Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 184 of 295
Found at i:58208140 original size:30 final size:30
Alignment explanation
Indices: 58208106--58208166 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
58208096 TCCTTAACTC
58208106 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
58208136 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
58208166 A
1 A
58208167 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:58210137 original size:31 final size:32
Alignment explanation
Indices: 58210080--58210141 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
58210070 ACGAAGTCAC
* *
58210080 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCAAAGCCACCAGAA
*
58210112 CAGATATATATA-TGTGGCAAAGCCACCAGA
1 CAGATATAGATATTGTGGCAAAGCCACCAGA
58210142 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCAAAGCCACCAGAA
Found at i:58210163 original size:71 final size:67
Alignment explanation
Indices: 58210087--58210227 Score: 192
Period size: 67 Copynumber: 2.0 Consensus size: 67
58210077 CACCAGATAT
* * *
58210087 AGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCAAAGCCACCAGATTGCAGCGAG
1 AGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCAAAGCCACCAGATTGCAGCGAG
58210152 GCTACC
62 GCTACC
* * *
58210158 AGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCAAGGCCACCAGATTGCAGCGAGGCTG
1 AGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCAAAGCCACCAGATTGCAGCGAGGCTA
58210223 CC
66 CC
58210225 AGA
1 AGA
58210228 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
67 40 0.62
71 24 0.38
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (67 bp):
AGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCAAAGCCACCAGATTGCAGCGAGGCTA
CC
Found at i:58211149 original size:40 final size:40
Alignment explanation
Indices: 58211094--58211221 Score: 197
Period size: 40 Copynumber: 3.2 Consensus size: 40
58211084 ATATATTATA
58211094 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
*
58211134 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTAGTAATG
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
* ** *
58211174 TATATCCGGGTTAAATATCGCAGGCTTAGTGCTGGT-AT-
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
58211212 TATATCCGGG
1 TATATCCGGG
58211222 CTTAAAGTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 10 0.12
39 2 0.02
40 70 0.85
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (40 bp):
TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
Found at i:58211248 original size:80 final size:80
Alignment explanation
Indices: 58211094--58211251 Score: 194
Period size: 80 Copynumber: 2.0 Consensus size: 80
58211084 ATATATTATA
* * *
58211094 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCCGGGTCAAATCCCGCAGGC
1 TATATCCGGGTCAAATACCGCAGGCTTAGTGCTGGTAATGTATATCCGGGTCAAATCCCGCAGAC
*
58211159 TTCGTGCTAGTAATG
66 TTCGAGCTAGTAATG
* * * * *
58211174 TATATCCGGGTTAAATATCGCAGGCTTAGTGCTGGT-AT-TATATCCGGGCTTAAAGTTCCGTAG
1 TATATCCGGGTCAAATACCGCAGGCTTAGTGCTGGTAATGTATATCCGGG-TCAAA-TCCCGCAG
*
58211237 ACTTTGAGCTAGTAA
64 ACTTCGAGCTAGTAA
58211252 CTAGATTCGG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
78 10 0.15
79 6 0.09
80 50 0.76
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (80 bp):
TATATCCGGGTCAAATACCGCAGGCTTAGTGCTGGTAATGTATATCCGGGTCAAATCCCGCAGAC
TTCGAGCTAGTAATG
Found at i:58221199 original size:28 final size:27
Alignment explanation
Indices: 58221166--58221218 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
58221156 TTAGAATACT
*
58221166 TTAGTTTACTAAAATTACCGAAATACGC
1 TTAGTTT-CTAAAAATACCGAAATACGC
* *
58221194 TTAGTTTGTAAAAATACTGAAATAC
1 TTAGTTTCTAAAAATACCGAAATAC
58221219 CCTCGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACCGAAATACGC
Found at i:58221205 original size:27 final size:27
Alignment explanation
Indices: 58221175--58221273 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
58221165 TTTAGTTTAC
58221175 TAAAATTACCGAAATACGCTTAG-TTTG
1 TAAAATTACCGAAATAC-CTTAGATTTG
* * * *
58221202 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTAGATTTG
* * *
58221229 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTAGATTTG
58221256 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
58221274 CCCGATTTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.10
27 56 0.90
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTAGATTTG
Found at i:58221274 original size:54 final size:54
Alignment explanation
Indices: 58221175--58221281 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
58221165 TTTAGTTTAC
* * *
58221175 TAAAATTACCGAAATACGCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
58221229 TAAAATTACTGAAATAC-CTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACGCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
58221282 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 7 0.16
54 38 0.84
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:58221289 original size:27 final size:27
Alignment explanation
Indices: 58221259--58221320 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
58221249 CGACTTGTAA
*
58221259 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCAATTTACAG
*** *
58221286 AATTACCATTTTACCCCCAATTTACAT
1 AATTACCAAAGTACCCCCAATTTACAG
58221313 AATTACCA
1 AATTACCA
58221321 TTTTACCCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.29, G:0.05, T:0.29
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCAATTTACAG
Found at i:58221336 original size:27 final size:27
Alignment explanation
Indices: 58221270--58221464 Score: 111
Period size: 27 Copynumber: 6.8 Consensus size: 27
58221260 ATTACCAAAG
58221270 TACCCCCGATTTACAGAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
58221297 TACCCCCAATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
58221324 TACCCCCGTTTTACCCTCGACTTACAGAATTACCATTT
1 TACCCCCG-ATT----T--AC--AG--AATTACCATTT
* * * *
58221362 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
** * **
58221389 TACCGTCGATTTATAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCATTT
* ** * *
58221416 TATCCTTGGTTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
58221443 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
58221465 TAAAATACCC
Statistics
Matches: 133, Mismatches: 24, Indels: 22
0.74 0.13 0.12
Matches are distributed among these distances:
27 104 0.78
28 2 0.02
29 1 0.01
31 1 0.01
32 1 0.01
33 1 0.01
34 2 0.02
36 1 0.01
37 2 0.02
38 18 0.14
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCATTT
Found at i:58221336 original size:38 final size:38
Alignment explanation
Indices: 58221294--58221366 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
58221284 AGAATTACCA
* *
58221294 TTTTACCCCCAATTTACATAATTACCATTTTACCCCCG
1 TTTTACCCCCAACTTACAGAATTACCATTTTACCCCCG
* *
58221332 TTTTACCCTCGACTTACAGAATTACCATTTTACCC
1 TTTTACCCCCAACTTACAGAATTACCATTTTACCC
58221367 TCGATTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.26, C:0.33, G:0.04, T:0.37
Consensus pattern (38 bp):
TTTTACCCCCAACTTACAGAATTACCATTTTACCCCCG
Found at i:58221374 original size:65 final size:65
Alignment explanation
Indices: 58221270--58221392 Score: 174
Period size: 65 Copynumber: 1.9 Consensus size: 65
58221260 ATTACCAAAG
* *
58221270 TACCCCCGATTTACAGAATTACCATTTTACCCCCAATTTACATAATTACCATTTTACCCCCGTTT
1 TACCCCCGACTTACAGAATTACCATTTTACCCCCAATTTACAGAATTACCATTTTACCCCCGTTT
* * * * * *
58221335 TACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACC
1 TACCCCCGACTTACAGAATTACCATTTTACCCCCAATTTACAGAATTACCATTTTACC
58221393 GTCGATTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 50 1.00
ACGTcount: A:0.28, C:0.29, G:0.07, T:0.37
Consensus pattern (65 bp):
TACCCCCGACTTACAGAATTACCATTTTACCCCCAATTTACAGAATTACCATTTTACCCCCGTTT
Found at i:58221465 original size:27 final size:27
Alignment explanation
Indices: 58221332--58221466 Score: 155
Period size: 27 Copynumber: 5.0 Consensus size: 27
58221322 TTTACCCCCG
* *
58221332 TTTTACCCTCGACTTACAGAATTACCA
1 TTTTACCCTCGATTTACAGAATTACTA
* *
58221359 TTTTACCCTCGATTTATAGAATTA-TCG
1 TTTTACCCTCGATTTACAGAATTACT-A
* * *
58221386 TTTTACCGTCGATTTATAGAATTACTG
1 TTTTACCCTCGATTTACAGAATTACTA
* * *
58221413 TTTTATCCTTGGTTTACAGAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTA
*
58221440 TTTTACCCTCGATTTACAAAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTA
58221467 AAATACCCTT
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
27 90 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAGAATTACTA
Found at i:58221605 original size:54 final size:53
Alignment explanation
Indices: 58221457--58221664 Score: 163
Period size: 54 Copynumber: 3.8 Consensus size: 53
58221447 CTCGATTTAC
* * * *
58221457 AAAATTACTAAAATACCCTTGGTTTGTA-AAATTACCA-AAATACCCATAGTTTGT
1 AAAATTACCAAAATACCCCTGG-TT-TACAAATTA-CAGAAATACCCTTAATTTGT
** *
58221511 AAAATTACCAAAATA-CCCTAGGTTTGTGAAATTACTGAAATACCCTTAATTTGT
1 AAAATTACCAAAATACCCCT-GGTTT-ACAAATTACAGAAATACCCTTAATTTGT
* * *
58221565 AAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAATACCCTTCACTTTCT
1 AAAATTACCAAAATACCCCTGGTTTACAAA-TTACAGAAATACCCTT-AATTTGT
*** * *
58221620 AAAAATTATTGAAATA-CCATAGGTTTACAAAATTACTGAAATACC
1 -AAAATTACCAAAATACCCCT-GGTTTAC-AAATTACAGAAATACC
58221665 TTTGGTTTGT
Statistics
Matches: 126, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
52 1 0.01
53 9 0.07
54 71 0.56
55 12 0.10
56 30 0.24
57 3 0.02
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (53 bp):
AAAATTACCAAAATACCCCTGGTTTACAAATTACAGAAATACCCTTAATTTGT
Found at i:58221671 original size:27 final size:27
Alignment explanation
Indices: 58221419--58221673 Score: 145
Period size: 27 Copynumber: 9.4 Consensus size: 27
58221409 ACTGTTTTAT
* * ***
58221419 CCTTGGTTTACAGAATTACTATTTTAC
1 CCTTGGTTTGCAAAATTACTAAAATAC
* * *
58221446 CCTCGATTTACAAAATTACTAAAATAC
1 CCTTGGTTTGCAAAATTACTAAAATAC
* *
58221473 CCTTGGTTTGTAAAATTACCAAAATAC
1 CCTTGGTTTGCAAAATTACTAAAATAC
* * * *
58221500 CCATAGTTTGTAAAATTACCAAAATAC
1 CCTTGGTTTGCAAAATTACTAAAATAC
* ** *
58221527 CCTAGGTTTGTGAAATTACTGAAATAC
1 CCTTGGTTTGCAAAATTACTAAAATAC
** * *
58221554 CCTTAATTTGTAAAATTACCAAAATAC
1 CCTTGGTTTGCAAAATTACTAAAATAC
* * * *
58221581 CCCTGATTTACAAAGTTAC-AGAAATAC
1 CCTTGGTTTGCAAAATTACTA-AAATAC
** * *
58221608 CCTTCACTTT-CTAAAAATTATTGAAATAC
1 CCTT-GGTTTGC--AAAATTACTAAAATAC
* * * *
58221637 CATAGGTTTACAAAATTACTGAAATAC
1 CCTTGGTTTGCAAAATTACTAAAATAC
*
58221664 CTTTGGTTTG
1 CCTTGGTTTG
58221674 TTGATTTACC
Statistics
Matches: 178, Mismatches: 44, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
26 1 0.01
27 156 0.88
28 6 0.03
29 15 0.08
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (27 bp):
CCTTGGTTTGCAAAATTACTAAAATAC
Found at i:58221758 original size:27 final size:27
Alignment explanation
Indices: 58221723--58221790 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
58221713 ATACCCCTAT
*
58221723 TAGGGTAAAGTGACCGTAA-AGCCCCTG
1 TAGGGTAAAATGACCGTAACA-CCCCTG
58221750 TAGGGTAAAATGACCGTAACACCCCTG
1 TAGGGTAAAATGACCGTAACACCCCTG
*
58221777 TATGGTAAAATGAC
1 TAGGGTAAAATGAC
58221791 GAATATGCCC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAACACCCCTG
Found at i:58223063 original size:20 final size:20
Alignment explanation
Indices: 58223040--58223078 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
58223030 TAAACATGGT
58223040 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
58223060 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
58223079 TGTAATCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:58223185 original size:24 final size:23
Alignment explanation
Indices: 58223129--58223280 Score: 205
Period size: 24 Copynumber: 6.4 Consensus size: 23
58223119 GAGGAAGTGA
58223129 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
58223152 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
58223175 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
**
58223199 CAAAAGGGCTTACACCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
58223223 TAAAGGGCATATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
58223246 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
58223271 AAAAGAGGCT
1 AAAAG-GGCT
58223281 AGGCCTGCAG
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
23 41 0.36
24 68 0.60
25 5 0.04
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:58223198 original size:47 final size:47
Alignment explanation
Indices: 58223129--58223280 Score: 207
Period size: 47 Copynumber: 3.2 Consensus size: 47
58223119 GAGGAAGTGA
*
58223129 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* **
58223175 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACACCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
58223223 TAAAGGGCATATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
58223271 AAAAGAGGCT
1 AAAAG-GGCT
58223281 AGGCCTGCAG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
47 63 0.69
48 25 0.27
49 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:58223245 original size:71 final size:71
Alignment explanation
Indices: 58223129--58223280 Score: 241
Period size: 71 Copynumber: 2.1 Consensus size: 71
58223119 GAGGAAGTGA
** * *
58223129 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACACCCCAGTTATTAAAGGGCATATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
58223194 GTTATC
66 GTTATC
*
58223200 AAAAGGGCTTACACCCCAGTTATTAAAGGGCATATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACACCCCAGTTATTAAAGGGCATATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
58223265 GTTATT
66 GTTATC
58223271 AAAAGAGGCT
1 AAAAG-GGCT
58223281 AGGCCTGCAG
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 70 0.95
72 4 0.05
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTACACCCCAGTTATTAAAGGGCATATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:58223520 original size:24 final size:24
Alignment explanation
Indices: 58223488--58223538 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
58223478 CGTTTACAGT
*
58223488 AAAGGCTTCGGCCCAGTAATATGA
1 AAAGGCTTCAGCCCAGTAATATGA
**
58223512 AAAGGCTTCAGCCCAGTGTTATGA
1 AAAGGCTTCAGCCCAGTAATATGA
58223536 AAA
1 AAA
58223539 ATGAAATATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (24 bp):
AAAGGCTTCAGCCCAGTAATATGA
Found at i:58237357 original size:42 final size:44
Alignment explanation
Indices: 58237290--58237412 Score: 117
Period size: 44 Copynumber: 2.8 Consensus size: 44
58237280 TTAAATATCA
* * * *
58237290 ATGCCATTGTCCCAGACAAGGTCTTACACAAAATCAT-ATA-CG
1 ATGCCAATGTCCCAAACATGGTCTTACACAAAATCATCAAATCG
* **
58237332 ATGCCAATGTCCCAAACATGCTCTTACATGTAAATC-TCAAATCG
1 ATGCCAATGTCCCAAACATGGTCTTACA-CAAAATCATCAAATCG
** * *
58237376 ATGCCAACATCCCAAACGTGGTCTTACACGAAATCAT
1 ATGCCAATGTCCCAAACATGGTCTTACACAAAATCAT
58237413 GTACTAAAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 25 0.39
43 12 0.19
44 27 0.42
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (44 bp):
ATGCCAATGTCCCAAACATGGTCTTACACAAAATCATCAAATCG
Found at i:58238303 original size:21 final size:19
Alignment explanation
Indices: 58238272--58238317 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
58238262 AATGCATGGC
* *
58238272 TATTTCATGTTTATTTTATT
1 TATTACATG-TTATTTTACT
58238292 TAATTACATGTTATTTTACT
1 T-ATTACATGTTATTTTACT
58238312 TATTAC
1 TATTAC
58238318 TATTTTAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 11 0.48
21 7 0.30
ACGTcount: A:0.26, C:0.09, G:0.04, T:0.61
Consensus pattern (19 bp):
TATTACATGTTATTTTACT
Found at i:58238535 original size:13 final size:13
Alignment explanation
Indices: 58238517--58238541 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58238507 ACAAACAATA
58238517 AAATTTTCACACG
1 AAATTTTCACACG
58238530 AAATTTTCACAC
1 AAATTTTCACAC
58238542 ATATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:58242372 original size:23 final size:23
Alignment explanation
Indices: 58242346--58242418 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
58242336 TCTATCAAGT
58242346 TGAAACAGTATGCTCATACGAGC
1 TGAAACAGTATGCTCATACGAGC
*
58242369 TGAAACAGTAAGCTCTAATA--AGC
1 TGAAACAGTATGCTC--ATACGAGC
* * *
58242392 TAAAAATAGTATGCTCTTACGAGC
1 T-GAAACAGTATGCTCATACGAGC
58242416 TGA
1 TGA
58242419 TATATCAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
22 2 0.05
23 19 0.49
24 15 0.38
25 3 0.08
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (23 bp):
TGAAACAGTATGCTCATACGAGC
Found at i:58245020 original size:16 final size:16
Alignment explanation
Indices: 58244977--58245021 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
58244967 CCTATTTTAA
58244977 ATTATGTTTCATTTCTTT
1 ATTA-GTTT-ATTTCTTT
*
58244995 -TTATTTTATTTCTTT
1 ATTAGTTTATTTCTTT
58245010 ATTAGTTTATTT
1 ATTAGTTTATTT
58245022 TATTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 8 0.33
16 13 0.54
17 3 0.12
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.71
Consensus pattern (16 bp):
ATTAGTTTATTTCTTT
Found at i:58248222 original size:30 final size:30
Alignment explanation
Indices: 58248181--58248237 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
58248171 TTTTCGGGCA
* *
58248181 TAGGGGTAAAATGGTAATTTTTCCAAAGTC
1 TAGGGGCAAAATGGTAATTTTACCAAAGTC
*
58248211 TAGGGGCAAAATGGTTATTTTACCAAA
1 TAGGGGCAAAATGGTAATTTTACCAAA
58248238 AATGTGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTTTACCAAAGTC
Found at i:58261317 original size:28 final size:28
Alignment explanation
Indices: 58261284--58261358 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
58261274 ATTGCATGAC
*
58261284 TATGAATGTTATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
58261312 TATGAATGTGATTGGGGCC-GATGGGCCA
1 TATGAATGTGATT-GGGCCTGATGGGCCA
*
58261340 TATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
58261359 AAAGGGGCCA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 5 0.12
28 33 0.77
29 5 0.12
ACGTcount: A:0.23, C:0.13, G:0.35, T:0.29
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:58262425 original size:17 final size:18
Alignment explanation
Indices: 58262392--58262425 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58262382 TCTTTTGATG
58262392 GGTTTTCAATGAAAATAA
1 GGTTTTCAATGAAAATAA
*
58262410 GGTTTTCGAT-AAAATA
1 GGTTTTCAATGAAAATA
58262426 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (18 bp):
GGTTTTCAATGAAAATAA
Found at i:58267070 original size:28 final size:28
Alignment explanation
Indices: 58267029--58267103 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
58267019 ATTGCATGAT
*
58267029 TATGAATGTTATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
58267057 TATGAATGTGATTGGGGCC-GATGGGCCA
1 TATGAATGTGATT-GGGCCTGATGGGCCA
* *
58267085 TTTGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
58267104 AAAGGGGCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 5 0.12
28 32 0.76
29 5 0.12
ACGTcount: A:0.21, C:0.13, G:0.35, T:0.31
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:58268171 original size:17 final size:18
Alignment explanation
Indices: 58268138--58268171 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58268128 TCTTTTGAAG
58268138 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
58268156 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
58268172 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:58270262 original size:26 final size:28
Alignment explanation
Indices: 58270219--58270271 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
58270209 TAAAAATAAA
58270219 AAAAAAAGTTGAAGAAG-A-TGAAACAG
1 AAAAAAAGTTGAAGAAGAAGTGAAACAG
58270245 AAAAAAAGTTAGAA-AAGAAGTGAAACA
1 AAAAAAAGTT-GAAGAAGAAGTGAAACA
58270272 ATTAGGGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 13 0.54
27 4 0.17
28 7 0.29
ACGTcount: A:0.64, C:0.04, G:0.21, T:0.11
Consensus pattern (28 bp):
AAAAAAAGTTGAAGAAGAAGTGAAACAG
Found at i:58271511 original size:37 final size:37
Alignment explanation
Indices: 58271429--58271500 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
58271419 AGCTCAGATG
* *
58271429 AAATCTCCACACAAAGTTATCAGGTCTTACCTGGACA
1 AAATCTCCACACAAAGTCATCAGGTCTTACCCGGACA
** *
58271466 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACAAAGTCATCAGGTCTTACCCGGA
58271501 ATATATCTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACAAAGTCATCAGGTCTTACCCGGACA
Found at i:58271698 original size:48 final size:48
Alignment explanation
Indices: 58271640--58272127 Score: 814
Period size: 48 Copynumber: 10.0 Consensus size: 48
58271630 ATATACACAC
* *
58271640 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACAACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
58271688 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
58271736 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
58271784 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
58271832 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
58271880 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
58271930 ATCTCATACATATTTCACACTAGCCATTCGGCTTTAGCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
58271978 ATCTCATACATATATTTCACATTAGCCATTCGGCTTTACCACAAATACAT
1 ATCTCATAC--ATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
58272028 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
58272078 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
58272126 AT
1 AT
58272128 ATTTATCTTG
Statistics
Matches: 417, Mismatches: 17, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
48 284 0.68
50 130 0.31
52 3 0.01
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:58271946 original size:98 final size:96
Alignment explanation
Indices: 58271640--58272127 Score: 823
Period size: 98 Copynumber: 5.0 Consensus size: 96
58271630 ATATACACAC
* *
58271640 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACAACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
58271705 CACTAGCCATTCGACTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
58271736 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
58271801 CACTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
58271832 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTT
58271897 CACATTAGCCATTCGGCTTTACCACATATACAT
64 CACATTAGCCATTCGGCTTTACCACATATACAT
*
58271930 ATCTCATACATATTTCACACTAGCCATTCGGCTTTAGCACATATACATATCTCATACATATATTT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC--ATATTT
*
58271995 CACATTAGCCATTCGGCTTTACCACAAATACAT
64 CACATTAGCCATTCGGCTTTACCACATATACAT
* *
58272028 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
58272093 CACATTAGCCATTCGGCTTTACCACATATACAT
64 CACATTAGCCATTCGGCTTTACCACATATACAT
58272126 AT
1 AT
58272128 ATTTATCTTG
Statistics
Matches: 372, Mismatches: 14, Indels: 10
0.94 0.04 0.03
Matches are distributed among these distances:
96 147 0.40
98 176 0.47
100 49 0.13
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (96 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATACAT
Found at i:58279046 original size:57 final size:57
Alignment explanation
Indices: 58278958--58279071 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
58278948 TGAAGAACTC
58278958 AAAGCTAATTTTTGTTGAACATTTTGTCGTGGAATGAGTTAATTGTATCCAAGTGGT
1 AAAGCTAATTTTTGTTGAACATTTTGTCGTGGAATGAGTTAATTGTATCCAAGTGGT
58279015 AAAGCTAATTTTTGTTGAACATTTTGTCGTGGAATGAGTTAATTGTATCCAAGTGGT
1 AAAGCTAATTTTTGTTGAACATTTTGTCGTGGAATGAGTTAATTGTATCCAAGTGGT
58279072 GCACCCACAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (57 bp):
AAAGCTAATTTTTGTTGAACATTTTGTCGTGGAATGAGTTAATTGTATCCAAGTGGT
Found at i:58279850 original size:2 final size:2
Alignment explanation
Indices: 58279839--58279913 Score: 91
Period size: 2 Copynumber: 38.0 Consensus size: 2
58279829 TGATCTTAAC
* * *
58279839 AT AT AT -T AT AT AT AT AC AT AT AT AT AT GT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
58279880 AT -T CAT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58279914 CAAGTAGTCG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
1 2 0.03
2 59 0.95
3 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58280920 original size:29 final size:29
Alignment explanation
Indices: 58280886--58280945 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
58280876 CATATTAAAA
58280886 TAGACTCATTAAGCTTCAATTTCATAACT
1 TAGACTCATTAAGCTTCAATTTCATAACT
58280915 TAGACTCATTAAGCTTCAATTTCATAACT
1 TAGACTCATTAAGCTTCAATTTCATAACT
58280944 TA
1 TA
58280946 CTCATCATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (29 bp):
TAGACTCATTAAGCTTCAATTTCATAACT
Found at i:58281441 original size:19 final size:20
Alignment explanation
Indices: 58281417--58281454 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58281407 GGTACCACCA
58281417 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
58281436 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
58281455 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:58281843 original size:93 final size:93
Alignment explanation
Indices: 58281684--58281854 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
58281674 GCCCCTAAGT
* * *
58281684 GAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
58281749 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
58281777 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
58281842 CGAGTTCGGATGC
66 CGAGTTCGGATGC
58281855 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:58281844 original size:46 final size:46
Alignment explanation
Indices: 58281679--58281851 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
58281669 AACCTGCCCC
* * * * * *
58281679 TAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
58281725 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
58281773 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
58281818 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
58281852 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.55
47 29 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:58281870 original size:46 final size:45
Alignment explanation
Indices: 58281729--58281870 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
58281719 CATCCATAAA
58281729 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
58281776 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
58281822 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
58281868 TGA
1 TGA
58281871 CATGTCACTT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:58285902 original size:22 final size:22
Alignment explanation
Indices: 58285874--58285997 Score: 74
Period size: 22 Copynumber: 5.4 Consensus size: 22
58285864 CTTACACATA
*
58285874 TATCACATTAACCATTCGGCCT
1 TATCACATTAGCCATTCGGCCT
* * *
58285896 TATCACATGTATGCACTTTC-ACAT
1 TATCACAT-TA-GC-CATTCGGCCT
*
58285920 TCATCACATTGGCCATTCGGCCT
1 T-ATCACATTAGCCATTCGGCCT
* *
58285943 TATCACATATA-CACACTTTC-ACAT
1 TATCACAT-TAGC-CA--TTCGGCCT
*
58285967 TCATCACATTGGCCATTCGGCCT
1 T-ATCACATTAGCCATTCGGCCT
58285990 TATCACAT
1 TATCACAT
58285998 ATACACACTT
Statistics
Matches: 76, Mismatches: 14, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
22 30 0.39
23 13 0.17
24 11 0.14
25 22 0.29
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.33
Consensus pattern (22 bp):
TATCACATTAGCCATTCGGCCT
Found at i:58285926 original size:47 final size:47
Alignment explanation
Indices: 58285830--58286032 Score: 286
Period size: 47 Copynumber: 4.3 Consensus size: 47
58285820 TGCACACTTT
* * * *
58285830 TCACAATTGGTCATTTGGCCTTATCACATAT--TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATACACACTTTCACAT-TCA
** * **
58285876 TCACATTAACCATTCGGCCTTATCACATGTATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
58285923 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
58285970 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
58286017 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
58286033 ATCTTAAGCT
Statistics
Matches: 142, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
45 21 0.15
46 5 0.04
47 116 0.82
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
Found at i:58289814 original size:10 final size:10
Alignment explanation
Indices: 58289796--58289825 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
58289786 GACAATGATT
*
58289796 TTATTATATG
1 TTATAATATG
58289806 TTATAATATG
1 TTATAATATG
58289816 TTATAATATG
1 TTATAATATG
58289826 CCTTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (10 bp):
TTATAATATG
Found at i:58292466 original size:31 final size:31
Alignment explanation
Indices: 58292431--58292595 Score: 253
Period size: 31 Copynumber: 5.3 Consensus size: 31
58292421 TATACTGGGT
*
58292431 CGAAGCCTTTCCATAAATCATATCACTGAGC
1 CGAAGCCTTTTCATAAATCATATCACTGAGC
58292462 CGAAGCCTTTTCATAAATCATATCACT-AGGC
1 CGAAGCCTTTTCATAAATCATATCACTGA-GC
* * *
58292493 TGAAGCCTTTTCATAAATCATATCACTGGGA
1 CGAAGCCTTTTCATAAATCATATCACTGAGC
58292524 CGAAGCCTTTTCATAAATCATATCACT-AGGC
1 CGAAGCCTTTTCATAAATCATATCACTGA-GC
*
58292555 CGAAGCCTTTTCATAAATCATATCACTGGGC
1 CGAAGCCTTTTCATAAATCATATCACTGAGC
58292586 CGAAGCCTTT
1 CGAAGCCTTT
58292596 ACTGTAAACG
Statistics
Matches: 122, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.01
31 121 0.99
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (31 bp):
CGAAGCCTTTTCATAAATCATATCACTGAGC
Found at i:58292508 original size:62 final size:62
Alignment explanation
Indices: 58292431--58292595 Score: 294
Period size: 62 Copynumber: 2.7 Consensus size: 62
58292421 TATACTGGGT
* *
58292431 CGAAGCCTTTCCATAAATCATATCACTGAGCCGAAGCCTTTTCATAAATCATATCACTAGGC
1 CGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTAGGC
* *
58292493 TGAAGCCTTTTCATAAATCATATCACTGGGACGAAGCCTTTTCATAAATCATATCACTAGGC
1 CGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTAGGC
58292555 CGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTT
1 CGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTT
58292596 ACTGTAAACG
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 97 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (62 bp):
CGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTAGGC
Found at i:58292591 original size:93 final size:92
Alignment explanation
Indices: 58292419--58292595 Score: 293
Period size: 93 Copynumber: 1.9 Consensus size: 92
58292409 TTAGTCTTGA
*
58292419 CATATACTGGGTCGAAGCCTTTCCATAAATCATATCACTGAGCCGAAGCCTTTTCATAAATCATA
1 CATATACTGGGACGAAGCCTTTCCATAAATCATATCACTGAGCCGAAGCCTTTTCATAAATCATA
*
58292484 TCACTAGGCTGAAGCCTTTTCATAAAT
66 TCACTAGGCCGAAGCCTTTTCATAAAT
*
58292511 CATATCACTGGGACGAAGCCTTTTCATAAATCATATCACT-AGGCCGAAGCCTTTTCATAAATCA
1 CATAT-ACTGGGACGAAGCCTTTCCATAAATCATATCACTGA-GCCGAAGCCTTTTCATAAATCA
*
58292575 TATCACTGGGCCGAAGCCTTT
64 TATCACTAGGCCGAAGCCTTT
58292596 ACTGTAAACG
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
92 6 0.08
93 73 0.92
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (92 bp):
CATATACTGGGACGAAGCCTTTCCATAAATCATATCACTGAGCCGAAGCCTTTTCATAAATCATA
TCACTAGGCCGAAGCCTTTTCATAAAT
Found at i:58292666 original size:42 final size:42
Alignment explanation
Indices: 58292619--58292710 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
58292609 TGGCCCTTAG
*
58292619 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
58292661 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
58292703 GCCCATTT
1 GCCCATTT
58292711 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:58292892 original size:25 final size:25
Alignment explanation
Indices: 58292859--58292928 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
58292849 CTCTTTTAAT
58292859 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
* *
58292884 AACTGGGGCAAAACCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
58292909 AACTGGGGTAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
58292929 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 35 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:58293768 original size:27 final size:27
Alignment explanation
Indices: 58293738--58293802 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
58293728 GGGCATATTC
58293738 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
58293765 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
* *
58293792 ATCTTTTTACC
1 GTCATTTTACC
58293803 TTTAGGGGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:58293885 original size:27 final size:27
Alignment explanation
Indices: 58293855--58293940 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
58293845 GTAAATCTAC
58293855 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
58293882 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* **
58293908 AGAAAGTCAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
58293938 AAA
1 AAA
58293941 TTAGGGGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.02
27 22 0.46
28 7 0.15
29 17 0.35
30 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:58293958 original size:27 final size:27
Alignment explanation
Indices: 58293918--58294101 Score: 174
Period size: 27 Copynumber: 6.8 Consensus size: 27
58293908 AGAAAGTCAA
* ** *
58293918 GGGTATTTTTGTAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
58293945 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * * * *
58293971 AAGGTATTTCGATAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* * *
58293999 TGGTATTTCGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
58294026 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* **
58294053 GGGTATTTTGGTAATTCTATCCTAC-AG
1 GGGTATTTTGGTAATTTTA-CAAACTAG
* *
58294080 GGGTATTTTAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTACAA
58294102 TCGAGGGTAA
Statistics
Matches: 130, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
26 3 0.02
27 123 0.95
28 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:58294117 original size:26 final size:25
Alignment explanation
Indices: 58294088--58294191 Score: 86
Period size: 27 Copynumber: 3.9 Consensus size: 25
58294078 AGGGGTATTT
*
58294088 TAGTAATTTCACAATCGAGGGTAAAA
1 TAGTAATTTTA-AATCGAGGGTAAAA
58294114 TAGTAATTTTGTAAA-CTGAGGGTAAAA
1 TAGTAA-TTT-TAAATC-GAGGGTAAAA
*
58294141 TGGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAA-TTT-TAAATCGAGGGTAAAA
*
58294168 T-GATAATTCTATAAATCGAAGGTA
1 TAG-TAATT-T-TAAATCGAGGGTA
58294192 CTTTGGTAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
26 10 0.15
27 56 0.82
28 2 0.03
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (25 bp):
TAGTAATTTTAAATCGAGGGTAAAA
Found at i:58294134 original size:27 final size:27
Alignment explanation
Indices: 58294100--58294191 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
58294090 GTAATTTCAC
58294100 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
*
58294127 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATAGTAATTTTGTA
* *
58294154 AATCGAGGGTAAAAT-GATAATTCTATA
1 AATCGAGGGTAAAATAG-TAATTTTGTA
*
58294181 AATCGAAGGTA
1 AATCGAGGGTA
58294192 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
26 2 0.03
27 55 0.95
28 1 0.02
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTTTGTA
Found at i:58294214 original size:54 final size:53
Alignment explanation
Indices: 58294081--58294216 Score: 125
Period size: 54 Copynumber: 2.5 Consensus size: 53
58294071 ATCCTACAGG
* * * * * *
58294081 GGTATTTTAGTAATTTCACAATCGAGGGTAAAATAGTAATTTTGTAAACTGAG
1 GGTAATTTGGTAATTTTACAATCGAGGGTAAAATAGTAATTCTATAAACTGAA
**
58294134 GGTAAAATGGTAATTTTGTA-AATCGAGGGTAAAAT-GATAATTCTATAAA-TCGAA
1 GGTAATTTGGTAA-TTT-TACAATCGAGGGTAAAATAG-TAATTCTATAAACT-GAA
*
58294188 GGTACTTTGGTAATTTTACAAGTCGAGGG
1 GGTAATTTGGTAATTTTACAA-TCGAGGG
58294217 CATTTCAATA
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
52 2 0.03
53 16 0.24
54 47 0.71
55 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (53 bp):
GGTAATTTGGTAATTTTACAATCGAGGGTAAAATAGTAATTCTATAAACTGAA
Found at i:58299370 original size:45 final size:45
Alignment explanation
Indices: 58299319--58299408 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
58299309 TATATACACA
58299319 TAGTTAAAAACCACTTTAATAAAAATTAAATTACCCATCTTCAAG
1 TAGTTAAAAACCACTTTAATAAAAATTAAATTACCCATCTTCAAG
* *
58299364 TAGTTAAAAACCACTTTAATAAAACTTAAATTACTCATCTTCAAG
1 TAGTTAAAAACCACTTTAATAAAAATTAAATTACCCATCTTCAAG
58299409 CGAAAATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (45 bp):
TAGTTAAAAACCACTTTAATAAAAATTAAATTACCCATCTTCAAG
Found at i:58300576 original size:10 final size:10
Alignment explanation
Indices: 58300558--58300587 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
58300548 GAGAATGATT
*
58300558 TTATTATATG
1 TTATAATATG
58300568 TTATAATATG
1 TTATAATATG
58300578 TTATAATATG
1 TTATAATATG
58300588 CCTTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (10 bp):
TTATAATATG
Found at i:58302261 original size:40 final size:40
Alignment explanation
Indices: 58302231--58302398 Score: 203
Period size: 40 Copynumber: 4.2 Consensus size: 40
58302221 GGACTAAGAT
* *
58302231 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
58302271 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** * *
58302311 CCGAAGGCATTCGTGCGAGTTGTTGAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
58302351 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
58302390 CCGAAGGCA
1 CCGAAGGCA
58302399 CTTGAACGAG
Statistics
Matches: 115, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 31 0.27
40 84 0.73
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:58302315 original size:80 final size:79
Alignment explanation
Indices: 58302178--58302398 Score: 237
Period size: 80 Copynumber: 2.8 Consensus size: 79
58302168 TTGAATGCTG
* * * * * * *
58302178 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
*
58302242 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* *
58302258 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTC
* ** *
58302323 GTGCGAGTTGTTGAA
65 GTGCGAGATACTAAA
* * * * *
58302338 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCA
58302399 CTTGAACGAG
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
79 33 0.28
80 82 0.69
81 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:58302420 original size:79 final size:80
Alignment explanation
Indices: 58302256--58302435 Score: 197
Period size: 79 Copynumber: 2.3 Consensus size: 80
58302246 CGAGATACTA
* * *
58302256 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
1 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** ** *
58302321 TCGTGCGAGTTGTTG
66 TCGAACGAGGAGCTG
* * *
58302336 AATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCAC
1 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA-
58302400 TT-GAACGAGGAGCT-
65 TTCGAACGAGGAGCTG
* *
58302414 ATATCC-GGTTAAATTCCGAAGG
1 A-ATCCGGGTTAAGTCCCGAAGG
58302436 TACGTGATTT
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
78 14 0.17
79 43 0.51
80 27 0.32
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
TCGAACGAGGAGCTG
Found at i:58306380 original size:29 final size:29
Alignment explanation
Indices: 58306346--58306419 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 29
58306336 TTATTCAAAT
* **
58306346 GGCCCAGTTCATATTCTTATGGCCCACTA
1 GGCCCAATTCATATTAATATGGCCCACTA
** *
58306375 GGCCCAATTCACCTTAATATGGCCCATTA
1 GGCCCAATTCATATTAATATGGCCCACTA
*
58306404 GGCCCAAATCATATTA
1 GGCCCAATTCATATTA
58306420 TACTCATGCT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
GGCCCAATTCATATTAATATGGCCCACTA
Found at i:58312143 original size:10 final size:10
Alignment explanation
Indices: 58312125--58312154 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
58312115 GAGAATGATT
*
58312125 TTATTATATG
1 TTATAATATG
58312135 TTATAATATG
1 TTATAATATG
58312145 TTATAATATG
1 TTATAATATG
58312155 CCTTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (10 bp):
TTATAATATG
Found at i:58316066 original size:23 final size:23
Alignment explanation
Indices: 58316009--58316113 Score: 75
Period size: 23 Copynumber: 4.5 Consensus size: 23
58315999 CTTATCAAAG
* * *
58316009 TATGCCACAAGGGCCAAATAGAA
1 TATGCCATAAAGGCTAAATAGAA
** * *
58316032 TACACCACAAAGGCTAAATAGAT
1 TATGCCATAAAGGCTAAATAGAA
* * *
58316055 TATGCCATAAAGACCAGATAGAA
1 TATGCCATAAAGGCTAAATAGAA
* * *
58316078 GTATGCCAGAAAGGCTATATTGAA
1 -TATGCCATAAAGGCTAAATAGAA
*
58316102 TATGCCTTAAAG
1 TATGCCATAAAG
58316114 CAATTACTAC
Statistics
Matches: 62, Mismatches: 19, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
23 44 0.71
24 18 0.29
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (23 bp):
TATGCCATAAAGGCTAAATAGAA
Found at i:58320260 original size:47 final size:44
Alignment explanation
Indices: 58320192--58320454 Score: 179
Period size: 47 Copynumber: 5.6 Consensus size: 44
58320182 TTTGTGGGCT
*
58320192 AGTGTAAGACATGTCTGGGACATGTATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGA-AGCC
* * * *
58320238 AGTGTAAGACCATGTCTGGGACATGACATCGG-TATTGAGATGAAAGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCA--CATATG-AAGCC
* * * * *
58320286 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGTAAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATG-AAGCC
* * * * * *
58320332 AGTGTAAGACATGTATGGGACATGCATCAGCTACAAGATAATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATGA-AGCC
* * * *
58320378 AGTGTAAGACCATGTCTGGGACATGGAATCGACTTGAGATATGAA-CC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--CACATATGAAGCC
58320425 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
58320455 AGCATCTTAC
Statistics
Matches: 172, Mismatches: 33, Indels: 23
0.75 0.14 0.10
Matches are distributed among these distances:
45 1 0.01
46 65 0.38
47 73 0.42
48 26 0.15
49 6 0.03
50 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGAAGCC
Found at i:58320447 original size:140 final size:141
Alignment explanation
Indices: 58320192--58320454 Score: 340
Period size: 140 Copynumber: 1.9 Consensus size: 141
58320182 TTTGTGGGCT
* * * ** *
58320192 AGTGTAAGACATGTCTGGGACATGTATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTATGGGACATGCATCAGCCACAAGATAAGAGCCAGTGTAAGACCATGTCTGG
*
58320257 GACATGACATCGGTATTGAGATGAAAGCTAGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCG
66 GACATGACATCGGTATTGAGATGAAAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTCG
58320321 AGACGTAAACC
131 AGACGTAAACC
* * *
58320332 AGTGTAAGACATGTATGGGACATGCATCAGCTACAAGATAATAGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTATGGGACATGCATCAGCCACAAGATAAGAGCCAGTGTAAGACCATGTCTGG
*
58320397 GACATGGA-ATC-G-ACTTGAGAT-ATGAA-CCAGTGTAAGACCATGTCTGGGACATGGCATC
66 GACAT-GACATCGGTA-TTGAGATGA--AAGCCAGTGTAAGA-CATGTCTAGGACATGGCATC
58320455 AGCATCTTAC
Statistics
Matches: 106, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
138 2 0.02
139 18 0.17
140 79 0.75
141 7 0.07
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTATGGGACATGCATCAGCCACAAGATAAGAGCCAGTGTAAGACCATGTCTGG
GACATGACATCGGTATTGAGATGAAAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTCG
AGACGTAAACC
Found at i:58323492 original size:27 final size:27
Alignment explanation
Indices: 58323462--58323573 Score: 154
Period size: 27 Copynumber: 4.1 Consensus size: 27
58323452 TGACAAAGTG
58323462 ACCAGATACAGATA-TTGTGGCAGAGCC
1 ACCAGA-ACAGATATTTGTGGCAGAGCC
* *
58323489 ACCAGAACAGATGTTTGTGGCAGACCC
1 ACCAGAACAGATATTTGTGGCAGAGCC
* *
58323516 ACCAGAACAGGTATTTGTGGCAGAGTC
1 ACCAGAACAGATATTTGTGGCAGAGCC
* *
58323543 ACCAGAACAGATATTTGTAGTAGAGCC
1 ACCAGAACAGATATTTGTGGCAGAGCC
58323570 ACCA
1 ACCA
58323574 AAACGCTTCC
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 6 0.08
27 68 0.92
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (27 bp):
ACCAGAACAGATATTTGTGGCAGAGCC
Found at i:58331872 original size:8 final size:8
Alignment explanation
Indices: 58331855--58331887 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
58331845 TCACAAAATG
58331855 TCGGCTTT
1 TCGGCTTT
*
58331863 TCGGCATT
1 TCGGCTTT
58331871 TCGGCTTT
1 TCGGCTTT
58331879 TCGGCTTT
1 TCGGCTTT
58331887 T
1 T
58331888 GCCGATCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.03, C:0.24, G:0.24, T:0.48
Consensus pattern (8 bp):
TCGGCTTT
Found at i:58339242 original size:47 final size:45
Alignment explanation
Indices: 58339174--58339440 Score: 184
Period size: 47 Copynumber: 5.7 Consensus size: 45
58339164 TTTGTGGGCT
58339174 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCACA-TATGA-AGCC
* * * * ** *
58339220 AGTGTAAGACCATGTCTGGGACATGGCATTGG-TATTGAGACCAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCA--CATATGA-AGCC
* * * *
58339268 AGTGTAAGACATGTCTGGGACAT-GCATCGACCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-ATATG-AAGCC
* * * *
58339314 AGTGTAAGACATGTATGGGACAT-GCATCGGCTACGAGATGATTAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-ATATGA--AGCC
* * * *
58339361 AATGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAA-CC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC--CACATATGAAGCC
*
58339408 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC
58339441 ACCTTACCCA
Statistics
Matches: 178, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
45 1 0.01
46 56 0.31
47 72 0.40
48 35 0.20
49 8 0.04
50 5 0.03
51 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATATGAAGCC
Found at i:58341789 original size:49 final size:47
Alignment explanation
Indices: 58341677--58341943 Score: 160
Period size: 48 Copynumber: 5.7 Consensus size: 47
58341667 GGGATAAGAT
* * * ** *
58341677 GCCGACGTCATGTCCTAGACATGGTCTTACACTGGCTAGCA-TATTAAA
1 GCCGATGTCATGTCCCAGACA-GGTCTTACACTGACTTTCACTA-TCAA
* **
58341725 GTCGATGTTGTGTCCCAGACAGGTCTTACACTGACTTTCATCTATCGAA
1 GCCGATGTCATGTCCCAGACAGGTCTTACACTGACTTTCA-CTATC-AA
* *
58341774 GCCGATGTCATGTCCCAGACAGGTCTTACACTGAC--ACAC-AACAA
1 GCCGATGTCATGTCCCAGACAGGTCTTACACTGACTTTCACTATCAA
* * * * *
58341818 GCTGATGCCATGTCCTAGACAAGTCTTACACT-AGCTTGT-A-TATCCTGAG
1 GCCGATGTCATGTCCCAGACAGGTCTTACACTGA-CTT-TCACTAT-C--AA
** * * *
58341867 GCTAATG-CATGTCCCAGACATGTCTTACACT-AGCTCTCA-TCTCAA
1 GCCGATGTCATGTCCCAGACAGGTCTTACACTGA-CTTTCACTATCAA
*
58341912 TGCCGATG-CATGTCCCAGACATGTCTTACACT
1 -GCCGATGTCATGTCCCAGACAGGTCTTACACT
58341944 AGCTCACATT
Statistics
Matches: 177, Mismatches: 29, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 31 0.18
45 3 0.02
46 32 0.18
47 21 0.12
48 46 0.26
49 43 0.24
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGTCATGTCCCAGACAGGTCTTACACTGACTTTCACTATCAA
Found at i:58351571 original size:48 final size:48
Alignment explanation
Indices: 58351328--58351595 Score: 226
Period size: 48 Copynumber: 5.6 Consensus size: 48
58351318 GAGTCCCGTA
* * ** * * *
58351328 TAAGACCATATCTGGGATATGGCATCAGCATTGATATATGATCCCATA
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * *
58351376 TAATACCATGTCTGGGACATGGCATTGGCATCGTTATGTGATCCCATA
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * *
58351424 TCAGACCATGTCTGGGACATGGCATTGGCATCGATATGAG-TACATCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGAT-C-CCATG
* * * *
58351473 TAAGACCATAGT-TGGG-CTATCAGC-TTCG-AT-G-TGTGTGATCCTATG
1 TAAGACCAT-GTCTGGGAC-AT-GGCATTGGCATCGATATGTGATCCCATG
* **
58351518 TAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGGCCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * * *
58351566 TAAGACCATATCCGAGATATGGCATTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
58351596 CCCTACTATG
Statistics
Matches: 175, Mismatches: 33, Indels: 24
0.75 0.14 0.10
Matches are distributed among these distances:
44 4 0.02
45 20 0.11
46 8 0.05
47 4 0.02
48 115 0.66
49 20 0.11
50 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
Found at i:58358280 original size:54 final size:54
Alignment explanation
Indices: 58358107--58358315 Score: 203
Period size: 54 Copynumber: 3.9 Consensus size: 54
58358097 TATCCTTTTG
* * * * *
58358107 AAACTTACC-ATTGCCATGTCTCGAAATGGTCTTACATGGTATCCTTGCCTTAT
1 AAACTTACCAATTGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTAT
* * * * * * *
58358160 GAACTCACCAA-TGCCATGCCTTGGCATGGTCTTTCATGGACAT--TTGCCATAT
1 AAACTTACCAATTGCCATGCCTTGACATGGTCTTACAT-GATATCCTTACCTTAT
* *
58358212 AGTAACTTATCAATT-CCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAT
1 A--AACTTACCAATTGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTAT
* *
58358267 AAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTA
1 AAA-CTTACCAATTGCCATGCCTTGACATGGTCTTACATGATATCCTTA
58358316 AACCCTAATG
Statistics
Matches: 124, Mismatches: 23, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
52 8 0.06
53 34 0.27
54 42 0.34
55 40 0.32
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (54 bp):
AAACTTACCAATTGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTAT
Found at i:58366243 original size:17 final size:19
Alignment explanation
Indices: 58366221--58366261 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
58366211 GGTTCATTAT
58366221 TGATTTATAT-TT-TAATA
1 TGATTTATATATTATAATA
*
58366238 TGATTTATATATTATATTA
1 TGATTTATATATTATAATA
58366257 TGATT
1 TGATT
58366262 AAAAAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 2 0.10
19 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (19 bp):
TGATTTATATATTATAATA
Found at i:58371258 original size:29 final size:29
Alignment explanation
Indices: 58371186--58371296 Score: 91
Period size: 29 Copynumber: 3.9 Consensus size: 29
58371176 TGAATGTGAC
* * * *
58371186 TGGGCCTAGTGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCAGATACAGGTGATT
* *
58371215 TGGGCCTGATAGGCCAGATACAGGTGATT
1 TGGGCCTAATGGGCCAGATACAGGTGATT
* ** **
58371244 TGGGACTAATGGGCCCTATGA-ATATGA-T
1 TGGGCCTAATGGGCCAGAT-ACAGGTGATT
*
58371272 TGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAATGGGCCAGATACAGGT
58371297 ATGTGAATTT
Statistics
Matches: 61, Mismatches: 19, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
27 1 0.02
28 18 0.30
29 41 0.67
30 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:58374090 original size:15 final size:16
Alignment explanation
Indices: 58374070--58374099 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58374060 GATCAACTAC
58374070 TTAACAT-ATATGTGG
1 TTAACATAATATGTGG
58374085 TTAACATAATATGTG
1 TTAACATAATATGTG
58374100 TAATAGCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (16 bp):
TTAACATAATATGTGG
Found at i:58375425 original size:69 final size:70
Alignment explanation
Indices: 58375293--58375425 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 70
58375283 TAGTTTATTA
* * * * *
58375293 CTAATTAATTTCCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATCCTGCTGTAATACTGTAAATTATTGGATGTCCAAATTAGGACAAAATCATGGTA
58375358 CTTAG
66 CTTAG
*
58375363 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGATGTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATCCTGCTGTAATACTGTAAATTATTGGATGTCCAAATTAGGACAAAATCATGGT
58375426 GTTATGTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 35 0.61
70 22 0.39
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATCCTGCTGTAATACTGTAAATTATTGGATGTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:58376220 original size:39 final size:39
Alignment explanation
Indices: 58376166--58376419 Score: 361
Period size: 39 Copynumber: 6.5 Consensus size: 39
58376156 TAATGGAGAA
58376166 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
58376205 TTATATCCGGGCTAAGTCTCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
58376244 TTATATCCGGGCTAAGTCTCGAAGGCA-TCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
58376282 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTCGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
58376321 TTATAT-CGAGTTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
58376359 TTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
58376398 TTATATTCGGGCTTAAAGTCCC
1 TTATATCCGGGC-T-AAGTCCC
58376420 ACATGCTTTG
Statistics
Matches: 197, Mismatches: 14, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
38 71 0.36
39 106 0.54
40 20 0.10
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:58376297 original size:77 final size:78
Alignment explanation
Indices: 58376166--58376419 Score: 361
Period size: 77 Copynumber: 3.3 Consensus size: 78
58376156 TAATGGAGAA
*
58376166 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCTCGAAGGC
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGC
58376231 ATTCGTGCTGGTG
66 ATTCGTGCTGGTG
* *
58376244 TTATATCCGGGCTAAGTCTCGAAGGCA-TCGTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGC
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGC
*
58376308 ATTCGTGCTCGTG
66 ATTCGTGCTGGTG
* * * *
58376321 TTATAT-CGAGTTAAGCCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGTAGG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCT-AAGTCCCGAAGG
* *
58376385 C-TTTGTGCTGGTA
65 CATTCGTGCTGGTG
*
58376398 TTATATTCGGGCTTAAAGTCCC
1 TTATATCCGGGC-T-AAGTCCC
58376420 ACATGCTTTG
Statistics
Matches: 155, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
76 16 0.10
77 92 0.59
78 40 0.26
79 1 0.01
80 6 0.04
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (78 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGC
ATTCGTGCTGGTG
Found at i:58376377 original size:116 final size:116
Alignment explanation
Indices: 58376165--58376410 Score: 368
Period size: 116 Copynumber: 2.1 Consensus size: 116
58376155 ATAATGGAGA
* * * * *
58376165 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCTCGAAGG
1 ATTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTCGTGTTATATCCGAGCTAAGCCCCGAAGG
*
58376230 CATTCGTGCTGGTGTTATATCCGGGCTAAGTCTCGAAGGCATCGTGCTGGT
66 CATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATCGTGCTGGT
* *
58376281 GTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTCGTGTTATAT-CGAGTTAAGCCCCGAAGG
1 ATTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTCGTGTTATATCCGAGCTAAGCCCCGAAGG
* * *
58376345 CATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGTAGGCTTTGTGCTGGT
66 CATTCGTGCTGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATCGTGCTGGT
*
58376397 ATTATATTCGGGCT
1 ATTATATCCGGGCT
58376411 TAAAGTCCCA
Statistics
Matches: 116, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
115 41 0.35
116 75 0.65
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (116 bp):
ATTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTCGTGTTATATCCGAGCTAAGCCCCGAAGG
CATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATCGTGCTGGT
Found at i:58382199 original size:41 final size:41
Alignment explanation
Indices: 58382142--58382228 Score: 156
Period size: 41 Copynumber: 2.1 Consensus size: 41
58382132 TTGCTTTGTC
58382142 TCACTACATAAAATCACAATCTAATCCCATTTAATAATACA
1 TCACTACATAAAATCACAATCTAATCCCATTTAATAATACA
* *
58382183 TCACTACATCAAATCACAATCTAATCCCATTTAATAATGCA
1 TCACTACATAAAATCACAATCTAATCCCATTTAATAATACA
58382224 TCACT
1 TCACT
58382229 GTAATAACAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.43, C:0.26, G:0.01, T:0.30
Consensus pattern (41 bp):
TCACTACATAAAATCACAATCTAATCCCATTTAATAATACA
Found at i:58386029 original size:47 final size:47
Alignment explanation
Indices: 58385942--58386109 Score: 246
Period size: 47 Copynumber: 3.6 Consensus size: 47
58385932 CCCTTCGGGA
* * * * * * *
58385942 CTTATCACATTTATACAGTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
58385989 CCTGTTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58386036 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58386083 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
58386110 ACCAACCATT
Statistics
Matches: 108, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 108 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58388061 original size:27 final size:26
Alignment explanation
Indices: 58388028--58388205 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 26
58388018 TAAATTGTAC
58388028 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * * *
58388055 TGTACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
58388081 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
58388109 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
58388137 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
58388164 AGCACTAAGTGTGCGAGTTTATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
58388191 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58388206 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:58388146 original size:82 final size:81
Alignment explanation
Indices: 58388029--58388179 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
58388019 AAATTGTACA
* * * *
58388029 GCACTAAGTGTGCGATTCGACTATGTTGTACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
58388093 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
58388110 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
58388175 TGCGA
65 TGCGA
58388180 GTTTATTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 17 0.28
82 43 0.70
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:58388216 original size:27 final size:27
Alignment explanation
Indices: 58388110--58388216 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
58388100 TGACCATGCG
* * *
58388110 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
58388138 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
58388165 GCACTAAGTGTGCGAGTTTATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
58388192 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
58388217 CATTCGTGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
27 51 0.77
28 15 0.23
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:58396097 original size:27 final size:26
Alignment explanation
Indices: 58396064--58396241 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 26
58396054 TAAATTGTAC
58396064 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * * *
58396091 TGTACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
58396117 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
58396145 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
58396173 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
58396200 AGCACTAAGTGTGCGAGTTTATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
58396227 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58396242 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:58396182 original size:82 final size:81
Alignment explanation
Indices: 58396065--58396215 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
58396055 AAATTGTACA
* * * *
58396065 GCACTAAGTGTGCGATTCGACTATGTTGTACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
58396129 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
58396146 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
58396211 TGCGA
65 TGCGA
58396216 GTTTATTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 17 0.28
82 43 0.70
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:58396252 original size:27 final size:27
Alignment explanation
Indices: 58396146--58396252 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
58396136 TGACCATGCG
* * *
58396146 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
58396174 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
58396201 GCACTAAGTGTGCGAGTTTATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
58396228 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
58396253 CATTCGTGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
27 51 0.77
28 15 0.23
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:58397670 original size:39 final size:40
Alignment explanation
Indices: 58397599--58397740 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
58397589 CATACTCGTT
* *
58397599 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
58397639 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
58397678 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
58397719 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
58397741 AGACATCATT
Statistics
Matches: 87, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.36
40 41 0.47
41 12 0.14
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:58405555 original size:70 final size:70
Alignment explanation
Indices: 58405442--58405582 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
58405432 AAATTGACCG
58405442 ATACTAAGATATACTAACAAGGGTTTTTGTCAAAACCTTGGATAATATTAACAGTGTTCCTTAAA
1 ATACTAAGATATACTAACAAGGGTTTTTGTCAAAACCTTGGATAATATTAACAGTGTTCCTTAAA
58405507 TCTAA
66 TCTAA
58405512 ATACTAAGATATACTAACAAGGGTTTTTGTCAAAACCTTGGATAATATTAACAGTGTTCCTTAAA
1 ATACTAAGATATACTAACAAGGGTTTTTGTCAAAACCTTGGATAATATTAACAGTGTTCCTTAAA
58405577 TCTAA
66 TCTAA
58405582 A
1 A
58405583 GCCAGCGTAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (70 bp):
ATACTAAGATATACTAACAAGGGTTTTTGTCAAAACCTTGGATAATATTAACAGTGTTCCTTAAA
TCTAA
Found at i:58405564 original size:34 final size:34
Alignment explanation
Indices: 58405456--58405564 Score: 98
Period size: 34 Copynumber: 3.1 Consensus size: 34
58405446 TAAGATATAC
58405456 TAACAAGGGTTTTTGTCAAAACCTTGGATAATAT
1 TAACAAGGGTTTTTGTCAAAACCTTGGATAATAT
* ** ** *
58405490 TAAC-AGTGTTCCTTAAATCTAAATA-CTAAGAT-ATAC
1 TAACAAGGGTT--TT-TGTC-AAA-ACCTTGGATAATAT
58405526 TAACAAGGGTTTTTGTCAAAACCTTGGATAATAT
1 TAACAAGGGTTTTTGTCAAAACCTTGGATAATAT
58405560 TAACA
1 TAACA
58405565 GTGTTCCTTA
Statistics
Matches: 55, Mismatches: 12, Indels: 16
0.66 0.14 0.19
Matches are distributed among these distances:
32 1 0.02
33 13 0.24
34 14 0.25
35 4 0.07
36 9 0.16
37 13 0.24
38 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (34 bp):
TAACAAGGGTTTTTGTCAAAACCTTGGATAATAT
Found at i:58406792 original size:26 final size:26
Alignment explanation
Indices: 58406763--58406832 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
58406753 ACAATTAATT
*
58406763 AATTTTTAATTTTTTTAATTTAAAAA
1 AATTTTTAATATTTTTAATTTAAAAA
* * * *
58406789 AA-TTATGATATTTTT-ATTTTATAA
1 AATTTTTAATATTTTTAATTTAAAAA
58406813 AATTTTTAAATATTTTTAAT
1 AATTTTT-AATATTTTTAAT
58406833 AACTTTCCCT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
24 9 0.26
25 13 0.38
26 10 0.29
27 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (26 bp):
AATTTTTAATATTTTTAATTTAAAAA
Found at i:58409756 original size:47 final size:47
Alignment explanation
Indices: 58409687--58409780 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
58409677 TTACCACGGC
58409687 TCACAATGCAAATGTAATATATATATTTATTAAAAGTTTATGTAAAA
1 TCACAATGCAAATGTAATATATATATTTATTAAAAGTTTATGTAAAA
58409734 TCACAATGCAAATGTAATATATATATTTATTAAAAGTTTATGTAAAA
1 TCACAATGCAAATGTAATATATATATTTATTAAAAGTTTATGTAAAA
58409781 ATCAAGAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (47 bp):
TCACAATGCAAATGTAATATATATATTTATTAAAAGTTTATGTAAAA
Found at i:58411283 original size:18 final size:17
Alignment explanation
Indices: 58411260--58411304 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
58411250 TTTTTAAAAA
58411260 TATAAAATTTGAAATTTT
1 TATAAAATTTG-AATTTT
58411278 TATAAATATTTTGAATTTT
1 TATAAA-A-TTTGAATTTT
58411297 TA-AAAATT
1 TATAAAATT
58411305 ATTTTGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.08
17 1 0.04
18 9 0.36
19 9 0.36
20 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (17 bp):
TATAAAATTTGAATTTT
Found at i:58411288 original size:19 final size:18
Alignment explanation
Indices: 58411260--58411314 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
58411250 TTTTTAAAAA
58411260 TATAAA-ATTTGAAATTTT
1 TATAAATATTTG-AATTTT
58411278 TATAAATATTTTGAATTTT
1 TATAAATA-TTTGAATTTT
*
58411297 TAAAAATTATTTTGAATT
1 TATAAA-TA-TTTGAATT
58411315 ATTTTGTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 6 0.18
19 12 0.36
20 15 0.45
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
TATAAATATTTGAATTTT
Found at i:58411292 original size:20 final size:21
Alignment explanation
Indices: 58411267--58411312 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
58411257 AAATATAAAA
*
58411267 TTTGAAATTTTTATAAA-TAT
1 TTTGAAATTTTTAAAAATTAT
58411287 TTTG-AATTTTTAAAAATTAT
1 TTTGAAATTTTTAAAAATTAT
58411307 TTTGAA
1 TTTGAA
58411313 TTATTTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 11 0.48
20 11 0.48
21 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (21 bp):
TTTGAAATTTTTAAAAATTAT
Found at i:58411313 original size:20 final size:19
Alignment explanation
Indices: 58411267--58411314 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
58411257 AAATATAAAA
*
58411267 TTTGAAATTTTTATAAATAT
1 TTTG-AATTTTTAAAAATAT
58411287 TTTGAATTTTTAAAAATTAT
1 TTTGAATTTTTAAAAA-TAT
58411307 TTTGAATT
1 TTTGAATT
58411315 ATTTTGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (19 bp):
TTTGAATTTTTAAAAATAT
Found at i:58411410 original size:9 final size:9
Alignment explanation
Indices: 58411396--58411426 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
58411386 CACCAATATC
58411396 TTATTCGAA
1 TTATTCGAA
*
58411405 TTATTCGAG
1 TTATTCGAA
58411414 TTATTCGAA
1 TTATTCGAA
58411423 TTAT
1 TTAT
58411427 GAAATTCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATTCGAA
Found at i:58411816 original size:17 final size:18
Alignment explanation
Indices: 58411796--58411839 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
58411786 AAAAATTTTA
58411796 AAAATAATAAACTTT-CT
1 AAAATAATAAACTTTCCT
* *
58411813 AAAATATAAAAAGTTTCCT
1 AAAATA-ATAAACTTTCCT
58411832 AAAATAAT
1 AAAATAAT
58411840 TTAAAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 6 0.27
18 8 0.36
19 8 0.36
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAATAATAAACTTTCCT
Found at i:58411833 original size:19 final size:19
Alignment explanation
Indices: 58411794--58411837 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
58411784 CAAAAAATTT
58411794 TAAAA-ATAATAAACTTTC
1 TAAAATATAATAAACTTTC
*
58411812 TAAAATATAA-AAAGTTTCC
1 TAAAATATAATAAACTTT-C
58411831 TAAAATA
1 TAAAATA
58411838 ATTTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (19 bp):
TAAAATATAATAAACTTTC
Found at i:58413577 original size:19 final size:20
Alignment explanation
Indices: 58413537--58413578 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
58413527 TCGTAAACCG
58413537 ATTAAGATAAAGTTTATATT
1 ATTAAGATAAAGTTTATATT
58413557 ATTAAGATAAAGTTT-TATT
1 ATTAAGATAAAGTTTATATT
58413576 ATT
1 ATT
58413579 GCATGTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (20 bp):
ATTAAGATAAAGTTTATATT
Found at i:58421614 original size:13 final size:13
Alignment explanation
Indices: 58421590--58421614 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58421580 CGGCCGTGCG
58421590 ACACGACCGTGTA
1 ACACGACCGTGTA
58421603 ACACGACCGTGT
1 ACACGACCGTGT
58421615 GAACCCACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGACCGTGTA
Found at i:58427638 original size:18 final size:18
Alignment explanation
Indices: 58427615--58427649 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58427605 CAGAAAAATC
58427615 CAAACAAAAACACATTTT
1 CAAACAAAAACACATTTT
**
58427633 CAAACAACCACACATTT
1 CAAACAAAAACACATTT
58427650 ATACAAGTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (18 bp):
CAAACAAAAACACATTTT
Found at i:58430304 original size:28 final size:28
Alignment explanation
Indices: 58430272--58430336 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
58430262 ATTTACTAGA
* *
58430272 ATACCCCTTTGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
58430300 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
58430328 ATACCCCTA
1 ATACCCCTA
58430337 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:58430982 original size:19 final size:19
Alignment explanation
Indices: 58430958--58430996 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
58430948 TTTTAATTAT
* *
58430958 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
58430977 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
58430996 T
1 T
58430997 ATGAAGAAAA
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:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:58444573 original size:76 final size:76
Alignment explanation
Indices: 58444487--58444640 Score: 272
Period size: 76 Copynumber: 2.0 Consensus size: 76
58444477 GTAGAGTCTG
* *
58444487 ATTCAGAGTTGATAACGATGATTTCTTGAGATTTTGAGATCAAATTTGTATTCTAAGAAATCCAG
1 ATTCAGAGTTGATAAAGATGATTTCTTGAGATTTTGAGATCAAATTTGTATTCCAAGAAATCCAG
58444552 AGTTAATTCAA
66 AGTTAATTCAA
* *
58444563 ATTCAGAGTTGATAAAGATGATTTCTTGAGATTTTGAGATCGAATTTGTATTCCGAGAAATCCAG
1 ATTCAGAGTTGATAAAGATGATTTCTTGAGATTTTGAGATCAAATTTGTATTCCAAGAAATCCAG
58444628 AGTTAATTCAA
66 AGTTAATTCAA
58444639 AT
1 AT
58444641 GATTCTAGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.36
Consensus pattern (76 bp):
ATTCAGAGTTGATAAAGATGATTTCTTGAGATTTTGAGATCAAATTTGTATTCCAAGAAATCCAG
AGTTAATTCAA
Found at i:58449196 original size:29 final size:28
Alignment explanation
Indices: 58449108--58449222 Score: 113
Period size: 29 Copynumber: 4.0 Consensus size: 28
58449098 TTCATGTATC
* * *
58449108 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTTATA
* * *
58449136 TGGCCCATTAGGCTCAAATCACCTGTATA
1 TGGCCCATTAGGC-CCAATCACATTTATA
*
58449165 TGGCCCATTAGGCCCAAATCACATTTAAA
1 TGGCCCATTAGGCCC-AATCACATTTATA
* * * *
58449194 TGGACCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTTATA
58449222 T
1 T
58449223 TCATGCTCAC
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
28 24 0.34
29 46 0.66
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTTATA
Found at i:58453689 original size:29 final size:29
Alignment explanation
Indices: 58453632--58453731 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 29
58453622 TACCTATATT
* * *
58453632 TGGCCCATTAAGCCC-AATCATATTTATA
1 TGGCCCATTAGGCCCAAATCACATGTATA
* * *
58453660 TGGCTCATTAGGCCCGAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACATGTATA
*
58453689 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATGTATA
*
58453718 TGGCCCGTTAGGCC
1 TGGCCCATTAGGCC
58453732 TAGTCACATT
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 13 0.21
29 48 0.79
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATGTATA
Found at i:58453696 original size:57 final size:58
Alignment explanation
Indices: 58453623--58453731 Score: 157
Period size: 58 Copynumber: 1.9 Consensus size: 58
58453613 AGATTCACAT
* * *
58453623 ACCTATATTTGGCCCATTAAGCCC-AATCATATTTATATGGCTCATTAGGCCCGAATC
1 ACCTATATATGGCCCATTAAGCCCAAATCACATTTATATGGCCCATTAGGCCCGAATC
* * *
58453680 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCC
1 ACCTATATATGGCCCATTAAGCCCAAATCACATTTATATGGCCCATTAGGCC
58453732 TAGTCACATT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 21 0.47
58 24 0.53
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.29
Consensus pattern (58 bp):
ACCTATATATGGCCCATTAAGCCCAAATCACATTTATATGGCCCATTAGGCCCGAATC
Found at i:58454830 original size:39 final size:40
Alignment explanation
Indices: 58454700--58454861 Score: 263
Period size: 40 Copynumber: 4.1 Consensus size: 40
58454690 AGCCCAGATG
* *
58454700 TAACAACCAGCACAAATGCCTTCGAGACTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
* *
58454740 TAGCAACCAGCATGAATGCCTTCGGGACTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
58454780 TAACAACCAGCACGAATGCCTTCGGGACTTAACCC-GAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
* *
58454819 TAACAACCAGCATGAATGCCTTCGGGACTTAACCCGGATA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
58454859 TAA
1 TAA
58454862 TCCTTAATTG
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
39 38 0.34
40 75 0.66
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (40 bp):
TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
Found at i:58454849 original size:79 final size:80
Alignment explanation
Indices: 58454700--58454861 Score: 281
Period size: 79 Copynumber: 2.0 Consensus size: 80
58454690 AGCCCAGATG
*
58454700 TAACAACCAGCACAAATGCCTTCGAGACTTAACCCGGAAATAGCAACCAGCATGAATGCCTTCGG
1 TAACAACCAGCACAAATGCCTTCGAGACTTAACCCGGAAATAACAACCAGCATGAATGCCTTCGG
58454765 GACTTAACCCGGAAA
66 GACTTAACCCGGAAA
* *
58454780 TAACAACCAGCACGAATGCCTTCGGGACTTAACCC-GAAATAACAACCAGCATGAATGCCTTCGG
1 TAACAACCAGCACAAATGCCTTCGAGACTTAACCCGGAAATAACAACCAGCATGAATGCCTTCGG
*
58454844 GACTTAACCCGGATA
66 GACTTAACCCGGAAA
58454859 TAA
1 TAA
58454862 TCCTTAATTG
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 45 0.58
80 33 0.42
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (80 bp):
TAACAACCAGCACAAATGCCTTCGAGACTTAACCCGGAAATAACAACCAGCATGAATGCCTTCGG
GACTTAACCCGGAAA
Found at i:58456336 original size:49 final size:49
Alignment explanation
Indices: 58456264--58456361 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
58456254 TTAAGCAAAG
58456264 TCTATGTTCGGCTATTACACATATGAGTATTAGAAATTATAGTTTTTAA
1 TCTATGTTCGGCTATTACACATATGAGTATTAGAAATTATAGTTTTTAA
58456313 TCTATGTTCGGCTATTACACATATGAGTATTAGAAATTATAGTTTTTAA
1 TCTATGTTCGGCTATTACACATATGAGTATTAGAAATTATAGTTTTTAA
58456362 CAAGATCAAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (49 bp):
TCTATGTTCGGCTATTACACATATGAGTATTAGAAATTATAGTTTTTAA
Found at i:58457241 original size:24 final size:24
Alignment explanation
Indices: 58457212--58457262 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
58457202 GTACCCAAAC
* *
58457212 TTTCGGCTTTTCGGCATTTCAACT
1 TTTCGGCATTTCGACATTTCAACT
*
58457236 TTTCGGCATTTCGACATTTCAGCT
1 TTTCGGCATTTCGACATTTCAACT
58457260 TTT
1 TTT
58457263 GCTGATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.47
Consensus pattern (24 bp):
TTTCGGCATTTCGACATTTCAACT
Found at i:58457255 original size:16 final size:16
Alignment explanation
Indices: 58457220--58457255 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
58457210 ACTTTCGGCT
*
58457220 TTTCGGCATTTCAACT
1 TTTCGGCATTTCAACA
*
58457236 TTTCGGCATTTCGACA
1 TTTCGGCATTTCAACA
58457252 TTTC
1 TTTC
58457256 AGCTTTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.25, G:0.14, T:0.44
Consensus pattern (16 bp):
TTTCGGCATTTCAACA
Found at i:58462329 original size:43 final size:43
Alignment explanation
Indices: 58462280--58462370 Score: 105
Period size: 42 Copynumber: 2.1 Consensus size: 43
58462270 TCTTATATGT
58462280 AATCAAATATCGATACC-ACTGTACCAAACAAGGTCTTACACG-A
1 AATCAAATA-CGATACCGA-TGTACCAAACAAGGTCTTACACGTA
* * * * *
58462323 AATCAAATACGATGCCGATGTCCCAGATATGGTCTTACACGTA
1 AATCAAATACGATACCGATGTACCAAACAAGGTCTTACACGTA
58462366 AATCA
1 AATCA
58462371 TAAATCAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 25 0.61
43 16 0.39
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.23
Consensus pattern (43 bp):
AATCAAATACGATACCGATGTACCAAACAAGGTCTTACACGTA
Found at i:58462391 original size:44 final size:42
Alignment explanation
Indices: 58462245--58462410 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 42
58462235 AAAAAGCTCG
* * * *
58462245 TACAATGCCAACGTCCCAGACCTGGTCTTATATGTAATCAAA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAA
* * * * *
58462287 TATCGATACC-ACTGTACCAAACAAGGTCTTACACGAAATCAAA
1 TA-CAATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAA
* * * *
58462330 TACGATGCCGATGTCCCAGATATGGTCTTACACGTAAATCATAA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-AA
* *
58462374 -ATCAATGCCAACGTCCCAGACGTGATCTTACACGAAA
1 TA-CAATGCCAACGTCCCAGACATGGTCTTACACGAAA
58462411 ACACATATCG
Statistics
Matches: 97, Mismatches: 21, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
42 28 0.29
43 41 0.42
44 28 0.29
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (42 bp):
TACAATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAA
Found at i:58470458 original size:20 final size:20
Alignment explanation
Indices: 58470433--58470478 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
58470423 GAAACATTGC
*
58470433 ACACGCCCGTGTGCTTTGGG
1 ACACGCCCATGTGCTTTGGG
58470453 ACACGCCCATGTGCTTTGGG
1 ACACGCCCATGTGCTTTGGG
58470473 ACACGC
1 ACACGC
58470479 ATGTGTCCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.15, C:0.33, G:0.30, T:0.22
Consensus pattern (20 bp):
ACACGCCCATGTGCTTTGGG
Found at i:58470483 original size:18 final size:19
Alignment explanation
Indices: 58470442--58470483 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
58470432 CACACGCCCG
58470442 TGTGCTTTGGGACACGCCCA
1 TGTGCTTTGGGACACG-CCA
58470462 TGTGCTTTGGGACACG-CA
1 TGTGCTTTGGGACACGCCA
58470480 TGTG
1 TGTG
58470484 TCCCCTACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.27
20 16 0.73
ACGTcount: A:0.14, C:0.24, G:0.33, T:0.29
Consensus pattern (19 bp):
TGTGCTTTGGGACACGCCA
Found at i:58494775 original size:24 final size:24
Alignment explanation
Indices: 58494743--58494790 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
58494733 AATAACATTT
58494743 ATATCATTGATTCAAGCATCTAAC
1 ATATCATTGATTCAAGCATCTAAC
58494767 ATATCATTGATTCAAGCATCTAAC
1 ATATCATTGATTCAAGCATCTAAC
58494791 TTACCATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (24 bp):
ATATCATTGATTCAAGCATCTAAC
Found at i:58494804 original size:24 final size:24
Alignment explanation
Indices: 58494747--58494801 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
58494737 ACATTTATAT
* *
58494747 CATTGATTCAAGCATCTAACATAT
1 CATTAATTCAAGCATCTAACATAC
* *
58494771 CATTGATTCAAGCATCTAACTTAC
1 CATTAATTCAAGCATCTAACATAC
58494795 CA-TAATT
1 CATTAATT
58494802 TCACAACTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.35
Consensus pattern (24 bp):
CATTAATTCAAGCATCTAACATAC
Found at i:58495038 original size:56 final size:56
Alignment explanation
Indices: 58494978--58495129 Score: 243
Period size: 56 Copynumber: 2.7 Consensus size: 56
58494968 TCCCAGACAG
* *
58494978 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTACTAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTACTAAACAT
* * *
58495034 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAATGTATTAAACAT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTACTAAACAT
58495090 GGTCTTACTCGC-CTACATATATCGGAGTCACATATCGATG
1 GGTCTTACTCGCAC-ACATATATCGGAGTCACATATCGATG
58495130 TCGTGGTCTT
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
55 1 0.01
56 88 0.99
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTACTAAACAT
Done.