Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 151 of 173
Found at i:45752125 original size:15 final size:16
Alignment explanation
Indices: 45752105--45752137 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
45752095 TTATAATTTG
45752105 TAAAAAAA-TTAAAAA
1 TAAAAAAACTTAAAAA
*
45752120 TAAAAAAACTTGAAAA
1 TAAAAAAACTTAAAAA
45752136 TA
1 TA
45752138 TTACTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (16 bp):
TAAAAAAACTTAAAAA
Found at i:45752189 original size:11 final size:12
Alignment explanation
Indices: 45752173--45752197 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45752163 AATAATATTC
45752173 AAAAAATTTAAA
1 AAAAAATTTAAA
45752185 AAAAAATTTAAA
1 AAAAAATTTAAA
45752197 A
1 A
45752198 TATTGAAAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAAATTTAAA
Found at i:45762314 original size:6 final size:6
Alignment explanation
Indices: 45762298--45762329 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
45762288 TGTTTCTATG
45762298 TAAAAA T-AAAA TAAAAA TAAAAA T-AAAA TAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAA
45762330 TAATGATAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.42
6 14 0.58
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:45769343 original size:18 final size:19
Alignment explanation
Indices: 45769307--45769343 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
45769297 AAATAAACAT
45769307 TAAAAAATTATTTTAAAAA
1 TAAAAAATTATTTTAAAAA
45769326 TAAAAAATTATTTTAAAA
1 TAAAAAATTATTTTAAAA
45769344 GTATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAAATTATTTTAAAAA
Found at i:45769601 original size:30 final size:29
Alignment explanation
Indices: 45769561--45769619 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
45769551 TACAAAACAC
45769561 ACATATATATTAATATATTATAGATTATA
1 ACATATATATTAATATATTATAGATTATA
*
45769590 ACATAATATATTAATATATTATATATTATA
1 ACAT-ATATATTAATATATTATAGATTATA
45769620 TATTAAATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (29 bp):
ACATATATATTAATATATTATAGATTATA
Found at i:45769615 original size:7 final size:7
Alignment explanation
Indices: 45769564--45769624 Score: 68
Period size: 7 Copynumber: 8.3 Consensus size: 7
45769554 AAAACACACA
45769564 TATATAT
1 TATATAT
45769571 TAATATAT
1 T-ATATAT
*
45769579 TATAGAT
1 TATATAT
*
45769586 TATAACAT
1 TAT-ATAT
*
45769594 AATATAT
1 TATATAT
45769601 TAATATAT
1 T-ATATAT
45769609 TATATAT
1 TATATAT
45769616 TATATAT
1 TATATAT
45769623 TA
1 TA
45769625 AATGTTTCAC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
7 27 0.59
8 19 0.41
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (7 bp):
TATATAT
Found at i:45769752 original size:18 final size:17
Alignment explanation
Indices: 45769729--45769767 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
45769719 TTCATTGAAC
*
45769729 ATAAATAATACATATAA
1 ATAAATAATACACATAA
45769746 GATAAATAATACACATAA
1 -ATAAATAATACACATAA
45769764 ATAA
1 ATAA
45769768 TAAGATCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.26
Consensus pattern (17 bp):
ATAAATAATACACATAA
Found at i:45774218 original size:32 final size:32
Alignment explanation
Indices: 45774175--45774251 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
45774165 CAAAATAAAT
** *
45774175 TATGAAAAGTTACGAATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
45774207 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
45774239 GATGAAAAGTTAC
1 TATGAAAAGTTAC
45774252 ACACATGCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:45778723 original size:32 final size:32
Alignment explanation
Indices: 45778680--45778756 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
45778670 CAAAATAAAT
** *
45778680 TATGAAAAGTTACGAATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
45778712 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
45778744 GATGAAAAGTTAC
1 TATGAAAAGTTAC
45778757 ACACATGCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:45779397 original size:30 final size:30
Alignment explanation
Indices: 45779354--45779412 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
45779344 CTTAACAAGC
45779354 AAATGCCTCTAAAATAATAAAAAAATTAAG
1 AAATGCCTCTAAAATAATAAAAAAATTAAG
* * *
45779384 AAATGTCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAAAAAAATTAA
45779413 CAATAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.27
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAAAAAAATTAAG
Found at i:45781432 original size:231 final size:231
Alignment explanation
Indices: 45780710--45782325 Score: 3191
Period size: 231 Copynumber: 7.0 Consensus size: 231
45780700 TAGGAATGTA
45780710 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
1 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
45780775 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
66 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
*
45780840 GGGATTACTTACCTATTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
131 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
45780905 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
196 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
45780941 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
1 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
45781006 GAATCCATTCCATCCCTAATACG-CCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
66 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
45781070 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
131 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
45781135 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
196 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
45781171 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
1 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
45781236 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
66 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
45781301 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
131 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
45781366 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
196 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
45781402 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
1 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
45781467 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
66 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
45781532 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
131 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
45781597 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
196 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
45781633 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
1 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
45781698 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
66 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
45781763 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
131 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
*
45781828 TCCATCGATATTGCAGAGGTAATTTCTGCTTTTTCT
196 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
45781864 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
1 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
45781929 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATT-CCCCGTTCAGCGCCGATTA
66 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
45781993 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
131 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
45782058 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
196 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
45782094 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
1 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
45782159 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
66 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
*
45782224 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCATCGATTTCTGCTTCTTCT
131 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
45782289 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
196 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
45782325 T
1 T
45782326 CCATCGTTTT
Statistics
Matches: 1379, Mismatches: 4, Indels: 4
0.99 0.00 0.00
Matches are distributed among these distances:
230 458 0.33
231 921 0.67
ACGTcount: A:0.17, C:0.30, G:0.16, T:0.36
Consensus pattern (231 bp):
TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
Found at i:45782033 original size:692 final size:692
Alignment explanation
Indices: 45780710--45782325 Score: 3189
Period size: 692 Copynumber: 2.3 Consensus size: 692
45780700 TAGGAATGTA
45780710 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
1 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
45780775 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
66 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
*
45780840 GGGATTACTTACCTATTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
131 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
45780905 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCTTTCCCCCTATTTTGCGGGCCCACCACCAA
196 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCTTTCCCCCTATTTTGCGGGCCCACCACCAA
45780970 ATGGGCGTATGGTTACCCGTAATGCTATTACGTCCCGAATCCATTCCATCCCTAATACGCCACAT
261 ATGGGCGTATGGTTACCCGTAATGCTATTACGTCCCGAATCCATTCCATCCCTAATACGCCACAT
45781035 CCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTAGGGATTACTTACCTGTTTGTTATTTTTGTT
326 CCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTAGGGATTACTTACCTGTTTGTTATTTTTGTT
45781100 TCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCTTCCATCGATATTGCAGAGGTAATTTCTGCT
391 TCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCTTCCATCGATATTGCAGAGGTAATTTCTGCT
45781165 TCTTCTTTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTA
456 TCTTCTTTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTA
45781230 CGTCCCGAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGC
521 CGTCCCGAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGC
45781295 CGATTAGGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCT
586 CGATTAGGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCT
45781360 TCTTCTTCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
651 TCTTCTTCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
45781402 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
1 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
45781467 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
66 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
45781532 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
131 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
45781597 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCTTTCCCCCTATTTTGCGGGCCCACCACCAA
196 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCTTTCCCCCTATTTTGCGGGCCCACCACCAA
45781662 ATGGGCGTATGGTTACCCGTAATGCTATTACGTCCCGAATCCATTCCATCCCTAATACGCCCACA
261 ATGGGCGTATGGTTACCCGTAATGCTATTACGTCCCGAATCCATTCCATCCCTAATACG-CCACA
45781727 TCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTAGGGATTACTTACCTGTTTGTTATTTTTGT
325 TCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTAGGGATTACTTACCTGTTTGTTATTTTTGT
45781792 TTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCTTCCATCGATATTGCAGAGGTAATTTCTGC
390 TTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCTTCCATCGATATTGCAGAGGTAATTTCTGC
*
45781857 TTTTTCTTTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATT
455 TTCTTCTTTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATT
45781922 ACGTCCCGAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATT-CCCCGTTCAGCG
520 ACGTCCCGAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCG
45781986 CCGATTAGGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGC
585 CCGATTAGGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGC
45782051 TTCTTCTTCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
650 TTCTTCTTCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
45782094 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
1 TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
45782159 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
66 GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
*
45782224 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCATCGATTTCTGCTTCTTCT
131 GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
45782289 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCTT
196 TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCTT
45782326 CCATCGTTTT
Statistics
Matches: 920, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
692 669 0.73
693 251 0.27
ACGTcount: A:0.17, C:0.30, G:0.16, T:0.36
Consensus pattern (692 bp):
TTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTACGTCCC
GAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTA
GGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCT
TCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCTTTCCCCCTATTTTGCGGGCCCACCACCAA
ATGGGCGTATGGTTACCCGTAATGCTATTACGTCCCGAATCCATTCCATCCCTAATACGCCACAT
CCCGTAATAGGCATTCCCCCGTTCAGCGCCGATTAGGGATTACTTACCTGTTTGTTATTTTTGTT
TCCTTTTTCTGCCCTCGTCGATTTCTGCTTCTTCTTCCATCGATATTGCAGAGGTAATTTCTGCT
TCTTCTTTCCCCCTATTTTGCGGGCCCACCACCAAATGGGCGTATGGTTACCCGTAATGCTATTA
CGTCCCGAATCCATTCCATCCCTAATACGCCCACATCCCGTAATAGGCATTCCCCCGTTCAGCGC
CGATTAGGGATTACTTACCTGTTTGTTATTTTTGTTTCCTTTTTCTGCCCTCGTCGATTTCTGCT
TCTTCTTCCATCGATATTGCAGAGGTAATTTCTGCTTCTTCT
Found at i:45785458 original size:31 final size:31
Alignment explanation
Indices: 45785423--45785576 Score: 84
Period size: 26 Copynumber: 5.2 Consensus size: 31
45785413 TCATATAAGA
45785423 ATATTTAATATTAAGAATTTTATTAAATTAT
1 ATATTTAATATTAAGAATTTTATTAAATTAT
* *
45785454 ATATTT-TTATT-A-AATTATATTTAAA--A-
1 ATATTTAATATTAAGAATTTTA-TTAAATTAT
* *
45785480 ATAATTAAT-TT-A-AATTATATT---TTAT
1 ATATTTAATATTAAGAATTTTATTAAATTAT
* * *
45785505 AGTA-TTATATATTATG-ATTTTAGTAAATTCTAAGA
1 A-TATTTA-ATATTAAGAATTTTATTAAA-T-T-A-T
45785540 ATATTTAATATTAAGAATTTTATTAAATTAT
1 ATATTTAATATTAAGAATTTTATTAAATTAT
45785571 ATATTT
1 ATATTT
45785577 TTACTAAATT
Statistics
Matches: 93, Mismatches: 11, Indels: 38
0.65 0.08 0.27
Matches are distributed among these distances:
24 1 0.01
25 6 0.06
26 19 0.20
27 4 0.04
28 12 0.13
29 6 0.06
30 4 0.04
31 12 0.13
32 2 0.02
33 2 0.02
34 11 0.12
35 14 0.15
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (31 bp):
ATATTTAATATTAAGAATTTTATTAAATTAT
Found at i:45785517 original size:120 final size:120
Alignment explanation
Indices: 45785363--45785971 Score: 1055
Period size: 120 Copynumber: 5.1 Consensus size: 120
45785353 TTCAAATTTT
45785363 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
*
45785428 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAAAAATA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
*
45785483 ATTAATTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
*
45785545 TAATATTAAGAATTTTATTAAATTATATATTTTTACTAAATTATAATTTTAATAATA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTAT-A-TTTAATAATA
*
45785602 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
*
45785667 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAAAA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
* * * * *
45785722 AATATTTTAAATTATATTTTATTGTATTATATATTATGATTTTATTAAATTCGTACAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
45785787 TAATATTAAGAATTTTATTAAATTATAT-TTTTTATTAAATTATATTTAATAATA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
* *
45785841 ATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATTCATATAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
45785906 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
*
45785961 ATTATGTTAAA
1 ATTATTTTAAA
45785972 ATATGATTAA
Statistics
Matches: 463, Mismatches: 20, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
117 53 0.11
118 1 0.00
119 171 0.37
120 184 0.40
121 1 0.00
122 53 0.11
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATA
Found at i:45785578 original size:18 final size:17
Alignment explanation
Indices: 45785557--45785594 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
45785547 ATATTAAGAA
*
45785557 TTTTATTAAATTATATAT
1 TTTTACTAAATTATA-AT
45785575 TTTTACTAAATTATAAT
1 TTTTACTAAATTATAAT
45785592 TTT
1 TTT
45785595 AATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTACTAAATTATAAT
Found at i:45785819 original size:17 final size:17
Alignment explanation
Indices: 45785799--45785833 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
45785789 ATATTAAGAA
45785799 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
45785816 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
45785833 T
1 T
45785834 AATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATTAAATTATATT
Found at i:45785837 original size:239 final size:240
Alignment explanation
Indices: 45785363--45785958 Score: 1058
Period size: 239 Copynumber: 2.5 Consensus size: 240
45785353 TTCAAATTTT
45785363 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
*
45785428 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAA-AAATAATTAATTTA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAAATAAATAATTTA
45785492 AATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCTAAGAATATTTAATATTAAGAA
131 AATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCTAAGAATATTTAATATTAAGAA
45785557 TTTTATTAAATTATATATTTTTACTAAATTATAATTTTAATAATA
196 TTTTATTAAATTATATATTTTTACTAAATTATAATTTTAATAATA
*
45785602 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
*
45785667 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAAA-AAATATTTTA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAAATAAATAATTTA
* *
45785731 AATTATATTTTATTGTATTATATATTATGATTTTATTAAATTCGTACAAGAATATTTAATATTAA
131 AATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC-T--AAGAATATTTAATATTAA
*
45785796 GAATTTTATTAAATTATAT-TTTTTATTAAATTAT-A-TTTAATAATA
193 GAATTTTATTAAATTATATATTTTTACTAAATTATAATTTTAATAATA
* *
45785841 ATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATTCATATAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
45785906 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAA
66 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAA
45785959 TAATTATGTT
Statistics
Matches: 344, Mismatches: 9, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
239 288 0.84
240 5 0.01
241 14 0.04
242 37 0.11
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (240 bp):
ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATT
TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAAATAAATAATTTA
AATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCTAAGAATATTTAATATTAAGAA
TTTTATTAAATTATATATTTTTACTAAATTATAATTTTAATAATA
Found at i:45786201 original size:45 final size:44
Alignment explanation
Indices: 45786112--45786207 Score: 113
Period size: 45 Copynumber: 2.2 Consensus size: 44
45786102 ATTACAACAT
* * *
45786112 CATTCCATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACACCTCAATTC
* * *
45786156 CATTACATTCAACCAAACA-ATTGAATTACTATTATACTTCAATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACACCTCAATTC
45786201 CATTACA
1 CATTACA
45786208 GCTCTATTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 22 0.50
ACGTcount: A:0.39, C:0.27, G:0.03, T:0.31
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACACCTCAATTC
Found at i:45786216 original size:16 final size:16
Alignment explanation
Indices: 45786197--45786257 Score: 86
Period size: 16 Copynumber: 3.8 Consensus size: 16
45786187 TTATACTTCA
45786197 ATTCCATTACAGCTCT
1 ATTCCATTACAGCTCT
* * *
45786213 ATTCTATTATACCTCT
1 ATTCCATTACAGCTCT
*
45786229 ATTTCATTACAGCTCT
1 ATTCCATTACAGCTCT
45786245 ATTCCATTACAGC
1 ATTCCATTACAGC
45786258 GAACTAAACG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTCCATTACAGCTCT
Found at i:45786220 original size:32 final size:32
Alignment explanation
Indices: 45786184--45786253 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
45786174 AATTGAATTA
*
45786184 CTATTATACTTCAATTCCATTACAGCTCTATT
1 CTATTATACCTCAATTCCATTACAGCTCTATT
* *
45786216 CTATTATACCTCTATTTCATTACAGCTCTATT
1 CTATTATACCTCAATTCCATTACAGCTCTATT
*
45786248 CCATTA
1 CTATTA
45786254 CAGCGAACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.27, C:0.26, G:0.03, T:0.44
Consensus pattern (32 bp):
CTATTATACCTCAATTCCATTACAGCTCTATT
Found at i:45789548 original size:16 final size:16
Alignment explanation
Indices: 45789527--45789560 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45789517 GAGAGTGTGC
* *
45789527 TTTTTTCTTTTTTCTT
1 TTTTTTCCTTTTCCTT
45789543 TTTTTTCCTTTTCCTT
1 TTTTTTCCTTTTCCTT
45789559 TT
1 TT
45789561 AATTATGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTCCTTTTCCTT
Found at i:45794690 original size:13 final size:13
Alignment explanation
Indices: 45794672--45794697 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45794662 ATTTTTAAAC
45794672 CTTTTAAAAAATT
1 CTTTTAAAAAATT
45794685 CTTTTAAAAAATT
1 CTTTTAAAAAATT
45794698 TATTGCATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
CTTTTAAAAAATT
Found at i:45798881 original size:23 final size:23
Alignment explanation
Indices: 45798854--45798906 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
45798844 TTCTAATTTT
*
45798854 ATTAAAGTCATGGCAACTTTACC
1 ATTAAAGTCATGACAACTTTACC
* *
45798877 GTTAAAGTTATGACAACTTTACC
1 ATTAAAGTCATGACAACTTTACC
45798900 ATTAAAG
1 ATTAAAG
45798907 AATATATGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (23 bp):
ATTAAAGTCATGACAACTTTACC
Found at i:45802613 original size:22 final size:25
Alignment explanation
Indices: 45802567--45802613 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 25
45802557 AAAGTGATAG
45802567 GTGAAATGTATAATAAGAATTATTA
1 GTGAAATGTATAATAAGAATTATTA
*
45802592 GTGAAAT-TATGA-AAG-ATTATTA
1 GTGAAATGTATAATAAGAATTATTA
45802614 AATATTGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 3 0.14
24 4 0.19
25 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (25 bp):
GTGAAATGTATAATAAGAATTATTA
Found at i:45805168 original size:31 final size:31
Alignment explanation
Indices: 45805101--45805168 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
45805091 GTTAGAAATT
**
45805101 TTATTTTTTGACTAGTCGAAATTAAATTGTA
1 TTATTTTTTGACTAGTAAAAATTAAATTGTA
* *
45805132 -TATTTTTATGA-TAGTAAAAATTTAATTTTA
1 TTATTTTT-TGACTAGTAAAAATTAAATTGTA
45805162 TTATTTT
1 TTATTTT
45805169 AATAGCTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (31 bp):
TTATTTTTTGACTAGTAAAAATTAAATTGTA
Found at i:45808221 original size:57 final size:60
Alignment explanation
Indices: 45808130--45808257 Score: 160
Period size: 57 Copynumber: 2.2 Consensus size: 60
45808120 AATATTAATG
* *
45808130 ACTAATTTGGACCAAGAAAATGTTCAAATCCCAATGTGAG-AATGATTGTCAAA-TTT-AGAA
1 ACTAATTTGGACCAAGAAAATGTTCAAACCCCAATGT-AGCAATAATTG-CAAAGTTTAAG-A
45808190 ACTAATTTGG-CCAA-AAAAT-TTCAAACCCCAATGTAGCAATAATTGCAAAGTTTAAGA
1 ACTAATTTGGACCAAGAAAATGTTCAAACCCCAATGTAGCAATAATTGCAAAGTTTAAGA
*
45808247 ACTAACTTGGA
1 ACTAATTTGGA
45808258 TAAAAAAACT
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
56 6 0.10
57 34 0.56
58 7 0.11
59 4 0.07
60 10 0.16
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (60 bp):
ACTAATTTGGACCAAGAAAATGTTCAAACCCCAATGTAGCAATAATTGCAAAGTTTAAGA
Found at i:45808263 original size:57 final size:58
Alignment explanation
Indices: 45808130--45808273 Score: 143
Period size: 57 Copynumber: 2.5 Consensus size: 58
45808120 AATATTAATG
* * * *
45808130 ACTAATTTGGACCAAGAAAATGTTCAAATCCCAATGTGAGAATGATTGTCAAATTTAGAA
1 ACTAACTTGGA-CAAAAAAAT-TTCAAACCCCAATGTGAGAATAATTGTCAAATTTAGAA
* *
45808190 ACTAATTTGG-CCAAAAAATTTCAAACCCCAATGT-AGCAATAATTG-CAAAGTTTA-AGA
1 ACTAACTTGGACAAAAAAATTTCAAACCCCAATGTGAG-AATAATTGTCAAA-TTTAGA-A
* *
45808247 ACTAACTTGGATAAAAAAACTTCAAAC
1 ACTAACTTGGACAAAAAAATTTCAAAC
45808274 TTCAATATGA
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
56 7 0.10
57 35 0.49
58 20 0.28
60 10 0.14
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.26
Consensus pattern (58 bp):
ACTAACTTGGACAAAAAAATTTCAAACCCCAATGTGAGAATAATTGTCAAATTTAGAA
Found at i:45823375 original size:30 final size:31
Alignment explanation
Indices: 45823343--45823411 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
45823333 AATTATAAAT
*
45823343 AAATATATGATAAAATCTTT-TAAAAATAATA
1 AAAT-TATAATAAAATCTTTCTAAAAATAATA
** *
45823374 AAATTATAATTTAATCTTTCTAAAAATTATA
1 AAATTATAATAAAATCTTTCTAAAAATAATA
45823405 AAATTAT
1 AAATTAT
45823412 GAGTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 12 0.36
31 21 0.64
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (31 bp):
AAATTATAATAAAATCTTTCTAAAAATAATA
Found at i:45823460 original size:22 final size:22
Alignment explanation
Indices: 45823421--45823463 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
45823411 TGAGTTTATA
*
45823421 ATAAAAAAATACATTTTAATTC
1 ATAAAAAAATACAATTTAATTC
* *
45823443 ATAAAAAATTATAATTTAATT
1 ATAAAAAAATACAATTTAATT
45823464 TTAACACTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAAAAAATACAATTTAATTC
Found at i:45832074 original size:19 final size:19
Alignment explanation
Indices: 45832050--45832087 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
45832040 AGCAGCTCAA
*
45832050 AGTGTATGTGTTGGATAAT
1 AGTGTATATGTTGGATAAT
45832069 AGTGTATATGTTGGATAAT
1 AGTGTATATGTTGGATAAT
45832088 GTGGAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
AGTGTATATGTTGGATAAT
Found at i:45838609 original size:4 final size:4
Alignment explanation
Indices: 45838602--45838626 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
45838592 CCATATATAT
45838602 CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA C
45838627 TATGAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:45840036 original size:151 final size:151
Alignment explanation
Indices: 45839762--45840037 Score: 471
Period size: 151 Copynumber: 1.8 Consensus size: 151
45839752 CTATTCACTT
* * *
45839762 TCACGAGTCTGCTCACACAAGCTGTCAGTCTTTCGTTACTACTCAGTGCTGCTCACACAAGCTGT
1 TCACGAGCCTACTCACACAAGCTGTCAGTCATTCGTTACTACTCAGTGCTGCTCACACAAGCTGT
* ** *
45839827 CAGGTATCTGCAACATATGCCGGTATACCCAGCCACTGGTAGAACTTAAGACTAGCACCCAAGTT
66 CAAGTATCCACAACATATGCCGGTATACCCAGCCACTGGTAGAACTTAAGACCAGCACCCAAGTT
45839892 CACATTAATCACAATTTCGCA
131 CACATTAATCACAATTTCGCA
45839913 TCACGAGCCTACTCACACAAGCTGTCAGTCATTCGTTACTACTCAGTGCTGCTCACACAAGCTGT
1 TCACGAGCCTACTCACACAAGCTGTCAGTCATTCGTTACTACTCAGTGCTGCTCACACAAGCTGT
* *
45839978 CAAGTATCCACAGCATATGCCGGTATACCCAGCCACTGGTAGAACTTATGACCAGCACCC
66 CAAGTATCCACAACATATGCCGGTATACCCAGCCACTGGTAGAACTTAAGACCAGCACCC
45840038 GGATCCACTT
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
151 116 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (151 bp):
TCACGAGCCTACTCACACAAGCTGTCAGTCATTCGTTACTACTCAGTGCTGCTCACACAAGCTGT
CAAGTATCCACAACATATGCCGGTATACCCAGCCACTGGTAGAACTTAAGACCAGCACCCAAGTT
CACATTAATCACAATTTCGCA
Found at i:45843150 original size:25 final size:23
Alignment explanation
Indices: 45843117--45843162 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
45843107 AATTAATAAC
*
45843117 ATTATAAATTATAATATCTAAATAT
1 ATTAGAAATTA-AATATC-AAATAT
45843142 ATTAGAAATTAAATATCAAAT
1 ATTAGAAATTAAATATCAAAT
45843163 TTTAACATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 6 0.30
25 10 0.50
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTAGAAATTAAATATCAAATAT
Found at i:45846122 original size:10 final size:11
Alignment explanation
Indices: 45846109--45846145 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
45846099 ATTGAAAAAG
45846109 AATAATAA-AA
1 AATAATAATAA
45846119 AATACATAATAA
1 AATA-ATAATAA
45846131 AATAA-AATAA
1 AATAATAATAA
45846141 AATAA
1 AATAA
45846146 AAGATATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 14 0.56
11 5 0.20
12 6 0.24
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (11 bp):
AATAATAATAA
Found at i:45846694 original size:18 final size:19
Alignment explanation
Indices: 45846651--45846694 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
45846641 AAATTTCTTT
*
45846651 TTTTTTTCCAAATTTTTAA
1 TTTTTTTCCAAATTTTCAA
*
45846670 TTTTTTT-CAACTTTTCAA
1 TTTTTTTCCAAATTTTCAA
45846688 TTTTTTT
1 TTTTTTT
45846695 TAAAATAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTTTCCAAATTTTCAA
Found at i:45846695 original size:19 final size:20
Alignment explanation
Indices: 45846650--45846695 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
45846640 AAAATTTCTT
*
45846650 TTTTTTTTCCAAATTTTTAA
1 TTTTTTTTCCAAATTTTCAA
*
45846670 -TTTTTTT-CAACTTTTCAA
1 TTTTTTTTCCAAATTTTCAA
45846688 TTTTTTTT
1 TTTTTTTT
45846696 AAAATAACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTTTTCCAAATTTTCAA
Found at i:45849526 original size:20 final size:20
Alignment explanation
Indices: 45849503--45849547 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
45849493 TTTAGAATAT
*
45849503 AAAAAATTAAATTAAAAACA
1 AAAAAATTAAAATAAAAACA
* *
45849523 AAAATATTAAAATAAAAATA
1 AAAAAATTAAAATAAAAACA
45849543 AAAAA
1 AAAAA
45849548 TGGCTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAAAATTAAAATAAAAACA
Found at i:45852452 original size:96 final size:96
Alignment explanation
Indices: 45852288--45852480 Score: 386
Period size: 96 Copynumber: 2.0 Consensus size: 96
45852278 CTTCTAAATC
45852288 CATAAATGCTTCCACTTACCATTTAACTAATCAATTTCTCGAACCAAGCTATCACACAACAATAA
1 CATAAATGCTTCCACTTACCATTTAACTAATCAATTTCTCGAACCAAGCTATCACACAACAATAA
45852353 TACATCACTTGTGCTTCATGAATTCAATGGT
66 TACATCACTTGTGCTTCATGAATTCAATGGT
45852384 CATAAATGCTTCCACTTACCATTTAACTAATCAATTTCTCGAACCAAGCTATCACACAACAATAA
1 CATAAATGCTTCCACTTACCATTTAACTAATCAATTTCTCGAACCAAGCTATCACACAACAATAA
45852449 TACATCACTTGTGCTTCATGAATTCAATGGT
66 TACATCACTTGTGCTTCATGAATTCAATGGT
45852480 C
1 C
45852481 GATTCTTATC
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.31
Consensus pattern (96 bp):
CATAAATGCTTCCACTTACCATTTAACTAATCAATTTCTCGAACCAAGCTATCACACAACAATAA
TACATCACTTGTGCTTCATGAATTCAATGGT
Found at i:45854000 original size:51 final size:51
Alignment explanation
Indices: 45853933--45854128 Score: 216
Period size: 51 Copynumber: 3.9 Consensus size: 51
45853923 CAATGATGTT
* * * *
45853933 CGGTTCACATAGTAGCCTGCACATAGTGCCACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACCACACACGTGACCATTACCATC
* * * ** *
45853984 TGATACACGTAGTAGCCTGCACATAGTACCACACACGTGATCAAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACCACACACGTGACCATTACCATC
* * * * *
45854035 CGGTACACATAGTAGTCTGCACATAGTACTACACATGCGACC--TACCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACCACACACGTGACCATTACCA-TC
* *
45854085 CGGTACACGTAGTAGCCTGCATATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACCACACACGTGACCAT
45854129 CACTTTCACT
Statistics
Matches: 117, Mismatches: 25, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
49 3 0.03
50 39 0.33
51 75 0.64
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (51 bp):
CGGTACACGTAGTAGCCTGCACATAGTACCACACACGTGACCATTACCATC
Found at i:45854122 original size:101 final size:101
Alignment explanation
Indices: 45853933--45854124 Score: 278
Period size: 101 Copynumber: 1.9 Consensus size: 101
45853923 CAATGATGTT
* * * *
45853933 CGGTTCACATAGTAGCCTGCACATAGTGCCACACATGTGACCATTACCATCTGATACACGTAGTA
1 CGGTACACATAGTAGCCTGCACATAGTACCACACATGCGACCA-TACCATCCGATACACGTAGTA
45853998 GCCTGCACATAGTACCACACACGTGATCAAAACTATC
65 GCCTGCACATAGTACCACACACGTGATCAAAACTATC
* * *
45854035 CGGTACACATAGTAGTCTGCACATAGTACTACACATGCGACC-TACCATTCCGGTACACGTAGTA
1 CGGTACACATAGTAGCCTGCACATAGTACCACACATGCGACCATACCA-TCCGATACACGTAGTA
* *
45854099 GCCTGCATATAGTACTACACACGTGA
65 GCCTGCACATAGTACCACACACGTGA
45854125 CCATCACTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
100 5 0.06
101 38 0.47
102 37 0.46
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (101 bp):
CGGTACACATAGTAGCCTGCACATAGTACCACACATGCGACCATACCATCCGATACACGTAGTAG
CCTGCACATAGTACCACACACGTGATCAAAACTATC
Found at i:45855292 original size:21 final size:21
Alignment explanation
Indices: 45855268--45855333 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
45855258 GAGATTTGAT
45855268 AAATATTAAAGAAAGTATGAA
1 AAATATTAAAGAAAGTATGAA
* *** * * *
45855289 AAATTTTCTTGAGA-TTTGAT
1 AAATATTAAAGAAAGTATGAA
45855309 AAATATTAAAGAAAGTATGAA
1 AAATATTAAAGAAAGTATGAA
45855330 AAAT
1 AAAT
45855334 TTTCTTCATA
Statistics
Matches: 30, Mismatches: 14, Indels: 2
0.65 0.30 0.04
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.32
Consensus pattern (21 bp):
AAATATTAAAGAAAGTATGAA
Found at i:45855313 original size:41 final size:41
Alignment explanation
Indices: 45855256--45855339 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
45855246 TTTTTATTAT
45855256 TTGAGATTTGATAAATATTAAAGAAAGTATGAAAAATTTTC
1 TTGAGATTTGATAAATATTAAAGAAAGTATGAAAAATTTTC
45855297 TTGAGATTTGATAAATATTAAAGAAAGTATGAAAAATTTTC
1 TTGAGATTTGATAAATATTAAAGAAAGTATGAAAAATTTTC
45855338 TT
1 TT
45855340 CATACTTCCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.38
Consensus pattern (41 bp):
TTGAGATTTGATAAATATTAAAGAAAGTATGAAAAATTTTC
Found at i:45855488 original size:16 final size:15
Alignment explanation
Indices: 45855467--45855527 Score: 68
Period size: 16 Copynumber: 3.9 Consensus size: 15
45855457 CGTTTGGTTC
45855467 ACTGTAATGAAATAGA
1 ACTGTAATG-AATAGA
45855483 ACTGTAATTGAATAGA
1 ACTGTAA-TGAATAGA
* *
45855499 GCTGTAATGGAATAAA
1 ACTGTAAT-GAATAGA
*
45855515 ACTGTAATCAATA
1 ACTGTAATGAATA
45855528 ATTCCATTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
15 5 0.13
16 32 0.82
17 2 0.05
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (15 bp):
ACTGTAATGAATAGA
Found at i:45855557 original size:46 final size:44
Alignment explanation
Indices: 45855504--45855597 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
45855494 ATAGAGCTGT
45855504 AATGGAATAAAACTGTAATCAATAATTCCAT-TGTTTGGTTGAATGA
1 AATGGAATAAAACTGTAAT-AAT-ATT-CATGTGTTTGGTTGAATGA
* * * *
45855550 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAAAACTGTAATAATATTCATGTGTTTGGTTGAATGA
45855594 AATG
1 AATG
45855598 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.05
44 21 0.49
45 2 0.05
46 18 0.42
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.36
Consensus pattern (44 bp):
AATGGAATAAAACTGTAATAATATTCATGTGTTTGGTTGAATGA
Found at i:45861359 original size:48 final size:48
Alignment explanation
Indices: 45861304--45861396 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
45861294 TGAGGGTTAT
*
45861304 GGTCTTGAAGGGTTTGTATTAGGTACAGTTCTTTCTCCTGATCCTTTC
1 GGTCTTGAAGGGTTTGTATTAGGTACAGTTCTTTCTCCTCATCCTTTC
*
45861352 GGTCTTGAAGGGTTTGTATTAGGTATAGTTCTTTCTCCTCATCCT
1 GGTCTTGAAGGGTTTGTATTAGGTACAGTTCTTTCTCCTCATCCT
45861397 ATCATCATTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.15, C:0.18, G:0.23, T:0.44
Consensus pattern (48 bp):
GGTCTTGAAGGGTTTGTATTAGGTACAGTTCTTTCTCCTCATCCTTTC
Found at i:45870749 original size:12 final size:13
Alignment explanation
Indices: 45870732--45870807 Score: 84
Period size: 12 Copynumber: 5.6 Consensus size: 13
45870722 ATGTTGAGGG
45870732 AGAAAAAGAT-GA
1 AGAAAAAGATAGA
*
45870744 AGAAAAAGATAAGG
1 AGAAAAAGAT-AGA
45870758 AGAAAAAGAT-GA
1 AGAAAAAGATAGA
45870770 AGAAAAAGATAAGA
1 AGAAAAAGAT-AGA
45870784 AGAAAAAGAATGAGA
1 AGAAAAAG-AT-AGA
45870799 AGGAAAAAG
1 A-GAAAAAG
45870808 GTAAAGACCC
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
12 21 0.38
14 21 0.38
15 6 0.11
16 7 0.13
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (13 bp):
AGAAAAAGATAGA
Found at i:45870759 original size:26 final size:26
Alignment explanation
Indices: 45870730--45870792 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
45870720 CGATGTTGAG
45870730 GGAGAAAAAGATGAAGAAAAAGATAA
1 GGAGAAAAAGATGAAGAAAAAGATAA
45870756 GGAGAAAAAGATGAAGAAAAAGATAA
1 GGAGAAAAAGATGAAGAAAAAGATAA
*
45870782 GAAGAAAAAGA
1 GGAGAAAAAGA
45870793 ATGAGAAGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.06
Consensus pattern (26 bp):
GGAGAAAAAGATGAAGAAAAAGATAA
Found at i:45870763 original size:14 final size:12
Alignment explanation
Indices: 45870732--45870792 Score: 77
Period size: 14 Copynumber: 4.8 Consensus size: 12
45870722 ATGTTGAGGG
45870732 AGAAAAAGATGA
1 AGAAAAAGATGA
*
45870744 AGAAAAAGATAAGG
1 AGAAAAAGAT--GA
45870758 AGAAAAAGATGA
1 AGAAAAAGATGA
45870770 AGAAAAAGATAAGA
1 AGAAAAAGAT--GA
45870784 AGAAAAAGA
1 AGAAAAAGA
45870793 ATGAGAAGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
12 21 0.49
14 22 0.51
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.07
Consensus pattern (12 bp):
AGAAAAAGATGA
Found at i:45871062 original size:30 final size:31
Alignment explanation
Indices: 45870997--45871064 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
45870987 TGTTAGTAGT
*
45870997 TGACTGATTTGTCACTTTTCGATAACGTTAG
1 TGACTGATTTGTCACTTTTCGATAACGTGAG
*
45871028 TGACTGATTTGTCATTTTTCGA-AA-GCTGAG
1 TGACTGATTTGTCACTTTTCGATAACG-TGAG
45871058 TGACTGA
1 TGACTGA
45871065 ATTGAAGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 1 0.03
30 12 0.35
31 21 0.62
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.40
Consensus pattern (31 bp):
TGACTGATTTGTCACTTTTCGATAACGTGAG
Found at i:45877708 original size:19 final size:19
Alignment explanation
Indices: 45877681--45877732 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
45877671 AAATATAAAA
45877681 TTTGAAATTTTTATAAATAT
1 TTTGAAATTTTT-TAAATAT
45877701 TTTG-AA-TTTTTAAATAT
1 TTTGAAATTTTTTAAATAT
*
45877718 TATTGTAATTTTTTA
1 T-TTGAAATTTTTTA
45877733 TTGTAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.28
18 7 0.24
19 4 0.14
20 10 0.34
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (19 bp):
TTTGAAATTTTTTAAATAT
Found at i:45877714 original size:17 final size:19
Alignment explanation
Indices: 45877689--45877730 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
45877679 AATTTGAAAT
45877689 TTTTATAAATATT-TTG-AA
1 TTTT-TAAATATTATTGTAA
45877707 TTTTTAAATATTATTGTAA
1 TTTTTAAATATTATTGTAA
45877726 TTTTT
1 TTTTT
45877731 TATTGTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.36
18 7 0.32
19 7 0.32
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTTAAATATTATTGTAA
Found at i:45877735 original size:13 final size:13
Alignment explanation
Indices: 45877717--45877749 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
45877707 TTTTTAAATA
45877717 TTATTGTAATTTT
1 TTATTGTAATTTT
45877730 TTATTGTAATTTT
1 TTATTGTAATTTT
*
45877743 TTGTTGT
1 TTATTGT
45877750 GAGAGAGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (13 bp):
TTATTGTAATTTT
Found at i:45893638 original size:43 final size:43
Alignment explanation
Indices: 45893518--45893647 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 43
45893508 ATGCCGCTAT
* ** **
45893518 AGAACATGACATGTAGCGGCGCTTTTATCACAAATGCCACTAA
1 AGAACATGACATTTAGCGGCGCTTTTATCACAAACACCGTTAA
* ** *
45893561 AGAACATGACATTTCGCAACACTTTTATCACAAACACCGTTAA
1 AGAACATGACATTTAGCGGCGCTTTTATCACAAACACCGTTAA
* *
45893604 AGAACATGACCTTTAGTGGCGCTTTTATCACAAACACCGTTAA
1 AGAACATGACATTTAGCGGCGCTTTTATCACAAACACCGTTAA
45893647 A
1 A
45893648 AGTACCATTC
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (43 bp):
AGAACATGACATTTAGCGGCGCTTTTATCACAAACACCGTTAA
Found at i:45901750 original size:18 final size:18
Alignment explanation
Indices: 45901727--45901815 Score: 106
Period size: 18 Copynumber: 4.9 Consensus size: 18
45901717 CGTTTACGGT
*
45901727 ACTATTCACGTATACAAC
1 ACTATTCACGTATACAGC
* *
45901745 ACTATTCACGTATATAGT
1 ACTATTCACGTATACAGC
* *
45901763 ACTATTCATGTATACGGC
1 ACTATTCACGTATACAGC
* *
45901781 ACTATTCACGTATACGGT
1 ACTATTCACGTATACAGC
*
45901799 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
45901816 TAGTTGGGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:45901776 original size:36 final size:36
Alignment explanation
Indices: 45901725--45901814 Score: 126
Period size: 36 Copynumber: 2.5 Consensus size: 36
45901715 ACCGTTTACG
*
45901725 GTACTATTCACGTATACAACACTATTCACGTATATA
1 GTACTATTCACGTATACAACACTATTCACGTATACA
* ** *
45901761 GTACTATTCATGTATACGGCACTATTCACGTATACG
1 GTACTATTCACGTATACAACACTATTCACGTATACA
*
45901797 GTACTGTTCACGTATACA
1 GTACTATTCACGTATACA
45901815 GTAGTTGGGA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (36 bp):
GTACTATTCACGTATACAACACTATTCACGTATACA
Found at i:45908419 original size:42 final size:41
Alignment explanation
Indices: 45908354--45908435 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 41
45908344 AAAAAACGAC
* *
45908354 ACTATTGCTCGACTTTTAGCGGCGTTTAG-ACCAAAAATGCT
1 ACTATTGCTCAACTTTTAGCGGCGTTT-GCAACAAAAATGCT
*
45908395 ACTATTGCTCAACTTTTTTGCGGCGTTTGCAACAAAAATGC
1 ACTATTGCTCAAC-TTTTAGCGGCGTTTGCAACAAAAATGC
45908436 CGCTATTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 13 0.36
42 23 0.64
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (41 bp):
ACTATTGCTCAACTTTTAGCGGCGTTTGCAACAAAAATGCT
Found at i:45908442 original size:42 final size:41
Alignment explanation
Indices: 45908333--45908442 Score: 114
Period size: 41 Copynumber: 2.7 Consensus size: 41
45908323 ACATATTCGT
* * * * *
45908333 GGCGTTTGGAAAAAAAACGACACTATTGCTCGACTTTTAGC
1 GGCGTTTAGAACAAAAATGCCACTATTGCTCAACTTTTAGC
* * *
45908374 GGCGTTTAGACCAAAAATGCTACTATTGCTCAACTTTTTTGC
1 GGCGTTTAGAACAAAAATGCCACTATTGCTCAAC-TTTTAGC
*
45908416 GGCGTTT-GCAACAAAAATGCCGCTATT
1 GGCGTTTAG-AACAAAAATGCCACTATT
45908443 ATTTAACTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 28 0.50
42 28 0.50
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (41 bp):
GGCGTTTAGAACAAAAATGCCACTATTGCTCAACTTTTAGC
Found at i:45909066 original size:43 final size:43
Alignment explanation
Indices: 45908967--45909109 Score: 132
Period size: 43 Copynumber: 3.4 Consensus size: 43
45908957 AAATAGTATT
* * * * *
45908967 AATC-TAAACCCTAAACCCCTAACTCCTATCCCCTAAATCCTA
1 AATCATAAACCATAAACCCCTAACCCCTAACCCCTAAACCCCA
*
45909009 AATCATAAAACATAAACCCCTAACCCCTAACCCCTAAACCCCA
1 AATCATAAACCATAAACCCCTAACCCCTAACCCCTAAACCCCA
* * * * *
45909052 ACTCTTAAACCAT-AA-CCATAACCCATAATCCCTAAA-CCCA
1 AATCATAAACCATAAACCCCTAACCCCTAACCCCTAAACCCCA
*
45909092 TAATCATTAAACCTTAAA
1 -AATCA-TAAACCATAAA
45909110 ATAGTAACTC
Statistics
Matches: 82, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
40 4 0.05
41 21 0.26
42 13 0.16
43 44 0.54
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (43 bp):
AATCATAAACCATAAACCCCTAACCCCTAACCCCTAAACCCCA
Found at i:45909102 original size:15 final size:15
Alignment explanation
Indices: 45909071--45909104 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45909061 CCATAACCAT
*
45909071 AACCCATAATCCCTA
1 AACCCATAATCACTA
*
45909086 AACCCATAATCATTA
1 AACCCATAATCACTA
45909101 AACC
1 AACC
45909105 TTAAAATAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCATAATCACTA
Found at i:45909140 original size:14 final size:14
Alignment explanation
Indices: 45909121--45909181 Score: 77
Period size: 14 Copynumber: 4.4 Consensus size: 14
45909111 TAGTAACTCT
* *
45909121 TAAACCTTAAACCC
1 TAAACCATATACCC
45909135 TAAACCATATACCC
1 TAAACCATATACCC
*
45909149 TAAATCATATACCC
1 TAAACCATATACCC
* *
45909163 TAAACCATAGAGCC
1 TAAACCATATACCC
45909177 TAAAC
1 TAAAC
45909182 TATAATGATA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.44, C:0.31, G:0.03, T:0.21
Consensus pattern (14 bp):
TAAACCATATACCC
Found at i:45909559 original size:40 final size:40
Alignment explanation
Indices: 45909501--45909596 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
45909491 CGTTTTTGAT
* * *
45909501 AAAGCGCCGCCAAAGCTCGATCTATAGCGGCATTTTTCAA
1 AAAGCGCCGCTAATGCTCGATCTACAGCGGCATTTTTCAA
* *** *
45909541 AAAGCACCGCTAATGCTCGATCTACATTTGCGTTTTTCAA
1 AAAGCGCCGCTAATGCTCGATCTACAGCGGCATTTTTCAA
45909581 AAAGCGCCGCTAATGC
1 AAAGCGCCGCTAATGC
45909597 CACTAAAGCT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
AAAGCGCCGCTAATGCTCGATCTACAGCGGCATTTTTCAA
Found at i:45909691 original size:38 final size:39
Alignment explanation
Indices: 45909636--45909722 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 39
45909626 ATTTTTTTGT
* * *
45909636 GGCATTTTTCAAGAAGCG-GCTAATGGTCGACCTATAGC
1 GGCATTTTTCAAAAAGCGCGCTAATGCTCAACCTATAGC
* *
45909674 GGCATTTTTCAAAAAGCGCCGTTAATGCTCAATCTATAGC
1 GGCATTTTTCAAAAAGCG-CGCTAATGCTCAACCTATAGC
45909714 GGCATTTTT
1 GGCATTTTT
45909723 TATCCAAACG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
38 17 0.40
40 25 0.60
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (39 bp):
GGCATTTTTCAAAAAGCGCGCTAATGCTCAACCTATAGC
Found at i:45912099 original size:20 final size:18
Alignment explanation
Indices: 45912074--45912113 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 18
45912064 ATGAAATGAA
45912074 ATATTTAATATAAATAATAT
1 ATATTT-ATAT-AATAATAT
45912094 ATATTTATATAATAATAT
1 ATATTTATATAATAATAT
45912112 AT
1 AT
45912114 GTAAAAAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 4 0.20
20 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTTATATAATAATAT
Found at i:45913793 original size:18 final size:17
Alignment explanation
Indices: 45913755--45913792 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
45913745 ACTTTTGGAC
45913755 TTTTAATTTATTTTTAAT
1 TTTTAATTTATTTTT-AT
*
45913773 TTTTAATTT-TATTTAT
1 TTTTAATTTATTTTTAT
45913789 TTTT
1 TTTT
45913793 TGTAAGGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 4 0.21
18 9 0.47
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTAATTTATTTTTAT
Found at i:45915984 original size:17 final size:17
Alignment explanation
Indices: 45915964--45915996 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45915954 ATCTTTTTTT
*
45915964 TTTTTAGGTTGTTTTGG
1 TTTTAAGGTTGTTTTGG
45915981 TTTTAAGGTTGTTTTG
1 TTTTAAGGTTGTTTTG
45915997 AATCTCAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.27, T:0.64
Consensus pattern (17 bp):
TTTTAAGGTTGTTTTGG
Found at i:45926541 original size:22 final size:22
Alignment explanation
Indices: 45926511--45926560 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
45926501 GGGTAAAGAG
*
45926511 AAGGCTAGGATGTGATGGGTGA
1 AAGGTTAGGATGTGATGGGTGA
*
45926533 AAGGTTAGGATTTGATGGGTGA
1 AAGGTTAGGATGTGATGGGTGA
45926555 AAGGTT
1 AAGGTT
45926561 TTTGTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.28, C:0.02, G:0.42, T:0.28
Consensus pattern (22 bp):
AAGGTTAGGATGTGATGGGTGA
Found at i:45926664 original size:21 final size:22
Alignment explanation
Indices: 45926640--45926686 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
45926630 TTTTTTTCTA
* *
45926640 GGTGAAAAGTT-TGATTTGATG
1 GGTGAAAAGTTAGGATGTGATG
*
45926661 GGTGAAAGGTTAGGATGTGATG
1 GGTGAAAAGTTAGGATGTGATG
45926683 GGTG
1 GGTG
45926687 TAAGGGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.26, C:0.00, G:0.43, T:0.32
Consensus pattern (22 bp):
GGTGAAAAGTTAGGATGTGATG
Found at i:45935038 original size:29 final size:30
Alignment explanation
Indices: 45934985--45935043 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
45934975 GAATTGGATC
* * *
45934985 AAATCAAAGTTTCATGTATAAAATTGCACA
1 AAATCAAAGTTTAATATATAAAATTACACA
*
45935015 AAATCAAAG-TTAATATATATAATTACACA
1 AAATCAAAGTTTAATATATAAAATTACACA
45935044 TTAAACTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.31
Consensus pattern (30 bp):
AAATCAAAGTTTAATATATAAAATTACACA
Found at i:45939688 original size:24 final size:24
Alignment explanation
Indices: 45939645--45939694 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
45939635 TAATATATAA
* * *
45939645 AATTTTTAAAAATTATAAAATTTT
1 AATTTTTAAAAATCAGAAAATATT
45939669 AATTTTTAAAAATCAGAAAATATT
1 AATTTTTAAAAATCAGAAAATATT
45939693 AA
1 AA
45939695 AAATAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
AATTTTTAAAAATCAGAAAATATT
Found at i:45940891 original size:18 final size:18
Alignment explanation
Indices: 45940862--45940954 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
45940852 TACGACCATT
* *
45940862 TACGGTACTATTTACGTA
1 TACGGCACTATTCACGTA
*
45940880 TATGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
45940898 TACGGTACTATTCACATA
1 TACGGCACTATTCACGTA
*
45940916 TACGACACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
45940934 TACGGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
45940952 TAC
1 TAC
45940955 AGTAGTTGGG
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:45940909 original size:36 final size:36
Alignment explanation
Indices: 45940862--45940954 Score: 141
Period size: 36 Copynumber: 2.6 Consensus size: 36
45940852 TACGACCATT
* * *
45940862 TACGGTACTATTTACGTATATGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGACACTATTCACGTA
*
45940898 TACGGTACTATTCACATATACGACACTATTCACGTA
1 TACGGTACTATTCACGTATACGACACTATTCACGTA
*
45940934 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
45940955 AGTAGTTGGG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGACACTATTCACGTA
Found at i:45946113 original size:12 final size:12
Alignment explanation
Indices: 45946094--45946128 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
45946084 CTGTTTTTCG
45946094 TAATTATTAATT
1 TAATTATTAATT
*
45946106 TCATTATTAATT
1 TAATTATTAATT
45946118 TAATTTATTAA
1 TAA-TTATTAA
45946129 ATAATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (12 bp):
TAATTATTAATT
Found at i:45947470 original size:21 final size:21
Alignment explanation
Indices: 45947441--45947488 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
45947431 TGTAATGTAT
45947441 AAAAA-AA-TTTTAAAAATATA
1 AAAAATAATTTTTAAAAAT-TA
45947461 AAAAATAATTTTTAAAAATTA
1 AAAAATAATTTTTAAAAATTA
*
45947482 GAAAATA
1 AAAAATA
45947489 TTAAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 5 0.20
21 10 0.40
22 10 0.40
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAAATAATTTTTAAAAATTA
Found at i:45947494 original size:17 final size:17
Alignment explanation
Indices: 45947472--45947505 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45947462 AAAATAATTT
45947472 TTAAAAATTAGAAAATA
1 TTAAAAATTAGAAAATA
*
45947489 TTAAAAATTTGAAAATA
1 TTAAAAATTAGAAAATA
45947506 AATTTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (17 bp):
TTAAAAATTAGAAAATA
Found at i:45963649 original size:20 final size:22
Alignment explanation
Indices: 45963614--45963653 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
45963604 CTTTTGAAAT
45963614 TTAATTTTTATATTTAAAAAAA
1 TTAATTTTTATATTTAAAAAAA
45963636 TTAA-TTTT-TATTTAAAAA
1 TTAATTTTTATATTTAAAAA
45963654 TCTCAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAATTTTTATATTTAAAAAAA
Found at i:45964771 original size:9 final size:10
Alignment explanation
Indices: 45964750--45964774 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45964740 TGAAAAATAG
45964750 AAAATTTTAA
1 AAAATTTTAA
45964760 AAAATTTTAA
1 AAAATTTTAA
45964770 AAAAT
1 AAAAT
45964775 CCTTTAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:45970666 original size:12 final size:12
Alignment explanation
Indices: 45970649--45970674 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45970639 CAAAACAGGC
45970649 TTTTAGCGGCGT
1 TTTTAGCGGCGT
45970661 TTTTAGCGGCGT
1 TTTTAGCGGCGT
45970673 TT
1 TT
45970675 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:45970708 original size:41 final size:40
Alignment explanation
Indices: 45970663--45970791 Score: 126
Period size: 40 Copynumber: 3.2 Consensus size: 40
45970653 AGCGGCGTTT
*
45970663 TTAGCGGCG-TTTGGATAAAAAACGCCACTAAAGATCGAGCA
1 TTAGCGGCGCTTTGG-T-AAAAACGCCGCTAAAGATCGAGCA
*
45970704 TTAGCGGCGCTCTTTGG-AAAAA-GCCGCTAAAGATCGAGTA
1 TTAGCGGCG--CTTTGGTAAAAACGCCGCTAAAGATCGAGCA
* *
45970744 TTAGCGGCGCTTTTTGG--AAAACGCCGCTAAA-AACAAGCA
1 TTAGCGGCGC--TTTGGTAAAAACGCCGCTAAAGATCGAGCA
45970783 TTAGCGGCG
1 TTAGCGGCG
45970792 TTTTCCAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
38 1 0.01
39 18 0.23
40 39 0.51
41 14 0.18
44 5 0.06
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (40 bp):
TTAGCGGCGCTTTGGTAAAAACGCCGCTAAAGATCGAGCA
Found at i:45970747 original size:40 final size:40
Alignment explanation
Indices: 45970680--45970791 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
45970670 CGTTTGGATA
*
45970680 AAAAACGCCACTAAAGATCGAGCATTAGCGGCGCTCTTTGG
1 AAAAA-GCCGCTAAAGATCGAGCATTAGCGGCGCTCTTTGG
* *
45970721 AAAAAGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTTGG
1 AAAAAGCCGCTAAAGATCGAGCATTAGCGGCGCTCTTTGG
* * *
45970761 AAAACGCCGCTAAA-AACAAGCATTAGCGGCG
1 AAAAAGCCGCTAAAGATCGAGCATTAGCGGCG
45970792 TTTTCCAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
39 14 0.22
40 45 0.70
41 5 0.08
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (40 bp):
AAAAAGCCGCTAAAGATCGAGCATTAGCGGCGCTCTTTGG
Found at i:45970908 original size:41 final size:41
Alignment explanation
Indices: 45970851--45971146 Score: 425
Period size: 41 Copynumber: 7.2 Consensus size: 41
45970841 TGAGTTTTGG
* *
45970851 GGGCTTTAGCGGCGTTTTTGGGAAAGAGCCGCTAATTCTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
**
45970892 GGGCTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
45970933 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
*
45970974 AGGCTTTAGCGGCGTTTTTTGGGAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCG-TTTTTGGGAAAGCGCCGCTAATGCTCA
*
45971016 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* * *
45971057 GGGCTTTAGCGGCG-TTTTGGTTAAAGCGCCACAAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGG-GAAAGCGCCGCTAATGCTCA
* ** *
45971098 GGGCTTTTGCGGCGTTTTCTAAG-AAGCACCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTT-TGGGAAAGCGCCGCTAATGCTCA
*
45971139 GGGATTTA
1 GGGCTTTA
45971147 AAATAATTTA
Statistics
Matches: 229, Mismatches: 22, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
40 5 0.02
41 180 0.79
42 43 0.19
43 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
Found at i:45971071 original size:124 final size:124
Alignment explanation
Indices: 45970852--45971146 Score: 436
Period size: 124 Copynumber: 2.4 Consensus size: 124
45970842 GAGTTTTGGG
* *
45970852 GGCTTTAGCGGCG-TTTTTGGGAAAGAGCCGCTAATTCTCAGGGCTTTAGCGGCGTTTTTGTAAA
1 GGCTTTAGCGGCGTTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGTAAA
* *
45970916 AGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGG-GAAAGCGCCGCTAATGCTCAA
66 AGCGCCGCTAATGCTCAGGGCTTTAGCGGCG-TTTTGGTGAAAGCGCCACAAATGCTCAA
45970975 GGCTTTAGCGGCGTTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG-AGA
1 GGCTTTAGCGGCGTTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGTA-A
* *
45971039 AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTGGTTAAAGCGCCACAAATGCTCAG
65 AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTGGTGAAAGCGCCACAAATGCTCAA
* * ** * *
45971099 GGCTTTTGCGGCGTTTTCTAAG-AAGCACCGCTAATGCTCAGGGATTTA
1 GGCTTTAGCGGCGTTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTTTA
45971147 AAATAATTTA
Statistics
Matches: 157, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
123 44 0.28
124 113 0.72
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (124 bp):
GGCTTTAGCGGCGTTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGTAAA
AGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTGGTGAAAGCGCCACAAATGCTCAA
Found at i:45971287 original size:13 final size:13
Alignment explanation
Indices: 45971269--45971295 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45971259 TTCTTTTATA
45971269 ATCGTTAGAGTAT
1 ATCGTTAGAGTAT
45971282 ATCGTTAGAGTAT
1 ATCGTTAGAGTAT
45971295 A
1 A
45971296 GGGTTTTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (13 bp):
ATCGTTAGAGTAT
Found at i:45971382 original size:22 final size:21
Alignment explanation
Indices: 45971349--45971395 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
45971339 GTGTTACCAT
45971349 TTTAAGGTTTATAGATTATGGG
1 TTTAAGGTTTATAGATTAT-GG
* *
45971371 TTTAAGAG-TTATGGTTTATGG
1 TTTAAG-GTTTATAGATTATGG
45971392 TTTA
1 TTTA
45971396 TGATTTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 6 0.27
22 15 0.68
23 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (21 bp):
TTTAAGGTTTATAGATTATGG
Found at i:45971396 original size:29 final size:30
Alignment explanation
Indices: 45971354--45971482 Score: 76
Period size: 29 Copynumber: 4.4 Consensus size: 30
45971344 ACCATTTTAA
* *
45971354 GGTTTATAGATTATGGGTTTAAGAG-TTAT
1 GGTTTATGGTTTATGGGTTTAAGAGCTTAT
* *
45971383 GGTTTATGGTTTAT-GATTTAA-AGGCTTAA
1 GGTTTATGGTTTATGGGTTTAAGA-GCTTAT
** * *
45971412 GGTTTA-GAGGATATGTG-TTAAGAGTTTAT
1 GGTTTATG-GTTTATGGGTTTAAGAGCTTAT
*
45971441 GGTTTTATGGTTT-TAGGGTTT-A-AGTTTAT
1 GG-TTTATGGTTTAT-GGGTTTAAGAGCTTAT
*
45971470 GGTTTAGGGTTTA
1 GGTTTATGGTTTA
45971483 GATTAACTAG
Statistics
Matches: 76, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
27 1 0.01
28 17 0.22
29 45 0.59
30 10 0.13
31 3 0.04
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.47
Consensus pattern (30 bp):
GGTTTATGGTTTATGGGTTTAAGAGCTTAT
Found at i:45971477 original size:20 final size:21
Alignment explanation
Indices: 45971444--45971482 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
45971434 AGTTTATGGT
45971444 TTTATGGTTTTAGGGTTTAAG
1 TTTATGGTTTTAGGGTTTAAG
45971465 TTTATGG-TTTAGGGTTTA
1 TTTATGGTTTTAGGGTTTA
45971483 GATTAACTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.54
Consensus pattern (21 bp):
TTTATGGTTTTAGGGTTTAAG
Found at i:45971780 original size:21 final size:21
Alignment explanation
Indices: 45971755--45971816 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
45971745 TAGGGATTAT
* *
45971755 GGTTTAAGGGTTGGGATTTAA
1 GGTTTAAGGGTTAGGAGTTAA
*
45971776 TGTTTAAGGGTTAGGAGTTAA
1 GGTTTAAGGGTTAGGAGTTAA
* *
45971797 GGGTTAAGGGTTAAGAGTTA
1 GGTTTAAGGGTTAGGAGTTA
45971817 GAGATTTAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
GGTTTAAGGGTTAGGAGTTAA
Found at i:45971798 original size:14 final size:13
Alignment explanation
Indices: 45971779--45971817 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
45971769 GATTTAATGT
45971779 TTAAGGGTTAGGAG
1 TTAAGGGTTAGG-G
45971793 TTAAGGGTTAAGGG
1 TTAAGGGTT-AGGG
*
45971807 TTAAGAGTTAG
1 TTAAGGGTTAG
45971818 AGATTTAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 2 0.09
14 18 0.78
15 3 0.13
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (13 bp):
TTAAGGGTTAGGG
Found at i:45976469 original size:43 final size:43
Alignment explanation
Indices: 45976402--45976488 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
45976392 CAATGATGTA
* * *
45976402 CAAGATTTCCTTGAGTAAGTAAATGTATTATATCTTTTATTAC
1 CAAGATTTACTTGAGTAAGAAAATGCATTATATCTTTTATTAC
* * *
45976445 CAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTTATTAC
1 CAAGATTTACTTGAGTAAGAAAATGCATTATATCTTTTATTAC
45976488 C
1 C
45976489 TTGCATATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (43 bp):
CAAGATTTACTTGAGTAAGAAAATGCATTATATCTTTTATTAC
Found at i:45976954 original size:43 final size:43
Alignment explanation
Indices: 45976756--45976950 Score: 273
Period size: 43 Copynumber: 4.5 Consensus size: 43
45976746 GATATGCTTT
* *
45976756 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAAGTGATGATCTA
1 TAGCGACGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGATCTA
*
45976799 TAGCGACGTTTGTGGGAAAAGCGTCGCTAAAAGTGATGATCTA
1 TAGCGACGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGATCTA
* * *
45976842 TAGCGACGTTTGTGGGAAAAGTGTCACTAAAAGTCATGATCTT
1 TAGCGACGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGATCTA
* * * * *
45976885 TAGCGACATTTGTGGGAAAAGCGCCGCTAAAGGTCTTGTTCTA
1 TAGCGACGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGATCTA
* *
45976928 TAGCGGCGTTTGTGTGAAAAGCG
1 TAGCGACGTTTGTGGGAAAAGCG
45976951 CCGCCGCTAA
Statistics
Matches: 136, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 136 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (43 bp):
TAGCGACGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGATCTA
Found at i:45979424 original size:43 final size:43
Alignment explanation
Indices: 45979362--45979448 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
45979352 AGCTTTTATC
*
45979362 TCACATTTAATAACACATTAAATCTGCCTAACTTTCATGCATT
1 TCACATTTAATAACACATTAAATCTGACTAACTTTCATGCATT
* * *
45979405 TCACATTTAATAACTCATTACATCTGACTAACTTTCTTGCATT
1 TCACATTTAATAACACATTAAATCTGACTAACTTTCATGCATT
45979448 T
1 T
45979449 AATTATATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (43 bp):
TCACATTTAATAACACATTAAATCTGACTAACTTTCATGCATT
Found at i:45980465 original size:35 final size:35
Alignment explanation
Indices: 45980421--45980493 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
45980411 AAAAGATCCT
* ***
45980421 AAAAAATATTCAATTTATTTATACTAGTAACAATA
1 AAAAAATATTCAAATTAAGAATACTAGTAACAATA
45980456 AAAAAATATTCAAATTAAGAATACTAGTAACAATA
1 AAAAAATATTCAAATTAAGAATACTAGTAACAATA
45980491 AAA
1 AAA
45980494 TATTTATACT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (35 bp):
AAAAAATATTCAAATTAAGAATACTAGTAACAATA
Found at i:45982727 original size:24 final size:24
Alignment explanation
Indices: 45982678--45982727 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
45982668 TAATATATAA
** * *
45982678 AATTTTTAAAAATTAGAAATTTTT
1 AATTTTTAAAAACCAGAAAATATT
45982702 AATTTTTAAAAACCAGAAAATATT
1 AATTTTTAAAAACCAGAAAATATT
45982726 AA
1 AA
45982728 AAATTAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (24 bp):
AATTTTTAAAAACCAGAAAATATT
Found at i:45988679 original size:19 final size:19
Alignment explanation
Indices: 45988630--45988682 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
45988620 AGGGACTACA
*
45988630 AAAGAAAATAGAAA-AATG
1 AAAGAAAATAGAAATAAGG
* *
45988648 AAAAAAAACAGAAATAAGG
1 AAAGAAAATAGAAATAAGG
*
45988667 AGAGAAAATAGAAATA
1 AAAGAAAATAGAAATA
45988683 TGAAAATAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.72, C:0.02, G:0.17, T:0.09
Consensus pattern (19 bp):
AAAGAAAATAGAAATAAGG
Found at i:45996112 original size:42 final size:43
Alignment explanation
Indices: 45996005--45996159 Score: 154
Period size: 43 Copynumber: 3.6 Consensus size: 43
45995995 CTCGTACAAT
* * * *
45996005 GCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAACGAT
1 GCCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACGAC
* * * *
45996048 GCCACTGTCCCAGATAGGGTCTTACACGTAATCATAT-ACGAC
1 GCCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACGAC
* *
45996090 GCCAATGTCCCAAACATGGTCTTACACGTAAATCTCAAAT--CGAT
1 GCCAATGTCCCAGACATGGTCTTACACGT-AA--TCAAATAACGAC
**
45996134 GCCAATGTCCCAGATGTGGTCTTACA
1 GCCAATGTCCCAGACATGGTCTTACA
45996160 TGATATAACA
Statistics
Matches: 92, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
42 29 0.32
43 32 0.35
44 26 0.28
45 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACGAC
Found at i:45996725 original size:18 final size:20
Alignment explanation
Indices: 45996688--45996726 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
45996678 TTTCATTTTC
*
45996688 AATTCAACCCAAAATACTCA
1 AATTCAACCAAAAATACTCA
45996708 AATTC-ACCAAAAAT-CTCA
1 AATTCAACCAAAAATACTCA
45996726 A
1 A
45996727 TACAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (20 bp):
AATTCAACCAAAAATACTCA
Found at i:46000114 original size:19 final size:17
Alignment explanation
Indices: 46000092--46000127 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
46000082 AAGGATAGGC
46000092 AATCTTAGATATGATATGA
1 AATCTTAGA-A-GATATGA
46000111 AATCTTAGAAGATATGA
1 AATCTTAGAAGATATGA
46000128 TTTTGTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 1 0.06
19 9 0.53
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (17 bp):
AATCTTAGAAGATATGA
Found at i:46000126 original size:22 final size:23
Alignment explanation
Indices: 46000098--46000142 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
46000088 AGGCAATCTT
46000098 AGATATGA-TATGAAATCTTAGA
1 AGATATGATTATGAAATCTTAGA
* *
46000120 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGAAATCTTAGA
46000143 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGAAATCTTAGA
Found at i:46000362 original size:22 final size:23
Alignment explanation
Indices: 46000336--46000380 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
46000326 TGTGGAGTTT
46000336 AGATATGA-TATGAAATCTTAGA
1 AGATATGATTATGAAATCTTAGA
* *
46000358 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGAAATCTTAGA
46000381 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGAAATCTTAGA
Found at i:46000514 original size:238 final size:238
Alignment explanation
Indices: 46000096--46000568 Score: 928
Period size: 238 Copynumber: 2.0 Consensus size: 238
46000086 ATAGGCAATC
46000096 TTAGATATGATATGAAATCTTAGAAGATATGATTTTGTAATCTTAGAGATTTAATTTGTAGATAC
1 TTAGATATGATATGAAATCTTAGAAGATATGATTTTGTAATCTTAGAGATTTAATTTGTAGATAC
46000161 CCTTTAATCTTAGTCGTTGATGTAATTGATCTGTACTGTTGGATTTGGGGAGGCTCAACTATAAA
66 CCTTTAATCTTAGTCGTTGATGTAATTGATCTGTACTGTTGGATTTGGGGAGGCTCAACTATAAA
46000226 TAGAGGTCCCTCCCTTCATTGTAAAACACTGGAGTTTAGAGCAATAATAATTCTTAAGAGCATCC
131 TAGAGGTCCCTCCCTTCATTGTAAAACACTGGAGTTTAGAGCAATAATAATTCTTAAGAGCATCC
46000291 ACTCAAATTTCTCCCTCTCTTCTGTTCTTATTTTCTGTGGAGT
196 ACTCAAATTTCTCCCTCTCTTCTGTTCTTATTTTCTGTGGAGT
46000334 TTAGATATGATATGAAATCTTAGAAGATATGATTTTGTAATCTTAGAGATTTAATTTGTAGATAC
1 TTAGATATGATATGAAATCTTAGAAGATATGATTTTGTAATCTTAGAGATTTAATTTGTAGATAC
46000399 CCTTTAATCTTAGTCGTTGATGTAATTGATCTGTACTGTTGGATTTGGGGAGGCTCAACTATAAA
66 CCTTTAATCTTAGTCGTTGATGTAATTGATCTGTACTGTTGGATTTGGGGAGGCTCAACTATAAA
* *
46000464 TAGAGGTCCCTCCCTTCATTGTAAAACACTGGAGTTTGGAGCAATAATAATTCTTAAGAGTATCC
131 TAGAGGTCCCTCCCTTCATTGTAAAACACTGGAGTTTAGAGCAATAATAATTCTTAAGAGCATCC
46000529 ACTCAAATTTCTCCCTCTCTTCTGTTCTTATTTTCTGTGG
196 ACTCAAATTTCTCCCTCTCTTCTGTTCTTATTTTCTGTGG
46000569 CTTGTTCTTA
Statistics
Matches: 233, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
238 233 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (238 bp):
TTAGATATGATATGAAATCTTAGAAGATATGATTTTGTAATCTTAGAGATTTAATTTGTAGATAC
CCTTTAATCTTAGTCGTTGATGTAATTGATCTGTACTGTTGGATTTGGGGAGGCTCAACTATAAA
TAGAGGTCCCTCCCTTCATTGTAAAACACTGGAGTTTAGAGCAATAATAATTCTTAAGAGCATCC
ACTCAAATTTCTCCCTCTCTTCTGTTCTTATTTTCTGTGGAGT
Found at i:46007700 original size:44 final size:44
Alignment explanation
Indices: 46007628--46008083 Score: 362
Period size: 45 Copynumber: 10.2 Consensus size: 44
46007618 CGGTGAAACC
* * * *
46007628 ACAAATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * **
46007672 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGGAGACTGAAGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * * * *
46007716 AGCAAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGATG
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TT
* * * * * **
46007762 GCAAATATTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGAAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TT
* * * * * *
46007807 ACAAGTCTTATC-CCCTTGAAGTTGCAGTGGGGCAAACTGAAAATGG
1 ACAAATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGA-TTAAAGT-T
* * * **
46007853 A-AAATCTTATCTCCCTAAATTTGTAGTGGAGCAGATTAAAGCC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * *
46007896 A-ATAAT-TCTATCTCCCTAAAGTTGCAGTGGAGCGGGTTAAAGTT
1 ACA-AATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * *
46007940 ACAAATCTTAACTCCCTGAAGTTACAGTGGAGCAGACTGAAGATG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TT
* **
46007985 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCTTATTAAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* *
46008029 ACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
*
46008073 ACAAGTCTTAT
1 ACAAATCTTAT
46008084 TGAAGAAAGC
Statistics
Matches: 326, Mismatches: 75, Indels: 22
0.77 0.18 0.05
Matches are distributed among these distances:
43 3 0.01
44 156 0.48
45 161 0.49
46 6 0.02
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
Found at i:46008007 original size:89 final size:89
Alignment explanation
Indices: 46007629--46008061 Score: 424
Period size: 89 Copynumber: 4.9 Consensus size: 89
46007619 GGTGAAACCA
* * * * *
46007629 CAAATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGT
*
46007694 TGCAGTGGAGGAGACTGAAGAAAG
66 TGCAGTGGAGCAGACTGAAGAAAG
* * * * * * ** *
46007718 CAAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATATTATCTCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TTACAAATCTTATCTCCCTGAAG
* *
46007783 TTGCAGTGAAGCAGACTGAAGAAAA
65 TTGCAGTGGAGCAGACTGAAGAAAG
* * * * * * *
46007808 CAAGTCTTATC-CCCTTGAAGTTGCAGTGGGGCAAACTGAAAATGGA-AAATCTTATCTCCCTAA
1 CAAATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGA-TTAAAGT-TACAAATCTTATCTCCCTGA
* * * * *
46007871 ATTTGTAGTGGAGCAGATTAAAGCCAA-
63 AGTTGCAGTGGAGCAGACTGAAG-AAAG
* * * * * *
46007898 TAATTC-TATCTCCCTAAAGTTGCAGTGGAGCGGGTTAAAGTTACAAATCTTAACTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGT
* **
46007962 TACAGTGGAGCAGACTGAAGATGG
66 TGCAGTGGAGCAGACTGAAGAAAG
** *
46007986 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCTTATTAAAGTTACAAATCCTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGT
46008051 TGCAGTGGAGC
66 TGCAGTGGAGC
46008062 GGATTAAAGT
Statistics
Matches: 274, Mismatches: 61, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
87 1 0.00
88 42 0.15
89 115 0.42
90 111 0.41
91 5 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (89 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGT
TGCAGTGGAGCAGACTGAAGAAAG
Found at i:46008378 original size:44 final size:44
Alignment explanation
Indices: 46008323--46008503 Score: 118
Period size: 44 Copynumber: 4.1 Consensus size: 44
46008313 TTGTGGATCC
* * *
46008323 TATCTCTCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAATCT
* * ** * ** *
46008367 TATCTTCCTAAGATAGTAG-GGAAGCAGATTTAAG-CCACCAGTCT
1 TATCTCCCTAAG-CAGTAGTGG-AGCAGATCGAAGACGATGAATCT
* * * * * * * *
46008411 TATCTCCCTGACCAGCAGTGGAGTAGGTTGAAGA--TTGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATG-A-ATCT
*
46008455 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAACACGATGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAATCT
46008499 TATCT
1 TATCT
46008504 TCCCGAGGTA
Statistics
Matches: 97, Mismatches: 32, Indels: 16
0.67 0.22 0.11
Matches are distributed among these distances:
43 14 0.14
44 65 0.67
45 16 0.16
46 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAATCT
Found at i:46008466 original size:132 final size:132
Alignment explanation
Indices: 46008293--46008684 Score: 538
Period size: 132 Copynumber: 3.0 Consensus size: 132
46008283 CTCTGAATTT
* * * *
46008293 GCAGTAGAGTAGGTTTAAGATTGTGGATCCTATCTCTCTAAGCAGTAGTGGAGCAGATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
** *
46008358 GGTGAATCTTATCTTCCTAAGATAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTGAC
66 GGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTGAC
46008423 CA
131 CA
* *
46008425 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAACAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* * * * *
46008490 GATGAATCTTATCTTCCCGAGGTAGTA-GGAAGCAGATTTAAGCTACCAGTCCTATCTTCCTAAC
66 GGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTGAC
*
46008554 TA
131 CA
* * * *
46008556 GTAGTGGGGTAGGTTGAAGATTGTATATCCTGTC-CCCTTAA-CAAGTAGTGGAGCAGATCAAAG
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCTCCC-TAAGC-AGTAGTGGAGCAGATCAAAG
* * * *
46008619 AAGGCGAGTCTTATCTTCCCGAGGTAGTAGGGAAGCAAATTTAAGCCACCAGTCTTATCTCCCTG
64 ACGGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTG
46008684 A
129 A
46008685 TGTTGCAGTG
Statistics
Matches: 227, Mismatches: 30, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
130 4 0.02
131 110 0.48
132 113 0.50
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (132 bp):
GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
GGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTGAC
CA
Found at i:46009161 original size:19 final size:17
Alignment explanation
Indices: 46009139--46009174 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
46009129 AAAGATAGGC
46009139 AATCTTAGATATGATATGA
1 AATCTTAGA-A-GATATGA
46009158 AATCTTAGAAGATATGA
1 AATCTTAGAAGATATGA
46009175 TTTTGTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 1 0.06
19 9 0.53
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (17 bp):
AATCTTAGAAGATATGA
Found at i:46009173 original size:22 final size:23
Alignment explanation
Indices: 46009145--46009189 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
46009135 AGGCAATCTT
46009145 AGATATGA-TATGAAATCTTAGA
1 AGATATGATTATGAAATCTTAGA
* *
46009167 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGAAATCTTAGA
46009190 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGAAATCTTAGA
Found at i:46015560 original size:45 final size:45
Alignment explanation
Indices: 46015510--46015631 Score: 181
Period size: 45 Copynumber: 2.7 Consensus size: 45
46015500 TGTTAGTATA
*
46015510 GTGTGGATGAACCACTCATCGGTGCAGATAAAAGCTGCTAATACG
1 GTGTGGATAAACCACTCATCGGTGCAGATAAAAGCTGCTAATACG
* * *
46015555 GTGTGGATAAACCACTCATTGGTGCAGATAAAAGTTGCTAATATG
1 GTGTGGATAAACCACTCATCGGTGCAGATAAAAGCTGCTAATACG
* * *
46015600 GTGTGGGTAAACCACTCAACGGTGTAGATAAA
1 GTGTGGATAAACCACTCATCGGTGCAGATAAA
46015632 TTGCTCATAC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (45 bp):
GTGTGGATAAACCACTCATCGGTGCAGATAAAAGCTGCTAATACG
Found at i:46017690 original size:49 final size:49
Alignment explanation
Indices: 46017637--46017794 Score: 115
Period size: 49 Copynumber: 3.1 Consensus size: 49
46017627 AATCACTTAA
*
46017637 CAAAACAAGTTTGTTTAACAACCAAGATTAATAATCTATTAAATAACTT
1 CAAAACAAGTTTGTTTAACAACCAAGATTAATAATCTATAAAATAACTT
***** * * ** *
46017686 CAAAACATA-TTAAAAAAACAACCATG-TCAAGT-CCCTCATCAAAAATCACTT
1 CAAAACA-AGTTTGTTTAACAACCAAGATTAA-TAATCT-AT--AAAATAACTT
* *
46017737 AACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCTATCAAATAACTT
1 --CAAAACAAGTTTGTTTAACAACCAAGATTAATAATCTATAAAATAACTT
46017788 CAAAACA
1 CAAAACA
46017795 TATTCAAAAA
Statistics
Matches: 76, Mismatches: 23, Indels: 20
0.64 0.19 0.17
Matches are distributed among these distances:
48 5 0.07
49 28 0.37
50 1 0.01
51 16 0.21
52 1 0.01
53 20 0.26
54 5 0.07
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (49 bp):
CAAAACAAGTTTGTTTAACAACCAAGATTAATAATCTATAAAATAACTT
Found at i:46017747 original size:102 final size:101
Alignment explanation
Indices: 46017621--46017824 Score: 363
Period size: 102 Copynumber: 2.0 Consensus size: 101
46017611 TTCAAAATTA
* *
46017621 ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAGATTAATAATCTATTAAATAACTT
1 ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCTATCAAATAACTT
*
46017686 CAAAACATATTAAAAAAACAACCATGTCAAGTCCCTC
66 CAAAACATATT-AAAAAACAACCATGGCAAGTCCCTC
46017723 ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCTATCAAATAACTT
1 ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCTATCAAATAACTT
*
46017788 CAAAACATATTCAAAAACAACCATGGCAAGTCCCTC
66 CAAAACATATTAAAAAACAACCATGGCAAGTCCCTC
46017824 A
1 A
46017825 ACCTTTAATA
Statistics
Matches: 98, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
101 24 0.24
102 74 0.76
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.25
Consensus pattern (101 bp):
ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCTATCAAATAACTT
CAAAACATATTAAAAAACAACCATGGCAAGTCCCTC
Found at i:46017780 original size:53 final size:53
Alignment explanation
Indices: 46017621--46017781 Score: 129
Period size: 53 Copynumber: 3.1 Consensus size: 53
46017611 TTCAAAATTA
*
46017621 ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAGATTAATAATCT
1 ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCT
* * ***** ** * **
46017674 AT--TAAATAACTT--CAAAACATA-TTAAAAAAACAACC-ATGTCAAGT-CCCT
1 ATCAAAAATCACTTAACAAAACA-AGTTTGTTTAACAACCAAAATTAA-TAATCT
46017722 CATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCT
1 -ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCT
46017776 ATCAAA
1 ATCAAA
46017782 TAACTTCAAA
Statistics
Matches: 74, Mismatches: 24, Indels: 20
0.63 0.20 0.17
Matches are distributed among these distances:
48 6 0.08
49 19 0.26
50 1 0.01
51 16 0.22
52 1 0.01
53 25 0.34
54 6 0.08
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (53 bp):
ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCT
Found at i:46018066 original size:20 final size:20
Alignment explanation
Indices: 46018021--46018067 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
46018011 CTTTCTTTTG
*
46018021 TATTTTATTTACTTAAATTT
1 TATTTTATTTACTTAAATTC
*
46018041 TCTTTTATTTAC-TAAATTGC
1 TATTTTATTTACTTAAATT-C
46018061 TATTTTA
1 TATTTTA
46018068 ACCTTATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTTTATTTACTTAAATTC
Found at i:46019048 original size:17 final size:17
Alignment explanation
Indices: 46019008--46019050 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
46018998 TCTAGCTTTC
46019008 ACAATTTAAGTTTTCAA
1 ACAATTTAAGTTTTCAA
*
46019025 ACTATTTAAGTTTTTCAA
1 ACAATTTAAG-TTTTCAA
46019043 A-AATTTAA
1 ACAATTTAA
46019051 ATTTAAAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (17 bp):
ACAATTTAAGTTTTCAA
Found at i:46021358 original size:30 final size:31
Alignment explanation
Indices: 46021302--46021363 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
46021292 ATTTGATCAT
46021302 TGAACTATTAAAAAATTTTCATTTAAGTCAC
1 TGAACTATTAAAAAATTTTCATTTAAGTCAC
*
46021333 TGAACTATTCAAAAATTTT-ATTTAAGTCAC
1 TGAACTATTAAAAAATTTTCATTTAAGTCAC
46021363 T
1 T
46021364 AGGTTATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (31 bp):
TGAACTATTAAAAAATTTTCATTTAAGTCAC
Found at i:46022514 original size:123 final size:124
Alignment explanation
Indices: 46022222--46022525 Score: 368
Period size: 123 Copynumber: 2.4 Consensus size: 124
46022212 TTGAAATTTT
* *
46022222 AAAATAAATACTCATTTGATTA-CAATGTAACATTCCTAAGTTAAGGTAGGTTCAGTGCCCCAAA
1 AAAA-AAATACTCACTTGA-TAGCAATGTAACATTCCTAAGTTAAGGTAGGTTCAGT--CACAAA
* * *
46022286 AGAGTCAGTAGTTGTTAGACTAGCTTTGGCTTGATGGCAATGGTGTAGGTAGGGGGCTAGCAGG
62 ACAG-CAGTAGTTGTTAGACTAGCTTTGGCTTGATGGCAATGGCGTAAGTAGGGGGCTAGCAGG
* * * *
46022350 AAAAAAATACTTACTGGATAGCAATGTAACATTCCTAAGTTAAGGTAAGTTCAGT-ACAAGAACC
1 AAAAAAATACTCACTTGATAGCAATGTAACATTCCTAAGTTAAGGTAGGTTCAGTCACAA-AACA
* * *
46022414 G-A-TAGTTGTTAGACTAGCTTTGGCTTGATGGC-ATAGGCGTAATTAGGAGGGTTGGCAAGG
65 GCAGTAGTTGTTAGACTAGCTTTGGCTTGATGGCAAT-GGCGTAAGTAGG-GGGCTAGC-AGG
*
46022474 -AAAAAATACTCACTTGATAGCAATGTAACATTCCTAAGTTAAGCTAGGTTCA
1 AAAAAAATACTCACTTGATAGCAATGTAACATTCCTAAGTTAAGGTAGGTTCA
46022526 ATGTCTCAGA
Statistics
Matches: 155, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
121 2 0.01
122 39 0.25
123 55 0.35
124 6 0.04
125 3 0.02
126 2 0.01
127 44 0.28
128 4 0.03
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (124 bp):
AAAAAAATACTCACTTGATAGCAATGTAACATTCCTAAGTTAAGGTAGGTTCAGTCACAAAACAG
CAGTAGTTGTTAGACTAGCTTTGGCTTGATGGCAATGGCGTAAGTAGGGGGCTAGCAGG
Found at i:46027807 original size:51 final size:51
Alignment explanation
Indices: 46027731--46027832 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
46027721 AGACCTGACC
46027731 CGGACAATCGACCGACGTTGAAGCCCGAACCACCGACGGTTGACCATCATA
1 CGGACAATCGACCGACGTTGAAGCCCGAACCACCGACGGTTGACCATCATA
46027782 CGGACAATCGACCGACGTTGAAGCCCGAACCACCGACGGTTGACCATCATA
1 CGGACAATCGACCGACGTTGAAGCCCGAACCACCGACGGTTGACCATCATA
46027833 ATCGCGATTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.29, C:0.33, G:0.24, T:0.14
Consensus pattern (51 bp):
CGGACAATCGACCGACGTTGAAGCCCGAACCACCGACGGTTGACCATCATA
Found at i:46028875 original size:13 final size:13
Alignment explanation
Indices: 46028857--46028887 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
46028847 AGCTAGCTGT
*
46028857 TGCTAGTAACTGC
1 TGCTAGTAACTAC
46028870 TGCTAGTAACTAC
1 TGCTAGTAACTAC
46028883 TGCTA
1 TGCTA
46028888 ACAACATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (13 bp):
TGCTAGTAACTAC
Found at i:46033999 original size:71 final size:71
Alignment explanation
Indices: 46033869--46034000 Score: 165
Period size: 71 Copynumber: 1.9 Consensus size: 71
46033859 AAAATCATAA
* * * * ** *
46033869 AGTTAGCAAAAAAAAATGAGCTATCTGAAAGAGTTAGTCAATAAAGGAGTTAGCCAAAAGGCTCA
1 AGTTAACAAAAAAAAATGAGCTAGCTAAAAGAGTTAGTCAAGAAAGGAGAAAGCAAAAAGGCTCA
46033934 CCAAAT
66 CCAAAT
* * * *
46033940 AGTTAACAAAAAAAAATGGGCTAGCTAAAAGAGTTGGTTAAGAAAGGAGAAAGGAAAAAGG
1 AGTTAACAAAAAAAAATGAGCTAGCTAAAAGAGTTAGTCAAGAAAGGAGAAAGCAAAAAGG
46034001 TTCATAAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
71 50 1.00
ACGTcount: A:0.49, C:0.10, G:0.23, T:0.17
Consensus pattern (71 bp):
AGTTAACAAAAAAAAATGAGCTAGCTAAAAGAGTTAGTCAAGAAAGGAGAAAGCAAAAAGGCTCA
CCAAAT
Found at i:46034359 original size:27 final size:28
Alignment explanation
Indices: 46034323--46034412 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 28
46034313 GAGCTAACGA
* *
46034323 AAAAAGGGAGTTAGCCTGATGAGTTG-CT
1 AAAAA-GGAGTTAGCCAGAAGAGTTGACT
* *
46034351 AAAAAGGAGTTAGCCAGAAGAGTTTGCCA
1 AAAAAGGAGTTAGCCAGAAGAG-TTGACT
46034380 AAAAAGG-GTTAGCCAGAAGAGTTAGACT
1 AAAAAGGAGTTAGCCAGAAGAGTT-GACT
46034408 AAAAA
1 AAAAA
46034413 AAAGGCTAGC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
27 17 0.31
28 29 0.54
29 8 0.15
ACGTcount: A:0.42, C:0.11, G:0.28, T:0.19
Consensus pattern (28 bp):
AAAAAGGAGTTAGCCAGAAGAGTTGACT
Found at i:46034379 original size:13 final size:13
Alignment explanation
Indices: 46034357--46034404 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
46034347 TGCTAAAAAG
46034357 GAGTTAGCCAGAA
1 GAGTTAGCCAGAA
* *
46034370 GAGTTTGCCAAAAAA
1 GAGTTAGCC--AGAA
*
46034385 GGGTTAGCCAGAA
1 GAGTTAGCCAGAA
46034398 GAGTTAG
1 GAGTTAG
46034405 ACTAAAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 17 0.63
15 10 0.37
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (13 bp):
GAGTTAGCCAGAA
Found at i:46034439 original size:28 final size:28
Alignment explanation
Indices: 46034361--46034440 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 28
46034351 AAAAAGGAGT
* * *
46034361 TAGCCAGAAGAGTTTGCCAAAAAAGGGT
1 TAGCCAGAAGAGTTTGCAAAAAAAAGGC
*
46034389 TAGCCAGAAGAGTTAGACTAAAAAAAAGGC
1 TAGCCAGAAGAGTTTG-C-AAAAAAAAGGC
*
46034419 TAGCTAGAAGAGTTTGCAAAAA
1 TAGCCAGAAGAGTTTGCAAAAA
46034441 TGGGAGTTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
28 20 0.45
29 2 0.05
30 22 0.50
ACGTcount: A:0.45, C:0.12, G:0.25, T:0.17
Consensus pattern (28 bp):
TAGCCAGAAGAGTTTGCAAAAAAAAGGC
Found at i:46034470 original size:58 final size:58
Alignment explanation
Indices: 46034361--46034470 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
46034351 AAAAAGGAGT
*
46034361 TAGCCAGAAGAGTTTGCCAAAAAAGGGTTAGCCAGAAGAGTTAGACTAAAAAAAAGGC
1 TAGCCAGAAGAGTTTGCCAAAAAAGGGTTAGCAAGAAGAGTTAGACTAAAAAAAAGGC
* * * *
46034419 TAGCTAGAAGAGTTTG-CAAAAATGGGAGTTAGTAAGAATAGTTAGAC-AAAAA
1 TAGCCAGAAGAGTTTGCCAAAAA-AGG-GTTAGCAAGAAGAGTTAGACTAAAAA
46034471 GGAGGTAACA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
57 6 0.13
58 22 0.49
59 17 0.38
ACGTcount: A:0.45, C:0.10, G:0.25, T:0.19
Consensus pattern (58 bp):
TAGCCAGAAGAGTTTGCCAAAAAAGGGTTAGCAAGAAGAGTTAGACTAAAAAAAAGGC
Done.