Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 36 of 255
Found at i:9414277 original size:22 final size:21
Alignment explanation
Indices: 9414242--9414371 Score: 68
Period size: 19 Copynumber: 6.7 Consensus size: 21
9414232 AAAAGGTATC
* *
9414242 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
9414263 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
9414286 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
9414305 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
**
9414323 T--GTATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
9414340 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
9414359 TGC-AATCATATCT
1 TACAAATCATATCT
9414372 AAGATTGTAT
Statistics
Matches: 94, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
17 15 0.16
18 21 0.22
19 29 0.31
20 1 0.01
21 3 0.03
22 15 0.16
23 10 0.11
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:9414285 original size:23 final size:22
Alignment explanation
Indices: 9414242--9414299 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
9414232 AAAAGGTATC
* *
9414242 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
9414263 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
9414286 TGCATATCATATCT
1 TACAAATCATATCT
9414300 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:9414334 original size:35 final size:36
Alignment explanation
Indices: 9414278--9414403 Score: 193
Period size: 35 Copynumber: 3.5 Consensus size: 36
9414268 AATCATATCT
9414278 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGC-TATCATATCTAAGATTGCAATCATA
9414315 TCTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCA-ATCATA
* *
9414351 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
9414386 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
9414404 TGAAGATTAT
Statistics
Matches: 83, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
35 36 0.43
36 21 0.25
37 26 0.31
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
Found at i:9414346 original size:54 final size:54
Alignment explanation
Indices: 9414278--9414403 Score: 252
Period size: 54 Copynumber: 2.3 Consensus size: 54
9414268 AATCATATCT
9414278 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
9414332 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
9414386 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
9414404 TGAAGATTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:9414347 original size:14 final size:15
Alignment explanation
Indices: 9414292--9414401 Score: 87
Period size: 17 Copynumber: 6.5 Consensus size: 15
9414282 AGATTGCATA
9414292 TCATATCTAAGATTG
1 TCATATCTAAGATTG
9414307 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
9414325 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
9414342 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
9414361 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
9414379 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
9414396 -CATATC
1 TCATATC
9414402 ATTGAAGATT
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.07
17 32 0.37
18 31 0.36
19 17 0.20
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:9414411 original size:17 final size:19
Alignment explanation
Indices: 9414278--9414403 Score: 210
Period size: 19 Copynumber: 6.9 Consensus size: 19
9414268 AATCATATCT
9414278 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
9414297 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
9414315 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
9414332 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
9414351 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
9414369 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
9414386 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
9414404 TGAAGATTAT
Statistics
Matches: 101, Mismatches: 0, Indels: 12
0.89 0.00 0.11
Matches are distributed among these distances:
17 32 0.32
18 32 0.32
19 37 0.37
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:9414960 original size:87 final size:87
Alignment explanation
Indices: 9414795--9414960 Score: 192
Period size: 87 Copynumber: 1.9 Consensus size: 87
9414785 GACAATACAG
* * *
9414795 GGATGCCAAATCATCTTAGATCTACTTCAGTGTAAACACGTAAAAGCCAAATCTGCTGTGTCTTT
1 GGATGCCAAATCATCTTAGATCTACTTCAGTGAAAACACGTAAAAGCCAAATCTGCTATGTCTTC
* *
9414860 GATTTGCTCCTTGTGAACACAA
66 AATCTGCTCCTTGTGAACACAA
* * * * * *
9414882 GGATGCCAAATCATCTTGGATCTGCTTCAGT-AAAATCATC-TGAAGGTCAGATCTGCTATGTCT
1 GGATGCCAAATCATCTTAGATCTACTTCAGTGAAAA-CA-CGTAAAAGCCAAATCTGCTATGTCT
*
9414945 TCAATCTGCTTCTTGT
64 TCAATCTGCTCCTTGT
9414961 AAACTTATGA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
86 3 0.05
87 61 0.94
88 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (87 bp):
GGATGCCAAATCATCTTAGATCTACTTCAGTGAAAACACGTAAAAGCCAAATCTGCTATGTCTTC
AATCTGCTCCTTGTGAACACAA
Found at i:9415148 original size:261 final size:261
Alignment explanation
Indices: 9414684--9415173 Score: 736
Period size: 261 Copynumber: 1.9 Consensus size: 261
9414674 ATCATGGTCC
* *
9414684 TCAATCTGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCGAACA
1 TCAATCTGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTACTCTCCGCCGAACA
* *
9414749 CAGAGACGCCAAATCTGCTTCTTCGATTTGTTTTCTGACAATACAGGGATGCCAAATCATCTTAG
66 CAGAGACGCCAAATCTGCTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAG
* * * * *
9414814 ATCTACTTCAGTGTAAACACGTAAAAGCCAAATCTGCTGTGTCTTTGATTTGCTCCTTGTGAACA
131 ATCTACTTCAGCGTAAACACGGAAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTGAACA
*
9414879 CAAGGATGCCAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTCAGATCTGCTATGTC
196 CAAGGATGCCAAACCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTCAGATCTGCTATGTC
9414944 T
261 T
* * * * *
9414945 TCAATCTGCTTC-TTGTAAACTTATGACTGTCCTGTTGATATCTTCGATCTACTCTCCGCCGAAT
1 TCAATCTGC-TCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTACTCTCCGCCGAAC
*
9415009 ACAGAGACGCCAAATCTGTTTCTTCGATTTGTTCTCT-AGCAATACAGAGATGCCAAATCATCTT
65 ACAGAGACGCCAAATCTGCTTCTTCGATTTGTTCTCTGA-CAATACAGAGATGCCAAATCATCTT
* * * *
9415073 AGATTTGCTTCAGCGTAAGCACGCGAAAA-CCAAATCAGCTATGTCTTCGATTTGTTCCTTGT-A
129 AGATCTACTTCAGCGTAAACACG-GAAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTGA
9415136 AGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGT
193 A-CACAAGGATGCCAAACCATCTTGGATCTGCTTCAGT
9415174 TATCTGAAGC
Statistics
Matches: 205, Mismatches: 20, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
260 3 0.01
261 196 0.96
262 6 0.03
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (261 bp):
TCAATCTGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTACTCTCCGCCGAACA
CAGAGACGCCAAATCTGCTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAG
ATCTACTTCAGCGTAAACACGGAAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTGAACA
CAAGGATGCCAAACCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTCAGATCTGCTATGTC
T
Found at i:9415484 original size:205 final size:205
Alignment explanation
Indices: 9415030--9415775 Score: 1297
Period size: 205 Copynumber: 3.7 Consensus size: 205
9415020 AAATCTGTTT
9415030 CTTCGATTTGTTCTCT-AGCAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCA
1 CTTCGATTTGTTCTCTGA-CAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCA
9415094 CGCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
65 CGCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
*
9415159 TGGATCTGCTTCAGT-T----ATCTGAAGCTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATG
130 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATG
9415219 GAGATGCCAGA
195 GAGATGCCAGA
*
9415230 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* *
9415295 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
9415360 GGATCTGCTTCAGTATAAACATCTAAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
9415425 AGATGCCAGA
196 AGATGCCAGA
* *
9415435 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* *
9415500 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
9415565 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
*
9415630 AGATGCCAAA
196 AGATGCCAGA
* *
9415640 ATTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
9415705 GCAAAAACCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
9415770 GGATCT
131 GGATCT
9415776 TACTTCAGCT
Statistics
Matches: 519, Mismatches: 21, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
200 139 0.27
201 2 0.00
205 378 0.73
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
AGATGCCAGA
Found at i:9417392 original size:26 final size:26
Alignment explanation
Indices: 9417363--9417444 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
9417353 TGATACAAAT
9417363 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9417389 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9417415 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9417441 TGAT
1 TGAT
9417445 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9424395 original size:10 final size:10
Alignment explanation
Indices: 9424380--9424404 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9424370 CCATAATTTA
9424380 TGATACAAAT
1 TGATACAAAT
9424390 TGATACAAAT
1 TGATACAAAT
9424400 TGATA
1 TGATA
9424405 ATGGGTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (10 bp):
TGATACAAAT
Found at i:9424436 original size:26 final size:26
Alignment explanation
Indices: 9424400--9424481 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
9424390 TGATACAAAT
9424400 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9424426 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9424452 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9424478 TGAT
1 TGAT
9424482 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9427421 original size:24 final size:24
Alignment explanation
Indices: 9427393--9427443 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
9427383 TTGTAGAAGG
*
9427393 TTTAGTATTTATTAGTATAATATA
1 TTTAGTATTTATTAGCATAATATA
*
9427417 TTTAGTATTTATTAGCATAATTTA
1 TTTAGTATTTATTAGCATAATATA
9427441 TTT
1 TTT
9427444 CAACTACGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTAGTATTTATTAGCATAATATA
Found at i:9442508 original size:17 final size:18
Alignment explanation
Indices: 9442488--9442521 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9442478 AAGTGAATTA
9442488 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
9442505 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
9442522 ATGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:9443273 original size:10 final size:10
Alignment explanation
Indices: 9443255--9443288 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
9443245 TAAAAGATAA
9443255 ATAATTAAAG
1 ATAATTAAAG
*
9443265 ATTATTAAAG
1 ATAATTAAAG
9443275 ATAATTAAAG
1 ATAATTAAAG
9443285 ATAA
1 ATAA
9443289 ATGAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (10 bp):
ATAATTAAAG
Found at i:9443298 original size:20 final size:19
Alignment explanation
Indices: 9443253--9443298 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
9443243 TCTAAAAGAT
* *
9443253 AAATAATTAAAGATTATTA
1 AAATAATTAAAGATAATGA
9443272 AAGATAATTAAAGATAAATGA
1 AA-ATAATTAAAGAT-AATGA
9443293 AAATAA
1 AAATAA
9443299 ATCCTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 16 0.70
21 5 0.22
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (19 bp):
AAATAATTAAAGATAATGA
Found at i:9444984 original size:6 final size:6
Alignment explanation
Indices: 9444973--9445008 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
9444963 AATGATAAGA
9444973 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
9445009 TGGGTTGCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:9447956 original size:17 final size:18
Alignment explanation
Indices: 9447936--9447969 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9447926 AAGTGAATTA
9447936 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
9447953 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
9447970 ATGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:9448703 original size:10 final size:10
Alignment explanation
Indices: 9448688--9448721 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
9448678 TAAAAGATAA
9448688 ATAATTAAAG
1 ATAATTAAAG
9448698 ATAATTAAAG
1 ATAATTAAAG
*
9448708 ATAAATAAAG
1 ATAATTAAAG
9448718 ATAA
1 ATAA
9448722 ATCAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (10 bp):
ATAATTAAAG
Found at i:9448722 original size:10 final size:10
Alignment explanation
Indices: 9448688--9448733 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
9448678 TAAAAGATAA
*
9448688 ATAATTAAAG
1 ATAAATAAAG
*
9448698 ATAATTAAAG
1 ATAAATAAAG
9448708 ATAAATAAAG
1 ATAAATAAAG
9448718 ATAAATCAAA-
1 ATAAAT-AAAG
9448728 ATAAAT
1 ATAAAT
9448734 CAAAAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
10 31 0.91
11 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:9450811 original size:7 final size:7
Alignment explanation
Indices: 9450799--9450838 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
9450789 GTTTTAATCA
9450799 ACCTTTC
1 ACCTTTC
9450806 ACCTTTC
1 ACCTTTC
*
9450813 AACTTTC
1 ACCTTTC
9450820 ACCTTTC
1 ACCTTTC
9450827 ACCTTTC
1 ACCTTTC
9450834 ACCTT
1 ACCTT
9450839 CCTTAACTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.17, C:0.40, G:0.00, T:0.42
Consensus pattern (7 bp):
ACCTTTC
Found at i:9458270 original size:30 final size:30
Alignment explanation
Indices: 9458236--9458296 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
9458226 TAAATCTTAG
* *
9458236 CCTTTTCCACCACCAACTCTACTAGCCACA
1 CCTTTTCCACCACCAAATCCACTAGCCACA
9458266 CCTTTTCCACCACCAAATCCACTAGCCACA
1 CCTTTTCCACCACCAAATCCACTAGCCACA
9458296 C
1 C
9458297 TTGCTCCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.48, G:0.03, T:0.21
Consensus pattern (30 bp):
CCTTTTCCACCACCAAATCCACTAGCCACA
Found at i:9458931 original size:27 final size:27
Alignment explanation
Indices: 9458901--9458976 Score: 84
Period size: 25 Copynumber: 2.9 Consensus size: 27
9458891 ATTTTAAATT
* *
9458901 CTATATTACGTATATATATATATTATA
1 CTATATTATGTATATATATATATAATA
* *
9458928 CTATTTTATGTATATATCT-T-TAATA
1 CTATATTATGTATATATATATATAATA
* *
9458953 TTATATTATTTATATATATATATA
1 CTATATTATGTATATATATATATA
9458977 TTTTTACATG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 19 0.49
26 2 0.05
27 18 0.46
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (27 bp):
CTATATTATGTATATATATATATAATA
Found at i:9458957 original size:16 final size:18
Alignment explanation
Indices: 9458911--9458982 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 18
9458901 CTATATTACG
9458911 TATATATATATATTATACTAT
1 TATATATATATA-TATA-T-T
* *
9458932 T-T-TATGTATATATCTT
1 TATATATATATATATATT
9458948 TA-ATAT-TATAT-TATT
1 TATATATATATATATATT
*
9458963 TATATATATATATATTTT
1 TATATATATATATATATT
9458981 TA
1 TA
9458983 CATGTTATCT
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
15 5 0.12
16 11 0.26
17 9 0.21
18 8 0.19
19 7 0.17
20 1 0.02
21 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (18 bp):
TATATATATATATATATT
Found at i:9459003 original size:34 final size:33
Alignment explanation
Indices: 9458938--9459003 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 33
9458928 CTATTTTATG
*
9458938 TATATATCTTTAATATTATATTATTTATATATA
1 TATATATCTTTAATATTATATTATGTATATATA
* * *
9458971 TATATATTTTTACATGTTATCTTATGTATATAT
1 TATATATCTTTA-ATATTATATTATGTATATAT
9459004 CTTAACTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 11 0.39
34 17 0.61
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (33 bp):
TATATATCTTTAATATTATATTATGTATATATA
Found at i:9459018 original size:22 final size:24
Alignment explanation
Indices: 9458992--9459050 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
9458982 ACATGTTATC
9458992 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
9459014 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
9459039 TTATGTACATAT
1 TTATGTATATAT
9459051 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:9459040 original size:25 final size:25
Alignment explanation
Indices: 9459008--9459056 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9458998 ATATATCTTA
**
9459008 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
9459033 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
9459057 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:9459236 original size:16 final size:15
Alignment explanation
Indices: 9459212--9459259 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
9459202 TAATTATTAT
*
9459212 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
9459228 TATTTTAATATTTTA
1 TATTTTAATATTTTA
9459243 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
9459259 T
1 T
9459260 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:9459247 original size:7 final size:8
Alignment explanation
Indices: 9459212--9459263 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
9459202 TAATTATTAT
*
9459212 TATTCTAA
1 TATTTTAA
*
9459220 TATTTTGA
1 TATTTTAA
9459228 TATTTTAA
1 TATTTTAA
9459236 TATTTT-A
1 TATTTTAA
9459243 TATTTTATA
1 TATTTTA-A
*
9459252 TATTTTAT
1 TATTTTAA
9459260 TATT
1 TATT
9459264 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:9463187 original size:63 final size:63
Alignment explanation
Indices: 9463088--9463209 Score: 208
Period size: 63 Copynumber: 1.9 Consensus size: 63
9463078 CTTTACTTCT
*
9463088 ATAACCCATCGCTGCAATTTTCCAAATAAGTGCTATTGCAGATTCATTAGCAACTGTTGTTCC
1 ATAACCCATCGCTGCAATTTTCCAAATAAGTCCTATTGCAGATTCATTAGCAACTGTTGTTCC
* * *
9463151 ATAACCCATTGCTGCAATTTTCCAAATATGTCCTATTTCAGATTCATTAGCAACTGTTG
1 ATAACCCATCGCTGCAATTTTCCAAATAAGTCCTATTGCAGATTCATTAGCAACTGTTG
9463210 ATGGAGGTGA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (63 bp):
ATAACCCATCGCTGCAATTTTCCAAATAAGTCCTATTGCAGATTCATTAGCAACTGTTGTTCC
Found at i:9465596 original size:34 final size:33
Alignment explanation
Indices: 9465503--9465603 Score: 105
Period size: 34 Copynumber: 3.0 Consensus size: 33
9465493 TTTCTTTAAT
**
9465503 TAATTAAATTAGGGTTTAGGGGTTTAAAATAAA
1 TAATTAAATTAGGGTTTAGGTTTTTAAAATAAA
* * *
9465536 TAAATAAAATTAGGGTTTAAAGTTTTTAAGAA-AAC
1 T-AATTAAATTAGGGTTT-AGGTTTTTAA-AATAAA
*
9465571 TAATTAAATTAGGGTTTAGCTTTTTTAAAATAA
1 TAATTAAATTAGGGTTTAG-GTTTTTAAAATAA
9465604 TATTGTGTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
33 4 0.07
34 39 0.71
35 10 0.18
36 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.39
Consensus pattern (33 bp):
TAATTAAATTAGGGTTTAGGTTTTTAAAATAAA
Found at i:9466111 original size:251 final size:252
Alignment explanation
Indices: 9465688--9466180 Score: 679
Period size: 251 Copynumber: 2.0 Consensus size: 252
9465678 CAGGAAAATT
*
9465688 AATTTTAAGAAGACGGTTCTGAAAAGATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCACA
1 AATTTTAAGAAGACGGTTCTGAAAAGATAATGTAAAAAACGCTTCAAGCAGGATGCACTGTCACA
* * *
9465753 AAAATTACTAAAAAAAGCTTCCACGTGAACGCTCTTTTTCTATAGTAGTTACTGAAAAAATAATT
66 AAAATTACTAAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAATAGTTACTGAAAAAATAATT
* * *
9465818 TTGAGAAGATGGTTTTGAACAAACAGTGTCAAAAACGCTTCAAGTACGATGCACTGTCAGCAAAA
131 TTGAGAAGATGGTTTTGAACAAACAATGTCAAAAACGCTTCAAGTACGATGCACCGTCAGAAAAA
* * * *
9465883 TTGATTAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAGTTCTTAAAAAAAG
196 TTAATGAAAAAAGCTCCCACATGGACACTCTTTTTCTACACTAGTTCTTAAAAAAAG
* * * * *
9465940 AATTTTGAGAAGACGTTTCTGAAAA-ATAGTGTAAAAAATGCTTCAAGTAGGATGCACTGTCAGC
1 AATTTTAAGAAGACGGTTCTGAAAAGATAATGTAAAAAACGCTTCAAGCAGGATGCACTGTCA-C
* * * *
9466004 -AAAATTGA-TGAAAAAAGCTCCCACGTGGACGTTCTTTTTCTACAATAGTTCCTGAAAAAATAA
65 AAAAATT-ACTAAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAATAGTTACTGAAAAAATAA
** * * * * *
9466067 TTTTGAGAAGAT-GTTTCTGAGTAAATAATGTCAAAAATGCTTCAAGTAGGATGCGCCGTTAGAA
129 TTTTGAGAAGATGGTTT-TGAACAAACAATGTCAAAAACGCTTCAAGTACGATGCACCGTCAGAA
*
9466131 AAATTAATGAAAAAAGCTCCCACATGGACACTCTTTTTTTACACTAGTTC
193 AAATTAATGAAAAAAGCTCCCACATGGACACTCTTTTTCTACACTAGTTC
9466181 CTGTTTGGCC
Statistics
Matches: 210, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
250 4 0.02
251 181 0.86
252 25 0.12
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (252 bp):
AATTTTAAGAAGACGGTTCTGAAAAGATAATGTAAAAAACGCTTCAAGCAGGATGCACTGTCACA
AAAATTACTAAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAATAGTTACTGAAAAAATAATT
TTGAGAAGATGGTTTTGAACAAACAATGTCAAAAACGCTTCAAGTACGATGCACCGTCAGAAAAA
TTAATGAAAAAAGCTCCCACATGGACACTCTTTTTCTACACTAGTTCTTAAAAAAAG
Found at i:9466181 original size:126 final size:125
Alignment explanation
Indices: 9465661--9466183 Score: 616
Period size: 126 Copynumber: 4.2 Consensus size: 125
9465651 GATTTTATTT
* * * * * * *
9465661 TTTTTCTACAGTTGTTTCAGGAAAATTAATTTTAAGAAGACGGTTCTGAAAAGATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAAAA-ATAATGTCAAAA
* * * * * * *
9465726 ACGCTTCAAGCAGGATGCACTGTCACAAAAATTACTAAAAAAAGCTTCCACGTGAACGCTC
65 ACGCTTCAAGTAGGATGCACTGTCAGAAAAATTAATGAAAAAAGCTCCCACGTGGACACTC
* * * * *
9465787 TTTTTCTATAGTAGTTACTGAAAAAATAATTTTGAGAAGATGGTTT-TGAACAAACAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGA-CGTTTCTGAA-AAATAATGTCAAA
* * * *
9465851 AACGCTTCAAGTACGATGCACTGTCAGCAAAATTGATTAAAAAAGCTCCCACGTGGACACTC
64 AACGCTTCAAGTAGGATGCACTGTCAGAAAAATTAATGAAAAAAGCTCCCACGTGGACACTC
* * * * *
9465913 TTTTTCTACAGTAGTTCTTAAAAAAAGAATTTTGAGAAGACGTTTCTGAAAAATAGTGTAAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAAAAATAATGTCAAAAA
* * * **
9465978 TGCTTCAAGTAGGATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCCACGTGGACGTTC
66 CGCTTCAAGTAGGATGCACTGTCAGAAAAATTAATGAAAAAAGCTCCCACGTGGACACTC
* * *
9466038 TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGATGTTTCTGAGTAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGA-AAAATAATGTCAAAA
* * * * *
9466103 ATGCTTCAAGTAGGATGCGCCGTTAGAAAAATTAATGAAAAAAGCTCCCACATGGACACTC
65 ACGCTTCAAGTAGGATGCACTGTCAGAAAAATTAATGAAAAAAGCTCCCACGTGGACACTC
* *
9466164 TTTTTTTACACTAGTTCCTG
1 TTTTTCTACAGTAGTTCCTG
9466184 TTTGGCCTTA
Statistics
Matches: 341, Mismatches: 52, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
125 116 0.34
126 220 0.65
127 5 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAAAAATAATGTCAAAAA
CGCTTCAAGTAGGATGCACTGTCAGAAAAATTAATGAAAAAAGCTCCCACGTGGACACTC
Found at i:9468311 original size:40 final size:40
Alignment explanation
Indices: 9468247--9468334 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 40
9468237 TATTCGGATG
* *
9468247 ATATCCGGGCTAAGATCCAAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCAAAGGCAATTGTGCTAGTTACT
* * *
9468287 ATATTCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCAAAGGCAATTGTGCTAGTTACT
*
9468327 ATAACCGG
1 ATATCCGG
9468335 GTTAAGTCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCAAAGGCAATTGTGCTAGTTACT
Found at i:9468347 original size:40 final size:40
Alignment explanation
Indices: 9468266--9468399 Score: 166
Period size: 40 Copynumber: 3.4 Consensus size: 40
9468256 CTAAGATCCA
* * ** **
9468266 AAGGCATTTGTGCTAGTTACTATATTCGGACTAAGAT-CCG
1 AAGGCATTCGTGCTAGTTATTATAACCGGGTTAAG-TCCCG
9468306 AAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTCCCG
1 AAGGC-ATTCGTGCTAGTTATTATAACCGGGTTAAGTCCCG
9468346 AAGGCATTCGTGC-AGGTTATTATAACCGGGTTAAGTCCCG
1 AAGGCATTCGTGCTA-GTTATTATAACCGGGTTAAGTCCCG
9468386 AAGGCATTCGTGCT
1 AAGGCATTCGTGCT
9468400 GGTTGTTACA
Statistics
Matches: 84, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
39 5 0.06
40 76 0.90
41 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (40 bp):
AAGGCATTCGTGCTAGTTATTATAACCGGGTTAAGTCCCG
Found at i:9472616 original size:24 final size:23
Alignment explanation
Indices: 9472560--9472616 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
9472550 AAAAACTTCT
*
9472560 ATTTTATTAAAAATGTAAAAATA
1 ATTTTATTAAAAATGTAAAAACA
* *
9472583 ATTTACTATTAAAATTTTAAAAACA
1 ATTT--TATTAAAAATGTAAAAACA
9472608 ACTTTTATT
1 A-TTTTATT
9472617 TTATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 4 0.14
24 4 0.14
25 17 0.61
26 3 0.11
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTTTATTAAAAATGTAAAAACA
Found at i:9473063 original size:18 final size:18
Alignment explanation
Indices: 9473037--9473079 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9473027 GATTGAGAAA
* * *
9473037 AGGAAACATATAAGGGTT
1 AGGATACATATAAAGGCT
9473055 AGGATACATATAAAGGCT
1 AGGATACATATAAAGGCT
9473073 AGGATAC
1 AGGATAC
9473080 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAAGGCT
Found at i:9474840 original size:30 final size:30
Alignment explanation
Indices: 9474806--9474874 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
9474796 ATAAATTAAA
*
9474806 GAGAGCTTTAAGAAATTTAAGGAGAAATTT
1 GAGAGATTTAAGAAATTTAAGGAGAAATTT
*
9474836 GAGAGATTTAAGAAATTTAGGGAGAAATTT
1 GAGAGATTTAAGAAATTTAAGGAGAAATTT
9474866 GAGAGATTT
1 GAGAGATTT
9474875 TTTGCTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.42, C:0.01, G:0.26, T:0.30
Consensus pattern (30 bp):
GAGAGATTTAAGAAATTTAAGGAGAAATTT
Found at i:9485296 original size:25 final size:24
Alignment explanation
Indices: 9485250--9485308 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
9485240 TTTTTCTAGG
*
9485250 TTAGGGCTTTTTGCATTCTTAGTCC
1 TTAGGGTTTTTTGCATTCTTAGT-C
** * *
9485275 TTAGGGTTTTTTGGGTTTTTAGTG
1 TTAGGGTTTTTTGCATTCTTAGTC
9485299 TTAGGGTTTT
1 TTAGGGTTTT
9485309 GTTGAAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.10, C:0.08, G:0.27, T:0.54
Consensus pattern (24 bp):
TTAGGGTTTTTTGCATTCTTAGTC
Found at i:9485516 original size:34 final size:33
Alignment explanation
Indices: 9485386--9485519 Score: 119
Period size: 34 Copynumber: 4.0 Consensus size: 33
9485376 TAGGAATTTT
* * * *
9485386 AAAA-AATAAAATCAGGATTTAGTGTTTTTTTAA
1 AAAATAATTAAATTAGGGTTTAGTG-TTTTTAAA
* * **
9485419 AAATTAATTAAATTAGAGTTTAG-GAATTTAAA
1 AAAATAATTAAATTAGGGTTTAGTGTTTTTAAA
**
9485451 ATAAATAAATTAAATTAGGGTTTAAAGTTTTTAAA
1 A-AAAT-AATTAAATTAGGGTTTAGTGTTTTTAAA
*
9485486 AAAACTAATTAAATTAGGGTTTAGTTTTTTTAAA
1 AAAA-TAATTAAATTAGGGTTTAGTGTTTTTAAA
9485520 TAATATTTTA
Statistics
Matches: 80, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
32 6 0.08
33 7 0.09
34 58 0.73
35 9 0.11
ACGTcount: A:0.46, C:0.01, G:0.12, T:0.40
Consensus pattern (33 bp):
AAAATAATTAAATTAGGGTTTAGTGTTTTTAAA
Found at i:9496531 original size:44 final size:44
Alignment explanation
Indices: 9496482--9496570 Score: 117
Period size: 47 Copynumber: 2.0 Consensus size: 44
9496472 AAGTAAAATA
* *
9496482 AAAGTT-GTGATAATTATATATTTAAAAATAATTATAATTTAATC
1 AAAGTTGGTAATAATTATATATTTAAAAAT-ATTAAAATTTAATC
*
9496526 AAAGTTGCGGTAATTATTATATATTTAAAAATATTAAAATTTAAT
1 AAAGTT--GGTAATAATTATATATTTAAAAATATTAAAATTTAAT
9496571 TTACAATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
44 6 0.15
46 12 0.31
47 21 0.54
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (44 bp):
AAAGTTGGTAATAATTATATATTTAAAAATATTAAAATTTAATC
Found at i:9498797 original size:26 final size:26
Alignment explanation
Indices: 9498760--9498817 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
9498750 TGATACAAAT
9498760 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
9498786 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
9498812 TGATAA
1 TGATAA
9498818 GAATTTCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:9504899 original size:44 final size:43
Alignment explanation
Indices: 9504811--9504913 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 43
9504801 GACATATGCC
*
9504811 CTGTAGCTTCAATCTATTCAAATGTAACTTCAAGGATATGAGAT
1 CTGTAGCTTCAATCTATTCAAATGTAACTTCAAAGATA-GAGAT
* *
9504855 CTGTGGCTTCAATCTACTTC-ACTGTAACTTCAGTAAGATA-AGAT
1 CTGTAGCTTCAATCTA-TTCAAATGTAACTTCA--AAGATAGAGAT
**
9504899 CTACAGCTTCAATCT
1 CTGTAGCTTCAATCT
9504914 GCTCTTCTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
44 42 0.84
45 3 0.06
46 5 0.10
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (43 bp):
CTGTAGCTTCAATCTATTCAAATGTAACTTCAAAGATAGAGAT
Found at i:9505385 original size:14 final size:14
Alignment explanation
Indices: 9505366--9505399 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
9505356 AGTTGATTTT
*
9505366 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
9505380 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
9505394 TTGAAA
1 TTGAAA
9505400 TTACCTCAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.18
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:9505573 original size:73 final size:72
Alignment explanation
Indices: 9505384--9505685 Score: 374
Period size: 71 Copynumber: 4.2 Consensus size: 72
9505374 CAGAAATTGA
* * * *
9505384 AAAACAGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAGCTCACTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTG
9505449 ATTTTTG
66 ATTTTTG
* * * *
9505456 -AAACATAAACTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCAAC-TCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTC-ACTTCTCGCAATATGAGTT
9505519 GATTTTTG
65 GATTTTTG
* * ** * *
9505527 ACAAATAGAAATTGAAATTACCTCAGTGTGTCCTGAGGATCAACTCACTTTTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTT
9505592 GATTTTTTTG
65 GA--TTTTTG
* * * *
9505602 AAAGACAGAAATTGAAAATACCTCAACGTCTCTTGAGGCTCAACCCATTTCTCGCAATATGAGTT
1 AAA-ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTT
*
9505667 GAATTTTG
65 GATTTTTG
9505675 AAAACAGAAAT
1 AAAACAGAAAT
9505686 AAAAACATCA
Statistics
Matches: 194, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
71 60 0.31
72 12 0.06
73 60 0.31
74 2 0.01
75 60 0.31
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (72 bp):
AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTG
ATTTTTG
Found at i:9506564 original size:42 final size:42
Alignment explanation
Indices: 9506501--9506582 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
9506491 TGTGTTAATC
9506501 AAGACGCCCTTTTCGGGTTTTCACCTTGA-TCCCTTTTTTTT
1 AAGACGCCCTTTTCGGGTTTTCACCTTGATTCCCTTTTTTTT
* * *
9506542 AAGATGCCCTTTTTCGGGTTTTCATCTTGATTTCCTTTTTT
1 AAGACGCCC-TTTTCGGGTTTTCACCTTGATTCCCTTTTTT
9506583 CAAGCATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 8 0.22
42 19 0.53
43 9 0.25
ACGTcount: A:0.12, C:0.23, G:0.15, T:0.50
Consensus pattern (42 bp):
AAGACGCCCTTTTCGGGTTTTCACCTTGATTCCCTTTTTTTT
Found at i:9517816 original size:27 final size:29
Alignment explanation
Indices: 9517786--9517853 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 29
9517776 TAATGTTACC
*
9517786 TATATACATACGTATATA-TATTATAAA-
1 TATATACATACGTATATAGTATTACAAAG
*
9517813 TATAAACATGAC--A-ATAGTATTACAAAG
1 TATATACAT-ACGTATATAGTATTACAAAG
9517840 TATATACATA-GTAT
1 TATATACATACGTAT
9517854 GATGTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 11
0.70 0.07 0.24
Matches are distributed among these distances:
25 3 0.09
26 10 0.31
27 17 0.53
28 2 0.06
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (29 bp):
TATATACATACGTATATAGTATTACAAAG
Found at i:9518325 original size:35 final size:35
Alignment explanation
Indices: 9518278--9518359 Score: 105
Period size: 35 Copynumber: 2.3 Consensus size: 35
9518268 TATAATTATT
9518278 TAATATATATATATATAATACAATA-A-AATATACGAA
1 TAATATA-ATATATATAA-A-AATACATAATATACGAA
*
9518314 TAATATAATATATATAAAAATACATAATATATGAA
1 TAATATAATATATATAAAAATACATAATATACGAA
*
9518349 AAATATAATAT
1 TAATATAATAT
9518360 TTAATATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
33 4 0.10
34 2 0.05
35 29 0.69
36 7 0.17
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (35 bp):
TAATATAATATATATAAAAATACATAATATACGAA
Found at i:9518336 original size:26 final size:24
Alignment explanation
Indices: 9518279--9518344 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 24
9518269 ATAATTATTT
*
9518279 AATATATATATATATAATACAATAA
1 AATATACATA-ATATAATACAATAA
*
9518304 AATATACGAATAATATAATATATATAA
1 AATATAC--ATAATATAATACA-ATAA
9518331 AA-ATACATAATATA
1 AATATACATAATATA
9518345 TGAAAAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
24 8 0.22
25 6 0.17
26 13 0.36
27 9 0.25
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (24 bp):
AATATACATAATATAATACAATAA
Found at i:9518358 original size:16 final size:16
Alignment explanation
Indices: 9518299--9518359 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
9518289 TATATAATAC
* * *
9518299 AATAAAATATACGAAT
1 AATATAATATATGAAA
*
9518315 AATATAATATATATAAA
1 AATATAATATAT-GAAA
9518332 AATACATAATATATGAAA
1 AAT--ATAATATATGAAA
9518350 AATATAATAT
1 AATATAATAT
9518360 TTAATATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
16 17 0.46
17 5 0.14
18 6 0.16
19 9 0.24
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
AATATAATATATGAAA
Found at i:9518389 original size:47 final size:48
Alignment explanation
Indices: 9518314--9518405 Score: 118
Period size: 47 Copynumber: 1.9 Consensus size: 48
9518304 AATATACGAA
*
9518314 TAATATAATATATATAAAAATACATAATAT-ATGAA-AAATATAATATT
1 TAATATAATATATATAAAAATAAATAATATAAT-AATAAATATAATATT
* *
9518361 TAATAT-ATATATAGTGAAAGTAAATAATATAATAATAAATATAAT
1 TAATATAATATATA-TAAAAATAAATAATATAATAATAAATATAAT
9518406 GATAAATGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
46 7 0.18
47 21 0.54
48 11 0.28
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (48 bp):
TAATATAATATATATAAAAATAAATAATATAATAATAAATATAATATT
Found at i:9518493 original size:3 final size:3
Alignment explanation
Indices: 9518480--9518712 Score: 56
Period size: 3 Copynumber: 76.0 Consensus size: 3
9518470 ATATCTAAAT
* * *
9518480 ATA AT- ATA ATA ATA ATA AT- ATA ATA AT- ATT ATT AGA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
9518524 ATTA A-A ATA ATA CT- GTA TATA AAA AT- GTA TATA CATA CATA TATA
1 A-TA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -ATA -ATA -ATA
* * *
9518569 ATA AAA CATA CACTA ATA TTA TATA -TA ATA ATA ATA CTA GA-A ATA
1 ATA ATA -ATA -A-TA ATA ATA -ATA ATA ATA ATA ATA ATA -ATA ATA
* *
9518614 ATA ATA ACTA GA-A ATA ACA ATA CATTA A-A ATA ATA ATA TTTA ATA
1 ATA ATA A-TA -ATA ATA ATA ATA -A-TA ATA ATA ATA ATA -ATA ATA
** * * * * * * *
9518659 ACC AGA ATA TTA ATA ATA ACA ATA ATA AAA ATA AAA ATA ATA GTA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9518707 ATA ATA
1 ATA ATA
9518713 TTAGGAATGA
Statistics
Matches: 169, Mismatches: 38, Indels: 46
0.67 0.15 0.18
Matches are distributed among these distances:
2 18 0.11
3 116 0.69
4 30 0.18
5 5 0.03
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9518625 original size:16 final size:16
Alignment explanation
Indices: 9518595--9518651 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
9518585 TATTATATAT
9518595 AATAATAAT-ACTAGA
1 AATAATAATAACTAGA
9518610 AATAATAATAACTAGA
1 AATAATAATAACTAGA
* *
9518626 AATAACAATACATTA-A
1 AATAATAATA-ACTAGA
9518642 AATAATAATA
1 AATAATAATA
9518652 TTTAATAACC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 9 0.24
16 25 0.68
17 3 0.08
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (16 bp):
AATAATAATAACTAGA
Found at i:9518728 original size:3 final size:3
Alignment explanation
Indices: 9518593--9518712 Score: 57
Period size: 3 Copynumber: 39.0 Consensus size: 3
9518583 AATATTATAT
* *
9518593 ATA ATA ATA ATA CTA GA-A ATA ATA ATA ACTA GA-A ATA ACA ATA CATTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA A-TA -ATA ATA ATA ATA -A-TA
* ** * * *
9518641 A-A ATA ATA ATA TTTA ATA ACC AGA ATA TTA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
9518686 AAA ATA AAA ATA ATA GTA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
9518713 TTAGGAATGA
Statistics
Matches: 86, Mismatches: 22, Indels: 18
0.68 0.17 0.14
Matches are distributed among these distances:
2 4 0.05
3 73 0.85
4 6 0.07
5 3 0.03
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:9519304 original size:17 final size:17
Alignment explanation
Indices: 9519284--9519316 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9519274 TAAAAGAAGG
9519284 AAGA-AAAAGAAAAACAA
1 AAGAGAAAA-AAAAACAA
9519301 AAGAGAAAAAAAAACA
1 AAGAGAAAAAAAAACA
9519317 GATTCGCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (17 bp):
AAGAGAAAAAAAAACAA
Found at i:9520499 original size:17 final size:18
Alignment explanation
Indices: 9520457--9520516 Score: 77
Period size: 17 Copynumber: 3.2 Consensus size: 18
9520447 AGATTACAAG
9520457 ATCATATCTTCAAGATTGTAT
1 ATCATATC-T-AAGATTG-AT
9520478 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGAT
9520495 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTG-AT
9520514 ATC
1 ATC
9520517 CCTAAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.46
19 11 0.30
20 1 0.03
21 8 0.22
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (18 bp):
ATCATATCTAAGATTGAT
Found at i:9520645 original size:6 final size:6
Alignment explanation
Indices: 9520636--9520664 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
9520626 GACTTGGACT
9520636 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
9520665 TTGAACTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:9524733 original size:21 final size:22
Alignment explanation
Indices: 9524698--9524742 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
9524688 TTGATAAAAT
*
9524698 AAATTATTAAAAAAATTGATAA
1 AAATTATTAAAAAAATAGATAA
*
9524720 AAATT-TTCAAAAAATAGATAA
1 AAATTATTAAAAAAATAGATAA
9524741 AA
1 AA
9524743 TTGGTTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (22 bp):
AAATTATTAAAAAAATAGATAA
Found at i:9535678 original size:26 final size:26
Alignment explanation
Indices: 9535641--9535724 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
9535631 TGATACAAAT
* *
9535641 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9535667 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9535693 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9535719 TGATAA
1 TGATAA
9535725 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:9550829 original size:19 final size:19
Alignment explanation
Indices: 9550805--9550854 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
9550795 TTAAAATTCT
9550805 TTTTATTTTTCTTAT-TTTC
1 TTTTATTTTT-TTATCTTTC
*
9550824 TTTTATATTATTTATCTTTC
1 TTTTAT-TTTTTTATCTTTC
9550844 -TTTATTTTTTT
1 TTTTATTTTTTT
9550855 TTCCTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.19
19 15 0.56
20 7 0.26
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATTTTTTTATCTTTC
Found at i:9551163 original size:21 final size:21
Alignment explanation
Indices: 9551138--9551178 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9551128 ATTGAACCAA
*
9551138 TTTTATCTATTTTTTAAATAT
1 TTTTATCAATTTTTTAAATAT
*
9551159 TTTTATGAATTTTTTAAATA
1 TTTTATCAATTTTTTAAATA
9551179 ATTTACTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTATCAATTTTTTAAATAT
Found at i:9555278 original size:93 final size:93
Alignment explanation
Indices: 9555167--9555337 Score: 227
Period size: 93 Copynumber: 1.8 Consensus size: 93
9555157 GCCCCTAAGT
* *
9555167 GAACTCAGACTCAACTCAACGAA-CTCGGGCGTTCGCATCCAAAAATGAACAAGGACTCAACTCA
1 GAACTCAGACTCAACTCAAC-AAGCTCGGACATTCGCATCCAAAAATGAACAAGGACTCAACTCA
* *
9555231 ATGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGCTCGGATGCCTAGTTACATCTCAC
* * * * * **
9555260 GAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCAAAAATGAACAAGGACTCAACTCAA
9555325 CGAGCTCGGATGC
66 CGAGCTCGGATGC
9555338 TCAACCATCC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
92 2 0.03
93 64 0.97
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.20
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCAAAAATGAACAAGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:9565982 original size:40 final size:40
Alignment explanation
Indices: 9565937--9566017 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
9565927 AGAGTTAAGA
*
9565937 TAGATTGAGTTGAAATCTTTATTTGTATAGTGAGAAGCTT
1 TAGATTGAGTTGAAATCTTTATTTGTATAGTGAAAAGCTT
9565977 TAGATTGAGTTGAAATCTTTATTTGTATAGTGAAAAGCTT
1 TAGATTGAGTTGAAATCTTTATTTGTATAGTGAAAAGCTT
9566017 T
1 T
9566018 CTCTAAATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (40 bp):
TAGATTGAGTTGAAATCTTTATTTGTATAGTGAAAAGCTT
Found at i:9566411 original size:14 final size:13
Alignment explanation
Indices: 9566392--9566455 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
9566382 TTAAATTTTA
9566392 TTTTTTTTCTTAT
1 TTTTTTTTCTTAT
*
9566405 TTTTTTTACATTAT
1 TTTTTTTTC-TTAT
* *
9566419 TTATATTTCTT-T
1 TTTTTTTTCTTAT
*
9566431 ATTTTTTTTCCTAT
1 -TTTTTTTTCTTAT
*
9566445 TTTTTCTTCTT
1 TTTTTTTTCTT
9566456 CCTTTATAGT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
12 1 0.03
13 27 0.69
14 11 0.28
ACGTcount: A:0.12, C:0.11, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTTCTTAT
Found at i:9566419 original size:26 final size:24
Alignment explanation
Indices: 9566389--9566455 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 24
9566379 ACTTTAAATT
9566389 TTATTTTTTTTCTTATTTTTTTTAC
1 TTATTTTTTTTCTTATTTTTTTT-C
*
9566414 ATTATTTATATTTCTTTATTTTTTTTC
1 -TTATTT-TTTTTC-TTATTTTTTTTC
*
9566441 CTATTTTTTCTTCTT
1 TTATTTTTT-TTCTT
9566456 CCTTTATAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
25 4 0.11
26 14 0.40
27 6 0.17
28 11 0.31
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.76
Consensus pattern (24 bp):
TTATTTTTTTTCTTATTTTTTTTC
Found at i:9580329 original size:19 final size:17
Alignment explanation
Indices: 9580292--9580332 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
9580282 AACTTTATAA
9580292 TTTATTTTTTTAATTCT
1 TTTATTTTTTTAATTCT
*
9580309 TTTATTTTTCTTATTTTCT
1 TTTATTTTT-TTA-ATTCT
9580328 TTTAT
1 TTTAT
9580333 ATTATTTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 3 0.14
19 9 0.43
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTATTTTTTTAATTCT
Found at i:9589881 original size:23 final size:24
Alignment explanation
Indices: 9589850--9589894 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
9589840 AAATTCAATT
9589850 AAAAGAGAACTAAA-AAAAATTTGG
1 AAAAGAGAA-TAAAGAAAAATTTGG
*
9589874 AAAA-AGAATAAAGGAAAATTT
1 AAAAGAGAATAAAGAAAAATTT
9589895 TAAATTACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 11 0.58
24 4 0.21
ACGTcount: A:0.64, C:0.02, G:0.16, T:0.18
Consensus pattern (24 bp):
AAAAGAGAATAAAGAAAAATTTGG
Found at i:9593992 original size:43 final size:44
Alignment explanation
Indices: 9593943--9594109 Score: 182
Period size: 43 Copynumber: 3.9 Consensus size: 44
9593933 GATTACCGAG
* * *
9593943 ATGTGATTACATGTAAGACCATGTCTGGAACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* *
9593987 -TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * * * *
9594029 ATATGATTTCGTATAAGAGCC-TATCTGGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGA-CCATATCTGGGACATTGGCATCGTAT
* *
9594072 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCAT
9594110 TGTACGAGCT
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
42 9 0.09
43 94 0.90
44 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:9595868 original size:9 final size:9
Alignment explanation
Indices: 9595851--9595884 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
9595841 ACTTTATTTG
*
9595851 ATTATTTAA
1 ATTAATTAA
9595860 ATTAATTAA
1 ATTAATTAA
*
9595869 ATTAACTAA
1 ATTAATTAA
9595878 ATTAATT
1 ATTAATT
9595885 TCTGAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTAATTAA
Found at i:9602220 original size:19 final size:20
Alignment explanation
Indices: 9602196--9602241 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
9602186 CATCCAAACA
9602196 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
9602215 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
9602235 CCAGAAA
1 CCAGAAA
9602242 TCATTTTCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:9602244 original size:14 final size:14
Alignment explanation
Indices: 9602225--9602262 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
9602215 CCAGAAAAGT
9602225 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
9602239 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
9602253 AAAACATTTT
1 AAATCATTTT
9602263 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:9617868 original size:23 final size:23
Alignment explanation
Indices: 9617838--9617888 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
9617828 TCTGAAAAGA
*
9617838 TAAGGGATTTCACAATTTGGTTT
1 TAAGGGATTTCACAATTTGGTTC
9617861 TAAGGGATTTCACAATTTGGTTC
1 TAAGGGATTTCACAATTTGGTTC
9617884 TAAGG
1 TAAGG
9617889 TATTAAAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (23 bp):
TAAGGGATTTCACAATTTGGTTC
Found at i:9623514 original size:5 final size:4
Alignment explanation
Indices: 9623488--9623532 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 4
9623478 CTAAAAAGTT
* *
9623488 TAAA CAAA TAAA TAAA TAAAA TGAAA TAAA CAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA T-AAA T-AAA TAAA TAAA TAAA TAAA TAA
9623533 TATGAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
4 27 0.77
5 8 0.23
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (4 bp):
TAAA
Found at i:9623556 original size:26 final size:26
Alignment explanation
Indices: 9623488--9623541 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
9623478 CTAAAAAGTT
9623488 TAAACAAATAAATAAATAAAATGAAA
1 TAAACAAATAAATAAATAAAATGAAA
*
9623514 TAAACAAATAAATAAATAATATGAAA
1 TAAACAAATAAATAAATAAAATGAAA
9623540 TA
1 TA
9623542 TGACAAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (26 bp):
TAAACAAATAAATAAATAAAATGAAA
Found at i:9623583 original size:3 final size:3
Alignment explanation
Indices: 9623577--9623843 Score: 105
Period size: 3 Copynumber: 88.0 Consensus size: 3
9623567 ATGAAAACAG
* * * * * * *
9623577 TAA TAA TGA TAA TAC TAA TGA TAT TAA TAG TAG TAG TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
9623624 TAA TAA TAG TAA TAA TAA T-A TAC TAAA TAA TAG TAA TAA AAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* * * * * *
9623669 CAA TAG TAA TAG TAA TTAA -AA AAA TGA TAA TAG TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
9623713 -GA TGA TAA TAA CAA TAA TCAA -AA TAA AAA TAG TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
9623757 TAA TAA TAA GACCA TAA TAA AAA GAA AAA GAAA TAA TAA CATG TAAA
1 TAA TAA TAA TA--A TAA TAA TAA TAA TAA -TAA TAA TAA TA-A T-AA
* * *
9623804 TAA TAA TAA TAA TAA TAA TGA CAA TAA TAGA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
9623844 AAACAAATAT
Statistics
Matches: 195, Mismatches: 54, Indels: 30
0.70 0.19 0.11
Matches are distributed among these distances:
2 11 0.06
3 168 0.86
4 13 0.07
5 3 0.02
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:9623728 original size:22 final size:20
Alignment explanation
Indices: 9623685--9623729 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
9623675 TAATAGTAAT
**
9623685 TAAAAAAATGATAATAGTAA
1 TAAAAAAATGATAATAACAA
9623705 TAAAATAAGATGATAATAACAA
1 TAAAA-AA-ATGATAATAACAA
9623727 TAA
1 TAA
9623730 TCAAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 2 0.10
22 14 0.67
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.24
Consensus pattern (20 bp):
TAAAAAAATGATAATAACAA
Found at i:9625242 original size:12 final size:12
Alignment explanation
Indices: 9625225--9625250 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9625215 AAAATAAGGC
9625225 TTTAGCGGCGTT
1 TTTAGCGGCGTT
9625237 TTTAGCGGCGTT
1 TTTAGCGGCGTT
9625249 TT
1 TT
9625251 ATCAATAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:9625522 original size:41 final size:41
Alignment explanation
Indices: 9625305--9625514 Score: 287
Period size: 41 Copynumber: 5.1 Consensus size: 41
9625295 CGTTTTAACA
* * * ** *
9625305 AAAACGCCGCTAAA-AACTGAGCAATAGCGGTGCTTTTGGT
1 AAAACGCCGCTAAAGACCAGAGCATTAGCGGCCCTTTTGCT
* *
9625345 AAAACACCGCTAAAGACCAGAGCATTAGTGGCCCTTTTGCT
1 AAAACGCCGCTAAAGACCAGAGCATTAGCGGCCCTTTTGCT
9625386 AAAACGCCGCTAAAGACCAGAGCATTAGCGGCCCTTTTGCT
1 AAAACGCCGCTAAAGACCAGAGCATTAGCGGCCCTTTTGCT
* *
9625427 AAAACGCCGCTAAAGACCAGAGCATTATCGGCGCTTTTGCT
1 AAAACGCCGCTAAAGACCAGAGCATTAGCGGCCCTTTTGCT
** **
9625468 AAAACGTTGCTAAAGACCAGAGCATTAGCGGTACTTTTGCT
1 AAAACGCCGCTAAAGACCAGAGCATTAGCGGCCCTTTTGCT
9625509 AAAACG
1 AAAACG
9625515 TCACTAAAAG
Statistics
Matches: 152, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 13 0.09
41 139 0.91
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (41 bp):
AAAACGCCGCTAAAGACCAGAGCATTAGCGGCCCTTTTGCT
Found at i:9626570 original size:18 final size:19
Alignment explanation
Indices: 9626547--9626585 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9626537 ATCTTTTTTT
9626547 TATTTTT-TATCAAAATAA
1 TATTTTTATATCAAAATAA
*
9626565 TATTTTTATATGAAAATAA
1 TATTTTTATATCAAAATAA
9626584 TA
1 TA
9626586 AATATGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
TATTTTTATATCAAAATAA
Found at i:9628533 original size:19 final size:20
Alignment explanation
Indices: 9628496--9628535 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
9628486 TCAAGGTAGA
9628496 ATATGATTGCTTTGGTCTGC
1 ATATGATTGCTTTGGTCTGC
*
9628516 ATATGATT-CTTTGTTCTGC
1 ATATGATTGCTTTGGTCTGC
9628535 A
1 A
9628536 GACTGAAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.47
Consensus pattern (20 bp):
ATATGATTGCTTTGGTCTGC
Found at i:9629338 original size:42 final size:42
Alignment explanation
Indices: 9629279--9629359 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
9629269 TGAGGGTGTG
9629279 TCATTTGGTAGTTTATTAATCTAAATTCAAAAAAAAAAAAGA
1 TCATTTGGTAGTTTATTAATCTAAATTCAAAAAAAAAAAAGA
9629321 TCATTTGGTAGTTTATTAATCTAAATTCAAAAAAAAAAA
1 TCATTTGGTAGTTTATTAATCTAAATTCAAAAAAAAAAA
9629360 GAAAAAGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (42 bp):
TCATTTGGTAGTTTATTAATCTAAATTCAAAAAAAAAAAAGA
Found at i:9629947 original size:15 final size:15
Alignment explanation
Indices: 9629927--9629955 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9629917 GGAGTAGACC
9629927 AGGTACGTTTTATTA
1 AGGTACGTTTTATTA
9629942 AGGTACGTTTTATT
1 AGGTACGTTTTATT
9629956 TCAAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (15 bp):
AGGTACGTTTTATTA
Found at i:9630633 original size:21 final size:21
Alignment explanation
Indices: 9630604--9630643 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9630594 GTTTTTATAT
*
9630604 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
9630625 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
9630644 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:9636889 original size:43 final size:43
Alignment explanation
Indices: 9636842--9637232 Score: 486
Period size: 43 Copynumber: 9.0 Consensus size: 43
9636832 CTGGGCAAAT
*
9636842 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * *
9636885 TAGCGGTG-TTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCTA
*
9636927 TAGCGGCGTTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * * * * *
9636971 TAGCGACATTTTTTATAAAAGCGCTG-TTAAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCTA
* *
9637014 TAACGGCGTTTTTT-TACTAAAGCGTCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATA--AAAGCGCCGCTAAAAGTACAGGTCTA
*
9637058 TAGCGGCGTTTTTTATAAAAGCGCCTCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * *
9637101 TTGCGGCGTTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCTA
* *
9637144 TAGCGGCGTTTTTTTACAAAAGCGTCGCTAAAAGTACAGGTCTA
1 TAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * *
9637188 TAGCGGCATTTTTTATAAAAGCGCCTCTAAAATTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
9637231 TA
1 TA
9637233 AAACGCCGCT
Statistics
Matches: 296, Mismatches: 40, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
41 6 0.02
42 46 0.16
43 136 0.46
44 87 0.29
45 21 0.07
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (43 bp):
TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
Found at i:9637009 original size:87 final size:85
Alignment explanation
Indices: 9636842--9637232 Score: 457
Period size: 87 Copynumber: 4.5 Consensus size: 85
9636832 CTGGGCAAAT
* *
9636842 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGTG-TTTTTATAAAAGC
1 TAGCGGCGTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGC
* * *
9636906 GCCGCT-AAAGTTCTTGGTCTA
66 GCTG-TAAAAGTAC-AGGTCTA
* *
9636927 TAGCGGCGTTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGACATTTTTTATAAAAG
1 TAGCGGCG-TTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAG
* * *
9636992 CGCTGTTAAAGTTCTTGGTCTA
65 CGCTGTAAAAGTAC-AGGTCTA
* * *
9637014 TAACGGCGTTTTTTTACTAAAGCGTCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAG
1 TAGCGGCG-TTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAG
*
9637079 CGCCTCTAAAAGTACAGGTCTA
65 CG-CTGTAAAAGTACAGGTCTA
* * * * *
9637101 TTGCGGCGTTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTATAGCGGCGTTTTTTTACAAAA
1 TAGCGGCGTTTTTTACAAAAGCGCCGCTAAAAGTAC-AGGTCTATAGCGGCG-TTTTTTATAAAA
9637165 GCG-TCGCTAAAAGTACAGGTCTA
64 GCGCT-G-TAAAAGTACAGGTCTA
* * * *
9637188 TAGCGGCATTTTTTATAAAAGCGCCTCTAAAATTACAGGTCTATA
1 TAGCGGCGTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATA
9637233 AAACGCCGCT
Statistics
Matches: 268, Mismatches: 29, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
85 15 0.06
86 71 0.26
87 168 0.63
88 14 0.05
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (85 bp):
TAGCGGCGTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGC
GCTGTAAAAGTACAGGTCTA
Found at i:9637101 original size:130 final size:129
Alignment explanation
Indices: 9636850--9637232 Score: 538
Period size: 130 Copynumber: 3.0 Consensus size: 129
9636840 ATTAGCGGCG
* * * * * *
9636850 TTTTTTAAAAAAGCGCCGCTAAAAGTAC-AGGTCTATAGCGGTGTTTTTATA-AAAGCGCCGCT-
1 TTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTATAGCGGCGTTTTTTTACAAAGCGTCGCTA
* * * *
9636912 AAAGTTCTTGGTCTATAGCGGCGTTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGA
65 AAAGTAC-AGGTCTATAGCGGCG-TTTTTTATAAAAGCGCCTCTAAAAGTACAGGTCTATAGCGA
9636977 CA
128 CA
* * *
9636979 TTTTTTATAAAAGCGCTGTTAAAGTTCTTGGTCTATAACGGCGTTTTTTTACTAAAGCGTCGCTA
1 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCGTTTTTTTAC-AAAGCGTCGCTA
* * *
9637044 AAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCTCTAAAAGTACAGGTCTATTGCGGCG
65 AAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCTCTAAAAGTACAGGTCTATAGCGACA
9637109 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCGTTTTTTTACAAAAGCGTCGCTA
1 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCGTTTTTTTAC-AAAGCGTCGCTA
* *
9637174 AAAGTACAGGTCTATAGCGGCATTTTTTATAAAAGCGCCTCTAAAATTACAGGTCTATA
65 AAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCTCTAAAAGTACAGGTCTATA
9637233 AAACGCCGCT
Statistics
Matches: 227, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
128 6 0.03
129 36 0.16
130 155 0.68
131 24 0.11
132 6 0.03
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (129 bp):
TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCGTTTTTTTACAAAGCGTCGCTAA
AAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCTCTAAAAGTACAGGTCTATAGCGACA
Found at i:9637329 original size:42 final size:43
Alignment explanation
Indices: 9637232--9637371 Score: 160
Period size: 43 Copynumber: 3.3 Consensus size: 43
9637222 ACAGGTCTAT
* * *
9637232 AAAA-CGCCGCTAAAGTTCTTGGTCTATAGCGGCGTTTTTTAA
1 AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTTAA
* * * *
9637274 AAAAGCGTCGCTAAAGGTCCTGGTCTTTGGTGGCGTTTTTT-T
1 AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTTAA
* *
9637316 AAGAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAA
1 AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCG-TTTTTTAA
*
9637360 AAAA-TGCCGCTA
1 AAAAGCGCCGCTA
9637372 TTGACCTATA
Statistics
Matches: 80, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
42 35 0.44
43 42 0.52
44 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTTAA
Found at i:9648618 original size:12 final size:12
Alignment explanation
Indices: 9648603--9648628 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9648593 ATTAGCATTG
9648603 TTATTATTTATT
1 TTATTATTTATT
9648615 TTATTATTTATT
1 TTATTATTTATT
9648627 TT
1 TT
9648629 TTTCCTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTATTTATT
Found at i:9649074 original size:22 final size:22
Alignment explanation
Indices: 9649033--9649074 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9649023 CAAATATCCT
* *
9649033 TTTAAAATTAAAATACATAAGA
1 TTTAAAATTAAAAAAAATAAGA
*
9649055 TTTAATATTAAAAAAAATAA
1 TTTAAAATTAAAAAAAATAA
9649075 AAGGCAAGCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
TTTAAAATTAAAAAAAATAAGA
Found at i:9652277 original size:33 final size:32
Alignment explanation
Indices: 9652204--9652278 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 32
9652194 TTAAAAAATT
* *
9652204 ATATTAATATATTAATAATTTATTATATTTATA
1 ATATTAA-ATATAAATAATATATTATATTTATA
*
9652237 ATAATTAAATATAAATAA-ATATGTATGTTTAATA
1 AT-ATTAAATATAAATAATATAT-TATATTT-ATA
9652271 ATATTAAA
1 ATATTAAA
9652279 CAATATAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
32 3 0.08
33 23 0.64
34 10 0.28
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (32 bp):
ATATTAAATATAAATAATATATTATATTTATA
Found at i:9652751 original size:20 final size:21
Alignment explanation
Indices: 9652728--9652780 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
9652718 ATTATTAAAC
*
9652728 ATAT-ATTTAATAATTTATTA
1 ATATAATTTAATAATTTAATA
* *
9652748 ATATAATTTATTATTTTAATA
1 ATATAATTTAATAATTTAATA
9652769 A-ATAATTTAATA
1 ATATAATTTAATA
9652781 TTACAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATAATTTAATAATTTAATA
Found at i:9652782 original size:20 final size:21
Alignment explanation
Indices: 9652715--9652782 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
9652705 TATTAATATA
9652715 AATATTATTAA-ACATAT-ATTT
1 AATATT-TTAATA-ATATAATTT
* *
9652736 AATAATTTATTAATATAATTT
1 AATATTTTAATAATATAATTT
*
9652757 ATTATTTTAATAA-ATAATTT
1 AATATTTTAATAATATAATTT
9652777 AATATT
1 AATATT
9652783 ACAAATTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 19 0.49
21 20 0.51
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTTAATAATATAATTT
Found at i:9657466 original size:32 final size:31
Alignment explanation
Indices: 9657431--9657516 Score: 90
Period size: 32 Copynumber: 2.7 Consensus size: 31
9657421 TTAAATGATT
9657431 TTTTTATAATTTTTATATA-TTATTTTTT-GAA
1 TTTTTATAATTTTTATA-AGTT-TTTTTTAGAA
9657462 TTTTTAT-ATTATTTATAAGTTTTTTTTACGAA
1 TTTTTATAATT-TTTATAAGTTTTTTTTA-GAA
*
9657494 TTTTTAT-ATATTTTATAAATTTT
1 TTTTTATAAT-TTTTATAAGTTTT
9657517 ATAAGTTTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
30 10 0.20
31 15 0.31
32 23 0.47
33 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.66
Consensus pattern (31 bp):
TTTTTATAATTTTTATAAGTTTTTTTTAGAA
Found at i:9657485 original size:20 final size:20
Alignment explanation
Indices: 9657432--9657486 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
9657422 TAAATGATTT
9657432 TTTTATAATTTTTATATATTA
1 TTTTATAATTTTT-TATATTA
*
9657453 TTTTTTGAA-TTTTTATATTA
1 TTTTAT-AATTTTTTATATTA
9657473 -TTTATAAGTTTTTT
1 TTTTATAA-TTTTTT
9657487 TTACGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 2 0.07
19 4 0.14
20 12 0.41
21 9 0.31
22 2 0.07
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTATAATTTTTTATATTA
Found at i:9657543 original size:20 final size:20
Alignment explanation
Indices: 9657504--9657550 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
9657494 TTTTTATATA
* *
9657504 TTTTATAAATTTTATAAGTT
1 TTTTTTAAATTTAATAAGTT
9657524 TTATTTTAAATTTAAT-AGTT
1 TT-TTTTAAATTTAATAAGTT
9657544 TTTTTTA
1 TTTTTTA
9657551 TGATTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 8 0.33
21 11 0.46
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (20 bp):
TTTTTTAAATTTAATAAGTT
Found at i:9659603 original size:10 final size:10
Alignment explanation
Indices: 9659586--9659729 Score: 52
Period size: 10 Copynumber: 14.0 Consensus size: 10
9659576 CATTTTAACA
9659586 ATATATTATT
1 ATATATTATT
9659596 -TCATATTATT
1 AT-ATATTATT
9659606 AT-TATTTATT
1 ATATA-TTATT
9659616 ATATATTATTTTT
1 ATATATTA---TT
* *
9659629 CACAAATTATT
1 -ATATATTATT
*
9659640 -TTTATTATT
1 ATATATTATT
* *
9659649 TTACATTATT
1 ATATATTATT
*
9659659 ATTTA-TA-T
1 ATATATTATT
9659667 AT-TATTATT
1 ATATATTATT
*
9659676 ATAATTTTACTT
1 AT-ATATTA-TT
*
9659688 GTATTATTTATT
1 ATA-TA-TTATT
9659700 AT-TAATTATT
1 ATAT-ATTATT
9659710 -TATATATATT
1 ATATAT-TATT
9659720 ATATATTATT
1 ATATATTATT
9659730 TTTACATATA
Statistics
Matches: 100, Mismatches: 14, Indels: 40
0.65 0.09 0.26
Matches are distributed among these distances:
7 2 0.02
8 5 0.05
9 17 0.17
10 42 0.42
11 16 0.16
12 7 0.07
13 5 0.05
14 6 0.06
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (10 bp):
ATATATTATT
Found at i:9659605 original size:3 final size:3
Alignment explanation
Indices: 9659599--9659729 Score: 56
Period size: 3 Copynumber: 41.3 Consensus size: 3
9659589 TATTATTTCA
* * * *
9659599 TAT TAT TAT TATT TAT TAT ATAT TAT TTT TCACA AAT TAT TTT TAT TAT
1 TAT TAT TAT TA-T TAT TAT -TAT TAT TAT T-A-T TAT TAT TAT TAT TAT
* * *
9659648 T-T TA- CAT TAT TATT TAT ATAT TAT TAT TAT AAT T-T TACT T-G TAT
1 TAT TAT TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TA-T TAT TAT
9659692 TATT TAT TAT TAAT TAT T-T ATAT ATAT TAT ATAT TAT T
1 TA-T TAT TAT T-AT TAT TAT -TAT -TAT TAT -TAT TAT T
9659730 TTTACATATA
Statistics
Matches: 98, Mismatches: 14, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
2 7 0.07
3 62 0.63
4 29 0.30
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:9659624 original size:17 final size:17
Alignment explanation
Indices: 9659589--9659865 Score: 75
Period size: 17 Copynumber: 16.0 Consensus size: 17
9659579 TTTAACAATA
9659589 TATTATTTCA-TAT-TAT
1 TATTATTT-ATTATATAT
9659605 TATTATTTATTATATAT
1 TATTATTTATTATATAT
* *
9659622 TATT-TTTCA-CAAATTAT
1 TATTATTT-ATTATA-TAT
* * *
9659639 TTTTA-TTATTTTACAT
1 TATTATTTATTATATAT
9659655 TATTATTTA-TATATTAT
1 TATTATTTATTATA-TAT
* *
9659672 TATTA-TAATTTTACT-T
1 TATTATTTATTATA-TAT
9659688 GTATTATTTATTAT-TAAT
1 -TATTATTTATTATAT-AT
9659706 TATTTATATATATTATATAT
1 TA-TTAT-T-TATTATATAT
*
9659726 TATT-TTTA-CATATAT
1 TATTATTTATTATATAT
* * *
9659741 ACACTT-TCATATTATAAAT
1 -TA-TTAT-TTATTATATAT
* *
9659760 TA-TAATTATTTTATAT
1 TATTATTTATTATATAT
*
9659776 TATGTCATTTTTTATACTAT
1 TAT-T-ATTTATTATA-TAT
*
9659796 TATTTTTATATTTTTATATAAT
1 TA---TTAT-TTATTATAT-AT
* *
9659818 TATTA-TTCTTATAAAT
1 TATTATTTATTATATAT
9659834 ATATT-TTTATTATATAT
1 -TATTATTTATTATATAT
*
9659851 TA-TA-TTATTAAATAT
1 TATTATTTATTATATAT
9659866 CACATTTTTT
Statistics
Matches: 194, Mismatches: 33, Indels: 69
0.66 0.11 0.23
Matches are distributed among these distances:
15 18 0.09
16 48 0.25
17 62 0.32
18 15 0.08
19 18 0.09
20 15 0.08
21 4 0.02
22 13 0.07
23 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (17 bp):
TATTATTTATTATATAT
Found at i:9659698 original size:27 final size:27
Alignment explanation
Indices: 9659635--9659703 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
9659625 TTTTCACAAA
*
9659635 TTATT-TTTATTATTTTACATTATTAT
1 TTATTATTTATTATTATACATTATTAT
9659661 TTA-TATATTATTATTATA-ATT-TTACT
1 TTATTAT-TTATTATTATACATTATTA-T
9659687 TGTATTATTTATTATTA
1 T-TATTATTTATTATTA
9659704 ATTATTTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
25 4 0.11
26 9 0.24
27 21 0.57
28 3 0.08
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (27 bp):
TTATTATTTATTATTATACATTATTAT
Found at i:9659703 original size:33 final size:33
Alignment explanation
Indices: 9659566--9659709 Score: 105
Period size: 33 Copynumber: 4.2 Consensus size: 33
9659556 ATATCTTTTA
* *
9659566 TATTATTTTACATTTTAACAATATATTATTT-CATAT
1 TATTATTATA-ATTTT-AC-AT-TATTATTTATATAT
* * * * *
9659602 TATTATTATTTATTATATATTATT-TTTCACAAAT
1 TATTATTA-TAATTTTACATTATTATTT-ATATAT
* *
9659636 TATTTTTATTATTTTACATTATTATTTATATAT
1 TATTATTATAATTTTACATTATTATTTATATAT
*
9659669 TATTATTATAATTTTACTTGTATTATTTAT-TAT
1 TATTATTATAATTTTACAT-TATTATTTATATAT
9659702 TAATTATT
1 T-ATTATT
9659710 TATATATATT
Statistics
Matches: 89, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
32 3 0.03
33 41 0.46
34 32 0.36
35 1 0.01
36 11 0.12
37 1 0.01
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (33 bp):
TATTATTATAATTTTACATTATTATTTATATAT
Found at i:9659711 original size:27 final size:25
Alignment explanation
Indices: 9659662--9659729 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 25
9659652 CATTATTATT
9659662 TATATATTA-TTATTA-TAATTTTA
1 TATATATTATTTATTATTAATTTTA
*
9659685 CT-TGTATTATTTATTATTAATTATTTA
1 -TATATATTATTTATTATTAA-T-TTTA
*
9659712 TATATATTATATATTATT
1 TATATATTATTTATTATT
9659730 TTTACATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
23 6 0.17
24 7 0.19
25 3 0.08
26 2 0.06
27 18 0.50
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (25 bp):
TATATATTATTTATTATTAATTTTA
Found at i:9661527 original size:14 final size:14
Alignment explanation
Indices: 9661505--9661597 Score: 64
Period size: 14 Copynumber: 6.2 Consensus size: 14
9661495 ATAAATCATG
9661505 TGATAAAAATATATA
1 TGAT-AAAATATATA
*
9661520 TGATAAAATGTATA
1 TGATAAAATATATA
* *
9661534 TAATATAATATATA
1 TGATAAAATATATA
9661548 T-ATATAAATATCATAA
1 TGATA-AAATAT-AT-A
*
9661564 GGAGTAAAATATAATA
1 TGA-TAAAATAT-ATA
9661580 TGTAATAAAATA-ATA
1 TG--ATAAAATATATA
9661595 TGA
1 TGA
9661598 AAACAAATAA
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
13 4 0.06
14 26 0.41
15 11 0.17
16 3 0.05
17 16 0.25
18 3 0.05
ACGTcount: A:0.56, C:0.01, G:0.09, T:0.34
Consensus pattern (14 bp):
TGATAAAATATATA
Found at i:9661822 original size:8 final size:8
Alignment explanation
Indices: 9661809--9661841 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
9661799 TGCCATATAA
9661809 AATAATAT
1 AATAATAT
9661817 AATAATAT
1 AATAATAT
9661825 -ATAATAT
1 AATAATAT
*
9661832 AATAAAAT
1 AATAATAT
9661840 AA
1 AA
9661842 ATGTATTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATAATAT
Found at i:9661828 original size:20 final size:20
Alignment explanation
Indices: 9661803--9661841 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9661793 TATATATGCC
*
9661803 ATATAAAATAATATAATAAT
1 ATATAAAATAATAAAATAAT
*
9661823 ATATAATATAATAAAATAA
1 ATATAAAATAATAAAATAA
9661842 ATGTATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATAAAATAATAAAATAAT
Found at i:9662366 original size:13 final size:13
Alignment explanation
Indices: 9662350--9662374 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9662340 AAAAAAAAAC
9662350 TTTAAACATTCAT
1 TTTAAACATTCAT
9662363 TTTAAACATTCA
1 TTTAAACATTCA
9662375 ACAAAAAAAA
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAACATTCAT
Found at i:9663674 original size:86 final size:85
Alignment explanation
Indices: 9663576--9664026 Score: 282
Period size: 86 Copynumber: 5.2 Consensus size: 85
9663566 ATGCCAAATC
*
9663576 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAAGTTAGATCTACTGTGTATCTGCTCTCTATCGA
1 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAAGTTAGATCTGCTGTGTATCTGCTCTCT-TCGA
9663641 AATGGAGATGCCAGATCTGTT
65 AATGGAGATGCCAGATCTGTT
** * * * * *
9663662 ATCTTGGATCTGCTTTGGTGTGAGAA-CATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGCTC
1 ATCTTGGATCTGC-TT-CAGTGA-AATCATCTGAAAGTTAGATCTGC--TGT-GT--ATCTGCTC
* ** *
9663726 -CTTGTGAACA-CAAGGATGCCAAATC----
58 TCTT-CGAA-ATGGA-GATGCCAGATCTGTT
* * * * * *
9663751 ATCTTGGATCTGCTTCAGTAAAATTATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCAGTCAA
1 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAAGTTAGATCTGCTGTGTATCTGCTCTC-TTCGA
9663816 AATGGAGATGCCAGATCTGTT
65 AATGGAGATGCCAGATCTGTT
* * * * * * *
9663837 ATCTTGGATCTACTTTAATGTGAGAA-CATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGCTC
1 ATCTTGGATCTGC-TTCA-GTGA-AATCATCTGAAAGTTAGATCTGC--TGT-GT--ATCTGCTC
* ** *
9663901 -CTTGTGAACA-CAAGGATGCCAAATC----
58 TCTT-CGAA-ATGGA-GATGCCAGATCTGTT
* * * *
9663926 ATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGA
1 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAAGTTAGATCTGCTGTGTATCTGCTCT-CTTCGA
9663991 AATGGAGATGCCAGATCTGTT
65 AATGGAGATGCCAGATCTGTT
9664012 ATCTTGGATCTGCTT
1 ATCTTGGATCTGCTT
9664027 TGATAGGAGA
Statistics
Matches: 266, Mismatches: 61, Indels: 76
0.66 0.15 0.19
Matches are distributed among these distances:
82 36 0.14
83 8 0.03
84 5 0.02
85 4 0.02
86 44 0.17
87 42 0.16
88 43 0.16
89 29 0.11
90 5 0.02
91 4 0.02
92 10 0.04
93 36 0.14
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (85 bp):
ATCTTGGATCTGCTTCAGTGAAATCATCTGAAAGTTAGATCTGCTGTGTATCTGCTCTCTTCGAA
ATGGAGATGCCAGATCTGTT
Found at i:9663765 original size:89 final size:88
Alignment explanation
Indices: 9663662--9663940 Score: 272
Period size: 89 Copynumber: 3.2 Consensus size: 88
9663652 CAGATCTGTT
*
9663662 ATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGCTCC
1 ATCTTGGATCTGCTTT-ATGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGCTCC
9663727 TTGTGAACACAAGGATGCCAAATC
65 TTGTGAACACAAGGATGCCAAATC
* * * * * * * *
9663751 ATCTTGGATCTGCTTCA-GT-AAAATTATCTGAAGGTTAGATCTGCTATG---T--ATCTGCT-C
1 ATCTTGGATCTGCTTTATGTGAGAA-CATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGCTCC
* * * *
9663808 TCAGTCAA-A-ATGGAGATGCCAGATC
65 T-TGTGAACACA-AG-GATGCCAAATC
*
9663833 TGTTATCTTGGATCTACTTTAATGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTG
1 ----ATCTTGGATCTGCTTT-ATGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTG
9663898 CTCCTTGTGAACACAAGGATGCCAAATC
61 CTCCTTGTGAACACAAGGATGCCAAATC
9663926 ATCTTGGATCTGCTT
1 ATCTTGGATCTGCTT
9663941 CAGTAAAATC
Statistics
Matches: 144, Mismatches: 27, Indels: 38
0.69 0.13 0.18
Matches are distributed among these distances:
80 1 0.01
81 4 0.03
82 20 0.14
84 1 0.01
86 17 0.12
87 22 0.15
88 21 0.15
89 32 0.22
91 1 0.01
93 20 0.14
94 4 0.03
95 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (88 bp):
ATCTTGGATCTGCTTTATGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCT
TGTGAACACAAGGATGCCAAATC
Found at i:9663821 original size:175 final size:175
Alignment explanation
Indices: 9663524--9664075 Score: 910
Period size: 175 Copynumber: 3.2 Consensus size: 175
9663514 CGTGAAAGCC
* * ** * *
9663524 CAAATCTGCTATATCTTTGATTCACTCCTTGTAAACATAAGGATGCCAAATCATCTTGGATCTGC
1 CAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGC
* * * *
9663589 TTCAGTGAAATCATCTGAAAGTTAGATCTACTGTGTATCTGCTCTCTA-TCGAAATGGAGATGCC
66 TTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTC-AGTCGAAATGGAGATGCC
*
9663653 AGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGT
130 AGATCTGTTATCTTGGATCTGCTTTGATGTGAGAACATCCGAAAGT
9663699 CAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGC
1 CAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGC
* *
9663764 TTCAGTAAAATTATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCAGTCAAAATGGAGATGCCA
66 TTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCAGTCGAAATGGAGATGCCA
* *
9663829 GATCTGTTATCTTGGATCTACTTTAATGTGAGAACATCCGAAAGT
131 GATCTGTTATCTTGGATCTGCTTTGATGTGAGAACATCCGAAAGT
9663874 CAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGC
1 CAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGC
*
9663939 TTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCA
66 TTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCAGTCGAAATGGAGATGCCA
9664004 GATCTGTTATCTTGGATCTGCTTTGATAG-GAGAACATCCGAAAGT
131 GATCTGTTATCTTGGATCTGCTTTGAT-GTGAGAACATCCGAAAGT
* *
9664049 CAGATCTGCTATGTCTTTGATTTGCTC
1 CAAATCTGCTATGTCTTCGATTTGCTC
9664076 TCCGTCGAAG
Statistics
Matches: 353, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
174 1 0.00
175 351 0.99
176 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (175 bp):
CAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGC
TTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCAGTCGAAATGGAGATGCCA
GATCTGTTATCTTGGATCTGCTTTGATGTGAGAACATCCGAAAGT
Found at i:9664146 original size:93 final size:92
Alignment explanation
Indices: 9663628--9664159 Score: 236
Period size: 93 Copynumber: 6.0 Consensus size: 92
9663618 ACTGTGTATC
** * * * **
9663628 TGCTCTCTATCGAAATGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGGT-GTGAGAACATC
1 TGCTCTCCGTCGAAATAGAGAAGCCAAATCTGTTATCTTGGATCTGCTTTCATAG-GAGAACATC
* * *
9663692 CGAAAGTCAAATCTGCTATGTCTTCGATT
65 CGAAAGCCAGATCTGCTATG-CTTTGATT
* * *
9663721 TGCTC-CTTGT-GAACACA-AGGATGCCAAATC----ATCTTGGATCTGC-TTCAGTA--A-AAT
1 TGCTCTC-CGTCGAA-ATAGA-GAAGCCAAATCTGTTATCTTGGATCTGCTTTCA-TAGGAGAA-
* * * ** *
9663775 TATCTGAAGGTTAGATCTGCTATG---T-ATC
61 CATCCGAAAGCCAGATCTGCTATGCTTTGATT
* * * * * * *
9663803 TGCTCTCAGTCAAAATGGAGATGCCAGATCTGTTATCTTGGATCTACTTTAAT-GTGAGAACATC
1 TGCTCTCCGTCGAAATAGAGAAGCCAAATCTGTTATCTTGGATCTGCTTTCATAG-GAGAACATC
* * *
9663867 CGAAAGTCAAATCTGCTATGTCTTCGATT
65 CGAAAGCCAGATCTGCTATG-CTTTGATT
* * *
9663896 TGCTC-CTTGT-GAACACA-AGGATGCCAAATC----ATCTTGGATCTGC-TTCAGTA--A-AAT
1 TGCTCTC-CGTCGAA-ATAGA-GAAGCCAAATCTGTTATCTTGGATCTGCTTTCA-TAGGAGAA-
* * ** *
9663950 CATCTGAAGGTTAGATCTGCTATG---T-ATC
61 CATCCGAAAGCCAGATCTGCTATGCTTTGATT
* * * *
9663978 TGCTCTCCGTCGAAATGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGATAGGAGAACATCC
1 TGCTCTCCGTCGAAATAGAGAAGCCAAATCTGTTATCTTGGATCTGCTTTCATAGGAGAACATCC
*
9664043 GAAAGTCAGATCTGCTATGTCTTTGATT
66 GAAAGCCAGATCTGCTATG-CTTTGATT
*
9664071 TGCTCTCCGTCGAAGATAGAGAAGCCAAATCTTGTTATCTTGGATCTGC-TTCA-GGGTA-AACA
1 TGCTCTCCGTCGAA-ATAGAGAAGCCAAATC-TGTTATCTTGGATCTGCTTTCATAGG-AGAACA
* *
9664133 -CGTGAAGGCCAGATCTGCTATGCTTTG
63 TC-CGAAAGCCAGATCTGCTATGCTTTG
9664160 GTCTATTACC
Statistics
Matches: 333, Mismatches: 57, Indels: 99
0.68 0.12 0.20
Matches are distributed among these distances:
82 40 0.12
83 9 0.03
86 32 0.10
87 47 0.14
88 47 0.14
89 31 0.09
92 16 0.05
93 77 0.23
94 17 0.05
95 17 0.05
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (92 bp):
TGCTCTCCGTCGAAATAGAGAAGCCAAATCTGTTATCTTGGATCTGCTTTCATAGGAGAACATCC
GAAAGCCAGATCTGCTATGCTTTGATT
Found at i:9673541 original size:484 final size:484
Alignment explanation
Indices: 9672625--9673554 Score: 1698
Period size: 484 Copynumber: 1.9 Consensus size: 484
9672615 GAAGTTCTCC
* *
9672625 CTTCCATTGTTCCTCTCTTGCCTCAAGCTGCTCAATCCGTAGCTCACGGCCCTGTAGTGCTGCTT
1 CTTCCATTGTTCCTCTCTTGCCTCAAGCTGCTCAATCCGTAGCTCACAGCCATGTAGTGCTGCTT
9672690 CCAACTCTCCAATGTTGTGCTTCATTTTCTCGATCTTGTCCAAGCTTGCCTTTAACTCGATCGCA
66 CCAACTCTCCAATGTTGTGCTTCATTTTCTCGATCTTGTCCAAGCTTGCCTTTAACTCGATCGCA
*
9672755 GAGTTACGACTTCGGTAATGATGAAGAGATCGTCCAAGCTCTGTCACCTTAACTTTTAGCCATTG
131 GAGTTACGACTTCGGTAATGATGAAGAGATCGTCCAAGCTCTATCACCTTAACTTTTAGCCATTG
* *
9672820 ATTTTCTTTTTCTAGGGTCTGATTACGCGACTGCATCTCTTGGAACTTCTTCTTCCAATATTCGA
196 ATTTTCTTTTTCTAGGGTCTAATTACGCGACTGCATCTCTTGGAACTTCTTCTCCCAATATTCGA
* * * *
9672885 CCTTAGCTCTTTCCTCTTGAATCTCATGCTGGCACTGCTCTGAAGAGCTTCCTAATCTGACCCTT
261 CCTTAGCTCTTTCCTCTTGAATCTCATGCTGCCACTGCTCTGAAGACCTCCCTAATCCGACCCTT
9672950 TTCAATGTTACCTGGGCCTTCTTATAATGCGTCTTTAAGTTATCTCGATCTTCCTCGACCTTTCT
326 TTCAATGTTACCTGGGCCTTCTTATAATGCGTCTTTAAGTTATCTCGATCTTCCTCGACCTTTCT
* *
9673015 CTTTTCCTTTTTCACCTTCTCAACTTCCATCTTTTGAACGTCAACATCGAGACTCACAGCCCTGT
391 CTTTTCCTTTTTCACCTTCTCAACTTCCATATTTTAAACGTCAACATCGAGACTCACAGCCCTGT
9673080 AGTGCTGCTTCCAACTCTCCAATGTTGTA
456 AGTGCTGCTTCCAACTCTCCAATGTTGTA
9673109 CTTCCATTGTTCCTCTCTTGCCTCAAGCTGCTCAATCCGTAGCTCACAGCCATGTAGTGCTGCTT
1 CTTCCATTGTTCCTCTCTTGCCTCAAGCTGCTCAATCCGTAGCTCACAGCCATGTAGTGCTGCTT
*
9673174 CCAACTCTCCAATGTTGTGCTTCATTTTCTCGATCTTGTCCAAGCTTGCCTTTAACTCGATCGTA
66 CCAACTCTCCAATGTTGTGCTTCATTTTCTCGATCTTGTCCAAGCTTGCCTTTAACTCGATCGCA
*
9673239 GAGTTACGACTTCGGTAATGATGAAGAGATCGTCCAAGCTCTATCACCTTAACTTTTAGCCCTTG
131 GAGTTACGACTTCGGTAATGATGAAGAGATCGTCCAAGCTCTATCACCTTAACTTTTAGCCATTG
* * *
9673304 ATTTTCTTTTTCTAGGGTCTAATTACGCGATTGCATCTCTTGGAATTTCTTCTCCCAATATTCGG
196 ATTTTCTTTTTCTAGGGTCTAATTACGCGACTGCATCTCTTGGAACTTCTTCTCCCAATATTCGA
9673369 CCTTAGCTCTTTCCTCTTGAATCTCATGCTGCCACTGCTCTGAAGACCTCCCTAATCCGACCCTT
261 CCTTAGCTCTTTCCTCTTGAATCTCATGCTGCCACTGCTCTGAAGACCTCCCTAATCCGACCCTT
*
9673434 TTCAATGTTACCTGGGCCTTCTTATAATGCGTCTTTAAGTTATCTCGATCTTCCTCGGCCTTTCT
326 TTCAATGTTACCTGGGCCTTCTTATAATGCGTCTTTAAGTTATCTCGATCTTCCTCGACCTTTCT
*
9673499 CTTTTCCTTTTTCACCTTCTCGACTTCCATATTTTAAACGTCAACATCGAGACTCA
391 CTTTTCCTTTTTCACCTTCTCAACTTCCATATTTTAAACGTCAACATCGAGACTCA
9673555 AGCACATTTT
Statistics
Matches: 428, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
484 428 1.00
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (484 bp):
CTTCCATTGTTCCTCTCTTGCCTCAAGCTGCTCAATCCGTAGCTCACAGCCATGTAGTGCTGCTT
CCAACTCTCCAATGTTGTGCTTCATTTTCTCGATCTTGTCCAAGCTTGCCTTTAACTCGATCGCA
GAGTTACGACTTCGGTAATGATGAAGAGATCGTCCAAGCTCTATCACCTTAACTTTTAGCCATTG
ATTTTCTTTTTCTAGGGTCTAATTACGCGACTGCATCTCTTGGAACTTCTTCTCCCAATATTCGA
CCTTAGCTCTTTCCTCTTGAATCTCATGCTGCCACTGCTCTGAAGACCTCCCTAATCCGACCCTT
TTCAATGTTACCTGGGCCTTCTTATAATGCGTCTTTAAGTTATCTCGATCTTCCTCGACCTTTCT
CTTTTCCTTTTTCACCTTCTCAACTTCCATATTTTAAACGTCAACATCGAGACTCACAGCCCTGT
AGTGCTGCTTCCAACTCTCCAATGTTGTA
Found at i:9676795 original size:14 final size:14
Alignment explanation
Indices: 9676773--9676863 Score: 62
Period size: 14 Copynumber: 6.2 Consensus size: 14
9676763 ATAAATCATG
9676773 TGATAAAAATATATA
1 TGAT-AAAATATATA
*
9676788 TGATAAAATGTATA
1 TGATAAAATATATA
* *
9676802 TAATATAATATATA
1 TGATAAAATATATA
9676816 T-A-AAAATATCATAA
1 TGATAAAATAT-AT-A
*
9676830 GGAGTAAAATATAATA
1 TGA-TAAAATAT-ATA
9676846 TGTAATAAAATA-ATA
1 TG--ATAAAATATATA
9676861 TGA
1 TGA
9676864 AAACAAATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
12 6 0.10
13 4 0.07
14 22 0.36
15 10 0.16
16 2 0.03
17 16 0.26
18 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.33
Consensus pattern (14 bp):
TGATAAAATATATA
Found at i:9676854 original size:17 final size:16
Alignment explanation
Indices: 9676790--9676857 Score: 55
Period size: 17 Copynumber: 4.1 Consensus size: 16
9676780 AATATATATG
* *
9676790 ATAAAATGTATATAAT
1 ATAATATGTATAAAAT
*
9676806 ATAATATATATAAAAAT
1 ATAATATGTAT-AAAAT
* * *
9676823 ATCATAAGGAGTAAAAT
1 ATAATATGTA-TAAAAT
9676840 ATAATATGTAATAAAAT
1 ATAATATGT-ATAAAAT
9676857 A
1 A
9676858 ATATGAAAAC
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
16 9 0.23
17 28 0.72
18 2 0.05
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.32
Consensus pattern (16 bp):
ATAATATGTATAAAAT
Found at i:9677085 original size:8 final size:8
Alignment explanation
Indices: 9677072--9677104 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
9677062 TGCCATATAA
9677072 AATAATAT
1 AATAATAT
9677080 AATAATAT
1 AATAATAT
9677088 -ATAATAT
1 AATAATAT
*
9677095 AATAAAAT
1 AATAATAT
9677103 AA
1 AA
9677105 ATGTATTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATAATAT
Found at i:9677089 original size:20 final size:20
Alignment explanation
Indices: 9677066--9677104 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9677056 TATATATGCC
*
9677066 ATATAAAATAATATAATAAT
1 ATATAAAATAATAAAATAAT
*
9677086 ATATAATATAATAAAATAA
1 ATATAAAATAATAAAATAA
9677105 ATGTATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATAAAATAATAAAATAAT
Found at i:9677637 original size:13 final size:13
Alignment explanation
Indices: 9677619--9677643 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9677609 AAAAAAAAAC
9677619 TTTAAACATTCAT
1 TTTAAACATTCAT
9677632 TTTAAACATTCA
1 TTTAAACATTCA
9677644 ACAGAAAAAA
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAACATTCAT
Found at i:9685679 original size:26 final size:26
Alignment explanation
Indices: 9685649--9685701 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
9685639 AACTTTACCT
9685649 TTACCCTTTATTTTGCTCAGCTGTCC
1 TTACCCTTTATTTTGCTCAGCTGTCC
*
9685675 TTACCCTTTATTTTGCTCAGCTTTCC
1 TTACCCTTTATTTTGCTCAGCTGTCC
9685701 T
1 T
9685702 GCCTTCCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.11, C:0.30, G:0.09, T:0.49
Consensus pattern (26 bp):
TTACCCTTTATTTTGCTCAGCTGTCC
Found at i:9686066 original size:15 final size:15
Alignment explanation
Indices: 9686046--9686130 Score: 64
Period size: 16 Copynumber: 5.5 Consensus size: 15
9686036 TTATTCCTTA
9686046 TTCTGCTTTTGGTTT
1 TTCTGCTTTTGGTTT
*
9686061 TTCTGCTATTGTGTTT
1 TTCTGCTTTTG-GTTT
* * *
9686077 AT-GGTTTTTGTGGTTT
1 TTCTG-CTTT-TGGTTT
**
9686093 TTCTTATTTTGGTTT
1 TTCTGCTTTTGGTTT
*
9686108 TTCTGCTATTGGGTTT
1 TTCTGCT-TTTGGTTT
9686124 TTCTGCT
1 TTCTGCT
9686131 ATTGTGTTTA
Statistics
Matches: 53, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
15 22 0.42
16 29 0.55
17 2 0.04
ACGTcount: A:0.05, C:0.11, G:0.21, T:0.64
Consensus pattern (15 bp):
TTCTGCTTTTGGTTT
Found at i:9686091 original size:32 final size:31
Alignment explanation
Indices: 9686055--9686226 Score: 131
Period size: 32 Copynumber: 5.5 Consensus size: 31
9686045 ATTCTGCTTT
*
9686055 TGGTTTTTCTGCTATTGTGTTTATGGTTTTTG
1 TGGTTTTTCT-CTATTGTGTTTATAGTTTTTG
* * * * *
9686087 TGGTTTTTCT-TATTTTGGTTTTTCTGCTATTG
1 TGGTTTTTCTCTATTGT-GTTTAT-AGTTTTTG
9686119 -GGTTTTTCTGCTATTGTGTTTATAGTTTTTG
1 TGGTTTTTCT-CTATTGTGTTTATAGTTTTTG
* **
9686150 TGGTTTTTCT-TATTCTGGTTT-TTCTTCTATTG
1 TGGTTTTTCTCTATTGT-GTTTATAGTT-T-TTG
*
9686182 -GGGTTTTCTACTATTGTGTTTATAGTTTTTG
1 TGGTTTTTCT-CTATTGTGTTTATAGTTTTTG
*
9686213 TGGGTTTTCT-TATT
1 TGGTTTTTCTCTATT
9686227 CTGGTTTTTC
Statistics
Matches: 111, Mismatches: 17, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
30 17 0.15
31 35 0.32
32 46 0.41
33 13 0.12
ACGTcount: A:0.08, C:0.08, G:0.21, T:0.63
Consensus pattern (31 bp):
TGGTTTTTCTCTATTGTGTTTATAGTTTTTG
Found at i:9686123 original size:63 final size:63
Alignment explanation
Indices: 9686046--9686244 Score: 328
Period size: 63 Copynumber: 3.2 Consensus size: 63
9686036 TTATTCCTTA
* * *
9686046 TTCTGCT-TTTGGTTTTTCTGCTATTGTGTTTATGGTTTTTGTGGTTTTTCTTATTTTGGTTT
1 TTCTGCTATTGGGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTT
9686108 TTCTGCTATTGGGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTT
1 TTCTGCTATTGGGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTT
* * * *
9686171 TTCTTCTATTGGGGTTTTCTACTATTGTGTTTATAGTTTTTGTGGGTTTTCTTATTCTGGTTT
1 TTCTGCTATTGGGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTT
9686234 TTCTGCTATTG
1 TTCTGCTATTG
9686245 CAGTCTCTAG
Statistics
Matches: 128, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
62 7 0.05
63 121 0.95
ACGTcount: A:0.08, C:0.10, G:0.21, T:0.62
Consensus pattern (63 bp):
TTCTGCTATTGGGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTT
Found at i:9686168 original size:15 final size:15
Alignment explanation
Indices: 9686084--9686237 Score: 91
Period size: 15 Copynumber: 9.9 Consensus size: 15
9686074 TTTATGGTTT
9686084 TTGTGGTTTTTCTTA
1 TTGTGGTTTTTCTTA
*
9686099 TTTTGGTTTTTCTGCTA
1 TTGTGGTTTTTCT--TA
9686116 TTG-GGTTTTTCTGCTA
1 TTGTGGTTTTTCT--TA
** *
9686132 TTGT-GTTTATAGTTT
1 TTGTGGTTT-TTCTTA
9686147 TTGTGGTTTTTCTTA
1 TTGTGGTTTTTCTTA
*
9686162 TTCTGGTTTTTCTTCTA
1 TTGTGGTTTTTC-T-TA
*
9686179 TTG-GGGTTTTCTACTA
1 TTGTGGTTTTTCT--TA
** *
9686195 TTGT-GTTTATAGTTT
1 TTGTGGTTT-TTCTTA
*
9686210 TTGTGGGTTTTCTTA
1 TTGTGGTTTTTCTTA
*
9686225 TTCTGGTTTTTCT
1 TTGTGGTTTTTCT
9686238 GCTATTGCAG
Statistics
Matches: 107, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
15 51 0.48
16 44 0.41
17 12 0.11
ACGTcount: A:0.08, C:0.09, G:0.20, T:0.63
Consensus pattern (15 bp):
TTGTGGTTTTTCTTA
Done.