Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 616 of 770
Found at i:192884052 original size:27 final size:27
Alignment explanation
Indices: 192884022--192884095 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
192884012 GGGTATTTCG
*
192884022 GTCATTTTATCTCATAAGGGCAAAATT
1 GTCATTTTATCTCATAAGGGCAAAATA
*
192884049 GTCATTTTATCACATAAGGGCAAAATA
1 GTCATTTTATCTCATAAGGGCAAAATA
*
192884076 GTCATTTTGTCTCATAAGGG
1 GTCATTTTATCTCATAAGGG
192884096 TTCAGGTACA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTATCTCATAAGGGCAAAATA
Found at i:192888409 original size:107 final size:109
Alignment explanation
Indices: 192888267--192888463 Score: 292
Period size: 107 Copynumber: 1.8 Consensus size: 109
192888257 ATCCTTTTGA
* * *
192888267 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCCTACATGATAGCCTTGCCTTA-GAAACCTCACCAA
192888330 -TGCCATGCCTTGGCATGGTCTTACATGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGACCTTTGCCTTATAGT
* ** *
192888374 AACTTATCAATGCCATGTCTTGACATGGTCCTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCCTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
*
192888439 TTCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
192888464 CGGTATCCTT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
106 1 0.01
107 47 0.59
108 7 0.09
109 24 0.30
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTTGACATGGTCCTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGACCTTTGCCTTATAGT
Found at i:192890048 original size:40 final size:40
Alignment explanation
Indices: 192890003--192890169 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
192889993 CGGAATATAA
192890003 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
192890043 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
192890083 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
192890123 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
192890162 CCGGATAT
1 CCGGATAT
192890170 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:192890153 original size:80 final size:79
Alignment explanation
Indices: 192890019--192890169 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
192890009 ATAATCACGT
*
192890019 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
192890084 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
192890099 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
192890162 CCGGATAT
64 CCGGATAT
192890170 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:192898050 original size:40 final size:39
Alignment explanation
Indices: 192898005--192898170 Score: 172
Period size: 40 Copynumber: 4.2 Consensus size: 39
192897995 CGGAATATAA
192898005 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
192898045 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
** * *
192898084 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
192898124 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
192898163 CCGGATAT
1 CCGGATAT
192898171 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:192898127 original size:79 final size:79
Alignment explanation
Indices: 192898021--192898170 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
192898011 ATAATCACGT
*
192898021 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAAC-CAGCA-GAATTGCCTTCGGGCTTAGC
192898084 CCGGATATAGCCACTA
64 CCGGATATAGCCACTA
* * ** * *
192898100 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
192898165 GGATAT
66 GGATAT
192898171 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:192902399 original size:40 final size:40
Alignment explanation
Indices: 192902337--192902557 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
192902327 ATTCGGATTG
192902337 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
192902377 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
192902417 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
192902457 ACAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
192902497 ATAACCGGGCTAAGT-CCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
192902536 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
192902558 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
38 8 0.05
39 31 0.19
40 124 0.76
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.21
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:192904767 original size:13 final size:13
Alignment explanation
Indices: 192904749--192904774 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
192904739 ATTTTTATTT
192904749 TTAACATAAAATA
1 TTAACATAAAATA
192904762 TTAACATAAAATA
1 TTAACATAAAATA
192904775 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:192912146 original size:40 final size:40
Alignment explanation
Indices: 192912077--192912282 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
192912067 AACCCAAGTA
* * *
192912077 CCTTCGAGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
192912116 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
192912156 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
192912196 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
192912236 CCTTCGGGACTTAGCCTGGATATAGTCACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
192912276 CCTTCGG
1 CCTTCGG
192912283 ATCTTAGTTC
Statistics
Matches: 157, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 12 0.08
40 145 0.92
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:192913821 original size:13 final size:13
Alignment explanation
Indices: 192913803--192913828 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
192913793 ATTTTTATTT
192913803 TTAACATAAAATA
1 TTAACATAAAATA
192913816 TTAACATAAAATA
1 TTAACATAAAATA
192913829 ATTATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:192915443 original size:467 final size:467
Alignment explanation
Indices: 192914570--192915816 Score: 2329
Period size: 467 Copynumber: 2.7 Consensus size: 467
192914560 CAATAGCTGA
* *
192914570 GCTTGTCCATTCCTTATTTTAAATATTTTAAAGATTGAAAGTATATAGGCTGGAAACCTGACAGG
1 GCTTGTCCATTCCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGG
192914635 TTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATG
66 TTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATG
* *
192914700 AATCTTAAAAAATTCAAAAAGAATTGAAAACAGTTCTATCGCTATTGAATATTTATATAACCTTA
131 AATCTTAAAAAATTCAAGAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTA
192914765 ATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAAT
196 ATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAAT
*
192914830 GACTATTTTGTTATATTAATAATGTGTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGT
261 TACTATTTTGTTATATTAATAATGTGTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGT
192914895 TATAAATAATTTTTATCAAAATACTATTAATTATTATTTGAAGTATGAATAAGTATAAATAAGTT
326 TATAAATAATTTTTATCAAAATACTATTAATTATTATTTGAAGTATGAATAAGTATAAATAAGTT
192914960 TTTATATTTTGGTTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCA
391 TTTATATTTTGGTTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCA
192915025 TATATGTAGCTT
456 TATATGTAGCTT
* *
192915037 GCTTGTCCATTCCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTAATGGG
1 GCTTGTCCATTCCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGG
*
192915102 TTGCCTTTTATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATG
66 TTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATG
*
192915167 AATCTTAAAAAATTCAAGAAGAATTGAAAAAAGTTCCATCGCTATTGAATATTTATATAACCTTA
131 AATCTTAAAAAATTCAAGAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTA
*
192915232 ATTTAATTCCAATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAAT
196 ATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAAT
*
192915297 TACTATTTTGTTATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGT
261 TACTATTTTGTTATATTAATAATGTGTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGT
*
192915362 TATAAATAATTTTTATCAAAATAGC-ATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGT
326 TATAAATAATTTTTATCAAAATA-CTATTAATTATTATTTGAAGTATGAATAAGTATAAATAAGT
192915426 TTTTATATTTTGGTTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACC
390 TTTTATATTTTGGTTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACC
192915491 ATATATGTAGCTT
455 ATATATGTAGCTT
192915504 GCTTGTCCATTCCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGG
1 GCTTGTCCATTCCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGG
* *
192915569 TTGCCTTATATCGAGCTGCACGATATAATGGATCCTCCCTAGGTCTAACAACGCCACGTATGATG
66 TTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATG
*
192915634 AATCTTAAAAAATTCAAGAAGAATTG--AAAAGTTCTATTGCTATTGAATATTTATATAACCTTA
131 AATCTTAAAAAATTCAAGAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTA
192915697 ATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAAT
196 ATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAAT
192915762 TACTATTTTGTTATATTAATAATGTGTGATTTTAATATTTAATATTTTTAAATGT
261 TACTATTTTGTTATATTAATAATGTGTGATTTTAATATTTAATATTTTTAAATGT
192915817 ATTTGTATAA
Statistics
Matches: 758, Mismatches: 21, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
465 153 0.20
467 604 0.80
468 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (467 bp):
GCTTGTCCATTCCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGG
TTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATG
AATCTTAAAAAATTCAAGAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTA
ATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAAT
TACTATTTTGTTATATTAATAATGTGTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGT
TATAAATAATTTTTATCAAAATACTATTAATTATTATTTGAAGTATGAATAAGTATAAATAAGTT
TTTATATTTTGGTTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCA
TATATGTAGCTT
Found at i:192916855 original size:19 final size:19
Alignment explanation
Indices: 192916819--192916857 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
192916809 TTTTCATCAT
* *
192916819 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
192916838 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
192916857 A
1 A
192916858 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:192917394 original size:28 final size:28
Alignment explanation
Indices: 192917362--192917425 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
192917352 TTTACTAGAC
*
192917362 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATGACCATTA
*
192917390 TACCCCTATGTATGCAAAATGACCTTTA
1 TACCCCTATGTATGCAAAATGACCATTA
192917418 TACCCCTA
1 TACCCCTA
192917426 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACCATTA
Found at i:192917571 original size:28 final size:28
Alignment explanation
Indices: 192917531--192917621 Score: 146
Period size: 28 Copynumber: 3.2 Consensus size: 28
192917521 AGGAAGCGTC
192917531 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAATTATCTGTT
192917559 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAATTATCTGTT
* * *
192917587 CTGCTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCCCTGCCACAAATTATCTGT-T
192917616 CTGGTG
1 CTGGTG
192917622 ACTCTGTCAC
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 52 0.90
29 6 0.10
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (28 bp):
CTGGTGGCCCTGCCACAAATTATCTGTT
Found at i:192918114 original size:18 final size:18
Alignment explanation
Indices: 192918075--192918115 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
192918065 TAATAAGGCC
* *
192918075 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
192918093 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
192918111 TTTTA
1 TTTTA
192918116 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:192921584 original size:19 final size:19
Alignment explanation
Indices: 192921548--192921586 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
192921538 TTTTCATCAT
* *
192921548 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
192921567 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
192921586 A
1 A
192921587 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:192922070 original size:28 final size:28
Alignment explanation
Indices: 192922022--192922112 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
192922012 GTGACAGAGT
*
192922022 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
192922051 CACCAGAACAGATAATTTGTGGCAGAGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
192922079 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
192922107 CACCAG
1 CACCAG
192922113 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:192922264 original size:28 final size:28
Alignment explanation
Indices: 192922220--192922280 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
192922210 ATTAACCCTA
*
192922220 GGGTATAAAGGTCATTTTGCATACATAG
1 GGGTATAAAGGTAATTTTGCATACATAG
*
192922248 GGGTATAATGGTAATTTTGCATACATAG
1 GGGTATAAAGGTAATTTTGCATACATAG
192922276 GGGTA
1 GGGTA
192922281 GTCTAGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.33
Consensus pattern (28 bp):
GGGTATAAAGGTAATTTTGCATACATAG
Found at i:192923366 original size:12 final size:13
Alignment explanation
Indices: 192923347--192923379 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
192923337 GGGTTCAGCT
192923347 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
192923360 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
192923372 ATGGAGAA
1 ATGGAGAA
192923380 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:192930746 original size:27 final size:28
Alignment explanation
Indices: 192930690--192930759 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
192930680 AAATTTGTAC
192930690 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
192930718 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
192930745 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
192930760 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:192936730 original size:29 final size:28
Alignment explanation
Indices: 192936696--192936798 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
192936686 TACTCAATCA
*
192936696 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
192936725 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
192936754 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
192936783 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
192936799 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:192944740 original size:29 final size:28
Alignment explanation
Indices: 192944706--192944808 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
192944696 TACTCAATCA
*
192944706 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
192944735 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
192944764 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
192944793 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
192944809 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:192949336 original size:40 final size:40
Alignment explanation
Indices: 192949209--192949338 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
192949199 ATGCTGGAAA
* *
192949209 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
192949249 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
192949289 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
192949329 TTATATCCGG
1 TTATATCCGG
192949339 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:192950796 original size:48 final size:48
Alignment explanation
Indices: 192950740--192950889 Score: 228
Period size: 48 Copynumber: 3.1 Consensus size: 48
192950730 TTTATACGAA
* * * *
192950740 ATCACATATTGATGCCAACGTCATATCCCAAATATGGTCTTACATAGG
1 ATCACATATTGATGCCAATGCCATATCCCAGACATGGTCTTACATAGG
* * *
192950788 ATCACATATCGATGCCAATGCCATCTCCCAGACATGGTCTTACATGGG
1 ATCACATATTGATGCCAATGCCATATCCCAGACATGGTCTTACATAGG
*
192950836 ATCACATATTGATGCCAATGCCATGTCCCAGACATGGTCTTACATAGG
1 ATCACATATTGATGCCAATGCCATATCCCAGACATGGTCTTACATAGG
192950884 ATCACA
1 ATCACA
192950890 ATGCCATAGC
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (48 bp):
ATCACATATTGATGCCAATGCCATATCCCAGACATGGTCTTACATAGG
Found at i:192950910 original size:37 final size:37
Alignment explanation
Indices: 192950851--192950953 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
192950841 ATATTGATGC
*
192950851 CAATGCCAT-GTCCCAGAC-ATGGTCTTACATAGGATCA
1 CAATGCCATAG-CCCA-ACTATGGTCTTACATAGCATCA
** *
192950888 CAATGCCATAGCCCAACTATGGTCTTACATTTCATTA
1 CAATGCCATAGCCCAACTATGGTCTTACATAGCATCA
* *
192950925 CGATGCCATAGCCCAGCTATGGTCTTACA
1 CAATGCCATAGCCCAACTATGGTCTTACA
192950954 CGTACTCAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
36 2 0.03
37 55 0.95
38 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (37 bp):
CAATGCCATAGCCCAACTATGGTCTTACATAGCATCA
Found at i:192955219 original size:47 final size:46
Alignment explanation
Indices: 192954983--192955245 Score: 166
Period size: 47 Copynumber: 5.6 Consensus size: 46
192954973 ACTGTGAGCT
* * * * * *
192954983 AGTGTAAGTCATGTCTGGGACAT-GCATCGACCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGAACATGGCATCGACTATA-GATGATAGCC
*
192955029 AGTGTAAGACCATGTCTAGG-ACATGGCATC-AGC-ATCGAGATGAGTA-CT
1 AGTGTAAGA-CATGTCT-GGAACATGGCATCGA-CTAT--AGATGA-TAGCC
* * * * * * ** *
192955077 AGTGTAAGGCATGTCTGGGACATGCCTTGGTCTCGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGAACATGGCATCGACTATAGATGATAGCC
* *
192955123 AGTGTAAGACATGTCT-GAGACAT-GCATCGCCTACTAGATGATAGTC
1 AGTGTAAGACATGTCTGGA-ACATGGCATCGACTA-TAGATGATAGCC
*
192955169 AGTGTAAGACTATGTCTGGAAAATGGCATCGACT-TGAGAT-ATGAGCC
1 AGTGTAAGAC-ATGTCTGGAACATGGCATCGACTAT-AGATGAT-AGCC
*
192955216 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGAACATGGCATC
192955246 AGCACCTTAC
Statistics
Matches: 169, Mismatches: 29, Indels: 37
0.72 0.12 0.16
Matches are distributed among these distances:
45 8 0.05
46 57 0.34
47 70 0.41
48 32 0.19
49 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGAACATGGCATCGACTATAGATGATAGCC
Found at i:192955235 original size:140 final size:139
Alignment explanation
Indices: 192954983--192955240 Score: 312
Period size: 140 Copynumber: 1.8 Consensus size: 139
192954973 ACTGTGAGCT
* * *
192954983 AGTGTAAGTCATGTCTGGGACATGCATCGACCACATTATGAGAGCCAGTGTAAGACCATGTCTAG
1 AGTGTAAGACATGTCTGAGACATGCATCGACCACATGATGAGAGCCAGTGTAAGACCATGTCTAG
* * *
192955048 GACATGGCATCAGCATCGAGATGAGTACTAGTGTAAGGCATGTCTGGGACATGCCTTGGTCTCGA
66 GAAATGGCATCAGCATCGAGATGAG-ACCAGTGTAAGCCATGTCTGGGACATGCCTTGGTCTCGA
192955113 GATGTTAGCC
130 GATGTTAGCC
* * *
192955123 AGTGTAAGACATGTCTGAGACATGCATCG-CCTAC-TAGATGATAGTCAGTGTAAGACTATGTCT
1 AGTGTAAGACATGTCTGAGACATGCATCGACC-ACAT-GATGAGAGCCAGTGTAAGACCATGTCT
*
192955186 -GGAAAATGGCATC-G-ACTTGAGAT-ATGAGCCAGTGTAAGACCATGTCTGGGACATG
64 AGG-AAATGGCATCAGCA-TCGAGATGA-GA-CCAGTGTAAG-CCATGTCTGGGACATG
192955241 GCATCAGCAC
Statistics
Matches: 101, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
138 3 0.03
139 22 0.22
140 76 0.75
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (139 bp):
AGTGTAAGACATGTCTGAGACATGCATCGACCACATGATGAGAGCCAGTGTAAGACCATGTCTAG
GAAATGGCATCAGCATCGAGATGAGACCAGTGTAAGCCATGTCTGGGACATGCCTTGGTCTCGAG
ATGTTAGCC
Found at i:192958978 original size:17 final size:18
Alignment explanation
Indices: 192958936--192958984 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
192958926 AGTTGAAAAG
192958936 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
192958955 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
192958972 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
192958985 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:192959872 original size:40 final size:40
Alignment explanation
Indices: 192959806--192959972 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
192959796 AAATTGAATG
* * *
192959806 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
192959845 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
192959885 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
192959925 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
192959965 ATATCCGG
1 ATATCCGG
192959973 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:192966977 original size:17 final size:18
Alignment explanation
Indices: 192966935--192966983 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
192966925 AGTTGAAAAG
192966935 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
192966954 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
192966971 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
192966984 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:192967869 original size:40 final size:40
Alignment explanation
Indices: 192967803--192967969 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
192967793 AAATTGAATG
* * *
192967803 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
192967842 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
192967882 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
192967922 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
192967962 ATATCCGG
1 ATATCCGG
192967970 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:192971739 original size:40 final size:40
Alignment explanation
Indices: 192971681--192971793 Score: 115
Period size: 40 Copynumber: 2.9 Consensus size: 40
192971671 GGATATAGCG
* * * *
192971681 ACTCGCTCGATTGTCTTCGGGACATAGCCCGG-TTATAGTG
1 ACTCGCACAATTGCCTTCGGGACATAGCCCGGATT-TAGTA
*
192971721 ATTCGCACAATTGCCTTCGGGA-ATTAGCCCGGATTTAGTA
1 ACTCGCACAATTGCCTTCGGGACA-TAGCCCGGATTTAGTA
** *
192971761 ACTCGCACAAAAGCCTTCGGGACTTAG-CCGGAT
1 ACTCGCACAATTGCCTTCGGGACATAGCCCGGAT
192971794 ACCATTCGAA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
39 7 0.11
40 52 0.85
41 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.27
Consensus pattern (40 bp):
ACTCGCACAATTGCCTTCGGGACATAGCCCGGATTTAGTA
Found at i:192972512 original size:40 final size:40
Alignment explanation
Indices: 192972450--192972716 Score: 421
Period size: 40 Copynumber: 6.7 Consensus size: 40
192972440 CCAGCATGAT
* *
192972450 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
192972490 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
192972530 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
192972570 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
192972610 TGCTCTTCGGAACTTAGCCCGGATAC-TCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
192972649 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
192972689 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGAACTTAGCCCGGATACATC
192972717 GTCGAAACCT
Statistics
Matches: 211, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 39 0.18
40 172 0.82
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:192975334 original size:47 final size:47
Alignment explanation
Indices: 192975259--192975365 Score: 153
Period size: 47 Copynumber: 2.3 Consensus size: 47
192975249 CCCCTCGGGA
* * *
192975259 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
192975306 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
192975353 CTTATCACATATA
1 CTTATCACTTATA
192975366 CATCTCATAC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.04
47 52 0.96
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:192975417 original size:46 final size:46
Alignment explanation
Indices: 192975343--192975506 Score: 256
Period size: 46 Copynumber: 3.6 Consensus size: 46
192975333 CATCACATCG
* * * * * * *
192975343 GCCATTCGGCCTTATCACATATACATCTCATACATGTTTCATACTA
1 GCCATTTGGCTTTACCACACATATATCTCATACATATTTCACACTA
192975389 GCCATTTGGCTTTACCACACATATATCTCATACATATTTCACACTA
1 GCCATTTGGCTTTACCACACATATATCTCATACATATTTCACACTA
*
192975435 GCCATTTGGCTTTACCACACATATATCACATACATATTTCACACTA
1 GCCATTTGGCTTTACCACACATATATCTCATACATATTTCACACTA
192975481 GCCATTTGGCTTTACCACACATATAT
1 GCCATTTGGCTTTACCACACATATAT
192975507 ATATTTAACT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 110 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (46 bp):
GCCATTTGGCTTTACCACACATATATCTCATACATATTTCACACTA
Found at i:192983448 original size:26 final size:25
Alignment explanation
Indices: 192983419--192983477 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
192983409 ATTTACTAAA
*
192983419 ATACCCTAAGTATG-AAAATTACCATT
1 ATACCCT-AG-ATGCAAAATGACCATT
*
192983445 ATACCCCTAGGTGCAAAATGACCATT
1 ATA-CCCTAGATGCAAAATGACCATT
192983471 ATACCCT
1 ATACCCT
192983478 TAGGGTCCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 6 0.21
26 19 0.66
27 4 0.14
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (25 bp):
ATACCCTAGATGCAAAATGACCATT
Found at i:192983578 original size:28 final size:28
Alignment explanation
Indices: 192983538--192983621 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
192983528 GGAGGAAGCG
* *
192983538 TTCTGGTGGCTCTATCAGAAATATCTGT
1 TTCTGGTGGCTCTACCACAAATATCTGT
*
192983566 TTCTGGTGGCTCTACCACAAATATTTGT
1 TTCTGGTGGCTCTACCACAAATATCTGT
* * *
192983594 TTCTGGTGGCCCAACCACAATTATCTGT
1 TTCTGGTGGCTCTACCACAAATATCTGT
192983622 AGCTGGTGAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (28 bp):
TTCTGGTGGCTCTACCACAAATATCTGT
Found at i:192990205 original size:40 final size:40
Alignment explanation
Indices: 192990160--192990327 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
192990150 CGGAATACAA
192990160 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
192990200 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
192990240 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
* *** * ** * *
192990280 TCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
192990320 CCGGATAT
1 CCGGATAT
192990328 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:192997655 original size:40 final size:40
Alignment explanation
Indices: 192997600--192997809 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
192997590 AACATTGGAA
192997600 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
192997640 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
192997680 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
192997720 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
192997759 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
192997800 CTATATCCGG
1 ATATATCCGG
192997810 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:193006544 original size:20 final size:20
Alignment explanation
Indices: 193006519--193006556 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
193006509 GTTTATTCGC
*
193006519 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
193006539 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
193006557 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:193008217 original size:28 final size:28
Alignment explanation
Indices: 193008185--193008253 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
193008175 GCGTAGATCA
193008185 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
193008213 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
193008241 CGATA-TACCCCTA
1 CGAAATTACCCCTA
193008254 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:193014552 original size:20 final size:20
Alignment explanation
Indices: 193014527--193014564 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
193014517 GTTTATTCGC
*
193014527 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
193014547 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
193014565 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:193016236 original size:27 final size:28
Alignment explanation
Indices: 193016190--193016257 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
193016180 GCGTAGATCA
193016190 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
193016218 CGAAATTA-CCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
193016245 CGATA-TACCCCTA
1 CGAAATTACCCCTA
193016258 GGGTTTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 2 0.05
27 28 0.74
28 8 0.21
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:193018042 original size:6 final size:6
Alignment explanation
Indices: 193018012--193018117 Score: 72
Period size: 6 Copynumber: 17.3 Consensus size: 6
193018002 AAGAAACATT
* *
193018012 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * * * * *
193018060 ATTAGGT GTCAGA ATTAGA ATCAGT ATCAGT ATCAGGTA A-CAAA ATCAAA
1 ATCA-GA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
193018110 ATCAGA AT
1 ATCAGA AT
193018118 GTGAATGCAA
Statistics
Matches: 78, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
5 3 0.04
6 67 0.86
7 7 0.09
8 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:193018284 original size:27 final size:26
Alignment explanation
Indices: 193018236--193018295 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
193018226 GCGAGGCTGC
*
193018236 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
193018263 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
193018289 CAGATAT
1 CAGATAT
193018296 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:193018841 original size:27 final size:27
Alignment explanation
Indices: 193018558--193018828 Score: 344
Period size: 27 Copynumber: 10.0 Consensus size: 27
193018548 CTCTAGGGGA
* *
193018558 AAAATGGTAATTTTATAAATTGAGGGT
1 AAAATGGTAATTTTGTAAATCGAGGGT
* * *
193018585 AAAACGATAATTTTTTAAATCGAGGGT
1 AAAATGGTAATTTTGTAAATCGAGGGT
*** *
193018612 AAAACAATAATTCTGTAAATCGAGGGT
1 AAAATGGTAATTTTGTAAATCGAGGGT
* *
193018639 AAAATGGTAATTCTATAAATCGAGGGT
1 AAAATGGTAATTTTGTAAATCGAGGGT
*
193018666 AAAATAGTAATTTTGTAAATCGAGGGT
1 AAAATGGTAATTTTGTAAATCGAGGGT
* * *
193018693 AAAACGGTAAATTTGTAAATTGAGGGT
1 AAAATGGTAATTTTGTAAATCGAGGGT
** * *
193018720 AAAACAGTAATTTTGTAAATTGAGGGC
1 AAAATGGTAATTTTGTAAATCGAGGGT
* *
193018747 AAAACGGTAATTCTGTAAATCGAGGGT
1 AAAATGGTAATTTTGTAAATCGAGGGT
*
193018774 AAAATGGTAATTCTGTAAATCGAGGGT
1 AAAATGGTAATTTTGTAAATCGAGGGT
193018801 AAAATGGTAATTTTGTAAATCGAGGGT
1 AAAATGGTAATTTTGTAAATCGAGGGT
193018828 A
1 A
193018829 CTTTGGTAAT
Statistics
Matches: 217, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 217 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (27 bp):
AAAATGGTAATTTTGTAAATCGAGGGT
Found at i:193025509 original size:18 final size:19
Alignment explanation
Indices: 193025488--193025523 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
193025478 AATAAAGAAA
*
193025488 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
193025506 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
193025524 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:193028495 original size:28 final size:28
Alignment explanation
Indices: 193028426--193028526 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
193028416 GACAAGATTG
* * * *
193028426 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
193028456 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
193028484 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
193028513 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
193028527 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:193030025 original size:29 final size:29
Alignment explanation
Indices: 193029911--193030013 Score: 152
Period size: 29 Copynumber: 3.5 Consensus size: 29
193029901 GACAAGATTG
* * * *
193029911 GCACTAAGTGTGCGGGTTTAAAAATTGTATA
1 GCACTAAGTGTGCGAG-CTGAAAA-TATATA
193029942 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
193029971 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
193030000 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
193030014 GATTCACTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 48 0.71
30 5 0.07
31 15 0.22
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:193036257 original size:18 final size:19
Alignment explanation
Indices: 193036236--193036271 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
193036226 AATAAAGAAA
*
193036236 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
193036254 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
193036272 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:193037635 original size:59 final size:60
Alignment explanation
Indices: 193037539--193037671 Score: 205
Period size: 59 Copynumber: 2.2 Consensus size: 60
193037529 GACAAGATTG
* * *
193037539 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
* * *
193037599 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
193037658 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
193037672 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 52 0.78
60 15 0.22
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:193037683 original size:29 final size:29
Alignment explanation
Indices: 193037569--193037671 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
193037559 AAAATTGTAC
*
193037569 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
193037598 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
193037628 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
193037657 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
193037672 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:193043750 original size:80 final size:80
Alignment explanation
Indices: 193043666--193043814 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
193043656 TATGGTAACC
* * * *
193043666 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
193043730 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
193043746 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
193043811 CCGG
66 CCGG
193043815 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:193043756 original size:40 final size:38
Alignment explanation
Indices: 193043707--193043814 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
193043697 ATCACGATTT
*
193043707 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
193043747 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
193043787 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
193043815 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:193047651 original size:40 final size:40
Alignment explanation
Indices: 193047603--193047770 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
193047593 TTTTCGGAAT
* * *
193047603 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
193047642 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
193047682 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
193047722 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
193047762 TTAGCCCGG
1 TTAGCCCGG
193047771 GTATCATTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 103 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:193055034 original size:40 final size:40
Alignment explanation
Indices: 193054986--193055152 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
193054976 TTTTCGGAAT
* * *
193054986 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
193055025 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
193055065 TTAGCCC-GATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
193055104 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
193055144 TTAGCCCGG
1 TTAGCCCGG
193055153 GTATCATTCA
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 36 0.34
40 68 0.65
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:193055112 original size:79 final size:79
Alignment explanation
Indices: 193054986--193055151 Score: 208
Period size: 79 Copynumber: 2.1 Consensus size: 79
193054976 TTTTCGGAAT
* * * ** *
193054986 TTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACA
1 TTAGCCCGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACA
*
193055051 AATGCCTTCGGGTC
66 AATGCCTTCGGGAC
** * * *
193055065 TTAGCCCGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCAT
1 TTAGCCCGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCAC
193055129 AAATGCCTTCGGGAC
65 AAATGCCTTCGGGAC
193055144 TTAGCCCG
1 TTAGCCCG
193055152 GGTATCATTC
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
79 72 0.97
80 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
TTAGCCCGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACA
AATGCCTTCGGGAC
Found at i:193063867 original size:46 final size:46
Alignment explanation
Indices: 193063713--193063881 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 46
193063703 AACCCGCCCC
* * * * * *
193063713 TAAGTGAACTCAGACTCAACTCAATGAGCTCAGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
* * * *
193063759 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTGCATCCA
* *
193063807 TCA-CGAACTC-GACTCAACTCAACGAGTTCAGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
193063851 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
193063882 GGATGCTCAA
Statistics
Matches: 99, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
42 6 0.06
43 3 0.03
44 3 0.03
45 6 0.06
46 65 0.66
47 6 0.06
48 3 0.03
49 3 0.03
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
Found at i:193063882 original size:92 final size:93
Alignment explanation
Indices: 193063718--193063887 Score: 279
Period size: 92 Copynumber: 1.8 Consensus size: 93
193063708 GCCCCTAAGT
* * *
193063718 GAACTCAGACTCAACTCAATGAGCTCAGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
193063783 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
193063811 GAACTC-GACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
193063875 CGAGTTCGGATGC
66 CGAGTTCGGATGC
193063888 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 65 0.92
93 6 0.08
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:193063903 original size:46 final size:45
Alignment explanation
Indices: 193063763--193063903 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 45
193063753 CATCCATAAA
193063763 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * * *
193063810 CGAACTC-GACTCAACTCAACGAGTTCAGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTC-G-GATGCT-CAACCATCTAG
193063855 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
193063901 TGA
1 TGA
193063904 CATGTCACTT
Statistics
Matches: 74, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
44 9 0.12
45 8 0.11
46 46 0.62
47 7 0.09
48 3 0.04
49 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:193071339 original size:46 final size:45
Alignment explanation
Indices: 193071272--193071438 Score: 196
Period size: 47 Copynumber: 3.6 Consensus size: 45
193071262 CGCCCCTAAG
*
193071272 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCATAAA
* *
193071318 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAAA
* * * *
193071365 CGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
193071410 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
193071439 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
42 5 0.05
43 1 0.01
44 2 0.02
45 28 0.27
46 28 0.27
47 29 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
Found at i:193071387 original size:47 final size:48
Alignment explanation
Indices: 193071268--193071442 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 48
193071258 AACCCGCCCC
* * * *
193071268 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-ACATCCA
**
193071314 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTACATCCA
* *
193071362 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTACATCCA
*
193071406 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
193071443 TCAACCATCC
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 5 0.05
43 2 0.02
44 3 0.03
45 29 0.27
46 31 0.28
47 29 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (48 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTACATCCA
Found at i:193071431 original size:92 final size:93
Alignment explanation
Indices: 193071273--193071442 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
193071263 GCCCCTAAGT
* *
193071273 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
193071338 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
193071366 GAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
193071430 CGAGTTCGGATGC
66 CGAGTTCGGATGC
193071443 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 43 0.59
93 30 0.41
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:193071895 original size:30 final size:30
Alignment explanation
Indices: 193071861--193071920 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
193071851 ATTTAATACG
193071861 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
193071891 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
193071921 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:193077111 original size:17 final size:18
Alignment explanation
Indices: 193077069--193077117 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
193077059 AGTTGAAAAG
193077069 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
193077088 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
193077105 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
193077118 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:193078004 original size:40 final size:40
Alignment explanation
Indices: 193077938--193078104 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
193077928 AAATTGAATG
* * *
193077938 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
193077977 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
193078017 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
193078057 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
193078097 ATATCCGG
1 ATATCCGG
193078105 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:193080587 original size:40 final size:40
Alignment explanation
Indices: 193080486--193080675 Score: 247
Period size: 40 Copynumber: 4.7 Consensus size: 40
193080476 TACTCGAATG
* * *
193080486 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* * *
193080527 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTAACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
*
193080567 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
193080607 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
193080647 ATAACCGGGCTATGTCCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
193080676 AACGTGTAGA
Statistics
Matches: 130, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.78
41 27 0.21
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:193080649 original size:80 final size:81
Alignment explanation
Indices: 193080486--193080674 Score: 274
Period size: 80 Copynumber: 2.3 Consensus size: 81
193080476 TACTCGAATG
*
193080486 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAAGCGACTACATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAAGCGACTACATCCGGACTAAGATCCGAAGGC
*
193080551 ATTTGTGCTAGTAACT
66 ATTTGTGCGAGTAACT
* * **
193080567 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACTATATCCGGGTTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAAGCGACTACATCCGGACTAAGAT-CCGAAGG
*
193080630 CATTTGTGCGAGTTACT
65 CATTTGTGCGAGTAACT
* *
193080647 ATAACCGGGCTATGTCCCGAAGGCATTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTT
193080675 GAACGTGTAG
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
79 1 0.01
80 65 0.66
81 32 0.33
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAAGCGACTACATCCGGACTAAGATCCGAAGGC
ATTTGTGCGAGTAACT
Found at i:193080690 original size:80 final size:79
Alignment explanation
Indices: 193080490--193080698 Score: 237
Period size: 80 Copynumber: 2.6 Consensus size: 79
193080480 CGAATGATAT
* * * * *
193080490 CCGGGCTAAGTCCCGAAGGCTTTTATGCTAAGCGACTACATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTACGCT-AGTGACTATATCCGG-TTAAG-TCCCGAAGGCATT
* *
193080554 TGTGCTAGTAACTATAT
63 TGTGCGAGTAACTATAA
*
193080571 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTACGCTAGTGACTATATCC-GGTTAAGTCCCGAAGGCATTTG
*
193080636 TGCGAGTTACTATAA
65 TGCGAGTAACTATAA
*
193080651 CCGGGCTATGTCCCGAAGGCATTTGAACG-T-GTAGA-TATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTT--ACGCTAGT-GACTATATCCGGTTAA
193080699 ACTCCGAAGG
Statistics
Matches: 114, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.06
80 72 0.63
81 33 0.29
82 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTACGCTAGTGACTATATCCGGTTAAGTCCCGAAGGCATTTGT
GCGAGTAACTATAA
Found at i:193083725 original size:43 final size:43
Alignment explanation
Indices: 193083664--193084024 Score: 659
Period size: 43 Copynumber: 8.4 Consensus size: 43
193083654 GATGCCTTAA
193083664 GCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
1 GCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
*
193083707 GCACGAAGGCCCGAATACACATCACTGGCACGAAGCCTGCTAG
1 GCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
*
193083750 GCACGAAGGCCCGATTACACATCACCGGCACGAAGCCTGCTAG
1 GCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
* *
193083793 GCACGAAGGCCCGAATATACATCACCGACACGAAGCCTGCTAG
1 GCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
193083836 GCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
1 GCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
*
193083879 GCACGAAGGCCCGAATATACATCACCGGCACGAAGCCTGCTAG
1 GCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
*
193083922 GCACGAAGGCCCGAATATACATCACCGGCACGAAGCCTGCTAG
1 GCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
*
193083965 GCACGAAGGCCCGAATACACATCACTGGCACGAAGCCTGCTAG
1 GCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
193084008 GCACGAAGGCCCGAATA
1 GCACGAAGGCCCGAATA
193084025 TAATACCAGC
Statistics
Matches: 307, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 307 1.00
ACGTcount: A:0.30, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
GCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
Found at i:193084065 original size:38 final size:38
Alignment explanation
Indices: 193084017--193084162 Score: 193
Period size: 38 Copynumber: 3.8 Consensus size: 38
193084007 GGCACGAAGG
* * * *
193084017 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
193084055 CCCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
193084093 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * ** *
193084131 CCTGGACATTTTACCAGTACGAAGCCTGCGGG
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG
193084163 TCTTTAAGCC
Statistics
Matches: 95, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 95 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:193087062 original size:54 final size:54
Alignment explanation
Indices: 193087014--193087190 Score: 234
Period size: 54 Copynumber: 3.3 Consensus size: 54
193087004 ACATAGGGAT
* *
193087014 AAAATAGTCATCTTACCAT-AAAAGGTCAAAACAATCATTTTACCACATAAGGGC
1 AAAATAGTCATTTTACC-TCAAAAGGGCAAAACAATCATTTTACCACATAAGGGC
*
193087068 AAAATAGTCATTTTACCTCAAAAGGGAAAAACAGAT-ATTTTACCACATAAGGGC
1 AAAATAGTCATTTTACCTCAAAAGGGCAAAACA-ATCATTTTACCACATAAGGGC
* * * * *
193087122 AAAACAGTCATTTTACCTCATAAGGGCAAAATAGTCATTTTACC-CTATAAGGGA
1 AAAATAGTCATTTTACCTCAAAAGGGCAAAACAATCATTTTACCAC-ATAAGGGC
193087176 AAAATAGTCATTTTA
1 AAAATAGTCATTTTA
193087191 TTGATTAAGG
Statistics
Matches: 109, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
53 3 0.03
54 104 0.95
55 2 0.02
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.27
Consensus pattern (54 bp):
AAAATAGTCATTTTACCTCAAAAGGGCAAAACAATCATTTTACCACATAAGGGC
Found at i:193087189 original size:81 final size:81
Alignment explanation
Indices: 193087008--193087190 Score: 253
Period size: 81 Copynumber: 2.2 Consensus size: 81
193086998 TAAATCACAT
* * *
193087008 AGGGATAAAATAGTCATCTTACCATAAAAGGTCAAAACAATCATTTTACCACATAAGGGCAAAAT
1 AGGGA-AAAATAGTCATTTTACCACAAAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAAT
193087073 AGTCATTTTACCTCAAA
65 AGTCATTTTACCTCAAA
* * * *
193087090 AGGGAAAAACAGAT-ATTTTACCACATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAAAAT
1 AGGGAAAAATAG-TCATTTTACCACAAAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAAT
*
193087154 AGTCATTTTACC-CTATA
65 AGTCATTTTACCTC-AAA
193087171 AGGGAAAAATAGTCATTTTA
1 AGGGAAAAATAGTCATTTTA
193087191 TTGATTAAGG
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
80 2 0.02
81 81 0.91
82 6 0.07
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (81 bp):
AGGGAAAAATAGTCATTTTACCACAAAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAATA
GTCATTTTACCTCAAA
Found at i:193087201 original size:27 final size:26
Alignment explanation
Indices: 193087014--193087190 Score: 176
Period size: 27 Copynumber: 6.6 Consensus size: 26
193087004 ACATAGGGAT
* * *
193087014 AAAATAGTCATCTTACCATAAAAGGTC
1 AAAATAGTCATTTTACC-TATAAGGGC
* * *
193087041 AAAACAATCATTTTACCACATAAGGGC
1 AAAATAGTCATTTTACC-TATAAGGGC
* *
193087068 AAAATAGTCATTTTACCTCAAAAGGGA
1 AAAATAGTCATTTTACCT-ATAAGGGC
* *
193087095 AAAACAGAT-ATTTTACCACATAAGGGC
1 AAAATAG-TCATTTTACC-TATAAGGGC
*
193087122 AAAACAGTCATTTTACCTCATAAGGGC
1 AAAATAGTCATTTTACCT-ATAAGGGC
*
193087149 AAAATAGTCATTTTACCCTATAAGGGA
1 AAAATAGTCATTTTA-CCTATAAGGGC
193087176 AAAATAGTCATTTTA
1 AAAATAGTCATTTTA
193087191 TTGATTAAGG
Statistics
Matches: 126, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
26 1 0.01
27 121 0.96
28 4 0.03
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.27
Consensus pattern (26 bp):
AAAATAGTCATTTTACCTATAAGGGC
Found at i:193089831 original size:7 final size:7
Alignment explanation
Indices: 193089821--193089845 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
193089811 AGCAAAGTGC
193089821 AGAGGGG
1 AGAGGGG
193089828 AGAGGGG
1 AGAGGGG
193089835 AGAGGGG
1 AGAGGGG
193089842 AGAG
1 AGAG
193089846 CGAAATGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (7 bp):
AGAGGGG
Found at i:193092708 original size:64 final size:64
Alignment explanation
Indices: 193092627--193092810 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
193092617 AGACATTATG
* *
193092627 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
193092691 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
193092756 AA
63 AA
* * * *
193092758 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
193092811 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:193095114 original size:46 final size:46
Alignment explanation
Indices: 193094970--193095183 Score: 148
Period size: 46 Copynumber: 4.6 Consensus size: 46
193094960 TGTAAGCTAG
* * * * * * * *
193094970 TGTAAGACATGTCTGGGACATGCATCAGTCAC-ATTATGAAAGCCAG
1 TGTAAGACATGTCTAGGACATGCATCGGCCTCGA-GACGATAGCCAA
* * * * * * *
193095016 TGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGAC-AAAGGCTAG
1 TGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGACGATA-GCCAA
193095064 TGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACG-TGAGCCAA
1 TGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGAT-AGCCAA
* * * * *
193095110 TGTAAGACATGTCT-GGAACATGCATCGGCTTTGAGATGATAGTCAG
1 TGTAAGACATGTCTAGG-ACATGCATCGGCCTCGAGACGATAGCCAA
193095156 TGTAAGACCATGTCTAGGACATGGCATC
1 TGTAAGA-CATGTCTAGGACAT-GCATC
193095184 TACTTGAGAT
Statistics
Matches: 136, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
45 2 0.01
46 66 0.49
47 43 0.32
48 24 0.18
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGATAGCCAA
Found at i:193095191 original size:47 final size:49
Alignment explanation
Indices: 193095010--193095230 Score: 219
Period size: 47 Copynumber: 4.7 Consensus size: 49
193095000 ACATTATGAA
* * ** *
193095010 AGCCAGTGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGACAAAG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGATGATG
* * * *
193095059 -GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGACG-TG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGATGATG
* *
193095104 AGCCAATGTAAGA-CATGTCT-GGAACAT-GCATCGGCTTTGAGATGAT-
1 AGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCATTGAGATGATG
* **
193095150 AGTCAGTGTAAGACCATGTCTAGGACATGGCATCTAC-TTGAGAT-ATG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGATGATG
* *
193095197 AGCCAGTGTAAGACCGTTTCTAGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATC
193095231 AACACCTTAC
Statistics
Matches: 146, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
45 3 0.02
46 61 0.42
47 63 0.43
48 19 0.13
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (49 bp):
AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGATGATG
Found at i:193095199 original size:93 final size:93
Alignment explanation
Indices: 193094965--193095210 Score: 243
Period size: 93 Copynumber: 2.6 Consensus size: 93
193094955 TTCTGTGTAA
* * * *
193094965 GCTAGTGTAAGACATGTCTGGGACATGCATC--AGTC-ACATTATGAAAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGACTCGAGA-CATG--AGCCAGTGTAAGA-CAT
*
193095027 GTCTGGGACATGGAATCGGCATTGAGACAAAG
62 GTCTGGAACATGGAATCGGCATTGAGACAAAG
* * *
193095059 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGTGAGCCAATGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGACTCGAGACATGAGCCAGTGTAAGACATGTCT
* * * *
193095124 GGAACAT-GCATCGGCTTTGAGATGATAG
66 GGAACATGGAATCGGCATTGAGA-CAAAG
* * * *
193095152 TC-AGTGTAAGACCATGTCTAGGACATGGCATC-TACTTGAGATATGAGCCAGTGTAAGAC
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGACTCGAGACATGAGCCAGTGTAAGAC
193095211 CGTTTCTAGG
Statistics
Matches: 127, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
92 22 0.17
93 52 0.41
94 47 0.37
96 4 0.03
97 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGACTCGAGACATGAGCCAGTGTAAGACATGTCT
GGAACATGGAATCGGCATTGAGACAAAG
Found at i:193098369 original size:27 final size:27
Alignment explanation
Indices: 193098328--193098383 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
193098318 ATCTCATATC
* * *
193098328 TGTAGGCTAGTATTACTAAAATGCCCT
1 TGTAGGATAGAATTACTAAAATACCCT
*
193098355 TGTAGGATAGAATTACTGAAATACCCT
1 TGTAGGATAGAATTACTAAAATACCCT
193098382 TG
1 TG
193098384 GTTTACCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (27 bp):
TGTAGGATAGAATTACTAAAATACCCT
Found at i:193098404 original size:27 final size:27
Alignment explanation
Indices: 193098368--193098435 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
193098358 AGGATAGAAT
193098368 TACTGAAATACCCTTGGTTTACCAAAAA
1 TACTGAAATACCCTTGGTTTA-CAAAAA
*
193098396 TACTG-AATACCCTTGGTTTACAAAAT
1 TACTGAAATACCCTTGGTTTACAAAAA
**
193098422 TACCAAAATACCCT
1 TACTGAAATACCCT
193098436 CGATTAGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.22
27 23 0.64
28 5 0.14
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (27 bp):
TACTGAAATACCCTTGGTTTACAAAAA
Found at i:193098447 original size:27 final size:27
Alignment explanation
Indices: 193098401--193098698 Score: 328
Period size: 27 Copynumber: 11.1 Consensus size: 27
193098391 AAAAATACTG
* **
193098401 AATACCCTTGGTTTACAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * *
193098428 AATACCCTCGATTAGTAAAATTCCCAA
1 AATACCCTTGATTTGTAAAATTACCAA
*
193098455 AATACCC-TGGTTTGTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * *
193098481 AATACCATTGATTTGTGAAATTATCAA
1 AATACCCTTGATTTGTAAAATTACCAA
** *
193098508 AATACCCTTGACCTGTAAAATTACTAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * * * *
193098535 AATACTCTCGACTTGTAAAATTATCGA
1 AATACCCTTGATTTGTAAAATTACCAA
* *
193098562 AATATCCTTGATTTGAAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * * *
193098589 AATACCCCTAATTTGGAAAATTACCTA
1 AATACCCTTGATTTGTAAAATTACCAA
193098616 AATACCCTTGATTTGTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
*
193098643 AATACCCTTGATTTGGAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * * *
193098670 AATACCATTAATTTGTAGATTTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
193098697 AA
1 AA
193098699 CACCATTGTA
Statistics
Matches: 222, Mismatches: 48, Indels: 2
0.82 0.18 0.01
Matches are distributed among these distances:
26 21 0.09
27 201 0.91
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AATACCCTTGATTTGTAAAATTACCAA
Found at i:193098726 original size:81 final size:81
Alignment explanation
Indices: 193098561--193098730 Score: 189
Period size: 81 Copynumber: 2.1 Consensus size: 81
193098551 AAAATTATCG
* * * * *
193098561 AAATATCCTTGATTTGAAAAATTACCAAAATACCCCTAATTTGGAAAATTACCTAAATACCCTTG
1 AAATACCCTTGATTTGAAAAATTACCAAAATACCACTAATTTGGAAAATTACCAAAACACCATTG
** *
193098626 ATTTGTAAAATTACCA
66 ATGGGTAAAATGACCA
* * * * *
193098642 AAATACCCTTGATTTGGAAAATTACCAAAATACCATTAATTTGTAGATTTACCAAAACACCATTG
1 AAATACCCTTGATTTGAAAAATTACCAAAATACCACTAATTTGGAAAATTACCAAAACACCATTG
* *
193098707 -TAGGGTGAAATGACTA
66 AT-GGGTAAAATGACCA
193098723 AAATACCC
1 AAATACCC
193098731 CTAATAGGTA
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
80 1 0.01
81 72 0.99
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (81 bp):
AAATACCCTTGATTTGAAAAATTACCAAAATACCACTAATTTGGAAAATTACCAAAACACCATTG
ATGGGTAAAATGACCA
Found at i:193098989 original size:41 final size:41
Alignment explanation
Indices: 193098944--193099023 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
193098934 GGAGAAAGAA
*
193098944 ATTGAGAATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGAATCGCATGGTTGCTTGACGACAGTGGATCCACCG
*
193098985 ATTGAGGATCGCATGGTTGCTTGACGACAGTGGATCCAC
1 ATTGAGAATCGCATGGTTGCTTGACGACAGTGGATCCAC
193099024 TGATGGCTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (41 bp):
ATTGAGAATCGCATGGTTGCTTGACGACAGTGGATCCACCG
Found at i:193101002 original size:40 final size:39
Alignment explanation
Indices: 193100957--193101164 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
193100947 CGGAATACAA
*
193100957 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
193100997 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
193101037 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
193101077 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
193101117 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
193101157 CCGGATAT
1 CCGGATAT
193101165 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:193101097 original size:80 final size:80
Alignment explanation
Indices: 193100957--193101163 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
193100947 CGGAATACAA
* * *
193100957 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
193101021 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
193101037 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
193101101 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
193101117 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
193101164 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:193109033 original size:40 final size:39
Alignment explanation
Indices: 193108988--193109195 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
193108978 CGGAATACAA
*
193108988 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
193109028 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
193109068 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
193109108 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
193109148 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
193109188 CCGGATAT
1 CCGGATAT
193109196 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:193109128 original size:80 final size:80
Alignment explanation
Indices: 193108988--193109194 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
193108978 CGGAATACAA
* * *
193108988 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
193109052 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
193109068 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
193109132 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
193109148 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
193109195 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:193117854 original size:29 final size:28
Alignment explanation
Indices: 193117768--193117868 Score: 105
Period size: 29 Copynumber: 3.6 Consensus size: 28
193117758 TACTCAATCA
* *
193117768 CGCACACTTAGTGCCAT-GATTCAAGCC
1 CGCACACTTAGTGCCATACATTCAAGCT
* * * *
193117795 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATACA-TTCAAGCT
*
193117824 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATACATT-CAAGCT
*
193117853 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
193117869 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
27 16 0.27
28 2 0.03
29 41 0.69
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATACATTCAAGCT
Found at i:193124171 original size:40 final size:40
Alignment explanation
Indices: 193124111--193124274 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
193124101 CGGGATTTAA
* ** *
193124111 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
193124151 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
193124191 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
193124231 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
193124271 CCGG
1 CCGG
193124275 TATCATTCAA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 100 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:193124258 original size:80 final size:80
Alignment explanation
Indices: 193124097--193124274 Score: 207
Period size: 80 Copynumber: 2.2 Consensus size: 80
193124087 GAATCACGTA
* * * * **
193124097 CCTTCGGGATTTA-ACCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
* *
193124161 TAACTTGCACAATTG
66 TAACTAGCACAAATG
* ** *
193124176 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
* *
193124240 ATCACTAGCATAAATG
65 ATAACTAGCACAAATG
193124256 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
193124275 TATCATTCAA
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 11 0.13
80 69 0.84
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
TAACTAGCACAAATG
Found at i:193131521 original size:47 final size:47
Alignment explanation
Indices: 193131453--193131715 Score: 268
Period size: 47 Copynumber: 5.6 Consensus size: 47
193131443 GGTAAGGTAT
*
193131453 CGATGCCATGTCCCAGACATGGTCTTACAATGGCTCATATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACAATGGCTCATATCTCAAGC
*
193131500 CGATGCCATGTCCCAGACATGGTCTTACAATGGCTCATATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACAATGGCTCATATCTCAAGC
* * * * * *
193131547 TGATGCCATGTCCCTGACATAGTCTTACACTGACT-ATCATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACAATGGCTCAT-ATCTC-AAGC
* * * * ** *
193131595 CGCTG-CTTGTCCCAGACAT-GTCTTACATTGGCTTACGTCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACAATGGCTCATATCTC-AAGC
* * * *
193131641 CAATG-CATGTCCCAGACAT-GTCTTACATTAGCTC-TCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACAATGGCTCAT-ATCTCAA-GC
193131687 CGATGCCATGTCCCAGACATGGTCTTACA
1 CGATGCCATGTCCCAGACATGGTCTTACA
193131716 TTGGTTCTCA
Statistics
Matches: 184, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
45 1 0.01
46 61 0.33
47 109 0.59
48 13 0.07
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACAATGGCTCATATCTCAAGC
Found at i:193131746 original size:94 final size:93
Alignment explanation
Indices: 193131452--193131750 Score: 231
Period size: 94 Copynumber: 3.2 Consensus size: 93
193131442 GGGTAAGGTA
* *
193131452 TCGATGCCATGTCCCAGACATGGTCTTACAATGGCTCAT-ATCTCAA-GTCGATGCCATGTCCCA
1 TCGAT-CCATGTCCCAGACATAGTCTTACAAT-GCTC-TCATCTCAATGCCGATGCCATGTCCCA
* * *
193131515 GACATGGTCTTACAATGG--CTCATATCTCAAG
63 GACATGGTCTTACATTGGTTCTCATATGT--GG
* * * * * * *
193131546 TTGATGCCATGTCCCTGACATAGTCTTACACTGACTATCATCTC-GTAGCCGCTG-CTTGTCCCA
1 TCGAT-CCATGTCCCAGACATAGTCTTACAATG-CTCTCATCTCAAT-GCCGATGCCATGTCCCA
* *
193131609 GACAT-GTCTTACATTGGCTTACGTC-T-CGAGG
63 GACATGGTCTTACATTGG-TT-C-TCATATGTGG
* * * * *
193131640 CCAATGCATGTCCCAGACAT-GTCTTACATTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGA
1 TCGATCCATGTCCCAGACATAGTCTTACAAT-GCTCTCATCTCAATGCCGATGCCATGTCCCAGA
193131704 CATGGTCTTACATTGGTTCTCATAATGTGG
65 CATGGTCTTACATTGGTTCTCAT-ATGTGG
*
193131734 TCGATTCATGTCCCAGA
1 TCGATCCATGTCCCAGA
193131751 TGTCGAAACC
Statistics
Matches: 159, Mismatches: 30, Indels: 32
0.72 0.14 0.14
Matches are distributed among these distances:
91 2 0.01
92 25 0.16
93 43 0.27
94 80 0.50
95 5 0.03
97 2 0.01
98 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.30
Consensus pattern (93 bp):
TCGATCCATGTCCCAGACATAGTCTTACAATGCTCTCATCTCAATGCCGATGCCATGTCCCAGAC
ATGGTCTTACATTGGTTCTCATATGTGG
Found at i:193132942 original size:12 final size:11
Alignment explanation
Indices: 193132913--193132942 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
193132903 TTGTAAACAA
193132913 AAATAAAAAAG
1 AAATAAAAAAG
193132924 AAATAAAAAAG
1 AAATAAAAAAG
193132935 AAACTAAA
1 AAA-TAAA
193132943 GAACAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (11 bp):
AAATAAAAAAG
Found at i:193135249 original size:40 final size:39
Alignment explanation
Indices: 193135192--193135376 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
193135182 ATTAAATGAT
* * *
193135192 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
193135232 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
193135272 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
193135312 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
193135352 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
193135377 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:193135328 original size:80 final size:80
Alignment explanation
Indices: 193135191--193135397 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
193135181 AATTAAATGA
* * ** * *
193135191 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
193135256 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
193135269 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
193135334 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
193135351 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
193135398 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:193135382 original size:40 final size:39
Alignment explanation
Indices: 193135190--193135397 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
193135180 CAATTAAATG
* * ** *
193135190 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
193135230 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
193135270 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
193135310 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
193135350 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
193135390 ATATCCGG
1 ATATCCGG
193135398 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:193143232 original size:40 final size:40
Alignment explanation
Indices: 193143177--193143360 Score: 192
Period size: 40 Copynumber: 4.5 Consensus size: 40
193143167 TAAATGATAT
* * *
193143177 CGGGCTAAGTCCCGAAGACATTTATGCTAGT-AGTTAAATC
1 CGGGCTAAGACCCGAAGGCATTTATGCAAGTGA-TTAAATC
* * * *
193143217 CGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAAATC
1 CGGGCTAAGACCCGAAGGCATTTATGCAAGTGATTAAATC
** *
193143257 CGGGCTAAGACCCGAAGGCATTCGTGGCAAGTTGTTTAAATC
1 CGGGCTAAGACCCGAAGGCATTTAT-GCAAG-TGATTAAATC
* * **
193143299 CGGGCTAATACCCGAAGGCATTTGTGCAAGTCG-TTCTATC
1 CGGGCTAAGACCCGAAGGCATTTATGCAAGT-GATTAAATC
193143339 CGGGCTAAGACCCGAAGGCATT
1 CGGGCTAAGACCCGAAGGCATT
193143361 CGTGCATGTG
Statistics
Matches: 123, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
40 81 0.66
41 11 0.09
42 31 0.25
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTTATGCAAGTGATTAAATC
Found at i:193143312 original size:82 final size:82
Alignment explanation
Indices: 193143210--193143364 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 82
193143200 ATGCTAGTAG
* *
193143210 TTAAATCCGGGTTAAGACCCGAAGGCAATTATGCTAGT-G-ACTAAATCCGGGCTAAGACCCGAA
1 TTAAATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTCGTACT--ATCCGGGCTAAGACCCGAA
193143273 GGCATTCGTGGCAAGTTGT
64 GGCATTCGTGGCAAGTTGT
* * * *
193143292 TTAAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGG
1 TTAAATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTCGTACTATCCGGGCTAAGACCCGAAGG
193143357 CATTCGTG
66 CATTCGTG
193143365 CATGTGGTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
82 62 0.95
83 1 0.02
84 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (82 bp):
TTAAATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTCGTACTATCCGGGCTAAGACCCGAAGG
CATTCGTGGCAAGTTGT
Found at i:193143366 original size:40 final size:39
Alignment explanation
Indices: 193143254--193143381 Score: 166
Period size: 40 Copynumber: 3.2 Consensus size: 39
193143244 TAGTGACTAA
*
193143254 ATCCGGGCTAAGACCCGAAGGCATTCGTGGCAAGTTGTTT
1 ATCCGGGCTAAGACCCGAAGGCATTCGT-GCAAGTCGTTT
* *
193143294 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 --ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT-T
* *
193143336 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT-T
193143376 ATCCGG
1 ATCCGG
193143382 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 41 0.53
41 9 0.12
42 27 0.35
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTT
Found at i:193147130 original size:28 final size:28
Alignment explanation
Indices: 193147092--193147198 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
193147082 GAATCATTCG
* *
193147092 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
193147120 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
193147148 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
193147176 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
193147199 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:193152197 original size:28 final size:28
Alignment explanation
Indices: 193152163--193152317 Score: 166
Period size: 28 Copynumber: 5.5 Consensus size: 28
193152153 AACCGATCTT
* *
193152163 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* ** * *
193152191 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
*
193152220 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* ** * *
193152248 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
193152277 GCACACACAGTGCTCGATTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
*
193152305 ACACACACAGTGC
1 GCACACACAGTGC
193152318 CTATGTTCAC
Statistics
Matches: 100, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
28 57 0.57
29 43 0.43
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.16
Consensus pattern (28 bp):
GCACACACAGTGCTCGATTACGGAACTC
Found at i:193152203 original size:57 final size:57
Alignment explanation
Indices: 193152133--193152319 Score: 311
Period size: 57 Copynumber: 3.2 Consensus size: 57
193152123 GATCTCATTT
* * *
193152133 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
193152192 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
193152249 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
193152306 CACACACAGTGCCT
1 CACACACAGTGCCT
193152320 ATGTTCACTT
Statistics
Matches: 123, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
57 116 0.94
59 7 0.06
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.17
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:193152229 original size:29 final size:29
Alignment explanation
Indices: 193152133--193152289 Score: 147
Period size: 29 Copynumber: 5.4 Consensus size: 29
193152123 GATCTCATTT
* *
193152133 CACACACTTAGTGCCCCAACAACCGATCTTG
1 CACACAC--AGTGCCTCAACAACCGATCTCG
***** * *
193152164 CACACACAGTG-CTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
193152192 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
**** * *
193152221 CACACACAGTG-CTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
193152249 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
193152278 CACACACAGTGC
1 CACACACAGTGC
193152290 TCGATTACGG
Statistics
Matches: 96, Mismatches: 28, Indels: 6
0.74 0.22 0.05
Matches are distributed among these distances:
28 41 0.43
29 48 0.50
31 7 0.07
ACGTcount: A:0.29, C:0.37, G:0.18, T:0.17
Consensus pattern (29 bp):
CACACACAGTGCCTCAACAACCGATCTCG
Found at i:193154401 original size:28 final size:28
Alignment explanation
Indices: 193154296--193154401 Score: 151
Period size: 28 Copynumber: 3.8 Consensus size: 28
193154286 GAATCATTCG
* *
193154296 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
193154324 ATATCTCGCACACTAAGTG-CATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
193154351 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
193154379 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
193154402 ATTTGATTGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 25 0.35
28 47 0.65
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:193158464 original size:28 final size:28
Alignment explanation
Indices: 193158433--193158534 Score: 150
Period size: 28 Copynumber: 3.6 Consensus size: 28
193158423 GAATAATTCG
*
193158433 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
193158461 ATATCTCGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
* *
193158489 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
* *
193158517 ATATTTCGTACCCTAAGT
1 ATATTTCGCACACTAAGT
193158535 ACCATATTTG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGTCATTCTCA
Found at i:193161154 original size:40 final size:39
Alignment explanation
Indices: 193160986--193161156 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
193160976 AGAAATTGAA
* *
193160986 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
193161026 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
193161066 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
193161106 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
193161146 TGATATCCGGG
1 TGATATCCGGG
193161157 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:193169258 original size:40 final size:39
Alignment explanation
Indices: 193169090--193169260 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
193169080 AGAAATTGAA
* *
193169090 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
193169130 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
193169170 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
193169210 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
193169250 TGATATCCGGG
1 TGATATCCGGG
193169261 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:193174901 original size:28 final size:28
Alignment explanation
Indices: 193174867--193175021 Score: 166
Period size: 28 Copynumber: 5.5 Consensus size: 28
193174857 AACCGATCTT
* *
193174867 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* ** * *
193174895 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
*
193174924 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* ** * *
193174952 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
193174981 GCACACACAGTGCTCGATTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
*
193175009 ACACACACAGTGC
1 GCACACACAGTGC
193175022 CTATGTTCAC
Statistics
Matches: 100, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
28 57 0.57
29 43 0.43
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.16
Consensus pattern (28 bp):
GCACACACAGTGCTCGATTACGGAACTC
Found at i:193174907 original size:57 final size:57
Alignment explanation
Indices: 193174837--193175023 Score: 311
Period size: 57 Copynumber: 3.2 Consensus size: 57
193174827 GATCTCATTT
* * *
193174837 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
193174896 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
193174953 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
193175010 CACACACAGTGCCT
1 CACACACAGTGCCT
193175024 ATGTTCACTT
Statistics
Matches: 123, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
57 116 0.94
59 7 0.06
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.17
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:193174933 original size:29 final size:29
Alignment explanation
Indices: 193174837--193174993 Score: 147
Period size: 29 Copynumber: 5.4 Consensus size: 29
193174827 GATCTCATTT
* *
193174837 CACACACTTAGTGCCCCAACAACCGATCTTG
1 CACACAC--AGTGCCTCAACAACCGATCTCG
***** * *
193174868 CACACACAGTG-CTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
193174896 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
**** * *
193174925 CACACACAGTG-CTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
193174953 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
193174982 CACACACAGTGC
1 CACACACAGTGC
193174994 TCGATTACGG
Statistics
Matches: 96, Mismatches: 28, Indels: 6
0.74 0.22 0.05
Matches are distributed among these distances:
28 41 0.43
29 48 0.50
31 7 0.07
ACGTcount: A:0.29, C:0.37, G:0.18, T:0.17
Consensus pattern (29 bp):
CACACACAGTGCCTCAACAACCGATCTCG
Found at i:193177105 original size:28 final size:28
Alignment explanation
Indices: 193177000--193177105 Score: 151
Period size: 28 Copynumber: 3.8 Consensus size: 28
193176990 GAATCATTCG
* *
193177000 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
193177028 ATATCTCGCACACTAAGTG-CATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
193177055 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
193177083 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
193177106 ATTTGATTGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 25 0.35
28 47 0.65
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:193180542 original size:6 final size:6
Alignment explanation
Indices: 193180531--193180609 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
193180521 GGGATCACTA
193180531 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* *
193180574 A-GAAT A-GAAT ACTAAT -CTAAT ACTCTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT A--CTAAT ACTAAT A
193180610 GAATAGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
4 3 0.05
5 27 0.43
6 27 0.43
8 6 0.10
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (6 bp):
ACTAAT
Found at i:193180553 original size:20 final size:21
Alignment explanation
Indices: 193180527--193180572 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
193180517 AGCCGGGATC
193180527 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
193180548 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
193180568 ACTAA
1 ACTAA
193180573 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:193180597 original size:11 final size:11
Alignment explanation
Indices: 193180527--193180573 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
193180517 AGCCGGGATC
193180527 ACTAA-CTAAT
1 ACTAATCTAAT
193180537 ACTAATCTAAT
1 ACTAATCTAAT
193180548 -CTAA-CTAAT
1 ACTAATCTAAT
193180557 ACTAATCTAAT
1 ACTAATCTAAT
193180568 ACTAAT
1 ACTAAT
193180574 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:193180634 original size:30 final size:30
Alignment explanation
Indices: 193180600--193180656 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
193180590 CTAATACTCT
193180600 AATACTAATAGAATAGAAA-AAATAGAATAA
1 AATACTAATAGAATAGAAAGAAA-AGAATAA
*
193180630 AATACTAATATAATAGAAAGAAAAGAA
1 AATACTAATAGAATAGAAAGAAAAGAA
193180657 CTGTCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.67, C:0.04, G:0.11, T:0.19
Consensus pattern (30 bp):
AATACTAATAGAATAGAAAGAAAAGAATAA
Found at i:193188935 original size:18 final size:18
Alignment explanation
Indices: 193188856--193188949 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
193188846 CAAGGTCACG
*
193188856 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTATC
* *
193188874 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTATC
*
193188892 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTATC
193188910 ATCAATATCGTCACTATC
1 ATCAATATCGTCACTATC
193188928 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
193188943 ATCAATA
1 ATCAATA
193188950 AGAAAACCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:193188936 original size:9 final size:9
Alignment explanation
Indices: 193188856--193188936 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
193188846 CAAGGTCACG
*
193188856 ATCAATAGC
1 ATCAATATC
* *
193188865 GTCACTATC
1 ATCAATATC
*
193188874 ATCAATAGC
1 ATCAATATC
* * *
193188883 GTCACTAGC
1 ATCAATATC
193188892 ATCAATATC
1 ATCAATATC
* * *
193188901 GTCACTAGC
1 ATCAATATC
193188910 ATCAATATC
1 ATCAATATC
* *
193188919 GTCACTATC
1 ATCAATATC
193188928 ATCAATATC
1 ATCAATATC
193188937 GATATCATCA
Statistics
Matches: 51, Mismatches: 21, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (9 bp):
ATCAATATC
Found at i:193191345 original size:21 final size:21
Alignment explanation
Indices: 193191315--193191403 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
193191305 CTCACAAAGA
* *
193191315 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
193191335 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
193191356 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
193191377 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
193191401 AAA
1 AAA
193191404 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:193191396 original size:24 final size:21
Alignment explanation
Indices: 193191315--193191383 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
193191305 CTCACAAAGA
* * *
193191315 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
193191335 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
193191356 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
193191377 AAAAAGA
1 AAAAAGA
193191384 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Done.