Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 48 of 117
Found at i:8864696 original size:31 final size:31
Alignment explanation
Indices: 8864653--8864725 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
8864643 GGAGTTTTGA
*
8864653 TTTAAGGGTTTGGATTTTAA-AGATTTTGGAT
1 TTTAGGGGTTTGGA-TTTAAGAGATTTTGGAT
*
8864684 TTTAGGGGTTTGGATTTAAGGGATTTTGGAT
1 TTTAGGGGTTTGGATTTAAGAGATTTTGGAT
8864715 TTTAGGGGTTT
1 TTTAGGGGTTT
8864726 AAGTTTAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
30 5 0.13
31 34 0.87
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.48
Consensus pattern (31 bp):
TTTAGGGGTTTGGATTTAAGAGATTTTGGAT
Found at i:8864697 original size:15 final size:15
Alignment explanation
Indices: 8864653--8864725 Score: 74
Period size: 16 Copynumber: 4.7 Consensus size: 15
8864643 GGAGTTTTGA
*
8864653 TTTAAGGGTTTGGAT
1 TTTAGGGGTTTGGAT
* **
8864668 TTTAAAGATTTTGGAT
1 TTT-AGGGGTTTGGAT
8864684 TTTAGGGGTTTGGAT
1 TTTAGGGGTTTGGAT
* *
8864699 TTAAGGGATTTTGGAT
1 TTTAGGG-GTTTGGAT
8864715 TTTAGGGGTTT
1 TTTAGGGGTTT
8864726 AAGTTTAGGG
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
15 21 0.45
16 26 0.55
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.48
Consensus pattern (15 bp):
TTTAGGGGTTTGGAT
Found at i:8864721 original size:16 final size:16
Alignment explanation
Indices: 8864661--8864721 Score: 79
Period size: 16 Copynumber: 3.9 Consensus size: 16
8864651 GATTTAAGGG
**
8864661 TTTGGATTTTAAAGAT
1 TTTGGATTTTAGGGAT
*
8864677 TTTGGATTTTAGGG-G
1 TTTGGATTTTAGGGAT
*
8864692 TTTGGATTTAAGGGAT
1 TTTGGATTTTAGGGAT
8864708 TTTGGATTTTAGGG
1 TTTGGATTTTAGGG
8864722 GTTTAAGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
15 13 0.34
16 25 0.66
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (16 bp):
TTTGGATTTTAGGGAT
Found at i:8866322 original size:21 final size:23
Alignment explanation
Indices: 8866298--8866339 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
8866288 TAATTATTTT
8866298 ATTTTATT-TT-TTATTAAAAAA
1 ATTTTATTATTATTATTAAAAAA
8866319 ATTTTATTATTATTATTAAAA
1 ATTTTATTATTATTATTAAAA
8866340 TTAAAACAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 2 0.11
23 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTTATTATTATTATTAAAAAA
Found at i:8866331 original size:27 final size:27
Alignment explanation
Indices: 8866267--8866332 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
8866257 TATGTTTTTT
* * **
8866267 TTTTGTTTTTTTTTTTATTAATAATTA
1 TTTTATTTTATTTTTTATTAATAAAAA
8866294 TTTTATTTTATTTTTTATTAA-AAAAA
1 TTTTATTTTATTTTTTATTAATAAAAA
8866320 TTTTATTATTATT
1 TTTTATT-TTATT
8866333 ATTAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 10 0.29
27 24 0.71
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (27 bp):
TTTTATTTTATTTTTTATTAATAAAAA
Found at i:8868345 original size:26 final size:26
Alignment explanation
Indices: 8868286--8868340 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
8868276 AGATATTGAT
* *
8868286 TTCAATTTAAATAATTATCCAAAATA
1 TTCAATTTAAATAATTATCAAAAAAA
*
8868312 TTCAATTTAAATAATTTATTAAAAAAA
1 TTCAATTTAAATAA-TTATCAAAAAAA
8868339 TT
1 TT
8868341 TATTTGGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (26 bp):
TTCAATTTAAATAATTATCAAAAAAA
Found at i:8868667 original size:2 final size:2
Alignment explanation
Indices: 8868660--8868690 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8868650 AATCAAAGAA
8868660 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8868691 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8868914 original size:2 final size:2
Alignment explanation
Indices: 8868907--8868958 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
8868897 TCCCTCTTCT
* *
8868907 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8868949 TA -A TA TA TA T
1 TA TA TA TA TA T
8868959 GACGAAAGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8869351 original size:2 final size:2
Alignment explanation
Indices: 8869338--8869367 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8869328 CCTTCCTTAC
*
8869338 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8869368 TTACAGGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8870202 original size:24 final size:24
Alignment explanation
Indices: 8870170--8870219 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
8870160 TATATTAACC
8870170 ATAATAAAACAAATATATATATAT
1 ATAATAAAACAAATATATATATAT
8870194 ATAATAAAACAAATATATATATAT
1 ATAATAAAACAAATATATATATAT
8870218 AT
1 AT
8870220 GAGTTGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (24 bp):
ATAATAAAACAAATATATATATAT
Found at i:8871738 original size:9 final size:10
Alignment explanation
Indices: 8871712--8871740 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
8871702 ATCAAGCTTT
8871712 TATATTTTAA
1 TATATTTTAA
8871722 TATATTTTAA
1 TATATTTTAA
8871732 T-TATTTTAA
1 TATATTTTAA
8871741 CTAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TATATTTTAA
Found at i:8872674 original size:12 final size:12
Alignment explanation
Indices: 8872657--8872685 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
8872647 GCGACCGACA
8872657 AGCCGCGCTGGC
1 AGCCGCGCTGGC
8872669 AGCCGCGCTGGC
1 AGCCGCGCTGGC
8872681 AGCCG
1 AGCCG
8872686 TGCCTGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.41, G:0.41, T:0.07
Consensus pattern (12 bp):
AGCCGCGCTGGC
Found at i:8875137 original size:2 final size:2
Alignment explanation
Indices: 8875130--8875157 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8875120 TGTTGTAATA
8875130 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8875158 TAGAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8875624 original size:26 final size:26
Alignment explanation
Indices: 8875565--8875619 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
8875555 AGATATTGAT
* *
8875565 TTCAATTTAAATAATTATCCAAAATA
1 TTCAATTTAAATAATTATCAAAAAAA
*
8875591 TTCAATTTAAATAATTTATTAAAAAAA
1 TTCAATTTAAATAA-TTATCAAAAAAA
8875618 TT
1 TT
8875620 TATTTGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (26 bp):
TTCAATTTAAATAATTATCAAAAAAA
Found at i:8875747 original size:599 final size:599
Alignment explanation
Indices: 8874613--8875762 Score: 1889
Period size: 599 Copynumber: 1.9 Consensus size: 599
8874603 CAAAAACATA
8874613 TTTTTATCACAATTCAAATGTCTCATATTTTCATATAAAGATGTAAGCTCTTATTACTTTAAAAA
1 TTTTTATCACAATTCAAATGTCTCATATTTTCATATAAAGATGTAAGCTCTTATTACTTTAAAAA
* *
8874678 TACATGCTTTCTAGTCAATAATTTATTAACTTATCTAAAAGTATTAAATTTAAATAATCTATTAA
66 TACATGCTTTCTAGTCAACAATTCATTAACTTATCTAAAAGTATTAAATTTAAATAATCTATTAA
* * * * *
8874743 AAGATTTTTAATTTTTGATAGATTTTGATTTGAATTTAAATAATTATCTAAAAATTTTAAATTTA
131 AAGAATTTCAATTGTTGATAGATTTTGATTTAAATTTAAATAATTATCTAAAAATATTAAATTTA
* *
8874808 AATAATTTATTAAATAGAATTATTTCACAGAAAATAAAATTTTATTAAGTATATATATTTGGAAT
196 AATAATTTATTAAATAAAATTATTTCACAAAAAATAAAATTTTATTAAGTATATATATTTGGAAT
* *
8874873 TCCATTAAATTTAAAAAGAAAAGATAAATTATGATTTAATATATTTGAATTCAAATTTTATGCAA
261 GCCATTAAATTTAAAAAGAAAAGATAAATTATGATTTAATATATTTGAATTCAAATCTTATGCAA
8874938 AATTTTCAATCTTAGATAGATATTGATTTCAATTTAAATAATTATCCAAAATATTCAATTTAAAT
326 AATTTTCAATCTTAGATAGATATTGATTTCAATTTAAATAATTATCCAAAATATTCAATTTAAAT
*** * *
8875003 AATTAATTAAAATTTTTTATTTGATAAACAAAAAATATAAATGTTATCCTATATGTCATTAGAAG
391 AATTAATTAAAAAAATTTATTTGATAAACAAAAAATATAAATATTATCCTATATGTCATTAAAAG
* * * * * * *
8875068 ATATTATCCAATTAGGTATCCACATAAGTAATTTTGATTATGTAGTCTTGCATGTTGTAATAATA
456 AGATTATCCAATTAAGCATCCACATAAGCAATTTTGATCATATAATCTTGCATGTTGTAATAATA
8875133 TATATATATATATATATATATATATTAGAATAAAACATTATATTTGTTTGTAAAGCAAAAACATA
521 TATATATATATATATATATATATATTAGAATAAAACATTATATTTGTTTGTAAAGCAAAAACATA
8875198 TTTTTATCTAACTT
586 TTTTTATCTAACTT
*
8875212 TTTTTATCA-ACATTCAAATGTCTCATATTTTCATATAAAGATGTAAGCTTTTATTACTTTAAAA
1 TTTTTATCACA-ATTCAAATGTCTCATATTTTCATATAAAGATGTAAGCTCTTATTACTTTAAAA
*
8875276 ATACATGCTTTCTAGTCAACAATTCATTAACTTATCTACAAGTATTAAATTTAAATAATCTATTA
65 ATACATGCTTTCTAGTCAACAATTCATTAACTTATCTAAAAGTATTAAATTTAAATAATCTATTA
*
8875341 AATA-AATTTCAATTGTTGATCGATTTTGATTTAAATTTAAATAATTATCTAAAAATATTAAATT
130 AA-AGAATTTCAATTGTTGATAGATTTTGATTTAAATTTAAATAATTATCTAAAAATATTAAATT
* *
8875405 TAAATAATTTATTAAATAAAATTATTTGACAAAAAATAAAATTTTATTGAGTATATATATTTGGA
194 TAAATAATTTATTAAATAAAATTATTTCACAAAAAATAAAATTTTATTAAGTATATATATTTGGA
8875470 ACTGCCATTAAATTTAAAAAGAAAAGATAAATTATGATTTAATATATTTGAATTCAAATCTTATG
259 A-TGCCATTAAATTTAAAAAGAAAAGATAAATTATGATTTAATATATTTGAATTCAAATCTTATG
8875535 CAAAAATTTT-AATCTTAGATAGATATTGATTTCAATTTAAATAATTATCCAAAATATTCAATTT
323 C-AAAATTTTCAATCTTAGATAGATATTGATTTCAATTTAAATAATTATCCAAAATATTCAATTT
* * *
8875599 AAATAATTTATTAAAAAAATTTATTTGATAAATAAAAGAATATAAATATTATCCTATGTGTCATT
387 AAATAATTAATTAAAAAAATTTATTTGATAAACAAAA-AATATAAATATTATCCTATATGTCATT
* *
8875664 AAAAGAGATTAT-CTATCTAAGCATCCACATAAGCAATTTTGATCATATAATCTTGTATGTTGTA
451 AAAAGAGATTATCCAAT-TAAGCATCCACATAAGCAATTTTGATCATATAATCTTGCATGTTGTA
8875728 AT-ATA-ATATAATAATATATATATATATATATTAGA
515 ATAATATATAT-AT-ATATATATATATATATATTAGA
8875763 TTTAGAAATT
Statistics
Matches: 510, Mismatches: 33, Indels: 14
0.92 0.06 0.03
Matches are distributed among these distances:
598 1 0.00
599 245 0.48
600 157 0.31
601 107 0.21
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (599 bp):
TTTTTATCACAATTCAAATGTCTCATATTTTCATATAAAGATGTAAGCTCTTATTACTTTAAAAA
TACATGCTTTCTAGTCAACAATTCATTAACTTATCTAAAAGTATTAAATTTAAATAATCTATTAA
AAGAATTTCAATTGTTGATAGATTTTGATTTAAATTTAAATAATTATCTAAAAATATTAAATTTA
AATAATTTATTAAATAAAATTATTTCACAAAAAATAAAATTTTATTAAGTATATATATTTGGAAT
GCCATTAAATTTAAAAAGAAAAGATAAATTATGATTTAATATATTTGAATTCAAATCTTATGCAA
AATTTTCAATCTTAGATAGATATTGATTTCAATTTAAATAATTATCCAAAATATTCAATTTAAAT
AATTAATTAAAAAAATTTATTTGATAAACAAAAAATATAAATATTATCCTATATGTCATTAAAAG
AGATTATCCAATTAAGCATCCACATAAGCAATTTTGATCATATAATCTTGCATGTTGTAATAATA
TATATATATATATATATATATATATTAGAATAAAACATTATATTTGTTTGTAAAGCAAAAACATA
TTTTTATCTAACTT
Found at i:8876180 original size:2 final size:2
Alignment explanation
Indices: 8876173--8876218 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
8876163 TCCCTCTTCT
8876173 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8876215 TA TA
1 TA TA
8876219 AATTTACAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8877231 original size:9 final size:9
Alignment explanation
Indices: 8877204--8877237 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
8877194 AAAAATCTTT
8877204 TTTTATATA
1 TTTTATATA
8877213 TTATTAATATA
1 TT-TT-ATATA
8877224 TTTTATATA
1 TTTTATATA
8877233 TTTTA
1 TTTTA
8877238 AGAAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 12 0.52
10 4 0.17
11 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTATATA
Found at i:8877355 original size:254 final size:257
Alignment explanation
Indices: 8876816--8877587 Score: 1071
Period size: 257 Copynumber: 3.0 Consensus size: 257
8876806 ATAAAAACAA
* *
8876816 AATTCACAATTATAAATAACATTTTTTTCAACCAAATATTTTTTTTTATTATATATTACATGTTC
1 AATTCACAATTATAAATAACATTTTTTTCAACCAAATATTTTTTTTTATTATATGTTACATGTTT
* **
8876881 TTATTATAAC-ATTTTTTCTTATTATAATTTTGAATTTTGTTTTTATATATTACAATTAAAAAT-
66 TTATTATAACAATTTTTTCTTATTATAATTTTGAATTTTGTTTTTATATATTGCACCTAAAAATC
* * * *
8876944 ATTTTTTATATTTTATTAATGTATTTTATATATTTTAAGAAAACAATTTATTATTATCAATAATT
131 TTTTTTTATATATTATTAATATATTTTATATATTTTAAGAAAA-AA-TTATTATTATAAATAATT
* * * * * * ****
8877009 ACTTTATGTGAGTATTTGCTTATTATATGTTACATGTTTTTA-TAGGTGCAATATATAAAAACA-
194 ATTTTATGTGAGTATTTGTTTATTATATGTTAAATGTTCTTATTA--T--AACATTTATTCTCAT
8877072 -A-
255 TAT
*
8877073 AATTCACAATTATAAATAACATTTTTTTCAACCAAA-A-TTTTTTTAATTATATGTTACATGTTT
1 AATTCACAATTATAAATAACATTTTTTTCAACCAAATATTTTTTTTTATTATATGTTACATGTTT
*
8877136 TTATTATAACAATTTTTTCTTATTATAATTTTGAATTTTGTTTTTATATATTGTACCTAAAAATC
66 TTATTATAACAATTTTTTCTTATTATAATTTTGAATTTTGTTTTTATATATTGCACCTAAAAATC
8877201 TTTTTTTATATATTATTAATATATTTTATATATTTTAAG-AAAAATTATTATTATAAATAATTAT
131 TTTTTTTATATATTATTAATATATTTTATATATTTTAAGAAAAAATTATTATTATAAATAATTAT
*
8877265 TTTATGTGAGTATTTGTTTATTATATGTTAAATGTTCTTATTATAACATTTGTTCTCATTAT
196 TTTATGTGAGTATTTGTTTATTATATGTTAAATGTTCTTATTATAACATTTATTCTCATTAT
* *
8877327 AATTCACAATTATGAATAACAATTTTTTCAACCAAATATTTTTTTCTTATTATATGTTACATGTT
1 AATTCACAATTATAAATAACATTTTTTTCAACCAAATATTTTTTT-TTATTATATGTTACATGTT
* *
8877392 TTTATTATAACATTTTTTTCTTATTATAATTTT-AAATTT-TTTTTATATATTGCACCTAAAAAT
65 TTTATTATAACAATTTTTTCTTATTATAATTTTGAATTTTGTTTTTATATATTGCACCTAAAAAT
* * * * *
8877455 CTTTTTCTACATATTATTAATATATTTTATATATTTCAAGAAAAAAATTATCATTATAAATAACT
130 CTTTTTTTATATATTATTAATATATTTTATATATTTTAAG-AAAAAATTATTATTATAAATAATT
* * * * *
8877520 ATTTTATGTGATTATTTGTTTATTATATGTTAGATGTTCTTATTAAAACATTTTTTCTTATTAT
194 ATTTTATGTGAGTATTTGTTTATTATATGTTAAATGTTCTTATTATAACATTTATTCTCATTAT
8877584 AATT
1 AATT
8877588 TCGAATTTTG
Statistics
Matches: 466, Mismatches: 38, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
251 7 0.02
253 2 0.00
254 89 0.19
255 98 0.21
256 64 0.14
257 206 0.44
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (257 bp):
AATTCACAATTATAAATAACATTTTTTTCAACCAAATATTTTTTTTTATTATATGTTACATGTTT
TTATTATAACAATTTTTTCTTATTATAATTTTGAATTTTGTTTTTATATATTGCACCTAAAAATC
TTTTTTTATATATTATTAATATATTTTATATATTTTAAGAAAAAATTATTATTATAAATAATTAT
TTTATGTGAGTATTTGTTTATTATATGTTAAATGTTCTTATTATAACATTTATTCTCATTAT
Found at i:8877433 original size:39 final size:38
Alignment explanation
Indices: 8877364--8877438 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 38
8877354 TCAACCAAAT
*
8877364 ATTTTTTTCTTATTATATGTTACATGTTTTTATTATAAC
1 ATTTTTTTCTTATTATATGTTAAATGTTTTT-TTATAAC
*
8877403 ATTTTTTTCTTATTATAATTTTAAAT-TTTTTTTATA
1 ATTTTTTTCTTATTAT-ATGTTAAATGTTTTTTTATA
8877439 TATTGCACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 5 0.15
39 21 0.64
40 7 0.21
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (38 bp):
ATTTTTTTCTTATTATATGTTAAATGTTTTTTTATAAC
Found at i:8877651 original size:164 final size:164
Alignment explanation
Indices: 8877373--8877698 Score: 446
Period size: 166 Copynumber: 2.0 Consensus size: 164
8877363 TATTTTTTTC
* * *
8877373 TTATTATATGTTACATGTTTTTATTATAACATTTTTTTCTTATTATAATTTTAAATTTTTTTTAT
1 TTATTATATGTTACATGTTCTTATTAAAACATTTTTTTCTTATTATAATTTGAAATTTTTTTTAT
*
8877438 ATATTGCACCTAAAAATCTTTTTCTACATATTATTAATATATTTTATATATTTCAAGAAAAAAAT
66 ATATTACACCTAAAAATCTTTTTCTACATATTATTAATATATTTTATATATTT-AAG-AAAAAAT
* *
8877503 TATCATTATAAATAACT-ATTTTATGTGATTATTTGT
129 TATCATTATAAATAA-TAATTTTATATGAGTATTTGT
* *
8877539 TTATTATATGTTAGATGTTCTTATTAAAACA-TTTTTTCTTATTATAATTTCGAATTTTGTTTTT
1 TTATTATATGTTACATGTTCTTATTAAAACATTTTTTTCTTATTATAATTT-GAAATTT-TTTTT
* * * * *
8877603 ATATGTTATACCTAAAAAT-TTTTT-T-TATATTATTAATATATTTTATATATTTTAGGAAAAAT
64 ATATATTACACCTAAAAATCTTTTTCTACATATTATTAATATATTTTATATATTTAAGAAAAAAT
*
8877665 TATTATTATAAATAATAATTTTATATGAGTATTT
129 TATCATTATAAATAATAATTTTATATGAGTATTT
8877699 TAGAACATTG
Statistics
Matches: 143, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
161 1 0.01
162 35 0.24
163 2 0.01
164 26 0.18
165 20 0.14
166 38 0.27
167 21 0.15
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (164 bp):
TTATTATATGTTACATGTTCTTATTAAAACATTTTTTTCTTATTATAATTTGAAATTTTTTTTAT
ATATTACACCTAAAAATCTTTTTCTACATATTATTAATATATTTTATATATTTAAGAAAAAATTA
TCATTATAAATAATAATTTTATATGAGTATTTGT
Found at i:8886989 original size:20 final size:20
Alignment explanation
Indices: 8886964--8887006 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
8886954 AGAAAAAACG
*
8886964 TTTGGTATTTTT-TTTTTAAT
1 TTTGGT-TTTTTAATTTTAAT
8886984 TTTGGTTTTTTAATTTTAAT
1 TTTGGTTTTTTAATTTTAAT
8887004 TTT
1 TTT
8887007 ATTTTGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.74
Consensus pattern (20 bp):
TTTGGTTTTTTAATTTTAAT
Found at i:8887024 original size:24 final size:25
Alignment explanation
Indices: 8886977--8887053 Score: 84
Period size: 24 Copynumber: 3.0 Consensus size: 25
8886967 GGTATTTTTT
*
8886977 TTTTAATTTTGGTTTTTTAATTTTAA
1 TTTT-ATTTTAGTTTTTTAATTTTAA
** *
8887003 TTTTATTTT-GTTTTTTCCTTTTAG
1 TTTTATTTTAGTTTTTTAATTTTAA
*
8887027 TTTTATTTTAGTTTTGTTATTTTTAA
1 TTTTATTTTAGTTTT-TTAATTTTAA
8887053 T
1 T
8887054 AAAAATTACT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
24 21 0.49
25 10 0.23
26 12 0.28
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.73
Consensus pattern (25 bp):
TTTTATTTTAGTTTTTTAATTTTAA
Found at i:8887025 original size:30 final size:31
Alignment explanation
Indices: 8886991--8887049 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
8886981 AATTTTGGTT
8886991 TTTTAATTTTAATTTTA-TTTTGTT-TTTTCC
1 TTTTAATTTT-ATTTTAGTTTTGTTATTTTCC
*
8887021 TTTTAGTTTTATTTTAGTTTTGTTATTTT
1 TTTTAATTTTATTTTAGTTTTGTTATTTT
8887050 TAATAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 6 0.23
30 16 0.62
31 4 0.15
ACGTcount: A:0.15, C:0.03, G:0.07, T:0.75
Consensus pattern (31 bp):
TTTTAATTTTATTTTAGTTTTGTTATTTTCC
Found at i:8890108 original size:23 final size:20
Alignment explanation
Indices: 8890069--8890109 Score: 55
Period size: 23 Copynumber: 1.9 Consensus size: 20
8890059 TCATTGAATA
8890069 AACAAATAAATTAATTAACT
1 AACAAATAAATTAATTAACT
8890089 AACAAACTAAAATATAATTAA
1 AACAAA-T-AAAT-TAATTAA
8890110 ACAAATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 4 0.22
23 7 0.39
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (20 bp):
AACAAATAAATTAATTAACT
Found at i:8894340 original size:21 final size:21
Alignment explanation
Indices: 8894313--8894372 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
8894303 TTGTTTTGTA
*
8894313 AATATATTCATATTTATATTT
1 AATATATTAATATTTATATTT
* ** *
8894334 TATATATTTGTATATATATTT
1 AATATATTAATATTTATATTT
*
8894355 AATA-AATAATATTTATAT
1 AATATATTAATATTTATAT
8894373 ATTTTTAATA
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 10 0.33
21 20 0.67
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
AATATATTAATATTTATATTT
Found at i:8894379 original size:24 final size:25
Alignment explanation
Indices: 8894334--8894391 Score: 82
Period size: 24 Copynumber: 2.3 Consensus size: 25
8894324 ATTTATATTT
8894334 TATATATTTGTATATATATTTAATAAA
1 TATATA-TT-TATATATATTTAATAAA
*
8894361 TA-ATATTTATATATTTTTAATAAA
1 TATATATTTATATATATTTAATAAA
8894385 TATATAT
1 TATATAT
8894392 CTAATTAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 18 0.62
25 6 0.21
26 3 0.10
27 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
TATATATTTATATATATTTAATAAA
Found at i:8894437 original size:16 final size:17
Alignment explanation
Indices: 8894368--8894446 Score: 63
Period size: 17 Copynumber: 4.4 Consensus size: 17
8894358 AAATAATATT
8894368 TATATATTT-TTAATAAA
1 TATATATTTATTAA-AAA
*
8894385 TATATATCTAATTAGAATTAA
1 TATATAT-TTATTA-AA--AA
*
8894406 TATATTTTTATTTAAAAA
1 TATATATTTA-TTAAAAA
*
8894424 TATATATTTATAAAAAA
1 TATATATTTATTAAAAA
8894441 T-TATAT
1 TATATAT
8894447 AAATATGTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
16 5 0.10
17 14 0.27
18 12 0.24
19 4 0.08
20 5 0.10
21 11 0.22
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (17 bp):
TATATATTTATTAAAAA
Found at i:8894440 original size:18 final size:18
Alignment explanation
Indices: 8894404--8894447 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
8894394 AATTAGAATT
* **
8894404 AATATATTTTTATTTAAA
1 AATATATATTTATAAAAA
8894422 AATATATATTTATAAAAA
1 AATATATATTTATAAAAA
*
8894440 ATTATATA
1 AATATATA
8894448 AATATGTAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AATATATATTTATAAAAA
Found at i:8894443 original size:39 final size:35
Alignment explanation
Indices: 8894345--8894447 Score: 82
Period size: 39 Copynumber: 2.7 Consensus size: 35
8894335 ATATATTTGT
*
8894345 ATATATATTTAATAAATAATATTTATATATTTTTAATAA
1 ATATATATTT-ATAAA-AA-A-TTATATATTTTTAAAAA
* * *
8894384 ATATATATCTA-ATTAGAATTAATATATTTTTATTTAAAA
1 ATATATATTTATA-AAAAATT-ATATATTTTTA---AAAA
8894423 ATATATATTTATAAAAAATTATATA
1 ATATATATTTATAAAAAATTATATA
8894448 AATATGTAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
35 2 0.04
36 12 0.24
37 2 0.04
38 7 0.14
39 27 0.53
40 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (35 bp):
ATATATATTTATAAAAAATTATATATTTTTAAAAA
Found at i:8896978 original size:14 final size:14
Alignment explanation
Indices: 8896959--8896986 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8896949 TTTAAGATCC
8896959 AATTTTATTAATAA
1 AATTTTATTAATAA
8896973 AATTTTATTAATAA
1 AATTTTATTAATAA
8896987 TTGGTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTTTATTAATAA
Found at i:8897250 original size:15 final size:15
Alignment explanation
Indices: 8897230--8897324 Score: 57
Period size: 15 Copynumber: 6.1 Consensus size: 15
8897220 TTTAAAGAAA
8897230 TTTGAATTTTAAGAT
1 TTTGAATTTTAAGAT
* *
8897245 TTTGAATTTTAGGCT
1 TTTGAATTTTAAGAT
* *
8897260 TTAGGA-TTTAAGGGAT
1 TTTGAATTTTAA--GAT
* * *
8897276 TTTGGATTTTAGGGGT
1 TTTGAATTTTA-AGAT
* *
8897292 TTTAGAATTCTAGGAT
1 TTT-GAATTTTAAGAT
*
8897308 TTTGAAATTTAAGAT
1 TTTGAATTTTAAGAT
8897323 TT
1 TT
8897325 AGTGTTTAAG
Statistics
Matches: 60, Mismatches: 15, Indels: 10
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.07
15 28 0.47
16 18 0.30
17 10 0.17
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.48
Consensus pattern (15 bp):
TTTGAATTTTAAGAT
Found at i:8898591 original size:31 final size:33
Alignment explanation
Indices: 8898550--8898628 Score: 99
Period size: 31 Copynumber: 2.4 Consensus size: 33
8898540 TGTTTTTAAT
* *
8898550 TATTTATTTAATTTTATAATTAT-TTATATAT-A
1 TATTT-TTTAATTTTATAATTATATTAAAAATAA
*
8898582 TATTTTTTAATTTTATATTTATATTAAAAATAA
1 TATTTTTTAATTTTATAATTATATTAAAAATAA
8898615 TATTTTATTAATTT
1 TATTTT-TTAATTT
8898629 CAGGTCGGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
31 16 0.39
32 11 0.27
33 7 0.17
34 7 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (33 bp):
TATTTTTTAATTTTATAATTATATTAAAAATAA
Found at i:8898757 original size:6 final size:6
Alignment explanation
Indices: 8898742--8898780 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
8898732 GGGAGGACTG
*
8898742 TTTGTC TTTGTT TTTGTT TTTGTT TTTGTGT TTCTGTT T
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGT-T TT-TGTT T
8898781 AGGTATGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 22 0.73
7 5 0.17
8 3 0.10
ACGTcount: A:0.00, C:0.05, G:0.18, T:0.77
Consensus pattern (6 bp):
TTTGTT
Found at i:8899036 original size:14 final size:14
Alignment explanation
Indices: 8899017--8899044 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8899007 TTTAAGATCT
8899017 AATTTTATTAATAA
1 AATTTTATTAATAA
8899031 AATTTTATTAATAA
1 AATTTTATTAATAA
8899045 TTGGTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTTTATTAATAA
Found at i:8899318 original size:15 final size:15
Alignment explanation
Indices: 8899287--8899389 Score: 55
Period size: 16 Copynumber: 6.5 Consensus size: 15
8899277 TTTATAGAAA
**
8899287 TTTGAATTTTAAAGT
1 TTTGAATTTTAGGGT
8899302 TTTGAATTTTAGGGT
1 TTTGAATTTTAGGGT
* * * *
8899317 TTAGGATTTAAAGGAT
1 TTTGAATTT-TAGGGT
* *
8899333 TTTGGATTTTAGGGGG
1 TTTGAATTTTA-GGGT
*
8899349 TTT-AGATTTAAGGGAT
1 TTTGA-ATTTTAGGG-T
*
8899365 TTTGGATTTTAGGGGT
1 TTTGAATTTTA-GGGT
8899381 TTTAGAATT
1 TTT-GAATT
8899390 CTAAGATTTT
Statistics
Matches: 65, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
15 24 0.37
16 34 0.52
17 7 0.11
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (15 bp):
TTTGAATTTTAGGGT
Found at i:8899341 original size:16 final size:16
Alignment explanation
Indices: 8899301--8899383 Score: 69
Period size: 16 Copynumber: 5.2 Consensus size: 16
8899291 AATTTTAAAG
* *
8899301 TTTTGAATTTTAGGG-
1 TTTTGGATTTAAGGGA
* *
8899316 TTTAGGATTTAAAGGA
1 TTTTGGATTTAAGGGA
* *
8899332 TTTTGGATTTTAGGGG
1 TTTTGGATTTAAGGGA
* *
8899348 GTTTAGATTTAAGGGA
1 TTTTGGATTTAAGGGA
* *
8899364 TTTTGGATTTTAGGGG
1 TTTTGGATTTAAGGGA
8899380 TTTT
1 TTTT
8899384 AGAATTCTAA
Statistics
Matches: 51, Mismatches: 16, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
15 11 0.22
16 40 0.78
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (16 bp):
TTTTGGATTTAAGGGA
Found at i:8899365 original size:32 final size:32
Alignment explanation
Indices: 8899294--8899386 Score: 122
Period size: 32 Copynumber: 3.0 Consensus size: 32
8899284 AAATTTGAAT
*
8899294 TTTAAA-G-TTTTGAATTTTA--GGGTTTAGGA
1 TTTAAAGGATTTTGGATTTTAGGGGGTTTA-GA
8899323 TTTAAAGGATTTTGGATTTTAGGGGGTTTAGA
1 TTTAAAGGATTTTGGATTTTAGGGGGTTTAGA
* *
8899355 TTTAAGGGATTTTGGATTTTAGGGGTTTTAGA
1 TTTAAAGGATTTTGGATTTTAGGGGGTTTAGA
8899387 ATTCTAAGAT
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
29 6 0.11
30 1 0.02
31 11 0.19
32 32 0.56
33 7 0.12
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (32 bp):
TTTAAAGGATTTTGGATTTTAGGGGGTTTAGA
Found at i:8899398 original size:32 final size:30
Alignment explanation
Indices: 8899301--8899400 Score: 114
Period size: 32 Copynumber: 3.2 Consensus size: 30
8899291 AATTTTAAAG
*
8899301 TTTTGAATTTTA-GGGTTTAGGATTTAAAGGA
1 TTTTGGATTTTAGGGGTTTA-GATTT-AAGGA
8899332 TTTTGGATTTTAGGGGGTTTAGATTTAAGGGA
1 TTTTGGATTTTA-GGGGTTTAGATTTAA-GGA
8899364 TTTTGGATTTTAGGGGTTTTAGAATTCTAA-GA
1 TTTTGGATTTTAGGGG-TTTAG-ATT-TAAGGA
8899396 TTTTG
1 TTTTG
8899401 AAATTTAAGA
Statistics
Matches: 62, Mismatches: 1, Indels: 11
0.84 0.01 0.15
Matches are distributed among these distances:
31 17 0.27
32 32 0.52
33 10 0.16
34 3 0.05
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (30 bp):
TTTTGGATTTTAGGGGTTTAGATTTAAGGA
Found at i:8900671 original size:20 final size:20
Alignment explanation
Indices: 8900643--8900718 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
8900633 TATATAAATT
*
8900643 TTTTTTAATTATTTATTTAA
1 TTTTATAATTATTTATTTAA
*
8900663 TTTTATAATTATTTATATATA
1 TTTTATAATTATTTATTTA-A
8900684 TTTATATATATATATATT-TTTAA
1 TTT-TATA-AT-TAT-TTATTTAA
*
8900707 TTTTATATTTAT
1 TTTTATAATTAT
8900719 ATTAAAAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
20 20 0.43
21 5 0.11
22 8 0.17
23 6 0.13
24 6 0.13
25 2 0.04
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTATAATTATTTATTTAA
Found at i:8900937 original size:19 final size:20
Alignment explanation
Indices: 8900909--8900948 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8900899 GGGATGACTG
*
8900909 TTTGTCTTTGT-TTTTTGTT
1 TTTGTCTTTGTGTTTCTGTT
*
8900928 TTTGTTTTTGTGTTTCTGTT
1 TTTGTCTTTGTGTTTCTGTT
8900948 T
1 T
8900949 AGGTATGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.00, C:0.05, G:0.17, T:0.78
Consensus pattern (20 bp):
TTTGTCTTTGTGTTTCTGTT
Found at i:8900941 original size:14 final size:13
Alignment explanation
Indices: 8900909--8900948 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
8900899 GGGATGACTG
*
8900909 TTTGTCTTTGTTT
1 TTTGTTTTTGTTT
8900922 TTTGTTTTTGTTT
1 TTTGTTTTTGTTT
*
8900935 TTGTGTTTCTGTTT
1 TT-TGTTTTTGTTT
8900949 AGGTATGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.00, C:0.05, G:0.17, T:0.78
Consensus pattern (13 bp):
TTTGTTTTTGTTT
Found at i:8902898 original size:50 final size:50
Alignment explanation
Indices: 8902839--8902935 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
8902829 TTCTTTTTGT
* *
8902839 CATTAATTTGTCACTTATAAATTGATTTGGTCCAATAATTAAAATTTTAG
1 CATTAATTTGTCACTTATAAATTGATTTCGTCCAACAATTAAAATTTTAG
* * *
8902889 CATTTATTTGTCATTTATAAATTGATTTCGTCTAACAATTAAAATTT
1 CATTAATTTGTCACTTATAAATTGATTTCGTCCAACAATTAAAATTT
8902936 CTTGCTAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (50 bp):
CATTAATTTGTCACTTATAAATTGATTTCGTCCAACAATTAAAATTTTAG
Found at i:8903121 original size:82 final size:80
Alignment explanation
Indices: 8903023--8903188 Score: 194
Period size: 82 Copynumber: 2.0 Consensus size: 80
8903013 TTTAAAGTTT
** * **
8903023 TATTACTTTTTATATGAATTTGGTTGAG-TGTGGTTTAAGATAAATAAAAATAAATAAATACATT
1 TATTACTTTTTATATGAATTTAATTAAGAT-TAATTTAAGATAAATAAAAATAAAT---TA-ATT
8903087 TAATTAATTTAATTATTTTG
61 TAATTAATTTAATTATTTTG
*
8903107 TATTA-TTTTT-TATGAATTTAATTAAGATTAATTTAAGGTAAATAAAAATAAATTAATTTAATT
1 TATTACTTTTTATATGAATTTAATTAAGATTAATTTAAGATAAATAAAAATAAATTAATTTAATT
* *
8903170 AATTTAGTTGTTTTG
66 AATTTAATTATTTTG
8903185 TATT
1 TATT
8903189 TTCTTATACC
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 25 0.34
79 2 0.03
82 35 0.48
83 6 0.08
84 5 0.07
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.49
Consensus pattern (80 bp):
TATTACTTTTTATATGAATTTAATTAAGATTAATTTAAGATAAATAAAAATAAATTAATTTAATT
AATTTAATTATTTTG
Found at i:8904177 original size:14 final size:14
Alignment explanation
Indices: 8904158--8904187 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8904148 TAATTAAAAA
*
8904158 TATCATAAATATTT
1 TATCATAAAGATTT
8904172 TATCATAAAGATTT
1 TATCATAAAGATTT
8904186 TA
1 TA
8904188 ATTATTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (14 bp):
TATCATAAAGATTT
Found at i:8906641 original size:18 final size:19
Alignment explanation
Indices: 8906615--8906650 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8906605 TTCTCAAAAA
*
8906615 TATATTTTC-AAAAAATGT
1 TATAATTTCTAAAAAATGT
8906633 TATAATTTCTAAAAAATG
1 TATAATTTCTAAAAAATG
8906651 ACTTCTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (19 bp):
TATAATTTCTAAAAAATGT
Found at i:8906668 original size:46 final size:46
Alignment explanation
Indices: 8906616--8906709 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
8906606 TCTCAAAAAT
* *
8906616 ATATTTTCAAAAAATGTTATAATTTCTAAAAAATGACTTCTTGAAA
1 ATATTTTCAAAAAATGTTATAATTTCTAAAAAATAAATTCTTGAAA
** * * * *
8906662 ATATTTTTGAAATATGTTATAATTTTTCAAAAATAAATTTTTGAAA
1 ATATTTTCAAAAAATGTTATAATTTCTAAAAAATAAATTCTTGAAA
8906708 AT
1 AT
8906710 TATTAAATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (46 bp):
ATATTTTCAAAAAATGTTATAATTTCTAAAAAATAAATTCTTGAAA
Found at i:8908016 original size:17 final size:17
Alignment explanation
Indices: 8907994--8908027 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8907984 TTATTAATAA
* *
8907994 AATTTTATTTTTTATTT
1 AATTTTAATTTTAATTT
8908011 AATTTTAATTTTAATTT
1 AATTTTAATTTTAATTT
8908028 TTTAATATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
AATTTTAATTTTAATTT
Found at i:8921553 original size:15 final size:17
Alignment explanation
Indices: 8921532--8921570 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
8921522 AATTATGAAT
*
8921532 TATTTTATTTTAAA-AA
1 TATTTTATTATAAATAA
8921548 -ATTTTATTATAAATAA
1 TATTTTATTATAAATAA
8921564 TATTTTA
1 TATTTTA
8921571 ATTAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 12 0.60
16 2 0.10
17 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTTTATTATAAATAA
Found at i:8924969 original size:18 final size:19
Alignment explanation
Indices: 8924932--8924969 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
8924922 TATTATTGAA
* *
8924932 AAAATCAATTATTTATTAT
1 AAAATCAATTAATTAATAT
8924951 AAAAT-AATTAATTAATAT
1 AAAATCAATTAATTAATAT
8924969 A
1 A
8924970 TTAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATCAATTAATTAATAT
Found at i:8924971 original size:23 final size:23
Alignment explanation
Indices: 8924920--8924972 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
8924910 ATTACATAAT
8924920 TATATTATTGAAAAAATCAATTA
1 TATATTATTGAAAAAATCAATTA
* *
8924943 TTTATTA-T-AAAATAATTAATTAA
1 TATATTATTGAAAA-AATCAATT-A
8924966 TATATTA
1 TATATTA
8924973 AAATAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 4 0.16
22 8 0.32
23 13 0.52
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
TATATTATTGAAAAAATCAATTA
Found at i:8926190 original size:12 final size:13
Alignment explanation
Indices: 8926148--8926190 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
8926138 TTTTACATGC
8926148 ATAAATAATAATA
1 ATAAATAATAATA
*
8926161 A-CAATAATAATA
1 ATAAATAATAATA
8926173 ATTAAATAAT-ATA
1 A-TAAATAATAATA
8926186 ATAAA
1 ATAAA
8926191 AAATTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 15 0.58
13 5 0.19
14 6 0.23
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAAATAATAATA
Found at i:8927606 original size:197 final size:197
Alignment explanation
Indices: 8927247--8928026 Score: 866
Period size: 197 Copynumber: 3.9 Consensus size: 197
8927237 GCAACATTTT
* * * * *
8927247 AAAAGG-TTCCTCTAAGCAGAGGTTCAACAACTTTAAAA--TTCTCT-TGAAAAAGCTCATCTTA
1 AAAAGGCTT-CTCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTAT-AAAAAGCTTATCTCA
* * * ** * * * *
8927308 GCAGAGGCTCAACAACTTAAAAAAAAATCTCTCATATTGGAAAAGCTCATTTCAGTAGAGTCTTG
64 GCAGAGGCTCGACAACTT---TAAAAAT-T-TCAT-CTAAAAAAGCTCCTCTCAGCAGAGGCTTG
* * ** *
8927373 ATAATTTTAAAAATTTTCATCTTG-AAAGAGCTCCTCTCAGCAGAGGCTTGAGAATTTTAAAAAT
123 ACAACTTTAAAAATTTT-ATCTTGAAAAGAGCTCCTCTCAGCAGAGGCTCAATAATTTTAAAAAT
*
8927437 TCTCATCTTGA
187 TTTCATCTTGA
* * * *
8927448 AAAGGGCTTCTTTCAGCAGAGGCTCAACAATTTTAAAATTTTATCTATAAAAAGCTTTTCTCAGC
1 AAAAGGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTATAAAAAGCTTATCTCAGC
* *
8927513 AGAGGCTCGACAACTTTAAAAATCTCATCTAAAAAAGCTCCTCTCAGCAGAGGTTTGACAACTTT
66 AGAGGCTCGACAACTTTAAAAATTTCATCTAAAAAAGCTCCTCTCAGCAGAGGCTTGACAACTTT
* *
8927578 AAAAATTCTTATCTTGAAAAGA-CTCCTCTCAGTAGAGGCTCAATACTTTTAAAAATTTTCATCT
131 AAAAATT-TTATCTTGAAAAGAGCTCCTCTCAGCAGAGGCTCAATAATTTTAAAAATTTTCATCT
8927642 TGA
195 TGA
* * * *
8927645 AAAAAGC-TCGTCTCAGCAGAGGCTTAACAACTTTAAAATTTTATCTGTAAAAAG-TTCCTCTCA
1 AAAAGGCTTC-TCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTATAAAAAGCTT-ATCTCA
* * *
8927708 GTAGAGGCTCGACAACTTTAAAAATTTCATCTAAAAAAGCTTCTTTCAGCAGAGGCTTGACAACT
64 GCAGAGGCTCGACAACTTTAAAAATTTCATCTAAAAAAGCTCCTCTCAGCAGAGGCTTGACAACT
* * * *
8927773 TTAAAAAATTTTATCTTGAAAAAATGTTCCTCTCAACAGAGGCTCAATAACTTTAAAAATTTTCA
129 TT-AAAAATTTTATCTTGAAAAGA-GCTCCTCTCAGCAGAGGCTCAATAATTTTAAAAATTTTCA
8927838 TCTTGA
192 TCTTGA
* * *
8927844 AAAAGGCTTCTCTCA-CAGAGGCTCAACAACTTTAAAATTTCATTTGA-AAAAAGCTTATCTCAA
1 AAAAGGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCT-ATAAAAAGCTTATCTCAG
** * * *
8927907 CAGAGGCTTAACAACTTT-AAAATTTCATCTACAAAAAGCTCCTCTCAGCATAGGCTCGATAACT
65 CAGAGGCTCGACAACTTTAAAAATTTCATCTA-AAAAAGCTCCTCTCAGCAGAGGCTTGACAACT
* * * *
8927971 TTAAAAATTTTATC-TGAAAA-AGCTCCTCTTAGCAAAGGCTCAACAACTTTAAAAAT
129 TTAAAAATTTTATCTTGAAAAGAGCTCCTCTCAGCAGAGGCTCAATAATTTTAAAAAT
8928027 CTCATATGAA
Statistics
Matches: 498, Mismatches: 66, Indels: 37
0.83 0.11 0.06
Matches are distributed among these distances:
194 30 0.06
195 1 0.00
196 10 0.02
197 229 0.46
198 100 0.20
199 53 0.11
200 8 0.02
201 30 0.06
202 2 0.00
203 34 0.07
204 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (197 bp):
AAAAGGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTATAAAAAGCTTATCTCAGC
AGAGGCTCGACAACTTTAAAAATTTCATCTAAAAAAGCTCCTCTCAGCAGAGGCTTGACAACTTT
AAAAATTTTATCTTGAAAAGAGCTCCTCTCAGCAGAGGCTCAATAATTTTAAAAATTTTCATCTT
GA
Found at i:8927952 original size:246 final size:246
Alignment explanation
Indices: 8927377--8928040 Score: 749
Period size: 246 Copynumber: 2.7 Consensus size: 246
8927367 GTCTTGATAA
* * * * * *
8927377 TTTTAAAAATTTTCATCTTG-AAAGAGCTCCTCTCAGCAGAGGCTTGAGAATTTTAAAAATTCTC
1 TTTTAAAAATTTTCATCTTGAAAAAAGCTCATCTCAACAGAGGCTTAACAACTTT-AAAATT-TC
** * * * * *
8927441 ATCTTGAAAAGGGCTTCTTTCAGCAGAGGCTCAACAA-TTTTAAAATTTTATCTATAAAAAGCTT
64 ATCTACAAAA-AGCTCCTCTCAGCAGAGGCTCGACAACTTTAAAAATTTTATCTA-AAAAAGCTT
* *
8927505 -TTCTCAGCAGAGGCTCGACAACTTT-AAAAATCTCATCTAAAAAAGCTCCTCTCAGCAGAGGTT
127 CTT-TCAGCAGAGGCTCGACAACTTTAAAAAATCTCATCTAAAAAAGCTCCTCTCAACAGAGGCT
** * *
8927568 TGACAACTTTAAAAATTCTTATCTTGAAAAGACTCCTCTCAGTAGAGGCTCAATAC
191 CAACAACTTTAAAAATTCTTATCTTGAAAAGACTCCTCTCAGCAGAGGCTCAAAAC
* * *
8927624 TTTTAAAAATTTTCATCTTGAAAAAAGCTCGTCTCAGCAGAGGCTTAACAACTTTAAAATTTTAT
1 TTTTAAAAATTTTCATCTTGAAAAAAGCTCATCTCAACAGAGGCTTAACAACTTTAAAATTTCAT
** * * *
8927689 CTGTAAAAAGTTCCTCTCAGTAGAGGCTCGACAACTTTAAAAATTTCATCTAAAAAAGCTTCTTT
66 CTACAAAAAGCTCCTCTCAGCAGAGGCTCGACAACTTTAAAAATTTTATCTAAAAAAGCTTCTTT
* * * *
8927754 CAGCAGAGGCTTGACAACTTTAAAAAATTTTATCTTGAAAAAATGTTCCTCTCAACAGAGGCTCA
131 CAGCAGAGGCTCGACAACTTTAAAAAATCTCATC-T-AAAAAA-GCTCCTCTCAACAGAGGCTCA
* * *
8927819 ATAACTTTAAAAATT-TTCATCTTGAAAAAGGCTTCTCTCA-CAGAGGCTCAACAAC
193 ACAACTTTAAAAATTCTT-ATCTTG-AAAAGACTCCTCTCAGCAGAGGCTCAA-AAC
*
8927874 -TTT-AAAA-TTTCAT-TTGAAAAAAGCTTATCTCAACAGAGGCTTAACAACTTTAAAATTTCAT
1 TTTTAAAAATTTTCATCTTGAAAAAAGCTCATCTCAACAGAGGCTTAACAACTTTAAAATTTCAT
* * * *
8927935 CTACAAAAAGCTCCTCTCAGCATAGGCTCGATAACTTTAAAAATTTTATCTGAAAAAGCTCCTCT
66 CTACAAAAAGCTCCTCTCAGCAGAGGCTCGACAACTTTAAAAATTTTATCTAAAAAAGCTTCT-T
* * *
8928000 T-AGCAAAGGCTCAACAACTTT-AAAAATCTCATATGAAAAAA
130 TCAGCAGAGGCTCGACAACTTTAAAAAATCTCATCT-AAAAAA
8928041 AAAGCTCCAA
Statistics
Matches: 358, Mismatches: 48, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
244 8 0.02
245 59 0.16
246 151 0.42
247 35 0.10
248 41 0.11
249 49 0.14
250 15 0.04
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.31
Consensus pattern (246 bp):
TTTTAAAAATTTTCATCTTGAAAAAAGCTCATCTCAACAGAGGCTTAACAACTTTAAAATTTCAT
CTACAAAAAGCTCCTCTCAGCAGAGGCTCGACAACTTTAAAAATTTTATCTAAAAAAGCTTCTTT
CAGCAGAGGCTCGACAACTTTAAAAAATCTCATCTAAAAAAGCTCCTCTCAACAGAGGCTCAACA
ACTTTAAAAATTCTTATCTTGAAAAGACTCCTCTCAGCAGAGGCTCAAAAC
Found at i:8928037 original size:48 final size:48
Alignment explanation
Indices: 8927254--8928039 Score: 595
Period size: 48 Copynumber: 16.0 Consensus size: 48
8927244 TTTAAAAGGT
* *
8927254 TCCTCTAAGCAGAGGTTCAACAACTTT-AAAA-TTC-TCTTGAAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCAT-TTGAAAAAGC
* * * *
8927300 TCATCTTAGCAGAGGCTCAACAACTTAAAAAAAAATCTCTCATATTGGAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTT---TAAAAAT-T-TCAT-TTGAAAAAGC
* * * * ** * * *
8927354 TCATTTCAGTAGAGTCTTGATAATTTTAAAAATTTTCATCTTGAAAGAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAAA-TTTCAT-TTGAAAAAGC
** * * *
8927404 TCCTCTCAGCAGAGGCTTGAGAATTTTAAAAATTCTCATCTTGAAAAGGGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAAATT-TCAT-TTGAAAA-AGC
* * * *
8927455 TTCTTTCAGCAGAGGCTCAACAA-TTTTAAAATTTTATCTAT-AAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCAT-T-TGAAAAAGC
** * * * *
8927503 TTTTCTCAGCAGAGGCTCGACAACTTTAAAAATCTCATCTAAAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCATTTGAAAAAGC
* ** *
8927551 TCCTCTCAGCAGAGGTTTGACAACTTTAAAAATTCTTATCTTG-AAAAGAC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAAATT-TCAT-TTGAAAAAG-C
* *
8927601 TCCTCTCAGTAGAGGCTCAA-TACTTTTAAAAATTTTCATCTTGAAAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAAC-TTTAAAAA-TTTCAT-TTG-AAAAAGC
* * * * *
8927652 TCGTCTCAGCAGAGGCTTAACAACTTT-AAAATTTTATCTGTAAAAAGT
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCATTTG-AAAAAGC
* * * *
8927700 TCCTCTCAGTAGAGGCTCGACAACTTTAAAAATTTCATCTAAAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCATTTGAAAAAGC
* * ** * *
8927748 TTCTTTCAGCAGAGGCTTGACAACTTTAAAAAATTTTATCTTGAAAAAATGT
1 TCCTCTCAGCAGAGGCTCAACAACTTT-AAAAATTTCAT-TTG-AAAAA-GC
* *
8927800 TCCTCTCAACAGAGGCTCAATAACTTTAAAAATTTTCATCTTGAAAAAGGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAAA-TTTCAT-TTGAAAAA-GC
*
8927851 TTCTCTCA-CAGAGGCTCAACAACTTT-AAAATTTCATTTGAAAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCATTTG-AAAAAGC
** * * **
8927898 TTATCTCAACAGAGGCTTAACAACTTT-AAAATTTCATCTACAAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCAT-TTGAAAAAGC
* * * * *
8927946 TCCTCTCAGCATAGGCTCGATAACTTTAAAAATTTTATCTGAAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCATTTGAAAAAGC
* * * *
8927994 TCCTCTTAGCAAAGGCTCAACAACTTTAAAAATCTCATATGAAAAA
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCATTTGAAAAA
8928040 AAAAGCTCCA
Statistics
Matches: 598, Mismatches: 110, Indels: 62
0.78 0.14 0.08
Matches are distributed among these distances:
46 23 0.04
47 13 0.02
48 229 0.38
49 72 0.12
50 119 0.20
51 72 0.12
52 40 0.07
53 2 0.00
54 28 0.05
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (48 bp):
TCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCATTTGAAAAAGC
Found at i:8941070 original size:137 final size:134
Alignment explanation
Indices: 8940820--8941097 Score: 432
Period size: 136 Copynumber: 2.1 Consensus size: 134
8940810 GTATTCTAAC
** *
8940820 TTTATTTTTTTATTTTTTTGTAGGTGTATTTTTTTTATGCTGGGTTTCATGTTCCAGGGGATGTT
1 TTTATTTTTTTATTTTTTTACAGGTGTATTTTTTTTATGCTGGGTTCCATGTTCCAGGGGATGTT
8940885 TCTGCCTTTTTTGTTTCTATAAAATGGTTTTTTTGACAAAAAGCTTTTTTTTTTATATAAAATTT
66 TCTGCCTTTTTTGTTTCTATAAAATGGTTTTTTTGACAAAAAGC-TTTTTTTTTATA-AAAATTT
8940950 TTGTAG
129 TTGTAG
* *
8940956 TTTATTTTTTTATTTTTTTACAGGTGTATTTTTTTTGTGCTGGGTTCCATGTTCGAGGGGACTGT
1 TTTATTTTTTTATTTTTTTACAGGTGTATTTTTTTTATGCTGGGTTCCATGTTCCAGGGGA-TGT
* * * * *
8941021 TTCTGCCTTTTTTGTTTCTATAAAATGTTTTTTTTTATAGAAAGCTTTTTTTTTATAAAATTTTT
65 TTCTGCCTTTTTTGTTTCTATAAAATGGTTTTTTTGACAAAAAGCTTTTTTTTTATAAAAATTTT
8941086 TGTAG
130 TGTAG
8941091 TTT-TTTT
1 TTTATTTT
8941098 CGATTTCCCC
Statistics
Matches: 131, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
134 4 0.03
135 15 0.11
136 68 0.52
137 44 0.34
ACGTcount: A:0.18, C:0.08, G:0.16, T:0.59
Consensus pattern (134 bp):
TTTATTTTTTTATTTTTTTACAGGTGTATTTTTTTTATGCTGGGTTCCATGTTCCAGGGGATGTT
TCTGCCTTTTTTGTTTCTATAAAATGGTTTTTTTGACAAAAAGCTTTTTTTTTATAAAAATTTTT
GTAG
Found at i:8941086 original size:17 final size:17
Alignment explanation
Indices: 8941028--8941086 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 17
8941018 TGTTTCTGCC
*
8941028 TTTTTTGTTTCTATAAAA
1 TTTTTT-TTTTTATAAAA
*
8941046 TGTTTTTTTTTATAGAAA
1 TTTTTTTTTTTATA-AAA
**
8941064 GCTTTTTTTTTATAAAA
1 TTTTTTTTTTTATAAAA
8941081 TTTTTT
1 TTTTTT
8941087 GTAGTTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 14 0.41
18 20 0.59
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.64
Consensus pattern (17 bp):
TTTTTTTTTTTATAAAA
Found at i:8941901 original size:8 final size:8
Alignment explanation
Indices: 8941890--8941927 Score: 76
Period size: 8 Copynumber: 4.8 Consensus size: 8
8941880 AATCTGTTGA
8941890 TAAAATTT
1 TAAAATTT
8941898 TAAAATTT
1 TAAAATTT
8941906 TAAAATTT
1 TAAAATTT
8941914 TAAAATTT
1 TAAAATTT
8941922 TAAAAT
1 TAAAAT
8941928 GAATAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TAAAATTT
Found at i:8943797 original size:19 final size:18
Alignment explanation
Indices: 8943752--8943798 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
8943742 AAAATATAAA
8943752 TAAAAATATTATATATATT
1 TAAAAATA-TATATATATT
*
8943771 T--AATTATATACTATATT
1 TAAAAATATATA-TATATT
8943788 TAAAAATATAT
1 TAAAAATATAT
8943799 TAAAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
19 8 0.35
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAAAATATATATATATT
Found at i:8945692 original size:10 final size:10
Alignment explanation
Indices: 8945677--8945709 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
8945667 AACTGAAAAC
8945677 AAAGTTTTGA
1 AAAGTTTTGA
8945687 AAAGTTTTGA
1 AAAGTTTTGA
*
8945697 AAATTTTTGA
1 AAAGTTTTGA
8945707 AAA
1 AAA
8945710 CACAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (10 bp):
AAAGTTTTGA
Found at i:8945909 original size:17 final size:17
Alignment explanation
Indices: 8945887--8945920 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8945877 TATATTAATA
8945887 AATAATACAATATTATT
1 AATAATACAATATTATT
8945904 AATAATACAATATTATT
1 AATAATACAATATTATT
8945921 TATTAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAATACAATATTATT
Found at i:8945923 original size:21 final size:20
Alignment explanation
Indices: 8945841--8945949 Score: 78
Period size: 21 Copynumber: 5.1 Consensus size: 20
8945831 AATAATATAT
*
8945841 TAATAAATATTATTATATTTA
1 TAATAAATATTATT-TATTAA
*
8945862 TCACATAAATAATATTATATTAA
1 T-A-ATAAATATTATT-TATTAA
**
8945885 TAA-ATAATACAATATTATTAA
1 TAATA-AATATTAT-TTATTAA
8945906 TAATACAATATTATTTATTAA
1 TAATA-AATATTATTTATTAA
*
8945927 T-ATAAAGATATTATATATTAA
1 TAAT-AA-ATATTATTTATTAA
8945948 TA
1 TA
8945950 GTACATTATT
Statistics
Matches: 72, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
20 4 0.06
21 40 0.56
22 10 0.14
23 18 0.25
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (20 bp):
TAATAAATATTATTTATTAA
Found at i:8945959 original size:21 final size:20
Alignment explanation
Indices: 8945877--8945960 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 20
8945867 TAAATAATAT
* * **
8945877 TATATTAATAAATAATACAA
1 TATATTAATATACAATATTA
8945897 TATTATTAATAATACAATATTA
1 TA-TATTAAT-ATACAATATTA
* *
8945919 TTTATTAATATAAAGATATTA
1 TATATTAATATACA-ATATTA
*
8945940 TATATTAATAGTACATTATTA
1 TATATTAATA-TACAATATTA
8945961 ATAAATAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
20 6 0.12
21 34 0.67
22 11 0.22
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (20 bp):
TATATTAATATACAATATTA
Found at i:8945999 original size:14 final size:13
Alignment explanation
Indices: 8945978--8946293 Score: 98
Period size: 13 Copynumber: 24.2 Consensus size: 13
8945968 ATATCTATTA
8945978 ATATATTATTTAT
1 ATATATTATTTAT
*
8945991 ATCATATTA-ATAT
1 AT-ATATTATTTAT
*
8946004 AATATAATATTTAT
1 -ATATATTATTTAT
8946018 A-ATATT-TATTA-
1 ATATATTAT-TTAT
8946029 ATATATTA-TTA-
1 ATATATTATTTAT
*
8946040 ATATAATATTTATT
1 ATATATTATTTA-T
*
8946054 AACATATTA-TTAT
1 -ATATATTATTTAT
* *
8946067 ATACA-TA-TAAT
1 ATATATTATTTAT
**
8946078 ATTATATTA-AGAT
1 A-TATATTATTTAT
*
8946091 AATATATTATTAAT
1 -ATATATTATTTAT
* *
8946105 AAATAATATTTAT
1 ATATATTATTTAT
8946118 GAATATATTATTTAT
1 --ATATATTATTTAT
*
8946133 ATCATATTA-ATAT
1 AT-ATATTATTTAT
*
8946146 GATATAATA-TTA-
1 -ATATATTATTTAT
8946158 ATATATTATTTAT
1 ATATATTATTTAT
* *
8946171 A-AT-GTATTAAT
1 ATATATTATTTAT
*
8946182 ATATTATTGATTAAT
1 ATA-TATT-ATTTAT
8946197 ATATTATTGATTATAT
1 ATA-TATT-ATT-TAT
* *
8946213 AATATATAATATAT
1 -ATATATTATTTAT
8946227 ATA-ATATATTT-T
1 ATATAT-TATTTAT
8946239 AT-TAATTATTTATT
1 ATAT-ATTATTTA-T
* *
8946253 ATATCAATAAGTTAT
1 ATAT--ATTATTTAT
8946268 -TATATTA-TTA-
1 ATATATTATTTAT
8946278 ATATATTATATTAT
1 ATATATTAT-TTAT
8946292 AT
1 AT
8946294 TAATAATATA
Statistics
Matches: 231, Mismatches: 35, Indels: 73
0.68 0.10 0.22
Matches are distributed among these distances:
11 42 0.18
12 40 0.17
13 58 0.25
14 37 0.16
15 39 0.17
16 12 0.05
17 3 0.01
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (13 bp):
ATATATTATTTAT
Found at i:8946104 original size:11 final size:11
Alignment explanation
Indices: 8945968--8946376 Score: 168
Period size: 11 Copynumber: 36.9 Consensus size: 11
8945958 TTAATAAATA
8945968 ATATCTATTAAT
1 ATAT-TATTAAT
*
8945980 ATATTATTTAT
1 ATATTATTAAT
8945991 ATCA-TATTAAT
1 AT-ATTATTAAT
*
8946002 ATAATA-TAAT
1 ATATTATTAAT
8946012 AT-TTA-TAAT
1 ATATTATTAAT
8946021 AT-TTATTAAT
1 ATATTATTAAT
8946031 ATATTATTAATAT
1 ATATTATT-A-AT
*
8946044 AATATTTATTAAC
1 -ATA-TTATTAAT
8946057 ATATTATTATAT
1 ATATTATTA-AT
* * *
8946069 ACATATAATATT
1 ATAT-TATTAAT
*
8946081 ATATTAAGATAAT
1 ATATT-A-TTAAT
8946094 ATATTATTAAT
1 ATATTATTAAT
8946105 A-A--A-TAAT
1 ATATTATTAAT
*
8946112 AT-TTATGAAT
1 ATATTATTAAT
8946122 ATATTATTTATAT
1 ATATTA-TTA-AT
*
8946135 CATATTAATATGAT
1 -ATATT-AT-TAAT
*
8946149 ATAATATTAAT
1 ATATTATTAAT
*
8946160 ATATTATTTAT
1 ATATTATTAAT
8946171 A-ATGTATTAAT
1 ATAT-TATTAAT
*
8946182 ATATTATTGAT
1 ATATTATTAAT
*
8946193 -TAATA-T-AT
1 ATATTATTAAT
8946201 -TATTGATT-AT
1 ATATT-ATTAAT
*
8946211 ATAATATATAAT
1 ATATTAT-TAAT
8946223 ATA-TA-TAAT
1 ATATTATTAAT
8946232 ATATTTTATTAAT
1 ATA--TTATTAAT
8946245 -TATTTATT-AT
1 ATA-TTATTAAT
* *
8946255 ATCAATAAGTTATT
1 AT--ATTA-TTAAT
8946269 ATATTATTAAT
1 ATATTATTAAT
*
8946280 ATATTA-TATT
1 ATATTATTAAT
*
8946290 ATATTAATAAT
1 ATATTATTAAT
*
8946301 ATATTAATAA-
1 ATATTATTAAT
8946311 ATATTATATGAAT
1 ATATTAT-T-AAT
8946324 A-A--A-TAAT
1 ATATTATTAAT
*
8946331 ATATTATTTAT
1 ATATTATTAAT
* *
8946342 TTATTAATAAAT
1 ATATT-ATTAAT
8946354 ATTATTTATTAAT
1 A-TA-TTATTAAT
*
8946367 ATAATATTAA
1 ATATTATTAA
8946377 AAATAATATA
Statistics
Matches: 311, Mismatches: 37, Indels: 99
0.70 0.08 0.22
Matches are distributed among these distances:
7 9 0.03
8 8 0.03
9 21 0.07
10 49 0.16
11 114 0.37
12 48 0.15
13 38 0.12
14 17 0.05
15 7 0.02
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (11 bp):
ATATTATTAAT
Found at i:8946123 original size:142 final size:140
Alignment explanation
Indices: 8945954--8946317 Score: 408
Period size: 142 Copynumber: 2.6 Consensus size: 140
8945944 TTAATAGTAC
* * *
8945954 ATTATTAATAAATAATATCTATTAATATATTATTTATATCATATTAATATAATATAATATTTATA
1 ATTATTAATAAATAATATTTATCAATATATTATTTATATCATATTAATATAATATAATATTAATA
*
8946019 ATATTTATTAATATATTATTAATATAATATTTATTAACATATTATT-ATATACATATAATATTAT
66 ATATTTATTAATATATTATTAATATAATATTGATTAACATATTATTGAT-T--ATATAATA-TAT
*
8946083 ATTA-AGATAATAT
127 AATATAGATAATAT
* *
8946096 ATTATTAATAAATAATATTTATGAATATATTATTTATATCATATTAATATGATATAATATTAAT-
1 ATTATTAATAAATAATATTTATCAATATATTATTTATATCATATTAATATAATATAATATTAATA
* * *
8946160 ATA-TTATTTATA-ATGTATTAATATATTATTGATTAATATATTATTGATTATATAATATATAAT
66 ATATTTATTAATATAT-TATTAATATAATATTGATTAACATATTATTGATTATATAATATATAAT
*
8946223 ATATATAATAT
130 ATAGATAATAT
* * * *
8946234 ATT-TTATTAATTATTTATTATATCAATA-AGTTA-TTATAT--TATTAATATATTATATTATAT
1 ATTATTAATAAATA-ATATT-TATCAATATA-TTATTTATATCATATTAATATA--ATATAATAT
*
8946294 TAATAATATATTAATAA-ATATTAT
61 TAATAATAT-TTATTAATATATTAT
8946318 ATGAATAAAT
Statistics
Matches: 192, Mismatches: 18, Indels: 26
0.81 0.08 0.11
Matches are distributed among these distances:
136 9 0.05
137 14 0.07
138 42 0.22
139 15 0.08
140 40 0.21
141 12 0.06
142 60 0.31
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (140 bp):
ATTATTAATAAATAATATTTATCAATATATTATTTATATCATATTAATATAATATAATATTAATA
ATATTTATTAATATATTATTAATATAATATTGATTAACATATTATTGATTATATAATATATAATA
TAGATAATAT
Found at i:8946184 original size:60 final size:58
Alignment explanation
Indices: 8945956--8946455 Score: 217
Period size: 62 Copynumber: 8.8 Consensus size: 58
8945946 AATAGTACAT
*
8945956 TATTAATA-AATAATATCTATTAATATATTATTTATATCATATTAATATAATATAATATT-TATA
1 TATTAATATAAT-ATA-ATATTAATATATTATTTATAT--TATTAATAT-AT-T-AT-TTATATA
8946019 A
58 A
* * * * * * * *
8946020 TATTTAT-TAATATATTATTAATATAATATTTATTAACATATTATTATATACATATAATATTA
1 TATTAATATAATATAATATTAATATATTATTTA-T-A-TTATTAATATAT-TAT-TTATATAA
* * * * * *
8946082 TATTAAGATAATATATTATTAATA-AATA-ATAT-TTATGAATATATTATTTATATCA
1 TATTAATATAATATAATATTAATATATTATTTATATTATTAATATATTATTTATATAA
* *
8946137 TATTAATATGATATAATATTAATATATTATTTATAATGTATTAATATATTATTGAT-TAATA
1 TATTAATATAATATAATATTAATATATTATTTAT-AT-TATTAATATATTATTTATAT-A-A
* * * *
8946198 TATTATTGATTATATAATATATAATATA-TATAATATATT-TTATTA-ATTATTTAT-T-A
1 TATTAAT-ATAATATAATAT-TAATATATTAT-TTATATTATTAATATATTATTTATATAA
* * * *
8946254 TATCAATAAGTTATTATATTATTAATATATTATATTATATTAATAATATATTA---ATA-AA
1 TATTAAT-A--TAATATAATATTAATATATTAT-TTATATTATTAATATATTATTTATATAA
*
8946312 TATT-ATATGA-ATAA-A-TAATATATTATTTAT-TTATTAATAAATATTATTTAT-TAA
1 TATTAATATAATATAATATTAATATATTATTTATATTATTAAT--ATATTATTTATATAA
* * *
8946366 TA-TAATAT--TA-AA-AATAATATATTA---ATA-AATAAATAATATTATATT-TATAA
1 TATTAATATAATATAATATTAATATATTATTTATATTATTAAT-ATATTAT-TTATATAA
* *
8946416 -A-TAATATATTATTATATTAA-ATATTA-TTATATTATTAATA
1 TATTAATATAATATAATATTAATATATTATTTATATTATTAATA
8946456 ACAAATGGAG
Statistics
Matches: 344, Mismatches: 50, Indels: 94
0.70 0.10 0.19
Matches are distributed among these distances:
49 23 0.07
50 16 0.05
51 19 0.06
52 11 0.03
53 19 0.06
54 15 0.04
55 32 0.09
56 13 0.04
57 23 0.07
58 22 0.06
59 15 0.04
60 26 0.08
61 14 0.04
62 48 0.14
63 38 0.11
64 10 0.03
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (58 bp):
TATTAATATAATATAATATTAATATATTATTTATATTATTAATATATTATTTATATAA
Found at i:8946211 original size:12 final size:14
Alignment explanation
Indices: 8946180--8946213 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
8946170 TAATGTATTA
8946180 ATATATTATTGATT
1 ATATATTATTGATT
8946194 AATATATTATTGATT
1 -ATATATTATTGATT
8946209 ATATA
1 ATATA
8946214 ATATATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (14 bp):
ATATATTATTGATT
Found at i:8946273 original size:21 final size:19
Alignment explanation
Indices: 8945934--8946456 Score: 94
Period size: 18 Copynumber: 28.7 Consensus size: 19
8945924 TAATATAAAG
* *
8945934 ATATTATATATTAA-TAGT
1 ATATTATATAATAATTATT
* *
8945952 ACATTAT-TAATAA--ATA
1 ATATTATATAATAATTATT
8945968 ATATCTAT-TAATATATTATTT
1 ATAT-TATATAATA-ATTA-TT
* * *
8945989 ATATCATATTAATATAATATA
1 ATATTATA-TAATA-ATTATT
*
8946010 ATATT-TATAATATTTATT
1 ATATTATATAATAATTATT
* *
8946028 A-A-TATATTATTAA-TATA
1 ATATTATA-TAATAATTATT
*
8946045 ATATT-TATTAACATATTATT
1 ATATTATA-TAATA-ATTATT
*
8946065 ATA-TACAT-ATAA-TATT
1 ATATTATATAATAATTATT
*
8946081 ATATTAAGATAATATATTATT
1 ATATT-ATATAATA-ATTATT
* *
8946102 A-A-TAAATAATATTTATGAAT
1 ATATTATATAATAATTAT---T
* *
8946122 ATATTATTTATATCA-TATT
1 ATATTATATA-ATAATTATT
* *
8946141 AATATGATATAAT-ATTAAT
1 -ATATTATATAATAATTATT
*
8946160 ATATTAT-TTATAATGTATT
1 ATATTATATAATAAT-TATT
8946179 A-A-TATAT--T-ATTGATT
1 ATATTATATAATAATT-ATT
* *
8946194 A-A-TATATTATTGATTA-T
1 ATATTATA-TAATAATTATT
* *
8946211 ATAATATATAATATATATAAT
1 ATATTATATAATA-AT-TATT
*
8946232 ATATT-T-TATTAATTATT
1 ATATTATATAATAATTATT
8946249 -TATTATATCAATAAGTTATT
1 ATATTATAT-AATAA-TTATT
8946269 ATATTAT-TAAT-A-TATT
1 ATATTATATAATAATTATT
*
8946285 ATATTATAT--TAA-TAAT
1 ATATTATATAATAATTATT
8946301 ATATTA-ATAA-ATATTA-T
1 ATATTATATAATA-ATTATT
* *
8946318 ATGAATAAATAATATATTATT
1 AT-ATTATATAATA-ATTATT
*
8946339 -TATT-TATTAATAAATATT
1 ATATTATA-TAATAATTATT
8946357 AT-TTAT-TAAT-A-TA--
1 ATATTATATAATAATTATT
*
8946370 ATATTA-AAAATAATATATT
1 ATATTATATAATAAT-TATT
*
8946389 A-A-TAAATAAATAA-TATT
1 ATATTATAT-AATAATTATT
8946406 ATATT-TATAAATAA-TA-T
1 ATATTATAT-AATAATTATT
8946423 ATTATTATATTAA-ATATTATT
1 A-TATTATA-TAATA-ATTATT
8946444 ATATTAT-TAATAA
1 ATATTATATAATAA
8946457 CAAATGGAGT
Statistics
Matches: 381, Mismatches: 48, Indels: 152
0.66 0.08 0.26
Matches are distributed among these distances:
13 2 0.01
14 7 0.02
15 17 0.04
16 41 0.11
17 58 0.15
18 90 0.24
19 69 0.18
20 49 0.13
21 30 0.08
22 16 0.04
23 2 0.01
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (19 bp):
ATATTATATAATAATTATT
Found at i:8946310 original size:48 final size:46
Alignment explanation
Indices: 8945813--8946455 Score: 195
Period size: 42 Copynumber: 14.1 Consensus size: 46
8945803 ATGTTACAAA
* *
8945813 TAATAT-TTTTATTATATAAATAATATATTAATAAATA-T-TATTA-
1 TAATATATTATATTA-ATTAATAATATATTAATAAATATTATATTAT
* * * * * *
8945856 T-ATTTATCACA-TAAATAATATTATATTAATAAATAATACAATATTAT
1 TAATATATTATATTAATTAATAATATATTAATAAAT-AT--TATATTAT
** * * *
8945903 TAATAATACAATATT-ATTTATTA-ATA-TAA-AGATATTATA-TAT
1 TAAT-ATATTATATTAATTAATAATATATTAATAAATATTATATTAT
* * *
8945945 TAATAGTA-CATTATTAATAAATAATATCTATTAATATATTATTTATATCATAT
1 TAATA-TATTA-TATTAATTAATAATA--TATTAATA-AATA-TTATAT--TAT
* * * *
8945998 TAATATAATATAAT-ATTTATAATAT-TT-AT---TAATATATTAT
1 TAATATATTATATTAATTAATAATATATTAATAAATATTATATTAT
* * * *
8946038 TAATATA--ATATTTATTAA-CATATTATTATATACATATAATATTATAT
1 TAATATATTATATTAATTAATAATA-TATTA-ATAAATATTATA-T-TAT
* * * *
8946085 TAAGATAATATATT-ATTAATAAATAATATTTAT-GA-A-TATATTAT
1 TAATATATTATATTAATTAAT-AAT-ATATTAATAAATATTATATTAT
* * *
8946129 T--TATATCATATTAATATGAT-ATAATATTAATATATTATTTATAATGTAT
1 TAATATATTATATTAAT-TAATAAT-ATATTAATA-AATA-TTAT-AT-TAT
* *
8946178 TAATATATTATTGATTAA-T-ATATTATTGATTATATAATATATAATA-TAT
1 TAATATATTA-T-ATTAATTAATAATA-T-ATTA-ATAA-ATATTATATTAT
* * * * *
8946227 ATAATATATTTTATTAATTATTTATTATATCAATAAGTTATTATATTAT
1 -TAATATATTATATTAATTA-ATAATATATTAATAA-ATATTATATTAT
* *
8946276 TAATATATTATATTATATTAATAATATATTAATAAATATTATATGAA
1 TAATATATTATATTA-ATTAATAATATATTAATAAATATTATATTAT
* *
8946323 TAA-ATAATATATT-ATT--T-ATTTATTAATAAATATTAT-TTAT
1 TAATATATTATATTAATTAATAATATATTAATAAATATTATATTAT
* * *
8946363 TAATATA--ATATTAA-AAATAATATATTAATAAATA-AATAATAT
1 TAATATATTATATTAATTAATAATATATTAATAAATATTATATTAT
* * * *
8946405 T-ATAT-TTATAAATAATATATTATTATATTAA-ATATTATTATATTAT
1 TAATATATTAT-ATTAAT-TAATAATATATTAATA-AATATTATATTAT
8946451 TAATA
1 TAATA
8946456 ACAAATGGAG
Statistics
Matches: 445, Mismatches: 78, Indels: 150
0.66 0.12 0.22
Matches are distributed among these distances:
38 7 0.02
39 10 0.02
40 18 0.04
41 48 0.11
42 65 0.15
43 19 0.04
44 12 0.03
45 23 0.05
46 30 0.07
47 37 0.08
48 57 0.13
49 37 0.08
50 25 0.06
51 24 0.05
52 14 0.03
53 19 0.04
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (46 bp):
TAATATATTATATTAATTAATAATATATTAATAAATATTATATTAT
Found at i:8946363 original size:122 final size:125
Alignment explanation
Indices: 8946089--8946443 Score: 290
Period size: 123 Copynumber: 2.9 Consensus size: 125
8946079 TTATATTAAG
*
8946089 ATAATATATTATTAATAAATAATATTTATGAA-TATATTATTTATATCATATTAATATGATATAA
1 ATAATAT-TTATTAATAAAT-ATATTTATTAATTATATTATTTATATCATATTAATAT-ATATAA
* * *
8946153 TATTAATATATTATTTATAATGTATTAATATATTATTGATTAATATATTATTGATTATATAATAT
63 TATTAATATATTATTTATAATGTAATAATATATTA-T-ATTAATATATTATTGAATAAATAATAT
* *
8946218 ATAATATATA-TAAT--ATAT-TTTATTAATTAT-TTA-TTATATCA-A-TAAGT-TATTATATT
1 ATAATATTTATTAATAAATATATTTATTAATTATATTATTTATATCATATTAA-TATA-TATAAT
8946274 ATTAATATATTATATTAT-AT-TAATAATATATTA-A-TAA-ATATTATATGAATAAATAATAT
64 ATTAATATATTAT-TTATAATGTAATAATATATTATATTAATATATTAT-TGAATAAATAATAT
* ***
8946333 ATTATTTATTTATTAATAAATATTATTTATTAATATAATATTAAAAATAAT-ATATTAATA-A-A
1 A-TA-ATATTTATTAATAAATA-TATTTATTAAT-T-ATATTATTTAT-ATCATATTAATATATA
*
8946395 TAA-A-TAATAT-TATATTTATAA-ATAAT-ATATTATTATATTAA-ATATTATT
60 TAATATTAATATAT-TATTTATAATGTAATAATA-TATTATATTAATATATTATT
8946444 ATATTATTAA
Statistics
Matches: 189, Mismatches: 11, Indels: 57
0.74 0.04 0.22
Matches are distributed among these distances:
114 7 0.04
115 16 0.08
116 3 0.02
117 5 0.03
118 4 0.02
119 13 0.07
120 27 0.14
121 7 0.04
122 25 0.13
123 30 0.16
124 10 0.05
125 18 0.10
126 3 0.02
127 9 0.05
128 5 0.03
129 7 0.04
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (125 bp):
ATAATATTTATTAATAAATATATTTATTAATTATATTATTTATATCATATTAATATATATAATAT
TAATATATTATTTATAATGTAATAATATATTATATTAATATATTATTGAATAAATAATAT
Found at i:8946387 original size:14 final size:15
Alignment explanation
Indices: 8946268--8946397 Score: 96
Period size: 15 Copynumber: 9.0 Consensus size: 15
8946258 AATAAGTTAT
* *
8946268 TATATTATTAATATAT
1 TATATTAATAA-ATAA
*
8946284 TATATTATATTAATAA
1 TATATTA-ATAAATAA
*
8946300 TATATTAATAAATAT
1 TATATTAATAAATAA
*
8946315 TATATGAATAAATAA
1 TATATTAATAAATAA
*
8946330 TATATT-AT---TTA
1 TATATTAATAAATAA
*
8946341 TTTATTAATAAAT-A
1 TATATTAATAAATAA
* *
8946355 T-TATTTATTAAT-A
1 TATATTAATAAATAA
8946368 TAATATTAA-AAATAA
1 T-ATATTAATAAATAA
8946383 TATATTAATAAATAA
1 TATATTAATAAATAA
8946398 ATAATATTAT
Statistics
Matches: 91, Mismatches: 14, Indels: 19
0.73 0.11 0.15
Matches are distributed among these distances:
11 7 0.08
12 2 0.02
13 11 0.12
14 14 0.15
15 38 0.42
16 17 0.19
17 2 0.02
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.48
Consensus pattern (15 bp):
TATATTAATAAATAA
Found at i:8946392 original size:11 final size:11
Alignment explanation
Indices: 8945825--8946404 Score: 109
Period size: 11 Copynumber: 54.3 Consensus size: 11
8945815 ATATTTTTAT
*
8945825 TATATAAATAA
1 TATATTAATAA
8945836 TATATTAATAA
1 TATATTAATAA
8945847 -ATATT-AT--
1 TATATTAATAA
*
8945854 TATATTTATCACA
1 TATATTAAT-A-A
* *
8945867 TA-AATAATAT
1 TATATTAATAA
8945877 TATATTAATAA
1 TATATTAATAA
* *
8945888 -ATAAT-ACAA
1 TATATTAATAA
8945897 TATTATTAATAA
1 TA-TATTAATAA
* * *
8945909 TACAAT-ATTA
1 TATATTAATAA
*
8945919 TTTATTAAT-A
1 TATATTAATAA
** *
8945929 TA-AAGATATTA
1 TATATTA-ATAA
*
8945940 TATATTAATAG
1 TATATTAATAA
* *
8945951 TACATTATTAA
1 TATATTAATAA
*
8945962 TA-AATAAT-A
1 TATATTAATAA
*
8945971 TCTATTAAT-A
1 TATATTAATAA
*
8945981 TATTATTTAT-A
1 TA-TATTAATAA
8945992 TCATATTAAT-A
1 T-ATATTAATAA
8946003 TA-A-T-ATAA
1 TATATTAATAA
8946011 TAT-TT-ATAA
1 TATATTAATAA
8946020 TATTTATTAAT-A
1 TA--TATTAATAA
8946032 TATTATTAAT-A
1 TA-TATTAATAA
*
8946043 TAATATTTATTAA
1 T-ATA-TTAATAA
* *
8946056 CATATTATTATA
1 TATATTAATA-A
* *
8946068 TACATATAATAT
1 TATAT-TAATAA
8946080 TATATTAAGATAA
1 TATATT-A-ATAA
*
8946093 TATATTATTAA
1 TATATTAATAA
*
8946104 TA-AATAAT-A
1 TATATTAATAA
* *
8946113 TTTATGAAT-A
1 TATATTAATAA
*
8946123 TATTATTTAT-A
1 TA-TATTAATAA
8946134 TCATATTAATATGA
1 T-ATATTAATA--A
* *
8946148 TATAATATTAA
1 TATATTAATAA
8946159 TATATTATTTATAA
1 TATATTA---ATAA
*
8946173 TGTATTAAT-A
1 TATATTAATAA
*
8946183 TATTATTGATTAA
1 TA-TATT-AATAA
* *
8946196 TATATTATTGA
1 TATATTAATAA
8946207 T-TA-T-ATAA
1 TATATTAATAA
8946215 TATA-TAAT-A
1 TATATTAATAA
8946224 TATA-TAAT-A
1 TATATTAATAA
* *
8946233 TATTTTATTAA
1 TATATTAATAA
* *
8946244 T-TATTTATTA
1 TATATTAATAA
* *
8946254 TATCAATAAGTTAT
1 TAT-ATTAA--TAA
*
8946268 TATATTATTAA
1 TATATTAATAA
*
8946279 TATATT-ATAT
1 TATATTAATAA
8946289 TATATTAATAA
1 TATATTAATAA
8946300 TATATTAATAA
1 TATATTAATAA
8946311 -ATATT-AT-A
1 TATATTAATAA
*
8946319 TGA-ATAAATAA
1 T-ATATTAATAA
* *
8946330 TATATTATTTA
1 TATATTAATAA
*
8946341 TTTATTAATAA
1 TATATTAATAA
* *
8946352 -ATATTATTTA
1 TATATTAATAA
*
8946362 T-TAAT-ATAA
1 TATATTAATAA
**
8946371 TATTAAAAATAA
1 TA-TATTAATAA
8946383 TATATTAATAA
1 TATATTAATAA
8946394 -ATA--AATAA
1 TATATTAATAA
8946402 TAT
1 TAT
8946405 TATATTTATA
Statistics
Matches: 414, Mismatches: 93, Indels: 126
0.65 0.15 0.20
Matches are distributed among these distances:
7 2 0.00
8 18 0.04
9 47 0.11
10 89 0.21
11 161 0.39
12 51 0.12
13 31 0.07
14 15 0.04
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (11 bp):
TATATTAATAA
Found at i:8946400 original size:72 final size:69
Alignment explanation
Indices: 8946249--8946444 Score: 187
Period size: 70 Copynumber: 2.9 Consensus size: 69
8946239 ATTAATTATT
* * * **
8946249 TATTATATCAATAAGT--TATTATA-TTATTAAT-ATAT-TATATTATATT-AATAATA-TATTA
1 TATTATATAAATAAATAATATTATATTTATAAATAATATAT-TATTATATTAAATAATATTAAAA
8946307 ATAAA
65 ATAAA
* *
8946312 TATTATATGAATAAATAATATATTATTTATTTATTAATAA-ATATTATT-TATTAATATAATATT
1 TATTATATAAATAAAT-A-ATATTA--TATTTATAAATAATATATTATTATATTAA-ATAATATT
8946375 AAAAATAATA
61 AAAAATAA-A
*
8946385 TATTA-ATAAATAAATAATATTATATTTATAAATAATATATTATTATATTAAATATTATTA
1 TATTATATAAATAAATAATATTATATTTATAAATAATATATTATTATATTAAATAATATTA
8946445 TATTATTAAT
Statistics
Matches: 111, Mismatches: 7, Indels: 24
0.78 0.05 0.17
Matches are distributed among these distances:
63 14 0.13
67 5 0.05
68 12 0.11
69 22 0.20
70 27 0.24
71 9 0.08
72 16 0.14
73 6 0.05
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (69 bp):
TATTATATAAATAAATAATATTATATTTATAAATAATATATTATTATATTAAATAATATTAAAAA
TAAA
Found at i:8949572 original size:3 final size:3
Alignment explanation
Indices: 8949564--8949601 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
8949554 TTTCTTTTGG
8949564 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8949602 TAATCTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8952220 original size:16 final size:17
Alignment explanation
Indices: 8952194--8952226 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8952184 TAAGGTTTGC
8952194 AGGGTATGGGTGACCAG
1 AGGGTATGGGTGACCAG
*
8952211 AGGG-ATGGGTGGCCAG
1 AGGGTATGGGTGACCAG
8952227 TGGTGCCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.21, C:0.12, G:0.52, T:0.15
Consensus pattern (17 bp):
AGGGTATGGGTGACCAG
Found at i:8952842 original size:48 final size:49
Alignment explanation
Indices: 8952661--8953585 Score: 837
Period size: 48 Copynumber: 18.8 Consensus size: 49
8952651 TGAAATCTGA
* *
8952661 AAAAAGCTCATCTCAGCTGAGGCTCAACAACTTTAAAAATTCTATCTTG
1 AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTG
* * *
8952710 AAAAAGGCTTC-TCTCAGTAAAGGCTTAACAACTTTAAAAATTCTTATCTTG
1 AAAAA-GC-TCATCTCAGCAGAGGCTCAACAACTTTAAAAATT-TTATCTTG
* *
8952761 AAAATAGCTTATCTCAGCAGAGGCTCAATAACTTTAAAAATTTTATC-TG
1 AAAA-AGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTG
* ** * *
8952810 AAAAAGCTCATCTCAACAGATACTCAACAACTTTAAAAA-TTCATCTTAAA
1 AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTT--G
* *
8952860 AAAAAGCTCATCTCAGCAGACGTTCAACAACTTTAAAGAAATTTTTATCTTG
1 AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTT-AA-AAA-TTTTATCTTG
* * * **
8952912 AAAAAGGCTCCTCTTAGCAGAGGCTCAACAATTTTAAAAA-TCCATCTTG
1 AAAAA-GCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTG
** * * * *
8952961 AAAAAATTCTTCTCAGCAGAAGCTCAACAACTTTAAAAAAATTCTCATTTTG
1 AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTT--AAAAATT-TTATCTTG
* * *
8953013 AAAAAGGCTCATTTCAGCAAAGGCTCAACAACTTTAAAAATTTCATC-TG
1 AAAAA-GCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTG
* * *
8953062 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTCATC-TG
1 AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTG
* * * * *
8953110 AAAAAGCTCCTCTAAGCAGAGGCTAAACAACTTT-AAAATACTAATCTTG
1 AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAAT-TTTATCTTG
* * * *
8953159 AAAAAAGCTCCTCTCAACAAAAGCTCAACAACTTTAAAAA-TTTATCTTG
1 -AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTG
* * *
8953208 AAAAAGCTCATCTCCA-TAGAGGCTCAATAA-TTTTAAAATTCATTATCTTG
1 AAAAAGCTCATCT-CAGCAGAGGCTCAACAACTTTAAAAATT--TTATCTTG
* * * * * * * *
8953258 AAAAAGTTTC-TCTAAGCAAAAGCACAACAATTTTAAAAATCTCATC-TG
1 AAAAAG-CTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTG
* * * * ** *
8953306 AAAAAGCTCTTCTAAGTAGAGGCTCAATAACTTT-AAAATACTAACTTG
1 AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTG
* *
8953354 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAA-TTCATCTTG
1 -AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTG
* * * *
8953403 -AAAAGCTCCTCTGAGTAGAGGCTCAATAA-TTT-AAAATTTTCATCTTG
1 AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTT-ATCTTG
* *
8953450 AAAAAGCTTATCTCAGCAGAAGCTCAACAACTTT-AAAATTTATCATCTTG
1 AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTT-T-ATCTTG
* * * *
8953500 AAAAAGCTCCTCTAAGCAGAGCCACAACAACTTT-AAAA-TTTATCTTG
1 AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTG
* * *
8953547 AAAAAGCTCTTCTAAGCAGAGGCTCAACAATTTTAAAAA
1 AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAA
8953586 ATCTCATATG
Statistics
Matches: 724, Mismatches: 113, Indels: 79
0.79 0.12 0.09
Matches are distributed among these distances:
45 4 0.01
46 5 0.01
47 94 0.13
48 209 0.29
49 94 0.13
50 173 0.24
51 69 0.10
52 22 0.03
53 47 0.06
54 7 0.01
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (49 bp):
AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTG
Found at i:8953185 original size:98 final size:99
Alignment explanation
Indices: 8952658--8953585 Score: 869
Period size: 98 Copynumber: 9.4 Consensus size: 99
8952648 ATTTGAAATC
* *
8952658 TGAAAAAAGCTCATCTCAGCTGAGGCTCAACAACTTTAAAAA-TTCTATCTTGAAAAAGGCTTCT
1 TGAAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTC-ATCTTGAAAAA-GCTCCT
* * * * * *
8952722 CTCAGTAAAGGCTTAACAACTTTAAAAATTCTTATCT
64 CTAAGCAGAGGCTCAACAACTTT-AAAATACTCATCT
* * * * *
8952759 TGAAAATAGCTTATCTCAGCAGAGGCTCAATAACTTTAAAAATTTTATC-TGAAAAAGCTCATCT
1 TGAAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCT
** *
8952823 CAA-CAGATACTCAACAACTTTAAAA-ATTCATCT
66 -AAGCAGAGGCTCAACAACTTTAAAATACTCATCT
* * * *
8952856 TAAAAAAAAGCTCATCTCAGCAGACGTTCAACAACTTTAAAGAAATTTTTATCTTGAAAAAGGCT
1 T-GAAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTT-AA-AAA-TTTCATCTTGAAAAA-GCT
* *
8952921 CCTCTTAGCAGAGGCTCAACAATTTTAAAA-A-TCCATCT
61 CCTCTAAGCAGAGGCTCAACAACTTTAAAATACT-CATCT
* * * *
8952959 TGAAAAAA-TTCTTCTCAGCAGAAGCTCAACAACTTTAAAAAAATTCTCATTTTGAAAAAGGCTC
1 TGAAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTT--AAAAATT-TCATCTTGAAAAA-GCTC
* * * * *
8953023 ATTTCAGCAAAGGCTCAACAACTTTAAAA-ATTTCATC-
62 CTCTAAGCAGAGGCTCAACAACTTTAAAATA-CTCATCT
* *
8953060 TG-AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTCATC-TGAAAAAGCTCCTCT
1 TGAAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCT
* *
8953123 AAGCAGAGGCTAAACAACTTTAAAATACTAATCT
66 AAGCAGAGGCTCAACAACTTTAAAATACTCATCT
* * * * *
8953157 TGAAAAAAGCTCCTCTCAACAAAAGCTCAACAACTTTAAAAATTT-ATCTTGAAAAAGCTCATCT
1 TGAAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCT
* * * * * *
8953221 CCA-TAGAGGCTCAATAATTTTAAAATTCATTATCT
66 -AAGCAGAGGCTCAACAACTTTAAAATAC-TCATCT
* * * * * * * *
8953256 TG-AAAAAGTTTC-TCTAAGCAAAAGCACAACAATTTTAAAAATCTCATC-TGAAAAAGCTCTTC
1 TGAAAAAAG-CTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTC
* * *
8953318 TAAGTAGAGGCTCAATAACTTTAAAATACT-AACT
65 TAAGCAGAGGCTCAACAACTTTAAAATACTCATCT
*
8953352 TGAAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAA-TTCATCTTG-AAAAGCTCCTCT
1 TGAAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCT
* * * **
8953415 GAGTAGAGGCTCAATAA-TTTAAAATTTTCATCT
66 AAGCAGAGGCTCAACAACTTTAAAATACTCATCT
* * *
8953448 TG-AAAAAGCTTATCTCAGCAGAAGCTCAACAACTTTAAAATTTATCATCTTGAAAAAGCTCCTC
1 TGAAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATT-TCATCTTGAAAAAGCTCCTC
* * *
8953512 TAAGCAGAGCCACAACAACTTTAAAAT--TTATCT
65 TAAGCAGAGGCTCAACAACTTTAAAATACTCATCT
* * *
8953545 TG-AAAAAGCTCTTCTAAGCAGAGGCTCAACAATTTTAAAAA
1 TGAAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAA
8953586 ATCTCATATG
Statistics
Matches: 692, Mismatches: 103, Indels: 68
0.80 0.12 0.08
Matches are distributed among these distances:
95 44 0.06
96 77 0.11
97 100 0.14
98 204 0.29
99 49 0.07
100 18 0.03
101 142 0.21
102 24 0.03
103 34 0.05
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (99 bp):
TGAAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCT
AAGCAGAGGCTCAACAACTTTAAAATACTCATCT
Found at i:8962703 original size:20 final size:19
Alignment explanation
Indices: 8962663--8962703 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
8962653 TAAATTTTTT
* *
8962663 CTTCTTATTTTTTTTTCAG
1 CTTCTAATTTTTTTTTAAG
8962682 CTTCTAATTTTTTTTATAAG
1 CTTCTAATTTTTTTT-TAAG
8962702 CT
1 CT
8962704 CGACTTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.17, C:0.15, G:0.05, T:0.63
Consensus pattern (19 bp):
CTTCTAATTTTTTTTTAAG
Found at i:8965366 original size:12 final size:13
Alignment explanation
Indices: 8965351--8965383 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
8965341 TTTTTAAAAA
8965351 TTTTATTAA-TTG
1 TTTTATTAATTTG
8965363 TTTTATTAATTTG
1 TTTTATTAATTTG
8965376 TTATTATT
1 TT-TTATT
8965384 TTTAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.47
13 5 0.26
14 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (13 bp):
TTTTATTAATTTG
Found at i:8970520 original size:2 final size:2
Alignment explanation
Indices: 8970513--8970538 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8970503 ATTTTAATAG
8970513 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8970539 GCAACACCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8974602 original size:27 final size:29
Alignment explanation
Indices: 8974572--8974636 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
8974562 TGAATATAAT
*
8974572 TTTTATAAAT-GAAAATGATAATA-TTGC
1 TTTTATAAATAAAAAATGATAATATTTGC
*
8974599 TTTTTTAAATAAAAAAATGATAATATTTGC
1 TTTTATAAAT-AAAAAATGATAATATTTGC
8974629 TTATTATA
1 TT-TTATA
8974637 TTTAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 9 0.29
29 12 0.39
30 6 0.19
31 4 0.13
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (29 bp):
TTTTATAAATAAAAAATGATAATATTTGC
Found at i:8975703 original size:17 final size:17
Alignment explanation
Indices: 8975678--8975711 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8975668 CGGAGTGACA
8975678 TAGCAGTAGTCTATACT
1 TAGCAGTAGTCTATACT
*
8975695 TAGCTGTAGTCTATACT
1 TAGCAGTAGTCTATACT
8975712 AATATTTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (17 bp):
TAGCAGTAGTCTATACT
Found at i:8976793 original size:7 final size:7
Alignment explanation
Indices: 8976781--8976823 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
8976771 ATGTATACAT
8976781 ATATATA
1 ATATATA
8976788 ATATATA
1 ATATATA
8976795 ATATATA
1 ATATATA
8976802 ATATA-A
1 ATATATA
8976808 TATATATA
1 -ATATATA
8976816 CATATATA
1 -ATATATA
8976824 CACACACATA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
6 1 0.03
7 24 0.73
8 8 0.24
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (7 bp):
ATATATA
Found at i:8976798 original size:14 final size:15
Alignment explanation
Indices: 8976774--8976823 Score: 68
Period size: 14 Copynumber: 3.4 Consensus size: 15
8976764 CACCAATATG
*
8976774 TATACATATATATAA
1 TATATATATATATAA
8976789 TATATA-ATATATAA
1 TATATATATATATAA
8976803 TATA-ATATATATACA
1 TATATATATATATA-A
8976818 TATATA
1 TATATA
8976824 CACACACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
13 1 0.03
14 19 0.61
15 10 0.32
16 1 0.03
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (15 bp):
TATATATATATATAA
Found at i:8976822 original size:12 final size:12
Alignment explanation
Indices: 8976769--8976839 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
8976759 GCTGGCACCA
*
8976769 ATATGTATACAT
1 ATATATATACAT
*
8976781 ATATATA-ATAT
1 ATATATATACAT
*
8976792 ATAATATATAATAT
1 AT-ATATAT-ACAT
8976806 AATATATATACAT
1 -ATATATATACAT
* * *
8976819 ATATACACACAC
1 ATATATATACAT
8976831 ATATATATA
1 ATATATATA
8976840 TGTAAAAACT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
11 5 0.11
12 27 0.57
13 3 0.06
14 10 0.21
15 2 0.04
ACGTcount: A:0.52, C:0.08, G:0.01, T:0.38
Consensus pattern (12 bp):
ATATATATACAT
Found at i:8976840 original size:2 final size:2
Alignment explanation
Indices: 8976769--8976823 Score: 55
Period size: 2 Copynumber: 29.5 Consensus size: 2
8976759 GCTGGCACCA
* *
8976769 AT AT GT AT AC AT AT AT AT A- AT AT AT A- AT AT AT A- AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
8976807 AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT A
8976824 CACACACATA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
1 4 0.09
2 39 0.91
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:8980057 original size:24 final size:24
Alignment explanation
Indices: 8980003--8980064 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
8979993 AGTCCTGTGG
* * *
8980003 CTGTGATCCAAAAACAGCAAAGTC
1 CTGTGATTCAAAAAAAGCAAAGCC
* * *
8980027 TTCTGATTCAAAAAAATCAAAGCC
1 CTGTGATTCAAAAAAAGCAAAGCC
8980051 CTGTGATTACAAAA
1 CTGTGATT-CAAAA
8980065 CATCAGCAGC
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.23
Consensus pattern (24 bp):
CTGTGATTCAAAAAAAGCAAAGCC
Found at i:8981070 original size:19 final size:18
Alignment explanation
Indices: 8981035--8981085 Score: 75
Period size: 18 Copynumber: 2.7 Consensus size: 18
8981025 TCTCAATTTT
*
8981035 TTTTTATTCTTTTAAAAA
1 TTTTTATTTTTTTAAAAA
8981053 TTTTTATTTTTTTGAAAAA
1 TTTTTATTTTTTT-AAAAA
8981072 TTTTTAATTTTTTT
1 TTTTT-ATTTTTTT
8981086 TTATTTTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 12 0.40
19 10 0.33
20 8 0.27
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTTATTTTTTTAAAAA
Found at i:8981082 original size:18 final size:18
Alignment explanation
Indices: 8981034--8981083 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
8981024 TTCTCAATTT
* *
8981034 TTTTTTATTCTTTTAAAAA
1 TTTTTAATT-TTTGAAAAA
*
8981053 TTTTTATTTTTTTGAAAAA
1 TTTTTA-ATTTTTGAAAAA
8981072 TTTTTAATTTTT
1 TTTTTAATTTTT
8981084 TTTTATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 5 0.19
19 19 0.73
20 2 0.08
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTTTAATTTTTGAAAAA
Found at i:8981642 original size:20 final size:21
Alignment explanation
Indices: 8981610--8981649 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
8981600 TTTTTTTCCT
8981610 TTTTAAATATTT-ATATTTTA
1 TTTTAAATATTTAATATTTTA
8981630 TTTT-AATATTTTAATATTTT
1 TTTTAAATA-TTTAATATTTT
8981650 TAACATGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 7 0.39
21 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTAAATATTTAATATTTTA
Found at i:8981957 original size:20 final size:19
Alignment explanation
Indices: 8981920--8981961 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
8981910 TAAATTTATT
8981920 AATTTAATATAATAAATAA
1 AATTTAATATAATAAATAA
* *
8981939 AATTTTATATTATATAATAA
1 AATTTAATATAATA-AATAA
8981959 AAT
1 AAT
8981962 AATTAATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTTAATATAATAAATAA
Found at i:8982530 original size:30 final size:30
Alignment explanation
Indices: 8982449--8982537 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
8982439 TTAAATTGAC
* * * *
8982449 TTTAATTTGAACAC-AAATAAACCCTTAATT
1 TTTAATTTGTAC-CTAAATAAATCTTTAACT
**
8982479 TTTAATTTGTATTTAAATAAATCTTTAACT
1 TTTAATTTGTACCTAAATAAATCTTTAACT
*
8982509 TTTAATTTGTACCTAAATAAATTTTTAAC
1 TTTAATTTGTACCTAAATAAATCTTTAAC
8982538 ATAAATCAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.46
Consensus pattern (30 bp):
TTTAATTTGTACCTAAATAAATCTTTAACT
Found at i:8983614 original size:12 final size:12
Alignment explanation
Indices: 8983599--8983623 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8983589 CACAAAAACC
8983599 AGATTCCACCCA
1 AGATTCCACCCA
8983611 AGATTCCACCCA
1 AGATTCCACCCA
8983623 A
1 A
8983624 TCTTTACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.40, G:0.08, T:0.16
Consensus pattern (12 bp):
AGATTCCACCCA
Found at i:8989170 original size:20 final size:20
Alignment explanation
Indices: 8989145--8989195 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
8989135 TTGACACGTC
8989145 CTTGGGTTTTGAATTTTGGG
1 CTTGGGTTTTGAATTTTGGG
* *
8989165 CTTGGGTATTGAGTTTTGGG
1 CTTGGGTTTTGAATTTTGGG
*
8989185 TTTGGGCTTTT
1 CTTGGG-TTTT
8989196 TCATTGCAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.08, C:0.06, G:0.35, T:0.51
Consensus pattern (20 bp):
CTTGGGTTTTGAATTTTGGG
Found at i:8993525 original size:2 final size:2
Alignment explanation
Indices: 8993518--8993551 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8993508 AGCAGGTAAT
8993518 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8993552 CACGTACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8999013 original size:38 final size:37
Alignment explanation
Indices: 8998940--8999013 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
8998930 ACTTATAGAG
* *
8998940 TTAAAAATATTATATTATCAATATATTTAATAATTTT
1 TTAAAAATATTATATTATCAATAAATTTAAAAATTTT
8998977 TTAAAAATATT-TAATGTAT-ACATAAATTTAAAAATTT
1 TTAAAAATATTAT-AT-TATCA-ATAAATTTAAAAATTT
8999014 AAAAATATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 1 0.03
37 14 0.44
38 17 0.53
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
TTAAAAATATTATATTATCAATAAATTTAAAAATTTT
Found at i:8999157 original size:29 final size:29
Alignment explanation
Indices: 8999123--8999180 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
8999113 TAAATATCAC
8999123 ATTAT-TTAAAAA-ATTTATAA-TTCAAAT
1 ATTATATTAAAAATATTT-TAAGTTCAAAT
*
8999150 ATTATATTAAAAATATTTTAAGTTTAAAT
1 ATTATATTAAAAATATTTTAAGTTCAAAT
8999179 AT
1 AT
8999181 CACATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 5 0.19
28 10 0.37
29 12 0.44
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (29 bp):
ATTATATTAAAAATATTTTAAGTTCAAAT
Found at i:8999705 original size:23 final size:22
Alignment explanation
Indices: 8999678--8999737 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
8999668 GAAATAATAT
* *
8999678 AATTGTAAATTTTATTAATTTTA
1 AATTGTAAATTTTA-AAATGTTA
*
8999701 AATTGATACATTTTAAAATGTTA
1 AATTG-TAAATTTTAAAATGTTA
*
8999724 ATATTTTAAATTTT
1 A-ATTGTAAATTTT
8999738 TTTATCGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 19 0.63
24 11 0.37
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (22 bp):
AATTGTAAATTTTAAAATGTTA
Found at i:9001274 original size:13 final size:12
Alignment explanation
Indices: 9001244--9001286 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 12
9001234 GTAATGAGAT
9001244 TTTTAAATTTTTAAA
1 TTTT-AATTTTT--A
9001259 TTTTAATTTTTGA
1 TTTTAATTTTT-A
9001272 TTTTAATTTTTA
1 TTTTAATTTTTA
9001284 TTT
1 TTT
9001287 ACTCATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 4 0.15
13 12 0.44
14 7 0.26
15 4 0.15
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (12 bp):
TTTTAATTTTTA
Found at i:9002912 original size:18 final size:18
Alignment explanation
Indices: 9002872--9002912 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
9002862 AAAATTATAT
*
9002872 GAAAAATTCAAAAAAAAA
1 GAAAAACTCAAAAAAAAA
* *
9002890 AAAAAACTCAAAAAAATA
1 GAAAAACTCAAAAAAAAA
9002908 GAAAA
1 GAAAA
9002913 TTTAAATATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (18 bp):
GAAAAACTCAAAAAAAAA
Found at i:9002994 original size:24 final size:25
Alignment explanation
Indices: 9002967--9003014 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
9002957 AAATCTGGAA
*
9002967 AAAAAATCCTAAAAATCT-AAAAAT
1 AAAAAATCCAAAAAATCTGAAAAAT
9002991 AAAAAATCCAAAAAATCTGAAAAA
1 AAAAAATCCAAAAAATCTGAAAAA
9003015 AATTGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.69, C:0.12, G:0.02, T:0.17
Consensus pattern (25 bp):
AAAAAATCCAAAAAATCTGAAAAAT
Found at i:9003966 original size:29 final size:29
Alignment explanation
Indices: 9003931--9004025 Score: 99
Period size: 29 Copynumber: 3.3 Consensus size: 29
9003921 AAATTATATT
*
9003931 AAAATATTTATTATAATATTTAAATTTTA
1 AAAATATTTAATATAATATTTAAATTTTA
* *
9003960 AAAATATTTAATATGATATTTAAATTAT-
1 AAAATATTTAATATAATATTTAAATTTTA
* *
9003988 AAATTTTTTAAT-TAATA--TAATATTTATA
1 AAAATATTTAATATAATATTTAA-ATTT-TA
9004016 AAAATATTTA
1 AAAATATTTA
9004026 TTTGACATGT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
25 3 0.06
26 3 0.06
27 5 0.09
28 18 0.33
29 25 0.46
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
AAAATATTTAATATAATATTTAAATTTTA
Found at i:9004835 original size:21 final size:21
Alignment explanation
Indices: 9004793--9004835 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9004783 GAAGTGAGAT
* * **
9004793 TATTTCTTTTTTTTTTTTAAA
1 TATTTCTTGTTTATTTAAAAA
9004814 TATTTCTTGTTTATTTAAAAA
1 TATTTCTTGTTTATTTAAAAA
9004835 T
1 T
9004836 TACTAAAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (21 bp):
TATTTCTTGTTTATTTAAAAA
Found at i:9014762 original size:13 final size:13
Alignment explanation
Indices: 9014746--9014772 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9014736 TATTTAATAA
9014746 TTTAAAATATTAT
1 TTTAAAATATTAT
9014759 TTTAAAATATTAT
1 TTTAAAATATTAT
9014772 T
1 T
9014773 ACTCCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTAAAATATTAT
Found at i:9016044 original size:4 final size:4
Alignment explanation
Indices: 9016035--9016110 Score: 89
Period size: 4 Copynumber: 19.0 Consensus size: 4
9016025 TGCTTTCTGA
** *
9016035 ATAT ATAT ATAT ATAT ATAT ATAT ATAT GCAT ATGT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * *
9016083 ATAC ATAT GTAT ATAT ATGT ATGT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT
9016111 CAATGACACA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 60 1.00
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (4 bp):
ATAT
Found at i:9016046 original size:6 final size:6
Alignment explanation
Indices: 9016035--9016110 Score: 89
Period size: 6 Copynumber: 12.7 Consensus size: 6
9016025 TGCTTTCTGA
** *
9016035 ATATAT ATATAT ATATAT ATATAT ATATGC ATATGT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * *
9016083 ATACAT ATGTAT ATATAT GTATGT ATAT
1 ATATAT ATATAT ATATAT ATATAT ATAT
9016111 CAATGACACA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (6 bp):
ATATAT
Found at i:9016050 original size:10 final size:10
Alignment explanation
Indices: 9016035--9016110 Score: 89
Period size: 10 Copynumber: 7.6 Consensus size: 10
9016025 TGCTTTCTGA
9016035 ATATATATAT
1 ATATATATAT
9016045 ATATATATAT
1 ATATATATAT
**
9016055 ATATATATGC
1 ATATATATAT
*
9016065 ATATGTATAT
1 ATATATATAT
9016075 ATATATATAT
1 ATATATATAT
* *
9016085 ACATATGTAT
1 ATATATATAT
*
9016095 ATATATGTAT
1 ATATATATAT
*
9016105 GTATAT
1 ATATAT
9016111 CAATGACACA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 56 1.00
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (10 bp):
ATATATATAT
Found at i:9017747 original size:21 final size:21
Alignment explanation
Indices: 9017705--9017751 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
9017695 TAAATTTTAT
*
9017705 ATATTATTAATAAATTAAATA
1 ATATTATTAATAAATGAAATA
* * *
9017726 ATATTATTTATTAATGAGATA
1 ATATTATTAATAAATGAAATA
9017747 A-ATTA
1 ATATTA
9017752 AATAATATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (21 bp):
ATATTATTAATAAATGAAATA
Found at i:9017750 original size:30 final size:31
Alignment explanation
Indices: 9017714--9017771 Score: 109
Period size: 30 Copynumber: 1.9 Consensus size: 31
9017704 TATATTATTA
9017714 ATAAATTAAATAATATTA-TTTATTAATGAG
1 ATAAATTAAATAATATTATTTTATTAATGAG
9017744 ATAAATTAAATAATATTATTTTATTAAT
1 ATAAATTAAATAATATTATTTTATTAAT
9017772 AAATAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (31 bp):
ATAAATTAAATAATATTATTTTATTAATGAG
Found at i:9017786 original size:16 final size:17
Alignment explanation
Indices: 9017752--9017804 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
9017742 AGATAAATTA
*
9017752 AATAATATT-ATTTTATT
1 AATAA-ATTAATTTTTTT
9017769 AATAAA-TAATTTTTTT
1 AATAAATTAATTTTTTT
*
9017785 AA-AAATTAATTTTTTA
1 AATAAATTAATTTTTTT
9017801 AATA
1 AATA
9017805 TTTATTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 4 0.13
16 21 0.68
17 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATAAATTAATTTTTTT
Found at i:9017797 original size:15 final size:15
Alignment explanation
Indices: 9017761--9017822 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
9017751 AAATAATATT
9017761 ATTTTATTAATAAA-TA
1 ATTTT-TTAA-AAATTA
9017777 ATTTTTTTAAAAATTA
1 A-TTTTTTAAAAATTA
*
9017793 ATTTTTTAAATATT-
1 ATTTTTTAAAAATTA
*
9017807 -TATTTTAAAAATTA
1 ATTTTTTAAAAATTA
9017821 AT
1 AT
9017823 ATTTATTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 11 0.28
15 16 0.41
16 8 0.21
17 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTTTTAAAAATTA
Found at i:9017825 original size:15 final size:15
Alignment explanation
Indices: 9017781--9017826 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
9017771 TAAATAATTT
*
9017781 TTTTAAAAATTAATT
1 TTTTAAAAATTAATA
*
9017796 TTTTAAATATT--TA
1 TTTTAAAAATTAATA
9017809 TTTTAAAAATTAATA
1 TTTTAAAAATTAATA
9017824 TTT
1 TTT
9017827 ATTTATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 11 0.42
15 15 0.58
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTAAAAATTAATA
Found at i:9018996 original size:2 final size:2
Alignment explanation
Indices: 9018989--9019025 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9018979 TCTATCCCCA
9018989 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9019026 CTAGTTTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9021664 original size:19 final size:19
Alignment explanation
Indices: 9021628--9021679 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
9021618 TTGATTTAGA
9021628 AAATAAAACTAATT-TATTA-
1 AAATAAAA-T-ATTATATTAT
9021647 AAATCAAAATATTATATTAT
1 AAAT-AAAATATTATATTAT
*
9021667 ATATAAAATATTA
1 AAATAAAATATTA
9021680 AAAAAAGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 3 0.10
19 19 0.66
20 7 0.24
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATAAAATATTATATTAT
Found at i:9025747 original size:2 final size:2
Alignment explanation
Indices: 9025740--9025773 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
9025730 ATTACTAAGT
9025740 TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9025774 TACAAGTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9026914 original size:10 final size:10
Alignment explanation
Indices: 9026891--9026934 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
9026881 GGTTTTTCTG
*
9026891 TTTCCATTAC
1 TTTCCTTTAC
*
9026901 TTTCCTTTAT
1 TTTCCTTTAC
*
9026911 TTTCCTTTCC
1 TTTCCTTTAC
9026921 TTTCCTTT-C
1 TTTCCTTTAC
9026930 TTTCC
1 TTTCC
9026935 CTTCCTCTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
9 6 0.20
10 24 0.80
ACGTcount: A:0.07, C:0.32, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTCCTTTAC
Found at i:9028848 original size:4 final size:4
Alignment explanation
Indices: 9028839--9028903 Score: 53
Period size: 4 Copynumber: 16.2 Consensus size: 4
9028829 TATAATTGTC
* * * *
9028839 TATT TATT TATT TATT TGTT TATT T-GT TATTT TATT TATCT GA-C TATT
1 TATT TATT TATT TATT TATT TATT TATT TA-TT TATT TAT-T TATT TATT
*
9028887 TATG TATT TATT TATT T
1 TATT TATT TATT TATT T
9028904 GTAAATATTA
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
3 3 0.06
4 39 0.83
5 5 0.11
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (4 bp):
TATT
Found at i:9029277 original size:121 final size:120
Alignment explanation
Indices: 9029059--9029302 Score: 267
Period size: 121 Copynumber: 2.0 Consensus size: 120
9029049 AATAAAATAA
* * * *
9029059 AAAGCCTTACAAACATATTAGAAGGTAATTTTAATTTCAAAAAAAAGTTTTACCAACATATTGGA
1 AAAGCCTTACAAACATATTAGAAGGCAAATTGAATTTCAAAAAAAAGTTTTACCAACATATTGAA
* ** * * *
9029124 GAATTTTATTAATTTTTTATAAAAAACAAATTTTAAGAGAAA-AAATAGTTTTCAAT
66 AAACCTTATTAATTTTTAAAAAAAAACAAATTTTAAGA-AAAGAAATAATTTTC-AT
* * ** * * *
9029180 AAAGCTTTACCAACATATTAGAAGGCAAATTGGTTTTCAAAATAAGGTTTTACCAATATATTGAA
1 AAAGCCTTACAAACATATTAGAAGGCAAATTGAATTTCAAAAAAAAGTTTTACCAACATATTGAA
** *
9029245 AAACCTTA-TAATTTTTAAAATAAAAATTAATTTTTAGAAAAGAAATAATTTTCAT
66 AAACCTTATTAATTTTTAAAA-AAAAACAAATTTTAAGAAAAGAAATAATTTTCAT
9029300 AAA
1 AAA
9029303 ATCCTATCAA
Statistics
Matches: 101, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
120 18 0.18
121 83 0.82
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (120 bp):
AAAGCCTTACAAACATATTAGAAGGCAAATTGAATTTCAAAAAAAAGTTTTACCAACATATTGAA
AAACCTTATTAATTTTTAAAAAAAAACAAATTTTAAGAAAAGAAATAATTTTCAT
Found at i:9029293 original size:18 final size:18
Alignment explanation
Indices: 9029252--9029296 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
9029242 GAAAAACCTT
9029252 ATAATTTTTAAAATAAAA
1 ATAATTTTTAAAATAAAA
*
9029270 ATTAATTTTTAGAAA-AGAA
1 A-TAATTTTTA-AAATAAAA
9029289 ATAATTTT
1 ATAATTTT
9029297 CATAAAATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 13 0.54
20 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
ATAATTTTTAAAATAAAA
Found at i:9029344 original size:38 final size:37
Alignment explanation
Indices: 9029300--9029371 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 37
9029290 TAATTTTCAT
* *
9029300 AAAATCCTA-TCAACATATTAGAGGATAATTTCTAGCAG
1 AAAATCCTACT-AACAAATTAGAGAAT-ATTTCTAGCAG
*
9029338 AAAATCCTACTAACAAATTGGAGAATATTTCTAG
1 AAAATCCTACTAACAAATTAGAGAATATTTCTAG
9029372 AAATAAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 8 0.27
38 21 0.70
39 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.29
Consensus pattern (37 bp):
AAAATCCTACTAACAAATTAGAGAATATTTCTAGCAG
Done.