Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 104 of 136
Found at i:35070374 original size:47 final size:47
Alignment explanation
Indices: 35070313--35070416 Score: 181
Period size: 47 Copynumber: 2.2 Consensus size: 47
35070303 AACGAAACAG
35070313 AAAAGAAAGAGGAAAGAAAAAGAAAAAGGGAAAGAAAGAAAGGAGAA
1 AAAAGAAAGAGGAAAGAAAAAGAAAAAGGGAAAGAAAGAAAGGAGAA
*
35070360 AAAAGAAAGAGGAAAGAATAAGAAAAAGGGAAAGAAAGAAAGGAGAA
1 AAAAGAAAGAGGAAAGAAAAAGAAAAAGGGAAAGAAAGAAAGGAGAA
**
35070407 AGGAGAAAGA
1 AAAAGAAAGA
35070417 CAAGGCTAGG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (47 bp):
AAAAGAAAGAGGAAAGAAAAAGAAAAAGGGAAAGAAAGAAAGGAGAA
Found at i:35073659 original size:26 final size:25
Alignment explanation
Indices: 35073626--35073674 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
35073616 AAAGAAAATG
*
35073626 AAAAATAAAGAA-AAAAAGAAAGTTA
1 AAAAATAAA-AAGAAAAAAAAAGTTA
35073651 AAAACATAAAAAGAAAAAAAAAGT
1 AAAA-ATAAAAAGAAAAAAAAAGT
35073675 GCTTAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (25 bp):
AAAAATAAAAAGAAAAAAAAAGTTA
Found at i:35074224 original size:17 final size:17
Alignment explanation
Indices: 35074202--35074238 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
35074192 TCTTCACTTC
35074202 AAAGGAAATA-AAAAGAA
1 AAAGGAAA-AGAAAAGAA
35074219 AAAGGAAAAGAAAAGAA
1 AAAGGAAAAGAAAAGAA
35074236 AAA
1 AAA
35074239 TCAAATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (17 bp):
AAAGGAAAAGAAAAGAA
Found at i:35087137 original size:3 final size:3
Alignment explanation
Indices: 35087129--35087167 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
35087119 TTCAAGCTTT
35087129 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
35087168 AGTAATGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:35093636 original size:15 final size:15
Alignment explanation
Indices: 35093616--35093656 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
35093606 ATGCCATTCT
35093616 TTTTAATTTTATATA
1 TTTTAATTTTATATA
* *
35093631 TTTTAATTATATATT
1 TTTTAATTTTATATA
35093646 TTTTAATTTTA
1 TTTTAATTTTA
35093657 ATTAAATCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTAATTTTATATA
Found at i:35094382 original size:15 final size:15
Alignment explanation
Indices: 35094362--35094402 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
35094352 ATGCCATTCT
35094362 TTTTAATTTTATATA
1 TTTTAATTTTATATA
* *
35094377 TTTTAATTATATATT
1 TTTTAATTTTATATA
35094392 TTTTAATTTTA
1 TTTTAATTTTA
35094403 ATTAAATCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTAATTTTATATA
Found at i:35094791 original size:746 final size:746
Alignment explanation
Indices: 35093360--35094851 Score: 2984
Period size: 746 Copynumber: 2.0 Consensus size: 746
35093350 TTTTTTTTTT
35093360 TTCTGACAATGGCTTTTACACATATGTTGCATACACTTGGAACGAGTTTCAGATATTATCCAACT
1 TTCTGACAATGGCTTTTACACATATGTTGCATACACTTGGAACGAGTTTCAGATATTATCCAACT
35093425 CAGAAAGTTTAGGAAAATGAAGAGTTCGAATAATTAAGAATGGAAACTGTTGGTTTTTGAACCCT
66 CAGAAAGTTTAGGAAAATGAAGAGTTCGAATAATTAAGAATGGAAACTGTTGGTTTTTGAACCCT
35093490 CTGACTTTTTCTCTTTGGAAATTGGGCTTAGGGATGAGTCAAGCTGGGTTTCATTAATTTTTCTG
131 CTGACTTTTTCTCTTTGGAAATTGGGCTTAGGGATGAGTCAAGCTGGGTTTCATTAATTTTTCTG
35093555 GAATTAGGTTGGATCTGGTCTGGTTTAGGTAAAATTTATAAATTTATCAAAATGCCATTCTTTTT
196 GAATTAGGTTGGATCTGGTCTGGTTTAGGTAAAATTTATAAATTTATCAAAATGCCATTCTTTTT
35093620 AATTTTATATATTTTAATTATATATTTTTTAATTTTAATTAAATCTTATGATTAGAAGGTTTATA
261 AATTTTATATATTTTAATTATATATTTTTTAATTTTAATTAAATCTTATGATTAGAAGGTTTATA
35093685 GGTCAAGTTAAATTTATGTATATCATATATAATTGTCAAAATTCCCTGTTTAACTCAAAATATGG
326 GGTCAAGTTAAATTTATGTATATCATATATAATTGTCAAAATTCCCTGTTTAACTCAAAATATGG
35093750 ATTCACGTTTTGCTTAAATCCTCTCATATTTATAAATAATTAACTTGAACCCGTTTAAGTCCACC
391 ATTCACGTTTTGCTTAAATCCTCTCATATTTATAAATAATTAACTTGAACCCGTTTAAGTCCACC
35093815 CATATAATTATTTTTTTAAAATTTTTTAGAAAACTATATTATTTTTATTTAATTTTAATAATTAT
456 CATATAATTATTTTTTTAAAATTTTTTAGAAAACTATATTATTTTTATTTAATTTTAATAATTAT
35093880 ATATGTAAAATTTTACTTTACTACCATTATAATAATATATTTAACTGTCATACTAATTTTTTGTT
521 ATATGTAAAATTTTACTTTACTACCATTATAATAATATATTTAACTGTCATACTAATTTTTTGTT
35093945 TTTTTTACACAATAATTAGAATTAGTCATAGTCTGTTCCCAACCCATAAAATAAAATGATAATGT
586 TTTTTTACACAATAATTAGAATTAGTCATAGTCTGTTCCCAACCCATAAAATAAAATGATAATGT
35094010 GCTTCAATGTATCTGAACTCACGTCCTTCTACATTAACAATAATGTATACTAGTCGAGTTAAGAC
651 GCTTCAATGTATCTGAACTCACGTCCTTCTACATTAACAATAATGTATACTAGTCGAGTTAAGAC
35094075 TCAATCAACACCATTTTTTTTTTGAATGATA
716 TCAATCAACACCATTTTTTTTTTGAATGATA
35094106 TTCTGACAATGGCTTTTACACATATGTTGCATACACTTGGAACGAGTTTCAGATATTATCCAACT
1 TTCTGACAATGGCTTTTACACATATGTTGCATACACTTGGAACGAGTTTCAGATATTATCCAACT
35094171 CAGAAAGTTTAGGAAAATGAAGAGTTCGAATAATTAAGAATGGAAACTGTTGGTTTTTGAACCCT
66 CAGAAAGTTTAGGAAAATGAAGAGTTCGAATAATTAAGAATGGAAACTGTTGGTTTTTGAACCCT
35094236 CTGACTTTTTCTCTTTGGAAATTGGGCTTAGGGATGAGTCAAGCTGGGTTTCATTAATTTTTCTG
131 CTGACTTTTTCTCTTTGGAAATTGGGCTTAGGGATGAGTCAAGCTGGGTTTCATTAATTTTTCTG
35094301 GAATTAGGTTGGATCTGGTCTGGTTTAGGTAAAATTTATAAATTTATCAAAATGCCATTCTTTTT
196 GAATTAGGTTGGATCTGGTCTGGTTTAGGTAAAATTTATAAATTTATCAAAATGCCATTCTTTTT
35094366 AATTTTATATATTTTAATTATATATTTTTTAATTTTAATTAAATCTTATGATTAGAAGGTTTATA
261 AATTTTATATATTTTAATTATATATTTTTTAATTTTAATTAAATCTTATGATTAGAAGGTTTATA
35094431 GGTCAAGTTAAATTTATGTATATCATATATAATTGTCAAAATTCCCTGTTTAACTCAAAATATGG
326 GGTCAAGTTAAATTTATGTATATCATATATAATTGTCAAAATTCCCTGTTTAACTCAAAATATGG
35094496 ATTCACGTTTTGCTTAAATCCTCTCATATTTATAAATAATTAACTTGAACCCGTTTAAGTCCACC
391 ATTCACGTTTTGCTTAAATCCTCTCATATTTATAAATAATTAACTTGAACCCGTTTAAGTCCACC
35094561 CATATAATTATTTTTTTAAAATTTTTTAGAAAACTATATTATTTTTATTTAATTTTAATAATTAT
456 CATATAATTATTTTTTTAAAATTTTTTAGAAAACTATATTATTTTTATTTAATTTTAATAATTAT
35094626 ATATGTAAAATTTTACTTTACTACCATTATAATAATATATTTAACTGTCATACTAATTTTTTGTT
521 ATATGTAAAATTTTACTTTACTACCATTATAATAATATATTTAACTGTCATACTAATTTTTTGTT
35094691 TTTTTTACACAATAATTAGAATTAGTCATAGTCTGTTCCCAACCCATAAAATAAAATGATAATGT
586 TTTTTTACACAATAATTAGAATTAGTCATAGTCTGTTCCCAACCCATAAAATAAAATGATAATGT
35094756 GCTTCAATGTATCTGAACTCACGTCCTTCTACATTAACAATAATGTATACTAGTCGAGTTAAGAC
651 GCTTCAATGTATCTGAACTCACGTCCTTCTACATTAACAATAATGTATACTAGTCGAGTTAAGAC
35094821 TCAATCAACACCATTTTTTTTTTGAATGATA
716 TCAATCAACACCATTTTTTTTTTGAATGATA
35094852 AAATATGAGC
Statistics
Matches: 746, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
746 746 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (746 bp):
TTCTGACAATGGCTTTTACACATATGTTGCATACACTTGGAACGAGTTTCAGATATTATCCAACT
CAGAAAGTTTAGGAAAATGAAGAGTTCGAATAATTAAGAATGGAAACTGTTGGTTTTTGAACCCT
CTGACTTTTTCTCTTTGGAAATTGGGCTTAGGGATGAGTCAAGCTGGGTTTCATTAATTTTTCTG
GAATTAGGTTGGATCTGGTCTGGTTTAGGTAAAATTTATAAATTTATCAAAATGCCATTCTTTTT
AATTTTATATATTTTAATTATATATTTTTTAATTTTAATTAAATCTTATGATTAGAAGGTTTATA
GGTCAAGTTAAATTTATGTATATCATATATAATTGTCAAAATTCCCTGTTTAACTCAAAATATGG
ATTCACGTTTTGCTTAAATCCTCTCATATTTATAAATAATTAACTTGAACCCGTTTAAGTCCACC
CATATAATTATTTTTTTAAAATTTTTTAGAAAACTATATTATTTTTATTTAATTTTAATAATTAT
ATATGTAAAATTTTACTTTACTACCATTATAATAATATATTTAACTGTCATACTAATTTTTTGTT
TTTTTTACACAATAATTAGAATTAGTCATAGTCTGTTCCCAACCCATAAAATAAAATGATAATGT
GCTTCAATGTATCTGAACTCACGTCCTTCTACATTAACAATAATGTATACTAGTCGAGTTAAGAC
TCAATCAACACCATTTTTTTTTTGAATGATA
Found at i:35098439 original size:21 final size:23
Alignment explanation
Indices: 35098402--35098449 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
35098392 AATTTTACAA
35098402 TTTTTATAAATTCTTTACT-ATTT
1 TTTTTATAAATTCTTTA-TGATTT
35098425 TTTTTAT-AATT-TTTATGATTT
1 TTTTTATAAATTCTTTATGATTT
35098446 TTTT
1 TTTT
35098450 CTATTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.04
21 12 0.50
22 4 0.17
23 7 0.29
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTTATAAATTCTTTATGATTT
Found at i:35099025 original size:15 final size:17
Alignment explanation
Indices: 35099005--35099037 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
35098995 ATAAATTAAA
35099005 TTATTA-TATT-TGTGC
1 TTATTATTATTATGTGC
35099020 TTATTATTATTATGTGC
1 TTATTATTATTATGTGC
35099037 T
1 T
35099038 GAAATTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 4 0.25
17 6 0.38
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.61
Consensus pattern (17 bp):
TTATTATTATTATGTGC
Found at i:35103019 original size:83 final size:84
Alignment explanation
Indices: 35102858--35103022 Score: 287
Period size: 83 Copynumber: 2.0 Consensus size: 84
35102848 GATTATATAC
* *
35102858 CTTGAAACACTTTATTAAAGTCAAAATGTAAAGAAAATTAAGTCAAGTAATGATCTTTTTAAGAC
1 CTTGAAACACTTTATTAAAGTCAAAACGTAAAGAAAATTAAGTCAAGTAATGATCCTTTTAAGAC
35102923 TTTCTATGTAATCAAATAT
66 TTTCTATGTAATCAAATAT
* *
35102942 CTTGAAACTCTTTATTAAAGTCAAAACGTAAATAAAA-TAAGTCAAGTAATGATCCTTTTAAGAC
1 CTTGAAACACTTTATTAAAGTCAAAACGTAAAGAAAATTAAGTCAAGTAATGATCCTTTTAAGAC
35103006 TTTCTATGTAATCAAAT
66 TTTCTATGTAATCAAAT
35103023 TTTCTTATTT
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
83 43 0.56
84 34 0.44
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (84 bp):
CTTGAAACACTTTATTAAAGTCAAAACGTAAAGAAAATTAAGTCAAGTAATGATCCTTTTAAGAC
TTTCTATGTAATCAAATAT
Found at i:35107550 original size:13 final size:13
Alignment explanation
Indices: 35107532--35107556 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35107522 AAATTTTAAT
35107532 TTATTTAATTTTA
1 TTATTTAATTTTA
35107545 TTATTTAATTTT
1 TTATTTAATTTT
35107557 TGTAAATAAT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTTAATTTTA
Found at i:35111403 original size:22 final size:21
Alignment explanation
Indices: 35111369--35111421 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
35111359 GTGGACAATC
35111369 TTAATTAAATAATTTATACAAA
1 TTAATTAAATAA-TTATACAAA
** *
35111391 TTAATTATTTAATTATTCAAA
1 TTAATTAAATAATTATACAAA
*
35111412 TAAAATTAAA
1 T-TAATTAAA
35111422 CTATGATATA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAATTAAATAATTATACAAA
Found at i:35116604 original size:115 final size:116
Alignment explanation
Indices: 35116468--35116698 Score: 455
Period size: 115 Copynumber: 2.0 Consensus size: 116
35116458 CATTCAAATT
35116468 TCAAAAAGTTAAACATTTTCTTAATTTAAAAATATTTTTATAATTTTTTATATTTTAGATATTTT
1 TCAAAAAGTTAAACATTTTCTTAATTTAAAAATATTTTTATAATTTTTTATATTTTAGATATTTT
35116533 GCATTTATCTATATTTGAAAATTTCTTAACATAGCAATGTCAGCCTAATGA
66 GCATTTATCTATATTTGAAAATTTCTTAACATAGCAATGTCAGCCTAATGA
35116584 TCAAAAAGTT-AACATTTTCTTAATTTAAAAATATTTTTATAATTTTTTATATTTTAGATATTTT
1 TCAAAAAGTTAAACATTTTCTTAATTTAAAAATATTTTTATAATTTTTTATATTTTAGATATTTT
35116648 GCATTTATCTATATTTGAAAATTTCTTAACATAGCAATGTCAGCCTAATGA
66 GCATTTATCTATATTTGAAAATTTCTTAACATAGCAATGTCAGCCTAATGA
35116699 AAGTTTGTGA
Statistics
Matches: 115, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
115 105 0.91
116 10 0.09
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (116 bp):
TCAAAAAGTTAAACATTTTCTTAATTTAAAAATATTTTTATAATTTTTTATATTTTAGATATTTT
GCATTTATCTATATTTGAAAATTTCTTAACATAGCAATGTCAGCCTAATGA
Found at i:35118269 original size:23 final size:21
Alignment explanation
Indices: 35118229--35118270 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
35118219 AATGTTCAAA
35118229 TTTTTTTAAAAAAACTACATT
1 TTTTTTTAAAAAAACTACATT
*
35118250 TTTTTTTGAAAATAATCTACA
1 TTTTTTT-AAAA-AAACTACA
35118271 AATTTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 7 0.39
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTTTTTAAAAAAACTACATT
Found at i:35120041 original size:7 final size:7
Alignment explanation
Indices: 35120025--35120058 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
35120015 AACCAATAGT
*
35120025 ATTGTTA
1 ATTGTGA
35120032 ATTGTGA
1 ATTGTGA
35120039 ATTGTGA
1 ATTGTGA
35120046 ATTGTGA
1 ATTGTGA
35120053 ATTGTG
1 ATTGTG
35120059 GAATGTTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (7 bp):
ATTGTGA
Found at i:35121173 original size:16 final size:16
Alignment explanation
Indices: 35121154--35121187 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35121144 TAGAATATAA
35121154 ATATAATAAGTAAATG
1 ATATAATAAGTAAATG
* *
35121170 ATATAATATGTAGATG
1 ATATAATAAGTAAATG
35121186 AT
1 AT
35121188 TAAATATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (16 bp):
ATATAATAAGTAAATG
Found at i:35130788 original size:247 final size:247
Alignment explanation
Indices: 35130352--35130842 Score: 910
Period size: 247 Copynumber: 2.0 Consensus size: 247
35130342 CCCCTCCCGT
*
35130352 CCTTTCTTAATCCTTCTCGCCCAGTCTAATAAATCTGCTTGCAACTTTCCAAGTTTCTCAGCTAC
1 CCTTTCTTAATCCTTCTCGCCCAGTCCAATAAATCTGCTTGCAACTTTCCAAGTTTCTCAGCTAC
* * * *
35130417 TGGGCCTGTTCTTGACTCCCAAGATTCTTTAATTATTTTTTCACAAGTCTCCTCTATCAACCACC
66 TGGGCCTATTCCTGACTCCCAAGATTCTTTAATTATTTTTGCACAAGTCTCCTCCATCAACCACC
**
35130482 ACGCTTCAAATTTAAATTTTAAATTGCCATTATGAATACTTTCGTTATCTGTGTTAATTAGAAGT
131 ACGCTTCAAATTTAAATTTTAAATTGCCATTATGAATACTTTCGCCATCTGTGTTAATTAGAAGT
35130547 GGACAGCGGTCTGACATTGTGTGGGGTAGATGGTTAACTCTACCTGCTGTGA
196 GGACAGCGGTCTGACATTGTGTGGGGTAGATGGTTAACTCTACCTGCTGTGA
35130599 CCTTTCTTAATCCTTCTCGCCCAGTCCAATAAATCTGCTTGCAACTTTCCAAGTTTCTCAGCTAC
1 CCTTTCTTAATCCTTCTCGCCCAGTCCAATAAATCTGCTTGCAACTTTCCAAGTTTCTCAGCTAC
35130664 TGGGCCTATTCCTGACTCCCAAGATTCTTTAATTATTTTTGCACAAGTCTCCTCCATCAACCACC
66 TGGGCCTATTCCTGACTCCCAAGATTCTTTAATTATTTTTGCACAAGTCTCCTCCATCAACCACC
35130729 ACGCTTCAAATTTAAATTTTAAATTGCCATTATGAATACTTTCGCCATCTGTGTTAATTAGAAGT
131 ACGCTTCAAATTTAAATTTTAAATTGCCATTATGAATACTTTCGCCATCTGTGTTAATTAGAAGT
*
35130794 GGACAGTGGTCTGACATTGTGTGGGGTAGATGGTTAACTCTACCTGCTG
196 GGACAGCGGTCTGACATTGTGTGGGGTAGATGGTTAACTCTACCTGCTG
35130843 GGAATAGGAG
Statistics
Matches: 236, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
247 236 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (247 bp):
CCTTTCTTAATCCTTCTCGCCCAGTCCAATAAATCTGCTTGCAACTTTCCAAGTTTCTCAGCTAC
TGGGCCTATTCCTGACTCCCAAGATTCTTTAATTATTTTTGCACAAGTCTCCTCCATCAACCACC
ACGCTTCAAATTTAAATTTTAAATTGCCATTATGAATACTTTCGCCATCTGTGTTAATTAGAAGT
GGACAGCGGTCTGACATTGTGTGGGGTAGATGGTTAACTCTACCTGCTGTGA
Found at i:35133077 original size:21 final size:21
Alignment explanation
Indices: 35133062--35133123 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
35133052 TACTAAAATC
35133062 ATAATATATAATACTATAAAA
1 ATAATATATAATACTATAAAA
**
35133083 ATAATATATAAT-CTACT--TT
1 ATAATATATAATACTA-TAAAA
*
35133102 ATAATGTATAATACTATAAAA
1 ATAATATATAATACTATAAAA
35133123 A
1 A
35133124 ACTTGAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
19 12 0.38
20 6 0.19
21 14 0.44
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAATATATAATACTATAAAA
Found at i:35139244 original size:62 final size:63
Alignment explanation
Indices: 35139141--35139265 Score: 189
Period size: 62 Copynumber: 2.0 Consensus size: 63
35139131 TAAAAGCACA
* * *
35139141 ATCAAAACTCTCAAAAGGTTTAACAAAATACGCTCACTGAATGTTACTTAGTAAATTAATTTG
1 ATCAAAACTCTCAAAAGGTTTAACAAAATACACTCACTGAATGTTACCTAATAAATTAATTTG
* * *
35139204 ATCAAAACTCTC-AAAGGTTTAACAAAATATACTCATTGAATGTTTCCTAATAAATTAATTTG
1 ATCAAAACTCTCAAAAGGTTTAACAAAATACACTCACTGAATGTTACCTAATAAATTAATTTG
35139266 CACTCTCTCC
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
62 44 0.79
63 12 0.21
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.34
Consensus pattern (63 bp):
ATCAAAACTCTCAAAAGGTTTAACAAAATACACTCACTGAATGTTACCTAATAAATTAATTTG
Found at i:35142353 original size:3 final size:3
Alignment explanation
Indices: 35142345--35142370 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
35142335 CCGAGCTTGT
35142345 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
35142371 GACAGTCAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:35146081 original size:16 final size:16
Alignment explanation
Indices: 35146060--35146093 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
35146050 TACTTAAAAG
35146060 TTAAAACTAATTGTTA
1 TTAAAACTAATTGTTA
*
35146076 TTAAAATTAATTGTTA
1 TTAAAACTAATTGTTA
35146092 TT
1 TT
35146094 GAATTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
TTAAAACTAATTGTTA
Found at i:35146194 original size:25 final size:25
Alignment explanation
Indices: 35146164--35146211 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
35146154 AAGATTACTT
35146164 ATTTGAATTTAATTACAAACAATTA
1 ATTTGAATTTAATTACAAACAATTA
35146189 ATTTGAATTTAATTACAAACAAT
1 ATTTGAATTTAATTACAAACAAT
35146212 CAAATCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (25 bp):
ATTTGAATTTAATTACAAACAATTA
Found at i:35146670 original size:9 final size:9
Alignment explanation
Indices: 35146646--35146689 Score: 70
Period size: 9 Copynumber: 4.9 Consensus size: 9
35146636 TGAAGAAACA
*
35146646 TCATCATCG
1 TCATCGTCG
*
35146655 TCGTCGTCG
1 TCATCGTCG
35146664 TCATCGTCG
1 TCATCGTCG
35146673 TCATCGTCG
1 TCATCGTCG
35146682 TCATCGTC
1 TCATCGTC
35146690 CTTTTTGCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.11, C:0.34, G:0.20, T:0.34
Consensus pattern (9 bp):
TCATCGTCG
Found at i:35147260 original size:17 final size:17
Alignment explanation
Indices: 35147203--35147269 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
35147193 ACAAATATCT
35147203 GAAATTATACATCAAATGA
1 GAAATTATACATCAAA--A
* * * *
35147222 AAAATAATCCAACCAAAA
1 GAAATTATAC-ATCAAAA
*
35147240 GAAATTATACATCAAAC
1 GAAATTATACATCAAAA
35147257 GAAATTATACATC
1 GAAATTATACATC
35147270 TACTGTTTGT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
17 18 0.47
18 8 0.21
19 7 0.18
20 5 0.13
ACGTcount: A:0.55, C:0.16, G:0.06, T:0.22
Consensus pattern (17 bp):
GAAATTATACATCAAAA
Found at i:35149004 original size:424 final size:424
Alignment explanation
Indices: 35148216--35149059 Score: 1643
Period size: 424 Copynumber: 2.0 Consensus size: 424
35148206 ACCTCACCTG
* *
35148216 GGCGCGCCGTTGGAATCCTTTCTGTCGGTCTCCGTCGGAGTCGAAGAAGGGTCCCGAATTTGAGG
1 GGCGCGCCCTCGGAATCCTTTCTGTCGGTCTCCGTCGGAGTCGAAGAAGGGTCCCGAATTTGAGG
*
35148281 CGGATGAGGGTGAGAAGGATCTGTTTTTAGTTTGAGGGGAATAAAATGTTAGGATTTAGGGTTTT
66 CGGATGAGGGTGAGAAGGATCTGTTTTTAGTTTGAGGGGAATAAAATGCTAGGATTTAGGGTTTT
35148346 CTGAGGTGAATTTTGAGGGGATTAAACGACGCCGTATAGAGCCTGCTTCAGTGGCTTTAAAACGA
131 CTGAGGTGAATTTTGAGGGGATTAAACGACGCCGTATAGAGCCTGCTTCAGTGGCTTTAAAACGA
35148411 CGTCGTATGAGGCCTGTAACTCGTGACTCGACTCGACTGGCCAGGATCCGCGTGTTTTAGCCTTG
196 CGTCGTATGAGGCCTGTAACTCGTGACTCGACTCGACTGGCCAGGATCCGCGTGTTTTAGCCTTG
35148476 AGGGTTTATGTGCAAGCAGTCCCTATGTTTTTCAAGCGCACTTCAATCCAGGCCTGTTATTTCCT
261 AGGGTTTATGTGCAAGCAGTCCCTATGTTTTTCAAGCGCACTTCAATCCAGGCCTGTTATTTCCT
35148541 TTTAAATTTAATCTCCTATTTTATTTTTGTTCTATTTTAGTCCCCATCGAAGTTGAGCGTTTTGA
326 TTTAAATTTAATCTCCTATTTTATTTTTGTTCTATTTTAGTCCCCATCGAAGTTGAGCGTTTTGA
35148606 AGGCCTGGGGTATTTTCCTTTTTGGTCCTTTTTT
391 AGGCCTGGGGTATTTTCCTTTTTGGTCCTTTTTT
* *
35148640 GGCGCGCCCTCGGAATCCTTTTTGTCGGTCTCCGTCGGAGTCGAAGAGGGGTCCCGAATTTGAGG
1 GGCGCGCCCTCGGAATCCTTTCTGTCGGTCTCCGTCGGAGTCGAAGAAGGGTCCCGAATTTGAGG
35148705 CGGATGAGGGTGAGAAGGATCTGTTTTTAGTTTGAGGGGAATAAAATGCTAGGATTTAGGGTTTT
66 CGGATGAGGGTGAGAAGGATCTGTTTTTAGTTTGAGGGGAATAAAATGCTAGGATTTAGGGTTTT
35148770 CTGAGGTGAATTTTGAGGGGATTAAACGACGCCGTATAGAGCCTGCTTCAGTGGCTTTAAAACGA
131 CTGAGGTGAATTTTGAGGGGATTAAACGACGCCGTATAGAGCCTGCTTCAGTGGCTTTAAAACGA
35148835 CGTCGTATGAGGCCTGTAACTCGTGACTCGACTCGACTGGCCAGGATCCGCGTGTTTTAGCCTTG
196 CGTCGTATGAGGCCTGTAACTCGTGACTCGACTCGACTGGCCAGGATCCGCGTGTTTTAGCCTTG
35148900 AGGGTTTATGTGCAAGCAGTCCCTATGTTTTTCAAGCGCACTTCAATCCAGGCCTGTTATTTCCT
261 AGGGTTTATGTGCAAGCAGTCCCTATGTTTTTCAAGCGCACTTCAATCCAGGCCTGTTATTTCCT
35148965 TTTAAATTTAATCTCCTATTTTATTTTTGTTCTATTTTAGTCCCCATCGAAGTTGAGCGTTTTGA
326 TTTAAATTTAATCTCCTATTTTATTTTTGTTCTATTTTAGTCCCCATCGAAGTTGAGCGTTTTGA
35149030 AGGCCTGGGGTATTTTCCTTTTTGGTCCTT
391 AGGCCTGGGGTATTTTCCTTTTTGGTCCTT
35149060 CTCCTTTCGC
Statistics
Matches: 415, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
424 415 1.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (424 bp):
GGCGCGCCCTCGGAATCCTTTCTGTCGGTCTCCGTCGGAGTCGAAGAAGGGTCCCGAATTTGAGG
CGGATGAGGGTGAGAAGGATCTGTTTTTAGTTTGAGGGGAATAAAATGCTAGGATTTAGGGTTTT
CTGAGGTGAATTTTGAGGGGATTAAACGACGCCGTATAGAGCCTGCTTCAGTGGCTTTAAAACGA
CGTCGTATGAGGCCTGTAACTCGTGACTCGACTCGACTGGCCAGGATCCGCGTGTTTTAGCCTTG
AGGGTTTATGTGCAAGCAGTCCCTATGTTTTTCAAGCGCACTTCAATCCAGGCCTGTTATTTCCT
TTTAAATTTAATCTCCTATTTTATTTTTGTTCTATTTTAGTCCCCATCGAAGTTGAGCGTTTTGA
AGGCCTGGGGTATTTTCCTTTTTGGTCCTTTTTT
Found at i:35149248 original size:3 final size:3
Alignment explanation
Indices: 35149242--35149283 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
35149232 TGTTCACTAA
35149242 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
35149284 ATGTTTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:35153743 original size:10 final size:9
Alignment explanation
Indices: 35153728--35153810 Score: 80
Period size: 9 Copynumber: 9.0 Consensus size: 9
35153718 CCAAGGGAAG
35153728 GAAAAAGAGA
1 GAAAAAGA-A
35153738 GAAAAA-AA
1 GAAAAAGAA
35153746 GAAAAAGAAA
1 GAAAAAG-AA
35153756 GAAAAAGAA
1 GAAAAAGAA
*
35153765 AAAAAAGAA
1 GAAAAAGAA
35153774 GAAAAA-AA
1 GAAAAAGAA
* *
35153782 GAAGAGGAA
1 GAAAAAGAA
*
35153791 GAAAAGAAAAA
1 G-AAA-AAGAA
35153802 GAAAAAGAA
1 GAAAAAGAA
35153811 AAGGAGAGGC
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
8 13 0.22
9 23 0.38
10 20 0.33
11 4 0.07
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (9 bp):
GAAAAAGAA
Found at i:35153752 original size:6 final size:6
Alignment explanation
Indices: 35153728--35153812 Score: 74
Period size: 6 Copynumber: 14.8 Consensus size: 6
35153718 CCAAGGGAAG
*
35153728 GAAAAA GAGAGAA -AAAAA GAAAAA G--AAA GAAAAA GAAAAA -AAAGAA
1 GAAAAA GA-AAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAA-AA
* **
35153774 GAAAAA -AAGAA GAGGAA G-AAAA GAAAAA GAAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
35153813 GGAGAGGCCA
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
4 4 0.06
5 13 0.20
6 42 0.65
7 6 0.09
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:35153769 original size:36 final size:39
Alignment explanation
Indices: 35153729--35153807 Score: 119
Period size: 40 Copynumber: 2.1 Consensus size: 39
35153719 CAAGGGAAGG
35153729 AAAAAGAGAGAAAAAAAGAA-A-AAG-AAAGAAAAAGAAA
1 AAAAAGA-AGAAAAAAAGAAGAGAAGAAAAGAAAAAGAAA
35153766 AAAAAGAAGAAAAAAAGAAGAGGAAGAAAAGAAAAAGAAA
1 AAAAAGAAGAAAAAAAGAAGA-GAAGAAAAGAAAAAGAAA
35153806 AA
1 AA
35153808 GAAAAGGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
36 12 0.32
37 8 0.21
39 3 0.08
40 15 0.39
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (39 bp):
AAAAAGAAGAAAAAAAGAAGAGAAGAAAAGAAAAAGAAA
Found at i:35153812 original size:11 final size:11
Alignment explanation
Indices: 35153742--35153813 Score: 69
Period size: 11 Copynumber: 6.5 Consensus size: 11
35153732 AAGAGAGAAA
35153742 AAAAGAAAAAG
1 AAAAGAAAAAG
35153753 -AAAGAAAAAG
1 AAAAGAAAAAG
*
35153763 AAAAAAAAGAAG
1 AAAAGAAA-AAG
35153775 AAAA-AAAGAAG
1 AAAAGAAA-AAG
*
35153786 AGGAAG-AAAAG
1 A-AAAGAAAAAG
35153797 AAAAAGAAAAAG
1 -AAAAGAAAAAG
35153809 AAAAG
1 AAAAG
35153814 GAGAGGCCAA
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
10 10 0.19
11 25 0.48
12 17 0.33
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:35155620 original size:299 final size:300
Alignment explanation
Indices: 35155071--35155762 Score: 1023
Period size: 299 Copynumber: 2.3 Consensus size: 300
35155061 CTTGAGGTTA
*
35155071 CAATTAAAAAGATTGAATCCACAACGGCGAATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTG
1 CAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTG
* * * * * *
35155136 AAGCTACAATGACAAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCATAAAGGCAA
66 AAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACAAAGACAA
* *
35155201 ATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGAGAATTTTGCTTCACCGA
131 ATCTTACTTCCCTGACGGTGCAGTGGAACAGATTGAAGCTACAACGGAGAATCTTGCTTCACCGA
* *
35155266 CATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTTCCTTGGCGGTGCAGTGGAATA
196 CATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTTCCTTAGCGGTGCAGTGGAACA
* * * * *
35155331 GATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTG
261 GATTGAAGCAACAACAGCGAATCTTGCTTCCCCGACATTG
35155371 CAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCT-GCGGTGCAGTGGAACAGATTG
1 CAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTG
* * * *
35155435 AAACTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTTAAAAGATTGAAGCCACAACGACGA
66 AAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACAAAGACAA
* * *
35155500 ATCTTACTTCCCTGACGGTGCAGTGGAACAGATTGAAGCTACGA-TGATGAATCTTGTTTC-CTC
131 ATCTTACTTCCCTGACGGTGCAGTGGAACAGATTGAAGCTACAACGGA-GAATCTTGCTTCAC-C
35155563 GACATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTTGCC-TAGCGGTGCAGTGGA
194 GACATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTT-CCTTAGCGGTGCAGTGGA
35155627 ACAGATTGAAGCAACAACAGCGAATCTTGCTTCCCCGACATTG
258 ACAGATTGAAGCAACAACAGCGAATCTTGCTTCCCCGACATTG
* * * * * * * * *
35155670 TAATTAAAAAGATTTAAGTCACAACGGTGAATCTGACTTCCTTGGCGGTGCAGTGGAAAAGACTG
1 CAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTG
* *
35155735 AAGCCACAACGGCGAATCTTACTTCCCT
66 AAGCTACAACGGCGAATCTTGCTTCCCT
35155763 TGCGGTGTAG
Statistics
Matches: 354, Mismatches: 34, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
298 3 0.01
299 263 0.74
300 88 0.25
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (300 bp):
CAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTG
AAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACAAAGACAA
ATCTTACTTCCCTGACGGTGCAGTGGAACAGATTGAAGCTACAACGGAGAATCTTGCTTCACCGA
CATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTTCCTTAGCGGTGCAGTGGAACA
GATTGAAGCAACAACAGCGAATCTTGCTTCCCCGACATTG
Found at i:35155803 original size:100 final size:100
Alignment explanation
Indices: 35155071--35155761 Score: 988
Period size: 100 Copynumber: 6.9 Consensus size: 100
35155061 CTTGAGGTTA
* *
35155071 CAATTAAAAAGATTGAATCCACAACGGCGAATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTG
1 CAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTG
* * *
35155136 AAGCTACAATGACAAATCTTGCTTCCCCGACATTG
66 AAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
* * *
35155171 CAATTAAAAAGATTGAAGCCATAAAGGCAAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTG
1 CAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTG
* * *
35155236 AAGCTACAACGGAGAATTTTGCTTCACCGACATTG
66 AAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
* * *
35155271 CAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTTCCTTGGCGGTGCAGTGGAATAGATTG
1 CAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTG
* * *
35155336 AAGCTACGACGGTGAATCTTGTTTCCCCGACATTG
66 AAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
35155371 CAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCT-GCGGTGCAGTGGAACAGATTG
1 CAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTG
* *
35155435 AAACTACAACGGCGAATCTTGCTTCCCTGACATTG
66 AAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
* * *
35155470 CAATTTAAAAGATTGAAGCCACAACGACGAATCTTACTTCCCTGACGGTGCAGTGGAACAGATTG
1 CAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTG
* * ** * *
35155535 AAGCTACGATGATGAATCTTGTTTCCTCGACATTG
66 AAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
* * *
35155570 CAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTTGCCTAGCGGTGCAGTGGAACAGATTG
1 CAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTG
* *
35155635 AAGCAACAACAGCGAATCTTGCTTCCCCGACATTG
66 AAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
* * * * * * * *
35155670 TAATTAAAAAGATTTAAGTCACAACGGTGAATCTGACTTCCTTGGCGGTGCAGTGGAAAAGACTG
1 CAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTG
* *
35155735 AAGCCACAACGGCGAATCTTACTTCCC
66 AAGCTACAACGGCGAATCTTGCTTCCC
35155762 TTGCGGTGTA
Statistics
Matches: 523, Mismatches: 67, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
99 91 0.17
100 432 0.83
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (100 bp):
CAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTG
AAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
Found at i:35155823 original size:50 final size:50
Alignment explanation
Indices: 35155077--35155814 Score: 514
Period size: 50 Copynumber: 14.8 Consensus size: 50
35155067 GTTACAATTA
* * * *
35155077 AAAAGATTGAATCCACAACGGCGAATCTTACTT-CCCTAGCGGTGCAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-CAGTGCAGTGG
* * * * * * * **
35155127 AACAGATTGAAGCTACAATGACAAATCTTGCTTCCCCGACATTGCAATTA
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAGTGCAGTGG
* * * * * * *
35155177 AAAAGATTGAAGCCATAAAGGCAAATCTTACTTCCCTGGCGGTGCAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAGTGCAGTGG
* * * * * * * **
35155227 AACAGATTGAAGCTACAACGGAGAATTTTGCTTCACCGACATTGCAATTA
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAGTGCAGTGG
* * ** * *
35155277 AAAAGATTGAAGCCACAACGACGAATCTTACTTCCTTGGCGGTGCAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAGTGCAGTGG
* * * ** * * **
35155327 AATAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAATTA
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAGTGCAGTGG
* * *
35155377 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTG-CGGTGCAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAGTGCAGTGG
* * * * * * **
35155426 AACAGATTGAAACTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTT
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAGTGCAGTGG
* * * *
35155476 AAAAGATTGAAGCCACAACGACGAATCTTACTTCCCTGACGGTGCAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAGTGCAGTGG
* * * ** ** * * * **
35155526 AACAGATTGAAGCTACGATGATGAATCTTGTTTCCTCGACATTGCAATTA
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAGTGCAGTGG
* * * * *
35155576 AAAAGATTGAAGCCACAACGACGAATCTTACTT-GCCTAGCGGTGCAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-CAGTGCAGTGG
* * * * * * * **
35155626 AACAGATTGAAGCAACAACAGCGAATCTTGCTTCCCCGACATTGTAATTA
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAGTGCAGTGG
* * * ** * *
35155676 AAAAGATTTAAG-TCACAACGGTGAATCTGACTTCCTTGGCGGTGCAGTGG
1 AAAAGATTGAAGCT-ACAACGGCGAATCTTACTTCCCCGACAGTGCAGTGG
* * * * *
35155726 AAAAGACTGAAGCCACAACGGCGAATCTTACTTCCCTTG-CGGTGTAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCC-CGACAGTGCAGTGG
* *
35155776 AAAAGATTGAAGCTACGACGGCGAATCTTATTTCCCCGA
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA
35155815 AATTGTAGTT
Statistics
Matches: 507, Mismatches: 173, Indels: 16
0.73 0.25 0.02
Matches are distributed among these distances:
49 43 0.08
50 455 0.90
51 9 0.02
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (50 bp):
AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAGTGCAGTGG
Found at i:35155980 original size:44 final size:43
Alignment explanation
Indices: 35155896--35156097 Score: 133
Period size: 44 Copynumber: 4.5 Consensus size: 43
35155886 CATCCAGTCT
* * **
35155896 TATCTCTCCGAAGTTGCAGTGGAGCAGA-CAAAAGAAACCAATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAA-CCACCAA-CC
*
35155940 TATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCACCAACC
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACCACCAACC
* * * * *
35155983 TTATAC-CTCTGGAGTTGCAGTAGG-TCGGATTAAATTTACCATGACAAGTCT
1 -TAT-CTCTCTGAAGTTGCAGT-GGAGCAGATTAAA---ACCA--CCAA--CC
* * *
35156034 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACCACTAACC
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACCACCAACC
*
35156077 TCATC-CCCTGAAGTTGCAGTG
1 T-ATCTCTCTGAAGTTGCAGTG
35156098 CGTTGCAGAA
Statistics
Matches: 127, Mismatches: 17, Indels: 29
0.73 0.10 0.17
Matches are distributed among these distances:
43 20 0.16
44 60 0.47
45 9 0.07
47 8 0.06
49 6 0.05
50 23 0.18
51 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (43 bp):
TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACCACCAACC
Found at i:35156927 original size:34 final size:35
Alignment explanation
Indices: 35156858--35156927 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 35
35156848 TATATTTTTT
* * *
35156858 TATTTTATAATTTTATATACACTACATCATTTATA
1 TATTTTACAATTTTATATACAATACATCATATATA
35156893 TATTTTACAA-TTTATATACATATACA-CATATATA
1 TATTTTACAATTTTATATACA-ATACATCATATATA
35156927 T
1 T
35156928 TTACATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (35 bp):
TATTTTACAATTTTATATACAATACATCATATATA
Found at i:35169148 original size:22 final size:24
Alignment explanation
Indices: 35169110--35169154 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
35169100 CACTATGTTT
35169110 TTTTGTTATTGTG-TTTTCAACAC
1 TTTTGTTATTGTGTTTTTCAACAC
35169133 TTTT-TTATT-TGATTTTTCAACA
1 TTTTGTTATTGTG-TTTTTCAACA
35169155 ATATTGCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.10
22 5 0.25
23 13 0.65
ACGTcount: A:0.20, C:0.11, G:0.09, T:0.60
Consensus pattern (24 bp):
TTTTGTTATTGTGTTTTTCAACAC
Found at i:35172959 original size:23 final size:23
Alignment explanation
Indices: 35172916--35172960 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
35172906 GTTTATATGT
*
35172916 TATAAAAATAATTTATTTATTTA
1 TATAAAAATAATTTATATATTTA
*
35172939 TATAAAAA-AGTTATATATATTT
1 TATAAAAATAATT-TATATATTT
35172961 TTTGCCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TATAAAAATAATTTATATATTTA
Found at i:35194872 original size:251 final size:249
Alignment explanation
Indices: 35194357--35194854 Score: 562
Period size: 251 Copynumber: 2.0 Consensus size: 249
35194347 AATCATTTTT
35194357 TTTATAAAAATAATTTTAAAGTATATAAATTTATGAAAAGAGTCAGTTATGATTAAACTTGGATA
1 TTTATAAAAATAATTTTAAAGTATATAAATTTATGAAAAGAGTCAGTTATGATTAAACTTGGATA
35194422 AATTGATATCCAAGTTGATATAAAAAAATTAAATGAGTTAACAGCAACTATTAACATACCAATAC
66 AATTGATATCCAAGTTGATATAAAAAAATTAAATGAGTTAACAGCAACTATTAACATACCAATAC
* * * * * ** * **
35194487 TTAACAGTAACTTAAAAAAAATTAAATGAGCTTAAACATCATTTGTCCAAATTCATTTTTAAAAT
131 TTAACAGAAAATTAAAAAAAATTAAATCAGCTTAAACATAAATAATCCAAATTAATAATTAAAAT
* ** * *** * ** * * *
35194552 GAAATGATTTTTAATTTTTTTTATAAACTTATATGTTAAACTCACCAAATACTAAA
196 CAAAAAAATCACAATTCTTAATATAAAC-T-TATGTTAAAATAAACAAATACTAAA
35194608 TTTATAAAAATAATTTTAAAGTATATAAATTTATGAAAAGAGTCAGTTATGATTAAACTTGGATA
1 TTTATAAAAATAATTTTAAAGTATATAAATTTATGAAAAGAGTCAGTTATGATTAAACTTGGATA
35194673 AATTGATATCCAAGTTGATATAAAAAAAATTAAATGAGTTAACAGCAACTATTAACATACCAATA
66 AATTGATATCCAAGTTGATAT-AAAAAAATTAAATGAGTTAACAGCAACTATTAACATACCAATA
* * **
35194738 CTTAATAACA-AAATATTAATCCAAAACTATAAA-CA-C-TAAACATAAATAATTTATAATTAAT
130 C-T--TAACAGAAA-ATTAA--AAAAAAT-TAAATCAGCTTAAACATAAATAATCCA-AATTAAT
35194799 AATTAATAA-CAAAAAAATCACAATATCTTAAT-TAAAC-TAT-TTAAATTATAAACAAA
187 AATTAA-AATCAAAAAAATCACAAT-TCTTAATATAAACTTATGTTAAA--ATAAACAAA
35194855 ATTATTTACT
Statistics
Matches: 207, Mismatches: 27, Indels: 23
0.81 0.11 0.09
Matches are distributed among these distances:
251 86 0.42
252 49 0.24
253 4 0.02
254 8 0.04
255 20 0.10
256 24 0.12
257 12 0.06
258 4 0.02
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (249 bp):
TTTATAAAAATAATTTTAAAGTATATAAATTTATGAAAAGAGTCAGTTATGATTAAACTTGGATA
AATTGATATCCAAGTTGATATAAAAAAATTAAATGAGTTAACAGCAACTATTAACATACCAATAC
TTAACAGAAAATTAAAAAAAATTAAATCAGCTTAAACATAAATAATCCAAATTAATAATTAAAAT
CAAAAAAATCACAATTCTTAATATAAACTTATGTTAAAATAAACAAATACTAAA
Found at i:35194918 original size:22 final size:24
Alignment explanation
Indices: 35194891--35194934 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
35194881 TTTTTCTTTC
*
35194891 TTTCTTCTTC-TTCT-TCTTTTTT
1 TTTCTTCTCCTTTCTCTCTTTTTT
35194913 TTTCTTCTCCTTTCTCTCTTTT
1 TTTCTTCTCCTTTCTCTCTTTT
35194935 CTTTCTCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTCTTCTCCTTTCTCTCTTTTTT
Found at i:35194938 original size:13 final size:12
Alignment explanation
Indices: 35194882--35194947 Score: 57
Period size: 13 Copynumber: 5.3 Consensus size: 12
35194872 TAAATTACCT
35194882 TTTTCTTTCTTTC
1 TTTTCTTTC-TTC
35194895 TTCTTC-TTCTTC
1 TT-TTCTTTCTTC
35194907 TTTT-TTT-TTC
1 TTTTCTTTCTTC
*
35194917 TTCTCCTTTCTCTC
1 TT-TTCTTTCT-TC
35194931 TTTTCTTTCTCTC
1 TTTTCTTTCT-TC
35194944 TTTT
1 TTTT
35194948 GGTGGATGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
10 5 0.11
11 5 0.11
12 8 0.18
13 20 0.44
14 7 0.16
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTCTTTCTTC
Found at i:35194943 original size:22 final size:23
Alignment explanation
Indices: 35194887--35194943 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 23
35194877 TACCTTTTTC
*
35194887 TTTCTTTCT-TCTTCTTCTTCTT
1 TTTCTTTCTCTCCTCTTCTTCTT
*
35194909 TTTTTTTCTTCTCCT-TTC-TCTCT
1 TTTCTTTC-TCTCCTCTTCTTCT-T
35194932 TTTCTTTCTCTC
1 TTTCTTTCTCTC
35194944 TTTTGGTGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 14 0.48
23 12 0.41
24 3 0.10
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTCTTTCTCTCCTCTTCTTCTT
Found at i:35195186 original size:30 final size:30
Alignment explanation
Indices: 35195091--35195187 Score: 72
Period size: 33 Copynumber: 3.2 Consensus size: 30
35195081 CATGTAGCAA
* **
35195091 CAGATGCTACAGGA-GGGGTACTGTGCGGG
1 CAGATGCTGCAGGAGGGGGGGCTGTGCGGG
* ** * *
35195120 CAGAGGGGGCAGCAGGGTGGGGGCTTGTAGC-AG
1 CAGATGCTGCAGGA-GG-GGGGGC-TGT-GCGGG
35195153 CAGATGCTGCAGGAGGGGGGGCTGTGCGGG
1 CAGATGCTGCAGGAGGGGGGGCTGTGCGGG
35195183 CAGAT
1 CAGAT
35195188 TTTTTACCCG
Statistics
Matches: 49, Mismatches: 13, Indels: 11
0.67 0.18 0.15
Matches are distributed among these distances:
29 11 0.22
30 9 0.18
31 7 0.14
32 6 0.12
33 14 0.29
34 2 0.04
ACGTcount: A:0.19, C:0.16, G:0.51, T:0.14
Consensus pattern (30 bp):
CAGATGCTGCAGGAGGGGGGGCTGTGCGGG
Found at i:35195270 original size:26 final size:26
Alignment explanation
Indices: 35195241--35195306 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 26
35195231 TATATATTTA
*
35195241 AATATTTTTAATAAAAATAAAAAATT
1 AATATTTTTAATAAAAATAAAAAAAT
**
35195267 AATA-TTTT-ATTTAAATAAAAAAAT
1 AATATTTTTAATAAAAATAAAAAAAT
35195291 -AT-TTTTTAATATAAAA
1 AATATTTTTAATA-AAAA
35195307 AATTGATTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
23 6 0.19
24 15 0.47
25 7 0.22
26 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
AATATTTTTAATAAAAATAAAAAAAT
Found at i:35195287 original size:24 final size:22
Alignment explanation
Indices: 35195255--35195310 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 22
35195245 TTTTTAATAA
35195255 AAATAAAAAATTAATATTTTATTT
1 AAATAAAAAATTAATA-TTT-TTT
35195279 AAAT-AAAAA--AATATTTTTT
1 AAATAAAAAATTAATATTTTTT
35195298 AATATAAAAAATT
1 AA-ATAAAAAATT
35195311 GATTCGCACC
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
19 5 0.18
20 5 0.18
21 9 0.32
23 5 0.18
24 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATAAAAAATTAATATTTTTT
Found at i:35195622 original size:16 final size:16
Alignment explanation
Indices: 35195580--35195627 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
35195570 AAATATAATT
*
35195580 TATTAAATAAAA-ATGA
1 TATT-AATAAAATATTA
35195596 TATTAATTAAAATATTA
1 TATTAA-TAAAATATTA
*
35195613 TTTTAATAAAATATT
1 TATTAATAAAATATT
35195628 TAAATTTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 2 0.07
16 18 0.64
17 8 0.29
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
TATTAATAAAATATTA
Found at i:35196005 original size:25 final size:23
Alignment explanation
Indices: 35195960--35196006 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
35195950 ATTTGATTAT
*
35195960 CACTTTTTTTTTAATATAATTCC
1 CACTTTTTTTTTAATAAAATTCC
*
35195983 CACTTTTTTATTTGATAGAAATTC
1 CACTTTTTT-TTTAATA-AAATTC
35196007 ACGATATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 6 0.30
25 5 0.25
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (23 bp):
CACTTTTTTTTTAATAAAATTCC
Found at i:35206508 original size:41 final size:41
Alignment explanation
Indices: 35206451--35206551 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 41
35206441 GAAAAGATGT
*
35206451 AATAAATACAACTCATCACAAA-ATCGGTTGAGATAATAGAC
1 AATAAATACAACTCATCA-AAATATCAGTTGAGATAATAGAC
** * *
35206492 AATAAATATGACTCATCAAAATATCAGTTGAGGTAATAGGC
1 AATAAATACAACTCATCAAAATATCAGTTGAGATAATAGAC
*
35206533 AACAAATACAACTGCATCA
1 AATAAATACAACT-CATCA
35206552 TACTGCAGCC
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
40 3 0.06
41 42 0.84
42 5 0.10
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.23
Consensus pattern (41 bp):
AATAAATACAACTCATCAAAATATCAGTTGAGATAATAGAC
Found at i:35209730 original size:15 final size:15
Alignment explanation
Indices: 35209706--35209761 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
35209696 TCCTTTTTTT
35209706 ATTTTT-ATTTTAAA
1 ATTTTTAATTTTAAA
* *
35209720 ATTTTTAATTTTTAT
1 ATTTTTAATTTTAAA
**
35209735 ATTTCAAATTTTAAA
1 ATTTTTAATTTTAAA
35209750 A--TTTAATTTTAA
1 ATTTTTAATTTTAA
35209762 TTATTAGTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
13 9 0.27
14 6 0.18
15 18 0.55
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTTAATTTTAAA
Found at i:35209730 original size:21 final size:21
Alignment explanation
Indices: 35209700--35209761 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
35209690 CTTCCCTCCT
*
35209700 TTTTTTATTTTTATTTTAAAA
1 TTTTTAATTTTTATTTTAAAA
*
35209721 TTTTTAATTTTTATATTTCAAA
1 TTTTTAATTTTTAT-TTTAAAA
* * *
35209743 TTTTAAAATTTAATTTTAA
1 TTTTTAATTTTTATTTTAA
35209762 TTATTAGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTAATTTTTATTTTAAAA
Found at i:35211928 original size:28 final size:28
Alignment explanation
Indices: 35211894--35211949 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
35211884 AAAGATAACT
*
35211894 TTTTGCAGTTAACTTTGTTCATAAGAAC
1 TTTTGCAGTCAACTTTGTTCATAAGAAC
35211922 TTTTGCAGTCAACTTTGTTCATAAGAAC
1 TTTTGCAGTCAACTTTGTTCATAAGAAC
35211950 AGCCAATAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (28 bp):
TTTTGCAGTCAACTTTGTTCATAAGAAC
Found at i:35213436 original size:3 final size:3
Alignment explanation
Indices: 35213428--35213482 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
35213418 TACATGCAAA
35213428 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
35213476 AAT AAT A
1 AAT AAT A
35213483 GTGGAACAGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:35216219 original size:23 final size:23
Alignment explanation
Indices: 35216193--35216307 Score: 62
Period size: 23 Copynumber: 5.2 Consensus size: 23
35216183 TCAGAAAACT
35216193 AAAGTAGTAGTGATAACTCTCCA
1 AAAGTAGTAGTGATAACTCTCCA
* * *
35216216 AAAG-AG-AGTTATAA-TTTACTA
1 AAAGTAGTAGTGATAACTCT-CCA
***
35216237 ACTTTAGTAGTGATAACTCTCCA
1 AAAGTAGTAGTGATAACTCTCCA
* * *
35216260 AAAG-AG-AGTTATAA-TTTACTA
1 AAAGTAGTAGTGATAACTCT-CCA
***
35216281 ACTTTAGTAGTGATAACTCTCCA
1 AAAGTAGTAGTGATAACTCTCCA
35216304 AAAG
1 AAAG
35216308 AGAGTTATAA
Statistics
Matches: 60, Mismatches: 24, Indels: 16
0.60 0.24 0.16
Matches are distributed among these distances:
20 4 0.07
21 20 0.33
22 8 0.13
23 24 0.40
24 4 0.07
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (23 bp):
AAAGTAGTAGTGATAACTCTCCA
Found at i:35216247 original size:44 final size:44
Alignment explanation
Indices: 35216197--35216332 Score: 272
Period size: 44 Copynumber: 3.1 Consensus size: 44
35216187 AAAACTAAAG
35216197 TAGTAGTGATAACTCTCCAAAAGAGAGTTATAATTTACTAACTT
1 TAGTAGTGATAACTCTCCAAAAGAGAGTTATAATTTACTAACTT
35216241 TAGTAGTGATAACTCTCCAAAAGAGAGTTATAATTTACTAACTT
1 TAGTAGTGATAACTCTCCAAAAGAGAGTTATAATTTACTAACTT
35216285 TAGTAGTGATAACTCTCCAAAAGAGAGTTATAATTTACTAACTT
1 TAGTAGTGATAACTCTCCAAAAGAGAGTTATAATTTACTAACTT
35216329 TAGT
1 TAGT
35216333 GCATAATTCT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 92 1.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (44 bp):
TAGTAGTGATAACTCTCCAAAAGAGAGTTATAATTTACTAACTT
Found at i:35217211 original size:20 final size:20
Alignment explanation
Indices: 35217178--35217244 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
35217168 TTTCTTAACT
*
35217178 TTGATCT-ATCTTTTCCTAC
1 TTGATCTCATGTTTTCCTAC
** *
35217197 TTGATCTCATGTTTTAATGC
1 TTGATCTCATGTTTTCCTAC
* * *
35217217 TTTATATCATGTTTTCCATTC
1 TTGATCTCATGTTTTCC-TAC
35217238 TTGATCT
1 TTGATCT
35217245 TGTGTTGATG
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
19 7 0.20
20 21 0.60
21 7 0.20
ACGTcount: A:0.18, C:0.19, G:0.09, T:0.54
Consensus pattern (20 bp):
TTGATCTCATGTTTTCCTAC
Found at i:35222462 original size:22 final size:22
Alignment explanation
Indices: 35222434--35222480 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
35222424 TATGCATTAT
35222434 TAAACAGAGAGCACGAATGTGC
1 TAAACAGAGAGCACGAATGTGC
*
35222456 TAAACAGAGAGCACTAATGTGC
1 TAAACAGAGAGCACGAATGTGC
35222478 TAA
1 TAA
35222481 TAATTGGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (22 bp):
TAAACAGAGAGCACGAATGTGC
Found at i:35224371 original size:10 final size:8
Alignment explanation
Indices: 35224347--35224373 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
35224337 ATCATCCATT
35224347 TCAATATA
1 TCAATATA
35224355 TCAATATA
1 TCAATATA
35224363 TCAATATA
1 TCAATATA
35224371 TCA
1 TCA
35224374 TGTGCCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (8 bp):
TCAATATA
Found at i:35224674 original size:21 final size:21
Alignment explanation
Indices: 35224636--35224769 Score: 164
Period size: 21 Copynumber: 6.5 Consensus size: 21
35224626 ATACGCCAAT
35224636 CAGAAGCTCG-AA-AGCTGAA
1 CAGAAGCTCGTAAGAGCTGAA
*
35224655 CAGAAGCTTGTAAGAGCTGAA
1 CAGAAGCTCGTAAGAGCTGAA
*
35224676 CAGAAGCTTGTAAGAGCTGAA
1 CAGAAGCTCGTAAGAGCTGAA
* *
35224697 CAGAAACTCGTAAGAGCTAAA
1 CAGAAGCTCGTAAGAGCTGAA
* * * *
35224718 CAGAAACTCATAAGAGTTTAA
1 CAGAAGCTCGTAAGAGCTGAA
*
35224739 CAGAAGCTCGTGAGAGCTGAA
1 CAGAAGCTCGTAAGAGCTGAA
*
35224760 CGGAAGCTCG
1 CAGAAGCTCG
35224770 AAAGTGCTAA
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
19 9 0.09
20 2 0.02
21 89 0.89
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.16
Consensus pattern (21 bp):
CAGAAGCTCGTAAGAGCTGAA
Found at i:35227686 original size:62 final size:62
Alignment explanation
Indices: 35227614--35227737 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
35227604 TAGCTTAATA
35227614 CCAAAACAACCCAACTTAGGTACATGCTCAATTCAATACCAAAACATAACTTAACAAACTTT
1 CCAAAACAACCCAACTTAGGTACATGCTCAATTCAATACCAAAACATAACTTAACAAACTTT
35227676 CCAAAACAACCCAACTTAGGTACATGCTCAATTCAATACCAAAACATAACTTAACAAACTTT
1 CCAAAACAACCCAACTTAGGTACATGCTCAATTCAATACCAAAACATAACTTAACAAACTTT
35227738 GGTAAGTCGG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.45, C:0.27, G:0.05, T:0.23
Consensus pattern (62 bp):
CCAAAACAACCCAACTTAGGTACATGCTCAATTCAATACCAAAACATAACTTAACAAACTTT
Found at i:35229058 original size:24 final size:24
Alignment explanation
Indices: 35229026--35229073 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
35229016 ACGAGAGATG
35229026 GTATCATATAGTTACGTGGTTAAT
1 GTATCATATAGTTACGTGGTTAAT
35229050 GTATCATATAGTTACGTGGTTAAT
1 GTATCATATAGTTACGTGGTTAAT
35229074 TCTTTTGACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (24 bp):
GTATCATATAGTTACGTGGTTAAT
Found at i:35237005 original size:16 final size:15
Alignment explanation
Indices: 35236984--35237016 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
35236974 AAAATACATA
35236984 AATAGATAATAATAAT
1 AATAGATAATAA-AAT
35237000 AATAGATAATAAAAT
1 AATAGATAATAAAAT
35237015 AA
1 AA
35237017 AATAAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (15 bp):
AATAGATAATAAAAT
Found at i:35240350 original size:27 final size:27
Alignment explanation
Indices: 35240312--35240368 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
35240302 AGCTTCCTTA
*
35240312 TTTCTTTTTCTTTTCTTTTTGTTTTGG
1 TTTCTTTTTCTTTTCTCTTTGTTTTGG
35240339 TTTCTTTTTCTTTTCTCTTTGTTTTGG
1 TTTCTTTTTCTTTTCTCTTTGTTTTGG
35240366 TTT
1 TTT
35240369 GAAGAAAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.00, C:0.12, G:0.11, T:0.77
Consensus pattern (27 bp):
TTTCTTTTTCTTTTCTCTTTGTTTTGG
Found at i:35241188 original size:6 final size:6
Alignment explanation
Indices: 35241177--35241204 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
35241167 AGTTTCTTTC
35241177 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
35241205 TACATGTATC
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:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:35241947 original size:44 final size:44
Alignment explanation
Indices: 35241882--35242837 Score: 659
Period size: 44 Copynumber: 21.0 Consensus size: 44
35241872 GATTCGTAAC
* * *
35241882 TTGTAGTTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * *
35241926 TTGTAGCTTCAATCTGCTCCACTGTAACTTCAGAGAGATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* *
35241970 TTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA----T
* * *
35242018 AACTTGTAGCTTCAATTTGCTTCACTGCAACTTCAGGGAGATAAGACT
1 ---TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T
* * * *
35242066 TT-TAGCTTTGATCTACTCTACTGCAACTTCAGAGAGATAAGACTT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T
* *
35242111 GCAACTTGTAGCTTTAATCTGTTCCACTGCAACTTGAGGGA-ATAAGAT
1 -----TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* *
35242159 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATGAA-AT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT-AAGAT
* ** * *
35242203 TTGT-GACTTTAATATTTTCCACTATC-ACTTCAGGG-GCATAGGATTTGTGAC
1 TTGTAG-CTTTAATCTGCTCCACT-GCAACTTCAGGGAG-ATA--A-----GAT
** * * *
35242254 TTGTAGCTTTAATCTATTCCACTACAACTTTAGGGAAATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * * * * *
35242298 TTGCATCTTCAACCTTCTCTACTGCAACTTCAGGGAGATAAAAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * * * * *
35242342 TTATAGCTTTAATATGCTCTACTACAACTTTAGAGAGATAAAATT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T
* * * ** *
35242387 TTCTATCTTCAATCTTTTGCACTGCAACTTCAGGGAGATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * *
35242431 TTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * ** * *
35242475 TTGCTATCTTCAATCTTTTCCACTACAACTTAAGGGAGATAAGAT
1 TTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * *
35242520 TTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * * *
35242564 TTGCTATCTTCAATCTGTTCCACTGCAACTTCTGGGAGATAAAAT
1 TTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
** * * * *
35242609 TTGTATATTCAAACTACTCCACTGCCACTTCAGGGAGATAAGATTTGT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA----T
* ** ** *
35242657 AACTTGTAGCTTTTATCTATTCTTCTGCAACTTCAGGGAAATAAGAT
1 ---TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
** * * * *
35242704 TCACTATCTTTAATCTGCTCCACTACAACTTTAGGGAGATAAGAC
1 T-TGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * * * * *
35242749 TTATATCTTCAATATACTCCACTGCAACTTTAAGGAGATGAA-AT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT-AAGAT
** *
35242793 TTGT-GACTTTAATCTTTTCCACTTCAACTTCAGGGAGATAAGAT
1 TTGTAG-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
35242837 T
1 T
35242838 CGTCACGGTG
Statistics
Matches: 711, Mismatches: 157, Indels: 88
0.74 0.16 0.09
Matches are distributed among these distances:
43 37 0.05
44 382 0.54
45 145 0.20
47 1 0.00
48 4 0.01
49 1 0.00
50 9 0.01
51 131 0.18
52 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (44 bp):
TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
Found at i:35242026 original size:95 final size:92
Alignment explanation
Indices: 35241882--35242837 Score: 657
Period size: 89 Copynumber: 10.5 Consensus size: 92
35241872 GATTCGTAAC
* * * * *
35241882 TTGTAGTTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGA--T--TTGTAGCTTCAATCTGC
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTACTTGTAGCTTCAATCTGT
* *
35241943 TCCACTGTAACTTCAGAGAGATAAGAT
66 TCCACTGCAACTTCAGGGAGATAAGAT
* * * *
35241970 TTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTGTAGCTTCAATT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TT-T-ACTTGTAGCTTCAATC
35242035 TGCTT-CACTGCAACTTCAGGGAGATAAGACT
63 TG-TTCCACTGCAACTTCAGGGAGATAAGA-T
* * * * *
35242066 TT-TAGCTTTGATCTACTCTACTGCAACTTCAGAGAGATAAGACTTGCAACTTGTAGCTTTAATC
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TT--TACTTGTAGCTTCAATC
*
35242130 TGTTCCACTGCAACTTGAGGGA-ATAAGAT
63 TGTTCCACTGCAACTTCAGGGAGATAAGAT
* * * * *
35242159 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATGAA-ATTT--GTG-A-CTTTAATATT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGAT-AAGATTTACTTGTAGCTTCAATCTG
* *
35242219 TTCCACTATC-ACTTCAGGG-GCATAGGATTTGTGAC
65 TTCCACT-GCAACTTCAGGGAG-ATA--A-----GAT
** * * * * * * *
35242254 TTGTAGCTTTAATCTATTCCACTACAACTTTAGGGAAATAAGA--T--TTGCATCTTCAACCT-T
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTACTTGTAGCTTCAATCTGT
* *
35242314 CTCTACTGCAACTTCAGGGAGATAAAAT
66 -TCCACTGCAACTTCAGGGAGATAAGAT
* * * * * * * * *
35242342 TTATAGCTTTAATATGCTCTACTACAACTTTAGAGAGATAA-AATT--TTCTATCTTCAATCTTT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTACTTGTAGCTTCAATCTGT
*
35242404 TGCACTGCAACTTCAGGGAGATAAGAT
66 TCCACTGCAACTTCAGGGAGATAAGAT
* * * * *
35242431 TTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGC---TATCTTCAATCTTT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTACTTGTAGCTTCAATCTGT
* *
35242493 TCCACTACAACTTAAGGGAGATAAGAT
66 TCCACTGCAACTTCAGGGAGATAAGAT
* * * *
35242520 TTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGC---TATCTTCAATCTGT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTACTTGTAGCTTCAATCTGT
* *
35242582 TCCACTGCAACTTCTGGGAGATAAAAT
66 TCCACTGCAACTTCAGGGAGATAAGAT
** * * * * * **
35242609 TTGTATATTCAAACTACTCCACTGCCACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTTATC
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TT-T-ACTTGTAGCTTCAATC
* ** *
35242674 TATTCTTCTGCAACTTCAGGGAAATAAGAT
63 TGTTCCACTGCAACTTCAGGGAGATAAGAT
** * * * * * * * *
35242704 TCACTATCTTTAATCTGCTCCACTACAACTTTAGGGAGATAAG----ACTTATATCTTCAATATA
1 T-TGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTACTTGTAGCTTCAATCTG
* * *
35242765 CTCCACTGCAACTTTAAGGAGATGAA-AT
65 TTCCACTGCAACTTCAGGGAGAT-AAGAT
** * *
35242793 TTGT-GACTTTAATCTTTTCCACTTCAACTTCAGGGAGATAAGATT
1 TTGTAG-CTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
35242838 CGTCACGGTG
Statistics
Matches: 706, Mismatches: 115, Indels: 91
0.77 0.13 0.10
Matches are distributed among these distances:
87 24 0.03
88 111 0.16
89 266 0.38
90 9 0.01
91 1 0.00
92 2 0.00
93 9 0.01
94 46 0.07
95 201 0.28
96 37 0.05
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (92 bp):
TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTACTTGTAGCTTCAATCTGT
TCCACTGCAACTTCAGGGAGATAAGAT
Found at i:35242810 original size:140 final size:135
Alignment explanation
Indices: 35241889--35242837 Score: 481
Period size: 133 Copynumber: 6.9 Consensus size: 135
35241879 AACTTGTAGT
* * * * * * * *
35241889 TTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGTAAC
1 TTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTATATCTTCAATATACTCCACTGCAAC
* * * *
35241954 -TTCAGAGAGATAAGATTTGTAGCTTCAATC---TACTCCACTGCAACTTCAGGGAGATAAGACT
66 TTTAAG-GAGATAAGATTTGTA-CTTTAATCTTTTGCTCTACTGCAACTTCAGGGAGATAAGA-T
*
35242015 TGTAACTTGTAGC
128 T-T-AC---TATC
* * * * * ** * *
35242028 TTCAATTTGCTTCACTGCAACTTCAGGGAGATAAGACTTT-TAGCTTTGATCTACTCTACTGCAA
1 TTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTTATATCTTCAATATACTCCACTGCAA
* * *
35242092 C-TTCAGAGAGATAAGACTTGCAACTTGTAGCTTTAATCTGTT-C-C-ACTGCAACTTGAGGGA-
65 CTTTAAG-GAGATAAGA--T-----TTGTA-CTTTAATCTTTTGCTCTACTGCAACTTCAGGGAG
* *
35242152 ATAAGATTT-GTAGC
121 ATAAGATTTACTATC
* * * * * ** *
35242166 TTCAATCTGCTCCACTGCAACTTCAGAGAGATGAA-ATTTGTGA-CTTTAATATTTTCCACTATC
1 TTTAATCTGCTCCACTGCAACTTTAGGGAGAT-AAGATTTAT-ATCTTCAATATACTCCACT-GC
* * * * * * *
35242229 -AC-TTCAGGGGCATAGGATTTGTGACTTGT-AGCTTTAAT-CTATTCCACTACAACTTTAGGGA
63 AACTTTAAGGAG-ATAAGATTTGT-ACTT-TAATCTTT--TGC---TCTACTGCAACTTCAGGGA
* *
35242290 AATAAGATTTGC-ATC
120 GATAAGATTTACTATC
* * * * * * * * * * *
35242305 TTCAACCTTCTCTACTGCAACTTCAGGGAGATAAAATTTATAGCTTTAATATGCTCTACTACAAC
1 TTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTATATCTTCAATATACTCCACTGCAAC
* * *
35242370 TTT-AGAGAGATAAAATTTTCTATCTTCAATCTTTTG--C-ACTGCAACTTCAGGGAGATAAGAT
66 TTTAAG-GAGATAAGA-TTTGTA-CTTTAATCTTTTGCTCTACTGCAACTTCAGGGAGATAAGAT
*
35242431 TTA-TAGC
128 TTACTATC
* * * * * ** *
35242438 TTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTTTTCCACTACAA
1 TTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTT-ATATCTTCAATATACTCCACTGCAA
* *
35242503 C-TTAAGGGAGATAAGATTTATAGCTTTAATC---TGCTCTACTGCAACTTCAGAGAGATAAGAT
65 CTTTAA-GGAGATAAGATTTGTA-CTTTAATCTTTTGCTCTACTGCAACTTCAGGGAGATAAGAT
*
35242564 TTGCTATC
128 TTACTATC
* * * * * *
35242572 TTCAATCTGTTCCACTGCAACTTCT-GGGAGATAAAATTTGTATATTCAA-ACTACTCCACTGCC
1 TTTAATCTGCTCCACTGCAACTT-TAGGGAGATAAGATTTATATCTTCAATA-TACTCCACTGCA
* * * * * *
35242635 ACTTCAGGGAGATAAGATTTGTAACTTGT-AGCTTTTATCTATTCTTCTGCAACTTCAGGGAAAT
64 ACTTTAAGGAGATAAGATTTGT-ACTT-TAATCTTTT-GC---TCTACTGCAACTTCAGGGAGAT
*
35242699 AAGATTCACTATC
123 AAGATTTACTATC
* *
35242712 TTTAATCTGCTCCACTACAACTTTAGGGAGATAAGACTTATATCTTCAATATACTCCACTGCAAC
1 TTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTATATCTTCAATATACTCCACTGCAAC
*
35242777 TTTAAGGAGATGAA-ATTTGTGACTTTAATCTTTT-C-C-ACTTCAACTTCAGGGAGATAAGATT
66 TTTAAGGAGAT-AAGATTTGT-ACTTTAATCTTTTGCTCTACTGCAACTTCAGGGAGATAAGATT
35242838 CGTCACGGTG
Statistics
Matches: 643, Mismatches: 107, Indels: 126
0.73 0.12 0.14
Matches are distributed among these distances:
130 2 0.00
131 11 0.02
132 3 0.00
133 159 0.25
134 69 0.11
135 1 0.00
136 2 0.00
137 7 0.01
138 79 0.12
139 139 0.22
140 127 0.20
141 4 0.01
143 1 0.00
144 2 0.00
145 6 0.01
146 28 0.04
147 1 0.00
148 1 0.00
149 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (135 bp):
TTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTATATCTTCAATATACTCCACTGCAAC
TTTAAGGAGATAAGATTTGTACTTTAATCTTTTGCTCTACTGCAACTTCAGGGAGATAAGATTTA
CTATC
Found at i:35258321 original size:3 final size:3
Alignment explanation
Indices: 35258313--35258340 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
35258303 CTCCAATTAA
35258313 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
35258341 TAAATATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:35268734 original size:9 final size:9
Alignment explanation
Indices: 35268720--35268744 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
35268710 TGCAAATGCT
35268720 ATAATAACA
1 ATAATAACA
35268729 ATAATAACA
1 ATAATAACA
35268738 ATAATAA
1 ATAATAA
35268745 ATACATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:35273184 original size:10 final size:10
Alignment explanation
Indices: 35273169--35273198 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
35273159 ACAGAGAGGT
35273169 AAAATTTCCA
1 AAAATTTCCA
35273179 AAAATTTCCA
1 AAAATTTCCA
35273189 AAAATTTCCA
1 AAAATTTCCA
35273199 CCATCTTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATTTCCA
Found at i:35273636 original size:128 final size:128
Alignment explanation
Indices: 35273442--35273734 Score: 392
Period size: 128 Copynumber: 2.3 Consensus size: 128
35273432 AAGAGAAGGG
* *
35273442 TCTTTAGCGGCGTTTGTGTAGAAAGCGCCGCTAAAGATAAGGGTCTTTTGCGGCGTTTGTGGAGA
1 TCTTTAGCGGCGTTTGTGGA-AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAGA
* * *
35273507 AAGCGCCGCTAAAGATAGGGGTCTTTTGCGACGTTTGT-AGAGAAAGCGCCGCTAAA-GACCAGA
65 AAGCGCCGCTAAAGATACGGCTCTTTAGCGACGTTTGTGAGA-AAAGCGCCGCTAAAGGACCAG-
*
35273570 T
128 C
* * *
35273571 TCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAGGATTAGGTTCTTTAGCGGCGTTTGTGGAGAA
1 TCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAGAA
* * * * * * *
35273636 AGCGCCGCTAAAGGTCCTGCTCTTTAGCGGCGTTTGTGAGAAAAGTGCCGCTAAAGGTCCTGC
66 AGCGCCGCTAAAGATACGGCTCTTTAGCGACGTTTGTGAGAAAAGCGCCGCTAAAGGACCAGC
35273699 TCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAG
1 TCTTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAG
35273735 GTCCTCGTCT
Statistics
Matches: 144, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
128 102 0.71
129 42 0.29
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (128 bp):
TCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAGAA
AGCGCCGCTAAAGATACGGCTCTTTAGCGACGTTTGTGAGAAAAGCGCCGCTAAAGGACCAGC
Found at i:35273735 original size:43 final size:43
Alignment explanation
Indices: 35273442--35273756 Score: 322
Period size: 43 Copynumber: 7.3 Consensus size: 43
35273432 AAGAGAAGGG
* ** *
35273442 TCTTTAGCGGCGTTTGTGTAG-AAAGCGCCGCTAAAGATAAGGG
1 TCTTTAGCGGCGTTTGTG-AGAAAAGCGCCGCTAAAGGTCCGGC
* * ** *
35273485 TCTTTTGCGGCGTTTGTG-GAGAAAGCGCCGCTAAAGATAGGGG
1 TCTTTAGCGGCGTTTGTGAGA-AAAGCGCCGCTAAAGGTCCGGC
* * * **
35273528 TCTTTTGCGACGTTTGT-AGAGAAAGCGCCGCTAAA-GACCAGAT
1 TCTTTAGCGGCGTTTGTGAGA-AAAGCGCCGCTAAAGGTCC-GGC
** *
35273571 TCTTTAGCGGCGTTTGTG-GAAAAGCGCCGCT-AAGGATTAGGT
1 TCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGG-TCCGGC
*
35273613 TCTTTAGCGGCGTTTGTG-GAGAAAGCGCCGCTAAAGGTCCTGC
1 TCTTTAGCGGCGTTTGTGAGA-AAAGCGCCGCTAAAGGTCCGGC
* *
35273656 TCTTTAGCGGCGTTTGTGAGAAAAGTGCCGCTAAAGGTCCTGC
1 TCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCCGGC
*
35273699 TCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCC-TC
1 TCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCCGGC
35273741 GTCTTTAGCGGCGTTT
1 -TCTTTAGCGGCGTTT
35273757 TTTCCTCGTC
Statistics
Matches: 239, Mismatches: 22, Indels: 22
0.84 0.08 0.08
Matches are distributed among these distances:
41 3 0.01
42 35 0.15
43 195 0.82
44 6 0.03
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCCGGC
Found at i:35273748 original size:171 final size:170
Alignment explanation
Indices: 35273442--35273756 Score: 411
Period size: 171 Copynumber: 1.8 Consensus size: 170
35273432 AAGAGAAGGG
* * *
35273442 TCTTTAGCGGCGTTTGTGTAGAAAGCGCCGCTAAAGATAAGGGTCTTTTGCGGCGTTTGTGGAGA
1 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATAAGGCTCTTTAGCGGCGTTTGTGGAGA
* * *
35273507 AAGCGCCGCTAAAGATAGGGGTCTTTTGCGACGTTTGTAGAGAAAGCGCCGCTAAAGACCAGATT
66 AAGCGCCGCTAAAGATACGGCTCTTTAGCGACGTTTGTAGAGAAAGCGCCGCTAAAGACCAGA-T
35273572 CTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAGGATTAGGT
130 CTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAGGATTAGGT
* ***
35273613 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGGTCCTGCTCTTTAGCGGCGTTTGT-GAGA
1 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATAAGGCTCTTTAGCGGCGTTTGTGGAG-
* * * * * * *
35273677 AAAGTGCCGCTAAAGGTCCTGCTCTTTAGCGGCGTTTGT-GAGAAAAGCGCCGCTAAAGGTCCTC
65 AAAGCGCCGCTAAAGATACGGCTCTTTAGCGACGTTTGTAGAG-AAAGCGCCGCTAAA-GACC-A
35273741 G-TCTTTAGCGGCGTTT
127 GATCTTTAGCGGCGTTT
35273757 TTTCCTCGTC
Statistics
Matches: 123, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
170 6 0.05
171 113 0.92
172 3 0.02
173 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (170 bp):
TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATAAGGCTCTTTAGCGGCGTTTGTGGAGA
AAGCGCCGCTAAAGATACGGCTCTTTAGCGACGTTTGTAGAGAAAGCGCCGCTAAAGACCAGATC
TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAGGATTAGGT
Found at i:35273762 original size:23 final size:23
Alignment explanation
Indices: 35273736--35273781 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
35273726 CCGCTAAAGG
*
35273736 TCCTCGTCTTTAGCGGCGTTTTT
1 TCCTCGTCTTTAGCAGCGTTTTT
35273759 TCCTCGTCTTTAGCAGCGTTTTT
1 TCCTCGTCTTTAGCAGCGTTTTT
35273782 AATAAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.07, C:0.26, G:0.20, T:0.48
Consensus pattern (23 bp):
TCCTCGTCTTTAGCAGCGTTTTT
Found at i:35274345 original size:41 final size:40
Alignment explanation
Indices: 35274291--35274512 Score: 246
Period size: 41 Copynumber: 5.4 Consensus size: 40
35274281 GCGCTTCGGC
* *
35274291 AAAAACGTCGCTAAAGGCAAATGCATTAGCGGCGCTTAGAT
1 AAAAACGCCGCTAAAGGCAGA-GCATTAGCGGCGCTTAGAT
* * * * * *
35274332 ACAAACACAGCTAAAGGCCAGAGAATTAGTGGCGCTCAGAT
1 AAAAACGCCGCTAAAGG-CAGAGCATTAGCGGCGCTTAGAT
* *
35274373 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTAGAT
1 AAAAACGCCGCTAAAG-GCAGAGCATTAGCGGCGCTTAGAT
* * * *
35274414 AAAATCGCCACTAAAGGCCAGAGAATTAGCGGCGCTCAGAT
1 AAAAACGCCGCTAAAGG-CAGAGCATTAGCGGCGCTTAGAT
** *
35274455 AAAAACGCCGCTAAATATCCGAGCATTAGCGGCGCTTAGAT
1 AAAAACGCCGCTAAA-GGCAGAGCATTAGCGGCGCTTAGAT
35274496 AAAAACGCCGCTAAAGG
1 AAAAACGCCGCTAAAGG
35274513 TTTAAAAAAT
Statistics
Matches: 146, Mismatches: 31, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
41 143 0.98
42 3 0.02
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.17
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGGCAGAGCATTAGCGGCGCTTAGAT
Found at i:35274510 original size:82 final size:82
Alignment explanation
Indices: 35274313--35274512 Score: 328
Period size: 82 Copynumber: 2.4 Consensus size: 82
35274303 AAAGGCAAAT
* * * *
35274313 GCATTAGCGGCGCTTAGATACAAACACAGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAA
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAA
*
35274378 CGCCGCTAAAGATCTGA
66 CGCCGCTAAAGATCCGA
* *
35274395 GCATTAGCGGCGCTTAGATAAAATCGCCACTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAA
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAA
*
35274460 CGCCGCTAAATATCCGA
66 CGCCGCTAAAGATCCGA
35274477 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG
35274513 TTTAAAAAAT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 108 1.00
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.17
Consensus pattern (82 bp):
GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAA
CGCCGCTAAAGATCCGA
Found at i:35278253 original size:277 final size:274
Alignment explanation
Indices: 35277761--35278829 Score: 1567
Period size: 269 Copynumber: 3.9 Consensus size: 274
35277751 GTTATAGTCA
* *
35277761 GATTATGGAGGTCACATCACTAGATAAAAGAAAGTACTAGTGTTTTGAAGAACCAATTCCAGCAA
1 GATTACGGAGGTCACATCACTAGATAAAAGAAAGTACTAGTGTTTTGAAGAACCAATTCCAGCAG
* ** *
35277826 GTTAAAACTTTATTGTC-TCATTTAAAAGAAAAGAACATTTCAAACATGTCAAAATATTAAGTTA
66 GTTAAAACTTCATTGTCTTTTTTTAAAA-AAAA-AACATTTCAAACATGTCAAAATATCAAGTTA
* *
35277890 AATTCTCTTATAAATGTACCCACTGAAATTATTTTTAATGAAAACCTCAAACTTAATTTGTAGCG
129 AATTCTCTTATAAACGTACCCACTGAAATTATTTTTAATGAAAACCTCAAACTTAATTTGCAGCG
* * * *
35277955 ACAATTACTTGAAAACTTAAAGTTTCGTTTTAGTCTCTTTAGGAAAAAATATTTATAAACCCGGC
194 ACAATTACTTGAAAACTTAAAGTTTCATTTTGGTCTCTTTAGGAAAAATTATTTATAAACCTGGC
35278020 CTAGACGTTACGGTCG
259 CTAGACGTTACGGTCG
* * *
35278036 GATTATGGAGGTCACATCACTAGATAAAAGAAAGTACTAGTGTTTTGAATAATCAATTCCAGCAG
1 GATTACGGAGGTCACATCACTAGATAAAAGAAAGTACTAGTGTTTTGAAGAACCAATTCCAGCAG
*** *
35278101 GTTAAAACTTCATTGTCTTGTTTTTTTTCTAAAAAAACATTTCAAACATGTCAAAATATCAAGCT
66 GTTAAAACTTCATTGTC---TTTTTTTAAAAAAAAAACATTTCAAACATGTCAAAATATCAAGTT
* * * *
35278166 AAATTCTCTTATAAACGTGCCCGCTGAAATTTTTTTTAATGAAAACTTCAAACTTAATTTGCAGC
128 AAATTCTCTTATAAACGTACCCACTGAAATTATTTTTAATGAAAACCTCAAACTTAATTTGCAGC
* * * **
35278231 AACAATTACTTGAAAACTTAAAGTTTTATTTTGGTTTCTTTAGGAAGGATTATTTATAAACCTGG
193 GACAATTACTTGAAAACTTAAAGTTTCATTTTGGTCTCTTTAGGAAAAATTATTTATAAACCTGG
*
35278296 CCTAGACGTTACGGTTG
258 CCTAGACGTTACGGTCG
* *
35278313 GATTACGGAGGTTACATCACTAGATAAAAGAAAGTACTAGTGTTTTGAAGAACCAATTCCAGTAG
1 GATTACGGAGGTCACATCACTAGATAAAAGAAAGTACTAGTGTTTTGAAGAACCAATTCCAGCAG
** * *
35278378 GTTAAAACTTCATTGTC-TCGTTTAAAAAAAAAAC--GT--AACATGTCAAAATATCAAGTTATA
66 GTTAAAACTTCATTGTCTTTTTTTAAAAAAAAAACATTTCAAACATGTCAAAATATCAAGTTAAA
*
35278438 TTCTCTTATAAACGTACCCACTAAAATTATTTTTAATGAAAACCTCAAACTTAATTTGCAGCGAC
131 TTCTCTTATAAACGTACCCACTGAAATTATTTTTAATGAAAACCTCAAACTTAATTTGCAGCGAC
* * * **
35278503 AATTACTTGAAAGCTTAAAGTTTCGTTTTTGTCTCTTTAGGAAGGATTATTTATAAACCTGGCCT
196 AATTACTTGAAAACTTAAAGTTTCATTTTGGTCTCTTTAGGAAAAATTATTTATAAACCTGGCCT
35278568 AGACGTTACGGTCG
261 AGACGTTACGGTCG
* *
35278582 GATTACAGAGGTCACATCACTAGATAAAAGAAAGTACTAGTGTTTTGAAAAACCAATTCCAGCAG
1 GATTACGGAGGTCACATCACTAGATAAAAGAAAGTACTAGTGTTTTGAAGAACCAATTCCAGCAG
* **
35278647 GTTAAAACTTCTTTGTC-TCATTTAAAAAAAAAACATTTCAAACATGTCAAAATATCAAGTTAAA
66 GTTAAAACTTCATTGTCTTTTTTTAAAAAAAAAACATTTCAAACATGTCAAAATATCAAGTTAAA
* * ** *
35278711 TTCTTTTATAAATGTGTCCGCTGAAATTATTTTTAATGAAAACCTCAAACTTAATTTGCAGCGAC
131 TTCTCTTATAAACGTACCCACTGAAATTATTTTTAATGAAAACCTCAAACTTAATTTGCAGCGAC
* *
35278776 AGTTACTTGAAAACTTAAAGTTTCATTTTGGTCTCTATAGGAAAAATTATTTAT
196 AATTACTTGAAAACTTAAAGTTTCATTTTGGTCTCTTTAGGAAAAATTATTTAT
35278830 CATTTGAGCT
Statistics
Matches: 713, Mismatches: 73, Indels: 18
0.89 0.09 0.02
Matches are distributed among these distances:
269 247 0.35
271 2 0.00
273 141 0.20
275 78 0.11
277 236 0.33
278 4 0.01
279 5 0.01
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (274 bp):
GATTACGGAGGTCACATCACTAGATAAAAGAAAGTACTAGTGTTTTGAAGAACCAATTCCAGCAG
GTTAAAACTTCATTGTCTTTTTTTAAAAAAAAAACATTTCAAACATGTCAAAATATCAAGTTAAA
TTCTCTTATAAACGTACCCACTGAAATTATTTTTAATGAAAACCTCAAACTTAATTTGCAGCGAC
AATTACTTGAAAACTTAAAGTTTCATTTTGGTCTCTTTAGGAAAAATTATTTATAAACCTGGCCT
AGACGTTACGGTCG
Found at i:35281218 original size:9 final size:9
Alignment explanation
Indices: 35281204--35281233 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
35281194 GTTTGAATAA
35281204 TTATAAAAT
1 TTATAAAAT
35281213 TTATAAAAT
1 TTATAAAAT
35281222 TTATAAAAT
1 TTATAAAAT
35281231 TTA
1 TTA
35281234 CAATTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
TTATAAAAT
Found at i:35282378 original size:39 final size:40
Alignment explanation
Indices: 35282335--35282439 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
35282325 TTTCATTATG
35282335 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
35282374 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
35282419 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
35282440 ACGTCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:35282433 original size:45 final size:44
Alignment explanation
Indices: 35282333--35282441 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 44
35282323 TTTTTCATTA
35282333 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
35282372 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
35282417 TGCTATTACACCTCTATTCCATTAC
1 TGCTATTACACCTCTATTCCATTAC
35282442 GTCTCTAATC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 24 0.42
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:35282915 original size:29 final size:30
Alignment explanation
Indices: 35282883--35282941 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
35282873 TATGGTTTAA
35282883 TGTGCAAT-TGTATAAATG-AATTTTGATTT
1 TGTGCAATGT-TATAAATGAAATTTTGATTT
*
35282912 TGTGCAATGTTATACATGAAATTTTGATTT
1 TGTGCAATGTTATAAATGAAATTTTGATTT
35282942 GATCCAATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.47
Consensus pattern (30 bp):
TGTGCAATGTTATAAATGAAATTTTGATTT
Found at i:35284696 original size:19 final size:20
Alignment explanation
Indices: 35284658--35284697 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
35284648 GGGTTTTTTT
35284658 TAATTTTTTTAATATTAATA
1 TAATTTTTTTAATATTAATA
35284678 TAATTATTTTT-AT-TTAATA
1 TAATT-TTTTTAATATTAATA
35284697 T
1 T
35284698 TAATGTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATTTTTTTAATATTAATA
Found at i:35284701 original size:20 final size:21
Alignment explanation
Indices: 35284657--35284701 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
35284647 AGGGTTTTTT
35284657 TTAATTTTTTTAATATTAATA
1 TTAATTTTTTTAATATTAATA
35284678 -TAATTATTTTT-AT-TTAATA
1 TTAATT-TTTTTAATATTAATA
35284697 TTAAT
1 TTAAT
35284702 GTCAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 6 0.27
20 11 0.50
21 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTAATTTTTTTAATATTAATA
Found at i:35284743 original size:22 final size:20
Alignment explanation
Indices: 35284707--35284751 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
35284697 TTAATGTCAA
*
35284707 TTTTAAATTTATTATTATATT
1 TTTTAAAATTATTA-TATATT
*
35284728 TTTTAAAATTATTTATGTATT
1 TTTTAAAATTA-TTATATATT
35284749 TTT
1 TTT
35284752 ATATATTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTAAAATTATTATATATT
Found at i:35286559 original size:20 final size:19
Alignment explanation
Indices: 35286509--35286559 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
35286499 AATAGTTCTG
*
35286509 TCTCTTGATGAACAGTTGTA
1 TCTCTTG-TGAACAATTGTA
35286529 TCT-TT-TGAACAATTGTA
1 TCTCTTGTGAACAATTGTA
35286546 TCTCTTGGTGAACA
1 TCTCTT-GTGAACA
35286560 GATTCATTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 14 0.52
18 2 0.07
19 2 0.07
20 9 0.33
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (19 bp):
TCTCTTGTGAACAATTGTA
Found at i:35287997 original size:30 final size:30
Alignment explanation
Indices: 35287937--35287997 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
35287927 AAGTTCTTCC
* *
35287937 TTTTTTATAAATTATAATATTATAATATTA
1 TTTTTTATAAATCATAATATTATAACATTA
* *
35287967 TTTTTTAATAACTCATAAT-TTATGACATTA
1 TTTTTT-ATAAATCATAATATTATAACATTA
35287997 T
1 T
35287998 AGATTAACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (30 bp):
TTTTTTATAAATCATAATATTATAACATTA
Found at i:35288698 original size:30 final size:29
Alignment explanation
Indices: 35288654--35288715 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
35288644 ATTATAAATT
*
35288654 ATTTTTAATATTTTAA-TATATGAAATATTA
1 ATTTTAAATATTTTAAGTA-AT-AAATATTA
* *
35288684 ATTTTAAATGTTTTAAGTAATTAATATTA
1 ATTTTAAATATTTTAAGTAATAAATATTA
35288713 ATT
1 ATT
35288716 ATTTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 10 0.36
30 16 0.57
31 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (29 bp):
ATTTTAAATATTTTAAGTAATAAATATTA
Found at i:35291965 original size:64 final size:64
Alignment explanation
Indices: 35291561--35291971 Score: 565
Period size: 64 Copynumber: 6.4 Consensus size: 64
35291551 ATATTTTATG
* *
35291561 TATTGTCGAATTGAATTGTAAAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
*** * * ***
35291625 TATTGCCGAATTGAATTGTAT-GTGTATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATAG-GTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
* * *** * *
35291689 TATTGTCGAATTGAATTGTATATGTATACTTATGTTG-CTGAATTGAATTGTATATGTATAATTA
1 TATTGCCGAATTGAATTGTATAGGTATACACCTATTGTC-GAATTGAATTGTATATGTATACTTA
* * *
35291753 TATTGTCGAATTGAATTGTATAAGTATACACCTATTGTCAAATTGAATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
*
35291817 TATTGCCGAATTGAATTGTATAGGTATACACCTATTGTTGAATTGAATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
*
35291881 TATTGCCGAATTGAATTGTATAGGTATACACCTATTGTTGAATTGAATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
* * *
35291945 TGTTGCCGAATTGATTTGTATATGTAT
1 TATTGCCGAATTGAATTGTATAGGTAT
35291972 TTATATATTG
Statistics
Matches: 311, Mismatches: 32, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
63 2 0.01
64 308 0.99
65 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (64 bp):
TATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
Found at i:35291965 original size:96 final size:96
Alignment explanation
Indices: 35291561--35291971 Score: 561
Period size: 96 Copynumber: 4.3 Consensus size: 96
35291551 ATATTTTATG
* * *
35291561 TATTGTCGAATTGAATTGTAAAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTAT
1 TATTGCCGAATTGAATTGTATATGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTAT
*
35291626 ATTGCCGAATTGAATTGTATGTGTATACTTA
66 ATTGCCGAATTGAATTGTATATGTATACTTA
*
35291657 TATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTAT
1 TATTGCCGAATTGAATTGTATATGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTAT
* * *
35291722 GTTGCTGAATTGAATTGTATATGTATAATTA
66 ATTGCCGAATTGAATTGTATATGTATACTTA
* * *
35291753 TATTGTCGAATTGAATTGTATAAGTATACACCTATTGTCAAATTGAATTGTATATGTATACTTAT
1 TATTGCCGAATTGAATTGTATATGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTAT
* ***
35291818 ATTGCCGAATTGAATTGTATAGGTATACACC
66 ATTGCCGAATTGAATTGTATATGTATACTTA
** *** * * ***
35291849 TATTGTTGAATTGAATTGTATATGTATACTTATATTGCCGAATTGAATTGTATAGGTATACACCT
1 TATTGCCGAATTGAATTGTATATGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTAT
**
35291914 ATTGTTGAATTGAATTGTATATGTATACTTA
66 ATTGCCGAATTGAATTGTATATGTATACTTA
* *
35291945 TGTTGCCGAATTGATTTGTATATGTAT
1 TATTGCCGAATTGAATTGTATATGTAT
35291972 TTATATATTG
Statistics
Matches: 278, Mismatches: 37, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 278 1.00
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (96 bp):
TATTGCCGAATTGAATTGTATATGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTAT
ATTGCCGAATTGAATTGTATATGTATACTTA
Found at i:35291993 original size:32 final size:32
Alignment explanation
Indices: 35291561--35291971 Score: 489
Period size: 32 Copynumber: 12.8 Consensus size: 32
35291551 ATATTTTATG
* * * ***
35291561 TATTGTCGAATTGAATTGTAAAGGTATACACC
1 TATTGCCGAATTGAATTGTATATGTATACTTA
*
35291593 TATTGTCGAATTGAATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
*
35291625 TATTGCCGAATTGAATTGTATGTGTATACTTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
* ***
35291657 TATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATGTATACTTA
*
35291689 TATTGTCGAATTGAATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
* * *
35291721 TGTTGCTGAATTGAATTGTATATGTATAATTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
* * ***
35291753 TATTGTCGAATTGAATTGTATAAGTATACACC
1 TATTGCCGAATTGAATTGTATATGTATACTTA
* *
35291785 TATTGTCAAATTGAATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
* ***
35291817 TATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATGTATACTTA
**
35291849 TATTGTTGAATTGAATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
* ***
35291881 TATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATGTATACTTA
**
35291913 TATTGTTGAATTGAATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
* *
35291945 TGTTGCCGAATTGATTTGTATATGTAT
1 TATTGCCGAATTGAATTGTATATGTAT
35291972 TTATATATTG
Statistics
Matches: 317, Mismatches: 62, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 317 1.00
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (32 bp):
TATTGCCGAATTGAATTGTATATGTATACTTA
Found at i:35301966 original size:32 final size:32
Alignment explanation
Indices: 35301923--35302333 Score: 450
Period size: 32 Copynumber: 12.8 Consensus size: 32
35301913 ATATTTTATG
* * ***
35301923 TATTTTCGAATTGAATTGTATAGGTATACACC
1 TATTGTCGAATTGAATTGTATATGTATACTTA
35301955 TATTGTCGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
35301987 TATTG-CTGAATTGAATTGTATATGTATACTTA
1 TATTGTC-GAATTGAATTGTATATGTATACTTA
* * ***
35302019 TATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGTCGAATTGAATTGTATATGTATACTTA
*
35302051 TATTGTTGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
* *
35302083 TACTGCCGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
* * * * * ***
35302115 TATT-TCTGAATTAAAATATAGAGGTATACACC
1 TATTGTC-GAATTGAATTGTATATGTATACTTA
* *
35302147 TATTTTTGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
35302179 TATTGTCGAATTGAATTGTA-ATAGTATACTTA
1 TATTGTCGAATTGAATTGTATAT-GTATACTTA
* * ***
35302211 TATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGTCGAATTGAATTGTATATGTATACTTA
* * *
35302243 TATTATCAAATTGAATTGTATATATATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
*
35302275 TATTGCCGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
* * * *
35302307 TGTTGCCAAATTGATTTGTATATGTAT
1 TATTGTCGAATTGAATTGTATATGTAT
35302334 TTATATATTG
Statistics
Matches: 314, Mismatches: 59, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
31 4 0.01
32 307 0.98
33 3 0.01
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (32 bp):
TATTGTCGAATTGAATTGTATATGTATACTTA
Found at i:35302036 original size:96 final size:96
Alignment explanation
Indices: 35301929--35302333 Score: 623
Period size: 96 Copynumber: 4.2 Consensus size: 96
35301919 TATGTATTTT
*
35301929 CGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTATATTGCT
1 CGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTATATTGCC
35301994 GAATTGAATTGTATATGTATACTTATATTGC
66 GAATTGAATTGTATATGTATACTTATATTGC
* *
35302025 CGAATTGAATTGTATAGGTATACACCTATTGTTGAATTGAATTGTATATGTATACTTATACTGCC
1 CGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTATATTGCC
*
35302090 GAATTGAATTGTATATGTATACTTATATTTC
66 GAATTGAATTGTATATGTATACTTATATTGC
* * * * * * * *
35302121 TGAATTAAAATATAGAGGTATACACCTATTTTTGAATTGAATTGTATATGTATACTTATATTGTC
1 CGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTATATTGCC
35302186 GAATTGAATTGTA-ATAGTATACTTATATTGC
66 GAATTGAATTGTATAT-GTATACTTATATTGC
* * *
35302217 CGAATTGAATTGTATAGGTATACACCTATTATCAAATTGAATTGTATATATATACTTATATTGCC
1 CGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTATATTGCC
*
35302282 GAATTGAATTGTATATGTATACTTATGTTGC
66 GAATTGAATTGTATATGTATACTTATATTGC
* * *
35302313 CAAATTGATTTGTATATGTAT
1 CGAATTGAATTGTATAGGTAT
35302334 TTATATATTG
Statistics
Matches: 280, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
95 2 0.01
96 276 0.99
97 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (96 bp):
CGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTATATTGCC
GAATTGAATTGTATATGTATACTTATATTGC
Found at i:35305896 original size:41 final size:40
Alignment explanation
Indices: 35305822--35305963 Score: 176
Period size: 41 Copynumber: 3.5 Consensus size: 40
35305812 AAAAAGGGGT
* *
35305822 ACATATGTGCAATTCAGGGGGTACCGAAGTACAAACAGCGGC
1 ACATAAGTGCAATTCA-GGGGTAACGAAGTACAAACAG-GGC
* * *
35305864 ACATTAGTGCAATTCAGGGGTAACAAAGTACAAATAGGGGC
1 ACATAAGTGCAATTCAGGGGTAACGAAGTACAAACA-GGGC
**
35305905 ACATAAGTGCAATTCAGGGGTATTGAAGTACAAACAGGTGC
1 ACATAAGTGCAATTCAGGGGTAACGAAGTACAAACAGG-GC
*
35305946 ACGTAAGTGCAATTCAGG
1 ACATAAGTGCAATTCAGG
35305964 TATAATTAAC
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
40 2 0.02
41 70 0.80
42 15 0.17
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (40 bp):
ACATAAGTGCAATTCAGGGGTAACGAAGTACAAACAGGGC
Found at i:35305923 original size:21 final size:21
Alignment explanation
Indices: 35305816--35305963 Score: 72
Period size: 20 Copynumber: 7.1 Consensus size: 21
35305806 AGTGTAAAAA
* *
35305816 AGGGGTACATATGTGCAATTC
1 AGGGGCACATAAGTGCAATTC
* ** * *
35305837 AGGGGGTACCGAAGTACAA-AC
1 A-GGGGCACATAAGTGCAATTC
* *
35305858 AGCGGCACATTAGTGCAATTC
1 AGGGGCACATAAGTGCAATTC
* * *
35305879 AGGGGTAACA-AAGTACAAAT-
1 AGGGG-CACATAAGTGCAATTC
35305899 AGGGGCACATAAGTGCAATTC
1 AGGGGCACATAAGTGCAATTC
* * * *
35305920 AGGGGTA-TTGAAGTACAA-AC
1 AGGGGCACAT-AAGTGCAATTC
* *
35305940 AGGTGCACGTAAGTGCAATTC
1 AGGGGCACATAAGTGCAATTC
35305961 AGG
1 AGG
35305964 TATAATTAAC
Statistics
Matches: 90, Mismatches: 29, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
19 3 0.03
20 38 0.42
21 33 0.37
22 16 0.18
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (21 bp):
AGGGGCACATAAGTGCAATTC
Found at i:35312476 original size:41 final size:41
Alignment explanation
Indices: 35312419--35312639 Score: 194
Period size: 41 Copynumber: 5.4 Consensus size: 41
35312409 ACCAGAGTGT
* * *
35312419 AAACAGAGGCACGTAAGTGCAATTGT-GGTGTACCAAAGTAC
1 AAACAGGGGCATGTAAGTGCAATT-TAGGTGTACCGAAGTAC
* * * *
35312460 AAACTGGAGCATGTAAGTGCAATTTAGGGGTACCGAGGTAC
1 AAACAGGGGCATGTAAGTGCAATTTAGGTGTACCGAAGTAC
** * * *
35312501 AAACAGGGGCACATAAGTGCAATTCAGGAGTACCGAAGTAG
1 AAACAGGGGCATGTAAGTGCAATTTAGGTGTACCGAAGTAC
* * *
35312542 AAACAGGGGCATGTAAATGCAATTTAAGTGTATCGAAGTAC
1 AAACAGGGGCATGTAAGTGCAATTTAGGTGTACCGAAGTAC
* * ** * *
35312583 AAACTGGGGTACATAAGTGTAATTCAAGG-GTACCGAAGTAC
1 AAACAGGGGCATGTAAGTGCAATT-TAGGTGTACCGAAGTAC
* * *
35312624 AGACAAGGGCACGTAA
1 AAACAGGGGCATGTAA
35312640 CAATAATTCA
Statistics
Matches: 141, Mismatches: 37, Indels: 4
0.77 0.20 0.02
Matches are distributed among these distances:
40 1 0.01
41 138 0.98
42 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.19
Consensus pattern (41 bp):
AAACAGGGGCATGTAAGTGCAATTTAGGTGTACCGAAGTAC
Found at i:35312634 original size:82 final size:82
Alignment explanation
Indices: 35312419--35312639 Score: 239
Period size: 82 Copynumber: 2.7 Consensus size: 82
35312409 ACCAGAGTGT
* * ** * * * *
35312419 AAACAGAGGCACGTAAGTGCAATTGTGGTGTACCAAAGTACAAAC-TGGAGCATGTAAGTGCAAT
1 AAACAGGGGCACATAAGTGCAATTCAGGAGTACCGAAGTACAAACAAGG-GCATGTAAATGCAAT
* *
35312483 TTAGGGGTACCGAGGTAC
65 TTAAGGGTACCGAAGTAC
* *
35312501 AAACAGGGGCACATAAGTGCAATTCAGGAGTACCGAAGTAGAAACAGGGGCATGTAAATGCAATT
1 AAACAGGGGCACATAAGTGCAATTCAGGAGTACCGAAGTACAAACAAGGGCATGTAAATGCAATT
* *
35312566 TAAGTGTATCGAAGTAC
66 TAAGGGTACCGAAGTAC
* * * * *
35312583 AAACTGGGGTACATAAGTGTAATTCAAGG-GTACCGAAGTACAGACAAGGGCACGTAA
1 AAACAGGGGCACATAAGTGCAATTC-AGGAGTACCGAAGTACAAACAAGGGCATGTAA
35312640 CAATAATTCA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
82 112 0.96
83 5 0.04
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.19
Consensus pattern (82 bp):
AAACAGGGGCACATAAGTGCAATTCAGGAGTACCGAAGTACAAACAAGGGCATGTAAATGCAATT
TAAGGGTACCGAAGTAC
Found at i:35317594 original size:253 final size:253
Alignment explanation
Indices: 35317130--35317597 Score: 731
Period size: 253 Copynumber: 1.8 Consensus size: 253
35317120 AAATACATTT
35317130 TTTTATCTTTAATTTCTCACTTTTCCTTTACATAAATTTTCATATTCTTTTGCTCAAAATTTATT
1 TTTTATCTTTAATTTCTCACTTTTCCTTTACATAAATTTTCATATTCTTTTGCTCAAAATTTATT
* * * * *
35317195 TGTTGAATCCCGAACCCGAATTCCACCCTGTTCAATTCGTTCTTCGTATTGTTTTAGCGTAACAC
66 TGTTGAATCCCAAACCCGAATTCCACCCCGTTCAATTCATTCTTCATATTGTTTTAACGTAACAC
* *
35317260 CGTCAAAATCCGTTTCTAACATGCCAATATCAGTAAGAATTATTACTTTTATTTTCGTAGAACAC
131 AGTCAAAATCCGTTTCTAACATGCCAATATCAGTAAGAATTATTACTTTTATTCTCGTAGAACAC
35317325 TAACATTCTAAAATAAATAACGTTATTTCCAATCTTTTAATCAATTTCGTAAAACATA
196 TAACATTCTAAAATAAATAACGTTATTTCCAATCTTTTAATCAATTTCGTAAAACATA
* *
35317383 TTTTATCCTTT-ATTTCTCACTTTTCCTTTTCATAAATTTTCATATTGTTTTGCTCAAAATTTAT
1 TTTTAT-CTTTAATTTCTCACTTTTCCTTTACATAAATTTTCATATTCTTTTGCTCAAAATTTAT
* * *
35317447 TTGTTGAATCCTAAACCCGAATTCCACCCCGTTCAATTTATTCTTCATATTTTTTTAACGTAACA
65 TTGTTGAATCCCAAACCCGAATTCCACCCCGTTCAATTCATTCTTCATATTGTTTTAACGTAACA
*** * * * *
35317512 CAGTCAAAATTTTTTTCTAACGTGCCAATATCGGTAAGAATTCTTACTTTTATTCTCGTAGAACC
130 CAGTCAAAATCCGTTTCTAACATGCCAATATCAGTAAGAATTATTACTTTTATTCTCGTAGAACA
* *
35317577 CTAGCATTCTGAAATAAATAA
195 CTAACATTCTAAAATAAATAA
35317598 TGTTCTTGTT
Statistics
Matches: 193, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
253 189 0.98
254 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (253 bp):
TTTTATCTTTAATTTCTCACTTTTCCTTTACATAAATTTTCATATTCTTTTGCTCAAAATTTATT
TGTTGAATCCCAAACCCGAATTCCACCCCGTTCAATTCATTCTTCATATTGTTTTAACGTAACAC
AGTCAAAATCCGTTTCTAACATGCCAATATCAGTAAGAATTATTACTTTTATTCTCGTAGAACAC
TAACATTCTAAAATAAATAACGTTATTTCCAATCTTTTAATCAATTTCGTAAAACATA
Found at i:35326350 original size:3 final size:3
Alignment explanation
Indices: 35326344--35326378 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
35326334 CTCTTATTAT
35326344 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
35326379 TTATTATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:35338992 original size:51 final size:51
Alignment explanation
Indices: 35338874--35338994 Score: 129
Period size: 51 Copynumber: 2.4 Consensus size: 51
35338864 GAAGGCAACA
* *
35338874 AATCCTATCTCAT-TGGCGTTACAGTGGAATAGATTAAAGTAAAAGGTAGCG
1 AATCTTATCTC-TCTGGCGTTACAGTGGAACAGATTAAAGTAAAAGGTAGCG
* * * * * * *
35338925 AATCTTGTTTCCCTGGCGTTGCAGTGGAGCAGATTAAAGCT-GAAGGTAGTG
1 AATCTTATCTCTCTGGCGTTACAGTGGAACAGATTAAAG-TAAAAGGTAGCG
35338976 AATCTTATCTCTCTGGCGT
1 AATCTTATCTCTCTGGCGT
35338995 AGATTAAAGA
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
51 55 0.98
52 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
AATCTTATCTCTCTGGCGTTACAGTGGAACAGATTAAAGTAAAAGGTAGCG
Found at i:35339191 original size:128 final size:128
Alignment explanation
Indices: 35339012--35339246 Score: 298
Period size: 128 Copynumber: 1.8 Consensus size: 128
35339002 AGATGGCGAA
* * * * *
35339012 TCTTATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCAAATAATCCTATCTCCCTGAAATTACA
* *
35339077 GTGGAGC-GAGTT-AAAATCAC-AAGTCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCCA
66 GTGGAGCAGA-TTGAAAA-AACTAA-TCCTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCCA
35339139 G
128 G
* * * * *
35339140 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-TAAATCGATCTTATCTCCCTGAAATTAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCAAAT-AATCCTATCTCCCTGAAATTAC
35339204 AGTGGAGCAGATTGAAAAAACTAATCCTATCTCTCTGAAGTTG
65 AGTGGAGCAGATTGAAAAAACTAATCCTATCTCTCTGAAGTTG
35339247 TAGTGGAGCG
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
127 3 0.03
128 80 0.88
129 8 0.09
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (128 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCAAATAATCCTATCTCCCTGAAATTACA
GTGGAGCAGATTGAAAAAACTAATCCTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCCAG
Found at i:35339195 original size:44 final size:42
Alignment explanation
Indices: 35339010--35339457 Score: 268
Period size: 44 Copynumber: 10.6 Consensus size: 42
35339000 AAAGATGGCG
* *
35339010 AATCTTATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAGCCAAT-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAA---AATC
* *
35339054 AATCCTATCTCCCTGAAGTTGCAGTGGAGC-GA-GTTAAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATG-AAAAAT--C
* * *
35339097 AAGTCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCG---CATCC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-GAAAAAT-C
*
35339138 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAATC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAA-AAATC
* * ** *
35339182 GATCTTATCTCCCTGAAATTATAGTGGAGCAGATTGAAAAAAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAAAATC
* * * *
35339225 TAATCCTATCTCTCTGAAGTTGTAGTGGAGCGGATG-AAAATC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAAATC
** * *
35339267 -A-CAGATCT---T-AAGTTGCAG-AGAGCAGATCG---CATC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-GAAAAATC
* * * *
35339300 AAGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAATGAACC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAA-AAATC
* *
35339345 AATCTTATCTCCCTGAAGTTGCAGTCGAACAGATTGAAGAAA-C
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAA-AAATC
* * * *
35339388 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGATG
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAA--ATC
* *
35339433 GATCTTATCTCTCTGAAGTTGCAGT
1 AATCTTATCTCCCTGAAGTTGCAGT
35339458 AGAATAGATC
Statistics
Matches: 320, Mismatches: 51, Indels: 66
0.73 0.12 0.15
Matches are distributed among these distances:
33 3 0.01
34 8 0.03
35 9 0.03
36 6 0.02
39 6 0.02
40 34 0.11
41 19 0.06
42 11 0.03
43 20 0.06
44 197 0.62
45 6 0.02
46 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (42 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAAATC
Found at i:35339352 original size:163 final size:168
Alignment explanation
Indices: 35339010--35339428 Score: 566
Period size: 163 Copynumber: 2.5 Consensus size: 168
35339000 AAAGATGGCG
* *
35339010 AATCTTATCTCCCTGAAGTTGCAGTGGAGCTGATT-AAAGCCAA-TAATCCTATCTCCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA--AAACTAATCCTATCTCCCTGAAGT
35339073 TGCAGTGGAGC-GAGTTAAAATCACAAGTCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATC
64 TGCAGTGGAGCGGA-TTAAAATCACAAG---TA-CTCTCTGAAGTTGCAGAGAGCAGATCGCATC
* * * *
35339137 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAATC
124 AAGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAATAAACC
* * ** *
35339182 GATCTTATCTCCCTGAAATTATAGTGGAGCAGATTGAAAAAACTAATCCTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAAACTAATCCTATCTCCCTGAAGTTG
* *
35339247 TAGTGGAGCGGATGAAAATCAC-AG-A-TCT-T-AAGTTGCAGAGAGCAGATCGCATCAAGTCTT
66 CAGTGGAGCGGATTAAAATCACAAGTACTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTT
*
35339307 ATCTCCCTAAAGTTGCAGTAGAGCAGACTGAATGAACC
131 ATCTCCCTAAAGTTGCAGTAGAGCAGACTGAATAAACC
* * *
35339345 AATCTTATCTCCCTGAAGTTGCAGTCGAACAGATTGAAGAAACTAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAAACTAATCCTATCTCCCTGAAGTTG
35339410 CAGTGGAGCGGATTAAAAT
66 CAGTGGAGCGGATTAAAAT
35339429 GATGGATCTT
Statistics
Matches: 220, Mismatches: 24, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
163 138 0.63
164 1 0.00
165 3 0.01
167 1 0.00
171 4 0.02
172 68 0.31
173 5 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (168 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAAACTAATCCTATCTCCCTGAAGTTG
CAGTGGAGCGGATTAAAATCACAAGTACTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTT
ATCTCCCTAAAGTTGCAGTAGAGCAGACTGAATAAACC
Found at i:35340409 original size:29 final size:29
Alignment explanation
Indices: 35340367--35340424 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
35340357 AAAAGAAAAA
35340367 AGAAGACTTACCTGTGGTTTTGTGACACC
1 AGAAGACTTACCTGTGGTTTTGTGACACC
35340396 AGAAGACTTACCTGTGGTTTTGTGACACC
1 AGAAGACTTACCTGTGGTTTTGTGACACC
35340425 CCGCCTTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (29 bp):
AGAAGACTTACCTGTGGTTTTGTGACACC
Found at i:35341042 original size:3 final size:3
Alignment explanation
Indices: 35341034--35341075 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
35341024 TTTAATACTC
* *
35341034 TTA TTA TTA TTA CTA TTA TAA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35341076 CTACTACTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:35341080 original size:3 final size:3
Alignment explanation
Indices: 35341074--35341120 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
35341064 TTATTATTAT
* * *
35341074 TAC TAC TAC TAC TAC TAC TAT TAC TAC TAA TAC TAC TAA TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
35341121 TTATTAGTAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (3 bp):
TAC
Found at i:35341345 original size:85 final size:85
Alignment explanation
Indices: 35341259--35341418 Score: 243
Period size: 85 Copynumber: 1.9 Consensus size: 85
35341249 AATGAATTAT
* * *
35341259 TTTATATT-TTTTATGTTAATCAAATAGAATTTACCTTTTTTAAA-TAGTTTTCTTTTATAATAC
1 TTTAGATTGTTTTATGTTAATCAAATAGAATTTA-CTTTTTTAAAGTAGTGTTATTTTATAATAC
35341322 GTAATTTATATCTATTACCTA
65 GTAATTTATATCTATTACCTA
* * *
35341343 TTTAGATTGTTTTATGTTAATCCAATAGAATTTATTTTTTTAAAGTGGTGTTATTTTATAATACG
1 TTTAGATTGTTTTATGTTAATCAAATAGAATTTACTTTTTTAAAGTAGTGTTATTTTATAATACG
35341408 TAATTTATATC
66 TAATTTATATC
35341419 AAATTATTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
84 16 0.24
85 52 0.76
ACGTcount: A:0.31, C:0.07, G:0.08, T:0.53
Consensus pattern (85 bp):
TTTAGATTGTTTTATGTTAATCAAATAGAATTTACTTTTTTAAAGTAGTGTTATTTTATAATACG
TAATTTATATCTATTACCTA
Found at i:35345654 original size:34 final size:36
Alignment explanation
Indices: 35345599--35345691 Score: 122
Period size: 34 Copynumber: 2.7 Consensus size: 36
35345589 TATAATTTGA
* * *
35345599 AATAAAATACTTTAATTTAATTTAATATAAAA-A-T
1 AATAAAATATTTTAATATAATTTAAAATAAAATATT
35345633 AA-AATAATATTTTAATATAATTTAAAATAAAATATT
1 AATAA-AATATTTTAATATAATTTAAAATAAAATATT
35345669 AATAAAATATTTT-ATATAATTTA
1 AATAAAATATTTTAATATAATTTA
35345692 GACTAAATGA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
33 2 0.04
34 26 0.50
35 11 0.21
36 11 0.21
37 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (36 bp):
AATAAAATATTTTAATATAATTTAAAATAAAATATT
Found at i:35362502 original size:17 final size:18
Alignment explanation
Indices: 35362471--35362505 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
35362461 ATAAAAAATA
*
35362471 ATAAAAATAATAATTTAG
1 ATAAAAATAAGAATTTAG
35362489 ATAAAAAT-AGAATTTAG
1 ATAAAAATAAGAATTTAG
35362506 GAAAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (18 bp):
ATAAAAATAAGAATTTAG
Found at i:35381254 original size:34 final size:34
Alignment explanation
Indices: 35381211--35381278 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
35381201 ATAAAAGTCC
35381211 ATCTACCTTTATTTTGGATCGGTGGGAATTCAAA
1 ATCTACCTTTATTTTGGATCGGTGGGAATTCAAA
35381245 ATCTACCTTTATTTTGGATCGGTGGGAATTCAAA
1 ATCTACCTTTATTTTGGATCGGTGGGAATTCAAA
35381279 CTTCCATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (34 bp):
ATCTACCTTTATTTTGGATCGGTGGGAATTCAAA
Found at i:35399691 original size:50 final size:49
Alignment explanation
Indices: 35399632--35399968 Score: 192
Period size: 50 Copynumber: 6.8 Consensus size: 49
35399622 TCGAGGAAGC
* *
35399632 AAGATTCGTTGTTGTAGCTTCAATCTGTTCCACTACACCGCCTGGGGAGT
1 AAGATTCGTTGTTGTAGCTTTAATCTGTTCCACTGCACCGCC-GGGGAGT
* ** * * *
35399682 AAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGC-CATGTCGGGGAAGC
1 AAGATTCGTTGTTGTAGCTTTAATCTGTTCCACTGCAC-CGCCGGGG-AGT
*** * * *
35399732 AAGATTCACCGTTGTGGCGTTAATCTGTTCCACTGCACCGCCAGGGAAGT
1 AAGATTCGTTGTTGTAGCTTTAATCTGTTCCACTGCACCGCC-GGGGAGT
* * ** * ** * * *
35399782 AAGATTCGTTGTTGTCGCTTTAATCTTTTTAAATGCAATGTCAGGGAAGC
1 AAGATTCGTTGTTGTAGCTTTAATCTGTTCCACTGCACCG-CCGGGGAGT
* * ** * * * * *
35399832 AAGGTTTG-CCTTGTGGCGTTAATCTGTTCCACTGCACCGCTTGAGAAGT
1 AAGATTCGTTGTTGTAGCTTTAATCTGTTCCACTGCACCGC-CGGGGAGT
* * ** ** * *
35399881 AAGATTCGTTGTGGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGA
1 AAGATTCGTTGTTGTAGCTTTAATCTGTTCCACTGCACCGCCGGGG-AGT
* * * *
35399931 AAGGTTCGTCGTTGTGGCGTTAATCTGTTCCACTGCAC
1 AAGATTCGTTGTTGTAGCTTTAATCTGTTCCACTGCAC
35399969 TGCTTGAGAA
Statistics
Matches: 205, Mismatches: 74, Indels: 16
0.69 0.25 0.05
Matches are distributed among these distances:
48 1 0.00
49 39 0.19
50 160 0.78
51 5 0.02
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.34
Consensus pattern (49 bp):
AAGATTCGTTGTTGTAGCTTTAATCTGTTCCACTGCACCGCCGGGGAGT
Found at i:35399733 original size:100 final size:100
Alignment explanation
Indices: 35399599--35400268 Score: 862
Period size: 100 Copynumber: 6.7 Consensus size: 100
35399589 TTACTCGTTA
* * ** * * ** *
35399599 CTTTAATATGTTTAACTGTGATGTCGAGGAAGCAAGATTCGTTGTTGTAGC-TTCAATCTGTTCC
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTT-AATCTGTTCC
* * * * *
35399663 ACTACACCGCCTGGGGAGTAAGATTCGTTGTTGTAG
65 ACTGCACCGCTTGAGAAGTAAGATTCGTTGTGGTAG
* * *
35399699 CTTTAATCTTTTTAACTGCCATGTCGGGGAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
** * * *
35399764 CTGCACCGCCAGGGAAGTAAGATTCGTTGTTGTCG
66 CTGCACCGCTTGAGAAGTAAGATTCGTTGTGGTAG
* * *
35399799 CTTTAATCTTTTTAAATGCAATGTCAGGGAAGCAAGGTTTGCC-TTGTGGCGTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
35399863 CTGCACCGCTTGAGAAGTAAGATTCGTTGTGGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCGTTGTGGTAG
* *
35399898 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGAAAGGTTCGTCGTTGTGGCGTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
* *
35399963 CTGCACTGCTTGAGAAGTAAGATT-TTCTGTGGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCGT-TGTGGTAG
*
35399998 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTTTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
* ** *
35400063 CTACACCGCTTGAGAAGTAAGATTCACTGCGGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCGTTGTGGTAG
*
35400098 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTATTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
* * * *
35400163 CTGCACCGCTTGACAAGTAAGATTCGCTGTTGTGG
66 CTGCACCGCTTGAGAAGTAAGATTCGTTGTGGTAG
* * * * * *
35400198 CTTTAATCATTTTAACGGCAATGTCGAGGAAGC-AGGATTCACCGTTGTGGCTTTCATCTTGTTC
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGG-TTCGCCGTTGTGGCGTTAATC-TGTTC
*
35400262 CATTGCA
64 CACTGCA
35400269 TTGTCAGGGA
Statistics
Matches: 510, Mismatches: 54, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
99 93 0.18
100 405 0.79
101 12 0.02
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (100 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
CTGCACCGCTTGAGAAGTAAGATTCGTTGTGGTAG
Found at i:35400004 original size:50 final size:50
Alignment explanation
Indices: 35399850--35400210 Score: 201
Period size: 50 Copynumber: 7.2 Consensus size: 50
35399840 CCTTGTGGCG
* *
35399850 TTAATCTGTTCCACTGCACCGCTTGAGAAGTAAGATTCGT-TGTGGTAGCT
1 TTAATCTTTTCCACTGCACTGCTTGAGAAGTAAGATTC-TCTGTGGTAGCT
** * * * * * * * *
35399900 TTAATCTTTTTAACTGCAATG-TCGGGGAAGAAAGGTTCGTC-GTTGTGGCG
1 TTAATCTTTTCCACTGCACTGCT-TGAGAAGTAAGATTC-TCTGTGGTAGCT
* *
35399950 TTAATCTGTTCCACTGCACTGCTTGAGAAGTAAGATTTTCTGTGGTAGCT
1 TTAATCTTTTCCACTGCACTGCTTGAGAAGTAAGATTCTCTGTGGTAGCT
** * * * * * * * * * *
35400000 TTAATCTTTTTAACTGCAATG-TCGGGGAAGCAAGGTTCGCCGTTGTGGCG
1 TTAATCTTTTCCACTGCACTGCT-TGAGAAGTAAGATTCTCTGTGGTAGCT
* * * *
35400050 TTAATCTTTTCCACTACACCGCTTGAGAAGTAAGATTCACTGCGGTAGCT
1 TTAATCTTTTCCACTGCACTGCTTGAGAAGTAAGATTCTCTGTGGTAGCT
** * * * * * * * * * *
35400100 TTAATCTTTTTAACTGCAATG-TCGGGGAAGCAAGGTTCGCCGTTGTGGCG
1 TTAATCTTTTCCACTGCACTGCT-TGAGAAGTAAGATTCTCTGTGGTAGCT
* * * * * *
35400150 TTAATCTATTCCACTGCACCGCTTGACAAGTAAGATTCGCTGTTGTGGCT
1 TTAATCTTTTCCACTGCACTGCTTGAGAAGTAAGATTCTCTGTGGTAGCT
35400200 TTAATCATTTT
1 TTAATC-TTTT
35400211 AACGGCAATG
Statistics
Matches: 221, Mismatches: 81, Indels: 17
0.69 0.25 0.05
Matches are distributed among these distances:
49 5 0.02
50 210 0.95
51 6 0.03
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (50 bp):
TTAATCTTTTCCACTGCACTGCTTGAGAAGTAAGATTCTCTGTGGTAGCT
Found at i:35401944 original size:15 final size:15
Alignment explanation
Indices: 35401926--35401960 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
35401916 CATTTTTTTA
35401926 TTTTTAATTTTCACT
1 TTTTTAATTTTCACT
* *
35401941 TTTTCATTTTTCACT
1 TTTTTAATTTTCACT
35401956 TTTTT
1 TTTTT
35401961 TTGACTCGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTAATTTTCACT
Found at i:35402819 original size:8 final size:8
Alignment explanation
Indices: 35402806--35402845 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
35402796 TGACCTCTCC
35402806 TTTTTCTT
1 TTTTTCTT
35402814 TTTTTCTT
1 TTTTTCTT
35402822 TTTTTC--
1 TTTTTCTT
35402828 TTTTTCTT
1 TTTTTCTT
35402836 TTTTTCTT
1 TTTTTCTT
35402844 TT
1 TT
35402846 ATTTTTGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.20
8 24 0.80
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTCTT
Found at i:35402851 original size:14 final size:14
Alignment explanation
Indices: 35402805--35402845 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
35402795 TTGACCTCTC
35402805 CTTTTTCTT-TTTTT
1 CTTTTT-TTCTTTTT
35402819 CTTTTTTTCTTTTT
1 CTTTTTTTCTTTTT
35402833 CTTTTTTTCTTTT
1 CTTTTTTTCTTTT
35402846 ATTTTTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 2 0.08
14 24 0.92
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
CTTTTTTTCTTTTT
Found at i:35402870 original size:30 final size:31
Alignment explanation
Indices: 35402836--35402894 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
35402826 TCTTTTTCTT
35402836 TTTTTCTTTTATTTT-TGATTTTG-ATTTTGA
1 TTTTTCTTTT-TTTTGTGATTTTGAATTTTGA
*
35402866 TTTTTCTTTTTTTTGTTATTTTGAATTTT
1 TTTTTCTTTTTTTTGTGATTTTGAATTTT
35402895 TTGAATTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 4 0.15
30 17 0.65
31 5 0.19
ACGTcount: A:0.12, C:0.03, G:0.08, T:0.76
Consensus pattern (31 bp):
TTTTTCTTTTTTTTGTGATTTTGAATTTTGA
Found at i:35403610 original size:35 final size:35
Alignment explanation
Indices: 35403570--35403648 Score: 142
Period size: 35 Copynumber: 2.3 Consensus size: 35
35403560 GAATAAATTC
35403570 ATGAATAATTATTTGTACCATATGATTATGAATGA
1 ATGAATAATTATTTGTACCATATGATTATGAATGA
*
35403605 ATGAATAATAATTTGTACCATATGATTATGAATGA
1 ATGAATAATTATTTGTACCATATGATTATGAATGA
35403640 AT-AATAATT
1 ATGAATAATT
35403649 TGGAAGAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
34 6 0.14
35 36 0.86
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (35 bp):
ATGAATAATTATTTGTACCATATGATTATGAATGA
Found at i:35418338 original size:84 final size:84
Alignment explanation
Indices: 35418187--35418348 Score: 216
Period size: 84 Copynumber: 1.9 Consensus size: 84
35418177 ACTTTCATCA
* * * *
35418187 TAGGTAAGACAATGTTAGAGATAAGGTCAGAATCCAATTTTGGATGACCCTATGACACACTTACA
1 TAGGTAAGACAATGTCAGAGATAAGGTCAGAATCCAATTTCGGACGACCCTATAACACACTTACA
*
35418252 ACAGCACAAGTATTTCACC
66 ACAACACAAGTATTTCACC
* * * * * * *
35418271 TAGGTAAGATAATGTCAGAGGTAAGGTTAGAATCCAATTTCGGACGATCCTGTAACATACTTGCA
1 TAGGTAAGACAATGTCAGAGATAAGGTCAGAATCCAATTTCGGACGACCCTATAACACACTTACA
35418336 ACAACACAAGTAT
66 ACAACACAAGTAT
35418349 GTGGAGCGTC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
84 66 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (84 bp):
TAGGTAAGACAATGTCAGAGATAAGGTCAGAATCCAATTTCGGACGACCCTATAACACACTTACA
ACAACACAAGTATTTCACC
Found at i:35419263 original size:41 final size:41
Alignment explanation
Indices: 35419206--35419288 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
35419196 ACCTTCCTCT
35419206 ACATAGACAATCTGGGTATATAACTCTAATATAGCATTTCC
1 ACATAGACAATCTGGGTATATAACTCTAATATAGCATTTCC
35419247 ACATAGACAATCTGGGTATATAACTCTAATATAGCATTTCC
1 ACATAGACAATCTGGGTATATAACTCTAATATAGCATTTCC
35419288 A
1 A
35419289 GTTGAGCAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.31
Consensus pattern (41 bp):
ACATAGACAATCTGGGTATATAACTCTAATATAGCATTTCC
Found at i:35427389 original size:26 final size:27
Alignment explanation
Indices: 35427333--35427418 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
35427323 ATAAAAGTCG
* * * *
35427333 TTGTGGCGAACCATGAAAATAAAGGCG
1 TTGTGGTGAACCATGAAAAGAAAGCCC
35427360 TTGTGGTGAACCATG-AAAGAAAGCCC
1 TTGTGGTGAACCATGAAAAGAAAGCCC
*
35427386 TTGTGGTGAACCATGAAAAGAAAGCCT
1 TTGTGGTGAACCATGAAAAGAAAGCCC
35427413 TTGTGG
1 TTGTGG
35427419 CAAATCTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
26 23 0.43
27 30 0.57
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (27 bp):
TTGTGGTGAACCATGAAAAGAAAGCCC
Found at i:35427594 original size:27 final size:27
Alignment explanation
Indices: 35427508--35427594 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
35427498 CCTCTGTGGA
* * * * *
35427508 GAACTCTAAAAGAATAGTACTCATAGT
1 GAACTATAAAGGAATGGTACTCATGGC
**
35427535 GAACCCTAAAGGAATGGTACTCATGGC
1 GAACTATAAAGGAATGGTACTCATGGC
*
35427562 GAACTATAAAGGAATGGTATTCATGGC
1 GAACTATAAAGGAATGGTACTCATGGC
35427589 GAACTA
1 GAACTA
35427595 CGAAAGAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (27 bp):
GAACTATAAAGGAATGGTACTCATGGC
Found at i:35434343 original size:12 final size:13
Alignment explanation
Indices: 35434319--35434347 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
35434309 ATTGAAGCCT
35434319 TTTTCTCTTTTTC
1 TTTTCTCTTTTTC
35434332 TTTTCT-TTTTTC
1 TTTTCTCTTTTTC
35434344 TTTT
1 TTTT
35434348 ATTAATTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTCTTTTTC
Done.