Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold166
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: 2719372
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17868 characters in sequence are not A, C, G, or T
File 2 of 18
Found at i:187190 original size:20 final size:19
Alignment explanation
Indices: 187161--187233 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
187151 CTGTCAATTT
**
187161 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
187181 CATGTGTCGATACAATGAA
1 CATGTATCGATACAATGAA
*
187200 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
187221 -ATGTATCGATACA
1 CATGTATCGATACA
187234 TTTGGGTGAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 17 0.37
20 28 0.61
21 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:189405 original size:20 final size:19
Alignment explanation
Indices: 189351--189406 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
189341 AAAACCCTTA
*
189351 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
189371 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
189391 AATGTATCGATACATG
1 AAAGTATCGATACATG
189407 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:189494 original size:13 final size:13
Alignment explanation
Indices: 189476--189501 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
189466 TACACAAAAT
189476 ATGTATCGATACA
1 ATGTATCGATACA
189489 ATGTATCGATACA
1 ATGTATCGATACA
189502 TAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:189499 original size:32 final size:33
Alignment explanation
Indices: 189458--189521 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
189448 TAGCCAAACT
*
189458 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
*
189490 TGTATCGATACATAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
189522 TTGGCTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:193598 original size:15 final size:15
Alignment explanation
Indices: 193578--193608 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
193568 TAAAAATGTC
*
193578 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
193593 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
193608 C
1 C
193609 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:194901 original size:116 final size:116
Alignment explanation
Indices: 194697--194929 Score: 457
Period size: 116 Copynumber: 2.0 Consensus size: 116
194687 GGATATTATG
*
194697 TTTAGTGTATGCCTATGTGCCCGTTTTCAATCTGCACCTAGGGAGTCTCATTTACATGTCGTAAA
1 TTTAGTGTATGCCTATGTGCCCGTTTTCAATCTGCACCTAGGGAGTCTCATTTACATGCCGTAAA
194762 AAAAATTTTTAGGTATTTGCGAGATACTCCAAATCTAGGTCTTTGGTACCC
66 AAAAATTTTTAGGTATTTGCGAGATACTCCAAATCTAGGTCTTTGGTACCC
194813 TTTAGTGTATGCCTATGTGCCCGTTTTCAATCTGCACCTAGGGAGTCTCATTTACATGCCGTAAA
1 TTTAGTGTATGCCTATGTGCCCGTTTTCAATCTGCACCTAGGGAGTCTCATTTACATGCCGTAAA
194878 AAAAATTTTTAGGTATTTGCGAGATACTCCAAATCTAGGTCTTTGGTACCC
66 AAAAATTTTTAGGTATTTGCGAGATACTCCAAATCTAGGTCTTTGGTACCC
194929 T
1 T
194930 AAGGAATCTT
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (116 bp):
TTTAGTGTATGCCTATGTGCCCGTTTTCAATCTGCACCTAGGGAGTCTCATTTACATGCCGTAAA
AAAAATTTTTAGGTATTTGCGAGATACTCCAAATCTAGGTCTTTGGTACCC
Found at i:195825 original size:13 final size:13
Alignment explanation
Indices: 195807--195871 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
195797 CATTTTTCTT
195807 TGTATCGATACAA
1 TGTATCGATACAA
*
195820 TGTATCGATACAC
1 TGTATCGATACAA
195833 TGTATCGATACAA
1 TGTATCGATACAA
*
195846 TGTATCGATACAC
1 TGTATCGATACAA
195859 TGTATCGATACAA
1 TGTATCGATACAA
195872 GGGGATTATA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:195843 original size:26 final size:26
Alignment explanation
Indices: 195807--195871 Score: 130
Period size: 26 Copynumber: 2.5 Consensus size: 26
195797 CATTTTTCTT
195807 TGTATCGATACAATGTATCGATACAC
1 TGTATCGATACAATGTATCGATACAC
195833 TGTATCGATACAATGTATCGATACAC
1 TGTATCGATACAATGTATCGATACAC
195859 TGTATCGATACAA
1 TGTATCGATACAA
195872 GGGGATTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31
Consensus pattern (26 bp):
TGTATCGATACAATGTATCGATACAC
Found at i:196025 original size:20 final size:20
Alignment explanation
Indices: 195982--196027 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
195972 AAATCTTTTG
195982 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
196003 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
196023 CAAAA
1 CAAAA
196028 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:198318 original size:20 final size:20
Alignment explanation
Indices: 198293--198369 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
198283 AAAACCCTTA
*
198293 AAAGTATCGATACACAGTT-C
1 AAAGTATCGATACA-TGTTGC
198313 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTTGC
*
198333 AATGTATCGATACATGTTGC
1 AAAGTATCGATACATGTTGC
*
198353 AATGTATCGATACATGT
1 AAAGTATCGATACATGT
198370 CATTGGAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
19 3 0.06
20 51 0.94
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACATGTTGC
Found at i:198423 original size:19 final size:18
Alignment explanation
Indices: 198399--198461 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
198389 TAGCCAAACT
198399 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
198418 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
198431 TGTATCGATACACAAAAA
1 TGTATCGATACACAAAAA
198449 TTGTATCGATACA
1 -TGTATCGATACA
198462 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
18 2 0.05
19 21 0.55
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:198435 original size:13 final size:13
Alignment explanation
Indices: 198417--198442 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
198407 TACACAAAAT
198417 ATGTATCGATACA
1 ATGTATCGATACA
198430 ATGTATCGATACA
1 ATGTATCGATACA
198443 CAAAAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:198440 original size:32 final size:32
Alignment explanation
Indices: 198399--198461 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
198389 TAGCCAAACT
198399 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAAT-TGTATCGATACAA
198431 TGTATCGATACACAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAATTGTATCGATACA
198462 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 25 0.83
33 5 0.17
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACAAAAATTGTATCGATACAA
Found at i:199714 original size:18 final size:18
Alignment explanation
Indices: 199686--199801 Score: 55
Period size: 18 Copynumber: 6.4 Consensus size: 18
199676 TACTATTAAT
199686 TTTATTTATTTTTAAATAA
1 TTTA-TTATTTTTAAATAA
*
199705 TTTATTATTTATT-ATTAA
1 TTTATTATTT-TTAAATAA
199723 TTTA-T-TTTTTAACATAA
1 TTTATTATTTTTAA-ATAA
** * *
199740 -AAATAAATTTTAAATATA
1 TTTATTATTTTTAAATA-A
*
199758 TTTTTTA-TTTTAATATAAA
1 TTTATTATTTTTAA-AT-AA
* * *
199777 TATAATATTTTT-AATTA
1 TTTATTATTTTTAAATAA
199794 TTTATTAT
1 TTTATTAT
199802 ATATATACAT
Statistics
Matches: 71, Mismatches: 16, Indels: 22
0.65 0.15 0.20
Matches are distributed among these distances:
15 2 0.03
16 5 0.07
17 14 0.20
18 29 0.41
19 16 0.23
20 5 0.07
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTATTATTTTTAAATAA
Found at i:199776 original size:36 final size:36
Alignment explanation
Indices: 199722--199801 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
199712 TTTATTATTA
199722 ATTTATT-TTTTAACATAAAAATAA-ATTTTAAATAT
1 ATTTATTATTTTAACATAAAAATAATATTTTAAAT-T
* * * *
199757 ATTTTTTATTTTAATATAAATATAATATTTTTAATT
1 ATTTATTATTTTAACATAAAAATAATATTTTAAATT
199793 ATTTATTAT
1 ATTTATTAT
199802 ATATATACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
35 6 0.16
36 24 0.63
37 8 0.21
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (36 bp):
ATTTATTATTTTAACATAAAAATAATATTTTAAATT
Found at i:203509 original size:2 final size:2
Alignment explanation
Indices: 203502--203527 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
203492 AGTGACCCTG
203502 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
203528 TCGACGACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:204134 original size:18 final size:18
Alignment explanation
Indices: 204111--204149 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
204101 TTCATTCTAT
204111 TTGAGCTCACTTTTGGTA
1 TTGAGCTCACTTTTGGTA
204129 TTGAGCTCACTTTTGGTA
1 TTGAGCTCACTTTTGGTA
204147 TTG
1 TTG
204150 CAGGACTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (18 bp):
TTGAGCTCACTTTTGGTA
Found at i:204197 original size:6 final size:7
Alignment explanation
Indices: 204161--204196 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
204151 AGGACTCAAT
204161 TAAAAAA
1 TAAAAAA
204168 TAATAAAA
1 TAA-AAAA
204176 TCAAAAAA
1 T-AAAAAA
204184 TAAAAAA
1 TAAAAAA
204191 TAAAAA
1 TAAAAA
204197 TTGAAGGACG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 15 0.56
8 10 0.37
9 2 0.07
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Found at i:204197 original size:13 final size:15
Alignment explanation
Indices: 204161--204196 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
204151 AGGACTCAAT
204161 TAAAAAATAATAAAA
1 TAAAAAATAATAAAA
204176 TCAAAAAATAA-AAAA
1 T-AAAAAATAATAAAA
204191 TAAAAA
1 TAAAAA
204197 TTGAAGGACG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 6 0.30
16 9 0.45
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAAAAATAATAAAA
Found at i:205721 original size:81 final size:81
Alignment explanation
Indices: 205622--205782 Score: 259
Period size: 81 Copynumber: 2.0 Consensus size: 81
205612 TTTCCCATGT
* *
205622 CAAGATTTCATCTTTGTGTGATTGCATGCGTGATACTTGTTCATCTTTGTGCATATGGTATTTTA
1 CAAGATGTCATCTTTGTGTGATTGCATGCGTGATACTTGTTCATCTTTGTGCATATGCTATTTTA
205687 TGCATGATATGTTTGC
66 TGCATGATATGTTTGC
* * *
205703 CAAGATGTCATCTTTGTGTGTTTGCATGGGTGATACTTGTTCATCTTTGTGCATATGCTATTTTG
1 CAAGATGTCATCTTTGTGTGATTGCATGCGTGATACTTGTTCATCTTTGTGCATATGCTATTTTA
* *
205768 TTCATGATTTGTTTG
66 TGCATGATATGTTTG
205783 TCAAAATGCA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.18, C:0.13, G:0.22, T:0.47
Consensus pattern (81 bp):
CAAGATGTCATCTTTGTGTGATTGCATGCGTGATACTTGTTCATCTTTGTGCATATGCTATTTTA
TGCATGATATGTTTGC
Found at i:212554 original size:15 final size:15
Alignment explanation
Indices: 212534--212566 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
212524 ATACATCTAG
212534 GTAAAAAGACAGAAT
1 GTAAAAAGACAGAAT
212549 GTAAAAAGACAGAAT
1 GTAAAAAGACAGAAT
212564 GTA
1 GTA
212567 TTGATACATT
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:0.21, T:0.15
Consensus pattern (15 bp):
GTAAAAAGACAGAAT
Found at i:212592 original size:19 final size:19
Alignment explanation
Indices: 212561--212633 Score: 85
Period size: 19 Copynumber: 3.8 Consensus size: 19
212551 AAAAAGACAG
*
212561 AATGTATTGATACATTGAA
1 AATGTATCGATACATTGAA
*
212580 GAATGTAT-GATACATTCATA
1 -AATGTATCGATACATTGA-A
*
212600 CATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
*
212619 AATTTATCGATACAT
1 AATGTATCGATACAT
212634 CTGGGTAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 29 0.63
20 17 0.37
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:213487 original size:28 final size:28
Alignment explanation
Indices: 213407--214416 Score: 917
Period size: 28 Copynumber: 35.8 Consensus size: 28
213397 CACCAATTTG
* *
213407 TGTGGGCTTTAGAGAAAGTTGCCACCGACTT
1 TGTGGGCTTT-GA-AAAGATGCCACTGAC-T
*
213438 GTGTGGGCTTT-AAAAGGATGCCACTAACT
1 -TGTGGGCTTTGAAAA-GATGCCACTGACT
* ** *
213467 TTTGGATTTTGAAAAGATGCCTCTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
213495 TGTGGGCTTTGAAGAGATGCCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * *
213523 TGTGGGCTTTGAAAGGATGTCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
213551 CGTGGGCTTT-AGAAGGATGCCACTGACT
1 TGTGGGCTTTGA-AAAGATGCCACTGACT
*
213579 TGTGGGCTCT-AAAGAGATGCCACTGACT
1 TGTGGGCTTTGAAA-AGATGCCACTGACT
*
213607 TATGGGCTTTGAAATA-ATGCCACTGACT
1 TGTGGGCTTTGAAA-AGATGCCACTGACT
* *
213635 TGTGGGCTTTTAAAAGTTGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * * * *
213663 TGTGTGCTTGGAAAATATGCCATTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
213691 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * * *
213719 CGTGGGCTTTGGAAGGAAGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
213747 TGTGGGCTTTGAAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * *
213775 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
213803 TATGGGCTTGGAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
** * * * *
213832 CATGGGCTTTGGAAGGATGCCATTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
213860 TGTGGGCTTTGAAGAGATGCCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * * * *
213888 TATGGGCTTTGAAAGGGTGCCCCTGATT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
213916 TGTGGGCTTGGAAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* * * *
213945 TTTGGACTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * *
213973 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * *
214001 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
214029 TGTGGGCTTGGAAAAGATGCCATTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
214057 TGTGGGCTTTGAAAAGATGCCACCGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
214085 TGTGGGCTTTGAAAAGGATGCCACTGATT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* * *
214114 TGTAGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
214142 TGTGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* * * *
214171 TGTGGGCTTTGAAAGGGTGCCGCTGATT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
214199 TGTGGGCTTAGAAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* * *
214228 TGTGGACTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * *
214256 TGTGGGCTTTGGAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * * *
214284 TGTGGAC-TT-AAAAGGATGTCACGGAGT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* * * *
214311 TGTGGACCTT-AAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* * ** *
214339 TGTGGACTTT-AAAAGGATGCCTCAAAGT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* * *
214367 TGTGGAC-TT-AAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
*
214394 TGTGGACTTT-AAAAGGATGCCAC
1 TGTGGGCTTTGAAAA-GATGCCAC
214417 AAAGTTGTGG
Statistics
Matches: 820, Mismatches: 144, Indels: 32
0.82 0.14 0.03
Matches are distributed among these distances:
26 2 0.00
27 47 0.06
28 627 0.76
29 124 0.15
30 10 0.01
32 10 0.01
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGATGCCACTGACT
Found at i:214313 original size:27 final size:27
Alignment explanation
Indices: 213927--214472 Score: 312
Period size: 28 Copynumber: 19.5 Consensus size: 27
213917 GTGGGCTTGG
* *
213927 AAAAGGATGCCACTA-ACTTTTGGACTTT
1 AAAAGGATGCCAC-AGAGTTGTGGAC-TT
* * *
213955 GAAAGGATGCCACTA-ACTTGTGGGCTTT
1 AAAAGGATGCCAC-AGAGTTGTGGAC-TT
* * * *
213983 GAAAGGGTGCCACTA-ACTTGTGGGCTTT
1 AAAAGGATGCCAC-AGAGTTGTGGAC-TT
* * * * *
214011 GAAAGGGTGCCACTGATTTGTGGGCTT
1 AAAAGGATGCCACAGAGTTGTGGACTT
** * *
214038 GGAAAA-GATGCCATTGACTTGTGGGCTTT
1 --AAAAGGATGCCACAGAGTTGTGGAC-TT
* * *
214067 GAAAA-GATGCCACCGACTTGTGGGCTTT
1 -AAAAGGATGCCACAGAGTTGTGGAC-TT
* * *
214095 GAAAAGGATGCCACTGATTTGTAGACTTT
1 -AAAAGGATGCCACAGAGTTGTGGAC-TT
* * * *
214124 GAAAGGATGCCACTGACTTGTGGGCTTT
1 AAAAGGATGCCACAGAGTTGTGGAC-TT
* * * *
214152 GAAAAGGGTGCCACTGACTTGTGGGCTTT
1 -AAAAGGATGCCACAGAGTTGTGGAC-TT
* * * * * *
214181 GAAAGGGTGCCGCTGATTTGTGGGCTT
1 AAAAGGATGCCACAGAGTTGTGGACTT
** *
214208 AGAAAAGGATGCCATTGACTTGTGGACTTT
1 --AAAAGGATGCCACAGAGTTGTGGAC-TT
* * *
214238 GAAAGGATGCCACTA-ACTTGTGGGCTTT
1 AAAAGGATGCCAC-AGAGTTGTGGAC-TT
** * * *
214266 GGAAGGGTGCCACTGACTTGTGGACTT
1 AAAAGGATGCCACAGAGTTGTGGACTT
* *
214293 AAAAGGATGTCACGGAGTTGTGGACCTT
1 AAAAGGATGCCACAGAGTTGTGGA-CTT
*
214321 AAAAGGATGCCACGGAGTTGTGGACTTT
1 AAAAGGATGCCACAGAGTTGTGGAC-TT
* *
214349 AAAAGGATGCCTCAAAGTTGTGGACTT
1 AAAAGGATGCCACAGAGTTGTGGACTT
214376 AAAAGGATGCCACAGAGTTGTGGACTTT
1 AAAAGGATGCCACAGAGTTGTGGAC-TT
*
214404 AAAAGGATGCCACAAAGTTGTGGACTT
1 AAAAGGATGCCACAGAGTTGTGGACTT
*
214431 AAAAGGTTGCCACAGAGTTGTGGACTT
1 AAAAGGATGCCACAGAGTTGTGGACTT
214458 AAAAAGGAATGCCAC
1 -AAAAGG-ATGCCAC
214473 TAAATCGTGG
Statistics
Matches: 447, Mismatches: 55, Indels: 31
0.84 0.10 0.06
Matches are distributed among these distances:
27 77 0.17
28 293 0.66
29 75 0.17
30 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (27 bp):
AAAAGGATGCCACAGAGTTGTGGACTT
Found at i:214463 original size:55 final size:55
Alignment explanation
Indices: 213927--214486 Score: 367
Period size: 56 Copynumber: 10.0 Consensus size: 55
213917 GTGGGCTTGG
* * * * * *
213927 AAAAGGATGCCACTA-ACTTTTGGACTTTGAAAGGATGCCACTAACTTGTGGGCTTT
1 AAAAGGATGCCAC-AGAGTTGTGGACTTTAAAAGGATGCCACAAAGTTGTGGAC-TT
* * * * * * ** * *
213983 GAAAGGGTGCCACTA-ACTTGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTT
1 AAAAGGATGCCAC-AGAGTTGTGGACTTTAAAAGGATGCCACAAAGTTGTGGACTT
** * * ** * *
214038 GGAAAA-GATGCCATTGACTTGTGGGCTTTGAAAA-GATGCCACCGACTTGTGGGCTTT
1 --AAAAGGATGCCACAGAGTTGTGGACTTT-AAAAGGATGCCACAAAGTTGTGGAC-TT
* * * * ** * *
214095 GAAAAGGATGCCACTGATTTGTAGACTTTGAAAGGATGCCACTGACTTGTGGGCTTT
1 -AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAAAGTTGTGGAC-TT
* * * * * * * ** * *
214152 GAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCGCTGATTTGTGGGCTT
1 -AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAAAGTTGTGGACTT
** * * * * *
214208 AGAAAAGGATGCCATTGACTTGTGGACTTTGAAAGGATGCCACTAACTTGTGGGCTTT
1 --AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAAAGTTGTGGAC-TT
** * * * * **
214266 GGAAGGGTGCCACTGACTTGTGGAC-TTAAAAGGATGTCACGGAGTTGTGGACCTT
1 AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAAAGTTGTGGA-CTT
* *
214321 AAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCTCAAAGTTGTGGACTT
1 AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAAAGTTGTGGACTT
214376 AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAAAGTTGTGGACTT
1 AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAAAGTTGTGGACTT
* * *
214431 AAAAGGTTGCCACAGAGTTGTGGACTTAAAAAGGAATGCCACTAAA-TCGTGGACTT
1 AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGG-ATGCCAC-AAAGTTGTGGACTT
214487 TGAAGAGGTT
Statistics
Matches: 432, Mismatches: 59, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
55 132 0.31
56 152 0.35
57 146 0.34
58 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (55 bp):
AAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAAAGTTGTGGACTT
Found at i:223039 original size:20 final size:20
Alignment explanation
Indices: 223010--223086 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 20
223000 GTAAAAAGAC
223010 AAAATGTATCGATACATTGA
1 AAAATGTATCGATACATTGA
* *
223030 AAAATATATCGATACATTCA
1 AAAATGTATCGATACATTGA
* * *
223050 TACATGTATCGATACATTGG
1 AAAATGTATCGATACATTGA
*
223070 AAAATGTATTGATACAT
1 AAAATGTATCGATACAT
223087 CTGGGTAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (20 bp):
AAAATGTATCGATACATTGA
Found at i:226104 original size:11 final size:9
Alignment explanation
Indices: 226080--226136 Score: 51
Period size: 11 Copynumber: 5.7 Consensus size: 9
226070 TGCAAGAAAA
226080 TGATGAATTT
1 TGATGAA-TT
226090 TGATGAGTATT
1 TGATGA--ATT
226101 TGATGAAATT
1 TGATG-AATT
*
226111 TGAAGTGGATT
1 TG-A-TGAATT
226122 TGATGAATT
1 TGATGAATT
226131 TGATGA
1 TGATGA
226137 TTGAAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
9 11 0.28
10 12 0.30
11 13 0.32
12 4 0.10
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (9 bp):
TGATGAATT
Found at i:226104 original size:21 final size:20
Alignment explanation
Indices: 226080--226136 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
226070 TGCAAGAAAA
*
226080 TGATGAATTTTGATGAGTATT
1 TGATGAA-TTTGATGAGGATT
* *
226101 TGATGAAATTTGAAGTGGATT
1 TGATG-AATTTGATGAGGATT
226122 TGATGAATTTGATGA
1 TGATGAATTTGATGA
226137 TTGAAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 8 0.27
21 20 0.67
22 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (20 bp):
TGATGAATTTGATGAGGATT
Found at i:227132 original size:30 final size:30
Alignment explanation
Indices: 227096--227165 Score: 124
Period size: 30 Copynumber: 2.3 Consensus size: 30
227086 TTGAGAGTAT
227096 CTTGTAAATATCTAAATATTCATTTTA-TGG
1 CTTGTAAATATCTAAATATTCATTTTACT-G
227126 CTTGTAAATATCTAAATATTCATTTTACTG
1 CTTGTAAATATCTAAATATTCATTTTACTG
227156 CTTGTAAATA
1 CTTGTAAATA
227166 AGACTCTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 38 0.97
31 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (30 bp):
CTTGTAAATATCTAAATATTCATTTTACTG
Found at i:232580 original size:22 final size:22
Alignment explanation
Indices: 232540--232582 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
232530 TACATTAAGT
232540 ATTTTTACTTTGAAAAACATTG
1 ATTTTTACTTTGAAAAACATTG
*
232562 ATTTATTACTTT-AATAACATT
1 ATTT-TTACTTTGAAAAACATT
232583 TAATGTTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (22 bp):
ATTTTTACTTTGAAAAACATTG
Found at i:233872 original size:13 final size:13
Alignment explanation
Indices: 233854--233884 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
233844 TTTGTATAGA
233854 AAGATTCTCCTTC
1 AAGATTCTCCTTC
233867 AAGATTCTCCTTC
1 AAGATTCTCCTTC
233880 AAGAT
1 AAGAT
233885 CACTTTATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (13 bp):
AAGATTCTCCTTC
Found at i:234348 original size:20 final size:22
Alignment explanation
Indices: 234312--234371 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 22
234302 AGCAAAATAA
*
234312 TTATTTAATTGAAAATAGT-TT
1 TTATTTAATTTAAAATAGTATT
*
234333 TTATTT-ATTTAAAATATTATT
1 TTATTTAATTTAAAATAGTATT
234354 TATATTTAATTTATAAAT
1 T-TATTTAATTTA-AAAT
234372 CAATATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 10 0.30
21 9 0.27
22 5 0.15
23 5 0.15
24 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (22 bp):
TTATTTAATTTAAAATAGTATT
Found at i:234361 original size:18 final size:18
Alignment explanation
Indices: 234305--234362 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 18
234295 TTACTATAGC
*
234305 AAAATAATTATTTA-ATTG
1 AAAAT-ATTATTTATATTT
234323 AAAATAGTT-TTTATTTATTT
1 AAAATA-TTATTTA--TATTT
234343 AAAATATTATTTATATTT
1 AAAATATTATTTATATTT
234361 AA
1 AA
234363 TTTATAAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
17 5 0.15
18 14 0.41
19 2 0.06
20 13 0.38
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (18 bp):
AAAATATTATTTATATTT
Found at i:236926 original size:164 final size:166
Alignment explanation
Indices: 236577--237012 Score: 424
Period size: 164 Copynumber: 2.6 Consensus size: 166
236567 TTTTTTCTGT
** *
236577 AAATTTTTCGAGAAGA-TTT-CTTCGATTTAAAATTTTTAAAATTCATCAAATATTATTATTTAA
1 AAATTTTTCGAGGGGATTTTCCTTAG-TTTAAAATTTTTAAAATTCATCAAATATTATT-TTTAA
** * * * * ** * *
236640 TTTATATTAAATCAATTTTTAAAAATTCATTAATTATCATAAATTTTTTAATTTTTTCCTTGAAA
64 TCCATATTAAATCAATTTTGAAAAATTAATTTATTTTCATAAAGCTTTGAATTTTTTCCTTCAAA
*
236705 ATCCCCTATTTCCAAAATAACGAGTTTTCTACTCTGTA
129 ATCCCCTATTTCCAAAATAACGAGTTTTCTACTCTATA
* * **
236743 AAATTTTTTGAGGGGATTTTCCTTGGTTTCCAATTTTTAAAATTCATCAAATATTATTTTTAATC
1 AAATTTTTCGAGGGGATTTTCCTTAGTTTAAAATTTTTAAAATTCATCAAATATTATTTTTAATC
*
236808 CATATTAAATCAATTTTGAAAAATTAATTTATTTTCAT-GAGCTTTGAA-TTTTT-CTTCAAAAT
66 CATATTAAATCAATTTTGAAAAATTAATTTATTTTCATAAAGCTTTGAATTTTTTCCTTCAAAA-
** * * *
236870 TTTCTTATTTTCGAAA-AACAGAGTTTTCTACTCTAT-
130 TCCCCTATTTCCAAAATAAC-GAGTTTTCTACTCTATA
* * * *
236906 AAATATTTTCG-GGAGGATTTTTCTTAGTTTAAAATTTTTAAAATTCAT-ATAATATTGCTATTA
1 AAAT-TTTTCGAGG-GGATTTTCCTTAGTTTAAAATTTTTAAAATTCATCA-AATATT-ATTTTT
* **
236969 AACTCC-TATTAAATCAGTTTTGTAAAGTTTAATTTATTTCTCAT
62 AA-TCCATATTAAATCAATTTTG-AAAAATTAATTTATTT-TCAT
237013 TTTTGGATTT
Statistics
Matches: 225, Mismatches: 34, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
163 17 0.08
164 72 0.32
165 26 0.12
166 69 0.31
167 37 0.16
168 4 0.02
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.47
Consensus pattern (166 bp):
AAATTTTTCGAGGGGATTTTCCTTAGTTTAAAATTTTTAAAATTCATCAAATATTATTTTTAATC
CATATTAAATCAATTTTGAAAAATTAATTTATTTTCATAAAGCTTTGAATTTTTTCCTTCAAAAT
CCCCTATTTCCAAAATAACGAGTTTTCTACTCTATA
Found at i:250601 original size:19 final size:21
Alignment explanation
Indices: 250558--250609 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
250548 TTCAATAATT
*
250558 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
250579 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
250598 TGTATCGATACA
1 TGTATCGATACA
250610 GTGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 4 0.13
21 12 0.40
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:250680 original size:13 final size:13
Alignment explanation
Indices: 250662--250687 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
250652 ATTTGTAGAA
250662 TGTATCGATACAT
1 TGTATCGATACAT
250675 TGTATCGATACAT
1 TGTATCGATACAT
250688 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:253084 original size:51 final size:51
Alignment explanation
Indices: 253028--253266 Score: 277
Period size: 51 Copynumber: 4.6 Consensus size: 51
253018 TTAAGTTTCT
* * * *
253028 CAATTTTGCATAATCGAGGCTACTCCAACCCCGGTTTTA-TTTCTAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
* * * * *
253079 TAATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCGAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * *
253130 CAATTTTTCACTAGTCGGGGATACTCTAACCCCGGTTTTATTTTCAAAACAC
1 CAATTTTTCA-TAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* *
253182 CAA-TTTTCTATAATCGGGGATACTCCAA-CTCGAATTTTATTTCCAAAAACAC
1 CAATTTTTC-ATAATCGGGGATACTCCAACCCCG-ATTTTATTTTC-AAAACAC
*
253234 CAATTTTTCACAATCGGGGATACTCCAACCCCG
1 CAATTTTTCATAATCGGGGATACTCCAACCCCG
253267 TTATTTCCGA
Statistics
Matches: 158, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
50 3 0.02
51 76 0.48
52 71 0.45
53 8 0.05
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
CAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
Found at i:253172 original size:103 final size:103
Alignment explanation
Indices: 253028--253266 Score: 331
Period size: 103 Copynumber: 2.3 Consensus size: 103
253018 TTAAGTTTCT
* * * * *
253028 CAATTTTGCATAATCGAGGCTACTCCAACCCCGGTTTTA-TTTCTAAAACACTAATTTTCCACAA
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCACAA
* *
253092 TCGGGGATACTCCAACTCCG-ATTTTATTTTC-GAAACAC
65 TCGGGGATACTCCAACT-CGAATTTTATTTCCAAAAACAC
* * * *
253130 CAATTTTTCACTAGTCGGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTTCTATAA
1 CAATTTTTCAC-AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCACAA
253195 TCGGGGATACTCCAACTCGAATTTTATTTCCAAAAACAC
65 TCGGGGATACTCCAACTCGAATTTTATTTCCAAAAACAC
253234 CAATTTTTCACAATCGGGGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
253267 TTATTTCCGA
Statistics
Matches: 120, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
102 11 0.09
103 88 0.73
104 21 0.17
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (103 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCACAAT
CGGGGATACTCCAACTCGAATTTTATTTCCAAAAACAC
Found at i:253348 original size:79 final size:79
Alignment explanation
Indices: 253236--253452 Score: 344
Period size: 79 Copynumber: 2.7 Consensus size: 79
253226 AAAAACACCA
* *
253236 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTA
1 ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTA
*
253301 TTTCTAAAATATTG
66 TTCCTAAAATATTG
* * * * *
253315 ATTTCTCATAATCGGGGATGCTCCAACCTCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTA
1 ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTA
253380 TTCCTAAAATATTG
66 TTCCTAAAATATTG
* *
253394 ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCGCGGGGATACTCCAACCCCG
1 ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG
253453 TTATTTTCGC
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 124 1.00
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (79 bp):
ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTA
TTCCTAAAATATTG
Found at i:253446 original size:28 final size:28
Alignment explanation
Indices: 253406--253505 Score: 182
Period size: 28 Copynumber: 3.6 Consensus size: 28
253396 TTCTCACAAT
253406 CGGGGATACTCCAACCCCGTTATTTTCG
1 CGGGGATACTCCAACCCCGTTATTTTCG
253434 CGGGGATACTCCAACCCCGTTATTTTCG
1 CGGGGATACTCCAACCCCGTTATTTTCG
*
253462 CGGGGATACTCCAACCCCGTTATTTTTG
1 CGGGGATACTCCAACCCCGTTATTTTCG
*
253490 AGGGGATACTCCAACC
1 CGGGGATACTCCAACC
253506 TTGATTTTAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (28 bp):
CGGGGATACTCCAACCCCGTTATTTTCG
Found at i:253594 original size:78 final size:79
Alignment explanation
Indices: 253464--253631 Score: 248
Period size: 78 Copynumber: 2.1 Consensus size: 79
253454 TATTTTCGCG
* * *
253464 GGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCTTGATTTTATTTTCAAAACACCA
1 GGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACCA
* *
253529 ATTTTCTATAATTA
66 ATTTTCCATAATCA
* * *
253543 GGGATACTCCAACCCTGTTA-TTTCGAAGGGATACTCCAACCCTGATTTTATTTTCAGAACACCG
1 GGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACCA
253607 ATTTTCCATAATCA
66 ATTTTCCATAATCA
*
253621 GGGGTACTCCA
1 GGGATACTCCA
253632 GCCTCTTCAT
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
78 61 0.76
79 19 0.24
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACCA
ATTTTCCATAATCA
Found at i:266020 original size:1 final size:1
Alignment explanation
Indices: 266014--266105 Score: 76
Period size: 1 Copynumber: 92.0 Consensus size: 1
266004 CTTCTCTTCT
* * * * * * * *
266014 AAAAAAAAAACAAAAAACAAAAACAAAAATAAAAACAAAAAGAAAAAAAAACAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
266079 CAAAAAAAAAACAAAACAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
266106 GAGAGAAAAG
Statistics
Matches: 67, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 67 1.00
ACGTcount: A:0.87, C:0.09, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:266047 original size:30 final size:29
Alignment explanation
Indices: 266013--266098 Score: 113
Period size: 28 Copynumber: 2.9 Consensus size: 29
266003 CCTTCTCTTC
266013 TAAAAAAAAAACAAAAAACAAAAACAAAAA
1 TAAAAAAAAAA-AAAAAACAAAAACAAAAA
* *
266043 TAAAAACAAAAAGAAAA-AAAAACAAAAA
1 TAAAAAAAAAAAAAAAACAAAAACAAAAA
266071 TAAAAAAACAAAAAAAAA-ACAAAACAAA
1 TAAAAAAA-AAAAAAAAACA-AAAACAAA
266099 GAAAAAAGAG
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
28 18 0.36
29 14 0.28
30 18 0.36
ACGTcount: A:0.86, C:0.09, G:0.01, T:0.03
Consensus pattern (29 bp):
TAAAAAAAAAAAAAAAACAAAAACAAAAA
Found at i:266048 original size:25 final size:25
Alignment explanation
Indices: 266014--266094 Score: 103
Period size: 25 Copynumber: 3.2 Consensus size: 25
266004 CTTCTCTTCT
*
266014 AAAAA-AAAAACAAAAAACAAAAAC
1 AAAAATAAAAACAAAAAAAAAAAAC
266038 AAAAATAAAAACAAAAAGAAAAAAAAAC
1 AAAAATAAAAAC--AAA-AAAAAAAAAC
266066 AAAAATAAAAA-AACAAAAAAAAAAC
1 AAAAATAAAAACAA-AAAAAAAAAAC
266091 AAAA
1 AAAA
266095 CAAAGAAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
24 5 0.10
25 22 0.43
26 1 0.02
27 3 0.06
28 20 0.39
ACGTcount: A:0.88, C:0.09, G:0.01, T:0.02
Consensus pattern (25 bp):
AAAAATAAAAACAAAAAAAAAAAAC
Found at i:266103 original size:16 final size:14
Alignment explanation
Indices: 266014--266105 Score: 98
Period size: 14 Copynumber: 6.4 Consensus size: 14
266004 CTTCTCTTCT
266014 AAAAAAAAAAC-AA
1 AAAAAAAAAACAAA
*
266027 AAAACAAAAACAAA
1 AAAAAAAAAACAAA
*
266041 AATAAAAACAA-AAA
1 AA-AAAAAAAACAAA
*
266055 GAAAAAAAAACAAA
1 AAAAAAAAAACAAA
*
266069 AATAAAAAAACAAAA
1 AAAAAAAAAAC-AAA
266084 AAAAAACAAAACAAA
1 AAAAAA-AAAACAAA
266099 GAAAAAA
1 -AAAAAA
266106 GAGAGAAAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
13 17 0.26
14 20 0.31
15 17 0.26
16 11 0.17
ACGTcount: A:0.87, C:0.09, G:0.02, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAACAAA
Found at i:266103 original size:25 final size:23
Alignment explanation
Indices: 266015--266098 Score: 91
Period size: 24 Copynumber: 3.6 Consensus size: 23
266005 TTCTCTTCTA
266015 AAAAAAAAACAAAAAACAAAAACAA
1 AAAAAAAAAC-AAAAACAAAAA-AA
* *
266040 AAATAAAAACAAAAAGAAAAAAA
1 AAAAAAAAACAAAAACAAAAAAA
266063 AACAAAAATAA-AAAAAC-AAAAAA
1 AA-AAAAA-AACAAAAACAAAAAAA
*
266086 AAAACAAAACAAA
1 AAAAAAAAACAAA
266099 GAAAAAAGAG
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.04
22 7 0.14
23 12 0.24
24 19 0.37
25 11 0.22
ACGTcount: A:0.87, C:0.10, G:0.01, T:0.02
Consensus pattern (23 bp):
AAAAAAAAACAAAAACAAAAAAA
Found at i:266105 original size:41 final size:41
Alignment explanation
Indices: 266015--266094 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
266005 TTCTCTTCTA
*
266015 AAAAAAAAACAAAAAACAAAAACAAAAATAAAAACAAAAAG
1 AAAAAAAAACAAAAAAAAAAAACAAAAATAAAAACAAAAAG
266056 AAAAAAAAACAAAAATAAAAAAACAAAAA-AAAAACAAAA
1 AAAAAAAAACAAAAA-AAAAAAACAAAAATAAAAACAAAA
266095 CAAAGAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
41 25 0.68
42 12 0.32
ACGTcount: A:0.88, C:0.09, G:0.01, T:0.03
Consensus pattern (41 bp):
AAAAAAAAACAAAAAAAAAAAACAAAAATAAAAACAAAAAG
Found at i:266114 original size:28 final size:26
Alignment explanation
Indices: 266014--266107 Score: 102
Period size: 25 Copynumber: 3.6 Consensus size: 26
266004 CTTCTCTTCT
* *
266014 AAAAAAAAAACAAA-AAACAAAAACA
1 AAAAAAAAAAAAAAGAAAAAAAAACA
266039 AAAATAAAAACAAAAAGAAAAAAAAACA
1 AAAA-AAAAA-AAAAAGAAAAAAAAACA
* *
266067 AAAATAAAAAAACA-AAAAAAAAACA
1 AAAAAAAAAAAAAAGAAAAAAAAACA
* *
266092 AAACAAAGAAAAAAGA
1 AAAAAAAAAAAAAAGA
266108 GAGAAAAGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
25 25 0.44
26 10 0.18
27 8 0.14
28 14 0.25
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (26 bp):
AAAAAAAAAAAAAAGAAAAAAAAACA
Found at i:267362 original size:61 final size:61
Alignment explanation
Indices: 267104--267365 Score: 250
Period size: 60 Copynumber: 4.5 Consensus size: 61
267094 TTTCATCCTT
* * * *
267104 TAGTCCTCAAAGAGCAGGACG-----CCTTTCAAAGCCCATACAAGTTGGTGGCACTTTTC
1 TAGTCCTCAAAGAGCAGGACGCCTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
* * * * *
267160 -AGTCTTCAAAGAGCAGGATG---CT--TGTTAAAG-CCACACGAGTTGGTGGCACCCTCC
1 TAGTCCTCAAAGAGCAGGACGCCTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
* * ** * *
267214 -AGTCCTCAAAGAGCAGGATGCCTTTTTTTTTTAAAGCCCACATAAGCTGGTGGCACCTTCC
1 TAGTCCTCAAAGAGCAGGACGCC-TCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
267275 --GTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
1 TAGTCCTCAAAGAGCAGGACGCC-TCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
267334 TAGTCCTCAAAGAGCAGGACGCTCTCTCCTTT
1 TAGTCCTCAAAGAGCAGGACGC-CTCTCCTTT
267366 CGCCTTTTTG
Statistics
Matches: 172, Mismatches: 22, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
54 38 0.22
55 24 0.14
58 1 0.01
59 5 0.03
60 55 0.32
61 48 0.28
62 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (61 bp):
TAGTCCTCAAAGAGCAGGACGCCTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
Found at i:267467 original size:60 final size:58
Alignment explanation
Indices: 267394--267568 Score: 242
Period size: 61 Copynumber: 2.9 Consensus size: 58
267384 GAGCAGGATG
** *
267394 CCTTTTAAAGCCCACACAAGCCGGTGGCACTTTCAGTCCTCAAAGAGTAGGACGTCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACG-CTT-T
*
267454 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGACGCTTT
* *
267513 CTTTTTGCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGAC
1 CCTTTT--AAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGAC
267569 ATTCTCTCCT
Statistics
Matches: 104, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
59 6 0.06
60 34 0.33
61 64 0.62
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (58 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGCTTT
Found at i:267554 original size:215 final size:214
Alignment explanation
Indices: 267167--267586 Score: 596
Period size: 215 Copynumber: 2.0 Consensus size: 214
267157 TTCAGTCTTC
* **
267167 AAAGAGCAGGATGCTTGTTAAAGCCACACGAGTTGGTGGCACCCTCCAGTCCTCAAAGAGCAGGA
1 AAAGAGCAGGATGCTTGTTAAAGCCACACAAGCCGGTGGCACCCTCCAGTCCTCAAAGAGCAGGA
* * ** * *
267232 TGCCTTTTTTTTTTAAAGCCCACATAAGCTGGTGGCACCTTCCGTCCTCAAAGAGCAGGACGCCT
66 CGCCTTCTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCT
*
267297 TCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTC
131 TCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTCTCTC
267362 CTTTCGCCTTTTTGTCCTT
196 CTTTCGCCTTTTTGTCCTT
* * *
267381 AAAGAGCAGGATGCCTT-TTAAAGCCCACACAAGCCGGTGGCA-CTTTCAGTCCTCAAAGAGTAG
1 AAAGAGCAGGATG-CTTGTTAAAG-CCACACAAGCCGGTGGCACCCTCCAGTCCTCAAAGAGCAG
* * * *
267444 GACGTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG
64 GACGCCTTCTCCTTTTAAAGCCCACACAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGACG
* *
267509 -CTT-TCTTTTTGCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACATT
128 CCTTCTCCTTTT--AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACT
267572 CTCTCCTTTCGCCTT
191 CTCTCCTTTCGCCTT
267587 CTCCTTTTAA
Statistics
Matches: 182, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
213 6 0.03
214 73 0.40
215 103 0.57
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (214 bp):
AAAGAGCAGGATGCTTGTTAAAGCCACACAAGCCGGTGGCACCCTCCAGTCCTCAAAGAGCAGGA
CGCCTTCTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCT
TCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTCTCTC
CTTTCGCCTTTTTGTCCTT
Found at i:267690 original size:61 final size:61
Alignment explanation
Indices: 267581--267764 Score: 232
Period size: 61 Copynumber: 3.0 Consensus size: 61
267571 TCTCTCCTTT
* *
267581 CGCCTTCTCCTTTT-AAAGCCCACATAAATTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
1 CGCCTT-TTCTTTTCAAAGCCCACATAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
* * * * *
267642 CG-C-TTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCA-TCTTCTAGTCCTCAAAGGGTAAGA
1 CGCCTTTTC-TTTT-CAAAGCCCACATAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGA
*
267703 CGCCTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
1 CGCCTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
267764 C
1 C
267765 ACACTTTCTT
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
58 2 0.02
59 5 0.05
60 5 0.05
61 78 0.76
62 9 0.09
63 4 0.04
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (61 bp):
CGCCTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
Found at i:267691 original size:135 final size:135
Alignment explanation
Indices: 267449--267695 Score: 451
Period size: 135 Copynumber: 1.8 Consensus size: 135
267439 AGTAGGACGT
* *
267449 CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTC
1 CTTCTCCTTTTAAAGCCCACACAAATTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCTTTC
267514 TTTTTGCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACATTCTCTCCT
66 TTTTTGCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACATTCTCTCCT
267579 TTCGC
131 TTCGC
*
267584 CTTCTCCTTTTAAAGCCCACATAAATTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCTTTC
1 CTTCTCCTTTTAAAGCCCACACAAATTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCTTTC
267649 TTTTTGCAAAGCCCACACAAGTTGGTGGCATCTT-CTAGTCCTCAAAG
66 TTTTTGCAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAG
267696 GGTAAGACGC
Statistics
Matches: 108, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
135 105 0.97
136 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (135 bp):
CTTCTCCTTTTAAAGCCCACACAAATTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCTTTC
TTTTTGCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACATTCTCTCCT
TTCGC
Found at i:267735 original size:196 final size:195
Alignment explanation
Indices: 267394--267765 Score: 513
Period size: 196 Copynumber: 1.9 Consensus size: 195
267384 GAGCAGGATG
* *
267394 CCTTTTAAAGCCCACACAAGCCGGTGGCACTTTCAGTCCTCAAAGAGTAGGACGTCTTCTCCTTT
1 CCTTTTAAAGCCCACACAAACCGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGTCTTCTCCTTT
* * *
267459 TAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAA
66 TAAAGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAAGACGCTTTCTTTTTGCAAA
267524 GCCCACACAAGTTGGTGGCACTTC-CTAGTCCTCAAAGAGCAGGACATTCTCTCCTTTCGCCTTC
131 GCCCACACAAGTTGGTGGCACTTCTC-AGTCCTCAAAGAGCAGGACATTCTCTCCTTTCGCCTTC
267588 T
195 T
* ** *
267589 CCTTTTAAAGCCCACATAAATTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACG-CTT-TCTTT
1 CCTTTTAAAGCCCACACAAACCGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGACGTCTTCTCCTT
* *
267652 TTGCAAAGCCCACACAAGTTGGTGGCATCTTCT-AGTCCTCAAAGGGTAAGACGCCTTT-TCTTT
65 TT--AAAGCCCACACAAGTTGGTGGCA-CTTCTCAGTCCTCAAAGAGCAAGACG-CTTTCT-TTT
** *
267715 T-CAAAGCCCACATGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA
125 TGCAAAGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGACA
267766 CACTTTCTTC
Statistics
Matches: 156, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
194 6 0.04
195 29 0.19
196 108 0.69
197 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (195 bp):
CCTTTTAAAGCCCACACAAACCGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGTCTTCTCCTTT
TAAAGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAAGACGCTTTCTTTTTGCAAA
GCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGACATTCTCTCCTTTCGCCTTCT
Found at i:267851 original size:42 final size:43
Alignment explanation
Indices: 267780--267882 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
267770 TTCTTCCCTT
*
267780 CTTTTCTCTTTTGTCCTCAAAGAGTAGGACGTACTTT-ATTTT-C
1 CTTTT-TCTTTTGTCCTCAAAGAGCAGGACGTA-TTTCATTTTCC
* * * *
267823 CTTTTTCTTTTTTCCTTAGAGAGCAGGACGTATTTCGTTTTCC
1 CTTTTTCTTTTGTCCTCAAAGAGCAGGACGTATTTCATTTTCC
*
267866 CTTTTTCCTTTGTCCTC
1 CTTTTTCTTTTGTCCTC
267883 GAAAAATGGA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 3 0.06
42 27 0.54
43 20 0.40
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.50
Consensus pattern (43 bp):
CTTTTTCTTTTGTCCTCAAAGAGCAGGACGTATTTCATTTTCC
Found at i:268657 original size:19 final size:21
Alignment explanation
Indices: 268614--268665 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
268604 TTCAATAATT
*
268614 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
268635 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
*
268654 TGTATTGATACA
1 TGTATCGATACA
268666 GTGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:271145 original size:51 final size:51
Alignment explanation
Indices: 271089--271325 Score: 298
Period size: 51 Copynumber: 4.6 Consensus size: 51
271079 TTAAGTTTCT
* * *
271089 CAATTTTGCATAATCGGGGGTACTCCAACCCCAGTTTTA-TTTCTAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCAGTTTTATTTTC-AAAACAC
* * *
271140 TAATTTTCCACAATCGGGGATACTCCAACTCC-GATTTTATTTTCGAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCAG-TTTTATTTTCAAAACAC
*
271191 CAATTTTCCACAATTGGGGATACTCCAACCCCAGTTTTATTTTCAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACAC
* * ** * * *
271242 CAATTTTCTATAATCGGGGATACTTTAACTCCAATTTTATTTCCAAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCAGTTTTATTTTC-AAAACAC
*
271294 CAATTTTTCACAATCGGGGATACTCCAACCCC
1 CAATTTTCCACAATCGGGGATACTCCAACCCC
271326 GTTAATCATT
Statistics
Matches: 158, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
50 1 0.01
51 119 0.75
52 38 0.24
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (51 bp):
CAATTTTCCACAATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACAC
Found at i:271265 original size:102 final size:103
Alignment explanation
Indices: 271089--271325 Score: 334
Period size: 102 Copynumber: 2.3 Consensus size: 103
271079 TTAAGTTTCT
* * * *
271089 CAATTTTGCATAATCGGGGGTACTCCAACCCCAGTTTTATTTCTAAAACACTAATTTTCCACAAT
1 CAATTTTCCACAATCGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTTTCCACAAT
* * *
271154 CGGGGATACTCCAACTCCGATTTTATTTTC-GAAACAC
66 CGGGGATACTCCAACTCCAATTTTATTTCCAAAAACAC
* * *
271191 CAATTTTCCACAATTGGGGATACTCCAACCCCAGTTTTATTT-TCAAAACACCAATTTTCTATAA
1 CAATTTTCCACAATCGGGGATACTCCAACCCCAGTTTTATTTCT-AAAACACCAATTTTCCACAA
**
271255 TCGGGGATACTTTAACTCCAATTTTATTTCCAAAAACAC
65 TCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACAC
*
271294 CAATTTTTCACAATCGGGGATACTCCAACCCC
1 CAATTTTCCACAATCGGGGATACTCCAACCCC
271326 GTTAATCATT
Statistics
Matches: 119, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
101 1 0.01
102 82 0.69
103 36 0.30
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (103 bp):
CAATTTTCCACAATCGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTTTCCACAAT
CGGGGATACTCCAACTCCAATTTTATTTCCAAAAACAC
Found at i:271339 original size:27 final size:26
Alignment explanation
Indices: 271309--271381 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 26
271299 TTTCACAATC
271309 GGGGATACTCCAACCCCGTTAATCATT-
1 GGGGATACTCCAACCCCGTT-AT-ATTA
* *
271336 GGGGATACTCCAACCTCGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTATATT--A
271364 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
271382 GCTTTATTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
25 2 0.05
26 2 0.05
27 19 0.47
28 17 0.43
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (26 bp):
GGGGATACTCCAACCCCGTTATATTA
Found at i:271419 original size:79 final size:78
Alignment explanation
Indices: 271336--271662 Score: 365
Period size: 79 Copynumber: 4.2 Consensus size: 78
271326 GTTAATCATT
** * *
271336 GGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATT
1 GGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTCCTAAAACATC
271401 GATTTCTCATAATC
66 GATTT-TCATAATC
* * * *
271415 GGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCTAACCCCGGTTTTATTCCTAAAATATT
1 GGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTCCTAAAACATC
*
271480 GATTTTTCACAATC
66 GA-TTTTCATAATC
* * * * * *
271494 GGGGATACTCCAACCCCGTTATTTT-TAAGGGATACTCCAACCCTGATTTTATT-TTCAAAACAC
1 GGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTCCT-AAAACAT
* *
271557 CAATTTTCTATAATT
65 CGATTTTC-ATAATC
* * * *
271572 AGGGATACTCCAACC-CTGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCC-AGAACA
1 GGGGATACTCCAACCTC-GTTATTTTCGAGGGGATACTCCAACCCCGATTTTA-TTCCTAAAACA
271635 TCGATTTTCCATAATC
64 TCGATTTT-CATAATC
*
271651 AGGGATACTCCA
1 GGGGATACTCCA
271663 GCCCTGTCGT
Statistics
Matches: 214, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
77 7 0.03
78 54 0.25
79 147 0.69
80 6 0.03
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (78 bp):
GGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTCCTAAAACATC
GATTTTCATAATC
Found at i:271623 original size:157 final size:158
Alignment explanation
Indices: 271336--271662 Score: 376
Period size: 157 Copynumber: 2.1 Consensus size: 158
271326 GTTAATCATT
* * * * **
271336 GGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATT
1 GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCTAAAACACC
* * * * * *
271401 GATTTCTCATAATCGGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCTAACCCCGGTTTT
66 AATTTCTCATAATCAGGGATACTCCAACCTCGTTATTTCCAAGGGGATACTCCAACCCCGATTTT
* * *
271466 A-TTCCTAAAATATTGATTTTTCACAATC
131 ATTTCC-AAAACATCGATTTTCCACAATC
* * * *
271494 GGGGATACTCCAACCCCGTTATTTT-TAAGGGATACTCCAACCCTGATTTTATT-TTCAAAACAC
1 GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCT-AAAACAC
*
271557 CAATTT-TCTATAATTAGGGATACTCCAACC-CTGTTATTTCCAAGGGGATACTCCAACCCCGAT
65 CAATTTCTC-ATAATCAGGGATACTCCAACCTC-GTTATTTCCAAGGGGATACTCCAACCCCGAT
* *
271620 TTTATTTCCAGAACATCGATTTTCCATAATC
128 TTTATTTCCAAAACATCGATTTTCCACAATC
*
271651 AGGGATACTCCA
1 GGGGATACTCCA
271663 GCCCTGTCGT
Statistics
Matches: 142, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
156 4 0.03
157 110 0.77
158 28 0.20
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (158 bp):
GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCTAAAACACC
AATTTCTCATAATCAGGGATACTCCAACCTCGTTATTTCCAAGGGGATACTCCAACCCCGATTTT
ATTTCCAAAACATCGATTTTCCACAATC
Found at i:275194 original size:46 final size:47
Alignment explanation
Indices: 275140--275228 Score: 162
Period size: 46 Copynumber: 1.9 Consensus size: 47
275130 GAGATTATTT
*
275140 TGGAAACAAAAAGGGGGAGAGATATTTTTTTTT-AAAGGAAACATTC
1 TGGAAACAAAAAGGGGGAGAAATATTTTTTTTTAAAAGGAAACATTC
275186 TGGAAACAAAAAGGGGGAGAAATATTTTTTTTTAAAAGGAAAC
1 TGGAAACAAAAAGGGGGAGAAATATTTTTTTTTAAAAGGAAAC
275229 TTTTTTATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
46 32 0.78
47 9 0.22
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.27
Consensus pattern (47 bp):
TGGAAACAAAAAGGGGGAGAAATATTTTTTTTTAAAAGGAAACATTC
Found at i:276007 original size:20 final size:20
Alignment explanation
Indices: 275982--276035 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
275972 CTACCACTGT
275982 TTGTATCGATACATAG-GACA
1 TTGTATCGATACATAGTGA-A
276002 TTGTATCGATACATAGTGAA
1 TTGTATCGATACATAGTGAA
**
276022 AAGTATCGATACAT
1 TTGTATCGATACAT
276036 TGTGCCTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
TTGTATCGATACATAGTGAA
Found at i:279135 original size:21 final size:20
Alignment explanation
Indices: 279109--279147 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
279099 AGGTTAAAAC
279109 CCTAGAAAGTATCGATACACA
1 CCTAG-AAGTATCGATACACA
*
279130 CCTAGATGTATCGATACA
1 CCTAGAAGTATCGATACA
279148 TATTGCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (20 bp):
CCTAGAAGTATCGATACACA
Found at i:279179 original size:33 final size:32
Alignment explanation
Indices: 279136--279199 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
279126 CACACCTAGA
* *
279136 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATT-CATAGTATAGATACAT
* *
279169 TGTATTGATACATGTTCATAGTATAGATACA
1 TGTATCGATACATATTCATAGTATAGATACA
279200 CATTGAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATATTCATAGTATAGATACAT
Found at i:280494 original size:28 final size:27
Alignment explanation
Indices: 280433--280509 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 27
280423 TTTTGGAGAT
*
280433 AATAACGGGGTTGGAGTGTTCCCTCGGA
1 AATAACGGGGTTGGAGT-ATCCCTCGGA
*
280461 AGTAACGGGGTTGGAGTATCCC-CGATGA
1 AATAACGGGGTTGGAGTATCCCTCG--GA
*
280489 AATAACGAGGTTGGAGTATCC
1 AATAACGGGGTTGGAGTATCC
280510 TCGACTGTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 2 0.05
27 4 0.09
28 37 0.86
ACGTcount: A:0.26, C:0.17, G:0.34, T:0.23
Consensus pattern (27 bp):
AATAACGGGGTTGGAGTATCCCTCGGA
Found at i:280661 original size:51 final size:51
Alignment explanation
Indices: 280494--280666 Score: 186
Period size: 52 Copynumber: 3.4 Consensus size: 51
280484 GATGAAATAA
* * *
280494 CGAGGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAAT
* * * * *
280546 CG-GTGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
1 CGAG-GTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAAT
* * *** *
280598 CGGGGTTAGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
280649 CGAGGTTGGAGTATCCCC
1 CGAGGTTGGAGTATCCCC
280667 TCGGAAATAA
Statistics
Matches: 98, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
51 37 0.38
52 50 0.51
53 11 0.11
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
Found at i:280775 original size:54 final size:52
Alignment explanation
Indices: 280708--280838 Score: 165
Period size: 51 Copynumber: 2.5 Consensus size: 52
280698 GATCAACGGG
* * *
280708 GTTGTAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAGAAATTAGTG--TTTTGAAAATAAAATCGGA
* * *
280762 GTTGGAGTATCCCCGATTAT-AGGAAATTAGTGTTTTGAAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTGTGAAGAAATTAGTGTTTTGAAAATAAAATCGGA
* *
280813 GTTGGAATATCCCCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGTGAAGAA
280839 TTGAGAAACT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
51 35 0.53
52 3 0.05
53 10 0.15
54 18 0.27
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAGAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:280797 original size:211 final size:210
Alignment explanation
Indices: 280441--280830 Score: 586
Period size: 211 Copynumber: 1.8 Consensus size: 210
280431 ATAATAACGG
* * *
280441 GGTTGGAGTGTTCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGT
1 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGT
* *
280506 ATCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGTGTTGGAGTATCCCCGATTAAA
65 ATCCCCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA
* * *
280571 GGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTAGAGTATCCCCGATTATGAAAAATCAATATT
130 GGAAAATTAGTGTTTTGAAAATAAAACCGGAGTTAGAATATCCCCGATTATGAAAAATCAATATT
280636 TTGGAAATAAAGTCGA
195 TTGGAAATAAAGTCGA
* *
280652 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATCAACGGGGTTGTAGT
1 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAT-AACGAGGTTGGAGT
* *
280716 ATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTA
65 ATCCCCGACTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTA
* ** *
280781 TAGG-AAATTAGTGTTTTGAAAATAAAATTGGAGTTGGAATATCCCCGATT
128 AAGGAAAATTAGTGTTTTGAAAATAAAACCGGAGTTAGAATATCCCCGATT
280831 GTGGAGAATT
Statistics
Matches: 160, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
209 2 0.01
210 25 0.16
211 92 0.57
212 41 0.26
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (210 bp):
GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTA
TCCCCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAG
GAAAATTAGTGTTTTGAAAATAAAACCGGAGTTAGAATATCCCCGATTATGAAAAATCAATATTT
TGGAAATAAAGTCGA
Found at i:280807 original size:51 final size:53
Alignment explanation
Indices: 280498--280830 Score: 161
Period size: 51 Copynumber: 6.3 Consensus size: 53
280488 AAATAACGAG
* * * * * * *
280498 GTTGGAGTATCCTCGACTGTGAA-AAATTGGTATTTTTGGAAATAAAATCGGT
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGA
* * *
280550 GTTGGAGTATCCCCGATTA--AAGGAAAATTGGTG-TTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGAA-G-AAATTAGTGTTTTTGAAAATAAAATCGGA
* * * * * *
280602 GTTAGAGTATCCCCGATTATGAA-AAATCAAT-ATTTTGGAAATAAAGTC-GA
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGA
* *** * **** ** * *
280652 GGTTGGAGTATCCCCTCGGA-AAT-AACGGGGTTGGAGTATCCCCGATGAT-CAA-CGGG
1 -GTTGGAGTAT-CCC-C-GATTATGAA-GAAATT--AGTGTTTTTGAAAATAAAATCGGA
* * * *
280708 GTTGTAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGA
* *
280762 GTTGGAGTATCCCCGATTAT-AGGAAATTAGTG-TTTTGAAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGA
*
280813 GTTGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
280831 GTGGAGAATT
Statistics
Matches: 203, Mismatches: 57, Indels: 43
0.67 0.19 0.14
Matches are distributed among these distances:
50 3 0.01
51 63 0.31
52 61 0.30
53 28 0.14
54 31 0.15
55 10 0.05
56 4 0.02
57 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGA
Found at i:283216 original size:13 final size:13
Alignment explanation
Indices: 283198--283223 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
283188 ACAAAGATCC
283198 ATGTATCGATACA
1 ATGTATCGATACA
283211 ATGTATCGATACA
1 ATGTATCGATACA
283224 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:283219 original size:33 final size:33
Alignment explanation
Indices: 283177--283243 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
283167 AAAATTTCCA
***
283177 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
283210 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
283243 A
1 A
283244 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:283287 original size:19 final size:18
Alignment explanation
Indices: 283263--283330 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
283253 CAGTAGCTAA
283263 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
283282 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
283297 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
283314 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
283331 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:283303 original size:13 final size:13
Alignment explanation
Indices: 283285--283309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
283275 ACAATACTTA
283285 TGTATCGATACAT
1 TGTATCGATACAT
283298 TGTATCGATACA
1 TGTATCGATACA
283310 AAACTTATGT
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:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:283307 original size:32 final size:32
Alignment explanation
Indices: 283266--283328 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
283256 TAGCTAATTA
*
283266 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
283298 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
283329 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:289716 original size:52 final size:52
Alignment explanation
Indices: 289638--289765 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
289628 CGAAATATGA
289638 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* * *
289690 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
289742 AAATTT-ACTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
289766 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
51 16 0.23
52 55 0.77
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:289778 original size:51 final size:52
Alignment explanation
Indices: 289638--289791 Score: 204
Period size: 52 Copynumber: 3.0 Consensus size: 52
289628 CGAAATATGA
* *
289638 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGACTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
289690 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGACTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*** *
289742 AAATTT-ACTGCATGTATCGATACA-AAGATCAGTGTATCGATACATTTGGG
1 AAATTTGACTGCATGTATCGATACATTTCAT-AGTGTATCGATACATCTGGG
289792 TAATGTATCG
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
50 2 0.02
51 35 0.38
52 55 0.60
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGACTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:290466 original size:25 final size:25
Alignment explanation
Indices: 290432--290484 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
290422 ATTAGACTTG
290432 AAGAAGAATGCCAATGTGTTGAGAC
1 AAGAAGAATGCCAATGTGTTGAGAC
290457 AAGAAGAATGCCAATGTGTTGAGAC
1 AAGAAGAATGCCAATGTGTTGAGAC
290482 AAG
1 AAG
290485 GCCAACAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.42, C:0.11, G:0.28, T:0.19
Consensus pattern (25 bp):
AAGAAGAATGCCAATGTGTTGAGAC
Found at i:290522 original size:49 final size:49
Alignment explanation
Indices: 290465--290840 Score: 461
Period size: 49 Copynumber: 7.9 Consensus size: 49
290455 ACAAGAAGAA
* ** * *
290465 TGCCAATGTGTTGAGACAAGGCCAACAACATTGGTCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
290514 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
* **
290563 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
* *
290612 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
*
290661 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTAC-T--A-A--AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT-CTTAAAGATGAAGG
* * **
290705 TGCCAGTGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
* * * *
290754 TGCCAATATGCTAATTCAAGGCTAGCGATATTGGTCTT----A--AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
* *
290797 TGCCAATGTGCTGATTCTAGGCCAGCGACATTGGACTTAGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA-AAGA
290841 AGACGTCACC
Statistics
Matches: 284, Mismatches: 31, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
43 37 0.13
44 37 0.13
45 1 0.00
46 2 0.01
47 2 0.01
48 1 0.00
49 203 0.71
50 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
Found at i:290771 original size:142 final size:145
Alignment explanation
Indices: 290494--290835 Score: 515
Period size: 142 Copynumber: 2.4 Consensus size: 145
290484 GGCCAACAAC
290494 ATTGGTCTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG
1 ATTGGTCTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AAGA-G
*
290559 AAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCT
64 AAGGTGCCAATGTACTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCT
*
290624 GATTCAAGGCCAGCGAT
129 AATTCAAGGCCAGCGAT
*
290641 ATTGGTCTTAAAGATGAAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTAC-T-A-A-A
1 ATTGGTCTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT-CTTAAGAGA
* *
290702 AGGTGCCAGTGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTA
65 AGGTGCCAATGTACTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTA
*
290767 ATTCAAGGCTAGCGAT
130 ATTCAAGGCCAGCGAT
* *
290783 ATTGGTCTT----A--AAGGTGCCAATGTGCTGATTCTAGGCCAGCGACATTGGACTTA
1 ATTGGTCTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
290836 GAAGAAGACG
Statistics
Matches: 183, Mismatches: 9, Indels: 16
0.88 0.04 0.08
Matches are distributed among these distances:
135 1 0.01
136 37 0.20
138 1 0.01
142 86 0.47
144 1 0.01
145 1 0.01
147 55 0.30
148 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (145 bp):
ATTGGTCTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAGAGAA
GGTGCCAATGTACTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTAA
TTCAAGGCCAGCGAT
Found at i:290916 original size:30 final size:28
Alignment explanation
Indices: 290851--290921 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 28
290841 AGACGTCACC
* * *
290851 AACTTGTGTGCTTTTGAAGGTTGCCGCT
1 AACTTGTGGGCTTTTGAAGGATGCCACT
*
290879 GACTTGTGGGCTTTTGAAAAGGATGCCACT
1 AACTTGTGGGCTTTTG--AAGGATGCCACT
290909 AACTTGTGGGCTT
1 AACTTGTGGGCTT
290922 AAAAGGAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 14 0.39
30 22 0.61
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.35
Consensus pattern (28 bp):
AACTTGTGGGCTTTTGAAGGATGCCACT
Found at i:290940 original size:34 final size:34
Alignment explanation
Indices: 290912--291249 Score: 253
Period size: 34 Copynumber: 10.3 Consensus size: 34
290902 TGCCACTAAC
*
290912 TTGTGGGCTTAAAAGGAAAAAGAGTGCCACAGAG
1 TTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAG
* *
290946 TTGTGGGCTTACAAAAGAAAAGGAGTGCCACGGAG
1 TTGTGGGCTTA-AAAGGAAAAAGAGTGCCACGGAG
* *
290981 TTGTGGACTTAAAA-AAGAAAAG-GTGTCCACGGAG
1 TTGTGGGCTTAAAAGGA-AAAAGAGTG-CCACGGAG
* *
291015 TTATGGGCTTAAAAGGAAAAAGA-TGCCACGGAC
1 TTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAG
** * * * *
291048 TTGTGGGCTT---TTG---AAG-GTTACCGCTGAC
1 TTGTGGGCTTAAAAGGAAAAAGAG-TGCCACGGAG
** * ** *
291076 TTGTGGGCTT---TTGAAAAGGA-TGCCACTAAC
1 TTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAG
*
291106 TTGTGGGCTTAAAAGGAAAAAGAGTGCCACAGAG
1 TTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAG
* *
291140 TTGTGGGCTTACAAAAG-AAAAGAGTGCCACGAAG
1 TTGTGGGCTTA-AAAGGAAAAAGAGTGCCACGGAG
* *
291174 TTGTGGACTTAAAA-AAGAAAAG-GTGCCACGGAG
1 TTGTGGGCTTAAAAGGA-AAAAGAGTGCCACGGAG
* * *
291207 TTATGGGCTTAAAAGAAAAAAGA-TGCCACGGAC
1 TTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAG
291240 TTGTGGGCTT
1 TTGTGGGCTT
291250 TTGAAGGGTG
Statistics
Matches: 248, Mismatches: 36, Indels: 41
0.76 0.11 0.13
Matches are distributed among these distances:
27 3 0.01
28 20 0.08
30 18 0.07
31 2 0.01
33 75 0.30
34 95 0.38
35 35 0.14
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.22
Consensus pattern (34 bp):
TTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAG
Found at i:291110 original size:30 final size:30
Alignment explanation
Indices: 291030--291115 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 30
291020 GGCTTAAAAG
* *
291030 GAAAAAGATGCCACGGACTTGTGGGCTTTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
* * *
291060 G--AAGGTTACCGCTGACTTGTGGGCTTTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
*
291088 GAAAAGGATGCCACTAACTTGTGGGCTT
1 GAAAAGGATGCCACTGACTTGTGGGCTT
291116 AAAAGGAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
28 23 0.51
30 22 0.49
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (30 bp):
GAAAAGGATGCCACTGACTTGTGGGCTTTT
Found at i:292708 original size:1 final size:1
Alignment explanation
Indices: 292704--292787 Score: 51
Period size: 1 Copynumber: 84.0 Consensus size: 1
292694 TGTTGTTGTG
* * * * * * * * * *
292704 TTTTTTTTTTGTTTGTTTTTTTTGTTTGTTGTTTTTTTTTTGTTTTTTTTCTTCTCTTTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
292769 TTCTTTCTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTT
292788 GTGGAGGACG
Statistics
Matches: 57, Mismatches: 26, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.00, C:0.08, G:0.07, T:0.85
Consensus pattern (1 bp):
T
Found at i:292715 original size:13 final size:13
Alignment explanation
Indices: 292699--292767 Score: 59
Period size: 13 Copynumber: 5.0 Consensus size: 13
292689 CTTTTTGTTG
292699 TTGTGTTTTTTTT
1 TTGTGTTTTTTTT
292712 TTGTTTGTTTTTTTTGT
1 TTG--TG-TTTTTTT-T
292729 TTGTTGTTTTTTTT
1 TTG-TGTTTTTTTT
*
292743 TTGT-TTTTTTTC
1 TTGTGTTTTTTTT
* *
292755 TTCTCTTTTTTTT
1 TTGTGTTTTTTTT
292768 CTTCTTTCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
12 10 0.21
13 11 0.23
14 4 0.08
15 9 0.19
16 10 0.21
17 4 0.08
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (13 bp):
TTGTGTTTTTTTT
Found at i:292719 original size:17 final size:16
Alignment explanation
Indices: 292690--292747 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
292680 ATCCAGACCC
*
292690 TTTTTGTTGTTGTGTT
1 TTTTTTTTGTTGTGTT
292706 TTTTTTTTGTT-TGTT
1 TTTTTTTTGTTGTGTT
*
292721 TTTTTTGT-TTGTTGTT
1 TTTTTTTTGTTG-TGTT
292737 TTTTTTTTGTT
1 TTTTTTTTGTT
292748 TTTTTTCTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
14 2 0.06
15 11 0.31
16 21 0.58
17 2 0.06
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (16 bp):
TTTTTTTTGTTGTGTT
Found at i:292737 original size:31 final size:28
Alignment explanation
Indices: 292690--292753 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 28
292680 ATCCAGACCC
292690 TTTTTGTTGTTGTGTTTTTTTTTTGTTT
1 TTTTTGTTGTTGTGTTTTTTTTTTGTTT
*
292718 GTTTTTTTTGTTTGTTGTTTTTTTTTTGTTT
1 -TTTTTGTTG-TTG-TGTTTTTTTTTTGTTT
292749 TTTTT
1 TTTTT
292754 CTTCTCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 8 0.25
30 8 0.25
31 16 0.50
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (28 bp):
TTTTTGTTGTTGTGTTTTTTTTTTGTTT
Found at i:292765 original size:27 final size:27
Alignment explanation
Indices: 292705--292767 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
292695 GTTGTTGTGT
* *
292705 TTTTTTTTTGTTTGTTTTTTTTGTTTG
1 TTTTTTTTTGTTTGTTTTTTTTCTTTC
292732 TTGTTTTTTT-TTTGTTTTTTTTCTTCTC
1 TT-TTTTTTTGTTTGTTTTTTTTCTT-TC
292760 TTTTTTTT
1 TTTTTTTT
292768 CTTCTTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 22 0.69
28 10 0.31
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.86
Consensus pattern (27 bp):
TTTTTTTTTGTTTGTTTTTTTTCTTTC
Found at i:306719 original size:52 final size:52
Alignment explanation
Indices: 306641--306795 Score: 224
Period size: 52 Copynumber: 3.0 Consensus size: 52
306631 CGAAATATGA
*
306641 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATTTGGGC
* *
306693 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATTTGGGC
* **
306745 AAATTTTCCTGCATGTATCGATACAAAGATCA-A-TGTATCGATACATTTGGG
1 AAATTTGCCTGCATGTATCGATAC--ATTTCATAGTGTATCGATACATTTGGG
306796 TAATGTATCG
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
52 88 0.95
53 1 0.01
54 4 0.04
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATTTGGGC
Found at i:306897 original size:13 final size:13
Alignment explanation
Indices: 306879--306935 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
306869 ACAACACTTA
306879 TGTATCGATACAT
1 TGTATCGATACAT
*
306892 TGTATCGGTACAATACTT
1 TGTATC-G----ATACAT
306910 ATGTATCGATACAT
1 -TGTATCGATACAT
306924 TGTATCGATACA
1 TGTATCGATACA
306936 ACATTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 18 0.50
14 6 0.17
18 6 0.17
19 6 0.17
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:306910 original size:32 final size:32
Alignment explanation
Indices: 306863--306954 Score: 148
Period size: 32 Copynumber: 2.9 Consensus size: 32
306853 AAACTTATGC
306863 ATCGATACAACACTTATGTATCGATACATTGT
1 ATCGATACAACACTTATGTATCGATACATTGT
* *
306895 ATCGGTACAATACTTATGTATCGATACATTGT
1 ATCGATACAACACTTATGTATCGATACATTGT
* *
306927 ATCGATACAACATTTTTGTATCGATACA
1 ATCGATACAACACTTATGTATCGATACA
306955 AATCGTTGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (32 bp):
ATCGATACAACACTTATGTATCGATACATTGT
Found at i:306916 original size:19 final size:19
Alignment explanation
Indices: 306842--306922 Score: 86
Period size: 19 Copynumber: 4.6 Consensus size: 19
306832 AGCGATACAT
306842 TGTATCGATACAA-ACTTA
1 TGTATCGATACAATACTTA
* *
306860 TGCATCGATACAACACTTA
1 TGTATCGATACAATACTTA
306879 TGTATCGATAC---A--T-
1 TGTATCGATACAATACTTA
*
306892 TGTATCGGTACAATACTTA
1 TGTATCGATACAATACTTA
306911 TGTATCGATACA
1 TGTATCGATACA
306923 TTGTATCGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
13 10 0.19
14 1 0.02
16 2 0.04
18 13 0.25
19 26 0.50
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAATACTTA
Found at i:310517 original size:67 final size:67
Alignment explanation
Indices: 310409--310544 Score: 272
Period size: 67 Copynumber: 2.0 Consensus size: 67
310399 ATCCGGACTA
310409 ATCCGGGGGCAAATAAGACATCGTTGGAAAGATATTTTGACAGACTTTATGGGAAAAATACTAAA
1 ATCCGGGGGCAAATAAGACATCGTTGGAAAGATATTTTGACAGACTTTATGGGAAAAATACTAAA
310474 AC
66 AC
310476 ATCCGGGGGCAAATAAGACATCGTTGGAAAGATATTTTGACAGACTTTATGGGAAAAATACTAAA
1 ATCCGGGGGCAAATAAGACATCGTTGGAAAGATATTTTGACAGACTTTATGGGAAAAATACTAAA
310541 AC
66 AC
310543 AT
1 AT
310545 TTTATAAAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.24
Consensus pattern (67 bp):
ATCCGGGGGCAAATAAGACATCGTTGGAAAGATATTTTGACAGACTTTATGGGAAAAATACTAAA
AC
Found at i:312066 original size:13 final size:13
Alignment explanation
Indices: 312048--312075 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
312038 ATACAAAGAT
312048 CAATGTATCGATA
1 CAATGTATCGATA
312061 CAATGTATCGATA
1 CAATGTATCGATA
312074 CA
1 CA
312076 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:312155 original size:33 final size:33
Alignment explanation
Indices: 312118--312182 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
312108 TAGCTTAAAA
312118 TGTATCGATACAAAAAAATATGTATCGATACAT
1 TGTATCGATACAAAAAAATATGTATCGATACAT
* ***
312151 TGTATCGATACAACATTTTATGTATCGATACA
1 TGTATCGATACAAAAAAATATGTATCGATACA
312183 AATTGTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAAAAATATGTATCGATACAT
Found at i:312156 original size:13 final size:13
Alignment explanation
Indices: 312138--312162 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
312128 CAAAAAAATA
312138 TGTATCGATACAT
1 TGTATCGATACAT
312151 TGTATCGATACA
1 TGTATCGATACA
312163 ACATTTTATG
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:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:321215 original size:159 final size:157
Alignment explanation
Indices: 320969--321295 Score: 415
Period size: 159 Copynumber: 2.1 Consensus size: 157
320959 GATTTTTCAC
* * *
320969 ACTCCAACCCCGTTATTCCGATGGGATACTCCAAACCCGATTTTATTTCTAAAACACCAATTTTC
1 ACTCCAACCCCGTTATTCCAAAGGGATACTCCAAACCCGACTTTATTTCTAAAACACCAATTTTC
* * * *
321034 CACCATTGGGGATACTCCAACCCCATTATTTTTTAGGAGATA-TCCAAC-CTCAATTTTTATTTC
66 CACAATCGAGGATACTCCAACCCCATTATTTCTTAGGAGATACTCCAACTC-CAA-TTTTATTTC
* * *
321097 TAAAACACCGATTTTTTCACAATTGGAGAT
129 CAAAACACC-ATTTTTCCACAACTGGAGAT
* * * * * *
321127 ACTTCAACCCCGTTATTTCCAAAGGGATACTTCAAGCCCGGCTTTATTTCTAAAACATCGATTTT
1 ACTCCAACCCCGTTA-TTCCAAAGGGATACTCCAAACCCGACTTTATTTCTAAAACACCAATTTT
* *
321192 CCACAATCGAGGATACTCTAACCCCATTATTTCTTAGGAGATACTCCAACTCCGATTTTATTTCC
65 CCACAATCGAGGATACTCCAACCCCATTATTTCTTAGGAGATACTCCAACTCCAATTTTATTTCC
* * *
321257 AAAACATCATTTTTCCACCACTGGGGAT
130 AAAACACCATTTTTCCACAACTGGAGAT
321285 ACTCCAACCCC
1 ACTCCAACCCC
321296 ACTTTTATCC
Statistics
Matches: 144, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
158 40 0.28
159 95 0.66
160 8 0.06
161 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (157 bp):
ACTCCAACCCCGTTATTCCAAAGGGATACTCCAAACCCGACTTTATTTCTAAAACACCAATTTTC
CACAATCGAGGATACTCCAACCCCATTATTTCTTAGGAGATACTCCAACTCCAATTTTATTTCCA
AAACACCATTTTTCCACAACTGGAGAT
Found at i:321235 original size:79 final size:79
Alignment explanation
Indices: 320993--321296 Score: 314
Period size: 79 Copynumber: 3.8 Consensus size: 79
320983 ATTCCGATGG
* * *
320993 GATACTCCAAACCCGATTTTATTTCTAAAACACC-AATTTTCCACCATTGGGGATACTCCAACCC
1 GATACTCC-AACCCGATTTTATTTCTAAAACACCGATTTTTCCACAATCGGGGATACTCCAACCC
*
321057 CATTATTTTTTAGGA
65 CATTATTTCTTAGGA
* * * * *
321072 GATA-TCCAACCTCAATTTTTATTTCTAAAACACCGATTTTTTCACAATTGGAGATACTTCAACC
1 GATACTCCAACC-CGA-TTTTATTTCTAAAACACCGATTTTTCCACAATCGGGGATACTCCAACC
* **
321136 CCGTTATTTCCAAAGG-
64 CCATTATTT-CTTAGGA
* ** * * *
321152 GATACTTCAAGCCCGGCTTTATTTCTAAAACATCGA-TTTTCCACAATCGAGGATACTCTAACCC
1 GATACTCCAA-CCCGATTTTATTTCTAAAACACCGATTTTTCCACAATCGGGGATACTCCAACCC
321216 CATTATTTCTTAGGA
65 CATTATTTCTTAGGA
* * *
321231 GATACTCCAACTCCGATTTTATTTCCAAAACATC-ATTTTTCCACCA-CTGGGGATACTCCAACC
1 GATACTCCAAC-CCGATTTTATTTCTAAAACACCGATTTTTCCACAATC-GGGGATACTCCAACC
321294 CCA
64 CCA
321297 CTTTTATCCC
Statistics
Matches: 184, Mismatches: 31, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
77 4 0.02
78 12 0.07
79 104 0.57
80 54 0.29
81 8 0.04
82 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.33
Consensus pattern (79 bp):
GATACTCCAACCCGATTTTATTTCTAAAACACCGATTTTTCCACAATCGGGGATACTCCAACCCC
ATTATTTCTTAGGA
Found at i:323478 original size:12 final size:11
Alignment explanation
Indices: 323456--323531 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
323446 AGAGAAAGAA
*
323456 GAGAGAGGAGG
1 GAGATAGGAGG
323467 GATGATAGGAGG
1 GA-GATAGGAGG
*
323479 AGAGACAGGA--
1 -GAGATAGGAGG
*
323489 GAGATAGTA--
1 GAGATAGGAGG
323498 GAGATAGGAGG
1 GAGATAGGAGG
323509 GATGATAGGAGG
1 GA-GATAGGAGG
*
323521 AGAGACAGGAG
1 -GAGATAGGAG
323532 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:323488 original size:24 final size:24
Alignment explanation
Indices: 323455--323540 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
323445 AAGAGAAAGA
*
323455 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
323479 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
323497 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
323521 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
323541 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:323507 original size:42 final size:42
Alignment explanation
Indices: 323446--323560 Score: 185
Period size: 42 Copynumber: 2.7 Consensus size: 42
323436 TAGCCCTCAA
* *
323446 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
323488 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
323530 AGAGATAATAGAGAGAGGAGGGATGACAGGA
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGA
323561 AGAGGAGAGA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.43, C:0.03, G:0.45, T:0.09
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:329171 original size:21 final size:21
Alignment explanation
Indices: 329147--329189 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
329137 ATTTTATTTA
*
329147 ATTTTTTTAAA-ATTAATTATT
1 ATTTTATTAAATATTAA-TATT
329168 ATTTTATTAAATATTAATATT
1 ATTTTATTAAATATTAATATT
329189 A
1 A
329190 AGGGTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTTATTAAATATTAATATT
Found at i:329200 original size:7 final size:7
Alignment explanation
Indices: 329190--329216 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
329180 ATTAATATTA
329190 AGGGTTT
1 AGGGTTT
329197 AGGGTTT
1 AGGGTTT
329204 AGGGTTT
1 AGGGTTT
329211 AGGGTT
1 AGGGTT
329217 ACGCCCAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (7 bp):
AGGGTTT
Found at i:335382 original size:20 final size:20
Alignment explanation
Indices: 335359--335416 Score: 116
Period size: 20 Copynumber: 2.9 Consensus size: 20
335349 TATATGTATG
335359 AATGTATCGATACATTCTTT
1 AATGTATCGATACATTCTTT
335379 AATGTATCGATACATTCTTT
1 AATGTATCGATACATTCTTT
335399 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
335417 GTCTTTTTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (20 bp):
AATGTATCGATACATTCTTT
Found at i:335387 original size:40 final size:41
Alignment explanation
Indices: 335327--335416 Score: 114
Period size: 40 Copynumber: 2.2 Consensus size: 41
335317 CAAATATATT
*
335327 GATACATT-TTTCAATATATCGATATATGT-ATGAATGTATC
1 GATACATTCTTTCAATATATCGATACAT-TCATGAATGTATC
* * *
335367 GATACATTCTTT-AATGTATCGATACATTCTTTAATGTATC
1 GATACATTCTTTCAATATATCGATACATTCATGAATGTATC
335407 GATACATTCT
1 GATACATTCT
335417 GTCTTTTTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
39 1 0.02
40 40 0.91
41 3 0.07
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.43
Consensus pattern (41 bp):
GATACATTCTTTCAATATATCGATACATTCATGAATGTATC
Found at i:336287 original size:20 final size:22
Alignment explanation
Indices: 336247--336294 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
336237 TAGCCTTTGA
*
336247 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
336269 CCATGCA-TTTTTAAC-ATG-T
1 CCATGCATTTTTTAACTATGTT
336288 CCA-GCAT
1 CCATGCAT
336295 CTCATTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.12
19 4 0.17
20 3 0.12
21 7 0.29
22 7 0.29
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:345212 original size:20 final size:20
Alignment explanation
Indices: 345174--345215 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
345164 TTTAGTTTTT
*
345174 TTTTTCCTTTCATCATCTTC
1 TTTTTCCTTCCATCATCTTC
* *
345194 TTTTTCCTTCCTTCTTCTTC
1 TTTTTCCTTCCATCATCTTC
345214 TT
1 TT
345216 CACCAATAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.05, C:0.31, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTCCTTCCATCATCTTC
Found at i:352386 original size:20 final size:22
Alignment explanation
Indices: 352343--352397 Score: 80
Period size: 20 Copynumber: 2.6 Consensus size: 22
352333 TAAATAAATC
352343 TATCGATACATT-TACTATTTG
1 TATCGATACATTATACTATTTG
*
352364 TATCGATACATTATTC-A-TTG
1 TATCGATACATTATACTATTTG
352384 TATCGATACATTAT
1 TATCGATACATTAT
352398 GGGTTTTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 17 0.53
21 13 0.41
22 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (22 bp):
TATCGATACATTATACTATTTG
Found at i:357289 original size:32 final size:33
Alignment explanation
Indices: 357230--357291 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
357220 CTAGCCAATG
*
357230 TATCGATACATTTTGGGATGTATCGATACATTA
1 TATCGATACATCTTGGGATGTATCGATACATTA
**
357263 TATCGATACATCTT-GTCTGTATCGATACA
1 TATCGATACATCTTGGGATGTATCGATACA
357292 AACAGTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (33 bp):
TATCGATACATCTTGGGATGTATCGATACATTA
Found at i:359392 original size:20 final size:22
Alignment explanation
Indices: 359351--359395 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
359341 GCTGTGAGTG
*
359351 TGGGGGCTGCCAGGTTGCGACC
1 TGGGGGCTGCCAGGTCGCGACC
359373 TGGGGG-TGCC-GGTCGCGACC
1 TGGGGGCTGCCAGGTCGCGACC
359393 TGG
1 TGG
359396 TGAGTGCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 4 0.18
22 6 0.27
ACGTcount: A:0.07, C:0.27, G:0.49, T:0.18
Consensus pattern (22 bp):
TGGGGGCTGCCAGGTCGCGACC
Found at i:359402 original size:21 final size:21
Alignment explanation
Indices: 359358--359402 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
359348 GTGTGGGGGC
* *
359358 TGCCAGGTTGCGACCTGGGGG
1 TGCCAGGTCGCGACCTGGGAG
359379 TGCC-GGTCGCGACCTGGTGAG
1 TGCCAGGTCGCGACCTGG-GAG
359400 TGC
1 TGC
359403 TGCCTAGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.09, C:0.27, G:0.44, T:0.20
Consensus pattern (21 bp):
TGCCAGGTCGCGACCTGGGAG
Found at i:359855 original size:13 final size:13
Alignment explanation
Indices: 359837--359861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
359827 ATAAACCCTT
359837 TGTATCGATACAC
1 TGTATCGATACAC
359850 TGTATCGATACA
1 TGTATCGATACA
359862 TCTGAGTTTT
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:366020 original size:13 final size:13
Alignment explanation
Indices: 366002--366027 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
365992 CATTTTGAGA
366002 TGTATCGATACAT
1 TGTATCGATACAT
366015 TGTATCGATACAT
1 TGTATCGATACAT
366028 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:366024 original size:33 final size:32
Alignment explanation
Indices: 365982--366045 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
365972 TACAAGCCAA
*
365982 TGTATCGATACATTTTGAGATGTATCGATACAT
1 TGTATCGATACATCTTGAG-TGTATCGATACAT
*
366015 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGAGTGTATCGATACA
366046 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGAGTGTATCGATACAT
Found at i:372552 original size:18 final size:18
Alignment explanation
Indices: 372529--372566 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
372519 AGGGGAGAAG
372529 TGTTATTTAAAATAAATT
1 TGTTATTTAAAATAAATT
*
372547 TGTTATTTGAAATAAATT
1 TGTTATTTAAAATAAATT
372565 TG
1 TG
372567 CTTAAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (18 bp):
TGTTATTTAAAATAAATT
Found at i:373317 original size:19 final size:19
Alignment explanation
Indices: 373293--373343 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
373283 CGATACATCA
**
373293 TATCGATACATGTTTATTG
1 TATCGATACATGTCAATTG
*
373312 TATCGATACATACTCAATTG
1 TATCGATACAT-GTCAATTG
373332 TATCGATACATG
1 TATCGATACATG
373344 AAACTGGCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (19 bp):
TATCGATACATGTCAATTG
Found at i:378362 original size:22 final size:23
Alignment explanation
Indices: 378311--378363 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
378301 TTTTACAATT
378311 TATATCG--ATACAAACAGTAAA
1 TATATCGATATACAAACAGTAAA
*
378332 TATATCGATATACAAA-AGTGAA
1 TATATCGATATACAAACAGTAAA
*
378354 TGTATCGATA
1 TATATCGATA
378364 CATACCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 7 0.25
22 14 0.50
23 7 0.25
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.28
Consensus pattern (23 bp):
TATATCGATATACAAACAGTAAA
Found at i:378479 original size:20 final size:19
Alignment explanation
Indices: 378454--378491 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
378444 CATGCTTGCA
378454 ATTGTATCAATACACTTCTC
1 ATTGTATCAATACA-TTCTC
*
378474 ATTGTATTAATACATTCT
1 ATTGTATCAATACATTCT
378492 GGGTTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (19 bp):
ATTGTATCAATACATTCTC
Found at i:383336 original size:16 final size:16
Alignment explanation
Indices: 383315--383347 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
383305 ATTCAGAAAT
383315 AGCAATGCATGCAAAC
1 AGCAATGCATGCAAAC
383331 AGCAATGCATGCAAAC
1 AGCAATGCATGCAAAC
383347 A
1 A
383348 AGTAAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.18, T:0.12
Consensus pattern (16 bp):
AGCAATGCATGCAAAC
Found at i:384095 original size:206 final size:205
Alignment explanation
Indices: 383741--384144 Score: 799
Period size: 206 Copynumber: 2.0 Consensus size: 205
383731 TTATGATATC
383741 ATGTCCAACCTGCTGTGTCAATGTAGAATGTACGAACTAAGATTTAACTTAAACGAAGTACCAAG
1 ATGTCCAACCTGCTGTGTCAATGTAGAATGTACGAACTAAGATTTAACTTAAACGAAGTACCAAG
383806 GAAAATGAGAGGATAAAATGACGTGGGTTTATGCAATTTAGCTTTTGGGGTTTACTTTTTTGTTT
66 GAAAATGAGAGGATAAAATGACGTGGGTTTATGCAATTTAGCTTTTGGGGTTTACTTTTTTGTTT
383871 CCGCAATTGTCTTTTATTAAAAAGAAAATGCTTAGACGACAGTTAAATGGGTTTGTCGGCTTAAA
131 CCGCAATTGTCTTTTATTAAAAA-AAAATGCTTAGACGACAGTTAAATGGGTTTGTCGGCTTAAA
383936 CCCCGAGGAAA
195 CCCCGAGGAAA
383947 ATGTCCAACCTGCTGTGTCAATGTAGAATGTACGAACTAAGATTTAACTTAAACGAAGTACCAAG
1 ATGTCCAACCTGCTGTGTCAATGTAGAATGTACGAACTAAGATTTAACTTAAACGAAGTACCAAG
384012 GAAAATGAGAGGATAAAATGACGTGGGTTTATGCAATTTAGCTTTTGGGGTTTACTTTTTTGTTT
66 GAAAATGAGAGGATAAAATGACGTGGGTTTATGCAATTTAGCTTTTGGGGTTTACTTTTTTGTTT
384077 CCGCAATTGTCTTTTATTAAAAAAAAATGCTTAGACGACAGTTAAATGGGTTTGTCGGCTTAAAC
131 CCGCAATTGTCTTTTATTAAAAAAAAATGCTTAGACGACAGTTAAATGGGTTTGTCGGCTTAAAC
384142 CCC
196 CCC
384145 CCCCCCCCCC
Statistics
Matches: 198, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
205 45 0.23
206 153 0.77
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (205 bp):
ATGTCCAACCTGCTGTGTCAATGTAGAATGTACGAACTAAGATTTAACTTAAACGAAGTACCAAG
GAAAATGAGAGGATAAAATGACGTGGGTTTATGCAATTTAGCTTTTGGGGTTTACTTTTTTGTTT
CCGCAATTGTCTTTTATTAAAAAAAAATGCTTAGACGACAGTTAAATGGGTTTGTCGGCTTAAAC
CCCGAGGAAA
Done.