Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold265
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: 864291
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
File 2 of 6
Found at i:145379 original size:22 final size:21
Alignment explanation
Indices: 145354--145404 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
145344 ATATTTTATT
145354 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAA-TATAAAAATA-A
145376 TAAATATTAATATAAAAATAA
1 TAAATATTAATATAAAAATAA
*
145397 TAATTATT
1 TAAATATT
145405 TTTTATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 8 0.30
22 15 0.56
23 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAATATTAATATAAAAATAA
Found at i:146078 original size:6 final size:6
Alignment explanation
Indices: 146055--146100 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
146045 TTTTGATTTC
* *
146055 AAATAT AAAAATT AAATAT AAATAT ATAT-T AAATAT AAATAT AAAT
1 AAATAT AAATA-T AAATAT AAATAT AAATAT AAATAT AAATAT AAAT
146101 TTGAATTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
5 4 0.12
6 25 0.74
7 5 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AAATAT
Found at i:146087 original size:17 final size:17
Alignment explanation
Indices: 146065--146097 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
146055 AAATATAAAA
146065 ATTAAATATAAATATAT
1 ATTAAATATAAATATAT
146082 ATTAAATATAAATATA
1 ATTAAATATAAATATA
146098 AATTTGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTAAATATAAATATAT
Found at i:146690 original size:2 final size:2
Alignment explanation
Indices: 146683--146721 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
146673 GAAAAGAAAT
146683 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
146722 CAGAAGCTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:147559 original size:2 final size:2
Alignment explanation
Indices: 147552--147587 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
147542 CCTCTTGCCA
147552 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
147588 TCTTGTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:148376 original size:2 final size:2
Alignment explanation
Indices: 148369--148412 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
148359 TACATAAGAC
* * *
148369 TA TA TA TA TA TA TA TC TA AA TA TA TA TA TA TA TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
148411 TA
1 TA
148413 GGCAAAGGAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:148996 original size:41 final size:41
Alignment explanation
Indices: 148951--149033 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
148941 TTTTAAAATT
* * *
148951 TAAAATTAATTAAAA-AT-ATTTAAATTTTATTTTTTATTTTA
1 TAAAATT-ATTAAAATATAATTCAAATTTT-TATATTATTTTA
*
148992 TAAAATTTTTAAAATATAATTCAAATTTTTATATTATTTTA
1 TAAAATTATTAAAATATAATTCAAATTTTTATATTATTTTA
149033 T
1 T
149034 TAACTGAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
40 6 0.17
41 20 0.56
42 10 0.28
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (41 bp):
TAAAATTATTAAAATATAATTCAAATTTTTATATTATTTTA
Found at i:149696 original size:19 final size:20
Alignment explanation
Indices: 149667--149705 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
149657 CTTAGATTAA
149667 AATAGTA-TTTTATATTAAAT
1 AATAGTATTTTTAT-TTAAAT
149687 AATA-TATTTTTATTTAAAT
1 AATAGTATTTTTATTTAAAT
149706 TTAATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
AATAGTATTTTTATTTAAAT
Found at i:153032 original size:20 final size:20
Alignment explanation
Indices: 152985--153059 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
152975 AAAAAGACAT
*
152985 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
153004 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
153025 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
153045 AATGTATCGATACAT
1 AATGTATCGATACAT
153060 CAGGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:153053 original size:40 final size:39
Alignment explanation
Indices: 152982--153059 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
152972 GGTAAAAAGA
* *
152982 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
153021 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
153060 CAGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:153635 original size:32 final size:32
Alignment explanation
Indices: 153586--154037 Score: 689
Period size: 32 Copynumber: 14.1 Consensus size: 32
153576 AAAATGGTGA
* * ** *
153586 TTTGAAAAGGGTTGCCACTGACTTGCATGAGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
153618 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
153650 TTTGAAAAT-GGTTGCCATCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
*
153682 TTTGAAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
153714 TTTGGAATGAGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
153746 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
153778 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
153810 TTTGAAAAT-GGTTGCCACTGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
*
153842 TTTGAAATAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
153874 TTTGAGAA-GGGTTGCCACCGACTTGTGTGGGC
1 TTTGA-AATGGGTTGCCACCGACTTGTGTGGGC
153906 TTTGAAAAT-GGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
153938 TTTGAAAAT-GGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
153970 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
154002 TTTGAAATAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
154034 TTTG
1 TTTG
154038 GGTGCCACAG
Statistics
Matches: 389, Mismatches: 23, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
31 12 0.03
32 367 0.94
33 10 0.03
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:154110 original size:82 final size:79
Alignment explanation
Indices: 154037--155402 Score: 1778
Period size: 82 Copynumber: 16.7 Consensus size: 79
154027 TGTGGGCTTT
* * * * *
154037 GGGTGCCACAGAGTTGTGGATTTTAAAAGAGTGCCACAGAGTTGTGGATTTTAAAAGGGTGCCAC
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCAC
*
154102 AGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTT--AA
* * * * * * **
154120 GAGATGCCACGGAGTTATGGACTTAAAAGGGTGTCACGGAGTTGCGGTCTTAAAAGGATGCCATT
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
154185 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTT--AA
* *
154202 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTAGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
154267 AGTTGTGGACTAAAAA
66 AGTTGTGGACT--TAA
* * *
154283 GGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
154348 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTT--AA
* * * *
154365 GAGATGCCATGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
* *
154430 GAGTTGCGGTCTTAAAA
65 GAGTTGTGGACTT--AA
* *
154447 GGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
154512 AGTTGTGGACTTAAAA
66 AGTTGTGGACTT--AA
* * *
154528 GGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
154593 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TT--AA
* * *
154611 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACG
*
154676 GAGTTATGGACTTAAAA
65 GAGTTGTGGACTT--AA
* *
154693 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTAGTCTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
154758 GAGTTGTGGACTTATAA
65 GAGTTGTGGAC-T-TAA
*
154775 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGATTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
154840 AGTTGTGGACTTTAAAA
66 AGTTGTGGAC-TT--AA
* **
154857 GGATGCCACAAAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
154922 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTT--AA
*
154939 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
155004 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTT--AA
* * * * *
155021 GAGATGCCATGGAGTTATGGACTTAAAAGGGTACCACGAAGTTGTGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
155086 GAGTTGTGGTCTTAAAA
65 GAGTTGTGGACTT--AA
* *
155103 GGGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
155168 GAGTTGTGGTCTTAAAA
65 GAGTTGTGGACTT--AA
155185 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
155250 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTT--AA
* * * * *
155267 GGATGCCACAGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTGGACTTAAAAGGGTGCAACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
155332 AGTTGTGGACTTATAA
66 AGTTGTGGAC-T-TAA
* * *
155348 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGGCTTTAAAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
155403 AGGTCACAGT
Statistics
Matches: 1165, Mismatches: 97, Indels: 44
0.89 0.07 0.03
Matches are distributed among these distances:
80 1 0.00
81 365 0.31
82 587 0.50
83 195 0.17
84 17 0.01
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.23
Consensus pattern (79 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAA
Found at i:154171 original size:27 final size:27
Alignment explanation
Indices: 154037--155402 Score: 2048
Period size: 27 Copynumber: 50.0 Consensus size: 27
154027 TGTGGGCTTT
* *
154037 GGGTGCCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
* * *
154065 GAGTGCCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
*
154093 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
154120 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
* * *
154148 GGGTGTCACGGAGTTGCGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* **
154175 GGATGCCATTGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
154202 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
154229 GGGTGTCACGGAGTTGTAGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
154256 GGGTGCCACGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
154283 GGGTGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
154311 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
154338 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
154365 GAGATGCCATGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
154393 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
154420 AGGTGCCACGGAGTTGCGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
154447 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
154474 GGGTGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
154501 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
154528 GGGTGCCACGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
154555 GGGTGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
154583 GGGTGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
154611 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
154638 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
154665 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
154693 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
154720 GGGTGCCACGGAGTTGTAGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
154747 GGGATGCCACGGAGTTGTGGACTTATAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
154775 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
154802 GGGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
154829 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* **
154857 GGATGCCACAAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
154884 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
154912 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
154939 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
154966 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
154994 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
155021 GAGATGCCATGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
* *
155049 GGGTACCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
155076 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
155103 GGGATGCCACGGAGTTATGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
155131 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
155158 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
155185 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
155213 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
155240 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
155267 GGATGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
155294 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
155321 GGGTGCAACGGAGTTGTGGACTTATAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
155348 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
155375 GGGTGCCATGGAGTTGTGGGCTTTAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
155402 G
1 G
155403 AGGTCACAGT
Statistics
Matches: 1227, Mismatches: 99, Indels: 25
0.91 0.07 0.02
Matches are distributed among these distances:
27 857 0.70
28 370 0.30
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:156444 original size:9 final size:9
Alignment explanation
Indices: 156430--156454 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
156420 AAAAGGTTTT
156430 TTTTTTTGG
1 TTTTTTTGG
156439 TTTTTTTGG
1 TTTTTTTGG
156448 TTTTTTT
1 TTTTTTT
156455 TTTAGGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (9 bp):
TTTTTTTGG
Found at i:156767 original size:24 final size:24
Alignment explanation
Indices: 156740--156786 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
156730 TGCTTTTGCA
* *
156740 CTTTTTCTTTTCATTTTTTTTGTG
1 CTTTTGCTTTTCACTTTTTTTGTG
*
156764 CTTTTGCTTTTGACTTTTTTTGT
1 CTTTTGCTTTTCACTTTTTTTGT
156787 CATTTAAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.04, C:0.13, G:0.11, T:0.72
Consensus pattern (24 bp):
CTTTTGCTTTTCACTTTTTTTGTG
Found at i:162931 original size:22 final size:22
Alignment explanation
Indices: 162903--162957 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
162893 TGGACATGTT
162903 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
162925 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
162947 AAAAATGCATG
1 AAAAATGCATG
162958 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:163919 original size:20 final size:20
Alignment explanation
Indices: 163872--163946 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
163862 AAAAAGACAT
*
163872 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
163891 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
163912 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
163932 AATGTATCGATACAT
1 AATGTATCGATACAT
163947 CAGGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:163940 original size:40 final size:39
Alignment explanation
Indices: 163869--163946 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
163859 GGTAAAAAGA
* *
163869 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
163908 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
163947 CAGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:164318 original size:2 final size:2
Alignment explanation
Indices: 164311--164347 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
164301 TTATATGTGA
*
164311 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
164348 GTTATTACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:168090 original size:21 final size:21
Alignment explanation
Indices: 168065--168107 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
168055 ATAATTAGAG
168065 GAGGTAGGGGATGTACACCAA
1 GAGGTAGGGGATGTACACCAA
168086 GAGGTAGGGGATGTACACCAA
1 GAGGTAGGGGATGTACACCAA
168107 G
1 G
168108 CCTTAGCAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.40, T:0.14
Consensus pattern (21 bp):
GAGGTAGGGGATGTACACCAA
Found at i:174443 original size:20 final size:20
Alignment explanation
Indices: 174420--174489 Score: 64
Period size: 20 Copynumber: 3.9 Consensus size: 20
174410 ATACATTTTG
*
174420 CATTGTATTAATACATTGCT
1 CATTGTATCAATACATTGCT
174440 CATTGTATCAAT--A----T
1 CATTGTATCAATACATTGCT
*
174454 -ATTGTATCGATACATTGCT
1 CATTGTATCAATACATTGCT
*
174473 CATTGTATCGATACATT
1 CATTGTATCAATACATT
174490 TTACAATGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
15 1 0.02
18 1 0.02
19 1 0.02
20 27 0.66
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (20 bp):
CATTGTATCAATACATTGCT
Found at i:174499 original size:20 final size:20
Alignment explanation
Indices: 174456--174509 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
174446 ATCAATATAT
*
174456 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAA
*
174476 TGTATCGATACATT-TTACAA
1 TGTATCGATACATTGCT-CAA
174496 TGTATCGATACATT
1 TGTATCGATACATT
174510 CAAGCATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAA
Found at i:176884 original size:51 final size:51
Alignment explanation
Indices: 176807--176944 Score: 172
Period size: 51 Copynumber: 2.7 Consensus size: 51
176797 TTTCATCTCG
* * * *
176807 GGGATACTCCAA-TCCCGATTTCATTTCTAAAACATCAATTTTTCTTAATC-
1 GGGATACTCCAACT-CCGATTTTATTTCTAAAACACCAATTTTCCATAATCA
* * *
176857 GAGGATACTTCAACTCCGGTTTTATTTCTAAAACACCCATTTTCCATAATCA
1 G-GGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTCCATAATCA
*
176909 GGGATACTCCAACTCCGATTTTATTTCCAAAACACC
1 GGGATACTCCAACTCCGATTTTATTTCTAAAACACC
176945 GACTTTTCAC
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
50 1 0.01
51 72 0.96
52 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.34
Consensus pattern (51 bp):
GGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTCCATAATCA
Found at i:176966 original size:51 final size:50
Alignment explanation
Indices: 176796--176972 Score: 164
Period size: 51 Copynumber: 3.5 Consensus size: 50
176786 ATTTCTAGAT
* * * *
176796 TTTTCAT-CTCGGGGATACTCCAA-TCCCGATTTCATTTCTAAAACATCAA
1 TTTTCATAATCGGAGATACTCCAACT-CCGATTTTATTTCTAAAACACCAA
* * * *
176845 TTTTTCTTAATC-GAGGATACTTCAACTCCGGTTTTATTTCTAAAACACCCA
1 -TTTTCATAATCGGA-GATACTCCAACTCCGATTTTATTTCTAAAACACCAA
* *
176896 TTTTCCATAATCAGG-GATACTCCAACTCCGATTTTATTTCCAAAACACCGAC
1 TTTT-CATAATC-GGAGATACTCCAACTCCGATTTTATTTCTAAAACACC-AA
* *
176948 TTTTCACAATCGGAGATACTACAAC
1 TTTTCATAATCGGAGATACTCCAAC
176973 CCTGTTATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
50 13 0.13
51 84 0.82
52 5 0.05
53 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (50 bp):
TTTTCATAATCGGAGATACTCCAACTCCGATTTTATTTCTAAAACACCAA
Found at i:177135 original size:78 final size:77
Alignment explanation
Indices: 176909--177198 Score: 327
Period size: 79 Copynumber: 3.7 Consensus size: 77
176899 TCCATAATCA
* * * * *
176909 GGGATACTCCAACTCCGATTTTATTTCCAAAACACCGACTTTTCACAATCGGAGATACTACAACC
1 GGGATACTCCAAC-CCGATTTTATTTCTAAAACACCAATTTTTCA-AATCGGGGATACTCCAACC
* *
176974 CTGTTATTTTTGAG
64 CCGTTATTTTCGAG
* * *
176988 GAGACACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTC--ATCGGGGATACTCCAACCC
1 GGGATACTCCAA-CCCGATTTTATTTCTAAAACACCAATTTTTCAAATCGGGGATACTCCAACCC
177051 CGTTATTTTCGAG
65 CGTTATTTTCGAG
* * *
177064 GGGATACTCCAACCACGATTTT-TTTTTAAAACATCAATTTTTCATAATAGGGGATACTCCAACC
1 GGGATACTCCAACC-CGATTTTATTTCTAAAACACCAATTTTTCA-AATCGGGGATACTCCAACC
*
177128 CCGTTATTTTCAAG
64 CCGTTATTTTCGAG
* * *
177142 AGGATACTCCAACCTTGATTTTATTTCTAAAACACCAA-TTCTCTACAATCGGGGATA
1 GGGATACTCCAACC-CGATTTTATTTCTAAAACACCAATTTTTC-A-AATCGGGGATA
177199 TTCTAACTCC
Statistics
Matches: 181, Mismatches: 23, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
75 22 0.12
76 45 0.25
78 53 0.29
79 60 0.33
80 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.32
Consensus pattern (77 bp):
GGGATACTCCAACCCGATTTTATTTCTAAAACACCAATTTTTCAAATCGGGGATACTCCAACCCC
GTTATTTTCGAG
Found at i:177401 original size:158 final size:158
Alignment explanation
Indices: 177113--177441 Score: 362
Period size: 158 Copynumber: 2.1 Consensus size: 158
177103 TTTCATAATA
* * ** * *
177113 GGGGATACTCCAACCCCGTTATTTTCAAGAGGATACTCCAACCTTGATTTTATTTCTAAAACACC
1 GGGGATACTCCAACCCAGTTATTTCCAAGAGGATACTCCAACCCAGACTTTATTTCCAAAACACC
* ** *
177178 AATTCTCTACAATCGGGGATATTCTAACTCCGATTTTATTTTCAAAACACTAATTTTTCATAATT
66 AATTCTCTACAATCAGGGATATTCTAACTCCGACCTTATTTTCAAAACACTAATTTCTCATAATT
* *
177243 GGAGATACTACAACCTCGTTA-TTTCATC
131 GGAGATACTACAACCCCATTATTTTCA-C
* * * **
177271 GGGGATACTCCAACCCAGTTATTTCCAAGAGGATACTCTAACCCAGGCTTTATTTCCAAAATATT
1 GGGGATACTCCAACCCAGTTATTTCCAAGAGGATACTCCAACCCAGACTTTATTTCCAAAACACC
* * * *
177336 GATT-TCTCACAATCAGGGATACTTC-AAC-CTCGACCTTA-TTTCTAAAATATTGATTTCTCAT
66 AATTCTCT-ACAATCAGGGATA-TTCTAACTC-CGACCTTATTTTC-AAAACACTAATTTCTCAT
* *
177397 AATTGGGGATACTCCAACCCCATTATTTTCAC
127 AATTGGAGATACTACAACCCCATTATTTTCAC
*
177429 GGGGGTACTCCAA
1 GGGGATACTCCAA
177442 TCCCGATTTT
Statistics
Matches: 142, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
157 8 0.06
158 126 0.89
159 8 0.06
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (158 bp):
GGGGATACTCCAACCCAGTTATTTCCAAGAGGATACTCCAACCCAGACTTTATTTCCAAAACACC
AATTCTCTACAATCAGGGATATTCTAACTCCGACCTTATTTTCAAAACACTAATTTCTCATAATT
GGAGATACTACAACCCCATTATTTTCAC
Found at i:177603 original size:130 final size:127
Alignment explanation
Indices: 177268--177605 Score: 331
Period size: 130 Copynumber: 2.6 Consensus size: 127
177258 TCGTTATTTC
* * * *
177268 ATCGGGGATACTCCAACCCAGTTATTTCCAAGAGGATACTCTAACCCAGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCC-GTTATTTTC-AGAGGATACTCCAACCC-CGTTTTATTTCCAAAAT
* * * *
177333 ATTGATTTCTCACAATCAGGGATACTTCAACCTCGACCTTATTTCTAAAATATTGATTTCTCATA
63 ATTAATTTCTCACAATCAGGGACACTTCAACCTCGACCTTATTTCTAAAATATCGATTTCTCACA
* * * * * *** *
177398 ATTGGGGATACTCCAACCCCATTATTTTCACGGGGGTACTCCAATCCCGATTTTATTTTTGAAAC
1 ATCGGGGATACTCCAA-CCCGTTATTTTCA-GAGGATACTCCAACCCCG-TTTTATTTCCAAAAT
* * * * *
177463 ATCTATTTTCT-ATAATCGGGGACACTTCAACCCTTG-CCTTATTTCT-AAATCATCGATTTTTC
63 AT-TAATTTCTCACAATCAGGGACACTTCAA-CCTCGACCTTATTTCTAAAAT-ATCGATTTCTC
177525 ACA
125 ACA
*
177528 ATCGGGGATACTCCAAGCCCGTTATTTTCGAGAGGATACTCCAACCCCGTTATTATCTCCAAAAT
1 ATCGGGGATACTCCAA-CCCGTTATTTTC-AGAGGATACTCCAACCCCGTT-TTATTTCCAAAAT
177593 ATTAAATTTCTCA
63 ATT-AATTTCTCA
177606 TAGGGAGATT
Statistics
Matches: 164, Mismatches: 34, Indels: 19
0.76 0.16 0.09
Matches are distributed among these distances:
129 9 0.05
130 140 0.85
131 15 0.09
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (127 bp):
ATCGGGGATACTCCAACCCGTTATTTTCAGAGGATACTCCAACCCCGTTTTATTTCCAAAATATT
AATTTCTCACAATCAGGGACACTTCAACCTCGACCTTATTTCTAAAATATCGATTTCTCACA
Found at i:188064 original size:15 final size:15
Alignment explanation
Indices: 188044--188073 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
188034 CACCAAAAAA
188044 CTTTGACCTTGAATT
1 CTTTGACCTTGAATT
188059 CTTTGACCTTGAATT
1 CTTTGACCTTGAATT
188074 GTAAGTCTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (15 bp):
CTTTGACCTTGAATT
Found at i:188699 original size:6 final size:6
Alignment explanation
Indices: 188688--188720 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
188678 CAAGAGGGTC
*
188688 GGATTT GGATTT GGATTT GGATTT GGACTT GGA
1 GGATTT GGATTT GGATTT GGATTT GGATTT GGA
188721 AAAGAAAGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.03, G:0.36, T:0.42
Consensus pattern (6 bp):
GGATTT
Found at i:189280 original size:20 final size:20
Alignment explanation
Indices: 189255--189300 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
189245 AAGAATTGAA
*
189255 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
* **
189275 GAGGGATGCTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
189295 GAGGGA
1 GAGGGA
189301 GCCTCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.52, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:191365 original size:21 final size:22
Alignment explanation
Indices: 191327--191372 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
191317 ATATGTTGAA
* **
191327 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
191348 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
191370 ACT
1 ACT
191373 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:195116 original size:3 final size:3
Alignment explanation
Indices: 195108--195141 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
195098 TTTGGTTTCA
195108 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
195142 GTGTATGGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:197763 original size:45 final size:46
Alignment explanation
Indices: 197671--197778 Score: 148
Period size: 47 Copynumber: 2.3 Consensus size: 46
197661 ATTTTAGGAT
* *
197671 GAAATTCC-AAAAAATTTGAATATCCATAAAAACATTAAAACATAAA
1 GAAATTCCAAAAAAAATTGAATATCCATAAAAACA-TAAAAAATAAA
* *
197717 GAAATTCCAAAAAAAATTGAATATCTATAAATACA-AAAAAATAAA
1 GAAATTCCAAAAAAAATTGAATATCCATAAAAACATAAAAAATAAA
197762 GAAATTCCAACAAAAAA
1 GAAATTCCAA-AAAAAA
197779 CCAAAAAGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
45 19 0.34
46 14 0.25
47 23 0.41
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.21
Consensus pattern (46 bp):
GAAATTCCAAAAAAAATTGAATATCCATAAAAACATAAAAAATAAA
Found at i:198123 original size:14 final size:15
Alignment explanation
Indices: 198099--198131 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
198089 TCAATCACAC
198099 TTAATCAAAAAATAT
1 TTAATCAAAAAATAT
198114 TTAATCAAAAAATAT
1 TTAATCAAAAAATAT
198129 TTA
1 TTA
198132 TCTTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (15 bp):
TTAATCAAAAAATAT
Found at i:198898 original size:50 final size:50
Alignment explanation
Indices: 198839--199094 Score: 413
Period size: 50 Copynumber: 5.1 Consensus size: 50
198829 ACTTAGAGTT
*
198839 AACAATTATGGCCACCTTTCTCTATTGTCAAAGGTTGGTGAAGAATCGTC
1 AACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATCGTC
* * * * *
198889 AACAATTATGGCTACCTCTTTCTATTGTCAAAAGTTGGTGAAGAATAGTT
1 AACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATCGTC
*
198939 AACAATTACGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATCGTC
1 AACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATCGTC
198989 AACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATCGTC
1 AACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATCGTC
* * * *
199039 AACAATTACGACCACCTCTCTCTATTGTCAAAGGTTGGTGAAGGATAGTC
1 AACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATCGTC
199089 AACAAT
1 AACAAT
199095 GGCAACAACT
Statistics
Matches: 189, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 189 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (50 bp):
AACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATCGTC
Found at i:203602 original size:51 final size:50
Alignment explanation
Indices: 203481--203641 Score: 225
Period size: 50 Copynumber: 3.2 Consensus size: 50
203471 ATATACTTAA
203481 AGTCAACAATTATGGTCACCT-TTCTCTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTATGGTCACCTCTT-TCTATTGTCAAAGGTTGGTGAAGAAT
* * *
203531 CGTCAACAATAATGGTCACCTCTTTCTATTGTCAAAAGTTGGATGAAGAAT
1 AGTCAACAATTATGGTCACCTCTTTCTATTGTCAAAGGTTGG-TGAAGAAT
* * * * *
203582 AATCAACAATTACGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGGAT
1 AGTCAACAATTATGGTCACCTCTTTCTATTGTCAAAGGTTGGTGAAGAAT
203632 AGTCAACAAT
1 AGTCAACAAT
203642 GACAATAACT
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
50 52 0.54
51 45 0.46
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (50 bp):
AGTCAACAATTATGGTCACCTCTTTCTATTGTCAAAGGTTGGTGAAGAAT
Found at i:203928 original size:34 final size:34
Alignment explanation
Indices: 203887--203958 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
203877 TCTAATGATT
203887 CAAAGTAAAACCAGGAACTAGCTTCAGATACATC
1 CAAAGTAAAACCAGGAACTAGCTTCAGATACATC
*
203921 CAAAGTAAAACCAGGAACTAGCTTCTGATACATC
1 CAAAGTAAAACCAGGAACTAGCTTCAGATACATC
203955 CAAA
1 CAAA
203959 TGCTTTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.44, C:0.24, G:0.14, T:0.18
Consensus pattern (34 bp):
CAAAGTAAAACCAGGAACTAGCTTCAGATACATC
Found at i:204213 original size:21 final size:21
Alignment explanation
Indices: 204167--204214 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
204157 TTTTTAAAAA
* *
204167 AATAATATATTTATATATTTT
1 AATATTATATTTATATATTGT
*
204188 GATATTATATTT-TATTATTGT
1 AATATTATATTTATA-TATTGT
204209 AATATT
1 AATATT
204215 TAAGATATCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (21 bp):
AATATTATATTTATATATTGT
Found at i:204501 original size:3 final size:3
Alignment explanation
Indices: 204485--204529 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
204475 TTTGGTTTTA
204485 TAT TAT T-T TCAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
204530 GTGTAAGGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.90
4 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:204726 original size:22 final size:21
Alignment explanation
Indices: 204701--204751 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
204691 ATATTTTATT
204701 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAA-TATAAAAATA-A
204723 TAAATATTAATATAAAAATAA
1 TAAATATTAATATAAAAATAA
*
204744 TAATTATT
1 TAAATATT
204752 TTTATTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 8 0.30
22 15 0.56
23 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAATATTAATATAAAAATAA
Found at i:205429 original size:17 final size:17
Alignment explanation
Indices: 205407--205439 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
205397 CAGATATAGA
205407 TATCAAATATAAATATG
1 TATCAAATATAAATATG
205424 TATCAAATATAAATAT
1 TATCAAATATAAATAT
205440 CAGATTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (17 bp):
TATCAAATATAAATATG
Found at i:208886 original size:2 final size:2
Alignment explanation
Indices: 208879--208914 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
208869 GAAAAGAAAT
208879 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
208915 CCAGAAGCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:209534 original size:16 final size:16
Alignment explanation
Indices: 209510--209540 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
209500 CCCTTAAAGG
*
209510 TAATTAATTTAAATTT
1 TAATGAATTTAAATTT
209526 TAATGAATTTAAATT
1 TAATGAATTTAAATT
209541 ATATTACTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
TAATGAATTTAAATTT
Found at i:209629 original size:12 final size:12
Alignment explanation
Indices: 209614--209640 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
209604 AAAAAATATT
209614 AAAAAAATTAGA
1 AAAAAAATTAGA
209626 AAAAAAATTAGA
1 AAAAAAATTAGA
209638 AAA
1 AAA
209641 TGGTAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAAAAATTAGA
Found at i:209771 original size:2 final size:2
Alignment explanation
Indices: 209764--209793 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
209754 TTGTCAAGAG
209764 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
209794 TCTTGTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:210594 original size:2 final size:2
Alignment explanation
Indices: 210587--210618 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
210577 TACATAAGAC
*
210587 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
210619 GGCAAAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:211072 original size:19 final size:20
Alignment explanation
Indices: 211029--211079 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
211019 CACACCCAGA
* *
211029 TGTATCGATACATTATGCTT
1 TGTATCGATACATGATGCAT
*
211049 TGTATCGATACATGCT-CAT
1 TGTATCGATACATGATGCAT
211068 TGTATCGATACA
1 TGTATCGATACA
211080 CGAAACTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATGATGCAT
Found at i:211136 original size:20 final size:20
Alignment explanation
Indices: 211111--211163 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
211101 TATCACTGTT
*
211111 TGTATCGATACATGGT-ACAA
1 TGTATCGATACATGATGA-AA
211131 TGTATCGATACATGATGAAA
1 TGTATCGATACATGATGAAA
211151 TGTATCGATACAT
1 TGTATCGATACAT
211164 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGATGAAA
Found at i:217456 original size:20 final size:21
Alignment explanation
Indices: 217405--217460 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
217395 CCCTAACATA
*
217405 TTTTCATCAAAAT-TTCCTCTT
1 TTTTCATCAAAATCTT-CTCAT
*
217426 TTTTACTTCAAAATCTT-TCAT
1 TTTT-CATCAAAATCTTCTCAT
217447 TTTTCATCAAAATC
1 TTTTCATCAAAATC
217461 ACCAACAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 9 0.30
21 11 0.37
22 8 0.27
23 2 0.07
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTCATCAAAATCTTCTCAT
Found at i:219195 original size:18 final size:18
Alignment explanation
Indices: 219172--219228 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 18
219162 TTATTCTAGG
219172 GGGAGAAAATTTTTAAGA
1 GGGAGAAAATTTTTAAGA
*
219190 GGGAGAAAATCTTTTATCAAGG
1 GGGAGAAAA--TTTT-T-AAGA
*
219212 GGGAGAAATTTTTTAAG
1 GGGAGAAAATTTTTAAG
219229 CATTAATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 12 0.36
19 1 0.03
20 8 0.24
21 1 0.03
22 11 0.33
ACGTcount: A:0.39, C:0.04, G:0.28, T:0.30
Consensus pattern (18 bp):
GGGAGAAAATTTTTAAGA
Found at i:219218 original size:22 final size:21
Alignment explanation
Indices: 219159--219226 Score: 70
Period size: 22 Copynumber: 3.3 Consensus size: 21
219149 GAAAATAAAT
*
219159 TTTTTATTCTAGGGGGAGAAAA
1 TTTTTA-TCAAGGGGGAGAAAA
*
219181 -TTTT-T-AAGAGGGAGAAAA
1 TTTTTATCAAGGGGGAGAAAA
*
219199 TCTTTTATCAAGGGGGAGAAAT
1 T-TTTTATCAAGGGGGAGAAAA
219221 TTTTTA
1 TTTTTA
219227 AGCATTAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
18 11 0.29
19 1 0.03
20 4 0.11
21 10 0.26
22 12 0.32
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (21 bp):
TTTTTATCAAGGGGGAGAAAA
Found at i:219819 original size:13 final size:13
Alignment explanation
Indices: 219801--219827 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
219791 ACATTATGCT
219801 TTGTATCGATACA
1 TTGTATCGATACA
219814 TTGTATCGATACA
1 TTGTATCGATACA
219827 T
1 T
219828 GCTTATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:219837 original size:19 final size:20
Alignment explanation
Indices: 219813--219865 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
219803 GTATCGATAC
*
219813 ATTGTATCGATACAT-G-CTT
1 ATTGTATCGATACATGGAC-A
219832 ATTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
219852 ATTGTATCGATACA
1 ATTGTATCGATACA
219866 CGAAACTGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 15 0.48
20 15 0.48
21 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:219941 original size:33 final size:33
Alignment explanation
Indices: 219899--219964 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
219889 CCACTGTTTA
* *
219899 TATCGATACATGGT-ACAATGTATCGATATATTG
1 TATCGATACATGATGA-AATGTATCGATACATTG
219932 TATCGATACATGATGAAATGTATCGATACATTG
1 TATCGATACATGATGAAATGTATCGATACATTG
219965 CTTGTAATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (33 bp):
TATCGATACATGATGAAATGTATCGATACATTG
Found at i:221161 original size:41 final size:41
Alignment explanation
Indices: 221120--221200 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 41
221110 TTAAAATATA
*
221120 AAATTAATTAAAA-AT-ATTTAAAATTTATT-TTTTATTTTAT
1 AAATTAATTAAAATATAATTT-AAATTT-TTATATTATTTTAT
**
221160 AAATTTTTTAAAATATAATTTAAATTTTTATATTATTTTAT
1 AAATTAATTAAAATATAATTTAAATTTTTATATTATTTTAT
221201 TAACTAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
40 13 0.37
41 18 0.51
42 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (41 bp):
AAATTAATTAAAATATAATTTAAATTTTTATATTATTTTAT
Found at i:221911 original size:20 final size:19
Alignment explanation
Indices: 221888--221926 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
221878 CCTAGATCAA
221888 AATAAAATTTTATATTAAAT
1 AATAAAATTTTAT-TTAAAT
* *
221908 AATATATTTTTATTTAAAT
1 AATAAAATTTTATTTAAAT
221927 TTAACTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATAAAATTTTATTTAAAT
Found at i:223100 original size:14 final size:15
Alignment explanation
Indices: 223065--223093 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
223055 TAAAAATTTA
223065 ATATTTAATTTTTTG
1 ATATTTAATTTTTTG
223080 ATATTTAATTTTTT
1 ATATTTAATTTTTT
223094 TAATTTACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
ATATTTAATTTTTTG
Found at i:223678 original size:12 final size:12
Alignment explanation
Indices: 223661--223693 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
223651 GTTAATAAGA
*
223661 ATATATATATTT
1 ATATATATATGT
223673 ATATATATATGT
1 ATATATATATGT
223685 ATATATATA
1 ATATATATA
223694 CACACATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (12 bp):
ATATATATATGT
Found at i:228968 original size:2 final size:2
Alignment explanation
Indices: 228963--229011 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
228953 ATATATATAT
228963 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
229005 AG AG AG A
1 AG AG AG A
229012 CTAACTATGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:231505 original size:2 final size:2
Alignment explanation
Indices: 231498--231523 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
231488 TAAGCTCTTC
231498 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
231524 AGGTTTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:235298 original size:19 final size:20
Alignment explanation
Indices: 235258--235307 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
235248 TAAGCTTTAC
* *
235258 ATTGTTAATTGAGATTTGAA
1 ATTGTTAATTGAGATCTCAA
235278 ATTGTTAATT-AGATCTCAA
1 ATTGTTAATTGAGATCTCAA
*
235297 ATTATTAATTG
1 ATTGTTAATTG
235308 GGTTTTGAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (20 bp):
ATTGTTAATTGAGATCTCAA
Found at i:240158 original size:21 final size:21
Alignment explanation
Indices: 240132--240176 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
240122 TTACACCTTT
240132 CTTAATAATACCTTGATTAAA
1 CTTAATAATACCTTGATTAAA
240153 CTTAATAATACCTTGATTAAA
1 CTTAATAATACCTTGATTAAA
240174 CTT
1 CTT
240177 CCAAATGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (21 bp):
CTTAATAATACCTTGATTAAA
Found at i:240969 original size:21 final size:21
Alignment explanation
Indices: 240944--240983 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
240934 TATTAAAAAT
240944 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAAT-TTTATA
240965 TATTTTATAATTAATTTTA
1 TATTTTATAATTAATTTTA
240984 AATAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTATAATTAATTTTATA
Found at i:240994 original size:21 final size:22
Alignment explanation
Indices: 240970--241010 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
240960 TTATATATTT
240970 TATA-ATTAATTTTAA-ATAAAA
1 TATATATT-ATTTTAATATAAAA
240991 TATATATTATTTTAATATAA
1 TATATATTATTTTAATATAA
241011 GATACTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TATATATTATTTTAATATAAAA
Found at i:242051 original size:2 final size:2
Alignment explanation
Indices: 242044--242085 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
242034 CATCATTCAT
242044 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
242086 ATCAACAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:242286 original size:38 final size:40
Alignment explanation
Indices: 242199--242276 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
242189 CAATGATAAT
242199 GAATGTATATATAAGCTAATTTGTCCATTAACTTGCAGAC
1 GAATGTATATATAAGCTAATTTGTCCATTAACTTGCAGAC
242239 GAATGTATATATAAGCTAATTTGTCCATTAACTTGCAG
1 GAATGTATATATAAGCTAATTTGTCCATTAACTTGCAG
242277 TGTCTTATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (40 bp):
GAATGTATATATAAGCTAATTTGTCCATTAACTTGCAGAC
Found at i:257131 original size:2 final size:2
Alignment explanation
Indices: 257124--257154 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
257114 GCTAAGCTCT
257124 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
257155 TAAGGTCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:259451 original size:3 final size:3
Alignment explanation
Indices: 259443--259479 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
259433 TTTGGTTTCA
259443 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
259480 GTGTATGGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:264149 original size:21 final size:22
Alignment explanation
Indices: 264120--264165 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
264110 TGTTCAGACA
** *
264120 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
264142 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
264163 AGT
1 AGT
264166 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:266130 original size:24 final size:24
Alignment explanation
Indices: 266042--266130 Score: 79
Period size: 24 Copynumber: 3.6 Consensus size: 24
266032 AAAGCCACCA
*
266042 TTTGTTTGTCAAAAATGGTGGTTACT
1 TTTGTTTGTCAAAAATGGTGG-CA-T
** *
266068 TTGTGTTTGTCAAAAATGGTTTCTT
1 TT-TGTTTGTCAAAAATGGTGGCAT
* * *
266093 TTTATTTATAAAAAATGGTGGCAT
1 TTTGTTTGTCAAAAATGGTGGCAT
*
266117 GTTGTTTGTCAAAA
1 TTTGTTTGTCAAAA
266131 TTTATGGCTA
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
24 26 0.54
25 3 0.06
26 2 0.04
27 17 0.35
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.46
Consensus pattern (24 bp):
TTTGTTTGTCAAAAATGGTGGCAT
Found at i:267293 original size:18 final size:17
Alignment explanation
Indices: 267245--267304 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 17
267235 GAATATCCAT
*
267245 AAAAACACAAAAAAAAAA
1 AAAAAC-CAAAAAAAATA
*
267263 AGAAAATCCAAAATAAATA
1 A-AAAA-CCAAAAAAAATA
*
267282 AAAAACCAAAAAGAACTA
1 AAAAACCAAAAA-AAATA
267300 AAAAA
1 AAAAA
267305 AATCCAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 6 0.17
18 14 0.40
19 14 0.40
20 1 0.03
ACGTcount: A:0.78, C:0.12, G:0.03, T:0.07
Consensus pattern (17 bp):
AAAAACCAAAAAAAATA
Found at i:268898 original size:36 final size:36
Alignment explanation
Indices: 268853--268926 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
268843 AAAATTGAAG
*
268853 GAAACAAATGAAAGATGGGGATAGTCTTACGCGCTT
1 GAAACAAATGAAAGATGGGGACAGTCTTACGCGCTT
268889 GAAACAAATGAAAGATGGGGACAGTCTTACGCGCTT
1 GAAACAAATGAAAGATGGGGACAGTCTTACGCGCTT
268925 GA
1 GA
268927 GGGGCTACAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.20
Consensus pattern (36 bp):
GAAACAAATGAAAGATGGGGACAGTCTTACGCGCTT
Found at i:273707 original size:24 final size:23
Alignment explanation
Indices: 273643--273716 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 23
273633 GTGATTTCCT
* *
273643 TTGTTTTTGTCAAATATGGTGGTTA
1 TTGTTTTTGTCAAAAATGGTGG--C
* *
273668 TTTTTATTTGTAAAAAATGGTGGC
1 TTGTT-TTTGTCAAAAATGGTGGC
*
273692 TTGTTGTTTGTCAAAATTGGTGGC
1 TTGTT-TTTGTCAAAAATGGTGGC
273716 T
1 T
273717 AATTTTTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
24 21 0.52
25 4 0.10
26 15 0.38
ACGTcount: A:0.22, C:0.05, G:0.24, T:0.49
Consensus pattern (23 bp):
TTGTTTTTGTCAAAAATGGTGGC
Found at i:274560 original size:3 final size:3
Alignment explanation
Indices: 274552--274582 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
274542 TTTAGTTTTA
274552 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
274583 GTGTAAGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:280382 original size:56 final size:56
Alignment explanation
Indices: 280272--280382 Score: 141
Period size: 56 Copynumber: 2.0 Consensus size: 56
280262 ATCTTTTTCC
* * * * *
280272 CTTTTAAAAGCCCACAAGTTAATGGCACTCTTTCAAAGCCCACGAGTCAGTGGCAT
1 CTTTTAAAAGCCCACAAGTCAATGGCACCCTTTCAAAACCCACAAGTCAATGGCAT
* * * *
280328 CTTTTTAAAGCCCACAAGTCAGTGGCTCCCTTTCAAAACCCACAAGTTAATGGCA
1 CTTTTAAAAGCCCACAAGTCAATGGCACCCTTTCAAAACCCACAAGTCAATGGCA
280383 CCCTTTCAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (56 bp):
CTTTTAAAAGCCCACAAGTCAATGGCACCCTTTCAAAACCCACAAGTCAATGGCAT
Found at i:280394 original size:56 final size:56
Alignment explanation
Indices: 280278--280394 Score: 135
Period size: 56 Copynumber: 2.1 Consensus size: 56
280268 TTCCCTTTTA
* * * * * * * *
280278 AAAGCCCACAAGTTAATGGCACTCTTTCAAAGCCCACGAGTCAGTGGCATCTTTTT
1 AAAGCCCACAAGTCAATGGCACCCTTTCAAAACCCACAAGTCAATGGCACCCTTTC
* * *
280334 AAAGCCCACAAGTCAGTGGCTCCCTTTCAAAACCCACAAGTTAATGGCACCCTTTC
1 AAAGCCCACAAGTCAATGGCACCCTTTCAAAACCCACAAGTCAATGGCACCCTTTC
280390 AAAGC
1 AAAGC
280395 TCATAAGCTA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (56 bp):
AAAGCCCACAAGTCAATGGCACCCTTTCAAAACCCACAAGTCAATGGCACCCTTTC
Found at i:280495 original size:31 final size:31
Alignment explanation
Indices: 280410--281996 Score: 826
Period size: 31 Copynumber: 52.2 Consensus size: 31
280400 AGCTAGCGGC
* *
280410 ACCCTTTTCAAAGCCCACACAAGTCGGTGACA
1 ACCCTTTT-AAAGCCCACACAAGTTGGTGGCA
** * *
280442 ACTTTTTTCAAAGCCTACACAAGCTGGTGGCA
1 ACCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * *
280474 ACCCTTTTAAAGCCCATACAAGTTAGTAGC-
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
280504 A-CCTTTTAAAGCCTATA-AAATCTGGTGGCA
1 ACCCTTTTAAAGCCCACACAAGT-TGGTGGCA
* *
280534 ACCATTTTAAAGCCCACACAAGTTGGTAGC-
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
** *
280564 ACCCTTTTAAAGCCCACACAAACTGGTGACA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
280595 ACCTTTTTAAAGCCCACACAAGCTGGTGGCA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
280626 A-CCTTTCTAAAGCCCACATAAGTTGGTGGCA
1 ACCCTTT-TAAAGCCCACACAAGTTGGTGGCA
*
280657 ACCCTTTTAAAGCCCACACAAGTTGGTAGCA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * **
280688 CTCCCTTCTTAAAG-TC-CAGAAGTCAGTGGCA
1 -ACCCTT-TTAAAGCCCACACAAGTTGGTGGCA
* * * *
280719 TCCTTTCTTAAA-ACC-CACAAGTTAGTGGC-
1 ACCCTT-TTAAAGCCCACACAAGTTGGTGGCA
*
280748 ATCCTTTTAAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* *
280780 ACCCTTTTAAAGTCCACACAAATTGGTGGCA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
280811 ACCCTTTTAAAGCTCACACAAGCTAGTGGCA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
280842 ACCCTTTTAAAGCCCACACAAGTTGGTGGC-
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
280872 ACTTTCTTTTTAAAGCCCACA-AA-TTAGTGGCA
1 AC---CCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** * ** *
280904 TCTTTTCTTAAA-ACC-CACAAGTCAGTGG-T
1 ACCCTT-TTAAAGCCCACACAAGTTGGTGGCA
* * * *
280933 ATCCTTTCAAAAGCCCACATAAGTTGGTGTCA
1 ACCCTTT-TAAAGCCCACACAAGTTGGTGGCA
* * * * *
280965 ACTCTTTTAAAGCCCACATAAGTTAGTAG-T
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
280995 ACCCTTTTAAATCCTACACAAGCTGGTGGCA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
281026 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** * *
281057 ACCCTTCTAAAGCCCACACAAACTAGTAGCA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
281088 ACTCTTTTAAAGCCCACACAAGTTGATGGCA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
281119 CCCCCTTTTAAAG-CC-CACAAGTTAGTGGCA
1 -ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
281149 TCCTTTCTTAAAG-CC-CATAAGTTAGTGAC-
1 ACCCTT-TTAAAGCCCACACAAGTTGGTGGCA
* *
281178 A-TCTTTTCAAATGCCCACACAAGCTGGTGGCA
1 ACCCTTTT-AAA-GCCCACACAAGTTGGTGGCA
* * * **
281210 A-CCTTTTGAAAGCCTATACACGCCGGTGGC-
1 ACCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * *
281240 ACCTTTTTAAAGCTCATACAAGTTGGTGGCT
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * ** * *
281271 ATCCTTTTAAAGCCCATACAAGTCAGT-ACT
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * *
281301 ACTTTTTTAAAACCTACACAAGTTGGTGGCA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
281332 ACCCTTTTAAAGCCCACACAAG-TCGTGG-T
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
** *
281361 ACTGTTTTAAAGCCCACACAAGTTAGTGGCA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
281392 ACCCTTTTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
281423 ACCCTTCTCAAAG-TC-CACAAGTTAGTCG-T
1 ACCCTT-TTAAAGCCCACACAAGTTGGTGGCA
* * ** *
281452 ACCCTTTCAAAG-CC-CACGAGTTAATAGC-
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * ***
281480 ATCCTTTTCAAAG--CTCATAAGTCAATGGC-
1 ACCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* **
281509 ACCCTTTTCAAAG-CC-CACGAGTCAGTGGC-
1 ACCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* ***
281538 ACCCTTTCT-AAG-CC-CACGAGTCAATGGC-
1 ACCCTTT-TAAAGCCCACACAAGTTGGTGGCA
* **
281566 ACCCTTTCAAAG-CC-CACAAGTAAGTGGC-
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * **
281594 ATCCTTTCAAAAG--C-CTCAAGTAAGTGGC-
1 ACCCTTT-TAAAGCCCACACAAGTTGGTGGCA
* * **
281622 ATCCTTTCAAAAG-CC-CACAAGTCAGTGGC-
1 ACCCTTT-TAAAGCCCACACAAGTTGGTGGCA
** * ** * *
281651 ATGCTTTCAAAG-CC-CATGAG-CGAGTGAC-
1 ACCCTTTTAAAGCCCACACAAGTTG-GTGGCA
* * **
281679 ATCCTTTTCAAAG--CTCACAAGTAAGTGGC-
1 ACCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* **
281708 A-TCTTTTCAAAAG-CC-CACAAGTCAGTGGC-
1 ACCCTTTT--AAAGCCCACACAAGTTGGTGGCA
* *
281737 ATCCTTTTAAAGCCTACACAAGTTGGTGGCA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* **
281768 ACCTTTTTCAAAGCCCACACAAGTCAGTGGCA
1 ACCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * * *
281800 ACCCCTCTAAAGCCCACATAAATTAGTGGCA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
281831 A-CCTTTCTCAAAGCCTACATAAGTTGGTGGCA
1 ACCCTTT-T-AAAGCCCACACAAGTTGGTGGCA
* * * *
281863 ACCCCTTTTAAAAGCCCATATAAGTCGATGGCA
1 A-CCCTTTT-AAAGCCCACACAAGTTGGTGGCA
** * *
281896 A-CCTCTCAAAAACCCACATAAGTTGGTGGCA
1 ACCCT-TTTAAAGCCCACACAAGTTGGTGGCA
* *
281927 TCTCCTTCTAAAGCCCACACAAGTTGGTGGCA
1 AC-CCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
281959 A-CCTTCTCTAAAGCCCACATAAGTTGGTGGTA
1 ACCCTT-T-TAAAGCCCACACAAGTTGGTGGCA
281991 ACCCTT
1 ACCCTT
281997 CTAAGCCTAA
Statistics
Matches: 1236, Mismatches: 251, Indels: 135
0.76 0.15 0.08
Matches are distributed among these distances:
27 3 0.00
28 141 0.11
29 168 0.14
30 215 0.17
31 477 0.39
32 178 0.14
33 49 0.04
34 5 0.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (31 bp):
ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:280515 original size:92 final size:93
Alignment explanation
Indices: 280410--281982 Score: 819
Period size: 92 Copynumber: 17.2 Consensus size: 93
280400 AGCTAGCGGC
* * * * *
280410 ACCCTTTTCAAAGCCCACACAAGTCGGTGACAACTTTTTTCAAAGCCTACACAAGCTGGTGGCAA
1 ACCCTTTT-AAAGCCCACACAAGTCAGTGGCAACTCTTTT-AAAGCCCACACAAGTTGGTGGCAA
* * *
280475 CCCTTTTAAAGCCCATACAAGTTAGTAGC-
64 CCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
280504 A-CCTTTTAAAGCCTATA-AAATCTGGTGGCAAC-CATTTTAAAGCCCACACAAGTTGGTAGC-A
1 ACCCTTTTAAAGCCCACACAAGTC-AGTGGCAACTC-TTTTAAAGCCCACACAAGTTGGTGGCAA
** *
280565 CCCTTTTAAAGCCCACACAAACTGGTGACA
64 CCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
280595 ACCTTTTTAAAGCCCACACAAG-CTGGTGGCAAC-CTTTCTAAAGCCCACATAAGTTGGTGGCAA
1 ACCCTTTTAAAGCCCACACAAGTC-AGTGGCAACTCTTT-TAAAGCCCACACAAGTTGGTGGCAA
*
280658 CCCTTTTAAAGCCCACACAAGTTGGTAGCA
64 CCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
280688 CTCCCTTCTTAAAG-TC-CAGAAGTCAGTGGCATC-CTTTCTTAAA-ACC-CACAAGTTAGTGGC
1 -ACCCTT-TTAAAGCCCACACAAGTCAGTGGCAACTC-TT-TTAAAGCCCACACAAGTTGGTGGC
*
280748 -ATCCTTTTAAAAGCCCACACAAGTTGGTGGCA
62 AACCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * ** * * * *
280780 ACCCTTTTAAAGTCCACACAAATTGGTGGCAACCCTTTTAAAGCTCACACAAGCTAGTGGCAACC
1 ACCCTTTTAAAGCCCACACAAGTCAGTGGCAACTCTTTTAAAGCCCACACAAGTTGGTGGCAACC
280845 CTTTTAAAGCCCACACAAGTTGGTGGC-
66 CTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * **
280872 ACTTTCTTTTTAAAGCCCACA-AA-TTAGTGGCATCTTTTCTTAAA-ACC-CACAAGTCAGTGG-
1 AC---CCTTTTAAAGCCCACACAAGTCAGTGGCAACTCTT-TTAAAGCCCACACAAGTTGGTGGC
* * * * *
280932 TATCCTTTCAAAAGCCCACATAAGTTGGTGTCA
62 AACCCTTT-TAAAGCCCACACAAGTTGGTGGCA
* * * * * * * * *
280965 ACTCTTTTAAAGCCCACATAAGTTAGTAG-TACCCTTTTAAATCCTACACAAGCTGGTGGCAACC
1 ACCCTTTTAAAGCCCACACAAGTCAGTGGCAACTCTTTTAAAGCCCACACAAGTTGGTGGCAACC
281029 CTTTTAAAGCCCACACAAGTTGGTGGCA
66 CTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
281057 ACCCTTCTAAAGCCCACACAA-ACTAGTAGCAACTCTTTTAAAGCCCACACAAGTTGATGGCACC
1 ACCCTTTTAAAGCCCACACAAGTC-AGTGGCAACTCTTTTAAAGCCCACACAAGTTGGTGGCA-A
*
281121 CCCTTTTAAAG-CC-CACAAGTTAGTGGCA
64 CCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
281149 TCCTTTCTTAAAG-CC-CATAAGTTAGTGAC-A-TCTTTTCAAATGCCCACACAAGCTGGTGGCA
1 ACCCTT-TTAAAGCCCACACAAGTCAGTGGCAACTCTTTT-AAA-GCCCACACAAGTTGGTGGCA
* * * **
281210 A-CCTTTTGAAAGCCTATACACGCCGGTGGC-
63 ACCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * ** * * ** * *
281240 ACCTTTTTAAAGCTCATACAAGTTGGTGGCTA-TCCTTTTAAAGCCCATACAAGTCAGT-ACTAC
1 ACCCTTTTAAAGCCCACACAAGTCAGTGGCAACT-CTTTTAAAGCCCACACAAGTTGGTGGCAAC
** * *
281303 TTTTTTAAAACCTACACAAGTTGGTGGCA
65 CCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
281332 ACCCTTTTAAAGCCCACACAAGTC-GTGG-TACTGTTTTAAAGCCCACACAAGTTAGTGGCAACC
1 ACCCTTTTAAAGCCCACACAAGTCAGTGGCAACTCTTTTAAAGCCCACACAAGTTGGTGGCAACC
*
281395 CTTTTAAAGCCCACACAAGTCGGTGGCA
66 CTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * * * ** * *
281423 ACCCTTCTCAAAG-TC-CACAAGTTAGTCG-TACCCTTTCAAAG-CC-CACGAGTTAATAGC-AT
1 ACCCTT-TTAAAGCCCACACAAGTCAGTGGCAACTCTTTTAAAGCCCACACAAGTTGGTGGCAAC
* * ***
281482 CCTTTTCAAAG--CTCATAAGTCAATGGC-
65 CCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * ***
281509 ACCCTTTTCAAAG-CC-CACGAGTCAGTGGC-ACCCTTTCT-AAG-CC-CACGAGTCAATGGC-A
1 ACCCTTTT-AAAGCCCACACAAGTCAGTGGCAACTCTTT-TAAAGCCCACACAAGTTGGTGGCAA
* **
281567 CCCTTTCAAAG-CC-CACAAGTAAGTGGC-
64 CCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * **
281594 ATCCTTTCAAAAG--C-CTCAAGTAAGTGGCATC-CTTTCAAAAG-CC-CACAAGTCAGTGGC-A
1 ACCCTTT-TAAAGCCCACACAAGTCAGTGGCAACTCTTT-TAAAGCCCACACAAGTTGGTGGCAA
** * ** * *
281652 TGCTTTCAAAG-CC-CATGAG-CGAGTGAC-
64 CCCTTTTAAAGCCCACACAAGTTG-GTGGCA
* * * **
281679 ATCCTTTTCAAAG--CTCACAAGTAAGTGGC-A-TCTTTTCAAAAG-CC-CACAAGTCAGTGGC-
1 ACCCTTTT-AAAGCCCACACAAGTCAGTGGCAACTCTTTT--AAAGCCCACACAAGTTGGTGGCA
* *
281737 ATCCTTTTAAAGCCTACACAAGTTGGTGGCA
63 ACCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
281768 ACCTTTTTCAAAGCCCACACAAGTCAGTGGCAACCCCTCTAAAGCCCACATAAATTAGTGGCAA-
1 ACCCTTTT-AAAGCCCACACAAGTCAGTGGCAACTCTTTTAAAGCCCACACAAGTTGGTGGCAAC
* *
281832 CCTTTCTCAAAGCCTACATAAGTTGGTGGCA
65 CCTTT-T-AAAGCCCACACAAGTTGGTGGCA
* * ** * *
281863 ACCCCTTTTAAAAGCCCATATAAGTC-GATGGCAAC-CTCTCAAAAACCCACATAAGTTGGTGGC
1 A-CCCTTTT-AAAGCCCACACAAGTCAG-TGGCAACTCT-TTTAAAGCCCACACAAGTTGGTGGC
* *
281926 ATCTCCTTCTAAAGCCCACACAAGTTGGTGGCA
62 AAC-CCTTTTAAAGCCCACACAAGTTGGTGGCA
*
281959 A-CCTTCTCTAAAGCCCACATAAGT
1 ACCCTT-T-TAAAGCCCACACAAGT
281983 TGGTGGTAAC
Statistics
Matches: 1174, Mismatches: 221, Indels: 167
0.75 0.14 0.11
Matches are distributed among these distances:
84 17 0.01
85 80 0.07
86 95 0.08
87 13 0.01
88 15 0.01
89 39 0.03
90 95 0.08
91 179 0.15
92 291 0.25
93 163 0.14
94 49 0.04
95 61 0.05
96 72 0.06
97 1 0.00
98 4 0.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (93 bp):
ACCCTTTTAAAGCCCACACAAGTCAGTGGCAACTCTTTTAAAGCCCACACAAGTTGGTGGCAACC
CTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:280554 original size:123 final size:122
Alignment explanation
Indices: 280410--281996 Score: 837
Period size: 123 Copynumber: 13.0 Consensus size: 122
280400 AGCTAGCGGC
* ** *
280410 ACCCTTTTCAAAGCCCACACAAGTCGGTGACAACTTTTTTCAAAGCCTACACAAGCTGGTGGCAA
1 ACCCTTTT-AAAGCCCACACAAGTTGGTGACAACCCTTTT-AAAGCCCACACAAGCTGGTGGCAA
* * * * *
280475 CCCTTTTAAAGCCCATACAAGTTAGTAGCACCTTTTAAAGCCTATA-AAATCTGGTGGCA
64 CCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTTAAAGCCCACACAAGT-TGGTGGCA
* * *
280534 ACCATTTTAAAGCCCACACAAGTTGGT-AGC-ACCCTTTTAAAGCCCACACAAACTGGTGACAAC
1 ACCCTTTTAAAGCCCACACAAGTTGGTGA-CAACCCTTTTAAAGCCCACACAAGCTGGTGGCAAC
* * * *
280597 CTTTTTAAAGCCCACACAAGCTGGTGGCAACCTTTCTAAAGCCCACATAAGTTGGTGGCA
65 CCTTTTAAAGCCCACACAAGTTAGTGGC-ACCTTT-TAAAGCCCACACAAGTTGGTGGCA
* * * *
280657 ACCCTTTTAAAGCCCACACAAGTTGGT-AGCACTCCCTTCTTAAAG-TC-CAGAAG-TCAGTGGC
1 ACCCTTTTAAAGCCCACACAAGTTGGTGA-CA-ACCCTT-TTAAAGCCCACACAAGCT-GGTGGC
* * *
280718 ATCCTTTCTTAAA-ACC-CACAAGTTAGTGGCATCCTTTTAAAAGCCCACACAAGTTGGTGGCA
62 AACCCTT-TTAAAGCCCACACAAGTTAGTGGCA-CCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * * *
280780 ACCCTTTTAAAGTCCACACAAATTGGTGGCAACCCTTTTAAAGCTCACACAAGCTAGTGGCAACC
1 ACCCTTTTAAAGCCCACACAAGTTGGTGACAACCCTTTTAAAGCCCACACAAGCTGGTGGCAACC
* *
280845 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTTTTTAAAGCCCACA-AA-TTAGTGGCA
66 CTTTTAAAGCCCACACAAGTTAGTGGCAC---C-TTTTAAAGCCCACACAAGTTGGTGGCA
* ** * ** ** * * * * *
280904 TCTTTTCTTAAA-ACC-CACAAGTCAGTG-GTATCCTTTCAAAAGCCCACATAAGTTGGTGTCAA
1 ACCCTT-TTAAAGCCCACACAAGTTGGTGACAACCCTTT-TAAAGCCCACACAAGCTGGTGGCAA
* * * * * * *
280966 CTCTTTTAAAGCCCACATAAGTTAGTAGTACCCTTTTAAATCCTACACAAGCTGGTGGCA
64 CCCTTTTAAAGCCCACACAAGTTAGTGGCA-CCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
281026 ACCCTTTTAAAGCCCACACAAGTTGGTGGCAACCCTTCTAAAGCCCACACAAACTAGTAGCAACT
1 ACCCTTTTAAAGCCCACACAAGTTGGTGACAACCCTTTTAAAGCCCACACAAGCTGGTGGCAACC
*
281091 CTTTTAAAGCCCACACAAGTT-GATGGCACCCCCTTTTAAAG-CC-CACAAGTTAGTGGCA
66 CTTTTAAAGCCCACACAAGTTAG-TGGCA---CCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
281149 TCCTTTCTTAAAG-CC-CATAAGTTAGTGAC-A-TCTTTTCAAATGCCCACACAAGCTGGTGGCA
1 ACCCTT-TTAAAGCCCACACAAGTTGGTGACAACCCTTTT-AAA-GCCCACACAAGCTGGTGGCA
* * * *** * * *
281210 A-CCTTTTGAAAGCCTATACACGCCGGTGGCACCTTTTTAAAGCTCATACAAGTTGGTGGCT
63 ACCCTTTT-AAAGCCCACACAAGTTAGTGGCACC-TTTTAAAGCCCACACAAGTTGGTGGCA
* * ** * ** * * *
281271 ATCCTTTTAAAGCCCATACAAGTCAGT-ACTACTTTTTTAAAACCTACACAAGTTGGTGGCAACC
1 ACCCTTTTAAAGCCCACACAAGTTGGTGACAACCCTTTTAAAGCCCACACAAGCTGGTGGCAACC
* * * *
281335 CTTTTAAAGCCCACACAAG-TCGTGGTACTGTTTTAAAGCCCACACAAGTTAGTGGCA
66 CTTTTAAAGCCCACACAAGTTAGTGGCAC-CTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * * *
281392 ACCCTTTTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAG-TC-CACAAGTTAGTCG-TAC
1 ACCCTTTTAAAGCCCACACAAGTTGGTGACAACCCTT-TTAAAGCCCACACAAGCTGGTGGCAAC
* * * * * * ***
281454 CCTTTCAAAG-CC-CACGAGTTAATAGCATCCTTTTCAAAG--CTCATAAGTCAATGGC-
65 CCTTTTAAAGCCCACACAAGTTAGTGGCA-CCTTTT-AAAGCCCACACAAGTTGGTGGCA
* ** * * **
281509 ACCCTTTTCAAAG-CC-CACGAGTCAGTGGC-ACCCTTTCT-AAG-CC-CACGAG-TCAATGGC-
1 ACCCTTTT-AAAGCCCACACAAGTTGGTGACAACCCTTT-TAAAGCCCACACAAGCT-GGTGGCA
* * * * **
281566 ACCCTTTCAAAG-CC-CACAAGTAAGTGGCATCCTTTCAAAAG--C-CTCAAGTAAGTGGC-
63 ACCCTTTTAAAGCCCACACAAGTTAGTGGCA-CCTTT-TAAAGCCCACACAAGTTGGTGGCA
* * ** * ** * ** *
281622 ATCCTTTCAAAAG-CC-CACAAGTCAGTGGC-ATGCTTTCAAAG-CC-CATGAGC-GAGTGAC-A
1 ACCCTTT-TAAAGCCCACACAAGTTGGTGACAACCCTTTTAAAGCCCACACAAGCTG-GTGGCAA
* * * * **
281680 TCCTTTTCAAAG--CTCACAAGTAAGTGGCATCTTTTCAAAAG-CC-CACAAGTCAGTGGC-
64 CCCTTTT-AAAGCCCACACAAGTTAGTGGCACCTTTT--AAAGCCCACACAAGTTGGTGGCA
* * * * *
281737 ATCCTTTTAAAGCCTACACAAGTTGGTGGCAACCTTTTTCAAAGCCCACACAAG-TCAGTGGCAA
1 ACCCTTTTAAAGCCCACACAAGTTGGTGACAACCCTTTT-AAAGCCCACACAAGCT-GGTGGCAA
* * * * * *
281801 CCCCTCTAAAGCCCACATAAATTAGTGGCAACCTTTCTCAAAGCCTACATAAGTTGGTGGCA
64 CCCTTTTAAAGCCCACACAAGTTAGTGGC-ACCTTT-T-AAAGCCCACACAAGTTGGTGGCA
* * * * * ** * * *
281863 ACCCCTTTTAAAAGCCCATATAAGTCGATGGCAA-CCTCTCAAAAACCCACATAAGTTGGTGGCA
1 A-CCCTTTT-AAAGCCCACACAAGTTGGTGACAACCCT-TTTAAAGCCCACACAAGCTGGTGGCA
* * * * *
281927 TCTCCTTCTAAAGCCCACACAAGTTGGTGGCAACCTTCTCTAAAGCCCACATAAGTTGGTGGTA
63 AC-CCTTTTAAAGCCCACACAAGTTAGTGGC-ACCTT-T-TAAAGCCCACACAAGTTGGTGGCA
281991 ACCCTT
1 ACCCTT
281997 CTAAGCCTAA
Statistics
Matches: 1148, Mismatches: 228, Indels: 171
0.74 0.15 0.11
Matches are distributed among these distances:
113 65 0.06
114 76 0.07
115 27 0.02
116 24 0.02
117 14 0.01
118 25 0.02
119 14 0.01
120 52 0.05
121 144 0.13
122 156 0.14
123 308 0.27
124 74 0.06
125 39 0.03
126 18 0.02
127 36 0.03
128 73 0.06
129 3 0.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (122 bp):
ACCCTTTTAAAGCCCACACAAGTTGGTGACAACCCTTTTAAAGCCCACACAAGCTGGTGGCAACC
CTTTTAAAGCCCACACAAGTTAGTGGCACCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:281456 original size:60 final size:60
Alignment explanation
Indices: 280410--281468 Score: 400
Period size: 61 Copynumber: 17.3 Consensus size: 60
280400 AGCTAGCGGC
* ** * * * *
280410 ACCCTTTTCAAAGCCCACACAAGTCGGTGACAACTTTTTTCAAAGCCTACACAAGCTGGTGGCA
1 ACCCTTTT-AAAGCCCACACAAGTC-GTG-GAAC-CCTTTCAAAGCCCACACAAGTTAGTCGCA
* * * * * * * * * *
280474 ACCCTTTTAAAGCCCATACAAGTTAGTAGCA-CCTTTTAAAGCCTATA-AAATCTGGTGGCA
1 ACCCTTTTAAAGCCCACACAAG-TCGTGGAACCCTTTCAAAGCCCACACAAGT-TAGTCGCA
* * * * * ** *
280534 ACCATTTTAAAGCCCACACAAGTTGGTAGCACCCTTTTAAAGCCCACACAAACTGGT-GACA
1 ACCCTTTTAAAGCCCACACAAG-TCGTGGAACCCTTTCAAAGCCCACACAAGTTAGTCG-CA
* * * * *
280595 ACCTTTTTAAAGCCCACACAAGCTGGTGGCAA-CCTTTCTAAAGCCCACATAAGTTGGTGGCA
1 ACCCTTTTAAAGCCCACACAAG-TCGTGG-AACCCTTTC-AAAGCCCACACAAGTTAGTCGCA
* * * * * * * *
280657 ACCCTTTTAAAGCCCACACAAGTTGGTAGCACTCCCTTCTTAAAG-TC-CAGAAGTCAGTGGCA
1 ACCCTTTTAAAGCCCACACAAG-TCGT-GGA-ACCCTT-TCAAAGCCCACACAAGTTAGTCGCA
* * * * * * * * *
280719 TCCTTTCTTAAA-ACC-CACAAGTTAGTGGCATCCTTTTAAAAGCCCACACAAGTTGGTGGCA
1 ACCCTT-TTAAAGCCCACACAAG-TCGTGG-AACCCTTTCAAAGCCCACACAAGTTAGTCGCA
* * * * * * *
280780 ACCCTTTTAAAGTCCACACAAATTGGTGGCAACCCTTTTAAAGCTCACACAAGCTAGTGGCA
1 ACCCTTTTAAAGCCCACAC-AAGTCGTGG-AACCCTTTCAAAGCCCACACAAGTTAGTCGCA
* * * * *
280842 ACCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTTTTTAAAGCCCACA-AA-TTAGTGGCA
1 ACCCTTTTAAAGCCCACACAAG-TCGTGGAAC---CCTTTCAAAGCCCACACAAGTTAGTCGCA
* ** * * * * *
280904 TCTTTTCTTAAA-ACC-CACAAGTCAGTGGTATCCTTTCAAAAGCCCACATAAGTTGGT-GTCA
1 ACCCTT-TTAAAGCCCACACAAGTC-GTGGAACCCTTTC-AAAGCCCACACAAGTTAGTCG-CA
* * * * * * * * * * *
280965 ACTCTTTTAAAGCCCACATAAGTTAGTAGTACCCTTTTAAATCCTACACAAGCTGGTGGCA
1 ACCCTTTTAAAGCCCACACAAG-TCGTGGAACCCTTTCAAAGCCCACACAAGTTAGTCGCA
* ** *
281026 ACCCTTTTAAAGCCCACACAAGTTGGTGGCAACCC-TTCTAAAGCCCACACAAACTAGTAGCA
1 ACCCTTTTAAAGCCCACACAAG-TCGTGG-AACCCTTTC-AAAGCCCACACAAGTTAGTCGCA
* * * * *
281088 ACTCTTTTAAAGCCCACACAAGTTGATGGCACCCCCTTTTAAAG-CC-CACAAGTTAGTGGCA
1 ACCCTTTTAAAGCCCACACAAGTCG-TGG-A-ACCCTTTCAAAGCCCACACAAGTTAGTCGCA
* * * * * * * * *
281149 TCCTTTCTTAAAG-CC-CATAAGTTAGT-GACATCTTTTCAAATGCCCACACAAGCTGGTGGCA
1 ACCCTT-TTAAAGCCCACACAAG-TCGTGGA-ACCCTTTCAAA-GCCCACACAAGTTAGTCGCA
* * * * * * * * * * * *
281210 A-CCTTTTGAAAGCCTATACACGCCGGTGGCACCTTTTTAAAGCTCATACAAGTTGGTGGCT
1 ACCCTTTT-AAAGCCCACACAAGTC-GTGGAACCCTTTCAAAGCCCACACAAGTTAGTCGCA
* * *** ** * * * * *
281271 ATCCTTTTAAAGCCCATACAAGTCAGTACTACTTTTTTAAAACCTACACAAGTTGGTGGCA
1 ACCCTTTTAAAGCCCACACAAGTC-GTGGAACCCTTTCAAAGCCCACACAAGTTAGTCGCA
* ** * *
281332 ACCCTTTTAAAGCCCACACAAGTCGTGGTACTGTTTTAAAGCCCACACAAGTTAGTGGCA
1 ACCCTTTTAAAGCCCACACAAGTCGTGGAACCCTTTCAAAGCCCACACAAGTTAGTCGCA
* *
281392 ACCCTTTTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAG-TC-CACAAGTTAGTCG-T
1 ACCCTTTTAAAGCCCACACAAGTC-GTGG-AACCCTT-TCAAAGCCCACACAAGTTAGTCGCA
*
281452 ACCCTTTCAAAGCCCAC
1 ACCCTTTTAAAGCCCAC
281469 GAGTTAATAG
Statistics
Matches: 786, Mismatches: 157, Indels: 108
0.75 0.15 0.10
Matches are distributed among these distances:
58 13 0.02
59 21 0.03
60 155 0.20
61 281 0.36
62 236 0.30
63 46 0.06
64 33 0.04
65 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (60 bp):
ACCCTTTTAAAGCCCACACAAGTCGTGGAACCCTTTCAAAGCCCACACAAGTTAGTCGCA
Found at i:281514 original size:29 final size:28
Alignment explanation
Indices: 281454--281786 Score: 262
Period size: 28 Copynumber: 11.6 Consensus size: 28
281444 TTAGTCGTAC
* * *
281454 CCTTTCAAAGCCCACGAGTTAATAGCAT
1 CCTTTCAAAGCCCACAAGTCAATGGCAT
* * *
281482 CCTTTTCAAAGCTCATAAGTCAATGGCAC
1 CC-TTTCAAAGCCCACAAGTCAATGGCAT
* * *
281511 CCTTTTCAAAGCCCACGAGTCAGTGGCAC
1 CC-TTTCAAAGCCCACAAGTCAATGGCAT
* * *
281540 CCTTTCTAAGCCCACGAGTCAATGGCAC
1 CCTTTCAAAGCCCACAAGTCAATGGCAT
281568 CCTTTCAAAGCCCACAAGT-AAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAA-TGGCAT
*
281596 CCTTTCAAAAG-CCTCAAGT-AAGTGGCAT
1 CCTTTC-AAAGCCCACAAGTCAA-TGGCAT
*
281624 CCTTTCAAAAGCCCACAAGTCAGTGGCAT
1 CCTTTC-AAAGCCCACAAGTCAATGGCAT
* ** * *
281653 GCTTTCAAAGCCCATGAG-CGAGTGACAT
1 CCTTTCAAAGCCCACAAGTC-AATGGCAT
*
281681 CCTTTTCAAAGCTCACAAGT-AAGTGGCAT
1 CC-TTTCAAAGCCCACAAGTCAA-TGGCAT
* *
281710 CTTTTCAAAAGCCCACAAGTCAGTGGCAT
1 CCTTTC-AAAGCCCACAAGTCAATGGCAT
* *** *
281739 CCTTTTAAAGCCTACACAAGTTGGTGGCAA
1 CCTTTCAAAGCC--CACAAGTCAATGGCAT
281769 CCTTTTTCAAAGCCCACA
1 CC--TTTCAAAGCCCACA
281787 CAAGTCAGTG
Statistics
Matches: 253, Mismatches: 37, Indels: 28
0.80 0.12 0.09
Matches are distributed among these distances:
27 3 0.01
28 110 0.43
29 110 0.43
30 21 0.08
32 9 0.04
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAGTCAATGGCAT
Found at i:281566 original size:57 final size:56
Alignment explanation
Indices: 281377--281817 Score: 298
Period size: 57 Copynumber: 7.6 Consensus size: 56
281367 TTAAAGCCCA
* * * ** * *
281377 CACAAGTTAGTGGCAACCCTTTTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGTC
1 CACAAGTCAATGGC-ACCCTTTCAAAG-CC-CACAAGTAAGTGGC-ATCCTT-TCAAAGCC
* * * * * * *
281438 CACAAGTTAGTCGTACCCTTTCAAAGCCCACGAGTTAA-TAGCATCCTTTTCAAAGCT
1 CACAAGTCAATGGCACCCTTTCAAAGCCCACAAG-TAAGTGGCATCC-TTTCAAAGCC
* * * * *
281495 CATAAGTCAATGGCACCCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTTCTAAGCC
1 CACAAGTCAATGGCACCC-TTTCAAAGCCCACAAGTAAGTGGCATCCTTTCAAAGCC
*
281552 CACGAGTCAATGGCACCCTTTCAAAGCCCACAAGTAAGTGGCATCCTTTCAAAAG-C
1 CACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTAAGTGGCATCCTTTC-AAAGCC
* * * *
281608 CTCAAGT-AAGTGGCATCCTTTCAAAAGCCCACAAGTCAGTGGCATGCTTTCAAAGCC
1 CACAAGTCAA-TGGCACCCTTTC-AAAGCCCACAAGTAAGTGGCATCCTTTCAAAGCC
** * * * * *
281665 CATGAG-CGAGTGACATCCTTTTCAAAGCTCACAAGTAAGTGGCATCTTTTCAAAAGCC
1 CACAAGTC-AATGGCA-CCCTTTCAAAGCCCACAAGTAAGTGGCATCCTTTC-AAAGCC
* * * ** *
281723 CACAAGTCAGTGGCATCCTTTTAAAGCCTACACAAGTTGGTGGCAACCTTTTTCAAAGCCC
1 CACAAGTCAATGGCACCCTTTCAAAGCC--CACAAGTAAGTGGCATCC--TTTCAAAG-CC
* *
281784 ACACAAGTCAGTGGCAACCC-CTCTAAAGCCCACA
1 -CACAAGTCAATGGC-ACCCTTTC-AAAGCCCACA
281818 TAAATTAGTG
Statistics
Matches: 303, Mismatches: 56, Indels: 42
0.76 0.14 0.10
Matches are distributed among these distances:
55 2 0.01
56 50 0.17
57 118 0.39
58 54 0.18
59 18 0.06
60 15 0.05
61 22 0.07
62 15 0.05
63 9 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (56 bp):
CACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTAAGTGGCATCCTTTCAAAGCC
Found at i:281788 original size:32 final size:31
Alignment explanation
Indices: 281681--281993 Score: 221
Period size: 32 Copynumber: 10.1 Consensus size: 31
281671 CGAGTGACAT
* **
281681 CCTTTTCAAAGCTCAC--AAGTAAGTGGC-A
1 CCTTTTCAAAGCCCACATAAGTTGGTGGCAA
* ** *
281709 TCTTTTCAAAAGCCCAC--AAGTCAGTGGCAT
1 CCTTTTC-AAAGCCCACATAAGTTGGTGGCAA
* *
281739 CCTTTT-AAAGCCTACACAAGTTGGTGGCAA
1 CCTTTTCAAAGCCCACATAAGTTGGTGGCAA
* **
281769 CCTTTTTCAAAGCCCACACAAGTCAGTGGCAA
1 CC-TTTTCAAAGCCCACATAAGTTGGTGGCAA
** * *
281801 CC-CCTCTAAAGCCCACATAAATTAGTGGCAA
1 CCTTTTC-AAAGCCCACATAAGTTGGTGGCAA
*
281832 CCTTTCTCAAAGCCTACATAAGTTGGTGGCAA
1 CCTTT-TCAAAGCCCACATAAGTTGGTGGCAA
* * * *
281864 CCCCTTTTAAAAGCCCATATAAGTCGATGGCAA
1 --CCTTTTCAAAGCCCACATAAGTTGGTGGCAA
* *
281897 CC-TCTCAAAAACCCACATAAGTTGGTGGC-A
1 CCTTTTC-AAAGCCCACATAAGTTGGTGGCAA
* * *
281927 TCTCCTTCTAAAGCCCACACAAGTTGGTGGCAA
1 CCT-TTTC-AAAGCCCACATAAGTTGGTGGCAA
* *
281960 CCTTCTCTAAAGCCCACATAAGTTGGTGGTAA
1 CCTTTTC-AAAGCCCACATAAGTTGGTGGCAA
281992 CC
1 CC
281994 CTTCTAAGCC
Statistics
Matches: 226, Mismatches: 44, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
28 14 0.06
29 18 0.08
30 23 0.10
31 47 0.21
32 93 0.41
33 26 0.12
34 5 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (31 bp):
CCTTTTCAAAGCCCACATAAGTTGGTGGCAA
Found at i:281832 original size:63 final size:63
Alignment explanation
Indices: 281714--282000 Score: 262
Period size: 63 Copynumber: 4.6 Consensus size: 63
281704 TGGCATCTTT
** * * * * *
281714 TCAAAAGCCCAC--AAGTCAGTGGC-ATCCTTTTAAAGCCTACACAAGTTGGTGGCAACCTTTT
1 TCAAAAGCCCACATAAGTTGGTGGCAACCCTTCTAAAGCCCACACAAATTGGTGGCAACC-TTC
* ** * * *
281775 TC-AAAGCCCACACAAGTCAGTGGCAACCCCTCTAAAGCCCACATAAATTAGTGGCAACCTTTC
1 TCAAAAGCCCACATAAGTTGGTGGCAACCCTTCTAAAGCCCACACAAATTGGTGGCAACC-TTC
* * * * * * *
281838 TC-AAAGCCTACATAAGTTGGTGGCAACCCCTTTTAAAAGCCCATATAAGTCGATGGCAACC-TC
1 TCAAAAGCCCACATAAGTTGGTGGCAA-CCCTTCT-AAAGCCCACACAAATTGGTGGCAACCTTC
* * *
281901 TCAAAAACCCACATAAGTTGGTGGCATCTCCTTCTAAAGCCCACACAAGTTGGTGGCAACCTTC
1 TCAAAAGCCCACATAAGTTGGTGGCAAC-CCTTCTAAAGCCCACACAAATTGGTGGCAACCTTC
* *
281965 TCTAAAGCCCACATAAGTTGGTGGTAACCCTTCTAA
1 TCAAAAGCCCACATAAGTTGGTGGCAACCCTTCTAA
282001 GCCTAATGTT
Statistics
Matches: 187, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
60 9 0.05
61 2 0.01
62 11 0.06
63 87 0.47
64 57 0.30
65 21 0.11
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (63 bp):
TCAAAAGCCCACATAAGTTGGTGGCAACCCTTCTAAAGCCCACACAAATTGGTGGCAACCTTC
Found at i:281912 original size:96 final size:95
Alignment explanation
Indices: 281731--281961 Score: 297
Period size: 96 Copynumber: 2.4 Consensus size: 95
281721 CCCACAAGTC
* *
281731 AGTGGCATCCTTT-TAAAGCCTACACAAGTTGGTGGCAA-CCTTTTTCAAAGCCCACACAAGTCA
1 AGTGGCATCCTTTCTAAAGCCTACACAAGTTGGTGGCAACCCCTTTTAAAAGCCCACACAAGTCA
* *
281794 GTGGCAACCCCTCTAAAGCCCACATAAATT
66 GTGGCAACCCCTCAAAAACCCACATAAATT
* * * *
281824 AGTGGCAACCTTTCTCAAAGCCTACATAAGTTGGTGGCAACCCCTTTTAAAAGCCCATATAAGTC
1 AGTGGCATCCTTTCT-AAAGCCTACACAAGTTGGTGGCAACCCCTTTTAAAAGCCCACACAAGTC
* *
281889 -GATGGCAACCTCTCAAAAACCCACATAAGTT
65 AG-TGGCAACCCCTCAAAAACCCACATAAATT
* * *
281920 GGTGGCATCTCCTTCTAAAGCCCACACAAGTTGGTGGCAACC
1 AGTGGCATC-CTTTCTAAAGCCTACACAAGTTGGTGGCAACC
281962 TTCTCTAAAG
Statistics
Matches: 118, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
93 12 0.10
94 1 0.01
95 24 0.20
96 76 0.64
97 5 0.04
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (95 bp):
AGTGGCATCCTTTCTAAAGCCTACACAAGTTGGTGGCAACCCCTTTTAAAAGCCCACACAAGTCA
GTGGCAACCCCTCAAAAACCCACATAAATT
Found at i:282228 original size:61 final size:60
Alignment explanation
Indices: 282113--282357 Score: 226
Period size: 61 Copynumber: 4.0 Consensus size: 60
282103 CATTTTTAAA
* * * * * ** * *
282113 CCCAATGTCGTTGGCCTTGAATTAGCATATTGGCATTCTTCTCATCCTTATCATCTTTAAG
1 CCCAATATCATTGGCCTTGAATCAGCATATTGGCACT-TTATCATTTTTTTCATCTTCAAG
** * *
282174 TTCAATATCATTGGCTTTGAATCAGCATATTGGCACATTTATCATTTTTTTCATCTTCGAG
1 CCCAATATCATTGGCCTTGAATCAGCATATTGGCAC-TTTATCATTTTTTTCATCTTCAAG
* * *
282235 CCCAATGTCATTGGCCTTGAATCAACACATTGGCAC-TTATCAAATTTTCTTTC-T-TTCAAG
1 CCCAATATCATTGGCCTTGAATCAGCATATTGGCACTTTATC--ATTTT-TTTCATCTTCAAG
** * *
282295 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCGTTTTTCTCATCTTTCAAG
1 CCCAATATCATTGGCCTTGAATCAGCATATTGGCA-CTTTATCATTTTTTTCATC-TTCAAG
282357 C
1 C
282358 TCGATAATGC
Statistics
Matches: 148, Mismatches: 27, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
59 8 0.05
60 40 0.27
61 83 0.56
62 17 0.11
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (60 bp):
CCCAATATCATTGGCCTTGAATCAGCATATTGGCACTTTATCATTTTTTTCATCTTCAAG
Found at i:282370 original size:62 final size:59
Alignment explanation
Indices: 282185--282386 Score: 162
Period size: 62 Copynumber: 3.3 Consensus size: 59
282175 TCAATATCAT
* * * * *
282185 TGGCTTTGAATCAGCATATTGGCACATTTATCATTTTTTTCATC-TTCGAGCC-CAATGTC
1 TGGCCTTGAATCAACATATTGGCAC-TTTATCATTTTTCTCATCTTTCAAGCCATAATG-C
* * *
282244 ATTGGCCTTGAATCAACACATTGGCAC-TTATCAAATTTTCT-TTCTTTCAAGCCCA-ATATCGC
1 --TGGCCTTGAATCAACATATTGGCACTTTATC-ATTTTTCTCATCTTTCAAG-CCATA-AT-GC
* *
282306 TGGCCTTGAATCAGCATATTGGCATCTTTATCGTTTTTCTCATCTTTCAAGCTCGATAATGC
1 TGGCCTTGAATCAACATATTGGCA-CTTTATCATTTTTCTCATCTTTCAAGC-C-ATAATGC
* *
282368 TGGTCGTGAATCAACATAT
1 TGGCCTTGAATCAACATAT
282387 CGGTAATTTT
Statistics
Matches: 114, Mismatches: 15, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
59 7 0.06
60 33 0.29
61 33 0.29
62 36 0.32
63 4 0.04
64 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (59 bp):
TGGCCTTGAATCAACATATTGGCACTTTATCATTTTTCTCATCTTTCAAGCCATAATGC
Found at i:283651 original size:18 final size:16
Alignment explanation
Indices: 283628--283682 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 16
283618 GTTTTAGGGT
283628 GAAGAAGAAAGAAGAAA
1 GAAGAAG-AAGAAGAAA
283645 GGAAGAAGAAGAA-AAA
1 -GAAGAAGAAGAAGAAA
*
283661 GAAAAAGAAGAAGGAAA
1 GAAGAAGAAGAA-GAAA
283678 -AAGAA
1 GAAGAA
283683 AAACAAAGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 11 0.33
16 7 0.21
17 8 0.24
18 7 0.21
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
GAAGAAGAAGAAGAAA
Found at i:283683 original size:6 final size:6
Alignment explanation
Indices: 283632--283685 Score: 54
Period size: 6 Copynumber: 8.3 Consensus size: 6
283622 TAGGGTGAAG
* *
283632 AAGAAA GAAGAAA GGAAGAAG AAGAAA AAGAAA AAGAAGA AGGAAA AAGAAA
1 AAGAAA -AAGAAA --AAGAAA AAGAAA AAGAAA AAGAA-A AAGAAA AAGAAA
283684 AA
1 AA
283686 CAAAGCAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
6 24 0.59
7 11 0.27
8 6 0.15
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:283684 original size:18 final size:18
Alignment explanation
Indices: 283628--283684 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 18
283618 GTTTTAGGGT
*
283628 GAAGAA-GAAAGAAGAAAG
1 GAAGAAGGAAA-AAGAAAA
283646 GAAGAAGAAGAAAAAGAAAAA
1 GAAGAAG--GAAAAAG-AAAA
283667 GAAGAAGGAAAAAGAAAA
1 GAAGAAGGAAAAAGAAAA
283685 ACAAAGCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 10 0.29
19 7 0.21
20 3 0.09
21 14 0.41
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
GAAGAAGGAAAAAGAAAA
Found at i:284534 original size:2 final size:2
Alignment explanation
Indices: 284527--284555 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
284517 CACCTTCCCC
284527 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
284556 CAAAATTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:292421 original size:49 final size:49
Alignment explanation
Indices: 292349--292446 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
292339 TTTCTGCATC
292349 AAAGTTTTCTTTCAAATGCAAACCTTATAACCAAATATGAAAAATTAAG
1 AAAGTTTTCTTTCAAATGCAAACCTTATAACCAAATATGAAAAATTAAG
292398 AAAGTTTTCTTTCAAATGCAAACCTTATAACCAAATATGAAAAATTAAG
1 AAAGTTTTCTTTCAAATGCAAACCTTATAACCAAATATGAAAAATTAAG
292447 GTATATTGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (49 bp):
AAAGTTTTCTTTCAAATGCAAACCTTATAACCAAATATGAAAAATTAAG
Found at i:294484 original size:14 final size:15
Alignment explanation
Indices: 294454--294489 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
294444 GATAATTATA
294454 ATTAAATTATGTTTT
1 ATTAAATTATGTTTT
294469 ATTAAATTAT-TTTT
1 ATTAAATTATGTTTT
294483 ATATAAA
1 AT-TAAA
294490 ATTTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
ATTAAATTATGTTTT
Found at i:294509 original size:6 final size:6
Alignment explanation
Indices: 294492--294529 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
294482 TATATAAAAT
* *
294492 TTTAAA -TTAAA TTTAAA TTTAAA GTTAAT TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
294530 GTAATCAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:294511 original size:18 final size:19
Alignment explanation
Indices: 294488--294529 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
294478 TTTTTATATA
294488 AAATTTTAAA-TTAAATTT
1 AAATTTTAAAGTTAAATTT
*
294506 AAA-TTTAAAGTTAATTTT
1 AAATTTTAAAGTTAAATTT
294524 AAATTT
1 AAATTT
294530 GTAATCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 13 0.62
19 2 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
AAATTTTAAAGTTAAATTT
Found at i:294796 original size:27 final size:26
Alignment explanation
Indices: 294745--294821 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 26
294735 AGAAAGGAAA
* * *
294745 AAAATAATTC-TAAAAAATCACAAATT
1 AAAAT-ATTCATAAAAAATAAAAAATC
294771 AAAATATTCATAAAAACATAAAAAATC
1 AAAATATTCATAAAAA-ATAAAAAATC
*
294798 AAGAA-ATTTCAAAAAAAATAAAAA
1 AA-AATA-TTCATAAAAAATAAAAA
294822 TAAAAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
25 4 0.09
26 11 0.26
27 17 0.40
28 11 0.26
ACGTcount: A:0.68, C:0.09, G:0.01, T:0.22
Consensus pattern (26 bp):
AAAATATTCATAAAAAATAAAAAATC
Found at i:295442 original size:26 final size:22
Alignment explanation
Indices: 295413--295470 Score: 53
Period size: 23 Copynumber: 2.4 Consensus size: 22
295403 AGGAATTTTG
295413 AAATATCATTTGAGATAATTATAATT
1 AAATAT-ATTTGA-AT-ATTA-AATT
*
295439 AAATTATGTTTGAATATTAAATT
1 AAA-TATATTTGAATATTAAATT
295462 AAATTATAT
1 AAA-TATAT
295471 ATTTTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 12 0.41
24 4 0.14
25 2 0.07
26 8 0.28
27 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.45
Consensus pattern (22 bp):
AAATATATTTGAATATTAAATT
Found at i:295754 original size:28 final size:29
Alignment explanation
Indices: 295723--295782 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
295713 AATAAAACAT
295723 AAAAATTATAAAAA-TTTCAAGAAAAGAA
1 AAAAATTATAAAAATTTTCAAGAAAAGAA
**
295751 AAAAATTATAAAAATTTTCTTGAAAAGAA
1 AAAAATTATAAAAATTTTCAAGAAAAGAA
295780 AAA
1 AAA
295783 TAAAAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (29 bp):
AAAAATTATAAAAATTTTCAAGAAAAGAA
Found at i:296984 original size:27 final size:27
Alignment explanation
Indices: 296938--297012 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
296928 ACAAGCTACA
* *
296938 ATTTTTGACAAACAAAAAAGGATCCACC
1 ATTTTTGACAAAC-ACAAAGGAACCACC
* * *
296966 ATTTTTTACAAATACAAAGTAACCACC
1 ATTTTTGACAAACACAAAGGAACCACC
*
296993 GTTTTTGACAAACACAAAGG
1 ATTTTTGACAAACACAAAGG
297013 GTGGCTTTTG
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 27 0.71
28 11 0.29
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (27 bp):
ATTTTTGACAAACACAAAGGAACCACC
Found at i:301551 original size:27 final size:28
Alignment explanation
Indices: 301505--301568 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
301495 AAAAGTCACA
**
301505 ATTTTTGACAAACAAAAAAGGATGCACC
1 ATTTTTGACAAACAAAAAAGGAACCACC
* * *
301533 ATTTTTGACAAA-TACAAAGTAACCACC
1 ATTTTTGACAAACAAAAAAGGAACCACC
301560 ATTTTTGAC
1 ATTTTTGAC
301569 TGTCGCAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 19 0.61
28 12 0.39
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (28 bp):
ATTTTTGACAAACAAAAAAGGAACCACC
Found at i:304538 original size:13 final size:13
Alignment explanation
Indices: 304520--304544 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
304510 ATACAAAGAT
304520 CAATGTATCGATG
1 CAATGTATCGATG
304533 CAATGTATCGAT
1 CAATGTATCGAT
304545 ACATTGAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATG
Found at i:304539 original size:33 final size:33
Alignment explanation
Indices: 304501--304567 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
304491 AAAATTTTCA
304501 AATGTATCAATACAAAGA-TCAATGTATCGATGC
1 AATGTATCAATACAAAGAGT-AATGTATCGATGC
* **
304534 AATGTATCGATACATTGAGTAATGTATCGATGC
1 AATGTATCAATACAAAGAGTAATGTATCGATGC
304567 A
1 A
304568 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (33 bp):
AATGTATCAATACAAAGAGTAATGTATCGATGC
Found at i:304607 original size:13 final size:13
Alignment explanation
Indices: 304585--304642 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
304575 GGCAGTAGCT
*
304585 TTGTAGCGATACA
1 TTGTATCGATACA
304598 TTGTATCGATACAATA
1 TTGTATCGATAC---A
304614 CTTATGTATCGATACA
1 --T-TGTATCGATACA
304630 TTGTATCGATACA
1 TTGTATCGATACA
304643 AAACTTATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:304623 original size:19 final size:18
Alignment explanation
Indices: 304599--304661 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
304589 AGCGATACAT
304599 TGTATCGATACAATACTTA
1 TGTATCGATACAA-ACTTA
304618 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
304631 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
304650 TGTATCGATACA
1 TGTATCGATACA
304662 TTTACTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 2 0.05
19 22 0.58
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:304632 original size:32 final size:32
Alignment explanation
Indices: 304586--304663 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
304576 GCAGTAGCTT
* *
304586 TGTAGCGATACATTGTATCGATACAATACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
304618 TGTATCGATACATTGTATCGATACAAAACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
304650 TGTATCGATACATT
1 TGTATCGATACATT
304664 TACTGTTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAAAACTTA
Found at i:305589 original size:49 final size:49
Alignment explanation
Indices: 305325--305995 Score: 555
Period size: 49 Copynumber: 14.0 Consensus size: 49
305315 GATAAAAGGT
* * * * *
305325 ATATGCTGATTCACGGCCAACGATATTGGGTTTTAAAGATGACGAAGGCGCTA
1 ATATGCTGATTCAAGGCCAGCGATATT-GGTCTTAAAGAT---GAAGGTGCCA
* * ** *
305378 ATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAGATGAAGGTATCG
1 ATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGTGCCA
* * * * * * *
305427 TTGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-ACGTGCTA
1 ATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGTGCCA
* * * * * *
305475 ATATGCTGATTCAAGACCAGTGATATTGGGCTTAAAAATGGTTGAGGTGCCG
1 ATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAT-G--AAGGTGCCA
* * * *
305527 ATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCA
1 ATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGTGCCA
* * *
305576 ATATGCTGATTCAAGGCCAGCGATACTGGGCTT---G-T----GT--TA
1 ATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGTGCCA
* * *
305615 ATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGATGACGAGGTGCCA
1 ATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGA--AGGTGCCA
* *
305666 ATATGCTGATTCAAAGCCAGCGATATTGGGC-T-----T--A--TGCCA
1 ATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGTGCCA
* * * *
305705 ATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCTA
1 ATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGTGCCA
* * * * * * *
305753 ATATACTGATTCAAAGCCAACAATATT-GACTTAAAAATGAAGGTGCTA
1 ATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGTGCCA
* * *
305801 ATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGGCGCCA
1 ATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAA-GGTGCCA
* *
305850 ATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCA
1 ATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGTGCCA
* * *
305899 ATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGATGGTGCCA
1 ATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGTGCCA
* * * *
305948 ATATGCTGATTCAAGGTCAGCAATATTGGACTTAAAGA-CAAGGTGCCA
1 ATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGTGCCA
305996 CGAAGTTGTG
Statistics
Matches: 490, Mismatches: 98, Indels: 65
0.75 0.15 0.10
Matches are distributed among these distances:
39 62 0.13
40 1 0.00
41 3 0.01
42 1 0.00
43 1 0.00
45 2 0.00
46 2 0.00
47 8 0.02
48 99 0.20
49 209 0.43
50 3 0.01
51 29 0.06
52 46 0.09
53 24 0.05
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
ATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGTGCCA
Found at i:305715 original size:39 final size:39
Alignment explanation
Indices: 305661--305738 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
305651 GATGACGAGG
*
305661 TGCCAATATGCTGATTCAAAGCCAGCGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAAGCCAGCGACATTGGGCTTA
* * *
305700 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
1 TGCCAATATGCTGATTCAAAGCCAGCGACATTGGGCTTA
305739 AAGACAAGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAAGCCAGCGACATTGGGCTTA
Found at i:306063 original size:34 final size:32
Alignment explanation
Indices: 305981--306114 Score: 160
Period size: 34 Copynumber: 4.1 Consensus size: 32
305971 TATTGGACTT
* * *
305981 AAAGACAAGGTGCCACGAAGTTGTGGCCTTAA
1 AAAGAAAAGGTGCCACGGAGTTGTGGGCTTAA
* *
306013 AAAGAAAAAGTGCCACGGAGTTATGGGCTTAAA
1 AAAGAAAAGGTGCCACGGAGTTGTGGGCTT-AA
*
306046 AAAGAAGAGGGTGCCACGGAGTTGTGGGCTTTAA
1 AAAGAA-AAGGTGCCACGGAGTTGTGGGC-TTAA
* *
306080 AAAGAACAAGGTGCCACGGAGTGGTGGACTTAA
1 AAAGAA-AAGGTGCCACGGAGTTGTGGGCTTAA
306113 AA
1 AA
306115 GGGTGCCATA
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
32 25 0.29
33 14 0.16
34 46 0.53
35 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.31, T:0.18
Consensus pattern (32 bp):
AAAGAAAAGGTGCCACGGAGTTGTGGGCTTAA
Found at i:306112 original size:68 final size:66
Alignment explanation
Indices: 305989--306114 Score: 180
Period size: 68 Copynumber: 1.9 Consensus size: 66
305979 TTAAAGACAA
* *
305989 GGTGCCACGAAGTTGTGGCCTTAAAAAGAAAAAGTGCCACGGAGTTATGGGCTTAAAAAAGAAGA
1 GGTGCCACGAAGTTGTGGCCTTAAAAAGAAAAAGTGCCACGGAGTGATGGACTTAAAAAAGAAGA
306054 G
66 G
* * * *
306055 GGTGCCACGGAGTTGTGGGCTTTAAAAAGAACAAGGTGCCACGGAGTGGTGGACTTAAAA
1 GGTGCCACGAAGTTGT-GGCCTTAAAAAGAA-AAAGTGCCACGGAGTGATGGACTTAAAA
306115 GGGTGCCATA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 15 0.29
67 13 0.25
68 24 0.46
ACGTcount: A:0.34, C:0.14, G:0.33, T:0.19
Consensus pattern (66 bp):
GGTGCCACGAAGTTGTGGCCTTAAAAAGAAAAAGTGCCACGGAGTGATGGACTTAAAAAAGAAGA
G
Found at i:306282 original size:33 final size:33
Alignment explanation
Indices: 306130--306486 Score: 361
Period size: 30 Copynumber: 11.3 Consensus size: 33
306120 CCATAAAATT
* * * *
306130 GTGGACTTTCAAAAGAAAAAGGTGCCACAGAGTC
1 GTGGACTTTGAAGA-AAAAAGATGCCACTGAGTC
* * * *
306164 ATGGACTTTG--G-GAAGAGATGCCATTGAGTC
1 GTGGACTTTGAAGAAAAAAGATGCCACTGAGTC
* *
306194 GTGGATTTTGAAG--AAAAGATGCTACTGAGTC
1 GTGGACTTTGAAGAAAAAAGATGCCACTGAGTC
* * *
306225 ATGGACTTT--AG-GAAGAGATGCCACTGAGTC
1 GTGGACTTTGAAGAAAAAAGATGCCACTGAGTC
306255 GTGGACTTTGAAGAAAAAAGATGCCACTGAGTC
1 GTGGACTTTGAAGAAAAAAGATGCCACTGAGTC
306288 GTGGACTTTGAAGAAAAAAGATGCCACTGAGTC
1 GTGGACTTTGAAGAAAAAAGATGCCACTGAGTC
306321 GTGGACTTTGAAG-AAAAAGATGCCACTGAGTC
1 GTGGACTTTGAAGAAAAAAGATGCCACTGAGTC
* * * *
306353 ATGGAC-TT-CAGAAAAGAGATGCCACTGAGTT
1 GTGGACTTTGAAGAAAAAAGATGCCACTGAGTC
** * *
306384 GTGGACTTTG--G-GGAGAGATGCCACTAAGTC
1 GTGGACTTTGAAGAAAAAAGATGCCACTGAGTC
*
306414 GTGGACTTTGAAGAAAAAAGATGCCACTAAGTC
1 GTGGACTTTGAAGAAAAAAGATGCCACTGAGTC
* * *
306447 GTGGAC-TT--AGAAAAGAGATACCACTGAGTT
1 GTGGACTTTGAAGAAAAAAGATGCCACTGAGTC
306477 GTGGACTTTG
1 GTGGACTTTG
306487 TGAAGAGAAA
Statistics
Matches: 273, Mismatches: 36, Indels: 30
0.81 0.11 0.09
Matches are distributed among these distances:
29 2 0.01
30 97 0.36
31 49 0.18
32 32 0.12
33 85 0.31
34 8 0.03
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (33 bp):
GTGGACTTTGAAGAAAAAAGATGCCACTGAGTC
Found at i:306389 original size:159 final size:156
Alignment explanation
Indices: 306130--306486 Score: 450
Period size: 159 Copynumber: 2.3 Consensus size: 156
306120 CCATAAAATT
* * * * * * * *
306130 GTGGACTTTCAAAAGAAAAAGGTGCCACAGAGTCATGGACTTTGGGAAGAGATGCCATTGAGTCG
1 GTGGACTTT-AAGA-AAAAAGATGCCACTGAGTCGTGGACTTTGGAAAAAGATGCCACTGAGTCA
** * *
306195 TGGATTTTGAAGAAAAGATGCTACTGAGTCATGGACTTTAGGAAGAGATGCCACTGAGTCGTGGA
64 TGGATTCAGAAGAAAAGATGCCACTGAGTCATGGACTTTAGGAAGAGATGCCACTAAGTCGTGGA
*
306260 CTTTGAAGAAAAAAGATGCCACTGAGTC
129 CTTTGAAGAAAAAAGATGCCACTAAGTC
306288 GTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAGATGCCACTGAGTC
1 GTGGACTTT-AAGAAAAAAGATGCCACTGAGTCGTGGACTTTG--GAAAAAGATGCCACTGAGTC
* ** * *
306353 ATGGACTTCAGAA-AAGAGATGCCACTGAGTTGTGGACTTTGGGGAGAGATGCCACTAAGTCGTG
63 ATGGA-TTCAGAAGAAAAGATGCCACTGAGTCATGGACTTTAGGAAGAGATGCCACTAAGTCGTG
306417 GACTTTGAAGAAAAAAGATGCCACTAAGTC
127 GACTTTGAAGAAAAAAGATGCCACTAAGTC
* * *
306447 GTGGAC-TT-AGAAAAGAGATACCACTGAGTTGTGGACTTTG
1 GTGGACTTTAAGAAAAAAGATGCCACTGAGTCGTGGACTTTG
306487 TGAAGAGAAA
Statistics
Matches: 174, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
156 29 0.17
157 26 0.15
158 14 0.08
159 100 0.57
160 5 0.03
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (156 bp):
GTGGACTTTAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGGAAAAAGATGCCACTGAGTCATG
GATTCAGAAGAAAAGATGCCACTGAGTCATGGACTTTAGGAAGAGATGCCACTAAGTCGTGGACT
TTGAAGAAAAAAGATGCCACTAAGTC
Found at i:306429 original size:63 final size:64
Alignment explanation
Indices: 306143--306486 Score: 370
Period size: 63 Copynumber: 5.5 Consensus size: 64
306133 GACTTTCAAA
* * * * * *
306143 AGAAAAAGGTGCCACAGAGTCATGGACTTTG--G-GAAGAGATGCCATTGAGTCGTGGATTTTG
1 AGAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGAGATGCCACTGAGTCGTGGACTTTG
* * *
306204 A-AGAAAAGATGCTACTGAGTCATGGACTTT--AG-GAAGAGATGCCACTGAGTCGTGGACTTTG
1 AGA-AAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGAGATGCCACTGAGTCGTGGACTTTG
*
306265 AAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTT
1 -AG-AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGAGATGCCACTGAGTCGTGGACTTT
306330 G
64 G
* * *
306331 AAGAAAAAGATGCCACTGAGTCATGGAC-TT-CAGAAAAGAGATGCCACTGAGTTGTGGACTTTG
1 -AGAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGAGATGCCACTGAGTCGTGGACTTTG
** * * * *
306394 -GGGAGAGATGCCACTAAGTCGTGGACTTTGAAGAAAAAAGATGCCACTAAGTCGTGGAC-TT-
1 AGAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGAGATGCCACTGAGTCGTGGACTTTG
* *
306455 AGAAAAGAGATACCACTGAGTTGTGGACTTTG
1 AGAAAA-AGATGCCACTGAGTCGTGGACTTTG
306487 TGAAGAGAAA
Statistics
Matches: 243, Mismatches: 28, Indels: 22
0.83 0.10 0.08
Matches are distributed among these distances:
60 1 0.00
61 74 0.30
62 7 0.03
63 102 0.42
64 3 0.01
65 26 0.11
66 30 0.12
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (64 bp):
AGAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGAGATGCCACTGAGTCGTGGACTTTG
Found at i:314749 original size:20 final size:20
Alignment explanation
Indices: 314724--314798 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
314714 AAATTCCCAG
**
314724 ATGTATCGATACAAAGA-TCA
1 ATGTATCGATACATTGAGT-A
314744 ATGTATCGATACATTGAGTA
1 ATGTATCGATACATTGAGTA
314764 ATGTATCGATACATTGAGTA
1 ATGTATCGATACATTGAGTA
314784 ATGTATCGATACATT
1 ATGTATCGATACATT
314799 TCCTTGGCAG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
20 51 0.98
21 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGAGTA
Found at i:315343 original size:15 final size:15
Alignment explanation
Indices: 315319--315355 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
315309 TTTTGGAGGA
*
315319 ATATTGTGATTATAT
1 ATATTATGATTATAT
315334 ATATTATGATTATAT
1 ATATTATGATTATAT
*
315349 TTATTAT
1 ATATTAT
315356 TAATATCTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (15 bp):
ATATTATGATTATAT
Found at i:317167 original size:27 final size:27
Alignment explanation
Indices: 317137--317208 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
317127 AAAGCCACCA
* *
317137 TTTGTGTTTGTTAAAAATAGTGGTTAC
1 TTTGTGTTTGTCAAAAATAGTAGTTAC
* * * *
317164 TTTGTATTTGTCAAAAGTGGTAGTTCC
1 TTTGTGTTTGTCAAAAATAGTAGTTAC
*
317191 TTTTTGTTTGTCAAAAAT
1 TTTGTGTTTGTCAAAAAT
317209 TATGGCTTGT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.25, C:0.07, G:0.19, T:0.49
Consensus pattern (27 bp):
TTTGTGTTTGTCAAAAATAGTAGTTAC
Found at i:319509 original size:20 final size:20
Alignment explanation
Indices: 319484--319543 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
319474 TATTACCCAG
*
319484 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTATCA
* * *
319504 ATGTATCCATACATGTATGA
1 ATGTATCGATACATTTATCA
*
319524 ACGTATCGATACATTCTATC
1 ATGTATCGATACATT-TATC
319544 TTTTTACCCA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:319569 original size:51 final size:51
Alignment explanation
Indices: 319504--319639 Score: 211
Period size: 51 Copynumber: 2.7 Consensus size: 51
319494 ACATTTTTCA
* *
319504 ATGTATCCATACATGTATGAACGTATCGATACATTCTATCTTTTTACCCAG
1 ATGTATCGATACATGTATGAATGTATCGATACATTCTATCTTTTTACCCAG
* *
319555 ATGTATTGATACATGTATGAATGTATCGATACATTTTATCTTTTTACCCAG
1 ATGTATCGATACATGTATGAATGTATCGATACATTCTATCTTTTTACCCAG
*
319606 ATGTATCGATACATTGAAT-AATGTATCGATACAT
1 ATGTATCGATACA-TGTATGAATGTATCGATACAT
319640 CTAGTTAAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 74 0.95
52 4 0.05
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (51 bp):
ATGTATCGATACATGTATGAATGTATCGATACATTCTATCTTTTTACCCAG
Found at i:321289 original size:10 final size:11
Alignment explanation
Indices: 321274--321302 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
321264 CCACTTGATG
321274 ATTTTTCAAA-
1 ATTTTTCAAAT
321284 ATTTTTCAAAT
1 ATTTTTCAAAT
321295 ATTTTTCA
1 ATTTTTCA
321303 TAAAAACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTTTTCAAAT
Found at i:324494 original size:287 final size:286
Alignment explanation
Indices: 323978--324845 Score: 1522
Period size: 287 Copynumber: 3.0 Consensus size: 286
323968 CATCGTGGGA
*
323978 CAATTGGTTTTTGGTTTAGTGTTCAGCAAAGGGCATTAGTCATGCAGCAGCAAATTGGCATTACC
1 CAATTGGTTTTTGGTTTAGTGTTCAGCAAAGGGCATTAGTCATGCAGCAGCAAATTGGCACTACC
* *
324043 CTTGAATCGATCGAGGATGTCAAAACATGATCAGAAAATCACCAACGTCAAGATGGAGACATCTT
66 CTTGAATCGTTCGAGGATGTCAAAACATGATCAGAAAATCGCCAACGTCAAGAT-GAGACATCTT
*
324108 AAAACCTGATTACACCTCAACCACACATGAAAGGATCAAGATCGGGTTTCGTCAGAATGATTGGC
130 AAAACCTGATTACACCTCAACCACACATGAAAGGGTCAAGATCGGGTTTCGTCAGAATGATTGG-
324173 T-AGAATTGAAGCACATTTGGGATGGTTGGGACATTCATGTAAAAGAGTCATTCACCAAGAGATA
194 TGAGAATTGAAGCACATTTGGGATGGTTGGGACATTCATGTAAAAGAGTCATTCACCAAGAGATA
*
324237 CGGAGACATAGCATTCCTGCTCCAAGTT
259 CGGAGACATAGCACTCCTGCTCCAAGTT
*
324265 CAATTGGTTTTTGGTTTAGTGTTCAACAAAGGGCATTAGTCATGCAGCAGCAAATTGGCACTACC
1 CAATTGGTTTTTGGTTTAGTGTTCAGCAAAGGGCATTAGTCATGCAGCAGCAAATTGGCACTACC
*
324330 TTTGAATCGTTCGAGGATGTCAAAACATGATCAGAAAATCGCCAACGTCAAGATGAAGACATCTT
66 CTTGAATCGTTCGAGGATGTCAAAACATGATCAGAAAATCGCCAACGTCAAGATG-AGACATCTT
* *
324395 AAAACTTGATTACACCTCAACCACACATGAAAGGGTCAAAATCGGGTTTCGTCAGAATGATTGGT
130 AAAACCTGATTACACCTCAACCACACATGAAAGGGTCAAGATCGGGTTTCGTCAGAATGATTGGT
*
324460 GAGAATTGAAGCACATTTGGGATGGTTTGGACATTCATGTAAAAGAGTCATTCACCAAGAGATAC
195 GAGAATTGAAGCACATTTGGGATGGTTGGGACATTCATGTAAAAGAGTCATTCACCAAGAGATAC
324525 GGAGACATAGCACTCCTGCTCCAAGTT
260 GGAGACATAGCACTCCTGCTCCAAGTT
* * *
324552 TAATTGGTTTTTGGTTTAGTGTTCAGCAAAGGGCATTAGTCATGTAGCAGCAAATTGGCACTCCC
1 CAATTGGTTTTTGGTTTAGTGTTCAGCAAAGGGCATTAGTCATGCAGCAGCAAATTGGCACTACC
*
324617 CTTGAATCGTTCGAGGATGTCAAAACATAATCAGAAAATCGCCAACGTCAAGATTGAGACATCTT
66 CTTGAATCGTTCGAGGATGTCAAAACATGATCAGAAAATCGCCAACGTCAAGA-TGAGACATCTT
** *
324682 AAAACCTGATTACACCTCAACCACACATGAAAGGGTCAAGATCGGGTTTTTTCAGAATGATTGGC
130 AAAACCTGATTACACCTCAACCACACATGAAAGGGTCAAGATCGGGTTTCGTCAGAATGATTGGT
324747 GAGAATTGAAGCACATTTGGGATGGTTGGGACATTCATGTAAAAGAGTCATTCACCAAGAGATAC
195 GAGAATTGAAGCACATTTGGGATGGTTGGGACATTCATGTAAAAGAGTCATTCACCAAGAGATAC
* *
324812 GAAGACATAGCGCTCCTGCTCCAAGTT
260 GGAGACATAGCACTCCTGCTCCAAGTT
324839 CAATTGG
1 CAATTGG
324846 ATGAAGGACT
Statistics
Matches: 553, Mismatches: 25, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
286 2 0.00
287 549 0.99
288 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (286 bp):
CAATTGGTTTTTGGTTTAGTGTTCAGCAAAGGGCATTAGTCATGCAGCAGCAAATTGGCACTACC
CTTGAATCGTTCGAGGATGTCAAAACATGATCAGAAAATCGCCAACGTCAAGATGAGACATCTTA
AAACCTGATTACACCTCAACCACACATGAAAGGGTCAAGATCGGGTTTCGTCAGAATGATTGGTG
AGAATTGAAGCACATTTGGGATGGTTGGGACATTCATGTAAAAGAGTCATTCACCAAGAGATACG
GAGACATAGCACTCCTGCTCCAAGTT
Found at i:331907 original size:13 final size:13
Alignment explanation
Indices: 331889--331913 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
331879 CATAAAATGT
331889 TGTATCGATACAA
1 TGTATCGATACAA
331902 TGTATCGATACA
1 TGTATCGATACA
331914 TTTTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Done.