Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 187 of 210
Found at i:62021407 original size:91 final size:91
Alignment explanation
Indices: 62021252--62021417 Score: 244
Period size: 91 Copynumber: 1.8 Consensus size: 91
62021242 TTTTTCTCAG
* ***
62021252 AGTGTTTCTCAGCAAGCAAACAAAAAATTCTAGTGCGAATTCAATTTAAACAGTTTCTTAACCAC
1 AGTGTTTCGCAGCAAGCAAACAAAAAATTCTAGTGCGAATTCAAGCCAAACAGTTTCTTAACCAC
*
62021317 GCAACGAAAATAAAAAGAATTCAAAC
66 GCAACAAAAATAAAAAGAATTCAAAC
* *
62021343 AGTGTTTCGCAGCAAAG-AAACAGAAAATTCTAGTGCGAATTCAAGCCAAACATTTTCTTAACCA
1 AGTGTTTCGCAGC-AAGCAAACAAAAAATTCTAGTGCGAATTCAAGCCAAACAGTTTCTTAACCA
*
62021407 CGGAACAAAAA
65 CGCAACAAAAA
62021418 AAGAATCTCG
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
91 63 0.95
92 3 0.05
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (91 bp):
AGTGTTTCGCAGCAAGCAAACAAAAAATTCTAGTGCGAATTCAAGCCAAACAGTTTCTTAACCAC
GCAACAAAAATAAAAAGAATTCAAAC
Found at i:62022216 original size:20 final size:21
Alignment explanation
Indices: 62022193--62022234 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
62022183 TAATTTTCAC
62022193 TTAAAAAATTG-TAATTTATT
1 TTAAAAAATTGATAATTTATT
*
62022213 TTAAAATATTGAATAATTTATT
1 TTAAAAAATTG-ATAATTTATT
62022235 GAATATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
TTAAAAAATTGATAATTTATT
Found at i:62029478 original size:19 final size:20
Alignment explanation
Indices: 62029435--62029476 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
62029425 ATTAAATATT
62029435 AAAA-TTTAAATTTAGATAA
1 AAAATTTTAAATTTAGATAA
62029454 AAAATTTTAAATTTTA-ATAA
1 AAAATTTTAAA-TTTAGATAA
62029474 AAA
1 AAA
62029477 TTAATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAATTTTAAATTTAGATAA
Found at i:62029531 original size:20 final size:22
Alignment explanation
Indices: 62029486--62029537 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 22
62029476 ATTAATTTTT
62029486 TTTTATAA-AAATTGTAACAGA
1 TTTTATAACAAATTGTAACAGA
*
62029507 -ATTATAACAAATTGTAA-A-A
1 TTTTATAACAAATTGTAACAGA
62029526 TTTTAT-ACAAAT
1 TTTTATAACAAAT
62029538 ATTTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 7 0.26
20 11 0.41
21 9 0.33
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (22 bp):
TTTTATAACAAATTGTAACAGA
Found at i:62029701 original size:21 final size:21
Alignment explanation
Indices: 62029675--62029745 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
62029665 TCATACGATA
62029675 ATTTTTATAAAATTTTTTATG
1 ATTTTTATAAAATTTTTTATG
* * **
62029696 ATTTTTTTAAAA-ATTTTACA
1 ATTTTTATAAAATTTTTTATG
62029716 ATTTTT-TATAAATTTTTTATG
1 ATTTTTATA-AAATTTTTTATG
62029737 ATTTTTATA
1 ATTTTTATA
62029746 TTTTTTTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
19 2 0.05
20 14 0.35
21 22 0.55
22 2 0.05
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTTTATAAAATTTTTTATG
Found at i:62029750 original size:18 final size:18
Alignment explanation
Indices: 62029727--62029766 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
62029717 TTTTTTATAA
*
62029727 ATTTTTTATGATTTTT-AT
1 ATTTTTT-TAATTTTTAAT
62029745 ATTTTTTTAATTTTTAAT
1 ATTTTTTTAATTTTTAAT
62029763 ATTT
1 ATTT
62029767 AAATTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
ATTTTTTTAATTTTTAAT
Found at i:62041635 original size:17 final size:16
Alignment explanation
Indices: 62041615--62041646 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
62041605 TCAAGTGCAT
62041615 TTTGTCACCTACCTTAA
1 TTTGTCACCT-CCTTAA
62041632 TTTGTCACCTCCTTA
1 TTTGTCACCTCCTTA
62041647 TCAAAAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (16 bp):
TTTGTCACCTCCTTAA
Found at i:62041920 original size:2 final size:2
Alignment explanation
Indices: 62041915--62041968 Score: 72
Period size: 2 Copynumber: 27.0 Consensus size: 2
62041905 TATGTAATAA
* * * *
62041915 AG AG AG AG AA AA AG AG AG AG AG TG AG TG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
62041957 AG AG AG AG AG AG
1 AG AG AG AG AG AG
62041969 GGTGAGAGGG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.46, T:0.04
Consensus pattern (2 bp):
AG
Found at i:62046372 original size:2 final size:2
Alignment explanation
Indices: 62046367--62046408 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
62046357 AAATTACGTA
62046367 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
62046409 GGTGAGAGGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:62049217 original size:51 final size:50
Alignment explanation
Indices: 62049148--62049414 Score: 363
Period size: 51 Copynumber: 5.2 Consensus size: 50
62049138 GCTAAGCTAC
* * *
62049148 CACTTATCACTTGCCACTGATCAGATAAGTATAGCTAAAGCTACCACTTAT
1 CACTTGTCA-TTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
* * *
62049199 CACTTGTCATATGTCACTGCTCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTGTCAT-TGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
* *
62049250 CACTTGCCACTTGTCACTGATAAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTGTCA-TTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
* *
62049301 CACTTGTCATATGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTGTCAT-TGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
* ** *
62049352 CACTTGCCACTTGTCACCAATCAGATAAGTGTAGCTAAAGCTACCATTTAT
1 CACTTGTCA-TTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
62049403 CACTTGTCATTG
1 CACTTGTCATTG
62049415 ATTAGAAGTA
Statistics
Matches: 190, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
50 5 0.03
51 183 0.96
52 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (50 bp):
CACTTGTCATTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
Found at i:62049310 original size:102 final size:102
Alignment explanation
Indices: 62049155--62049412 Score: 453
Period size: 102 Copynumber: 2.5 Consensus size: 102
62049145 TACCACTTAT
* * *
62049155 CACTTGCCACTGATCAGATAAGTATAGCTAAAGCTACCACTTATCACTTGTCATATGTCACTGCT
1 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCATATGTCACTGAT
62049220 CAGATAAGTGTAGCTGAAGCTATCACTTATCACTTGC
66 CAGATAAGTGTAGCTGAAGCTATCACTTATCACTTGC
*
62049257 CACTTGTCACTGATAAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCATATGTCACTGAT
1 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCATATGTCACTGAT
62049322 CAGATAAGTGTAGCTGAAGCTATCACTTATCACTTGC
66 CAGATAAGTGTAGCTGAAGCTATCACTTATCACTTGC
** *
62049359 CACTTGTCACCAATCAGATAAGTGTAGCTAAAGCTACCATTTATCACTTGTCAT
1 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAT
62049413 TGATTAGAAG
Statistics
Matches: 148, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 148 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (102 bp):
CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCATATGTCACTGAT
CAGATAAGTGTAGCTGAAGCTATCACTTATCACTTGC
Found at i:62049353 original size:153 final size:145
Alignment explanation
Indices: 62049103--62049408 Score: 398
Period size: 153 Copynumber: 2.1 Consensus size: 145
62049093 CTTACGTATG
** * *
62049103 ATCACTTATCACTTGTCCCTGATTAGATAAGTGTAGCTAAGCTACCACTTATCACTTGCCACTGA
1 ATCACTTGCCACTTGTCACTGATAAGATAAGTGTAGCTAAGCTACCACTTATCACTTGCCACTGA
* ***
62049168 TCAGATAAGTATAGCTAAAGCTACCACTTATCACTTGTCA-TATGTCACTGCTCAGATAAGTGTA
66 TCAGATAAGTATAGCTAAAGCTACCACTTATCACTTGCCACT-TGTCACCAATCAGATAAGTGTA
* *
62049232 GCTGAAGCTATCACTT
130 GCTAAAGCTACCACTT
62049248 ATCACTTGCCACTTGTCACTGATAAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCATAT
1 ATCACTTGCCACTTGTCACTGATAAGATAAGTGTAGCT-AAGCTACCACTTATCACTTG-C----
* * *
62049313 GTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTGCCACTTGTCACCAATCAGAT
60 --CACTGATCAGATAAGTATAGCTAAAGCTACCACTTATCACTTGCCACTTGTCACCAATCAGAT
*
62049378 AAGTGTAGCTAAAGCTACCATTT
123 AAGTGTAGCTAAAGCTACCACTT
62049401 ATCACTTG
1 ATCACTTG
62049409 TCATTGATTA
Statistics
Matches: 138, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
145 34 0.25
146 20 0.14
147 1 0.01
153 82 0.59
154 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (145 bp):
ATCACTTGCCACTTGTCACTGATAAGATAAGTGTAGCTAAGCTACCACTTATCACTTGCCACTGA
TCAGATAAGTATAGCTAAAGCTACCACTTATCACTTGCCACTTGTCACCAATCAGATAAGTGTAG
CTAAAGCTACCACTT
Found at i:62056232 original size:45 final size:45
Alignment explanation
Indices: 62056160--62056256 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
62056150 GCTGACTATT
62056160 GTTACTGTTACCAATTCGACACCTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACCAATTCGACACCTTGTGTGTCGAATACTGTTACC
* * *
62056205 GTTACTGTTA-CATATTC-AGCACTTTGTGTGTTGAATACTGTTACT
1 GTTACTGTTACCA-ATTCGA-CACCTTGTGTGTCGAATACTGTTACC
62056250 GTTACTG
1 GTTACTG
62056257 CTNNNNNNNN
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
44 3 0.06
45 44 0.94
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.40
Consensus pattern (45 bp):
GTTACTGTTACCAATTCGACACCTTGTGTGTCGAATACTGTTACC
Found at i:62061004 original size:29 final size:27
Alignment explanation
Indices: 62060955--62061013 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
62060945 ATTATCCCAA
*
62060955 TTTTTCAATTTATGCACTTAAGCTTTTT
1 TTTTTCAATTTATGCACTTAA-ATTTTT
***
62060983 TTTTTCATATTTATGTGTTTAAATTTTT
1 TTTTTCA-ATTTATGCACTTAAATTTTT
62061011 TTT
1 TTT
62061014 CCTCACTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.20, C:0.08, G:0.07, T:0.64
Consensus pattern (27 bp):
TTTTTCAATTTATGCACTTAAATTTTT
Found at i:62068218 original size:28 final size:28
Alignment explanation
Indices: 62068186--62068253 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
62068176 GAAATCATTA
* *
62068186 AGTTAAATAATCTTGTACTTCGCCTACT
1 AGTTAAATAATCTCGTACTTCACCTACT
** *
62068214 AGTTAAATGGTCTCGTACTTCACTTACT
1 AGTTAAATAATCTCGTACTTCACCTACT
*
62068242 AGTTGAATAATC
1 AGTTAAATAATC
62068254 AGTCCATGTA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (28 bp):
AGTTAAATAATCTCGTACTTCACCTACT
Found at i:62068990 original size:11 final size:11
Alignment explanation
Indices: 62068970--62069002 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
62068960 GTTAAATCGG
62068970 ATTA-ATTTAA
1 ATTATATTTAA
62068980 ATTATATTTAA
1 ATTATATTTAA
*
62068991 AATATATTTAA
1 ATTATATTTAA
62069002 A
1 A
62069003 ATAAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTATATTTAA
Found at i:62069003 original size:11 final size:11
Alignment explanation
Indices: 62068974--62069005 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
62068964 AATCGGATTA
*
62068974 ATTTAAATTAT
1 ATTTAAAATAT
62068985 ATTTAAAATAT
1 ATTTAAAATAT
62068996 ATTTAAAATA
1 ATTTAAAATA
62069006 AATAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATTTAAAATAT
Found at i:62069362 original size:11 final size:11
Alignment explanation
Indices: 62069342--62069408 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
62069332 TAAAAATTAA
62069342 AAAAAGTATTTT
1 AAAAA-TATTTT
62069354 AAAAATATTTT
1 AAAAATATTTT
62069365 --AAA-A--TT
1 AAAAATATTTT
*
62069371 AAAAAAATTTT
1 AAAAATATTTT
*
62069382 AAACAGTATTTT
1 AAA-AATATTTT
62069394 AAAAATATTTT
1 AAAAATATTTT
62069405 AAAA
1 AAAA
62069409 TTAAAAAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
6 2 0.04
8 4 0.09
9 4 0.09
11 22 0.48
12 14 0.30
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:62069390 original size:40 final size:40
Alignment explanation
Indices: 62069346--62069424 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
62069336 AATTAAAAAA
62069346 AGTATTTTAAAAATATTTTAAAATTAAAAAAATTTTAAAC
1 AGTATTTTAAAAATATTTTAAAATTAAAAAAATTTTAAAC
*
62069386 AGTATTTTAAAAATATTTTAAAATTAAAAAATTTTTAAA
1 AGTATTTTAAAAATATTTTAAAATTAAAAAAATTTTAAA
62069425 AAATAAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (40 bp):
AGTATTTTAAAAATATTTTAAAATTAAAAAAATTTTAAAC
Found at i:62069399 original size:21 final size:20
Alignment explanation
Indices: 62069327--62069399 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 20
62069317 ACCAAAAATT
**
62069327 TATTTTAAAAATTAAAAAAAG
1 TATTTTAAAAATT-TTAAAAG
*
62069348 TATTTTAAAAATATTTTAAA-
1 TATTTTAAAAAT-TTTAAAAG
**
62069368 -ATTAAAAAAATTTTAAACAG
1 TATTTTAAAAATTTTAAA-AG
62069388 TATTTTAAAAAT
1 TATTTTAAAAAT
62069400 ATTTTAAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
18 5 0.12
19 10 0.25
21 24 0.60
22 1 0.03
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (20 bp):
TATTTTAAAAATTTTAAAAG
Found at i:62078749 original size:4 final size:4
Alignment explanation
Indices: 62078740--62078767 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
62078730 CCTCCTTAAG
62078740 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
62078768 TTAGTTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:62079826 original size:10 final size:10
Alignment explanation
Indices: 62079811--62079835 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
62079801 TTAATAAACA
62079811 ATAAAAATAT
1 ATAAAAATAT
62079821 ATAAAAATAT
1 ATAAAAATAT
62079831 ATAAA
1 ATAAA
62079836 CTTATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
ATAAAAATAT
Found at i:62082053 original size:15 final size:16
Alignment explanation
Indices: 62082022--62082057 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
62082012 AGTACCCATG
62082022 TCAATCGAGCTAAAAC
1 TCAATCGAGCTAAAAC
*
62082038 TCAATC-AGCTATAAC
1 TCAATCGAGCTAAAAC
62082053 TCAAT
1 TCAAT
62082058 TTTTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (16 bp):
TCAATCGAGCTAAAAC
Found at i:62082786 original size:251 final size:251
Alignment explanation
Indices: 62082343--62082844 Score: 988
Period size: 251 Copynumber: 2.0 Consensus size: 251
62082333 ATTTTCCTAT
62082343 ATTCAACCATCTTCAACATGATGCCATTTATTTTATTTAATAAACATGAAAATAATCTGAAAAAA
1 ATTCAACCATCTTCAACATGATGCCATTTATTTTATTTAATAAACATGAAAATAATCTGAAAAAA
62082408 TAATTTATATATAATACATTTAAACACGTTTGGAAATGTTATATATAATACCAATCCTTAGCTTT
66 TAATTTATATATAATACATTTAAACACGTTTGGAAATGTTATATATAATACCAATCCTTAGCTTT
62082473 GAGAATATCGCTATATTCAATTATATTTAAAAAATTCATTTAAGTAATTATATATATATATATAT
131 GAGAATATCGCTATATTCAATTATATTTAAAAAATTCATTTAAGTAATTATATATATATATATAT
62082538 ATATTTGTGTAACTTCTTATTTTAATTTTTCTATTGAAATTTACAAATAATGCATA
196 ATATTTGTGTAACTTCTTATTTTAATTTTTCTATTGAAATTTACAAATAATGCATA
62082594 ATTCAACCATCTTCAACATGATGCCATTTATTTTATTTAATAAACATGAAAATAATCTGAAAAAA
1 ATTCAACCATCTTCAACATGATGCCATTTATTTTATTTAATAAACATGAAAATAATCTGAAAAAA
62082659 TAATTTATATATAATACATTTAAACACGTTTGGAAATGTTATATATAATACCAATCCTTAGCTTT
66 TAATTTATATATAATACATTTAAACACGTTTGGAAATGTTATATATAATACCAATCCTTAGCTTT
62082724 GAGAATATCGCTATATTCAATTATATTTAAAAAAATTCA-TTAAGTAATTATATATATATATATA
131 GAGAATATCGCTATATTCAATTATATTT-AAAAAATTCATTTAAGTAATTATATATATATATATA
62082788 TATATTTGTGTAACTTCTTATTTTAATTTTTCTATTGAAATTTACAAATAATGCATA
195 TATATTTGTGTAACTTCTTATTTTAATTTTTCTATTGAAATTTACAAATAATGCATA
62082845 TTTGAATATA
Statistics
Matches: 250, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
251 240 0.96
252 10 0.04
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.42
Consensus pattern (251 bp):
ATTCAACCATCTTCAACATGATGCCATTTATTTTATTTAATAAACATGAAAATAATCTGAAAAAA
TAATTTATATATAATACATTTAAACACGTTTGGAAATGTTATATATAATACCAATCCTTAGCTTT
GAGAATATCGCTATATTCAATTATATTTAAAAAATTCATTTAAGTAATTATATATATATATATAT
ATATTTGTGTAACTTCTTATTTTAATTTTTCTATTGAAATTTACAAATAATGCATA
Found at i:62086027 original size:15 final size:15
Alignment explanation
Indices: 62085996--62086043 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
62085986 ATATGCTGAT
* *
62085996 ATAAATATTATTGAA
1 ATAAATAATATTTAA
**
62086011 ATTCATAATATTTAA
1 ATAAATAATATTTAA
*
62086026 ATAAATAATAATTAA
1 ATAAATAATATTTAA
62086041 ATA
1 ATA
62086044 TTTATAAACA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (15 bp):
ATAAATAATATTTAA
Found at i:62091108 original size:13 final size:13
Alignment explanation
Indices: 62091090--62091114 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62091080 TAAGTAACAT
62091090 AATTTAAAATAAA
1 AATTTAAAATAAA
62091103 AATTTAAAATAA
1 AATTTAAAATAA
62091115 CAAAAGGACC
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATTTAAAATAAA
Found at i:62092907 original size:28 final size:28
Alignment explanation
Indices: 62092867--62092922 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
62092857 GAGTTTTTAC
62092867 TCTTCCAATAACTGACAACAATGATAAG
1 TCTTCCAATAACTGACAACAATGATAAG
62092895 TCTTCCAATAACTGACAACAATGATAAG
1 TCTTCCAATAACTGACAACAATGATAAG
62092923 GTCCAATGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (28 bp):
TCTTCCAATAACTGACAACAATGATAAG
Found at i:62098086 original size:11 final size:11
Alignment explanation
Indices: 62098051--62098092 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
62098041 ACCAAAAATT
62098051 TATTTTAAAAA
1 TATTTTAAAAA
*
62098062 TA--TAAAAAA
1 TATTTTAAAAA
62098071 GTATTTTAAAAA
1 -TATTTTAAAAA
62098083 TATTTTAAAA
1 TATTTTAAAA
62098093 TTAAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
9 6 0.23
10 2 0.08
11 12 0.46
12 6 0.23
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:62098673 original size:29 final size:29
Alignment explanation
Indices: 62098641--62098707 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
62098631 TATAAAAACC
* *
62098641 GGATTAAATTAGTCTTATTTTTATTAAAT
1 GGATTAAATTAGTCTTATTATTATTAAAA
** * *
62098670 GGATTACTTTAGTTTTGTTATTATTAAAA
1 GGATTAAATTAGTCTTATTATTATTAAAA
*
62098699 AGATTAAAT
1 GGATTAAAT
62098708 ATGACTAAAT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (29 bp):
GGATTAAATTAGTCTTATTATTATTAAAA
Found at i:62100037 original size:17 final size:17
Alignment explanation
Indices: 62100015--62100092 Score: 70
Period size: 18 Copynumber: 4.5 Consensus size: 17
62100005 TTTTTAATAG
62100015 TTTAATATTAAATTAAA
1 TTTAATATTAAATTAAA
** *
62100032 TTTAATAATTATCTTAGCA
1 TTTAAT-ATTAAATTA-AA
* *
62100051 -TTAA-ATTTAATTTAA
1 TTTAATATTAAATTAAA
62100066 TGTTAATATTAAATTAAA
1 T-TTAATATTAAATTAAA
62100084 TTTAATATT
1 TTTAATATT
62100093 TATGAAGATA
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
15 1 0.02
16 5 0.11
17 18 0.39
18 21 0.46
19 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAATATTAAATTAAA
Found at i:62105004 original size:16 final size:18
Alignment explanation
Indices: 62104980--62105016 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
62104970 TATTTTTATC
*
62104980 TTATTAATT-TAAAAT-T
1 TTATAAATTATAAAATAT
62104996 TTATAAATTATAAAATAT
1 TTATAAATTATAAAATAT
62105014 TTA
1 TTA
62105017 AATGATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATAAATTATAAAATAT
Found at i:62110113 original size:14 final size:15
Alignment explanation
Indices: 62110094--62110122 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
62110084 TTGTTTGCAT
62110094 ATTATTA-ATCAATA
1 ATTATTACATCAATA
62110108 ATTATTACATCAATA
1 ATTATTACATCAATA
62110123 GAAATCAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTATTACATCAATA
Found at i:62114018 original size:24 final size:24
Alignment explanation
Indices: 62114003--62114054 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
62113993 AATCAAAGTC
62114003 AAATATATTATACTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
* *
62114027 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATGCT
62114051 AAAT
1 AAAT
62114055 CTTTTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:62123499 original size:65 final size:65
Alignment explanation
Indices: 62123392--62123522 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
62123382 CGACCCATAG
*
62123392 ACAAATCTAATTAAAAATATGTGAAATTTTAAATTAAGTCGAAATTTTATTTATATAATTATATC
1 ACAAATCTAATTAAAAATATGTGAAATTTTAAATTAAATCGAAATTTTATTTATATAATTATATC
* *
62123457 ACAAATCTAATTAGAGATATGTGAAATTTTAAATTAAATCGAAATTTTATTTATATAATTATATC
1 ACAAATCTAATTAAAAATATGTGAAATTTTAAATTAAATCGAAATTTTATTTATATAATTATATC
62123522 A
1 A
62123523 AATCAAAATC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (65 bp):
ACAAATCTAATTAAAAATATGTGAAATTTTAAATTAAATCGAAATTTTATTTATATAATTATATC
Found at i:62125924 original size:38 final size:39
Alignment explanation
Indices: 62125853--62125935 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 39
62125843 ATTAAAATTT
62125853 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATA
1 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATA
62125892 AAAAAAGTATTTTAAAAATATTTTAAAA-TAAAAAAATA
1 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATA
62125930 AAAAAA
1 AAAAAA
62125936 TAAAAAAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 16 0.36
39 28 0.64
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (39 bp):
AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATA
Found at i:62125932 original size:7 final size:8
Alignment explanation
Indices: 62125916--62125945 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
62125906 AAAATATTTT
62125916 AAAATAAA
1 AAAATAAA
62125924 AAAATAAA
1 AAAATAAA
62125932 AAAATAAA
1 AAAATAAA
62125940 AAAATA
1 AAAATA
62125946 TATTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAATAAA
Found at i:62130885 original size:36 final size:36
Alignment explanation
Indices: 62130838--62130948 Score: 213
Period size: 36 Copynumber: 3.1 Consensus size: 36
62130828 TTGCAAACGA
62130838 TGATGCAGTTCTTGGAGCGAAGCAAATCCAGTTTCT
1 TGATGCAGTTCTTGGAGCGAAGCAAATCCAGTTTCT
*
62130874 TGATGCGGTTCTTGGAGCGAAGCAAATCCAGTTTCT
1 TGATGCAGTTCTTGGAGCGAAGCAAATCCAGTTTCT
62130910 TGATGCAGTTCTTGGAGCGAAGCAAATCCAGTTTCT
1 TGATGCAGTTCTTGGAGCGAAGCAAATCCAGTTTCT
62130946 TGA
1 TGA
62130949 AGAAACATGA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 73 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (36 bp):
TGATGCAGTTCTTGGAGCGAAGCAAATCCAGTTTCT
Found at i:62132462 original size:40 final size:40
Alignment explanation
Indices: 62132417--62132502 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
62132407 TTCCGAGAAC
62132417 TATTTATCAGATGCAAATCTAGGCAAGTAAGAAGTTTGTA
1 TATTTATCAGATGCAAATCTAGGCAAGTAAGAAGTTTGTA
* *
62132457 TATTTATTAGATGCAAATCTAGGCTAGTAAGAAGTTTGTA
1 TATTTATCAGATGCAAATCTAGGCAAGTAAGAAGTTTGTA
62132497 TATTTA
1 TATTTA
62132503 GTGAACATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (40 bp):
TATTTATCAGATGCAAATCTAGGCAAGTAAGAAGTTTGTA
Found at i:62132823 original size:17 final size:17
Alignment explanation
Indices: 62132801--62132853 Score: 106
Period size: 17 Copynumber: 3.1 Consensus size: 17
62132791 TGAAATATCC
62132801 CTAACCAAGGAAACACG
1 CTAACCAAGGAAACACG
62132818 CTAACCAAGGAAACACG
1 CTAACCAAGGAAACACG
62132835 CTAACCAAGGAAACACG
1 CTAACCAAGGAAACACG
62132852 CT
1 CT
62132854 TCAACTCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.45, C:0.30, G:0.17, T:0.08
Consensus pattern (17 bp):
CTAACCAAGGAAACACG
Found at i:62144972 original size:11 final size:11
Alignment explanation
Indices: 62144958--62145026 Score: 58
Period size: 11 Copynumber: 6.4 Consensus size: 11
62144948 CATTTTTTAA
62144958 TTTTAAAATAT
1 TTTTAAAATAT
62144969 TTTTAAAATACTTT
1 TTTTAAAATA---T
62144983 TTTTAAAAT-T
1 TTTTAAAATAT
*
62144993 TTTT----TAA
1 TTTTAAAATAT
62145000 TTTTAAAATAT
1 TTTTAAAATAT
62145011 TTTTAAAATACT
1 TTTTAAAATA-T
62145023 TTTT
1 TTTT
62145027 TTAATTTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
6 1 0.02
7 4 0.09
10 5 0.11
11 22 0.47
12 5 0.11
14 10 0.21
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:62144996 original size:13 final size:14
Alignment explanation
Indices: 62144968--62145030 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 14
62144958 TTTTAAAATA
62144968 TTTTTAAAATACTT
1 TTTTTAAAATACTT
**
62144982 TTTTTAAAATTTTTT
1 TTTTTAAAA-TACTT
62144997 TAATTTTAAAATA---
1 T--TTTTAAAATACTT
62145010 TTTTTAAAATACTT
1 TTTTTAAAATACTT
62145024 TTTTTAA
1 TTTTTAA
62145031 TTTTTAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
11 10 0.25
13 1 0.03
14 16 0.40
15 4 0.10
16 1 0.03
17 8 0.20
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTTAAAATACTT
Found at i:62144998 original size:42 final size:42
Alignment explanation
Indices: 62144950--62145030 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
62144940 TTTTTTTACA
62144950 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAAAT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAAAT
62144992 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
62145031 TTTTTAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (42 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAAAT
Found at i:62145004 original size:31 final size:32
Alignment explanation
Indices: 62144967--62145041 Score: 102
Period size: 31 Copynumber: 2.4 Consensus size: 32
62144957 ATTTTAAAAT
*
62144967 ATTTTTAAAATACTTTTTTTAAA-A-TTTTTTTA
1 ATTTTTAAAATA--TTTTTAAAATACTTTTTTTA
62144999 A-TTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATATTTTTAAAATACTTTTTTTA
62145030 ATTTTTAAAATA
1 ATTTTTAAAATA
62145042 AATTTTTAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
29 8 0.21
30 1 0.03
31 19 0.49
32 11 0.28
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (32 bp):
ATTTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:62145047 original size:21 final size:21
Alignment explanation
Indices: 62145009--62145048 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62144999 ATTTTAAAAT
**
62145009 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
62145030 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
62145049 AGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:62145055 original size:22 final size:21
Alignment explanation
Indices: 62145008--62145066 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
62144998 AATTTTAAAA
* *
62145008 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
62145028 TAATTTTTAAAATAAATTTTTAG
1 T-ATTTTTAAAATAAATTTTT-G
62145051 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
62145067 GGGTCGGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:62145199 original size:11 final size:11
Alignment explanation
Indices: 62145183--62145251 Score: 58
Period size: 11 Copynumber: 6.4 Consensus size: 11
62145173 NNTTTTTTAA
62145183 TTTTAAAATAT
1 TTTTAAAATAT
62145194 TTTTAAAATACTTT
1 TTTTAAAATA---T
62145208 TTTTAAAAT-T
1 TTTTAAAATAT
*
62145218 TTTT----TAA
1 TTTTAAAATAT
62145225 TTTTAAAATAT
1 TTTTAAAATAT
62145236 TTTTAAAATACT
1 TTTTAAAATA-T
62145248 TTTT
1 TTTT
62145252 TTAATTTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
6 1 0.02
7 4 0.09
10 5 0.11
11 22 0.47
12 5 0.11
14 10 0.21
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:62145221 original size:13 final size:14
Alignment explanation
Indices: 62145193--62145255 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 14
62145183 TTTTAAAATA
62145193 TTTTTAAAATACTT
1 TTTTTAAAATACTT
**
62145207 TTTTTAAAATTTTTT
1 TTTTTAAAA-TACTT
62145222 TAATTTTAAAATA---
1 T--TTTTAAAATACTT
62145235 TTTTTAAAATACTT
1 TTTTTAAAATACTT
62145249 TTTTTAA
1 TTTTTAA
62145256 TTTTTAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
11 10 0.25
13 1 0.03
14 16 0.40
15 4 0.10
16 1 0.03
17 8 0.20
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTTAAAATACTT
Found at i:62145229 original size:31 final size:32
Alignment explanation
Indices: 62145192--62145266 Score: 102
Period size: 31 Copynumber: 2.4 Consensus size: 32
62145182 ATTTTAAAAT
*
62145192 ATTTTTAAAATACTTTTTTTAAA-A-TTTTTTTA
1 ATTTTTAAAATA--TTTTTAAAATACTTTTTTTA
62145224 A-TTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATATTTTTAAAATACTTTTTTTA
62145255 ATTTTTAAAATA
1 ATTTTTAAAATA
62145267 AATTTTTAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
29 8 0.21
30 1 0.03
31 19 0.49
32 11 0.28
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (32 bp):
ATTTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:62145233 original size:42 final size:42
Alignment explanation
Indices: 62145175--62145255 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
62145165 NNNNNNNNNN
62145175 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAAAT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAAAT
62145217 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
62145256 TTTTTAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (42 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAAAT
Found at i:62145272 original size:21 final size:21
Alignment explanation
Indices: 62145234--62145273 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62145224 ATTTTAAAAT
**
62145234 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
62145255 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
62145274 AGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:62145280 original size:22 final size:21
Alignment explanation
Indices: 62145233--62145291 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
62145223 AATTTTAAAA
* *
62145233 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
62145253 TAATTTTTAAAATAAATTTTTAG
1 T-ATTTTTAAAATAAATTTTT-G
62145276 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
62145292 GGCCTGGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:62145509 original size:26 final size:26
Alignment explanation
Indices: 62145480--62145531 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
62145470 TATGGTACTT
62145480 AATTTTTTTTGGCTTAATTTGATACA
1 AATTTTTTTTGGCTTAATTTGATACA
62145506 AATTTTTTTTGGCTTAATTTGATACA
1 AATTTTTTTTGGCTTAATTTGATACA
62145532 TGAACTTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.54
Consensus pattern (26 bp):
AATTTTTTTTGGCTTAATTTGATACA
Found at i:62145553 original size:57 final size:58
Alignment explanation
Indices: 62145492--62145619 Score: 143
Period size: 58 Copynumber: 2.2 Consensus size: 58
62145482 TTTTTTTTGG
** * *
62145492 CTTAATTTGATACA-AATTTTTTTTGG-CTTAATTTGATACATGAACTTGACATTTTTT
1 CTTAATTTGATACATAAACTTTTTGGGCCCT-ATTTGATACATGAACTTGACATTTTTT
* * * *
62145549 CTTAATTTGGTACATAAACTTTTTGGGCCCTATTTGGTACTTGAACTTGATATTTTTT
1 CTTAATTTGATACATAAACTTTTTGGGCCCTATTTGATACATGAACTTGACATTTTTT
* *
62145607 CCTAATATGATAC
1 CTTAATTTGATAC
62145620 CTGAGCTTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
57 13 0.22
58 43 0.74
59 2 0.03
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.48
Consensus pattern (58 bp):
CTTAATTTGATACATAAACTTTTTGGGCCCTATTTGATACATGAACTTGACATTTTTT
Found at i:62146068 original size:59 final size:60
Alignment explanation
Indices: 62145992--62146104 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 60
62145982 AATCGAACAA
*
62145992 AAAAAAGATTAGATACCAAATTAGGAAAAAAAAT-AAGTTCAAGTACCAAATTATACCCC
1 AAAAAAGATTAGATACCAAATTAAGAAAAAAAATCAAGTTCAAGTACCAAATTATACCCC
* ** * *
62146051 AAAAAAGATTA-AGTACCAACTTAAGAAAAAATGTCAAGTTTAGGTACCAAATTA
1 AAAAAAGATTAGA-TACCAAATTAAGAAAAAAAATCAAGTTCAAGTACCAAATTA
62146105 GGAAAAAAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 1 0.02
59 28 0.61
60 17 0.37
ACGTcount: A:0.53, C:0.13, G:0.12, T:0.22
Consensus pattern (60 bp):
AAAAAAGATTAGATACCAAATTAAGAAAAAAAATCAAGTTCAAGTACCAAATTATACCCC
Found at i:62146129 original size:32 final size:31
Alignment explanation
Indices: 62146063--62146144 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 31
62146053 AAAAGATTAA
* * *
62146063 GTACCAACTTAAGAAAAAATGTCAAGTTTAG
1 GTACCAAATTAGGAAAAAATGTCAAGCTTAG
* *
62146094 GTACCAAATTAGGAAAAAAGTGTTAAGCTTGG
1 GTACCAAATTAGGAAAAAA-TGTCAAGCTTAG
62146126 GTACCAAATT-GGACAAAAA
1 GTACCAAATTAGGA-AAAAA
62146145 AGTTTATGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
31 20 0.45
32 24 0.55
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (31 bp):
GTACCAAATTAGGAAAAAATGTCAAGCTTAG
Found at i:62146442 original size:184 final size:184
Alignment explanation
Indices: 62146129--62146496 Score: 720
Period size: 184 Copynumber: 2.0 Consensus size: 184
62146119 AGCTTGGGTA
62146129 CCAAATTGGACAAAAAAGTTTATGTACCAAATTAGAAAAAAAGTGGTAAGTTCAGATACCAAATA
1 CCAAATTGGACAAAAAAGTTTATGTACCAAATTAGAAAAAAAGTGGTAAGTTCAGATACCAAATA
62146194 TGATATTAAGCCTATTTTATACTACTTATATTATAGGCTTGTTTAATATATTTATGTAATTTATA
66 TGATATTAAGCCTATTTTATACTACTTATATTATAGGCTTGTTTAATATATTTATGTAATTTATA
62146259 GAGAATGCTTGACCCCTTGATTAAATTGGACAAATATCAAATAATTAATTATTT
131 GAGAATGCTTGACCCCTTGATTAAATTGGACAAATATCAAATAATTAATTATTT
62146313 CCAAATTGGACAAAAAAGTTTATGTACCAAATTAGAAAAAAAGTGGTAAGTTCAGATACCAAATA
1 CCAAATTGGACAAAAAAGTTTATGTACCAAATTAGAAAAAAAGTGGTAAGTTCAGATACCAAATA
62146378 TGATATTAAGCCTATTTTATACTACTTATATTATAGGCTTGTTTAAATATATTTATGT-ATTTAT
66 TGATATTAAGCCTATTTTATACTACTTATATTATAGGCTTGTTT-AATATATTTATGTAATTTAT
62146442 AGAGAATGCTTGACCCCTTGATTAAATTGGACAAATATCAAATAATTAATTATTT
130 AGAGAATGCTTGACCCCTTGATTAAATTGGACAAATATCAAATAATTAATTATTT
62146497 AATTTAAAAT
Statistics
Matches: 183, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
184 170 0.93
185 13 0.07
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (184 bp):
CCAAATTGGACAAAAAAGTTTATGTACCAAATTAGAAAAAAAGTGGTAAGTTCAGATACCAAATA
TGATATTAAGCCTATTTTATACTACTTATATTATAGGCTTGTTTAATATATTTATGTAATTTATA
GAGAATGCTTGACCCCTTGATTAAATTGGACAAATATCAAATAATTAATTATTT
Found at i:62148381 original size:25 final size:24
Alignment explanation
Indices: 62148353--62148402 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
62148343 GAAGAGAAAG
62148353 AAAAATA-AACAAGAAGAAAAGTTAA
1 AAAAATATAA-AAGAA-AAAAGTTAA
*
62148378 AAAAATATAAAAGGAAAAAGTTAA
1 AAAAATATAAAAGAAAAAAGTTAA
62148402 A
1 A
62148403 TTACTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 10 0.43
25 11 0.48
26 2 0.09
ACGTcount: A:0.72, C:0.02, G:0.12, T:0.14
Consensus pattern (24 bp):
AAAAATATAAAAGAAAAAAGTTAA
Found at i:62158894 original size:31 final size:31
Alignment explanation
Indices: 62158859--62158922 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
62158849 TAAAACTCAA
62158859 ATCTTCTAGATTATATATAGACAAAATCATT
1 ATCTTCTAGATTATATATAGACAAAATCATT
*
62158890 ATCTTTTAGATTATATATAGACAAAATCATT
1 ATCTTCTAGATTATATATAGACAAAATCATT
62158921 AT
1 AT
62158923 GGACTCAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.41
Consensus pattern (31 bp):
ATCTTCTAGATTATATATAGACAAAATCATT
Found at i:62168161 original size:61 final size:63
Alignment explanation
Indices: 62168096--62168219 Score: 164
Period size: 61 Copynumber: 2.0 Consensus size: 63
62168086 TAAAAAGGTA
*
62168096 AAATTCTATAAAAGGTCCTTATACTATAT-TTTTT-GATAGATTTAGT-ACTTCATTATAATTT
1 AAATTCTATAAAAGGTCCTTATACTATATGTTTTTAG-TAGATTTAGTGACTCCATTATAATTT
* * * * *
62168157 AAATTTTCTAAAAGGTGCTTGTACTATATGTTTTTAGTAGATTTAGTGCCTCCATTATAATTT
1 AAATTCTATAAAAGGTCCTTATACTATATGTTTTTAGTAGATTTAGTGACTCCATTATAATTT
62168220 TGATTATTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
61 25 0.46
62 15 0.28
63 14 0.26
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.47
Consensus pattern (63 bp):
AAATTCTATAAAAGGTCCTTATACTATATGTTTTTAGTAGATTTAGTGACTCCATTATAATTT
Found at i:62168808 original size:12 final size:11
Alignment explanation
Indices: 62168758--62168865 Score: 74
Period size: 11 Copynumber: 10.4 Consensus size: 11
62168748 TAAAAATTAA
62168758 AAAAAGTATTTT
1 AAAAA-TATTTT
62168770 AAAAATATTTT
1 AAAAATATTTT
62168781 --AAA-A--TT
1 AAAAATATTTT
*
62168787 AAAAAAATTTT
1 AAAAATATTTT
62168798 AAAAAGTATTTT
1 AAAAA-TATTTT
62168810 AAAAATATTTT
1 AAAAATATTTT
62168821 --AAA-A--TT
1 AAAAATATTTT
* **
62168827 AAAAAAATTAAA
1 AAAAATATT-TT
62168839 AAAAAGTATTTT
1 AAAAA-TATTTT
62168851 AAAAATATTTT
1 AAAAATATTTT
62168862 AAAA
1 AAAA
62168866 TTAAAAAAAG
Statistics
Matches: 77, Mismatches: 6, Indels: 27
0.70 0.05 0.25
Matches are distributed among these distances:
6 4 0.05
8 8 0.10
9 8 0.10
11 29 0.38
12 25 0.32
13 3 0.04
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:62168832 original size:41 final size:40
Alignment explanation
Indices: 62168749--62168932 Score: 241
Period size: 40 Copynumber: 4.5 Consensus size: 40
62168739 AATTTATTTT
62168749 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
**
62168789 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
62168829 AAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAAATT-AAAAAAAGTATTTTAAAAATATTTTAAAATT-AA
* *
62168871 AAAAGTATTTGTAAAAAAA--A--TTAAAAAAAATTTAAAATTAA
1 AAAA--A--T-TAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
62168912 AAAAATTAAAAAAAGTATTTT
1 AAAAATTAAAAAAAGTATTTT
62168933 TTTGCCCAAG
Statistics
Matches: 127, Mismatches: 6, Indels: 22
0.82 0.04 0.14
Matches are distributed among these distances:
36 8 0.06
37 1 0.01
38 1 0.01
39 1 0.01
40 47 0.37
41 35 0.28
42 23 0.18
44 2 0.02
46 8 0.06
47 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (40 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
Found at i:62168895 original size:31 final size:32
Alignment explanation
Indices: 62168810--62168896 Score: 103
Period size: 31 Copynumber: 2.8 Consensus size: 32
62168800 AAAGTATTTT
*
62168810 AAAAA-TATTTTAAAATTAAA--AAAATTAAA
1 AAAAAGTATTTTAAAAATAAATTAAAATTAAA
**
62168839 AAAAAGTATTTTAAAAATATTTTAAAATT-AA
1 AAAAAGTATTTTAAAAATAAATTAAAATTAAA
62168870 AAAAAGTATTTGTAAAAA-AAATTAAAA
1 AAAAAGTATTT-TAAAAATAAATTAAAA
62168897 AAAATTTAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
29 5 0.10
30 12 0.24
31 20 0.41
32 12 0.24
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (32 bp):
AAAAAGTATTTTAAAAATAAATTAAAATTAAA
Found at i:62168898 original size:9 final size:9
Alignment explanation
Indices: 62168884--62168925 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
62168874 AGTATTTGTA
62168884 AAAAAAATT
1 AAAAAAATT
62168893 AAAAAAAATT
1 -AAAAAAATT
*
62168903 --TAAAATT
1 AAAAAAATT
62168910 AAAAAAATT
1 AAAAAAATT
62168919 AAAAAAA
1 AAAAAAA
62168926 GTATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
7 6 0.21
9 13 0.46
10 9 0.32
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAAAATT
Found at i:62169599 original size:26 final size:26
Alignment explanation
Indices: 62169570--62169646 Score: 66
Period size: 31 Copynumber: 2.8 Consensus size: 26
62169560 AAAACATAGA
62169570 TACTTAATTGGAACAAAAAACTCGAG
1 TACTTAATTGGAACAAAAAACTCGAG
* * *
62169596 TACTAAATTGTTCAATAAATCCAAACTCGAG
1 TACTTAATTG--GAACAAA---AAACTCGAG
62169627 TGA-TTAATTGGAACAAAAAA
1 T-ACTTAATTGGAACAAAAAA
62169647 ATCAAGTATC
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
26 12 0.31
28 5 0.13
29 5 0.13
31 16 0.41
32 1 0.03
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (26 bp):
TACTTAATTGGAACAAAAAACTCGAG
Found at i:62171366 original size:31 final size:33
Alignment explanation
Indices: 62171331--62171398 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 33
62171321 TTTTTTAGTT
*
62171331 AAATTTGATCCTCAATATTTT-AAAAAGAGT-C
1 AAATTTGATCATCAATATTTTGAAAAAGAGTCC
* * *
62171362 AAATTTGGTTATCAATTTTTTGAAAAAGAGTCC
1 AAATTTGATCATCAATATTTTGAAAAAGAGTCC
62171395 AAAT
1 AAAT
62171399 GAATTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 17 0.55
32 9 0.29
33 5 0.16
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (33 bp):
AAATTTGATCATCAATATTTTGAAAAAGAGTCC
Found at i:62172961 original size:11 final size:11
Alignment explanation
Indices: 62172920--62172961 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
62172910 TACATCGGAT
62172920 ATAA-TTACTA
1 ATAATTTACTA
*
62172930 ATAATTTAATA
1 ATAATTTACTA
62172941 TATAAATTTACTA
1 -AT-AATTTACTA
62172954 ATAATTTA
1 ATAATTTA
62172962 ATTACATCGG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 4 0.15
11 11 0.41
12 4 0.15
13 8 0.30
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (11 bp):
ATAATTTACTA
Found at i:62176706 original size:27 final size:29
Alignment explanation
Indices: 62176660--62176719 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
62176650 ATTAAACTTA
*
62176660 AAAAAATAAAAATATCTAATTAA-AATAT
1 AAAAAATAAAAATATATAATTAATAATAT
*
62176688 AAAAAATAAAAAT-TATAATTAATCATAT
1 AAAAAATAAAAATATATAATTAATAATAT
62176716 AAAA
1 AAAA
62176720 TTAATTGTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (29 bp):
AAAAAATAAAAATATATAATTAATAATAT
Found at i:62177813 original size:5 final size:5
Alignment explanation
Indices: 62177803--62177828 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
62177793 GAACAAATAT
62177803 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
62177829 ATTTCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:62177928 original size:5 final size:5
Alignment explanation
Indices: 62177918--62177945 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
62177908 CTTGAAAATT
62177918 TTCGA TTCGA TTCGA TTCGA TTCGA TTC
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTC
62177946 CATCGAATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (5 bp):
TTCGA
Found at i:62181449 original size:22 final size:22
Alignment explanation
Indices: 62181418--62181463 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
62181408 CTTTTCGATA
*
62181418 TTTT-ATTTAATATTATTTGTAT
1 TTTTAATTAAATATTATTT-TAT
62181440 TTTTAATTAAATATTATTTTAT
1 TTTTAATTAAATATTATTTTAT
62181462 TT
1 TT
62181464 GTATCTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTAATTAAATATTATTTTAT
Found at i:62187853 original size:23 final size:23
Alignment explanation
Indices: 62187827--62187876 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 23
62187817 AATAAAAACG
62187827 ACAAAAGAACGGACTAAACCAGT
1 ACAAAAGAACGGACTAAACCAGT
62187850 AC-AAAGAACGGACTAAACCAGT
1 ACAAAAGAACGGACTAAACCAGT
62187872 A-AAAA
1 ACAAAA
62187877 CTGGGGTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.56, C:0.20, G:0.16, T:0.08
Consensus pattern (23 bp):
ACAAAAGAACGGACTAAACCAGT
Found at i:62189041 original size:21 final size:21
Alignment explanation
Indices: 62189016--62189058 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
62189006 AAAAAATTAA
62189016 ATTATTCTA-TTCTTTTAAAAG
1 ATTATTCTACTT-TTTTAAAAG
62189037 ATTATTCTACTTTTTTAAAAG
1 ATTATTCTACTTTTTTAAAAG
62189058 A
1 A
62189059 ACTGATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTATTCTACTTTTTTAAAAG
Found at i:62199033 original size:11 final size:11
Alignment explanation
Indices: 62199019--62199078 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
62199009 TTTTGTTGCA
*
62199019 ATTTTCTTATT
1 ATTTTATTATT
*
62199030 ATTTTATCATT
1 ATTTTATTATT
* *
62199041 ATTTTGTTATC
1 ATTTTATTATT
*
62199052 ATTTTACTATT
1 ATTTTATTATT
* *
62199063 ATGTTAATATT
1 ATTTTATTATT
62199074 ATTTT
1 ATTTT
62199079 GTTAGTATTG
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (11 bp):
ATTTTATTATT
Found at i:62199046 original size:33 final size:33
Alignment explanation
Indices: 62199009--62199083 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
62198999 TTTCTTACTG
*
62199009 TTTTGTT-GCAATTTT-CTTATTAT-TTTATCATTA
1 TTTTGTTAGC-ATTTTAC-TATTATGTTAAT-ATTA
*
62199042 TTTTGTTATCATTTTACTATTATGTTAATATTA
1 TTTTGTTAGCATTTTACTATTATGTTAATATTA
62199075 TTTTGTTAG
1 TTTTGTTAG
62199084 TATTGTTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
33 30 0.83
34 6 0.17
ACGTcount: A:0.23, C:0.07, G:0.08, T:0.63
Consensus pattern (33 bp):
TTTTGTTAGCATTTTACTATTATGTTAATATTA
Found at i:62199667 original size:20 final size:19
Alignment explanation
Indices: 62199644--62199681 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
62199634 AGAAAATTAA
62199644 GTTAAAATTAAGAATTTTAG
1 GTTAAAATTAA-AATTTTAG
62199664 GTTAAAATTAAAATTTTA
1 GTTAAAATTAAAATTTTA
62199682 ACATTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (19 bp):
GTTAAAATTAAAATTTTAG
Found at i:62200168 original size:17 final size:17
Alignment explanation
Indices: 62200146--62200179 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62200136 AATGCAAGAT
*
62200146 ATAAAATAATATTATAA
1 ATAAAATAATAATATAA
*
62200163 ATAAAATTATAATATAA
1 ATAAAATAATAATATAA
62200180 GTTCATCCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAAATAATAATATAA
Found at i:62202622 original size:16 final size:17
Alignment explanation
Indices: 62202584--62202622 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
62202574 AGTTTATAAT
*
62202584 ATTTTTATATTATGTTA
1 ATTTATATATTATGTTA
62202601 ACTTTATATATTATG-TA
1 A-TTTATATATTATGTTA
62202618 ATTTA
1 ATTTA
62202623 GAACACTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 4 0.20
18 12 0.60
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (17 bp):
ATTTATATATTATGTTA
Found at i:62210029 original size:18 final size:18
Alignment explanation
Indices: 62210006--62210043 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
62209996 ATAGTATTAA
62210006 AATATATAATTTTAT-ATT
1 AATATAT-ATTTTATAATT
*
62210024 AATATATTTTTTATAATT
1 AATATATATTTTATAATT
62210042 AA
1 AA
62210044 ATTTAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AATATATATTTTATAATT
Found at i:62212311 original size:311 final size:312
Alignment explanation
Indices: 62211737--62212361 Score: 1243
Period size: 311 Copynumber: 2.0 Consensus size: 312
62211727 GTTAAAAAAA
62211737 TTAAATTCTTAAAAAAATATTATTTTTAATAAATTATAAAAAAAAAGCCTTAATTTCTATGATTC
1 TTAAATTCTTAAAAAAATATTATTTTTAATAAATTATAAAAAAAAAGCCTTAATTTCTATGATTC
62211802 AAATTTAGTACTTAGAATTCAACATTTAATTTTTTATTCTTTTTTCATTTTAGAAAAAAACCTAC
66 AAATTTAGTACTTAGAATTCAACATTTAATTTTTTATTCTTTTTTCATTTTAGAAAAAAACCTAC
62211867 TTTTATGGAATTCTCATTGCTTTCAGCCCCCATCCTTTATCCCACTTTTCTTGACTTTCATCATT
131 TTTTATGGAATTCTCATTGCTTTCAGCCCCCATCCTTTATCCCACTTTTCTTGACTTTCATCATT
62211932 TCTTTTTATTTTCCTTTTCCACTTTCTCGGTAAACAAACAGCTCAACTGGAACTGGAAGGAAATT
196 TCTTTTTATTTTCCTTTTCCACTTTCTCGGTAAACAAACAGCTCAACTGGAACTGGAAGGAAATT
62211997 GACTACTCGATGTCAATGTATAATTGCAGCCCACTCAACCAAGGAATGGGGC
261 GACTACTCGATGTCAATGTATAATTGCAGCCCACTCAACCAAGGAATGGGGC
62212049 TTAAATTCTT-AAAAAATATTATTTTTAATAAATTATAAAAAAAAAGCCTTAATTTCTATGATTC
1 TTAAATTCTTAAAAAAATATTATTTTTAATAAATTATAAAAAAAAAGCCTTAATTTCTATGATTC
62212113 AAATTTAGTACTTAGAATTCAACATTTAATTTTTTATTCTTTTTTCATTTTAGAAAAAAACCTAC
66 AAATTTAGTACTTAGAATTCAACATTTAATTTTTTATTCTTTTTTCATTTTAGAAAAAAACCTAC
62212178 TTTTATGGAATTCTCATTGCTTTCAGCCCCCATCCTTTATCCCACTTTTCTTGACTTTCATCATT
131 TTTTATGGAATTCTCATTGCTTTCAGCCCCCATCCTTTATCCCACTTTTCTTGACTTTCATCATT
62212243 TCTTTTTATTTTCCTTTTCCACTTTCTCGGTAAACAAACAGCTCAACTGGAACTGGAAGGAAATT
196 TCTTTTTATTTTCCTTTTCCACTTTCTCGGTAAACAAACAGCTCAACTGGAACTGGAAGGAAATT
62212308 GACTACTCGATGTCAATGTATAATTGCAGCCCACTCAACCAAGGAATGGGGC
261 GACTACTCGATGTCAATGTATAATTGCAGCCCACTCAACCAAGGAATGGGGC
62212360 TT
1 TT
62212362 CGACTGCCAT
Statistics
Matches: 313, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
311 303 0.97
312 10 0.03
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (312 bp):
TTAAATTCTTAAAAAAATATTATTTTTAATAAATTATAAAAAAAAAGCCTTAATTTCTATGATTC
AAATTTAGTACTTAGAATTCAACATTTAATTTTTTATTCTTTTTTCATTTTAGAAAAAAACCTAC
TTTTATGGAATTCTCATTGCTTTCAGCCCCCATCCTTTATCCCACTTTTCTTGACTTTCATCATT
TCTTTTTATTTTCCTTTTCCACTTTCTCGGTAAACAAACAGCTCAACTGGAACTGGAAGGAAATT
GACTACTCGATGTCAATGTATAATTGCAGCCCACTCAACCAAGGAATGGGGC
Found at i:62213505 original size:119 final size:119
Alignment explanation
Indices: 62213362--62213603 Score: 430
Period size: 119 Copynumber: 2.0 Consensus size: 119
62213352 AACGTCTTGA
* * *
62213362 TTAATTATTCTTAATTGCTCACTTTCAAAATTGACAAGAATTAAATTGCTTTGATTTTTTAGAGG
1 TTAATTATTCTTAATTGCTCACTTTCAAAATTGACAAGAATTAAATTACTTTGATTTTTTAAAGA
*
62213427 GACAAATCTTCTCAATTTTGAAATTGAGAGGGACTGCGGAGACCTTTTTCTCGT
66 GACAAATCTTCTCAATTTAGAAATTGAGAGGGACTGCGGAGACCTTTTTCTCGT
*
62213481 TTAATTATTCTTAATTGCTCACTTTCAAAATTGACAAGAATTAATTTACTTTGATTTTTTAAAGA
1 TTAATTATTCTTAATTGCTCACTTTCAAAATTGACAAGAATTAAATTACTTTGATTTTTTAAAGA
*
62213546 GACAAATCTTCTCAATTTAGAAATTGAGAGGGACTGCGGAGGCCTTTTTCTCGT
66 GACAAATCTTCTCAATTTAGAAATTGAGAGGGACTGCGGAGACCTTTTTCTCGT
62213600 TTAA
1 TTAA
62213604 AATTTTAAAA
Statistics
Matches: 117, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 117 1.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.40
Consensus pattern (119 bp):
TTAATTATTCTTAATTGCTCACTTTCAAAATTGACAAGAATTAAATTACTTTGATTTTTTAAAGA
GACAAATCTTCTCAATTTAGAAATTGAGAGGGACTGCGGAGACCTTTTTCTCGT
Found at i:62223954 original size:29 final size:29
Alignment explanation
Indices: 62223883--62223947 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
62223873 TAGGTGAATT
** *
62223883 TTATTTTATTTTTAGTTATTTTGTTAGAA
1 TTATTTTAGATTTAATTATTTTGTTAGAA
* *
62223912 TTATTTTAGATTTAATTATTTTTTTCGAA
1 TTATTTTAGATTTAATTATTTTGTTAGAA
62223941 TTATTTT
1 TTATTTT
62223948 GAATTTAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.66
Consensus pattern (29 bp):
TTATTTTAGATTTAATTATTTTGTTAGAA
Found at i:62224840 original size:16 final size:16
Alignment explanation
Indices: 62224801--62224831 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62224791 GGCCCGGCCC
62224801 AAATATATTATATTAT
1 AAATATATTATATTAT
*
62224817 AAAAATATTATATTA
1 AAATATATTATATTA
62224832 ATTATATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATATATTATATTAT
Found at i:62232365 original size:15 final size:14
Alignment explanation
Indices: 62232332--62232374 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
62232322 TACCAACTAG
62232332 ACTTAAAAAAAAAA
1 ACTTAAAAAAAAAA
* *
62232346 ACTTAACAACAAATA
1 ACTTAA-AAAAAAAA
62232361 ACTTAAATAAAAAA
1 ACTTAAA-AAAAAA
62232375 CTTTAGAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.19
Consensus pattern (14 bp):
ACTTAAAAAAAAAA
Found at i:62249875 original size:19 final size:17
Alignment explanation
Indices: 62249849--62249900 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
62249839 GAATATTATT
62249849 ATAATTTTTATTATTAA
1 ATAATTTTTATTATTAA
*
62249866 ATAAAATTTTATAATT-TTTA
1 AT--AATTTT-T-ATTATTAA
62249886 ATAATTTTTATTATT
1 ATAATTTTTATTATT
62249901 TTTAAAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
16 3 0.10
17 5 0.17
18 6 0.21
19 6 0.21
20 6 0.21
21 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAATTTTTATTATTAA
Found at i:62249901 original size:19 final size:19
Alignment explanation
Indices: 62249849--62249905 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
62249839 GAATATTATT
*
62249849 ATAATTTTTATTA--TTAA
1 ATAATTTTTATTATTTTTA
* *
62249866 ATAAAATTTTATAATTTTTA
1 AT-AATTTTTATTATTTTTA
62249886 ATAATTTTTATTATTTTTA
1 ATAATTTTTATTATTTTTA
62249905 A
1 A
62249906 AAAAGTGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 2 0.06
18 9 0.28
19 16 0.50
20 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATAATTTTTATTATTTTTA
Found at i:62257171 original size:132 final size:132
Alignment explanation
Indices: 62256929--62257175 Score: 354
Period size: 132 Copynumber: 1.9 Consensus size: 132
62256919 TTCTTTTGAG
* * * * *
62256929 AAGTGTTTTTGAAAAATAAAATGTCAAATTTAAACATGTTATTATCAAGTAACAAATATGTATTT
1 AAGTGCTTTTGAAAAATAAAACGTCAAATTTAAACATGATATTATAAAGTAACAAATATGCATTT
* * * *
62256994 AAATAATATTTAAATTAGTTAATATTATTATATTTTTGTAAGAATATAAATTAACATTAATGTTC
66 AAATAATATTAAAATTAATTAATATTATGATATTTTAGTAAGAATATAAATTAACATTAATGTTC
62257059 AA
131 AA
* *
62257061 AAGTGCTTTT-AAGAAATAAAACGTC-AATCTTAGACATGATATTATAAATTAACAAATATGCAT
1 AAGTGCTTTTGAA-AAATAAAACGTCAAAT-TTAAACATGATATTATAAAGTAACAAATATGCAT
*
62257124 TTAAATAATATTAAAATTAATTAATATTATGATATTTTAGTACGAATATAAA
64 TTAAATAATATTAAAATTAATTAATATTATGATATTTTAGTAAGAATATAAA
62257176 AAATAATTTA
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
131 5 0.05
132 96 0.95
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.39
Consensus pattern (132 bp):
AAGTGCTTTTGAAAAATAAAACGTCAAATTTAAACATGATATTATAAAGTAACAAATATGCATTT
AAATAATATTAAAATTAATTAATATTATGATATTTTAGTAAGAATATAAATTAACATTAATGTTC
AA
Found at i:62260772 original size:54 final size:53
Alignment explanation
Indices: 62260704--62260884 Score: 155
Period size: 54 Copynumber: 3.5 Consensus size: 53
62260694 GCTTTTGAAA
* *
62260704 ATTGTTGTAAAAAAGTGCTTTTGAGAAGCTTGTTTTAAAATTTGAATGTTTAGC
1 ATTGCTGTTAAAAAGTGCTTTTGAGAAG-TTGTTTTAAAATTTGAATGTTTAGC
* * * * **
62260758 ATTGCTGTTAAAAAGTGATTTTGAGAA------ATAAAATGTCAAT-TTTGAAA
1 ATTGCTGTTAAAAAGTGCTTTTGAGAAGTTGTTTTAAAATTTGAATGTTT-AGC
* * *
62260805 AGTGTTGTTTAAAAGTGCTTTTGAGAAGTTTGTTTTAAAATTTGAATGTTTAGC
1 ATTGCTGTTAAAAAGTGCTTTTGAGAAG-TTGTTTTAAAATTTGAATGTTTAGC
*
62260859 ATTGCT-TTCAAAAAGT-TTTTTGAGAA
1 ATTGCTGTT-AAAAAGTGCTTTTGAGAA
62260885 ATAAAATGTC
Statistics
Matches: 96, Mismatches: 21, Indels: 21
0.70 0.15 0.15
Matches are distributed among these distances:
46 3 0.03
47 34 0.35
53 11 0.11
54 45 0.47
55 3 0.03
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.42
Consensus pattern (53 bp):
ATTGCTGTTAAAAAGTGCTTTTGAGAAGTTGTTTTAAAATTTGAATGTTTAGC
Found at i:62260872 original size:101 final size:100
Alignment explanation
Indices: 62260696--62260900 Score: 340
Period size: 101 Copynumber: 2.0 Consensus size: 100
62260686 TTGACAGGGC
*
62260696 TTTTGAAAATTGTTGTAAAAAAGTGCTTTTGAGAAGCTTGTTTTAAAATTTGAATGTTTAGCATT
1 TTTTGAAAAGTGTTGTAAAAAAGTGCTTTTGAGAAGCTTGTTTTAAAATTTGAATGTTTAGCATT
62260761 GCTGTTAAAAAGTGATTTTGAGAAATAAAATGTCAA
66 GCTGTTAAAAAGT-ATTTTGAGAAATAAAATGTCAA
** *
62260797 TTTTGAAAAGTGTTGTTTAAAAGTGCTTTTGAGAAGTTTGTTTTAAAATTTGAATGTTTAGCATT
1 TTTTGAAAAGTGTTGTAAAAAAGTGCTTTTGAGAAGCTTGTTTTAAAATTTGAATGTTTAGCATT
*
62260862 GCT-TTCAAAAAGTTTTTTGAGAAATAAAATGTCAA
66 GCTGTT-AAAAAGTATTTTGAGAAATAAAATGTCAA
62260897 TTTT
1 TTTT
62260901 AGACATGTTA
Statistics
Matches: 98, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
100 27 0.28
101 71 0.72
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (100 bp):
TTTTGAAAAGTGTTGTAAAAAAGTGCTTTTGAGAAGCTTGTTTTAAAATTTGAATGTTTAGCATT
GCTGTTAAAAAGTATTTTGAGAAATAAAATGTCAA
Found at i:62261197 original size:24 final size:26
Alignment explanation
Indices: 62261168--62261222 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
62261158 GCACACTTTC
62261168 AAAAGTG-T-TTTTGAAGTACTACTA
1 AAAAGTGTTATTTTGAAGTACTACTA
*
62261192 AAAAGTGTTATTTTTAAGTACTACTA
1 AAAAGTGTTATTTTGAAGTACTACTA
62261218 AAAAG
1 AAAAG
62261223 GCATTAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 7 0.25
25 1 0.04
26 20 0.71
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (26 bp):
AAAAGTGTTATTTTGAAGTACTACTA
Found at i:62272644 original size:20 final size:20
Alignment explanation
Indices: 62272621--62272658 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
62272611 AAAAAGCAGA
62272621 GAGAGAAAATGAAAGAAAGT
1 GAGAGAAAATGAAAGAAAGT
*
62272641 GAGAGAAAGTGAAAGAAA
1 GAGAGAAAATGAAAGAAA
62272659 ATTTAGACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.32, T:0.08
Consensus pattern (20 bp):
GAGAGAAAATGAAAGAAAGT
Found at i:62272647 original size:10 final size:10
Alignment explanation
Indices: 62272624--62272658 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
62272614 AAGCAGAGAG
*
62272624 AGAAAATGAA
1 AGAAAGTGAA
*
62272634 AGAAAGTGAG
1 AGAAAGTGAA
62272644 AGAAAGTGAA
1 AGAAAGTGAA
62272654 AGAAA
1 AGAAA
62272659 ATTTAGACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.29, T:0.09
Consensus pattern (10 bp):
AGAAAGTGAA
Found at i:62277566 original size:17 final size:19
Alignment explanation
Indices: 62277527--62277567 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
62277517 ATTGAACCAA
62277527 ATTTATCAATTTTTAACTT
1 ATTTATCAATTTTTAACTT
*
62277546 -TTTATGAA-TTTTAA-TT
1 ATTTATCAATTTTTAACTT
62277562 ATTTAT
1 ATTTAT
62277568 TTAATTATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 2 0.10
17 11 0.55
18 7 0.35
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTATCAATTTTTAACTT
Found at i:62278166 original size:3 final size:3
Alignment explanation
Indices: 62278158--62278194 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
62278148 TAGTGGATAA
62278158 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
62278195 AAACCTTGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:62289867 original size:34 final size:35
Alignment explanation
Indices: 62289803--62289868 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 35
62289793 TTGTATCAAA
* * *
62289803 AAAATAACATTATTTTTTAAAATTTTAAATAATTG
1 AAAATAAAATTATATTTTAAAATTTGAAATAATTG
62289838 AAAATAAAATTA-ATTTT-AAATGTTGAAATAA
1 AAAATAAAATTATATTTTAAAAT-TTGAAATAA
62289869 ATAAATTAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.15
34 12 0.44
35 11 0.41
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.41
Consensus pattern (35 bp):
AAAATAAAATTATATTTTAAAATTTGAAATAATTG
Found at i:62293390 original size:32 final size:32
Alignment explanation
Indices: 62293349--62293413 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
62293339 CCAGCAAGAG
*
62293349 AAAGAGAATTTACATTGACAATGATTGAACAA
1 AAAGAGAATTTACATTGACAATAATTGAACAA
*
62293381 AAAGAGAATTTACATTTACAATAATTGAACAA
1 AAAGAGAATTTACATTGACAATAATTGAACAA
62293413 A
1 A
62293414 GGATCCATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.26
Consensus pattern (32 bp):
AAAGAGAATTTACATTGACAATAATTGAACAA
Found at i:62295907 original size:23 final size:24
Alignment explanation
Indices: 62295848--62295916 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
62295838 GTAATGAAGA
*
62295848 AAAAGATAAGAGAGAAAAATAAAGG
1 AAAAGAAAAGA-AGAAAAATAAAGG
*
62295873 AAAAGAAGAGAAGAAAAATAAA-G
1 AAAAGAAAAGAAGAAAAATAAAGG
*
62295896 AAATA-AAAAGAA-AAAATTAAA
1 AAA-AGAAAAGAAGAAAAATAAA
62295917 TTGTTCAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 8 0.21
23 10 0.26
24 12 0.31
25 9 0.23
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (24 bp):
AAAAGAAAAGAAGAAAAATAAAGG
Found at i:62304707 original size:24 final size:24
Alignment explanation
Indices: 62304679--62304750 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
62304669 TCCGGTGCTT
62304679 CCCGTTAATTGCTCTTTGGAGCTA
1 CCCGTTAATTGCTCTTTGGAGCTA
62304703 CCCGTTAATTGCTCTTTGGAGCTA
1 CCCGTTAATTGCTCTTTGGAGCTA
*
62304727 CCCGTT-ATAGACTCTTTGTGAGCT
1 CCCGTTAATTG-CTCTTTG-GAGCT
62304751 TTCCATTATA
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
23 3 0.07
24 37 0.82
25 5 0.11
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (24 bp):
CCCGTTAATTGCTCTTTGGAGCTA
Found at i:62304759 original size:25 final size:24
Alignment explanation
Indices: 62304690--62304760 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
62304680 CCGTTAATTG
* *
62304690 CTCTTTGGAGCTACCCGTTAATTG-
1 CTCTTTGGAGCTACCCATT-ATAGA
*
62304714 CTCTTTGGAGCTACCCGTTATAGA
1 CTCTTTGGAGCTACCCATTATAGA
**
62304738 CTCTTTGTGAGCTTTCCATTATA
1 CTCTTTG-GAGCTACCCATTATA
62304761 TTGCCCGGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
23 3 0.07
24 26 0.63
25 12 0.29
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (24 bp):
CTCTTTGGAGCTACCCATTATAGA
Found at i:62304831 original size:74 final size:74
Alignment explanation
Indices: 62304745--62304908 Score: 310
Period size: 74 Copynumber: 2.2 Consensus size: 74
62304735 AGACTCTTTG
* *
62304745 TGAGCTTTCCATTATATTGCCCGGATAAGCTTCGTGTTATATTGCTCGGATAAGCTTCCCGTTAC
1 TGAGCTTCCCATTATATTGCCCGGATAAGCTTCGTGTTATATTGCTCGGATAAACTTCCCGTTAC
62304810 AAGGCTCAA
66 AAGGCTCAA
62304819 TGAGCTTCCCATTATATTGCCCGGATAAGCTTCGTGTTATATTGCTCGGATAAACTTCCCGTTAC
1 TGAGCTTCCCATTATATTGCCCGGATAAGCTTCGTGTTATATTGCTCGGATAAACTTCCCGTTAC
62304884 AAGGCTCAA
66 AAGGCTCAA
62304893 TGAGCTTCCCATTATA
1 TGAGCTTCCCATTATA
62304909 GTGCTTGAGA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
74 88 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (74 bp):
TGAGCTTCCCATTATATTGCCCGGATAAGCTTCGTGTTATATTGCTCGGATAAACTTCCCGTTAC
AAGGCTCAA
Found at i:62304882 original size:25 final size:25
Alignment explanation
Indices: 62304747--62304882 Score: 130
Period size: 25 Copynumber: 5.5 Consensus size: 25
62304737 ACTCTTTGTG
* * *
62304747 AGCTTTCCATTATATTGCCCGGATA
1 AGCTTCCCGTTATATTGCTCGGATA
**
62304772 AGCTTCGTGTTATATTGCTCGGATA
1 AGCTTCCCGTTATATTGCTCGGATA
* ** * *
62304797 AGCTTCCCGTTACAAGGCTC-AATG
1 AGCTTCCCGTTATATTGCTCGGATA
* *
62304821 AGCTTCCCATTATATTGCCCGGATA
1 AGCTTCCCGTTATATTGCTCGGATA
**
62304846 AGCTTCGTGTTATATTGCTCGGATA
1 AGCTTCCCGTTATATTGCTCGGATA
*
62304871 AACTTCCCGTTA
1 AGCTTCCCGTTA
62304883 CAAGGCTCAA
Statistics
Matches: 84, Mismatches: 26, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
24 17 0.20
25 67 0.80
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (25 bp):
AGCTTCCCGTTATATTGCTCGGATA
Found at i:62305167 original size:42 final size:42
Alignment explanation
Indices: 62305105--62305190 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
62305095 CATGAAATAT
*
62305105 TTGGAAACTCGATACTTGATGAGCTCATCCTTATTTTTGTTA
1 TTGGAAACTCGATACCTGATGAGCTCATCCTTATTTTTGTTA
*
62305147 TTGGAAACTCGATACCTGATGAGCTCATCCTTGTTTTTGTTA
1 TTGGAAACTCGATACCTGATGAGCTCATCCTTATTTTTGTTA
62305189 TT
1 TT
62305191 CACGTGAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.43
Consensus pattern (42 bp):
TTGGAAACTCGATACCTGATGAGCTCATCCTTATTTTTGTTA
Found at i:62308264 original size:16 final size:15
Alignment explanation
Indices: 62308243--62308294 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
62308233 ATTGAGATTG
*
62308243 ATTACAGCTCTATTAT
1 ATTACAACTCTATT-T
62308259 ATTACAACTCTATTT
1 ATTACAACTCTATTT
* *
62308274 CATTGCATCTCTATTCT
1 -ATTACAACTCTATT-T
62308291 ATTA
1 ATTA
62308295 GAACGAACCG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.04, T:0.46
Consensus pattern (15 bp):
ATTACAACTCTATTT
Found at i:62319233 original size:16 final size:15
Alignment explanation
Indices: 62319204--62319250 Score: 67
Period size: 16 Copynumber: 3.0 Consensus size: 15
62319194 TTCTATCTCT
62319204 AAAATTAATTAATAA
1 AAAATTAATTAATAA
*
62319219 AAAATTAATTTAATAGT
1 AAAATTAA-TTAATA-A
62319236 AAAATTAATTAATAA
1 AAAATTAATTAATAA
62319251 GGTTGGTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 8 0.29
16 12 0.43
17 8 0.29
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
AAAATTAATTAATAA
Found at i:62325625 original size:11 final size:11
Alignment explanation
Indices: 62325609--62325637 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
62325599 AAAAAAATAA
62325609 AAAATTATTTT
1 AAAATTATTTT
62325620 AAAATTATTTT
1 AAAATTATTTT
62325631 AAAATTA
1 AAAATTA
62325638 AAAAATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:62325810 original size:11 final size:11
Alignment explanation
Indices: 62325794--62325821 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
62325784 CCACATCAAC
62325794 AAATTATTTTA
1 AAATTATTTTA
62325805 AAATTATTTTA
1 AAATTATTTTA
62325816 AAATTA
1 AAATTA
62325822 AAAAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:62329090 original size:30 final size:29
Alignment explanation
Indices: 62329030--62329090 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
62329020 GGAGGGGAGG
* **
62329030 GGAGTAAAAGTCTTGGGGGAAAGTGGGAA
1 GGAGTAAAAGTCTTGGGGAAAAGTAAGAA
*
62329059 GGAGTAAAAGTTTTGAGGGAAAAGTAAGAA
1 GGAGTAAAAGTCTTG-GGGAAAAGTAAGAA
62329089 GG
1 GG
62329091 TTTGGGAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.39, C:0.02, G:0.41, T:0.18
Consensus pattern (29 bp):
GGAGTAAAAGTCTTGGGGAAAAGTAAGAA
Found at i:62337514 original size:30 final size:30
Alignment explanation
Indices: 62337479--62337560 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 30
62337469 GATATAATAC
62337479 CAGCTTGTGTGAGCAACTCTATTATAATGT
1 CAGCTTGTGTGAGCAACTCTATTATAATGT
* * ** *
62337509 TAGCTTGTGTGAGCAACCCTGGTATACTGT
1 CAGCTTGTGTGAGCAACTCTATTATAATGT
* *
62337539 CAGCTCGTGCGAGCAACT-TATT
1 CAGCTTGTGTGAGCAACTCTATT
62337561 CCCGTATATC
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
29 2 0.05
30 39 0.95
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (30 bp):
CAGCTTGTGTGAGCAACTCTATTATAATGT
Found at i:62338694 original size:43 final size:43
Alignment explanation
Indices: 62338662--62338758 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 43
62338652 TGTAATATTG
*
62338662 TATCGATGCCAATAG-CCCAGCCATAGTCTTACACGAAATCACA
1 TATCGATGCCAAT-GTCCCAGACATAGTCTTACACGAAATCACA
* * *
62338705 TATCGATGCCAATGTCCCAGACATGGTCTTACACGAAGTCTCA
1 TATCGATGCCAATGTCCCAGACATAGTCTTACACGAAATCACA
62338748 TATCGATGCCA
1 TATCGATGCCA
62338759 TATCCTAGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 1 0.02
43 48 0.98
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
TATCGATGCCAATGTCCCAGACATAGTCTTACACGAAATCACA
Found at i:62341486 original size:41 final size:41
Alignment explanation
Indices: 62341400--62341669 Score: 434
Period size: 41 Copynumber: 6.6 Consensus size: 41
62341390 AGGATACGGT
* * * * *
62341400 GGAATCAGCACTTAGCAACCACCT-TTAGAATCAATAATTCGG
1 GGAATCTGCACTTAGCAACC-CCTCTTTG-ATCAGTGATTCAG
** * *
62341442 GGAATCAACACTTAGCAACCCCTTTTTGATTAGTGATTCAG
1 GGAATCTGCACTTAGCAACCCCTCTTTGATCAGTGATTCAG
62341483 GGAATCTGCACTTAGCAACCCCTCTTTGATCAGTGATTCAG
1 GGAATCTGCACTTAGCAACCCCTCTTTGATCAGTGATTCAG
62341524 GGAATCTGCACTTAGCAACCCCTCTTTGATCAGTGATTCAG
1 GGAATCTGCACTTAGCAACCCCTCTTTGATCAGTGATTCAG
62341565 GGAATCTGCACTTAGCAACCCCTCTTTGATCAGTGATTCAG
1 GGAATCTGCACTTAGCAACCCCTCTTTGATCAGTGATTCAG
62341606 GGAATCTGCACTTAGCAACCCCTCTTTGATCAGTGATTCAG
1 GGAATCTGCACTTAGCAACCCCTCTTTGATCAGTGATTCAG
62341647 GGAATCTGCACTTAGCAACCCCT
1 GGAATCTGCACTTAGCAACCCCT
62341670 ATTTATTCTT
Statistics
Matches: 217, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
41 195 0.90
42 22 0.10
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (41 bp):
GGAATCTGCACTTAGCAACCCCTCTTTGATCAGTGATTCAG
Found at i:62341928 original size:30 final size:30
Alignment explanation
Indices: 62341892--62341949 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
62341882 CCTTGACTCG
* *
62341892 AACTTTTGCATATTTACACTTTTTCCCCTA
1 AACTTTTACATATTTACACTTTTGCCCCTA
62341922 AACTTTTACATATTTACACTTTTGCCCC
1 AACTTTTACATATTTACACTTTTGCCCC
62341950 AAATCTCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.28, G:0.03, T:0.45
Consensus pattern (30 bp):
AACTTTTACATATTTACACTTTTGCCCCTA
Found at i:62345557 original size:101 final size:101
Alignment explanation
Indices: 62345428--62345666 Score: 370
Period size: 101 Copynumber: 2.4 Consensus size: 101
62345418 GAATTGACGG
* *
62345428 ATAAGACCATAACTGGGTTATGGCACTATGAACGTAATACCATGGTTGGACCATGGCCGTGTTTA
1 ATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTA
*
62345493 TATGTAAGACCATAGTTGGGCTATGGCATTCTAATC
66 TATGTAAGACCATAGCTGGGCTATGGCATTCTAATC
* * * * *
62345529 ATAAGACCATAACTAGGTTATGGCACTATAAACGTACGACTATGGTTGGACCATGGTAGTGTTTA
1 ATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTA
* *
62345594 TATGTAAGACCATAGCTGGGCTATGGCATTCTGATG
66 TATGTAAGACCATAGCTGGGCTATGGCATTCTAATC
* *
62345630 ATAAGACCATAACTGGGTTATGGCACTACGAATGTAA
1 ATAAGACCATAACTGGGTTATGGCACTATGAACGTAA
62345667 ATGATGAATT
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 123 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (101 bp):
ATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTA
TATGTAAGACCATAGCTGGGCTATGGCATTCTAATC
Found at i:62347968 original size:26 final size:27
Alignment explanation
Indices: 62347927--62347977 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
62347917 AAAAAACCAA
62347927 CTTTTAAGGGCTC-AAATTTTTTTTAG
1 CTTTTAAGGGCTCAAAATTTTTTTTAG
62347953 CTTTTAAGGG-TCCAAAATTTTTTTT
1 CTTTTAAGGGCT-CAAAATTTTTTTT
62347978 TACCAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 1 0.04
26 11 0.48
27 11 0.48
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.51
Consensus pattern (27 bp):
CTTTTAAGGGCTCAAAATTTTTTTTAG
Found at i:62357360 original size:22 final size:22
Alignment explanation
Indices: 62357334--62357379 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
62357324 TTTCGTTAAA
* *
62357334 AAATAACAATTTAACACTTTTT
1 AAATAACAATTCAACACGTTTT
62357356 AAATAACAATTCAACACGTTTT
1 AAATAACAATTCAACACGTTTT
62357378 AA
1 AA
62357380 TCAGTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (22 bp):
AAATAACAATTCAACACGTTTT
Found at i:62361093 original size:18 final size:18
Alignment explanation
Indices: 62361070--62361109 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
62361060 ATGAGATTGA
62361070 ATACATGTCACATGTTTC
1 ATACATGTCACATGTTTC
62361088 ATACATGTCACATGTTTC
1 ATACATGTCACATGTTTC
62361106 ATAC
1 ATAC
62361110 TCTAGTGCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (18 bp):
ATACATGTCACATGTTTC
Found at i:62362505 original size:22 final size:22
Alignment explanation
Indices: 62362477--62362530 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
62362467 TGATCGTAGT
62362477 TTCGAGAAAAGAACAACATAGC
1 TTCGAGAAAAGAACAACATAGC
62362499 TTCGAGAAAAGAACAACATAGC
1 TTCGAGAAAAGAACAACATAGC
62362521 TTCGAGAAAA
1 TTCGAGAAAA
62362531 CGACACTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.50, C:0.17, G:0.19, T:0.15
Consensus pattern (22 bp):
TTCGAGAAAAGAACAACATAGC
Found at i:62378299 original size:17 final size:17
Alignment explanation
Indices: 62378266--62378299 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62378256 AAAAAGTATT
* *
62378266 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTAAAAA
62378283 TTAAAAAAATTTAAAAA
1 TTAAAAAAATTTAAAAA
62378300 AATATATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAATTTAAAAA
Found at i:62379240 original size:17 final size:18
Alignment explanation
Indices: 62379200--62379240 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
62379190 TTTTATTGCG
* *
62379200 TTCAATTTATTTTTATAT
1 TTCAATTTATATTTAAAT
62379218 TT-AATTT-TATTTAAAT
1 TTCAATTTATATTTAAAT
62379234 TTCAATT
1 TTCAATT
62379241 AATCATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 9 0.45
17 9 0.45
18 2 0.10
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (18 bp):
TTCAATTTATATTTAAAT
Found at i:62380234 original size:298 final size:296
Alignment explanation
Indices: 62379700--62380276 Score: 847
Period size: 298 Copynumber: 1.9 Consensus size: 296
62379690 GTATAAATAT
* * * * *
62379700 ACTTTTTAGGTGTATCAAAACAAATGGGGGAGATGATGTGACCAAAATATAAAGAAAATTTTATT
1 ACTTTTTAGGTGGATCAAAACAAATGGAGGAGATGATGTGACAAAAAGATAAAGAAAATTATATT
* * **
62379765 AGTTCAAATTTTTTCTCTTTATATATTATTCTTTTTCGAAAAGATTATGTGTAATAAATGTAATT
66 AGTTCAAATTTTTTCTCTTTATATATTATTCTTTTCCGAAAAGATGATGAATAATAAATGTAATT
* * *
62379830 TCATTATTTTAATAGTCTATATTTTTATAAATTTTAAAGAGTTAAATTAAAATTTTATCATTTTT
131 TCATCATTTTAATAGTCTATATTTTTATAAATTTTAAAGAGTTAAATCAAAATTTAATCATTTTT
*
62379895 GAAGGGCCAAAATATAATTTTACTGTTACTAATTTAAAATTTTATAAATTATAAAAGATCTAAAT
196 GAAGGGCCAAAATATAATTTTACCGTTACTAATTTAAAATTTTATAAATTATAAAAGATCTAAAT
62379960 -TGAAAATTTACCATTTTAAGGGTCATACCCGCCTCC
261 CT-AAAATTTACCATTTTAAGGGTCATACCCGCCTCC
** * * * *
62379996 ACTTTTTAGGTGGATCAAGCCAAATGGAGTAGCTGATGTGACAAAAAGCTTAA-AAAATATATAT
1 ACTTTTTAGGTGGATCAAAACAAATGGAGGAGATGATGTGACAAAAAGATAAAGAAAAT-TATAT
*
62380060 TAGTTCAAATTTTGTCTCTTTTTATATATTATTCTTTTCCGAAAAGATGATGAATAATAAATGTA
65 TAGTTCAAATTTT-T-TCTCTTTATATATTATTCTTTTCCGAAAAGATGATGAATAATAAATGTA
**
62380125 ATTTGGTCATTTTAATAGTCTATATTTTTAT-AATTTTAAAAGAGTTAAATCAAAATTTAATCAT
128 ATTTCATCATTTTAATAGTCTATATTTTTATAAATTTT-AAAGAGTTAAATCAAAATTTAATCAT
* *
62380189 TTTTG-AGAGGTCAAAATATAATTTTACCGTTACTAATTTAAAATTTTATAAATTATAAAATATC
192 TTTTGAAG-GGCCAAAATATAATTTTACCGTTACTAATTTAAAATTTTATAAATTATAAAAGATC
*
62380253 TAAATCTAAATTTTACCATTTTAA
256 TAAATCTAAAATTTACCATTTTAA
62380277 AGGTTGGGAA
Statistics
Matches: 250, Mismatches: 25, Indels: 10
0.88 0.09 0.04
Matches are distributed among these distances:
295 5 0.02
296 60 0.24
297 9 0.04
298 175 0.70
299 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.41
Consensus pattern (296 bp):
ACTTTTTAGGTGGATCAAAACAAATGGAGGAGATGATGTGACAAAAAGATAAAGAAAATTATATT
AGTTCAAATTTTTTCTCTTTATATATTATTCTTTTCCGAAAAGATGATGAATAATAAATGTAATT
TCATCATTTTAATAGTCTATATTTTTATAAATTTTAAAGAGTTAAATCAAAATTTAATCATTTTT
GAAGGGCCAAAATATAATTTTACCGTTACTAATTTAAAATTTTATAAATTATAAAAGATCTAAAT
CTAAAATTTACCATTTTAAGGGTCATACCCGCCTCC
Found at i:62382571 original size:2 final size:2
Alignment explanation
Indices: 62382566--62382597 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
62382556 GCTTCGCCCC
62382566 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62382598 CAATTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62388846 original size:16 final size:16
Alignment explanation
Indices: 62388825--62388857 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
62388815 ATTTAATCCT
62388825 TTAAAAATTATAAAGA
1 TTAAAAATTATAAAGA
62388841 TTAAAAATTATAAAGA
1 TTAAAAATTATAAAGA
62388857 T
1 T
62388858 ATAGACTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
TTAAAAATTATAAAGA
Done.