTA
194 AAATAACAACGCCTTCAATAATTTTTCTAATAAAAGCTTTCAGGATTATTAAA-AGCGTCTTTTA
* * * * *
2219842 TTATAAGCCGCCTTCGATATACCAGGATGGTAATTGAA-CATATGTTATTAGAAAAAGCACCTTT
258 TTATAAGCCGCCTTCGATATACCACGATGGTAATCGAAGC-GA-G-TAGTAGAAAAAGCACCTTC
*
2219906 AATTACTGAAGGT
320 AATTACTGAAAGT
* * *
2219919 GTTTGTTAATAATAGATGCCTTCAAAATTTTCTCACTAAATATTTTAAAAATTATTAAAGGTGTT
1 GTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTAAAAATTATTAAAGGTATT
*
2219984 TTCTATTGTAAAATACCTTTTATATACCGCTACACATATTGTAACACTATTATTGAAGGCGTATA
66 TTCTATTGTAAAATACCTTTTATATACCGCTACACATATTGTAACACTGTTATTGAAGGCGTATA
*
2220049 TTTAAGATAAATGCCTTTAATAATTCTTATCACAATTTGTATATAATTACTGAAGGCGATTTCAA
131 TTTAAGATAAATGCCTTTAATAATTCTTATCACAGTTTGTATATAATTACTGAAGGCGATTTCAA
* * * * ** ** * * * *
2220114 ATAACAATGCCTTTAAT-ATTTTTCCAAAAAAAAATTTTTGAATTATTAAAGGCATCTTTAATTA
196 ATAACAACGCCTTCAATAATTTTTCTAATAAAAGCTTTCAGGATTATTAAAAGCGTCTTTTATTA
*
2220178 TAAGCCACCTTC
261 TAAGCCGCCTTC
2220190 AATAATTTGT
Statistics
Matches: 519, Mismatches: 76, Indels: 20
0.84 0.12 0.03
Matches are distributed among these distances:
331 1 0.00
332 83 0.16
333 221 0.43
334 128 0.25
335 85 0.16
336 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (332 bp):
GTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTAAAAATTATTAAAGGTATT
TTCTATTGTAAAATACCTTTTATATACCGCTACACATATTGTAACACTGTTATTGAAGGCGTATA
TTTAAGATAAATGCCTTTAATAATTCTTATCACAGTTTGTATATAATTACTGAAGGCGATTTCAA
ATAACAACGCCTTCAATAATTTTTCTAATAAAAGCTTTCAGGATTATTAAAAGCGTCTTTTATTA
TAAGCCGCCTTCGATATACCACGATGGTAATCGAAGCGAGTAGTAGAAAAAGCACCTTCAATTAC
TGAAAGT
Found at i:2227196 original size:2 final size:2
Alignment explanation
Indices: 2227189--2227237 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
2227179 TGCCTAAATC
2227189 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2227231 T- TA TA TA
1 TA TA TA TA
2227238 CTAACATACA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2228964 original size:15 final size:16
Alignment explanation
Indices: 2228942--2228978 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
2228932 TGATCAAAAG
*
2228942 TATAATTTTTTTAATT
1 TATAATTTTTTAAATT
2228958 T-TAATTTTTTAAATT
1 TATAATTTTTTAAATT
2228973 TATAAT
1 TATAAT
2228979 ATCACGTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATAATTTTTTAAATT
Found at i:2229825 original size:22 final size:23
Alignment explanation
Indices: 2229781--2229828 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2229771 CATTTCCTAC
**
2229781 ATATAAATTTTTATATATTTAAT
1 ATATAAATTTTTATATAAATAAT
*
2229804 ATATAGATTTTTAT-TAAATAAT
1 ATATAAATTTTTATATAAATAAT
2229826 ATA
1 ATA
2229829 AATTATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
ATATAAATTTTTATATAAATAAT
Found at i:2229837 original size:20 final size:19
Alignment explanation
Indices: 2229791--2229838 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
2229781 ATATAAATTT
* *
2229791 TTATATATTTAATATATAGA
1 TTAT-TATTAAATATATAAA
*
2229811 TTTTTATTAAATAATATAAA
1 TTATTATTAAAT-ATATAAA
2229831 TTATTATT
1 TTATTATT
2229839 TTAAATTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TTATTATTAAATATATAAA
Found at i:2235635 original size:20 final size:20
Alignment explanation
Indices: 2235610--2235650 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2235600 GCTGCTTAGC
2235610 TCTATATGTTCTATAAAAAT
1 TCTATATGTTCTATAAAAAT
*
2235630 TCTATATGTTCTATGAAAAT
1 TCTATATGTTCTATAAAAAT
2235650 T
1 T
2235651 TGTTTTAGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (20 bp):
TCTATATGTTCTATAAAAAT
Found at i:2236003 original size:2 final size:2
Alignment explanation
Indices: 2235996--2236023 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2235986 TGTATGTATG
2235996 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
2236024 AAAGGCATCT
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):
TA
Found at i:2240305 original size:23 final size:23
Alignment explanation
Indices: 2240255--2240306 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
2240245 ATTTTTAATT
*
2240255 TTTTTCAATCATAACTACAATAA
1 TTTTTCAATCACAACTACAATAA
*
2240278 TTTTTCGAATCACAATTACAATAA
1 TTTTTC-AATCACAACTACAATAA
2240302 TTTTT
1 TTTTT
2240307 TTTTTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTTTCAATCACAACTACAATAA
Found at i:2241964 original size:23 final size:23
Alignment explanation
Indices: 2241930--2241982 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
2241920 CAAATTAAGG
2241930 ATTTTGATTTTGAAATTAATTTT
1 ATTTTGATTTTGAAATTAATTTT
*
2241953 ATTTT-ATATTTG-AATTTATTTT
1 ATTTTGAT-TTTGAAATTAATTTT
*
2241975 -TTTAGATT
1 ATTTTGATT
2241983 CAAATTATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 4 0.15
22 13 0.50
23 9 0.35
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (23 bp):
ATTTTGATTTTGAAATTAATTTT
Found at i:2242412 original size:12 final size:12
Alignment explanation
Indices: 2242392--2242425 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2242382 TTATTCATTT
2242392 TTAATTTTTTAA
1 TTAATTTTTTAA
* *
2242404 TTTATTTTTTAG
1 TTAATTTTTTAA
2242416 TTAATTTTTT
1 TTAATTTTTT
2242426 TTGTAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TTAATTTTTTAA
Found at i:2248057 original size:25 final size:26
Alignment explanation
Indices: 2248016--2248075 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
2248006 AATTTTTTAT
2248016 TAAATTTTTTTTCAATTACAATTACAA
1 TAAA-TTTTTTTCAATTACAATTACAA
* *
2248043 TAAATTTTTTT-AATTATAATTATAA
1 TAAATTTTTTTCAATTACAATTACAA
2248068 T-AATTTTT
1 TAAATTTTT
2248076 ATTACTGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 7 0.23
25 13 0.42
26 7 0.23
27 4 0.13
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (26 bp):
TAAATTTTTTTCAATTACAATTACAA
Found at i:2248792 original size:7 final size:7
Alignment explanation
Indices: 2248776--2248820 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
2248766 TTTATTCAAA
2248776 TAAAACT
1 TAAAACT
*
2248783 TAAAAGT
1 TAAAACT
2248790 TAAAACT
1 TAAAACT
*
2248797 TTAAA--
1 TAAAACT
2248802 TAAAACT
1 TAAAACT
2248809 TAAAACT
1 TAAAACT
2248816 TAAAA
1 TAAAA
2248821 AATGACGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 4 0.12
7 28 0.88
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (7 bp):
TAAAACT
Found at i:2249340 original size:16 final size:17
Alignment explanation
Indices: 2249307--2249342 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2249297 TATTTAATAT
*
2249307 TAAAATTAAATTTTTTA
1 TAAAATTAAATATTTTA
2249324 TAAAATTAAA-ATTTTA
1 TAAAATTAAATATTTTA
2249340 TAA
1 TAA
2249343 TTGTTAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATTAAATATTTTA
Found at i:2268004 original size:20 final size:21
Alignment explanation
Indices: 2267975--2268029 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
2267965 TTTAAATTTC
*
2267975 ATAATTTAAAAT-ATAATATA
1 ATAATATAAAATAATAATATA
2267995 ATAATATAAAATAAATAATATA
1 ATAATATAAAAT-AATAATATA
*
2268017 A-AA-ATAATATAAT
1 ATAATATAAAATAAT
2268030 TTAAAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 3 0.10
20 17 0.55
21 2 0.06
22 9 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAATATAAAATAATAATATA
Found at i:2268013 original size:14 final size:14
Alignment explanation
Indices: 2267984--2268036 Score: 63
Period size: 15 Copynumber: 3.7 Consensus size: 14
2267974 CATAATTTAA
*
2267984 AATATAATAT-AAT
1 AATATAAAATAAAT
2267997 AATATAAAATAAAT
1 AATATAAAATAAAT
2268011 AATATAAAAATAATAT
1 AATAT-AAAATAA-AT
*
2268027 AATTTAAAAT
1 AATATAAAAT
2268037 TTTAAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 9 0.26
14 8 0.23
15 12 0.34
16 6 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AATATAAAATAAAT
Found at i:2268015 original size:22 final size:20
Alignment explanation
Indices: 2267975--2268022 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
2267965 TTTAAATTTC
*
2267975 ATAATTTAAAATATAATATA
1 ATAATATAAAATATAATATA
2267995 ATAATATAAAATAAATAATATA
1 ATAATATAAAAT--ATAATATA
*
2268017 AAAATA
1 ATAATA
2268023 ATATAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 11 0.46
22 13 0.54
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAATATAAAATATAATATA
Found at i:2268034 original size:25 final size:26
Alignment explanation
Indices: 2267975--2268035 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
2267965 TTTAAATTTC
2267975 ATAATTT-AAAATATAATATAATAAT
1 ATAATTTAAAAATATAATATAATAAT
**
2268000 ATAAAATAAATAATATAA-A-AATAAT
1 ATAATTTAAA-AATATAATATAATAAT
2268025 ATAATTTAAAA
1 ATAATTTAAAA
2268036 TTTTAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
24 1 0.03
25 19 0.63
26 3 0.10
27 7 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (26 bp):
ATAATTTAAAAATATAATATAATAAT
Found at i:2268043 original size:38 final size:37
Alignment explanation
Indices: 2267984--2268078 Score: 95
Period size: 38 Copynumber: 2.5 Consensus size: 37
2267974 CATAATTTAA
*
2267984 AATATAATATAATAA-TATAAAATAA-ATAATATAAAAAT
1 AATATAATTTAA-AATTATAAAA-AATATAA-ATAAAAAT
* **
2268022 AATATAATTTAAAATTTTAAAAAATATAAATAAATTT
1 AATATAATTTAAAATTATAAAAAATATAAATAAAAAT
*
2268059 AATAAAATTATAAAATTATA
1 AATATAATT-TAAAATTATA
2268079 TTTTATATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
37 18 0.38
38 30 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (37 bp):
AATATAATTTAAAATTATAAAAAATATAAATAAAAAT
Found at i:2268065 original size:21 final size:20
Alignment explanation
Indices: 2268005--2268072 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
2267995 ATAATATAAA
*
2268005 ATAAAT-AATATAAAAATAAT
1 ATAAATAAATTTAAAAA-AAT
* *
2268025 ATAATTTAAAATTTTAAAAAAT
1 ATAA-AT-AAATTTAAAAAAAT
*
2268047 ATAAATAAATTTAATAAAATT
1 ATAAATAAATTTAA-AAAAAT
2268068 ATAAA
1 ATAAA
2268073 ATTATATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
20 11 0.29
21 12 0.32
22 7 0.18
23 8 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAAATAAATTTAAAAAAAT
Found at i:2269153 original size:12 final size:12
Alignment explanation
Indices: 2269145--2269169 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2269135 CTTGCTGTTG
2269145 TCTTTGCTGATA
1 TCTTTGCTGATA
2269157 TCTTTGCTGATA
1 TCTTTGCTGATA
2269169 T
1 T
2269170 GATTTTTCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (12 bp):
TCTTTGCTGATA
Found at i:2276480 original size:18 final size:19
Alignment explanation
Indices: 2276452--2276487 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2276442 ATGCACTGAT
*
2276452 AATTAGCAATTTCATCGTC
1 AATTAGCAATTCCATCGTC
2276471 AATT-GCAATTCCATCGT
1 AATTAGCAATTCCATCGT
2276488 AGTAGTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (19 bp):
AATTAGCAATTCCATCGTC
Found at i:2276662 original size:28 final size:28
Alignment explanation
Indices: 2276630--2276687 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
2276620 AAAGTCCAAC
* * *
2276630 AAAAAGTCTATTATAACCACTAAATCAT
1 AAAAAGTCAACTATAACCACTAAACCAT
*
2276658 AAAAAGTCAACTCTAACCACTAAACCAT
1 AAAAAGTCAACTATAACCACTAAACCAT
2276686 AA
1 AA
2276688 TATGGTAGCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.52, C:0.22, G:0.03, T:0.22
Consensus pattern (28 bp):
AAAAAGTCAACTATAACCACTAAACCAT
Found at i:2279194 original size:6 final size:6
Alignment explanation
Indices: 2279165--2279222 Score: 52
Period size: 6 Copynumber: 10.0 Consensus size: 6
2279155 GATATATATA
* *
2279165 ATATTT TTATTAT TTATTT A-ATTT ATATTT ATA--T ATATTT A-ATTTT
1 ATATTT ATATT-T ATATTT ATATTT ATATTT ATATTT ATATTT ATA-TTT
2279211 ATATTT ATATTT
1 ATATTT ATATTT
2279223 TAAAAATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 6 0.14
6 27 0.61
7 7 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATATTT
Found at i:2279222 original size:28 final size:24
Alignment explanation
Indices: 2279165--2279221 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 24
2279155 GATATATATA
*
2279165 ATATTTTTATTATTTATTTAATTT
1 ATATTTATATTATTTATTTAATTT
2279189 ATATTTATA-TA--TATTTAATTTT
1 ATATTTATATTATTTATTTAA-TTT
2279211 ATATTTATATT
1 ATATTTATATT
2279222 TTAAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 7 0.23
22 12 0.40
23 3 0.10
24 8 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
ATATTTATATTATTTATTTAATTT
Found at i:2281027 original size:14 final size:14
Alignment explanation
Indices: 2280987--2281032 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
2280977 ATTTTTTATA
*
2280987 AAAATTAATTAAATA
1 AAAATTAA-TAAATT
2281002 AAAACTT-A-AAATT
1 AAAA-TTAATAAATT
2281015 AAAATTAATAAATT
1 AAAATTAATAAATT
2281029 AAAA
1 AAAA
2281033 GATTTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
12 2 0.07
13 9 0.33
14 9 0.33
15 5 0.19
16 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAATTAATAAATT
Found at i:2285011 original size:2 final size:2
Alignment explanation
Indices: 2285004--2285037 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2284994 GGGAGAGGTG
2285004 CT CT CT 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 CT CT CT
2285038 ACGCTATATT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2287336 original size:20 final size:20
Alignment explanation
Indices: 2287311--2287348 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2287301 GTTATATCAT
2287311 TTTTAATGA-ATTTTTATTTA
1 TTTTAAT-ATATTTTTATTTA
2287331 TTTTAATATATTTTTATT
1 TTTTAATATATTTTTATT
2287349 GTGTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTAATATATTTTTATTTA
Found at i:2288011 original size:23 final size:23
Alignment explanation
Indices: 2287964--2288014 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
2287954 TTTGTCAAAA
2287964 TATGAAATTTTGCTTTGAAATGAT
1 TATGAAATTTT-CTTTGAAATGAT
2287988 TATGAAATTTAT-TTTG-AATGGAT
1 TATGAAATTT-TCTTTGAAAT-GAT
2288011 TATG
1 TATG
2288015 TTTTGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.12
23 11 0.44
24 10 0.40
25 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (23 bp):
TATGAAATTTTCTTTGAAATGAT
Found at i:2288162 original size:20 final size:20
Alignment explanation
Indices: 2288137--2288195 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
2288127 CAGGTCCGGG
2288137 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
2288157 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
2288177 CCCAGATCATTTGGGCCTG
1 CCCGGATCAATTGGGCCTG
2288196 GCCCAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:2288518 original size:11 final size:12
Alignment explanation
Indices: 2288497--2288530 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
2288487 AATTATCTAG
*
2288497 ATTTTTTTTTTA
1 ATTTTTATTTTA
2288509 A-TTTTATTTTA
1 ATTTTTATTTTA
2288520 ATTTTTATTTT
1 ATTTTTATTTT
2288531 GGAGGGCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:2288832 original size:26 final size:25
Alignment explanation
Indices: 2288785--2288837 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
2288775 TGGCAGTGAG
*
2288785 AAAAATTTTTTAGAAAAATTTGGCGA
1 AAAAATTTTCTAGAAAAATTTGG-GA
* **
2288811 AAAAATTTTCTGGAAATTTTTGGGA
1 AAAAATTTTCTAGAAAAATTTGGGA
2288836 AA
1 AA
2288838 TTTCCAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.36
Consensus pattern (25 bp):
AAAAATTTTCTAGAAAAATTTGGGA
Found at i:2288881 original size:31 final size:32
Alignment explanation
Indices: 2288846--2288916 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 32
2288836 AATTTCCAGA
2288846 TTCCGGCGAAAATTCCGGCG-ACTTTTGAA-TT
1 TTCCGGCGAAAATTCCGGCGAAC-TTTGAAGTT
*
2288877 TTCCGGCGATAATTCCGGCGAACTTTGAAGTT
1 TTCCGGCGAAAATTCCGGCGAACTTTGAAGTT
2288909 TT-CGGCGA
1 TTCCGGCGA
2288917 CAGACCCAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
31 31 0.84
32 6 0.16
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (32 bp):
TTCCGGCGAAAATTCCGGCGAACTTTGAAGTT
Found at i:2289021 original size:19 final size:19
Alignment explanation
Indices: 2288980--2289022 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2288970 CCGGCCATTT
*
2288980 TCCGGCGAAATTCTCAGAT
1 TCCGGCGAAATTCTCAGAA
*
2288999 TCCGGCGATATT-TCCAGAA
1 TCCGGCGAAATTCT-CAGAA
2289018 TCCGG
1 TCCGG
2289023 TATCGACGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (19 bp):
TCCGGCGAAATTCTCAGAA
Found at i:2289359 original size:16 final size:16
Alignment explanation
Indices: 2289340--2289370 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2289330 CAGTTTTTTT
*
2289340 TTTTTTTTTTTTTGAA
1 TTTTTTTTTATTTGAA
2289356 TTTTTTTTTATTTGA
1 TTTTTTTTTATTTGA
2289371 CTTTGATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTTTTTTTATTTGAA
Found at i:2289822 original size:160 final size:161
Alignment explanation
Indices: 2289398--2290004 Score: 1064
Period size: 162 Copynumber: 3.8 Consensus size: 161
2289388 ATTTTTTTTC
2289398 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
2289463 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
66 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
2289528 CGATAATTAATTACTTGGCTGATTTTGATTTT
131 CGATAATTAATTACTTGGCTGATTTTGA-TTT
2289560 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
2289625 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
66 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
2289690 CGATAATTAATTACTTGGCTGATTTTGATTT
131 CGATAATTAATTACTTGGCTGATTTTGATTT
* *
2289721 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
*
2289785 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
66 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
* * *
2289850 CGATAATTAATTAATTGGTTGATCTTGA---
131 CGATAATTAATTACTTGGCTGATTTTGATTT
* * * *
2289878 -TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTATTTTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
*
2289941 TCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTT
66 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTT
2290005 TCAACAACTA
Statistics
Matches: 436, Mismatches: 9, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
156 124 0.28
160 112 0.26
161 42 0.10
162 158 0.36
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (161 bp):
TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
CGATAATTAATTACTTGGCTGATTTTGATTT
Found at i:2292368 original size:20 final size:20
Alignment explanation
Indices: 2292339--2292378 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2292329 TCCGGGCCCG
2292339 GATCAATTGGGCCTGACCCA
1 GATCAATTGGGCCTGACCCA
* *
2292359 GATCATTTGGGCCTGGCCCA
1 GATCAATTGGGCCTGACCCA
2292379 AATGGGCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.30, G:0.28, T:0.23
Consensus pattern (20 bp):
GATCAATTGGGCCTGACCCA
Found at i:2292585 original size:23 final size:24
Alignment explanation
Indices: 2292559--2292604 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
2292549 TTATTATTAT
*
2292559 ATTAT-TATTCTTATCTTTTTTTA
1 ATTATCTATTCTGATCTTTTTTTA
* *
2292582 ATTATCTGTTCTGATTTTTTTTT
1 ATTATCTATTCTGATCTTTTTTT
2292605 TTTGATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.17, C:0.09, G:0.04, T:0.70
Consensus pattern (24 bp):
ATTATCTATTCTGATCTTTTTTTA
Found at i:2292688 original size:11 final size:12
Alignment explanation
Indices: 2292667--2292700 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
2292657 AATTATCTAG
*
2292667 ATTTTTTTTTTA
1 ATTTTTATTTTA
2292679 A-TTTTATTTTA
1 ATTTTTATTTTA
2292690 ATTTTTATTTT
1 ATTTTTATTTT
2292701 GGAGGGCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:2293051 original size:31 final size:32
Alignment explanation
Indices: 2293016--2293086 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
2293006 AATTTCCAGA
* *
2293016 TTCCGGCGAA-AATTTCGGCG-ACTTTTGAATT
1 TTCCGGCGAACAATTCCGGCGAAC-TTTGAAGT
2293047 TTCCGGC-AACAATTCCGGCGAACTTTGAAGT
1 TTCCGGCGAACAATTCCGGCGAACTTTGAAGT
2293078 TTCCGGCGA
1 TTCCGGCGA
2293087 CAGACCCAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 2 0.06
31 30 0.86
32 3 0.09
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.30
Consensus pattern (32 bp):
TTCCGGCGAACAATTCCGGCGAACTTTGAAGT
Found at i:2293174 original size:19 final size:19
Alignment explanation
Indices: 2293150--2293195 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
2293140 TCCGGCCAAT
2293150 TTCCGGCAAAATTCCCAGA
1 TTCCGGCAAAATTCCCAGA
* * *
2293169 TTCCGGCGAATTTTCCAGA
1 TTCCGGCAAAATTCCCAGA
*
2293188 ATCCGGCA
1 TTCCGGCA
2293196 CCGTTGTTCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (19 bp):
TTCCGGCAAAATTCCCAGA
Found at i:2294660 original size:1 final size:1
Alignment explanation
Indices: 2294656--2294688 Score: 57
Period size: 1 Copynumber: 33.0 Consensus size: 1
2294646 GTAATTTTTG
*
2294656 AAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2294689 GGTCTCAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2295116 original size:17 final size:16
Alignment explanation
Indices: 2295073--2295138 Score: 61
Period size: 16 Copynumber: 4.2 Consensus size: 16
2295063 AAGAATGAAA
2295073 AAAAAGATGATGAAAAA-
1 AAAAA-ATGA-GAAAAAG
2295090 AAAAAA--AGAAAGAAG
1 AAAAAATGAGAAA-AAG
*
2295105 AAAAAATGAGAAAATG
1 AAAAAATGAGAAAAAG
2295121 AAAAAATGA-AAAAA-
1 AAAAAATGAGAAAAAG
2295135 AAAA
1 AAAA
2295139 GAGATCCGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
13 4 0.09
14 7 0.16
15 10 0.23
16 12 0.28
17 10 0.23
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (16 bp):
AAAAAATGAGAAAAAG
Found at i:2295123 original size:16 final size:15
Alignment explanation
Indices: 2295082--2295133 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
2295072 AAAAAAGATG
2295082 ATGAAAAA--AAAAA
1 ATGAAAAATGAAAAA
*
2295095 AAGAAAGAA-GAAAAA
1 ATGAAA-AATGAAAAA
2295110 ATGAGAAAATGAAAAA
1 ATGA-AAAATGAAAAA
2295126 ATGAAAAA
1 ATGAAAAA
2295134 AAAAAGAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 5 0.15
14 2 0.06
15 14 0.42
16 12 0.36
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (15 bp):
ATGAAAAATGAAAAA
Found at i:2295134 original size:8 final size:8
Alignment explanation
Indices: 2295082--2295134 Score: 60
Period size: 8 Copynumber: 7.1 Consensus size: 8
2295072 AAAAAAGATG
2295082 ATGAAAAA
1 ATGAAAAA
2295090 A--AAAAA
1 ATGAAAAA
*
2295096 A-GAAAGA
1 ATGAAAAA
2295103 A-GAAAAA
1 ATGAAAAA
*
2295110 ATGAGAAA
1 ATGAAAAA
2295118 ATGAAAAA
1 ATGAAAAA
2295126 ATGAAAAA
1 ATGAAAAA
2295134 A
1 A
2295135 AAAAGAGATC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
6 6 0.15
7 11 0.28
8 22 0.56
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (8 bp):
ATGAAAAA
Found at i:2296371 original size:40 final size:39
Alignment explanation
Indices: 2296327--2297239 Score: 1412
Period size: 39 Copynumber: 23.0 Consensus size: 39
2296317 GTCTAGGAGT
2296327 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
2296367 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
*
2296408 ATTTACTTTTCAAAGTTGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
2296447 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
*
2296487 ATTTACTTTTCAAGGTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
2296526 ATTTACTTTTCAAAGTCG-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
*
2296564 ATTTACTTTTCAAAGTCGTGGTCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTG-CCTCTGTTTAGAGGAGCA
2296604 ATTTA-TTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
2296643 ATTTACTTTTCAAAGTCG-TGCCTCTG-TT-GAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
2296679 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
2296721 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
2296760 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
2296801 ATTTACTTTT-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
2296841 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
2296880 ATTTACTTTTCAAAGTCG-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
*
2296918 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
2296960 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
* *
2297000 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
* *
2297041 ATTTATTTTTCCAAAGTCGTGGTG-CTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
2297082 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
*
2297121 ATTTACTTTCCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
*
2297160 ATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTA-CTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
* **
2297202 ATTTA-TTTTCAAAGTCGTAAGCCTCTGTCAAGAGGAGC
1 ATTTACTTTTCAAAGTCGT-TGCCTCTGTTTAGAGGAGC
2297240 TAAAAAAAAA
Statistics
Matches: 825, Mismatches: 20, Indels: 57
0.91 0.02 0.06
Matches are distributed among these distances:
36 18 0.02
37 10 0.01
38 78 0.09
39 280 0.34
40 206 0.25
41 145 0.18
42 88 0.11
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (39 bp):
ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:2296505 original size:120 final size:117
Alignment explanation
Indices: 2296327--2297239 Score: 1439
Period size: 120 Copynumber: 7.7 Consensus size: 117
2296317 GTCTAGGAGT
2296327 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT--TGC
*
2296391 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTGTTGCCTCTGTTTAGAGGAGCA
63 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCG-TGCCTCTGTTTAGAGGAGCA
*
2296447 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAGGTCGTTGCCT
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCT
2296511 CTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGCCTCTGTTTAGAGGAGCA
65 CTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGCCTCTGTTTAGAGGAGCA
2296564 ATTTACTTTTCAAAGTCGTG-GTCCTCTGTTTAGAGGAGCAATTTA-TTTTCAAAGTTCGTTGCC
1 ATTTACTTTTCAAAGTCGTGTG-CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTTGCC
2296627 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGCCTCTG-TT-GAGGAGCA
64 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGCCTCTGTTTAGAGGAGCA
2296679 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCC
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCC
2296744 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
64 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC---GTGCCTCTGTTTAGAGGAGCA
2296801 ATTTACTTTT-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCT
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCT
2296865 CTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGCCTCTGTTTAGAGGAGCA
65 CTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGCCTCTGTTTAGAGGAGCA
*
2296918 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTTGC
*
2296983 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
63 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT-G--CCTCTGTTTAGAGGAGCA
* *
2297041 ATTTATTTTTCCAAAGTCGTGGTG-CTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTTGCC
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCC
*
2297105 TCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
64 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCG-TGCCTCTGTTTAGAGGAGCA
* *
2297160 ATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCAAAGTCGTAAGC
1 ATTTA-CTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT-TGC
**
2297224 CTCTGTCAAGAGGAGC
63 CTCTGTTTAGAGGAGC
2297240 TAAAAAAAAA
Statistics
Matches: 757, Mismatches: 14, Indels: 44
0.93 0.02 0.05
Matches are distributed among these distances:
115 18 0.02
116 24 0.03
117 204 0.27
118 47 0.06
119 92 0.12
120 236 0.31
121 45 0.06
122 51 0.07
123 40 0.05
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (117 bp):
ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTC
TGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGCCTCTGTTTAGAGGAGCA
Found at i:2297397 original size:20 final size:20
Alignment explanation
Indices: 2297372--2297429 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
2297362 CAGGTCCGGG
2297372 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
2297392 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
2297412 CCCAGATCATTTGGGCCT
1 CCCGGATCAATTGGGCCT
2297430 AGCCCAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.19, C:0.31, G:0.28, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:2297644 original size:23 final size:24
Alignment explanation
Indices: 2297618--2297663 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
2297608 TTATTATTAT
*
2297618 ATTAT-TATTCTTATCTTTTTTTA
1 ATTATCTATTCTGATCTTTTTTTA
* *
2297641 ATTATCTGTTCTGATTTTTTTTT
1 ATTATCTATTCTGATCTTTTTTT
2297664 TTTGATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.17, C:0.09, G:0.04, T:0.70
Consensus pattern (24 bp):
ATTATCTATTCTGATCTTTTTTTA
Found at i:2297753 original size:12 final size:12
Alignment explanation
Indices: 2297726--2297758 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2297716 AATTATCTAG
2297726 ATTTTT-TTTTA
1 ATTTTTATTTTA
2297737 A-TTTTATTTTA
1 ATTTTTATTTTA
2297748 ATTTTTATTTT
1 ATTTTTATTTT
2297759 GGAGGGCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.20
11 7 0.35
12 9 0.45
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:2298120 original size:31 final size:32
Alignment explanation
Indices: 2298070--2298141 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
2298060 AATTTCCAGA
*
2298070 TTCCGGCGAAAATTTCCGGCG-ACTTTTGAATT
1 TTCCGGCGAAAATTTCCGGCGAAC-TTTGAAGT
2298102 TTCCGGC-AACAA-TTCCGGCGAACTTTGAAGT
1 TTCCGGCGAA-AATTTCCGGCGAACTTTGAAGT
2298133 TTCCGGCGA
1 TTCCGGCGA
2298142 CAGACCCAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
31 24 0.67
32 12 0.33
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (32 bp):
TTCCGGCGAAAATTTCCGGCGAACTTTGAAGT
Found at i:2298230 original size:19 final size:19
Alignment explanation
Indices: 2298206--2298251 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
2298196 TCCGGCCAAT
2298206 TTCCGGCAAAATTCCCAGA
1 TTCCGGCAAAATTCCCAGA
* * *
2298225 TTCCGGCGAATTTTCCAGA
1 TTCCGGCAAAATTCCCAGA
*
2298244 ATCCGGCA
1 TTCCGGCA
2298252 CCGTTGTTCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (19 bp):
TTCCGGCAAAATTCCCAGA
Found at i:2298513 original size:5 final size:5
Alignment explanation
Indices: 2298469--2298496 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2298459 TTCAGCCCCT
2298469 CCGAG CCGAG CCGAG CCGAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG
2298497 GCACCAAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.43, G:0.39, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:2298933 original size:157 final size:157
Alignment explanation
Indices: 2298601--2299195 Score: 1022
Period size: 157 Copynumber: 3.8 Consensus size: 157
2298591 TTTTTCTTTA
2298601 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACTCCT
1 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACTCCT
2298666 GAGGTGA-GGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA-TTTCGAT
66 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
* * *
2298729 AATTAATTACTTGGCTGATTTTGATTTTTT
131 AATTAATTAATTGGTTGATCTTGA---TTT
* *
2298759 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATACTCCT
1 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACTCCT
2298823 GAGGTGAGGGAATTTTCTCAATTTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGA
66 GAGGTGAGGGAATTTTCTCAA-TTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGA
2298888 TAATTAATTAATTGGTTGATCTTGATTT
130 TAATTAATTAATTGGTTGATCTTGATTT
2298916 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACTCCT
1 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACTCCT
2298981 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
66 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
2299046 AATTAATTAATTGGTTGATCTTGATTT
131 AATTAATTAATTGGTTGATCTTGATTT
* * * *
2299073 TTCTTTAAATAATCCGACGACGGAGCCTCTGCAAG--GAAACAGTAGTTTTTCTTGCATACTCTT
1 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACTCCT
*
2299136 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTTTTAGAGTCAATTGAGAA-AATTTT
66 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
2299196 TCAAAACTAA
Statistics
Matches: 421, Mismatches: 12, Indels: 12
0.95 0.03 0.03
Matches are distributed among these distances:
154 6 0.01
155 79 0.19
157 176 0.42
158 96 0.23
159 36 0.09
160 28 0.07
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (157 bp):
TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACTCCT
GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
AATTAATTAATTGGTTGATCTTGATTT
Found at i:2306300 original size:22 final size:21
Alignment explanation
Indices: 2306275--2306329 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
2306265 AAAAAGGAAG
2306275 AAAAACAAAAGATAAAA-ATAAA
1 AAAAACAAAA-A-AAAACATAAA
2306297 AAAAACTAAAAAAAAACATAAA
1 AAAAAC-AAAAAAAAACATAAA
2306319 AAAAA-AAAAAA
1 AAAAACAAAAAA
2306330 GGAAAAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.19
21 4 0.13
22 17 0.55
23 4 0.13
ACGTcount: A:0.85, C:0.05, G:0.02, T:0.07
Consensus pattern (21 bp):
AAAAACAAAAAAAAACATAAA
Found at i:2306309 original size:12 final size:12
Alignment explanation
Indices: 2306294--2306324 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
2306284 AGATAAAAAT
2306294 AAAAAAAAC-TA
1 AAAAAAAACATA
2306305 AAAAAAAACATA
1 AAAAAAAACATA
2306317 AAAAAAAA
1 AAAAAAAA
2306325 AAAAAGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.87, C:0.06, G:0.00, T:0.06
Consensus pattern (12 bp):
AAAAAAAACATA
Found at i:2306312 original size:28 final size:29
Alignment explanation
Indices: 2306275--2306329 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
2306265 AAAAAGGAAG
* *
2306275 AAAAACAAAAGATAAAAATAAAAAAAACT
1 AAAAACAAAACATAAAAAAAAAAAAAACT
2306304 AAAAA-AAAACATAAAAAAAAAAAAAA
1 AAAAACAAAACATAAAAAAAAAAAAAA
2306330 GGAAAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.85, C:0.05, G:0.02, T:0.07
Consensus pattern (29 bp):
AAAAACAAAACATAAAAAAAAAAAAAACT
Found at i:2306335 original size:28 final size:29
Alignment explanation
Indices: 2306274--2306335 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
2306264 AAAAAAGGAA
* *
2306274 GAAAAACAAAAGATAAAAATAAAAAAAAC
1 GAAAAACAAAACATAAAAAAAAAAAAAAC
* *
2306303 TAAAAA-AAAACATAAAAAAAAAAAAAAG
1 GAAAAACAAAACATAAAAAAAAAAAAAAC
2306331 GAAAA
1 GAAAA
2306336 GAAAGTTCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.82, C:0.05, G:0.06, T:0.06
Consensus pattern (29 bp):
GAAAAACAAAACATAAAAAAAAAAAAAAC
Found at i:2306678 original size:3 final size:3
Alignment explanation
Indices: 2306670--2306705 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2306660 AAATTACCTC
2306670 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2306706 TTATGGCATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2310082 original size:18 final size:17
Alignment explanation
Indices: 2310040--2310082 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
2310030 ATCCCTTTTG
* *
2310040 TTTTTATTTTATTTTAA
1 TTTTTTTTTTATATTAA
2310057 TTTATTTTTTTATATTAA
1 TTT-TTTTTTTATATTAA
*
2310075 TATTTTTT
1 TTTTTTTT
2310083 AGATACTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTTTTTATATTAA
Found at i:2312146 original size:14 final size:16
Alignment explanation
Indices: 2312118--2312160 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 16
2312108 ATTGTATAGA
2312118 TTTAT-TTTATTAATT
1 TTTATATTTATTAATT
2312133 TTTA-ATTT-TTAATT
1 TTTATATTTATTAATT
2312147 TTTATATTTATTAA
1 TTTATATTTATTAA
2312161 ATATTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 10 0.40
15 11 0.44
16 4 0.16
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTATATTTATTAATT
Found at i:2312148 original size:6 final size:7
Alignment explanation
Indices: 2312127--2312160 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
2312117 ATTTATTTTA
2312127 TTAATTT
1 TTAATTT
2312134 TTAATTT
1 TTAATTT
2312141 TTAATTT
1 TTAATTT
2312148 TTATATTT
1 TTA-ATTT
2312156 ATTAA
1 -TTAA
2312161 ATATTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 17 0.68
8 5 0.20
9 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTAATTT
Found at i:2312198 original size:26 final size:26
Alignment explanation
Indices: 2312167--2312223 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
2312157 TTAAATATTT
2312167 TTTGGAAGTTGAAAATCACTATTTTC
1 TTTGGAAGTTGAAAATCACTATTTTC
*
2312193 TTTGGAAGTTGAAAATCACTATTTTT
1 TTTGGAAGTTGAAAATCACTATTTTC
2312219 TTTGG
1 TTTGG
2312224 CCAAAACAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.46
Consensus pattern (26 bp):
TTTGGAAGTTGAAAATCACTATTTTC
Found at i:2312909 original size:144 final size:143
Alignment explanation
Indices: 2312740--2313010 Score: 332
Period size: 144 Copynumber: 1.9 Consensus size: 143
2312730 GGATATTGAT
* * ***
2312740 ATTATATTTTCAAATTTTTAAAATTTTAACTAAGGTCACAT-TTTTAAAATAAAAACA-TAGTAA
1 ATTATATTTTCAAAATTCTAAAATTTTAAC-AAAAAC-CATCTTTTAAAATAAAAA-ATTAGTAA
* *
2312803 ATATTAAAGATATTTTTTCAAAATTTTGAAATTTTAACAAAGA-CAGTATTTTTAAAACAAAAAA
63 ATATTAAAGATATATTTTCAAAATTTTAAAATTTTAACAAAGATC-GTATTTTTAAAACAAAAAA
2312867 TTATAGTGATAGTTAAA
127 TTATAGTGATAGTTAAA
* * **
2312884 ATTATATTTTCAAAATTCTATAATTTTAACAAAAACCATGCTTTTAAGATAAAAAATTAGTGGAT
1 ATTATATTTTCAAAATTCTAAAATTTTAACAAAAACCAT-CTTTTAAAATAAAAAATTAGTAAAT
* ** * *
2312949 ATTGAATTTATATTTTCAAAATTTTAAAATTTTAATAAAGATCGTATTTTTAAAATAAAAAA
65 ATTAAAGATATATTTTCAAAATTTTAAAATTTTAACAAAGATCGTATTTTTAAAACAAAAAA
2313011 AAAACACAAT
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
142 3 0.03
143 4 0.04
144 99 0.93
145 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (143 bp):
ATTATATTTTCAAAATTCTAAAATTTTAACAAAAACCATCTTTTAAAATAAAAAATTAGTAAATA
TTAAAGATATATTTTCAAAATTTTAAAATTTTAACAAAGATCGTATTTTTAAAACAAAAAATTAT
AGTGATAGTTAAA
Found at i:2313010 original size:71 final size:71
Alignment explanation
Indices: 2312710--2313010 Score: 297
Period size: 71 Copynumber: 4.2 Consensus size: 71
2312700 AGTATTGTGG
* * *
2312710 TTTTAAAAT-AAAAATGTAGTGGATATT-GATATTATATTTTCAAATTTTTAAAATTTTAACTAA
1 TTTTAAAATAAAAAAT-TAGTGGATATTAAAT-TTATATTTTCAAAATTTTAAAATTTTAACAAA
* *
2312773 GGTCACAT
64 GATCATAT
** ** * *
2312781 TTTTAAAATAAAAACA-TAGTAAATATTAAAGATATTTTTTCAAAATTTTGAAATTTTAACAAAG
1 TTTTAAAATAAAAA-ATTAGTGGATATTAAATTTATATTTTCAAAATTTTAAAATTTTAACAAAG
2312845 A-CAGTAT
65 ATCA-TAT
* * * *
2312852 TTTTAAAACAAAAAATTA-TAGTGATAGTTAAAATTATATTTTCAAAATTCTATAATTTTAACAA
1 TTTTAAAATAAAAAATTAGT-G-GATA-TTAAATTTATATTTTCAAAATTTTAAAATTTTAACAA
* * **
2312916 AAACCATGC
63 AGATCATAT
* * *
2312925 TTTTAAGATAAAAAATTAGTGGATATTGAATTTATATTTTCAAAATTTTAAAATTTTAATAAAGA
1 TTTTAAAATAAAAAATTAGTGGATATTAAATTTATATTTTCAAAATTTTAAAATTTTAACAAAGA
*
2312990 TCGTAT
66 TCATAT
2312996 TTTTAAAATAAAAAA
1 TTTTAAAATAAAAAA
2313011 AAAACACAAT
Statistics
Matches: 184, Mismatches: 36, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
70 4 0.02
71 113 0.61
72 12 0.07
73 52 0.28
74 3 0.02
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (71 bp):
TTTTAAAATAAAAAATTAGTGGATATTAAATTTATATTTTCAAAATTTTAAAATTTTAACAAAGA
TCATAT
Found at i:2313086 original size:147 final size:144
Alignment explanation
Indices: 2312817--2313087 Score: 332
Period size: 147 Copynumber: 1.9 Consensus size: 144
2312807 TAAAGATATT
* * ** * *
2312817 TTTTCAAAATTTTGAAATTTTAACAAAGACAGTATTTTTAAAACAAAAAATTATAGTGATAGTTA
1 TTTTCAAAATTTTAAAATTTTAACAAAGACAGTATTTTTAAAAAAAAAAAACACAATGATAGTTA
* * *
2312882 AAATTATATTTTCAAAATTCTATAATTTTAACAAAAACCATGCTTTTAAGATAAAAAATTAGTGG
66 AAATCATATTCTCAAAATTCTATAATTTTAACAAAAACCACGCTTTTAAGATAAAAAATTAGTGG
2312947 ATATTGAATTTATA
131 ATATTGAATTTATA
*
2312961 TTTTCAAAATTTTAAAATTTTAATAAAGATC-GTATTTTTAAAATAAAAAAAAAACACAATAGAT
1 TTTTCAAAATTTTAAAATTTTAACAAAGA-CAGTATTTTT--AA-AAAAAAAAAACACAAT-GAT
* ** * *
2313025 -GTTAAAATCATATTCTCAAAATT-TGGTAATTTTAACAAAAATTACGTTTTTAAGATTAAAAAT
61 AGTTAAAATCATATTCTCAAAATTCT-ATAATTTTAACAAAAACCACGCTTTTAAGATAAAAAAT
2313088 GCAATGGATG
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
144 35 0.33
145 1 0.01
146 3 0.03
147 64 0.60
148 3 0.03
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (144 bp):
TTTTCAAAATTTTAAAATTTTAACAAAGACAGTATTTTTAAAAAAAAAAAACACAATGATAGTTA
AAATCATATTCTCAAAATTCTATAATTTTAACAAAAACCACGCTTTTAAGATAAAAAATTAGTGG
ATATTGAATTTATA
Done.