Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 185 of 189
Found at i:55223490 original size:20 final size:20
Alignment explanation
Indices: 55223459--55223507 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
55223449 AAATTTTTTT
*
55223459 TCAAATCAAGTCGAG-TGAAA
1 TCAAATCGAGTCGAGTTG-AA
*
55223479 TGAAATCGAGTCGAGTTGAA
1 TCAAATCGAGTCGAGTTGAA
55223499 TCAAATCGA
1 TCAAATCGA
55223508 ACCGAATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (20 bp):
TCAAATCGAGTCGAGTTGAA
Found at i:55223878 original size:9 final size:9
Alignment explanation
Indices: 55223864--55223902 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
55223854 ACACCAACCT
55223864 ATTATTCGA
1 ATTATTCGA
*
55223873 ATTATTTGA
1 ATTATTCGA
55223882 ATTATTCGA
1 ATTATTCGA
*
55223891 GTTATTCGA
1 ATTATTCGA
55223900 ATT
1 ATT
55223903 TTGAAATTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.49
Consensus pattern (9 bp):
ATTATTCGA
Found at i:55227685 original size:16 final size:17
Alignment explanation
Indices: 55227658--55227707 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
55227648 TAAAAATAAT
*
55227658 AATTTAAATTTTTTTAA
1 AATTTAATTTTTTTTAA
**
55227675 AA-TTAATTTTTAATAA
1 AATTTAATTTTTTTTAA
*
55227691 AATTTAATTATTTTTAA
1 AATTTAATTTTTTTTAA
55227708 TAAAATACTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTAATTTTTTTTAA
Found at i:55227705 original size:20 final size:21
Alignment explanation
Indices: 55227675--55227713 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
55227665 ATTTTTTTAA
55227675 AATTAATTTTTAATAAAATTT
1 AATTAATTTTTAATAAAATTT
55227696 AATT-ATTTTTAATAAAAT
1 AATTAATTTTTAATAAAAT
55227714 ACTATTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTAATTTTTAATAAAATTT
Found at i:55229907 original size:15 final size:15
Alignment explanation
Indices: 55229889--55229918 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55229879 TAAAGACTTG
*
55229889 AATTGATTTGATTTA
1 AATTAATTTGATTTA
55229904 AATTAATTTGATTTA
1 AATTAATTTGATTTA
55229919 TAATAAACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (15 bp):
AATTAATTTGATTTA
Found at i:55233365 original size:176 final size:183
Alignment explanation
Indices: 55233091--55233607 Score: 687
Period size: 176 Copynumber: 2.8 Consensus size: 183
55233081 AATCCGCAAT
* *
55233091 GTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTATCTATGAATATCTGCGAAATCGGAAAG
1 GTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTGTCTATGAATATCTGCAAAATCGGAAAG
*
55233156 TTTTAGGTCATATTAAGCGGCAATAGGCGTCTGTCTTAGCATATTGTGTGCAGGTTTGTTGGATC
66 TTTTAGGTCATATTAAGTGGCAATAGGCGTCTGTCTTAGCATATTGTGTGCAGGTTTGTTGGATC
* *
55233221 ATTATATTTGTTGGTTTCCGTCGAT-T-GAT-A-TC-CTG-G-AATCCACATA
131 ATTATATATGTTGGTTTCCGTCGATATCAATAATTCACTGAGAAATCCACATA
55233267 GTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTGTCTATGAATATCTGCAAAATCGGAAAG
1 GTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTGTCTATGAATATCTGCAAAATCGGAAAG
* *
55233332 TTTTAGGTCATATTAAGTGGAAATAGGCGTCTGTCTTAGCAT-TTGGTGTGCCGGTTTGTTGGAT
66 TTTTAGGTCATATTAAGTGGCAATAGGCGTCTGTCTTAGCATATT-GTGTGCAGGTTTGTTGGAT
* **
55233396 CATTATATGTGTTGGTTTCCGTTTATAATCAATACATTGTCGACTGATATCCGCAAATCCACATA
130 CATTATATATGTTGGTTTCCGTCGAT-ATCAATA-A-T-TC-ACTG--A---G-AAATCCACATA
*
55233461 GTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTGTCTATGAATATCTGCCAAATC-GAGAA
1 GTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTGTCTATGAATATCTGCAAAATCGGA-AA
* * * * *
55233525 GTTTTAGGACATGTTAAGCT-GCAATAGGCTTCTGTCTTAGCATATGGTGTGAAGGTTTGTTGGA
65 GTTTTAGGTCATATTAAG-TGGCAATAGGCGTCTGTCTTAGCATATTGTGTGCAGGTTTGTTGGA
55233589 TCATTATATATGTT-GTTTC
129 TCATTATATATGTTGGTTTC
55233608 GGTTTATTGT
Statistics
Matches: 301, Mismatches: 18, Indels: 27
0.87 0.05 0.08
Matches are distributed among these distances:
175 2 0.01
176 144 0.48
178 1 0.00
179 2 0.01
181 1 0.00
184 2 0.01
186 3 0.01
192 1 0.00
193 7 0.02
194 136 0.45
195 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (183 bp):
GTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTGTCTATGAATATCTGCAAAATCGGAAAG
TTTTAGGTCATATTAAGTGGCAATAGGCGTCTGTCTTAGCATATTGTGTGCAGGTTTGTTGGATC
ATTATATATGTTGGTTTCCGTCGATATCAATAATTCACTGAGAAATCCACATA
Found at i:55233575 original size:194 final size:193
Alignment explanation
Indices: 55233240--55233614 Score: 585
Period size: 194 Copynumber: 1.9 Consensus size: 193
55233230 GTTGGTTTCC
* *
55233240 GTCGATTGATATCCTGGAATCCACATAGTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTG
1 GTCGACTGATATCCTGAAATCCACATAGTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTG
*
55233305 TCTATGAATATCTGCAAAATCGGAAAGTTTTAGGTCATATTAAGTGGAAATAGGCGTCTGTCTTA
66 TCTATGAATATCTGCAAAATCGGAAAGTTTTAGGACATATTAAGTGGAAATAGGCGTCTGTCTTA
* ** *
55233370 GCATTTGGTGTGCCGGTTTGTTGGATCATTATATGTGTTGGTTTCCGTTTATAATCAATACATT
131 GCATATGGTGTGAAGGTTTGTTGGATCATTATATATGTT-GTTTCCGTTTATAATCAATACATT
55233434 GTCGACTGATATCC-GCAAATCCACATAGTTTTATGTCATACTTAAGCCGAAATAGGTTGATATT
1 GTCGACTGATATCCTG-AAATCCACATAGTTTTATGTCATACTTAAGCCGAAATAGGTTGATATT
* * * *
55233498 GTCTATGAATATCTGCCAAATC-GAGAAGTTTTAGGACATGTTAAGCT-GCAATAGGCTTCTGTC
65 GTCTATGAATATCTGCAAAATCGGA-AAGTTTTAGGACATATTAAG-TGGAAATAGGCGTCTGTC
*
55233561 TTAGCATATGGTGTGAAGGTTTGTTGGATCATTATATATGTTGTTTCGGTTTAT
128 TTAGCATATGGTGTGAAGGTTTGTTGGATCATTATATATGTTGTTTCCGTTTAT
55233615 TGTCGATGAA
Statistics
Matches: 166, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
193 14 0.08
194 151 0.91
195 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (193 bp):
GTCGACTGATATCCTGAAATCCACATAGTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTG
TCTATGAATATCTGCAAAATCGGAAAGTTTTAGGACATATTAAGTGGAAATAGGCGTCTGTCTTA
GCATATGGTGTGAAGGTTTGTTGGATCATTATATATGTTGTTTCCGTTTATAATCAATACATT
Found at i:55236130 original size:93 final size:90
Alignment explanation
Indices: 55235990--55236168 Score: 254
Period size: 93 Copynumber: 2.0 Consensus size: 90
55235980 AACTTGATTT
* * *
55235990 TTTTTCTTAATTTGGTACTTAATTTTTTATGGGTCCAATTTGGTACCTAAATTTGACAT-TTTCT
1 TTTTTATTAAGTTGGTACTTAATTTTTTATGGGTCCAATTTGGTACCTAAATTT-AAATCTTTCT
55236054 CCCTAATTTGATACCTAAACTTTACAC
65 -CCTAATTTGATACCTAAACTTTACAC
55236081 TTTTTATTAAGTTGGTACTTAAATCTTTTT-TGGGGTCCAATTTGGTACCTAAATTTAAATCTTT
1 TTTTTATTAAGTTGGTACTT-AAT-TTTTTAT-GGGTCCAATTTGGTACCTAAATTTAAATCTTT
* *
55236145 CTCCTAATTTGGTACCTAATCTTT
63 CTCCTAATTTGATACCTAAACTTT
55236169 TTTTGTTTGA
Statistics
Matches: 79, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
91 18 0.23
92 27 0.34
93 34 0.43
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (90 bp):
TTTTTATTAAGTTGGTACTTAATTTTTTATGGGTCCAATTTGGTACCTAAATTTAAATCTTTCTC
CTAATTTGATACCTAAACTTTACAC
Found at i:55240602 original size:16 final size:18
Alignment explanation
Indices: 55240563--55240596 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55240553 TAAGTTTATA
55240563 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
55240580 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
55240597 AATTTAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:55240663 original size:16 final size:16
Alignment explanation
Indices: 55240626--55240667 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
55240616 AAAATAAACT
* * *
55240626 TATATTATAAAATTAT
1 TATAATATAAAAATAA
55240642 TA-AATATAAAAATAA
1 TATAATATAAAAATAA
55240657 TATAATATAAA
1 TATAATATAAA
55240668 CATTTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TATAATATAAAAATAA
Found at i:55240917 original size:18 final size:19
Alignment explanation
Indices: 55240884--55240919 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
55240874 TCTCAAAATT
*
55240884 ATACATGAATTTTAATTTA
1 ATACATGAACTTTAATTTA
55240903 ATACAT-AACTTTAATTT
1 ATACATGAACTTTAATTT
55240920 GGTGCAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (19 bp):
ATACATGAACTTTAATTTA
Found at i:55240943 original size:26 final size:29
Alignment explanation
Indices: 55240909--55240976 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 29
55240899 TTTAATACAT
55240909 AACTTTAATTTGGTGC-AA-T-TACATGA
1 AACTTTAATTTGGTGCAAAGTATACATGA
*
55240935 AACTTTAATTGTGGTTCAAATGTATACATGA
1 AACTTTAATT-TGGTGCAAA-GTATACATGA
*
55240966 CACTTTAATTT
1 AACTTTAATTT
55240977 TAATTTATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 10 0.29
27 5 0.14
28 2 0.06
30 2 0.06
31 16 0.46
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (29 bp):
AACTTTAATTTGGTGCAAAGTATACATGA
Found at i:55244604 original size:2 final size:2
Alignment explanation
Indices: 55244599--55244628 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
55244589 GTGTGTGTGT
55244599 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
55244629 ACCGGCCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:55247365 original size:13 final size:14
Alignment explanation
Indices: 55247333--55247364 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
55247323 TATATCAAAC
55247333 AATTTTATAACTTA
1 AATTTTATAACTTA
55247347 AATTTTAT-ACTT-
1 AATTTTATAACTTA
55247359 AATTTT
1 AATTTT
55247365 TCAGTTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 4 0.22
14 8 0.44
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTTTATAACTTA
Found at i:55247537 original size:13 final size:13
Alignment explanation
Indices: 55247519--55247551 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
55247509 GTTGCGATTG
55247519 AAAAATATTTTTA
1 AAAAATATTTTTA
55247532 AAAAATATTTTTA
1 AAAAATATTTTTA
55247545 AAAAATA
1 AAAAATA
55247552 CAATAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AAAAATATTTTTA
Found at i:55251709 original size:19 final size:19
Alignment explanation
Indices: 55251685--55251722 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
55251675 TTAATGTGCG
* *
55251685 AATATATGTATATGTGTGT
1 AATATATATATATATGTGT
55251704 AATATATATATATATGTGT
1 AATATATATATATATGTGT
55251723 GGATCGAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (19 bp):
AATATATATATATATGTGT
Found at i:55251996 original size:41 final size:41
Alignment explanation
Indices: 55251934--55252273 Score: 527
Period size: 41 Copynumber: 8.3 Consensus size: 41
55251924 GTTTGGAATT
* *
55251934 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
55251975 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
55252016 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
55252057 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
55252098 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
55252139 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
55252180 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
55252221 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
*
55252262 GGTGATCCGAAT
1 GGTGATCTGAAT
55252274 ATGATGAATT
Statistics
Matches: 270, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 270 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
Found at i:55252071 original size:82 final size:82
Alignment explanation
Indices: 55251934--55252267 Score: 668
Period size: 82 Copynumber: 4.1 Consensus size: 82
55251924 GTTTGGAATT
55251934 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
55251999 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
55252016 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
55252081 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
55252098 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
55252163 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
55252180 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
55252245 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
55252262 GGTGAT
1 GGTGAT
55252268 CCGAATATGA
Statistics
Matches: 252, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 252 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:55255576 original size:19 final size:20
Alignment explanation
Indices: 55255541--55255583 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
55255531 ACCTTACATC
*
55255541 TTTCTTTCTCTTTTTTCT-T
1 TTTCTTTCTCTTCTTTCTGT
55255560 TTTCTTTCT-TTCCTTTCTGT
1 TTTCTTTCTCTT-CTTTCTGT
55255580 TTTC
1 TTTC
55255584 GTTTGGCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 14 0.67
20 5 0.24
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTCTTTCTCTTCTTTCTGT
Found at i:55270455 original size:11 final size:11
Alignment explanation
Indices: 55270441--55270566 Score: 73
Period size: 11 Copynumber: 12.4 Consensus size: 11
55270431 ATTTTTTTAA
55270441 TTTTAAAATAT
1 TTTTAAAATAT
55270452 TTTTAAAATACT
1 TTTTAAAATA-T
*
55270464 TTTT---TTAT
1 TTTTAAAATAT
*
55270472 TTTT--TA-AT
1 TTTTAAAATAT
55270480 -TTTAAAATAT
1 TTTTAAAATAT
55270490 TTTTAAAATACT
1 TTTTAAAATA-T
55270502 TTTTAAAAT-T
1 TTTTAAAATAT
*
55270512 TTTT----TAA
1 TTTTAAAATAT
55270519 TTTTAAAATAT
1 TTTTAAAATAT
55270530 TTTTAAAATACT
1 TTTTAAAATA-T
**
55270542 TTTT-TTA-AT
1 TTTTAAAATAT
55270551 TTTTAAAATAAT
1 TTTTAAAAT-AT
55270563 TTTT
1 TTTT
55270567 TGGTATTTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 31
0.69 0.07 0.24
Matches are distributed among these distances:
6 1 0.01
7 7 0.08
8 7 0.08
9 8 0.09
10 9 0.10
11 32 0.36
12 26 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:55270515 original size:40 final size:39
Alignment explanation
Indices: 55270424--55270554 Score: 219
Period size: 40 Copynumber: 3.3 Consensus size: 39
55270414 AATATATTTA
55270424 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
*
55270463 TTTTTTTA-TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
*
55270501 TTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTT-TAATTTTTTTAATTTTAAAATATTTTTAAAATAC
55270541 TTTTTTTAATTTTT
1 -TTTTTTAATTTTT
55270555 AAAATAATTT
Statistics
Matches: 85, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
38 35 0.41
39 8 0.09
40 37 0.44
41 5 0.06
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (39 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:55270567 original size:21 final size:21
Alignment explanation
Indices: 55270528--55270567 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
55270518 ATTTTAAAAT
*
55270528 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAATTTTTTTA
55270549 ATTTTTAAAATAATTTTTT
1 ATTTTTAAAATAATTTTTT
55270568 GGTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTAAAATAATTTTTTTA
Found at i:55272296 original size:42 final size:41
Alignment explanation
Indices: 55272176--55272296 Score: 136
Period size: 42 Copynumber: 2.9 Consensus size: 41
55272166 GTGTTAAATG
* * * *
55272176 GAAACCCATAAGGGTTGAGCGGAAGCTCATAAGAGCTGAAC
1 GAAACCCATTAGGGTTAAACGGAAGCTCATAAGAGTTGAAC
* *
55272217 GAAAACCCA-TAGGGGTTAAACGGAAGCTCAAAAGAGTTGAATT
1 G-AAACCCATTA-GGGTTAAACGGAAGCTCATAAGAGTTGAA-C
* *
55272260 GAAACCCATTAGGGTTAAACGGAAACTCATATGAGTT
1 GAAACCCATTAGGGTTAAACGGAAGCTCATAAGAGTT
55272297 AACTGGAGCT
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.03
42 62 0.93
43 3 0.04
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.19
Consensus pattern (41 bp):
GAAACCCATTAGGGTTAAACGGAAGCTCATAAGAGTTGAAC
Found at i:55276454 original size:13 final size:13
Alignment explanation
Indices: 55276436--55276460 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55276426 AAATTCAATG
55276436 TCAATTTCATATA
1 TCAATTTCATATA
55276449 TCAATTTCATAT
1 TCAATTTCATAT
55276461 CCAAACATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (13 bp):
TCAATTTCATATA
Found at i:55277365 original size:20 final size:20
Alignment explanation
Indices: 55277314--55277366 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
55277304 TAATAATAGA
* *
55277314 AATTTATCCGTATCAACAGT
1 AATTCATCCATATCAACAGT
* *
55277334 AA-CCTATACATATCAACAGT
1 AATTC-ATCCATATCAACAGT
55277354 AATTCATCCATAT
1 AATTCATCCATAT
55277367 AATTACATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.32
Consensus pattern (20 bp):
AATTCATCCATATCAACAGT
Found at i:55277573 original size:23 final size:23
Alignment explanation
Indices: 55277538--55277677 Score: 142
Period size: 23 Copynumber: 6.1 Consensus size: 23
55277528 CTGAGCTAAT
* **
55277538 AAACAGTAGGCTCTATTGAGCTG
1 AAACAGTAAGCTCTAACGAGCTG
* *
55277561 AAACGGTAAGCTCTGACGAGCT-
1 AAACAGTAAGCTCTAACGAGCTG
* *
55277583 AGACAGTAAGCTCTAACAAGCT-
1 AAACAGTAAGCTCTAACGAGCTG
*
55277605 AGACAGTAAGCTC-ATACGAGCTG
1 AAACAGTAAGCTCTA-ACGAGCTG
55277628 AAACAGTAAGCTCTAACGAGCTG
1 AAACAGTAAGCTCTAACGAGCTG
* * *
55277651 AAAACAATAGGCTCTTACGAGCTG
1 -AAACAGTAAGCTCTAACGAGCTG
55277675 AAA
1 AAA
55277678 TATCGGTAAG
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
21 1 0.01
22 37 0.37
23 40 0.40
24 21 0.21
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (23 bp):
AAACAGTAAGCTCTAACGAGCTG
Found at i:55277594 original size:22 final size:22
Alignment explanation
Indices: 55277566--55277649 Score: 116
Period size: 22 Copynumber: 3.8 Consensus size: 22
55277556 AGCTGAAACG
*
55277566 GTAAGCTCTGACGAGCTAGACA
1 GTAAGCTCTAACGAGCTAGACA
*
55277588 GTAAGCTCTAACAAGCTAGACA
1 GTAAGCTCTAACGAGCTAGACA
*
55277610 GTAAGCTC-ATACGAGCTGAAACA
1 GTAAGCTCTA-ACGAGCT-AGACA
55277633 GTAAGCTCTAACGAGCT
1 GTAAGCTCTAACGAGCT
55277650 GAAAACAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
21 1 0.02
22 34 0.62
23 19 0.35
24 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (22 bp):
GTAAGCTCTAACGAGCTAGACA
Found at i:55277664 original size:24 final size:24
Alignment explanation
Indices: 55277567--55277677 Score: 90
Period size: 22 Copynumber: 4.8 Consensus size: 24
55277557 GCTGAAACGG
* * *
55277567 TAAGCTCTGACGAGCT--AGACAG
1 TAAGCTCTAACGAGCTGAAAACAA
* * *
55277589 TAAGCTCTAACAAGCT--AGACAG
1 TAAGCTCTAACGAGCTGAAAACAA
*
55277611 TAAGCTC-ATACGAGCTG-AAACAG
1 TAAGCTCTA-ACGAGCTGAAAACAA
55277634 TAAGCTCTAACGAGCTGAAAACAA
1 TAAGCTCTAACGAGCTGAAAACAA
* *
55277658 TAGGCTCTTACGAGCTGAAA
1 TAAGCTCTAACGAGCTGAAA
55277678 TATCGGTAAG
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
21 1 0.01
22 33 0.42
23 20 0.26
24 24 0.31
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (24 bp):
TAAGCTCTAACGAGCTGAAAACAA
Found at i:55277933 original size:49 final size:49
Alignment explanation
Indices: 55277879--55277972 Score: 179
Period size: 49 Copynumber: 1.9 Consensus size: 49
55277869 ATCTATTCAT
55277879 TTAAATACATACATTTAAATACTCAATTCGCATACCTTCTCAAATTTAA
1 TTAAATACATACATTTAAATACTCAATTCGCATACCTTCTCAAATTTAA
*
55277928 TTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAAT
1 TTAAATACATACATTTAAATACTCAATTCGCATACCTTCTCAAAT
55277973 CACATATATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.40, C:0.20, G:0.02, T:0.37
Consensus pattern (49 bp):
TTAAATACATACATTTAAATACTCAATTCGCATACCTTCTCAAATTTAA
Found at i:55277999 original size:67 final size:67
Alignment explanation
Indices: 55277922--55278218 Score: 540
Period size: 67 Copynumber: 4.4 Consensus size: 67
55277912 ACCTTCTCAA
55277922 ATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCACATATATATAAT
1 ATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCACATATATATAAT
55277987 CG
66 CG
* *
55277989 ATTTAATTAAATACATGCATTTAAGTACTCAATTCGCATACTTTCTCAAATCACATATATATAAT
1 ATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCACATATATATAAT
55278054 CG
66 CG
* * *
55278056 ATTTAATTAAATACATACATTTAAATTCTCAAATCGCATACTTTCTCAAATCACATACATATAAT
1 ATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCACATATATATAAT
55278121 CG
66 CG
55278123 ATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCACATATATATAAT
1 ATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCACATATATATAAT
55278188 CG
66 CG
*
55278190 ATTTAATTAAATACATACATTTAATTACT
1 ATTTAATTAAATACATACATTTAAATACT
55278219 ATTGCAATTG
Statistics
Matches: 219, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 219 1.00
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (67 bp):
ATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCACATATATATAAT
CG
Found at i:55278103 original size:17 final size:17
Alignment explanation
Indices: 55278081--55278113 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
55278071 TACATTTAAA
*
55278081 TTCTCAAATCGCATACT
1 TTCTCAAATCACATACT
55278098 TTCTCAAATCACATAC
1 TTCTCAAATCACATAC
55278114 ATATAATCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.33
Consensus pattern (17 bp):
TTCTCAAATCACATACT
Found at i:55279211 original size:9 final size:9
Alignment explanation
Indices: 55279194--55279230 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
55279184 TGAGTTTTCG
55279194 AATTCGAAT
1 AATTCGAAT
*
55279203 AACTCGAAT
1 AATTCGAAT
55279212 AATTCGAAT
1 AATTCGAAT
55279221 AATTCGAAT
1 AATTCGAAT
55279230 A
1 A
55279231 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:55282467 original size:30 final size:30
Alignment explanation
Indices: 55282423--55282483 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
55282413 TCCTTATTAA
*
55282423 CCCACTAAAACACAACTACTCAGAATTTTG
1 CCCACTAAAACACAACTACTCAAAATTTTG
* *
55282453 CCCATTAAAGCACAACTACTCAAAATTTTG
1 CCCACTAAAACACAACTACTCAAAATTTTG
55282483 C
1 C
55282484 AAAAAATACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.30, G:0.07, T:0.25
Consensus pattern (30 bp):
CCCACTAAAACACAACTACTCAAAATTTTG
Found at i:55284393 original size:21 final size:21
Alignment explanation
Indices: 55284364--55284431 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
55284354 ACTCATTTGA
* *
55284364 GTTTTCGTTCAACCCTAATGG
1 GTTTCCGTTCAACCCTTATGG
* * *
55284385 GTTTCCGTTCAGCTCTTATGA
1 GTTTCCGTTCAACCCTTATGG
* *
55284406 GCTTCCCTTCAACCCTTATGG
1 GTTTCCGTTCAACCCTTATGG
55284427 GTTTC
1 GTTTC
55284432 TATTTAGCAC
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.15, C:0.28, G:0.18, T:0.40
Consensus pattern (21 bp):
GTTTCCGTTCAACCCTTATGG
Found at i:55284445 original size:42 final size:42
Alignment explanation
Indices: 55284371--55284452 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
55284361 TGAGTTTTCG
* *
55284371 TTCAACCCTAATGGGTTTCCGTTCAGCTCTTATGAGCTTCCC
1 TTCAACCCTAATGGGTTTCCATTCAGCACTTATGAGCTTCCC
* * * *
55284413 TTCAACCCTTATGGGTTTCTATTTAGCACTTATGTGCTTC
1 TTCAACCCTAATGGGTTTCCATTCAGCACTTATGAGCTTC
55284453 TGTTCAGCCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.17, C:0.27, G:0.16, T:0.40
Consensus pattern (42 bp):
TTCAACCCTAATGGGTTTCCATTCAGCACTTATGAGCTTCCC
Found at i:55287429 original size:2 final size:2
Alignment explanation
Indices: 55287424--55287468 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
55287414 TATATATATA
55287424 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
55287466 TG T
1 TG T
55287469 TTTATTATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:55288080 original size:21 final size:20
Alignment explanation
Indices: 55288040--55288080 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
55288030 CCCCTGCACC
*
55288040 TTTGAAAATTCTCCATGTTT
1 TTTGAAAATTCTCCAAGTTT
*
55288060 TTTGAAAAATTCTCTAAGTTT
1 TTTG-AAAATTCTCCAAGTTT
55288081 CCGGTGTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (20 bp):
TTTGAAAATTCTCCAAGTTT
Found at i:55302512 original size:30 final size:31
Alignment explanation
Indices: 55302478--55302535 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
55302468 CTTTATAGTT
*
55302478 TTTTAGGAGGAG-TAAATCAAAATTTTATTA
1 TTTTAAGAGGAGATAAATCAAAATTTTATTA
* * *
55302508 TTTTAAGAGGGGATAAATTATAATTTTA
1 TTTTAAGAGGAGATAAATCAAAATTTTA
55302536 CCATGTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 10 0.43
31 13 0.57
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.41
Consensus pattern (31 bp):
TTTTAAGAGGAGATAAATCAAAATTTTATTA
Found at i:55310594 original size:50 final size:50
Alignment explanation
Indices: 55310519--55310624 Score: 212
Period size: 50 Copynumber: 2.1 Consensus size: 50
55310509 ATAGGCAAAG
55310519 AAAAAAAAACACTATTTTTAGAATTTTTATTAAATTCACAATATTTGTAT
1 AAAAAAAAACACTATTTTTAGAATTTTTATTAAATTCACAATATTTGTAT
55310569 AAAAAAAAACACTATTTTTAGAATTTTTATTAAATTCACAATATTTGTAT
1 AAAAAAAAACACTATTTTTAGAATTTTTATTAAATTCACAATATTTGTAT
55310619 AAAAAA
1 AAAAAA
55310625 TTATAAATAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.40
Consensus pattern (50 bp):
AAAAAAAAACACTATTTTTAGAATTTTTATTAAATTCACAATATTTGTAT
Found at i:55313943 original size:16 final size:16
Alignment explanation
Indices: 55313922--55313952 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
55313912 TTATACATTA
55313922 GCATGAGGTACATGCG
1 GCATGAGGTACATGCG
55313938 GCATGAGGTACATGC
1 GCATGAGGTACATGC
55313953 AACTTTTACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.35, T:0.19
Consensus pattern (16 bp):
GCATGAGGTACATGCG
Found at i:55316946 original size:17 final size:17
Alignment explanation
Indices: 55316900--55316946 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
55316890 TGAAAAGCCA
55316900 AAAACCCGAAAATAACTC
1 AAAACCCG-AAATAACTC
* * *
55316918 AAAACTCAAAATAACTT
1 AAAACCCGAAATAACTC
55316935 AAAACCCGAAAT
1 AAAACCCGAAAT
55316947 GAGCTAAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.57, C:0.23, G:0.04, T:0.15
Consensus pattern (17 bp):
AAAACCCGAAATAACTC
Found at i:55325684 original size:3 final size:3
Alignment explanation
Indices: 55325676--55325716 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
55325666 TATACACACA
55325676 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
55325717 ATAGACTCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:55325830 original size:20 final size:18
Alignment explanation
Indices: 55325800--55325836 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 18
55325790 TTTTTCAATA
55325800 TTTAGAAAAATAAGTAGAT
1 TTTAGAAAAATAA-TAGAT
55325819 TTTAGAAAAAATAATAGA
1 TTTAG-AAAAATAATAGA
55325837 AAAGACAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.30
Consensus pattern (18 bp):
TTTAGAAAAATAATAGAT
Found at i:55335966 original size:12 final size:12
Alignment explanation
Indices: 55335949--55335979 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
55335939 AACCACACGC
55335949 CCGTGTGCATAA
1 CCGTGTGCATAA
55335961 CCGTGTGCATAA
1 CCGTGTGCATAA
55335973 CCGTGTG
1 CCGTGTG
55335980 TCACGAGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.26
Consensus pattern (12 bp):
CCGTGTGCATAA
Found at i:55337078 original size:23 final size:23
Alignment explanation
Indices: 55337026--55337121 Score: 66
Period size: 25 Copynumber: 4.0 Consensus size: 23
55337016 GCCAATAATC
* *
55337026 GGGAAGCTCAAGATAGTCATATATT
1 GGGAAGCTCAAGAGAG-C-CATATT
* * *
55337051 TGGAAGTTCAAGCGAGCCATATT
1 GGGAAGCTCAAGAGAGCCATATT
* *
55337074 GGGAAGCTCTAGAGAGCCATTAATC
1 GGGAAGCTCAAGAGAGCCA-T-ATT
* *
55337099 AGGAAGCTCACGAAGAGCCATAT
1 GGGAAGCTCAAG-AGAGCCATAT
55337122 AACGGGACAC
Statistics
Matches: 55, Mismatches: 13, Indels: 7
0.73 0.17 0.09
Matches are distributed among these distances:
23 20 0.36
24 4 0.07
25 24 0.44
26 7 0.13
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (23 bp):
GGGAAGCTCAAGAGAGCCATATT
Found at i:55341395 original size:15 final size:15
Alignment explanation
Indices: 55341375--55341403 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
55341365 GGTTAAAATG
55341375 TGATCTAGTAATAAA
1 TGATCTAGTAATAAA
55341390 TGATCTAGTAATAA
1 TGATCTAGTAATAA
55341404 CAAAATGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (15 bp):
TGATCTAGTAATAAA
Found at i:55355158 original size:21 final size:21
Alignment explanation
Indices: 55355132--55355175 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
55355122 GAAGGCTAAT
55355132 TTAGGCCTCACATATATTGGG
1 TTAGGCCTCACATATATTGGG
55355153 TTAGGCCTCACATATATTGGG
1 TTAGGCCTCACATATATTGGG
55355174 TT
1 TT
55355176 CAATTATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (21 bp):
TTAGGCCTCACATATATTGGG
Found at i:55361607 original size:34 final size:34
Alignment explanation
Indices: 55361569--55361634 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
55361559 CTCTAATAAA
55361569 TGATAGAATTAAAAGTTATTATGTGATAAAATTG
1 TGATAGAATTAAAAGTTATTATGTGATAAAATTG
*
55361603 TGATATAATTAAAAGTTATTATGTGATAAAAT
1 TGATAGAATTAAAAGTTATTATGTGATAAAAT
55361635 CGTGCTTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (34 bp):
TGATAGAATTAAAAGTTATTATGTGATAAAATTG
Found at i:55361632 original size:17 final size:17
Alignment explanation
Indices: 55361578--55361633 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
55361568 ATGATAGAAT
55361578 TAAAAGTTATTATGTGA
1 TAAAAGTTATTATGTGA
* * * *
55361595 TAAAA-TTGTGATATAA
1 TAAAAGTTATTATGTGA
55361611 TTAAAAGTTATTATGTGA
1 -TAAAAGTTATTATGTGA
55361629 TAAAA
1 TAAAA
55361634 TCGTGCTTTG
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
16 7 0.24
17 15 0.52
18 7 0.24
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.39
Consensus pattern (17 bp):
TAAAAGTTATTATGTGA
Found at i:55365843 original size:23 final size:22
Alignment explanation
Indices: 55365812--55365866 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
55365802 ATGTTCTTCT
* *
55365812 AAAATTATTATTACACAA-ATCAA
1 AAAAATATT-TTACAAAACATC-A
*
55365835 AAAAATATTTTATAAAACATCA
1 AAAAATATTTTACAAAACATCA
55365857 AAAAATATTT
1 AAAAATATTT
55365867 ATAAATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAATATTTTACAAAACATCA
Found at i:55370728 original size:17 final size:17
Alignment explanation
Indices: 55370703--55370741 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
55370693 TTAGAAAGTG
55370703 AAATAATAAAA-AATGA
1 AAATAATAAAATAATGA
*
55370719 TAAATGATAAAATAATGA
1 -AAATAATAAAATAATGA
55370737 AAATA
1 AAATA
55370742 TCATCATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (17 bp):
AAATAATAAAATAATGA
Found at i:55371180 original size:24 final size:24
Alignment explanation
Indices: 55371129--55371174 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
55371119 CAGCTCGAAA
* *
55371129 GAGCATCACGTTATTATCTCTCAT
1 GAGCATCACGTTATTAGCCCTCAT
55371153 GAGCATCACGTTATTAGCCCTC
1 GAGCATCACGTTATTAGCCCTC
55371175 TCGAGCTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (24 bp):
GAGCATCACGTTATTAGCCCTCAT
Found at i:55371302 original size:25 final size:25
Alignment explanation
Indices: 55371274--55371527 Score: 99
Period size: 25 Copynumber: 10.2 Consensus size: 25
55371264 ACACACCACA
*
55371274 GCTCTTATGAGCGTCCCGATATATG
1 GCTCTTATGAGCTTCCCGATATATG
* *
55371299 GCTCTTAGTGAGCTTCCCAAT-TAAAG
1 GCTCTTA-TGAGCTTCCCGATAT-ATG
* *
55371325 GCTCTTTGTGAACTTCCCGATATATG
1 GCTC-TTATGAGCTTCCCGATATATG
* *
55371351 GCTCTCT-GGAGCTTCCAGATAT-TG
1 GCTCT-TATGAGCTTCCCGATATATG
* *
55371375 GCTCGCTTA--AACTTCCTGATATATG
1 GCT--CTTATGAGCTTCCCGATATATG
* ** * *
55371400 GCTATTCGGAGCTTTCTGAT-TATTG
1 GCTCTTATGAGCTTCCCGATATA-TG
*** * * *
55371425 GCTCACGTGAACTTTCTGAT-TATG
1 GCTCTTATGAGCTTCCCGATATATG
* * **
55371449 GCTTTTATGAGCTTCCCGTTATACA
1 GCTCTTATGAGCTTCCCGATATATG
* ** * * *
55371474 GCCCGGATAAGCTTCCCGTTACATG
1 GCTCTTATGAGCTTCCCGATATATG
** *
55371499 GCTCACATGAGCTTCCCGTTATATG
1 GCTCTTATGAGCTTCCCGATATATG
55371524 GCTC
1 GCTC
55371528 GAGAGAGAGC
Statistics
Matches: 171, Mismatches: 45, Indels: 26
0.71 0.19 0.11
Matches are distributed among these distances:
23 2 0.01
24 32 0.19
25 97 0.57
26 37 0.22
27 3 0.02
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (25 bp):
GCTCTTATGAGCTTCCCGATATATG
Found at i:55371316 original size:26 final size:26
Alignment explanation
Indices: 55371274--55371378 Score: 103
Period size: 26 Copynumber: 4.2 Consensus size: 26
55371264 ACACACCACA
*
55371274 GCTCTTA-TGAGCGTCCCGATATATG
1 GCTCTTAGTGAGCTTCCCGATATATG
* *
55371299 GCTCTTAGTGAGCTTCCCAAT-TAAAG
1 GCTCTTAGTGAGCTTCCCGATAT-ATG
* *
55371325 GCTCTTTGTGAACTTCCCGATATATG
1 GCTCTTAGTGAGCTTCCCGATATATG
*
55371351 GCTCTCT-G-GAGCTTCCAGATAT-TG
1 GCTCT-TAGTGAGCTTCCCGATATATG
55371375 GCTC
1 GCTC
55371379 GCTTAAACTT
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
24 6 0.09
25 20 0.30
26 39 0.58
27 2 0.03
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (26 bp):
GCTCTTAGTGAGCTTCCCGATATATG
Found at i:55371389 original size:24 final size:25
Alignment explanation
Indices: 55371335--55371402 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 25
55371325 GCTCTTTGTG
* * *
55371335 AACTTCCCGATATATGGCTCTCTGG
1 AACTTCCAGATATATGGCTCGCTGA
* *
55371360 AGCTTCCAGATAT-TGGCTCGCTTA
1 AACTTCCAGATATATGGCTCGCTGA
*
55371384 AACTTCCTGATATATGGCT
1 AACTTCCAGATATATGGCT
55371403 ATTCGGAGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
24 19 0.54
25 16 0.46
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (25 bp):
AACTTCCAGATATATGGCTCGCTGA
Found at i:55371401 original size:49 final size:50
Alignment explanation
Indices: 55371335--55371451 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 50
55371325 GCTCTTTGTG
* * * *
55371335 AACTTCCCGATATATGGCT-CTCTGGAGCTTCCAGA-TATTGGCTCGCTTA
1 AACTTCCTGATATATGGCTATTC-GGAGCTTCCAGATTATTGGCTCACGTA
* * *
55371384 AACTTCCTGATATATGGCTATTCGGAGCTTTCTGATTATTGGCTCACGTG
1 AACTTCCTGATATATGGCTATTCGGAGCTTCCAGATTATTGGCTCACGTA
*
55371434 AACTTTCTGAT-TATGGCT
1 AACTTCCTGATATATGGCT
55371452 TTTATGAGCT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 35 0.60
50 23 0.40
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (50 bp):
AACTTCCTGATATATGGCTATTCGGAGCTTCCAGATTATTGGCTCACGTA
Found at i:55373601 original size:14 final size:14
Alignment explanation
Indices: 55373543--55373601 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 14
55373533 CTTATCTATT
*
55373543 TTATTATTATGATA
1 TTATTATTATAATA
*
55373557 TGATTA--ATAATA
1 TTATTATTATAATA
55373569 TTATTATTATTACATTA
1 TTATTATTA-TA-A-TA
*
55373586 TTGTTATTATAATA
1 TTATTATTATAATA
55373600 TT
1 TT
55373602 CCCTTATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
12 10 0.28
14 10 0.28
15 3 0.08
16 3 0.08
17 10 0.28
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (14 bp):
TTATTATTATAATA
Found at i:55379015 original size:13 final size:13
Alignment explanation
Indices: 55378977--55379015 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
55378967 TCACAAAAAA
*
55378977 TTTATAATTTATTT
1 TTTATAATTT-TTG
*
55378991 TTTATAAATTTTG
1 TTTATAATTTTTG
55379004 TTTATAATTTTT
1 TTTATAATTTTT
55379016 CTGTTTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTATAATTTTTG
Found at i:55383488 original size:23 final size:22
Alignment explanation
Indices: 55383433--55383488 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
55383423 AGATATTTTG
55383433 AATA-ATTTAT-TTAATTAAAT
1 AATATATTTATATTAATTAAAT
*
55383453 AATATATTAATATTAATTAAATT
1 AATATATTTATATTAATTAAA-T
* *
55383476 AATTTTTTTATAT
1 AATATATTTATAT
55383489 ATTTTAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 4 0.14
21 5 0.17
22 9 0.31
23 11 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AATATATTTATATTAATTAAAT
Found at i:55388514 original size:100 final size:99
Alignment explanation
Indices: 55388410--55388623 Score: 227
Period size: 100 Copynumber: 2.1 Consensus size: 99
55388400 ATGTTACATG
* * * *
55388410 ATAAGATATTCATTTAGTAAGGCCTACACC-AAGTTTGATCAACT-AGCATCTTATTACATCTTA
1 ATAAGATATT-ATTAAGTAAGGCCTACACCAAAATTT-ATCAACTGA-CATCTTATCACATCTCA
* *
55388473 ATAAAATTC-TCTATGATCTTACTACAAACCTTACACA
63 ACAAAATTCTTC-ATGACCTTACTACAAACCTTACACA
* * * *
55388510 ATAAGATACTTATTAAGTAGGGTCTACACCAAAATTTATCAAGTGACATTTTATCACATCTCAAC
1 ATAAGATA-TTATTAAGTAAGGCCTACACCAAAATTTATCAACTGACATCTTATCACATCTCAAC
** *
55388575 CGAATTCTTCATGACCTTACTACAAACCTTACATA
65 AAAATTCTTCATGACCTTACTACAAACCTTACACA
*
55388610 ATAAAATATCTATT
1 ATAAGATAT-TATT
55388624 TTGTGAGGTT
Statistics
Matches: 95, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
99 1 0.01
100 84 0.88
101 10 0.11
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (99 bp):
ATAAGATATTATTAAGTAAGGCCTACACCAAAATTTATCAACTGACATCTTATCACATCTCAACA
AAATTCTTCATGACCTTACTACAAACCTTACACA
Found at i:55401234 original size:16 final size:18
Alignment explanation
Indices: 55401195--55401228 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55401185 TAAGTTTATA
55401195 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
55401212 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
55401229 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:55401400 original size:22 final size:22
Alignment explanation
Indices: 55401354--55401396 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
55401344 ATAAATTTAT
*
55401354 TAAATATTAAAATAATATAACA
1 TAAATATTAAAATAATATAAAA
55401376 TAAATATTTAAAA-AAT-TAAAA
1 TAAATA-TTAAAATAATATAAAA
55401397 ATAATATGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATATTAAAATAATATAAAA
Found at i:55403257 original size:27 final size:28
Alignment explanation
Indices: 55403214--55403267 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
55403204 AAATTTTATT
*
55403214 AAATTTAAGTACCAAATT-AGAAAAAAA
1 AAATTTAAATACCAAATTAAGAAAAAAA
*
55403241 AAATTTAAATACTAAATTAAGAAAAAA
1 AAATTTAAATACCAAATTAAGAAAAAA
55403268 TGTCGAGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (28 bp):
AAATTTAAATACCAAATTAAGAAAAAAA
Found at i:55405578 original size:30 final size:30
Alignment explanation
Indices: 55405544--55405606 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
55405534 CCACCTCCCT
* *
55405544 TATGGAGGCGATGGAAATGGTCCTCATATA
1 TATGGAGGCAATGGAAATGGACCTCATATA
*
55405574 TATGGAGGCAATGGAAATGGACCTCATGTA
1 TATGGAGGCAATGGAAATGGACCTCATATA
55405604 TAT
1 TAT
55405607 ATACATATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.27
Consensus pattern (30 bp):
TATGGAGGCAATGGAAATGGACCTCATATA
Found at i:55408078 original size:12 final size:11
Alignment explanation
Indices: 55408063--55408108 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 11
55408053 CAAATAAATT
*
55408063 AAAATTTATAA
1 AAAAATTATAA
*
55408074 AAAAA-AAT-A
1 AAAAATTATAA
55408083 AAAAATTATAAA
1 AAAAATTAT-AA
55408095 AAAAATTATAA
1 AAAAATTATAA
55408106 AAA
1 AAA
55408109 TTCAAGAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 6 0.21
10 4 0.14
11 9 0.31
12 10 0.34
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:55408086 original size:20 final size:20
Alignment explanation
Indices: 55408058--55408110 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
55408048 ATTAACAAAT
*
55408058 AAATTAAAATTTATAAAAAA
1 AAATAAAAATTTATAAAAAA
*
55408078 AAATAAAAAATTATAAAAAA
1 AAATAAAAATTTATAAAAAA
55408098 AATTATAAAAATT
1 AA--ATAAAAATT
55408111 CAAGAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 20 0.71
22 8 0.29
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATAAAAATTTATAAAAAA
Found at i:55416191 original size:146 final size:146
Alignment explanation
Indices: 55415927--55416225 Score: 544
Period size: 146 Copynumber: 2.0 Consensus size: 146
55415917 TACAAGTAGC
55415927 ATTTCCCTAATTGAAATGCACTTCCTAACTCCAAACCATCTCAACTAAATAAAATGCATATAAAA
1 ATTTCCCTAATTGAAATGCACTTCCTAACTCCAAACCATCTCAACTAAATAAAATGCATATAAAA
* *
55415992 TCTACCGATCATCGAATCAAGCATAAAAATTACCTACATTGCATCTACTAAAACCGAACGAATTT
66 TCTACCGATCATCGAATCAAGCATAAAAATTACCTACATTGCATCTACTAAAACCGAACAAATCT
55416057 AAGCTTAAAAACTCAA
131 AAGCTTAAAAACTCAA
*
55416073 ATTTCCCTAATTGAAATGCACTTCCTAACTCCGAACCATCTCAACTAAATAAAATGCATATAAAA
1 ATTTCCCTAATTGAAATGCACTTCCTAACTCCAAACCATCTCAACTAAATAAAATGCATATAAAA
* * *
55416138 TCTACCGATCATTGAATTAAGCATAAAAATTACTTACATTGCATCTACTAAAACCGAACAAATCT
66 TCTACCGATCATCGAATCAAGCATAAAAATTACCTACATTGCATCTACTAAAACCGAACAAATCT
55416203 AAGCTTAAAAACTCAA
131 AAGCTTAAAAACTCAA
55416219 ATTTCCC
1 ATTTCCC
55416226 AGATCAAATT
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
146 147 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (146 bp):
ATTTCCCTAATTGAAATGCACTTCCTAACTCCAAACCATCTCAACTAAATAAAATGCATATAAAA
TCTACCGATCATCGAATCAAGCATAAAAATTACCTACATTGCATCTACTAAAACCGAACAAATCT
AAGCTTAAAAACTCAA
Found at i:55423459 original size:174 final size:181
Alignment explanation
Indices: 55423169--55423666 Score: 706
Period size: 188 Copynumber: 2.8 Consensus size: 181
55423159 GATATGTGTG
** * * *
55423169 TGTGTGTTGAAAATATCTAACACACACAAAACCAACCCAGTCTAGAGTACATCGGAA-TATAATA
1 TGTGTGTTGAAAATATCTAACACACACAAAACCAGGCCAATCTAGAGTACATC-CAACTATAACA
* **
55423233 AAAGCCCCAATTAGTATAACTACTAATCTCATTTAAGTTCACCTTCTTTTCTCTGCTTTAGGGGC
65 AAAGCCCCAATTAGTATAACTACTAATCTCATTTAAGTTCATCTTCTTTTCTCCACTTTAGGGGC
55423298 AAAGCATGCAGC-ATAT-TATA-TA-TA-TATGCA-TATGTATATTATC-TC
130 AAAGCATGCAGCTATATATATAGTAGTAGTATGCAGTATGTATATTATCGTC
*
55423343 TGTGTGTTGAAAATATCTAACACACACAAAACCAGGCAAATCTAGAGTACATCCAACTATAACAA
1 TGTGTGTTGAAAATATCTAACACACACAAAACCAGGCCAATCTAGAGTACATCCAACTATAACAA
* *
55423408 AAGCCCCAATTAATATAACTACTAAACTCATTTAAGTTCATCTTCTTTTCTCCACTTTAGGGGCA
66 AAGCCCCAATTAGTATAACTACTAATCTCATTTAAGTTCATCTTCTTTTCTCCACTTTAGGGGCA
* * *
55423473 AAGCGTGCAGCATTATATATATATGTATGTATGTATGTATGTATGTATATTATCTGTG
131 AAGCATGCAGC--TATATATATA-GTA-GTA-GTATGCA-GTATGTATATTATC-GTC
* *
55423531 TGTGTGTTGAAAATATGTAACACACACAAAATCAGGCCAATCTAGAGTACATCCAACTATAACAA
1 TGTGTGTTGAAAATATCTAACACACACAAAACCAGGCCAATCTAGAGTACATCCAACTATAACAA
* *
55423596 AAGCCCCAATTAGTGTAACTACTAATCTCATTTAAGTTCATCTTCTTTTCTCCACTTTAGGGGAA
66 AAGCCCCAATTAGTATAACTACTAATCTCATTTAAGTTCATCTTCTTTTCTCCACTTTAGGGGCA
55423661 AAGCAT
131 AAGCAT
55423667 ACCTAATAGT
Statistics
Matches: 287, Mismatches: 22, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
173 2 0.01
174 126 0.44
177 4 0.01
178 4 0.01
180 2 0.01
182 2 0.01
184 5 0.02
186 13 0.05
188 129 0.45
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (181 bp):
TGTGTGTTGAAAATATCTAACACACACAAAACCAGGCCAATCTAGAGTACATCCAACTATAACAA
AAGCCCCAATTAGTATAACTACTAATCTCATTTAAGTTCATCTTCTTTTCTCCACTTTAGGGGCA
AAGCATGCAGCTATATATATAGTAGTAGTATGCAGTATGTATATTATCGTC
Found at i:55423501 original size:4 final size:4
Alignment explanation
Indices: 55423494--55423520 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
55423484 ATTATATATA
55423494 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
55423521 ATTATCTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:55424310 original size:15 final size:15
Alignment explanation
Indices: 55424290--55424318 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
55424280 AAGGTAAATA
55424290 ATTGTCTAATTAATT
1 ATTGTCTAATTAATT
55424305 ATTGTCTAATTAAT
1 ATTGTCTAATTAAT
55424319 CATTTAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (15 bp):
ATTGTCTAATTAATT
Found at i:55438115 original size:55 final size:55
Alignment explanation
Indices: 55438025--55438150 Score: 186
Period size: 55 Copynumber: 2.3 Consensus size: 55
55438015 CTTTTTTTCA
*
55438025 AAGCAA-GGTTTCGGGTTCAAGTATTTGTGAGATGGTGAGGAATTTGGTACCTTT
1 AAGCAAGGGTTTCGGGTTCAAGTAATTGTGAGATGGTGAGGAATTTGGTACCTTT
* * *
55438079 AAGGC-AGGGTTTCGGGTTCAAGTAATTGTGAGATGGTTAGGAGTTTGGTACTTTT
1 AA-GCAAGGGTTTCGGGTTCAAGTAATTGTGAGATGGTGAGGAATTTGGTACCTTT
55438134 AAGCAAGGG-TTCGGGTT
1 AAGCAAGGGTTTCGGGTT
55438151 TGAGTGTTCT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
54 13 0.20
55 52 0.80
ACGTcount: A:0.23, C:0.09, G:0.34, T:0.34
Consensus pattern (55 bp):
AAGCAAGGGTTTCGGGTTCAAGTAATTGTGAGATGGTGAGGAATTTGGTACCTTT
Found at i:55444224 original size:20 final size:21
Alignment explanation
Indices: 55444184--55444225 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
55444174 AAAACTGTGA
*
55444184 TTCCACATCATCCCTATCCCT
1 TTCCACATCATCCCAATCCCT
55444205 TTCCACATCAT-CCAATCCCT
1 TTCCACATCATCCCAATCCCT
55444225 T
1 T
55444226 CTCGAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.21, C:0.45, G:0.00, T:0.33
Consensus pattern (21 bp):
TTCCACATCATCCCAATCCCT
Found at i:55448175 original size:19 final size:19
Alignment explanation
Indices: 55448151--55448188 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
55448141 TGGCTAAGGT
55448151 AATAGTGATTCCTCTGTTA
1 AATAGTGATTCCTCTGTTA
55448170 AATAGTGATTCCTCTGTTA
1 AATAGTGATTCCTCTGTTA
55448189 TTTTTTAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (19 bp):
AATAGTGATTCCTCTGTTA
Found at i:55450442 original size:47 final size:47
Alignment explanation
Indices: 55450389--55450482 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
55450379 AGTTAAATTG
*
55450389 ATACAAGATGTAAATATTAGAAAGCTAAATTTTTATCATTATGTCAT
1 ATACAAGATGTAAATATTAGAAAACTAAATTTTTATCATTATGTCAT
*
55450436 ATACAAGATGTAAATATTAGAAAATTAAATTTTTATCATTATGTCAT
1 ATACAAGATGTAAATATTAGAAAACTAAATTTTTATCATTATGTCAT
55450483 TTTTAAAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (47 bp):
ATACAAGATGTAAATATTAGAAAACTAAATTTTTATCATTATGTCAT
Found at i:55467559 original size:2 final size:2
Alignment explanation
Indices: 55467552--55467580 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
55467542 TTTTAAAATT
55467552 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55467581 GTAAAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55468958 original size:4 final size:4
Alignment explanation
Indices: 55468949--55468981 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
55468939 ATGGTATGTC
55468949 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
55468982 TGTATATGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:55476717 original size:23 final size:23
Alignment explanation
Indices: 55476687--55476730 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
55476677 ATTTTTTAAA
55476687 AATATTT-ATATTATGTTTAATTT
1 AATATTTAATATTAT-TTTAATTT
*
55476710 AATATTTAATTTTATTTTAAT
1 AATATTTAATATTATTTTAAT
55476731 AAAAAACTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
AATATTTAATATTATTTTAATTT
Found at i:55496838 original size:20 final size:20
Alignment explanation
Indices: 55496801--55496840 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
55496791 TGTAAAATGA
*
55496801 TTTTTGAAAAAAGTTTTACT
1 TTTTTGAAAAAAGATTTACT
* *
55496821 TTTTTGTAAAATGATTTACT
1 TTTTTGAAAAAAGATTTACT
55496841 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (20 bp):
TTTTTGAAAAAAGATTTACT
Found at i:55499238 original size:12 final size:12
Alignment explanation
Indices: 55499218--55499247 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
55499208 TTTATACTTT
*
55499218 TTTAAATATTTG
1 TTTATATATTTG
55499230 TTTATATATTTG
1 TTTATATATTTG
55499242 TTTATA
1 TTTATA
55499248 ATACTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (12 bp):
TTTATATATTTG
Found at i:55503215 original size:20 final size:20
Alignment explanation
Indices: 55503187--55503229 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
55503177 GATCCATGGA
* *
55503187 GTGATCGACAGTGGTCAGCG
1 GTGAACGACAGTGGTCAGAG
* *
55503207 GTGAACGACGGTTGTCAGAG
1 GTGAACGACAGTGGTCAGAG
55503227 GTG
1 GTG
55503230 TTTGGAGGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.42, T:0.21
Consensus pattern (20 bp):
GTGAACGACAGTGGTCAGAG
Found at i:55503517 original size:6 final size:5
Alignment explanation
Indices: 55503493--55503549 Score: 78
Period size: 5 Copynumber: 10.6 Consensus size: 5
55503483 AACCTTTTTT
55503493 TTTCA TTTCA TTTCA TTTCCA TTTCTA TTTCCA TTTCA TTTCA TTTCCA
1 TTTCA TTTCA TTTCA TTT-CA TTTC-A TTT-CA TTTCA TTTCA TTT-CA
55503542 TTTCA TTT
1 TTTCA TTT
55503550 AAATTATTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
5 29 0.60
6 18 0.38
7 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:55503527 original size:28 final size:27
Alignment explanation
Indices: 55503496--55503549 Score: 99
Period size: 28 Copynumber: 2.0 Consensus size: 27
55503486 CTTTTTTTTT
55503496 CATTTCATTTCATTTCCATTTCTATTTC
1 CATTTCATTTCATTTCCATTTC-ATTTC
55503524 CATTTCATTTCATTTCCATTTCATTT
1 CATTTCATTTCATTTCCATTTCATTT
55503550 AAATTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.19, C:0.24, G:0.00, T:0.57
Consensus pattern (27 bp):
CATTTCATTTCATTTCCATTTCATTTC
Found at i:55503568 original size:20 final size:21
Alignment explanation
Indices: 55503544--55503605 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 21
55503534 CATTTCCATT
55503544 TCATTTAAATTATTTTTTTTC
1 TCATTTAAATTATTTTTTTTC
*
55503565 -CATTTAAATTTAATTTTTTTC
1 TCATTTAAA-TTATTTTTTTTC
*
55503586 TCATTTCAAAATATTTTTTT
1 TCATTT-AAATTATTTTTTT
55503606 CATTTCAGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 8 0.23
21 11 0.31
22 13 0.37
23 3 0.09
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (21 bp):
TCATTTAAATTATTTTTTTTC
Found at i:55503579 original size:25 final size:24
Alignment explanation
Indices: 55503536--55503584 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
55503526 TTTCATTTCA
*
55503536 TTTCCATTTCATTTAAATTATTTTT
1 TTTCCATTTAATTTAAATT-TTTTT
55503561 TTTCCATTTAAATTT-AATTTTTTT
1 TTTCCATTT-AATTTAAATTTTTTT
55503585 CTCATTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 13 0.59
26 4 0.18
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTCCATTTAATTTAAATTTTTTT
Found at i:55503583 original size:21 final size:21
Alignment explanation
Indices: 55503544--55503606 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
55503534 CATTTCCATT
*
55503544 TCATTTAAATTATTTTTTTTC
1 TCATTTAAATTAATTTTTTTC
55503565 -CATTTAAATTTAATTTTTTTC
1 TCATTTAAA-TTAATTTTTTTC
*
55503586 TCATTTCAAAAT-ATTTTTTTC
1 TCATTT-AAATTAATTTTTTTC
55503607 ATTTCAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 8 0.22
21 20 0.54
22 6 0.16
23 3 0.08
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (21 bp):
TCATTTAAATTAATTTTTTTC
Found at i:55503677 original size:28 final size:28
Alignment explanation
Indices: 55503645--55503756 Score: 82
Period size: 28 Copynumber: 3.8 Consensus size: 28
55503635 ATAATTTATT
*
55503645 TTCATTTAA-ACTTTCATTCCATTTCATA
1 TTCATTTAACA-TTTCATTCCATTTAATA
*
55503673 TTCATTTAACATTTCATTTCATTTAATA
1 TTCATTTAACATTTCATTCCATTTAATA
* * * * *
55503701 TCCATTACAAAATACATTACATTACATTTCATA
1 TTCATT----TA-ACATTTCATTCCATTTAATA
* *
55503734 TTTATTTAACATTTCATTTCATT
1 TTCATTTAACATTTCATTCCATT
55503757 AATTTTTTTC
Statistics
Matches: 66, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
28 42 0.64
29 2 0.03
32 1 0.02
33 21 0.32
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (28 bp):
TTCATTTAACATTTCATTCCATTTAATA
Found at i:55503695 original size:17 final size:18
Alignment explanation
Indices: 55503664--55503698 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
55503654 ACTTTCATTC
55503664 CATTTCATATTCATTTAA
1 CATTTCATATTCATTTAA
55503682 CATTTCAT-TTCATTTAA
1 CATTTCATATTCATTTAA
55503699 TATCCATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.51
Consensus pattern (18 bp):
CATTTCATATTCATTTAA
Found at i:55503848 original size:15 final size:16
Alignment explanation
Indices: 55503828--55503866 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
55503818 AGTAGTCTCA
55503828 TTTCAATTT-ATCTTT
1 TTTCAATTTAATCTTT
*
55503843 TTTCAATTTAATTTTT
1 TTTCAATTTAATCTTT
55503859 TTTCAATT
1 TTTCAATT
55503867 CATTTCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTCAATTTAATCTTT
Found at i:55503871 original size:15 final size:15
Alignment explanation
Indices: 55503828--55503871 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
55503818 AGTAGTCTCA
* *
55503828 TTTCAATTTATCTTT
1 TTTCAATTAATTTTT
55503843 TTTCAATTTAATTTTT
1 TTTCAA-TTAATTTTT
*
55503859 TTTCAATTCATTT
1 TTTCAATTAATTT
55503872 CATATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTCAATTAATTTTT
Found at i:55503956 original size:20 final size:21
Alignment explanation
Indices: 55503915--55503956 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
55503905 TATTAGTGTC
*
55503915 ATTTAAAATTTTTCATATTTT
1 ATTTAAAATTTTTCATAATTT
55503936 ATTT-AAATTTTTC-TCAATTT
1 ATTTAAAATTTTTCAT-AATTT
55503956 A
1 A
55503957 AATATCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 1 0.05
20 14 0.74
21 4 0.21
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAAAATTTTTCATAATTT
Found at i:55504189 original size:17 final size:16
Alignment explanation
Indices: 55504149--55504260 Score: 113
Period size: 17 Copynumber: 6.8 Consensus size: 16
55504139 CTGTCCTCTA
* *
55504149 TTCT-TTTCTTTTTTT
1 TTCTATTTCATTTTAT
55504164 TTC-ATTTCATTTCTAT
1 TTCTATTTCATTT-TAT
55504180 TTCTATTTCATTTTAT
1 TTCTATTTCATTTTAT
55504196 TTCATATTTCATATTTCAT
1 TTC-TATTTCAT-TTT-AT
55504215 TTC-ATTTCATTTGTAT
1 TTCTATTTCATTT-TAT
*
55504231 TTATATTTCATTTCTAT
1 TTCTATTTCATTT-TAT
*
55504248 TTCTATTTTATTT
1 TTCTATTTCATTT
55504261 AAATTATCTT
Statistics
Matches: 83, Mismatches: 6, Indels: 14
0.81 0.06 0.14
Matches are distributed among these distances:
15 10 0.12
16 17 0.20
17 48 0.58
18 3 0.04
19 5 0.06
ACGTcount: A:0.18, C:0.13, G:0.01, T:0.68
Consensus pattern (16 bp):
TTCTATTTCATTTTAT
Found at i:55504308 original size:47 final size:48
Alignment explanation
Indices: 55504229--55504615 Score: 551
Period size: 47 Copynumber: 8.2 Consensus size: 48
55504219 TTTCATTTGT
* * *
55504229 ATTTATATTTCATTTCTATTTCT-ATTTTATTTAAATTATCTTT-TTTCC
1 ATTTAAATTTAATTT-T-TTTCTCATTTCATTTAAATTATCTTTCTTTCC
*
55504277 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTT-TTTTC
1 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
***
55504324 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTAAAATT-TTTCC
1 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
55504371 ATTTAAATTT-ATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
1 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
*
55504418 ATTTAAATTTAA-TTTTTTCTCATTTCAATTAAATTATCTTTCTTTCC
1 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
* *
55504465 ATTTAAATTTAATATTTTTCTCATTTAATTTAAATTATCTTT-TTTCC
1 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
* * *
55504512 A-TTAAATTTAATTTTTTTCTCATTTCATTTTAATTATATTTCTTTCT
1 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
*
55504559 ATTTTAATTTAA--TTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
1 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
*
55504605 ATTTGAATTTA
1 ATTTAAATTTA
55504616 CGTTTTTTAT
Statistics
Matches: 308, Mismatches: 25, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
46 110 0.36
47 149 0.48
48 49 0.16
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (48 bp):
ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCC
Found at i:55504562 original size:26 final size:26
Alignment explanation
Indices: 55504522--55504608 Score: 69
Period size: 26 Copynumber: 3.5 Consensus size: 26
55504512 ATTAAATTTA
*
55504522 ATTTTTTTCTCATTTCATTTTAATTAT
1 ATTTCTTTCT-ATTTCATTTTAATTAT
* *
55504549 ATTTCTTTCTATTTTAATTTAA-T-T
1 ATTTCTTTCTATTTCATTTTAATTAT
*
55504573 -TTTC--TC-ATTTCATTTAAATTAT
1 ATTTCTTTCTATTTCATTTTAATTAT
* *
55504595 CTTTCTTTCCATTT
1 ATTTCTTTCTATTT
55504609 GAATTTACGT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
20 9 0.19
21 3 0.06
22 1 0.02
23 8 0.17
24 1 0.02
25 3 0.06
26 14 0.29
27 9 0.19
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.64
Consensus pattern (26 bp):
ATTTCTTTCTATTTCATTTTAATTAT
Found at i:55504573 original size:21 final size:20
Alignment explanation
Indices: 55504534--55504613 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 20
55504524 TTTTTTCTCA
55504534 TTTCATTTTAATTATATTTC
1 TTTCATTTTAATTATATTTC
*
55504554 TTTCTATTTTAATTTAATTTTTCTC
1 TTTC-ATTTTAA-TT-A-TATT-TC
* *
55504579 ATTTCATTTAAATTATCTTTC
1 -TTTCATTTTAATTATATTTC
*
55504600 TTTCCATTTGAATT
1 TTT-CATTTTAATT
55504614 TACGTTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
20 7 0.14
21 18 0.37
22 5 0.10
23 2 0.04
24 5 0.10
25 8 0.16
26 4 0.08
ACGTcount: A:0.24, C:0.12, G:0.01, T:0.62
Consensus pattern (20 bp):
TTTCATTTTAATTATATTTC
Found at i:55504852 original size:44 final size:44
Alignment explanation
Indices: 55504657--55504849 Score: 350
Period size: 44 Copynumber: 4.4 Consensus size: 44
55504647 TTTATTTTTC
55504657 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
55504701 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
55504745 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
* * *
55504789 ATTTAATGTGCTTTAAATTAAATATGCATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
*
55504833 ATTTAACGTGTTTTAAA
1 ATTTAATGTGTTTTAAA
55504850 TTAGGAATAA
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 144 1.00
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (44 bp):
ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
Found at i:55508235 original size:20 final size:23
Alignment explanation
Indices: 55508192--55508236 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
55508182 TTTTTATTCA
55508192 TTTATTCATGTATCTTTGATTTG
1 TTTATTCATGTATCTTTGATTTG
55508215 TTTATT-ATGTAT-TTT-ATTTG
1 TTTATTCATGTATCTTTGATTTG
55508235 TT
1 TT
55508237 GCTCATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 3 0.14
22 6 0.27
23 6 0.27
ACGTcount: A:0.18, C:0.04, G:0.11, T:0.67
Consensus pattern (23 bp):
TTTATTCATGTATCTTTGATTTG
Found at i:55512245 original size:6 final size:6
Alignment explanation
Indices: 55512210--55512237 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
55512200 AATCAAAGTC
55512210 AAAATG AAAATG AAAATG AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAA
55512238 AATCAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:55512291 original size:50 final size:51
Alignment explanation
Indices: 55512236--55512334 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 51
55512226 TGAAAATGAA
55512236 AAAATCAAAAATAAAAATAAAAA-AACAAAAAG-AAGAAAGAA-GAAAAAATC
1 AAAATC-AAAATAAAAATAAAAATAACAAAAAGAAAG-AAGAATGAAAAAATC
* * * *
55512286 AAAATCAAGATCAAAATAAAAATGAGAAAAAGAAAGAAGAATGAAAAAA
1 AAAATCAAAATAAAAATAAAAATAACAAAAAGAAAGAAGAATGAAAAAA
55512335 GAGAAATCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
49 14 0.33
50 18 0.43
51 10 0.24
ACGTcount: A:0.75, C:0.05, G:0.11, T:0.09
Consensus pattern (51 bp):
AAAATCAAAATAAAAATAAAAATAACAAAAAGAAAGAAGAATGAAAAAATC
Found at i:55512343 original size:51 final size:49
Alignment explanation
Indices: 55512249--55512352 Score: 122
Period size: 51 Copynumber: 2.1 Consensus size: 49
55512239 ATCAAAAATA
55512249 AAAATAAAAAAACAAAAAGAAGAAAGAAGAAAAAATCAAAATCAAGATC
1 AAAATAAAAAAACAAAAAGAAGAAAGAAGAAAAAATCAAAATCAAGATC
* * * *
55512298 AAAATAAAAATGAGAAAAAGAA-AGAAGAATGAAAAAA-GAGAAATCAAGATG
1 AAAATAAAAA-AACAAAAAGAAGA-AAGAA-GAAAAAATCA-AAATCAAGATC
55512349 AAAA
1 AAAA
55512353 AATCAGAATG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
49 11 0.23
50 15 0.32
51 21 0.45
ACGTcount: A:0.72, C:0.05, G:0.14, T:0.09
Consensus pattern (49 bp):
AAAATAAAAAAACAAAAAGAAGAAAGAAGAAAAAATCAAAATCAAGATC
Found at i:55513131 original size:6 final size:7
Alignment explanation
Indices: 55513114--55513147 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
55513104 CTCTGAGTTA
55513114 AAAAATG
1 AAAAATG
55513121 AAAAATG
1 AAAAATG
55513128 AAAAATG
1 AAAAATG
55513135 -AAAATG
1 AAAAATG
55513141 AAAAATG
1 AAAAATG
55513148 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:55513138 original size:13 final size:14
Alignment explanation
Indices: 55513114--55513147 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
55513104 CTCTGAGTTA
55513114 AAAAATGAAAAATG
1 AAAAATGAAAAATG
55513128 AAAAATG-AAAATG
1 AAAAATGAAAAATG
55513141 AAAAATG
1 AAAAATG
55513148 GAGAGGCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:55514618 original size:44 final size:44
Alignment explanation
Indices: 55514375--55515323 Score: 375
Period size: 44 Copynumber: 21.7 Consensus size: 44
55514365 AGTGAATATT
* * * * * * *
55514375 AGAGATCTTATCTCCCTGGGATTATAGCGGAGCAAATCGAAGAC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
** * ** * *
55514419 A-CCATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAAT-
1 AGAGATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGTC
* * * ** * *
55514461 AAAGGATCTCATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TC
1 AGA-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGTC
* ** *
55514505 AG-G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATT
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG--TC
** * * *
55514549 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
* *
55514593 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAT-
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG-TC
* * * * *
55514637 AGTA-ATCCTATCTCCCTGAGATTACAGTGAAGCAGATTAAAATC
1 AG-AGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
* ** * *
55514681 A-AGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TC
1 AGA-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGTC
* * * **
55514724 AG-G-TCTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTTC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG----TC
* * * * ** *
55514770 A-A-ACCTTATTTCCCTAAGGTTACAGTGGAGTAGACCGAAGAATT
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG--TC
** *
55514814 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAG-C
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
* *
55514857 TAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAAT-
1 -AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTG-AAGTC
* * ** * *
55514902 AGTA-ATCCTATCTCCCTGAGATTACAGTGAAGCGGATTAAAATC
1 AG-AGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
* * ** * *
55514946 A-AGGATCTTATTTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TC
1 AGA-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGTC
* **
55514989 AG-G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG----TC
* * ** **
55515035 A-A-ACCTTATCTCCCTGAGATTACAGCGGAGTAGATCCAAAAC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
** * * * * *
55515077 A-CTATCTTATCTTCCTAAGGTTACAGTGGAGCAGATTGAAGCC
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
* **
55515120 AGAGATCTTATCTCTCTGAGATTACAGCAGAGTAGATTGAAG-C
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
* * *** * *
55515163 TAGTA-ATCCTATCTCTCTGA-AGTTACAGTGGAACGGATTAAAAT-
1 -AG-AGATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGTC
* * * * * * *
55515207 AAAGGATCTCATCTCTCTGA-AGTTACACTAGAGTAGATCGCA-TC
1 AGA-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGTC
* ** *
55515251 AG-G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATT
1 AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG--TC
** *
55515295 TCAGATCTTATCTCCCTGAGGTTACAGTG
1 AGAGATCTTATCTCCCTGAGATTACAGTG
55515324 AAGCAGACGA
Statistics
Matches: 682, Mismatches: 164, Indels: 116
0.71 0.17 0.12
Matches are distributed among these distances:
41 113 0.17
42 11 0.02
43 76 0.11
44 314 0.46
45 8 0.01
46 160 0.23
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AGAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGTC
Found at i:55514757 original size:219 final size:217
Alignment explanation
Indices: 55514375--55514902 Score: 734
Period size: 219 Copynumber: 2.4 Consensus size: 217
55514365 AGTGAATATT
* * * * * **
55514375 AGAGATCTTATCTCCCTGGGATTATAGCGGAGCAAATCGAAGACACCATCCTATCTCCCTGA-AG
1 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGAATCCTATCTCCCTGAGA-
*
55514439 TTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
65 TTACAGTGGAGCAGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
* * * * *
55514504 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
130 CAGGTCTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTAAG
** *
55514569 GTTACAGTGGAGCAGATTGAAGCC
195 GTTACAGTGGAGCAGACCGAAG-A
55514593 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
1 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAG-AATCCTATCTCCCTGAGA
* * *
55514658 TTACAGTGAAGCAGATTAAAATCAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
65 TTACAGTGGAGCAGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
*
55514723 CAGGTCTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTTCAAACCTTATTTCCCTAAG
130 CAGGTCTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTAAG
*
55514788 GTTACAGTGGAGTAGACCGAAGA
195 GTTACAGTGGAGCAGACCGAAGA
* * * * * *
55514811 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCTAGAGATCTTATCTCCCTG
1 A---GAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGA-ATCCTATCTCCCTG
55514876 AGATTACAGTGGAGCAGATTGAAAATA
62 AGATTACAGTGGAGCAGATT-AAAATA
55514903 GTAATCCTAT
Statistics
Matches: 274, Mismatches: 29, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
218 41 0.15
219 154 0.56
220 2 0.01
221 72 0.26
222 5 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGAATCCTATCTCCCTGAGAT
TACAGTGGAGCAGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
AGGTCTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTAAGG
TTACAGTGGAGCAGACCGAAGA
Found at i:55514994 original size:265 final size:265
Alignment explanation
Indices: 55514509--55515323 Score: 1313
Period size: 265 Copynumber: 3.1 Consensus size: 265
55514499 CGCATCAGGT
55514509 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
1 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
55514574 AGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAG
66 AGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAG
*
55514639 TAATCCTATCTCCCTGAGATTACAGTGAAGCAGATTAAAATCAAGGATCTTATCTCTCTGAAGTT
131 TAATCCTATCTCCCTGAGATTACAGTGAAGCGGATTAAAATCAAGGATCTTATCTCTCTGAAGTT
* *
55514704 ACAGCAGAGTAGATCGCATCAGGTCTTATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTT
196 ACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTT
55514769 CAAAC
261 CAAAC
* *
55514774 CTTATTTCCCTAAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
1 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
* * * *
55514839 AGTGGAGTAGATTGAAGCTAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAG
66 AGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAG
*
55514904 TAATCCTATCTCCCTGAGATTACAGTGAAGCGGATTAAAATCAAGGATCTTATTTCTCTGAAGTT
131 TAATCCTATCTCCCTGAGATTACAGTGAAGCGGATTAAAATCAAGGATCTTATCTCTCTGAAGTT
55514969 ACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTT
196 ACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTT
55515034 CAAAC
261 CAAAC
* * * * *
55515039 CTTATCTCCCTGAGATTACAGCGGAGTAGATCC-AA-AA---CACTATCTTATCTTCCTAAGGTT
1 CTTATCTCCCTGAGGTTACAGTGGAGTAGA-CCGAAGAATTTCA-GATCTTATCTCCCTGAGGTT
* * * *
55515099 ACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCAGAGTAGATTGAAGCT
64 ACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAT
* * *
55515164 AGTAATCCTATCTCTCTGA-AGTTACAGTGGAA-CGGATTAAAATAAAGGATCTCATCTCTCTGA
129 AGTAATCCTATCTCCCTGAGA-TTACAGT-GAAGCGGATTAAAATCAAGGATCTTATCTCTCTGA
55515227 AGTTACA-CTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG
192 AGTTACAGC-AGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG
* *
55515291 AATTTCAGAT
256 AATTTCAAAC
55515301 CTTATCTCCCTGAGGTTACAGTG
1 CTTATCTCCCTGAGGTTACAGTG
55515324 AAGCAGACGA
Statistics
Matches: 512, Mismatches: 33, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
261 4 0.01
262 218 0.43
263 3 0.01
264 2 0.00
265 283 0.55
266 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (265 bp):
CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
AGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAG
TAATCCTATCTCCCTGAGATTACAGTGAAGCGGATTAAAATCAAGGATCTTATCTCTCTGAAGTT
ACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTT
CAAAC
Found at i:55515188 original size:218 final size:219
Alignment explanation
Indices: 55514774--55515460 Score: 511
Period size: 219 Copynumber: 3.1 Consensus size: 219
55514764 AATTTCAAAC
* * * *
55514774 CTTATTTCCCTAAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
1 CTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTGAGATTAC
* ** * * *
55514839 AGTGGAGTAGATTGAAGCTAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAG
66 AGCGGAGTAGATCAAAACTAGAGATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAAACAG
* * * * * *
55514904 TAATCCTATCTCCCTGAGATTACAGTGAAGCGGATTAAAATCAAGGATCTTATTTCTCTGAAGTT
131 TAATCCTATCTCCCTGAGATTACAGAGAAGCAGATTAAAAGCAAGAATCCTATCTCTCTGAAGTT
55514969 ACAGCAGAGTAGATCGCATCAGGT
196 ACAGCAGAGTAGATCGCATCAGGT
*
55514993 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTGAGATTAC
1 CTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTGAGATTAC
** * * **
55515058 AGCGGAGTAGATCCAAAAC-A-CTATCTTATCTTCCTAAGGTTACAGTGGAGCAGATTGAAGCCA
66 AGCGGAGTAGAT-CAAAACTAGAGATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAAACA
* * * * *
55515121 G-AGATCTTATCTCTCTGAGATTACAGCAG-AGTAGATT-GAAGCTAGTAATCCTATCTCTCTGA
130 GTA-ATCCTATCTCCCTGAGATTACAG-AGAAGCAGATTAAAAGCAAG-AATCCTATCTCTCTGA
** *** *** *
55515183 AGTTACAGTGGAACGGATTAAAATAAAGGAT
192 AGTTACAGCAGAGTAGA-TCGCAT-CAGG-T
* * * * * * *** *
55515214 CTCATCTCTCTGAA-GTTACACTAGAGTAGATC---GCA--TCAGGTCTTATCTCCCTGAGGTTA
1 CTTATCTCCCT-AAGGTTACAGTGGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTGAGATTA
* * * ** * * * *
55515273 CAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGAAGCAGA-CGAAAG
65 CAGCGGAGTAGATC-AA-AACTAGAGATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAA-
* * *** * * * ** * **
55515337 AAATTAATCCTATCTTTTTGA-AGTTGCAGTGGAGTGGATTAAAATCACAG-ATTTTATCTCTCT
127 ACAGTAATCCTATCTCCCTGAGA-TTACAGAGAAGCAGATTAAAAGCA-AGAATCCTATCTCTCT
*
55515400 GAAGTTACAGTAGAGTAGATCGCATCAGGT
190 GAAGTTACAGCAGAGTAGATCGCATCAGGT
* *
55515430 CTTATCTCCCTGAGGTTACAGTGGAGCAGAC
1 CTTATCTCCCTAAGGTTACAGTGGAGTAGAC
55515461 GAAAGAAATT
Statistics
Matches: 361, Mismatches: 88, Indels: 41
0.74 0.18 0.08
Matches are distributed among these distances:
215 2 0.01
216 56 0.16
217 11 0.03
218 98 0.27
219 156 0.43
220 10 0.03
221 27 0.07
222 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (219 bp):
CTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGAATTTCAAACCTTATCTCCCTGAGATTAC
AGCGGAGTAGATCAAAACTAGAGATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAAACAG
TAATCCTATCTCCCTGAGATTACAGAGAAGCAGATTAAAAGCAAGAATCCTATCTCTCTGAAGTT
ACAGCAGAGTAGATCGCATCAGGT
Found at i:55515361 original size:175 final size:173
Alignment explanation
Indices: 55515166--55515496 Score: 486
Period size: 175 Copynumber: 1.9 Consensus size: 173
55515156 TTGAAGCTAG
55515166 TAATCCTATCTCTCTGAAGTTACAGTGGAACGGATTAAAAT-AAAGGATCTCATCTCTCTGAAGT
1 TAATCCTATCTCTCTGAAGTTACAGTGGAACGGATTAAAATCAAA-GATCTCATCTCTCTGAAGT
* *
55515230 TACACTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCG-AAGAAT
65 TACACTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGA-CGAAAGAAA
* *
55515294 TTCAGATCTTATCTCCCTGAGGTTACAGTGAAGCAGACGAAAGAAAT
129 TT-A-ATCCTATCTCCCTGAAGTTACAGTGAAGCAGACGAAAGAAAT
* * * ** * * *
55515341 TAATCCTATCTTTTTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATTTTATCTCTCTGAAGTT
1 TAATCCTATCTCTCTGAAGTTACAGTGGAACGGATTAAAATCAAAGATCTCATCTCTCTGAAGTT
*
55515406 ACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACGAAAGAAATT
66 ACACTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACGAAAGAAATT
*
55515471 AATCCTATCTTCCTGAAGTTACAGTG
131 AATCCTATCTCCCTGAAGTTACAGTG
55515497 GAGCGGATTA
Statistics
Matches: 140, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
173 22 0.16
174 3 0.02
175 113 0.81
176 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (173 bp):
TAATCCTATCTCTCTGAAGTTACAGTGGAACGGATTAAAATCAAAGATCTCATCTCTCTGAAGTT
ACACTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACGAAAGAAATT
AATCCTATCTCCCTGAAGTTACAGTGAAGCAGACGAAAGAAAT
Found at i:55515496 original size:129 final size:129
Alignment explanation
Indices: 55515300--55515717 Score: 622
Period size: 129 Copynumber: 3.2 Consensus size: 129
55515290 GAATTTCAGA
* * ** *
55515300 TCTTATCTCCCTGAGGTTACAGTGAAGCAGACGAAAGAAATTAATCCTATCTTTTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAATTAATCCTATCTTCCTGAAGTTACA
* * * * *
55515365 GTGGAGTGGATTAAAATCACAGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT-CAGG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCA-G
*
55515429 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACGAAAGAAATTAATCCTATCTTCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAATTAATCCTATCTTCCTGAAGTTACA
* * *
55515494 GTGGAGCGGATTAAAACCACATATCTTATTTCTCTAAAGTTACAGTAGAGCAGATCACATCCAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCAG
* * * *
55515558 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACGAAAGAAATAAATCCTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAATTAATCCTATCTTCCTGAAGTTACA
* * *
55515623 ATGGAGCGGATTAAAACCACAGATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCAG
*
55515687 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGA
55515718 TTGAGTAAGC
Statistics
Matches: 264, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
129 262 0.99
130 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAATTAATCCTATCTTCCTGAAGTTACA
GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCAG
Found at i:55515653 original size:44 final size:44
Alignment explanation
Indices: 55514426--55515719 Score: 331
Period size: 44 Copynumber: 29.7 Consensus size: 44
55514416 GACACCATCC
* * *
55514426 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA-TAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACA-GATCT
* * * * * *
55514470 CATCTCTCTGAAGTTAC-----AGCAGAGTAGATCGCATCAGGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAC-CA-CAGATCT
* * ** ***
55514511 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AACCACAGATCT
* * * *
55514557 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
* * * * *
55514601 TATCTCCCTG-AGATTACAGCGGAGCAGATT-GAA-GATAGTAATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAACCACAG--ATCT
* *
55514645 TATCTCCCTG-AGATTACAGTGAAGCAGATTAAAATCA-AGGATCT
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAACCACA-GATCT
* * * * *
55514689 TATCTCTCTGAAGTTAC-----AGCAGAGTAGATCGCATCAGGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAC-CA-CAGATCT
* * * * ** *** * *
55514730 TATCCCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTTCAAACCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AACCACAGATCT
* * ** ***
55514776 TATTTCCCT-AAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCT
1 TATCTCCCTGAA-GTTACAGTGGAGCAGA-TTAA-AACCACAGATCT
* * * * * *
55514822 TATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCTAGAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
* * *
55514866 TATCTCCCTG-AGATTACAGTGGAGCAGATTGAAA--ATAGTAATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAACCACAG--ATCT
* * *
55514910 TATCTCCCTG-AGATTACAGTGAAGCGGATTAAAATCA-AGGATCT
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAACCACA-GATCT
* * * * * *
55514954 TATTTCTCTGAAGTTAC-----AGCAGAGTAGATCGCATCAGGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAC-CA-CAGATCT
* * ** *** * *
55514995 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAAACCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AACCACAGATCT
* * * *
55515041 TATCTCCCTG-AGATTACAGCGGAGTAGATCCAAAA-CAC-TATCT
1 TATCTCCCTGAAG-TTACAGTGGAGCAGAT-TAAAACCACAGATCT
* * * *
55515084 TATCTTCCT-AAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCT
1 TATCTCCCTGAA-GTTACAGTGGAGCAGATTAAAACCACAGATCT
* ** * * * * * *
55515128 TATCTCTCTG-AGATTACAGCAGAGTAGATTGAAGCTAGTA-ATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAACCA-CAGATCT
* * * * *
55515172 TATCTCTCTGAAGTTACAGTGGAACGGATTAAAA-TAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACA-GATCT
* * * * * *
55515216 CATCTCTCTGAAGTTACACT--AG-AG--TAGATCGCATCAGGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAC-CA-CAGATCT
* * ** ***
55515257 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AACCACAGATCT
* * ** * * *
55515303 TATCTCCCTGAGGTTACAGTGAAGCAGACGAAAGA-AATTA-ATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-ACCA-CAGATCT
*** * ** * *
55515347 TATCTTTTTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATTT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
* * * *
55515391 TATCTCTCTGAAGTTACAGT--AG-AG--TAGATCGCATCAGGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAC-CA-CAGATCT
* ** * * *
55515432 TATCTCCCTGAGGTTACAGTGGAGCAGACGAAAGA-AATTA-ATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-ACCA-CAGATCT
* * *
55515476 TATCTTCCTGAAGTTACAGTGGAGCGGATTAAAACCACATATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
* * * * * * *
55515520 TATTTCTCTAAAGTTACAGTAGAGCAGA-TCACATC-CAG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
* * ** * * * *
55515561 TATCTCCCTGAAGTTGCAGTGGAGTAGACGAAAGA-AATAAATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-ACCACAGATCT
* *
55515605 TATCTCCCTGAAGTTACAATGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
** * * * * *
55515649 TATCTTTCTGAAGTTGCAGTAGAGCAGA-TCACATC-CAG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
*
55515690 TATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATT
55515720 GAGTAAGCAG
Statistics
Matches: 910, Mismatches: 252, Indels: 178
0.68 0.19 0.13
Matches are distributed among these distances:
39 31 0.03
40 6 0.01
41 154 0.17
42 23 0.03
43 53 0.06
44 426 0.47
45 26 0.03
46 182 0.20
47 5 0.01
48 4 0.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
Found at i:55515839 original size:44 final size:43
Alignment explanation
Indices: 55515429--55515886 Score: 188
Period size: 44 Copynumber: 10.5 Consensus size: 43
55515419 TCGCATCAGG
* * * **
55515429 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-CGAAAGAAATTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGCCA-TAA
* * * * * * *
55515473 TCCTATCTTCCTGAAGTTACAGTGGAGCGGATTAAAACCACATA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATA-A
* * * * * * * *
55515517 TCTTATTTCTCTAAAGTTACAGTAGAGCAGA-TCACATCC--AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCATAA
* * **
55515558 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-CGAAAGAAATAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGCCAT-AA
* * * * * * *
55515602 TCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAACCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATA-A
** * * * *
55515646 TCTTATCTTTCTGAAGTTGCAGTAGAGCAGA-TCACATCC--AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCATAA
**
55515687 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGTAAG-CA-GG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--G-AAGCCATAA
* * *
55515731 TCTTATCCCCCTGAAGTTGCAGCGG-GACAGACTGAAG--ATGGCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGCCAT---AA
* *
55515775 ACTTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAA
1 TC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCC-ATAA
* * * * *
55515820 TCCTATCTCCCTGAAGTTGCAGAGAAGCAGATTAAAG-TAGTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-TA-A
* *
55515864 TCGTATCTCTCTGAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGT
55515887 AGGGTAGATC
Statistics
Matches: 308, Mismatches: 79, Indels: 54
0.70 0.18 0.12
Matches are distributed among these distances:
40 1 0.00
41 57 0.19
42 6 0.02
43 10 0.03
44 198 0.64
45 33 0.11
46 1 0.00
48 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATAA
Found at i:55517714 original size:3 final size:3
Alignment explanation
Indices: 55517708--55517747 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
55517698 AACTAATAAG
* *
55517708 TTA TTA TTA TTA TTA TGA TTA TTA TTA ATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
55517748 CTATGTCTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:55519711 original size:112 final size:111
Alignment explanation
Indices: 55519579--55519782 Score: 329
Period size: 112 Copynumber: 1.8 Consensus size: 111
55519569 GTGGTGCCAT
* *
55519579 CCATGAGTGTCCCAAAGTAAAAAAAATTACCTTGGGACCCGAAAAATGTACTTGGTGCCAG-CTA
1 CCATCAGTGTCCCAAAGTAAAAAAAATTACCTTGGGACCCGAAAAATGTACTTGGTG-CAGACCA
55519643 TCTACTGACCAGCACCCAAATTTTTTTTTAAATTGACATTAGTGTCGG
65 TCTACTGACCAGCA-CCAAATTTTTTTTTAAATTGACATTAGTGTCGG
* * *
55519691 CCATCAGTGTCCCAAAGTAAAAAAAATTGCCTTGGGACTCGAAAAATGTACTTGGTGCTGACCAT
1 CCATCAGTGTCCCAAAGTAAAAAAAATTACCTTGGGACCCGAAAAATGTACTTGGTGCAGACCAT
*
55519756 CTACTGGCCAGCACCAAATTTTTTTTT
66 CTACTGACCAGCACCAAATTTTTTTTT
55519783 CAATGTCTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
111 16 0.19
112 69 0.81
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (111 bp):
CCATCAGTGTCCCAAAGTAAAAAAAATTACCTTGGGACCCGAAAAATGTACTTGGTGCAGACCAT
CTACTGACCAGCACCAAATTTTTTTTTAAATTGACATTAGTGTCGG
Found at i:55520654 original size:18 final size:18
Alignment explanation
Indices: 55520631--55520667 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
55520621 TTGCTTATAT
55520631 AAAAT-AAAAATAATTTTA
1 AAAATAAAAAAT-ATTTTA
55520649 AAAATAAAAAATATTTTA
1 AAAATAAAAAATATTTTA
55520667 A
1 A
55520668 CTTTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATAAAAAATATTTTA
Found at i:55549856 original size:7 final size:7
Alignment explanation
Indices: 55549844--55549896 Score: 74
Period size: 7 Copynumber: 7.9 Consensus size: 7
55549834 TTTTATGAAC
55549844 TTTTTAA
1 TTTTTAA
55549851 TTTTTAA
1 TTTTTAA
55549858 -TTTTAA
1 TTTTTAA
* *
55549864 -TTTGAT
1 TTTTTAA
55549870 TTTTTAA
1 TTTTTAA
55549877 TTTTTAA
1 TTTTTAA
55549884 TTTTTAA
1 TTTTTAA
55549891 TTTTTA
1 TTTTTA
55549897 TAATTTTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 10 0.24
7 31 0.76
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (7 bp):
TTTTTAA
Found at i:55549863 original size:13 final size:13
Alignment explanation
Indices: 55549845--55549896 Score: 63
Period size: 13 Copynumber: 3.9 Consensus size: 13
55549835 TTTATGAACT
55549845 TTTTAATTTTTAA
1 TTTTAATTTTTAA
55549858 TTTTAATTTGATT--
1 TTTTAATTT--TTAA
55549871 TTTTAATTTTTAA
1 TTTTAATTTTTAA
55549884 TTTTTAATTTTTA
1 -TTTTAATTTTTA
55549897 TAATTTTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 2 0.06
13 18 0.53
14 12 0.35
15 2 0.06
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:55549863 original size:33 final size:31
Alignment explanation
Indices: 55549824--55549909 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 31
55549814 CATGATAAAT
55549824 TTTTTAAAATTTTTATGAACTTTTTAATTTTTAA
1 TTTTTAAAATTTTT-T-AA-TTTTTAATTTTTAA
*
55549858 -TTTTAATTTGATTTTTTAATTTTTAATTTTTAA
1 TTTTTAA---AATTTTTTAATTTTTAATTTTTAA
* *
55549891 TTTTTATAATTTTTGAATT
1 TTTTTAAAATTTTTTAATT
55549910 ATTTGTTAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
31 10 0.23
33 20 0.45
34 7 0.16
35 1 0.02
36 6 0.14
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.66
Consensus pattern (31 bp):
TTTTTAAAATTTTTTAATTTTTAATTTTTAA
Found at i:55550320 original size:30 final size:28
Alignment explanation
Indices: 55550242--55550320 Score: 70
Period size: 30 Copynumber: 2.7 Consensus size: 28
55550232 GTGCAATTTG
* *
55550242 ATACATG-AACTTTAATTTGATGCAATT
1 ATACATGAAACTTTAATTTTATGAAATT
* * *
55550269 ATACAAATGATACTTTGATTTTAGTTAAATGT
1 ATAC--ATGAAACTTTAATTTTA-TGAAAT-T
55550301 ATACATGAAACTTTAATTTT
1 ATACATGAAACTTTAATTTT
55550321 GATTCAATCA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
27 4 0.10
29 3 0.08
30 24 0.60
31 4 0.10
32 5 0.12
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (28 bp):
ATACATGAAACTTTAATTTTATGAAATT
Found at i:55550560 original size:13 final size:13
Alignment explanation
Indices: 55550542--55550567 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55550532 TATTACTTTG
55550542 AACTCTTAGAAAA
1 AACTCTTAGAAAA
55550555 AACTCTTAGAAAA
1 AACTCTTAGAAAA
55550568 CTTTTGAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
AACTCTTAGAAAA
Found at i:55550611 original size:20 final size:19
Alignment explanation
Indices: 55550586--55550643 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
55550576 TCAACCTTTA
55550586 AATCAAATTAAAATAGTTTC
1 AATCAAATTAAAAT-GTTTC
* * *
55550606 AATCAAGTTAGAATTTTTC
1 AATCAAATTAAAATGTTTC
*
55550625 AATCAAAGTTAAATTGTTT
1 AATCAAA-TTAAAATGTTT
55550644 TTAAAACAAG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 10 0.33
20 20 0.67
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (19 bp):
AATCAAATTAAAATGTTTC
Found at i:55550626 original size:19 final size:19
Alignment explanation
Indices: 55550602--55550639 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
55550592 ATTAAAATAG
55550602 TTTCAATC-AAGTTAGAATT
1 TTTCAATCAAAGTTA-AATT
55550621 TTTCAATCAAAGTTAAATT
1 TTTCAATCAAAGTTAAATT
55550640 GTTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (19 bp):
TTTCAATCAAAGTTAAATT
Found at i:55556281 original size:105 final size:104
Alignment explanation
Indices: 55556033--55556403 Score: 547
Period size: 103 Copynumber: 3.6 Consensus size: 104
55556023 AACCGTTATT
* * *
55556033 GGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
55556098 ATCAGCACATAGCAACCCCCTTTTC-ATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTTCAATTTCAAAGATAC
* *
55556136 GGTGGAT-ATCGCACTTAGCACCACCAATAAACCGGGGAATCAACACTTAGCAACCCCTCGGGGG
1 GGTGGATCA-CGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
55556200 AATCAGCACATAGCAACCCCCTTTTCATATTTCAAAGATAT
65 AATCAGCACATAGCAACCCCCTTTTCA-ATTTCAAAGATAC
*
55556241 GGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
*
55556306 ATCAGCACATAGCAACCCCC-TTTCACATTT-AAAAATAC
66 ATCAGCACATAGCAACCCCCTTTTCA-ATTTCAAAGATAC
* **
55556344 GGTGGACTCA-TCACTTAGCAACCACCAAT-AAGTAGGGGAATCAGCACTTAGCAACCCCTC
1 GGTGGA-TCACGCACTTAGC-ACCACCAATGAA-CCGGGGAATCAGCACTTAGCAACCCCTC
55556404 TATATGTAAT
Statistics
Matches: 245, Mismatches: 16, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
103 105 0.43
104 47 0.19
105 92 0.38
106 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.19
Consensus pattern (104 bp):
GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTTCAATTTCAAAGATAC
Done.