Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 167 of 171
Found at i:49439253 original size:33 final size:33
Alignment explanation
Indices: 49439203--49439280 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
49439193 TGAAGCATTC
*
49439203 ATCTGTATATA-ACAATTGCAAAAGAAGAACCA
1 ATCTGTAAATATACAATTGCAAAAGAAGAACCA
49439235 ATCTGTAAATATACAATTGCAAAAGAAGAACCA
1 ATCTGTAAATATACAATTGCAAAAGAAGAACCA
49439268 ATCTGTAAATATA
1 ATCTGTAAATATA
49439281 ACAGTTTTGG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 10 0.23
33 34 0.77
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.24
Consensus pattern (33 bp):
ATCTGTAAATATACAATTGCAAAAGAAGAACCA
Found at i:49442008 original size:19 final size:19
Alignment explanation
Indices: 49441970--49442009 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49441960 GAAATTCATG
* * *
49441970 TATTTGATGTAAATTTAAA
1 TATTTCATGTAAAATAAAA
49441989 TATTTCATGTAAAATAAAA
1 TATTTCATGTAAAATAAAA
49442008 TA
1 TA
49442010 GTAACATATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (19 bp):
TATTTCATGTAAAATAAAA
Found at i:49442140 original size:56 final size:56
Alignment explanation
Indices: 49442074--49442193 Score: 168
Period size: 56 Copynumber: 2.1 Consensus size: 56
49442064 CAACGACAAT
* * * * *
49442074 ATTAATGAATTAACGACAATATTCAACTGCAAAGATGGCTCACATATCACTAACGA
1 ATTAACGAATTAACGACAATATTCAACTGCAAAGATAGATCACACATCAATAACGA
** *
49442130 ATTAACGAATTAACGACAATATTCAACTGTGACGATAGATCACACATCAATAACGA
1 ATTAACGAATTAACGACAATATTCAACTGCAAAGATAGATCACACATCAATAACGA
49442186 ATTAACGA
1 ATTAACGA
49442194 GAATAATCTA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.24
Consensus pattern (56 bp):
ATTAACGAATTAACGACAATATTCAACTGCAAAGATAGATCACACATCAATAACGA
Found at i:49443527 original size:19 final size:19
Alignment explanation
Indices: 49443489--49443528 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49443479 AAAATTCATG
* * *
49443489 TATTTGATGTAAATTTAAA
1 TATTTAATGTAAAATAAAA
49443508 TATTTAATGTAAAATAAAA
1 TATTTAATGTAAAATAAAA
49443527 TA
1 TA
49443529 GGAGCGTATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (19 bp):
TATTTAATGTAAAATAAAA
Found at i:49443697 original size:19 final size:19
Alignment explanation
Indices: 49443673--49443713 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
49443663 TTTAAGCGGG
* *
49443673 AAATTTATATATTTGATGT
1 AAATTTAAATATTTAATGT
49443692 AAATTTAAATATTTAATGT
1 AAATTTAAATATTTAATGT
49443711 AAA
1 AAA
49443714 GTAAAATAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (19 bp):
AAATTTAAATATTTAATGT
Found at i:49443720 original size:19 final size:19
Alignment explanation
Indices: 49443681--49443721 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
49443671 GGAAATTTAT
* * *
49443681 ATATTTGATGTAAATTTAA
1 ATATTTAATGTAAAGTAAA
49443700 ATATTTAATGTAAAGTAAA
1 ATATTTAATGTAAAGTAAA
49443719 ATA
1 ATA
49443722 GTAGTGTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (19 bp):
ATATTTAATGTAAAGTAAA
Found at i:49443789 original size:193 final size:190
Alignment explanation
Indices: 49443441--49443804 Score: 505
Period size: 193 Copynumber: 1.9 Consensus size: 190
49443431 AGGTTTTTTT
* * *
49443441 ATTATTTTAAGAAGAGGAATTCAATTTTTTTTAAGCGGAAAATTCATGTATTTGATGTAAATTTA
1 ATTATTTTAAGAAGAGAAATTCAATTTATTTTAAGCGGAAAATTCATATATTTGATGTAAATTTA
*
49443506 AATATTTAATGTAAAATAAAATAGGAGCGTATGCTTTATAAGTTAAGAAATATTTAAGAGTACCA
66 AATATTTAATGTAAAATAAAATAGGAGCGTATGCTTTACAAGTTAAGAAATATTTAAGAGTACCA
**
49443571 AACAATTGAACAAAACAACAATATTAATGAATTAACGACAATATTTTTAAACTTTTAAAA
131 AACAATTGAACAAAACAACAATATTAACAAATTAACGACAATATTTTTAAACTTTTAAAA
* * *
49443631 ATTATTTTGAGAAGAGAAATTCAAATTGATATTTTAAGCGGGAAATTTATATATTTGATGTAAAT
1 ATTATTTTAAGAAGAGAAATTC-AATT--TATTTTAAGCGGAAAATTCATATATTTGATGTAAAT
* * * * *
49443696 TTAAATATTTAATGTAAAGTAAAATAGTAGTGTATGCTTTACAAGTTAAGTAATATTTAAGATTA
63 TTAAATATTTAATGTAAAATAAAATAGGAGCGTATGCTTTACAAGTTAAGAAATATTTAAGAGTA
* ** * * *
49443761 TCC-AATAATTGAACCCAACGATAATATTAACAAATTAGCGACAA
128 -CCAAACAATTGAACAAAACAACAATATTAACAAATTAACGACAA
49443805 CGTTCAACTG
Statistics
Matches: 150, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
190 20 0.13
191 4 0.03
193 124 0.83
194 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.35
Consensus pattern (190 bp):
ATTATTTTAAGAAGAGAAATTCAATTTATTTTAAGCGGAAAATTCATATATTTGATGTAAATTTA
AATATTTAATGTAAAATAAAATAGGAGCGTATGCTTTACAAGTTAAGAAATATTTAAGAGTACCA
AACAATTGAACAAAACAACAATATTAACAAATTAACGACAATATTTTTAAACTTTTAAAA
Found at i:49444058 original size:19 final size:19
Alignment explanation
Indices: 49444020--49444059 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49444010 GAAATTCATG
* **
49444020 TATTTGATGTAAAATTAAA
1 TATTTAATGTAAAACAAAA
49444039 TATTTAATGTAAAACAAAA
1 TATTTAATGTAAAACAAAA
49444058 TA
1 TA
49444060 ATAGCATATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (19 bp):
TATTTAATGTAAAACAAAA
Found at i:49444403 original size:19 final size:19
Alignment explanation
Indices: 49444365--49444404 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
49444355 AAAATTCATG
* *
49444365 TATTTAATGTAAATTTAAA
1 TATTTAATGTAAAATAAAA
49444384 TATTTAATGTAAAATAAAA
1 TATTTAATGTAAAATAAAA
49444403 TA
1 TA
49444405 GTAGCATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TATTTAATGTAAAATAAAA
Found at i:49444829 original size:337 final size:338
Alignment explanation
Indices: 49443631--49445111 Score: 1995
Period size: 338 Copynumber: 4.4 Consensus size: 338
49443621 ACTTTTAAAA
* * * *
49443631 ATTATTTTGAGAAGAGAAATTCAAATTGATATTTTAAGCGGGAAATTTATATATTTGATGTAAAT
1 ATTATTTTGAGAAGAGGAATTCAAATTGATATTTTAAGCGGAAAATTCATGTATTTGATGTAAAT
* ** * * *
49443696 TTAAATATTTAATGTAAAGTAAAATAGTAGTGTATGCTTTACAAGTTAAGTAATATTTAAGATTA
66 TTAAATATTTAATGTAAAATAAAATAGTAGCATATGCTTTATAAGTTAAGTAATATCTAAGAGTA
* * * * ** * *
49443761 TCCAATAATTGAACCCAACGATAATATTAACAAATTAGCGACAACGTTCAACTGTGATGATGGCT
131 TCCAACAATTGAACCCAACAATAATATTAACGAATTAACGACAATATTCAACTATGACGATGGCT
* * *
49443826 CACACATCACTAACGAATTAACGACAATATTTTTAAACTTTGAAAAATTTCCTTTTCTGTCTTTT
196 CACACATCACTAACGAATTAACGACAATATTTTTAAACTTTTAAAAATTACCTTTTTTGTCTTTT
* * * * **
49443891 ACTGATTTGTTAATATTATATTAAGCCAGGTAGATCATATAGTTCAAAAATTACCTAAATTACCT
261 ACTAATTTGTTAATATTATATTAAGCCAAGTAGACCATACAGTTCAAAAATTAAGTAAATTACCT
*
49443956 TAAAGGGTTTTTT
326 TAAAAGGTTTTTT
*
49443969 ATTATTTTGAGAAG-GAGAATTCAAATTGATATTTTAAGCGGGAAATTCATGTATTTGATGTAAA
1 ATTATTTTGAGAAGAG-GAATTCAAATTGATATTTTAAGCGGAAAATTCATGTATTTGATGTAAA
* * *
49444033 ATTAAATATTTAATGTAAAACAAAATAATAGCATATGCTTTATAAGTTAAGTAATATCTAAGAGT
65 TTTAAATATTTAATGTAAAATAAAATAGTAGCATATGCTTTATAAGTTAAGTAATATCTAAGAGT
* ** * *
49444098 ATCCAACAATTGAACTCAATGACAATATTAACGAATTAACGATAATATTCAACTATGACGATGGC
130 ATCCAACAATTGAACCCAACAATAATATTAACGAATTAACGACAATATTCAACTATGACGATGGC
* *
49444163 TCACACATCATTAACGAATTAACGAATTAGCTACAATATTTTTAAACTTTTAAAAATTACCTTTA
195 TCACACATCACTAACGAATTAAC------G--ACAATATTTTTAAACTTTTAAAAATTACCTTTT
* * * * * *
49444228 TTCTATTTTACTAAGTTGTTAATATTATATTACGCTAGGTAGACCATACAGTTCAAAAATTAAGT
252 TTGTCTTTTACTAATTTGTTAATATTATATTAAGCCAAGTAGACCATACAGTTCAAAAATTAAGT
49444293 AAATTACCTTAAAAGGTTTTTT
317 AAATTACCTTAAAAGGTTTTTT
* * * * * *
49444315 ATTAATTTGGGAAGAAGAATTCAAATTGATATTCTAAGC-AAAAATTCATGTATTTAATGTAAAT
1 ATTATTTTGAGAAGAGGAATTCAAATTGATATTTTAAGCGGAAAATTCATGTATTTGATGTAAAT
* *
49444379 TTAAATATTTAATGTAAAATAAAATAGTAGCATATGCTTTATAAGTTAATTAATATCTAAAAGTA
66 TTAAATATTTAATGTAAAATAAAATAGTAGCATATGCTTTATAAGTTAAGTAATATCTAAGAGTA
* * * *
49444444 TCCAACAATTGAATCCAACAATAATATTAATGAATTAACGACAATATTCAACTATGACAATAGCT
131 TCCAACAATTGAACCCAACAATAATATTAACGAATTAACGACAATATTCAACTATGACGATGGCT
* * *
49444509 CACACATCTCTAACGAA-TAACGATAATATTTTTAAACTTTTAAAAATTACATTTTTTGTCTTTT
196 CACACATCACTAACGAATTAACGACAATATTTTTAAACTTTTAAAAATTACCTTTTTTGTCTTTT
* * *
49444573 ACTAATTTGTTAATATTATATTAGGCCAAGTAGACCATATAGTTCAAAAATTACGTAAATTACCT
261 ACTAATTTGTTAATATTATATTAAGCCAAGTAGACCATACAGTTCAAAAATTAAGTAAATTACCT
49444638 TAAAAGGTTTTTT
326 TAAAAGGTTTTTT
*
49444651 ATTATTTTGAGAAGAGGAATTCAAATTGATATTTTAAGCGGAAAATTCATGTATTTGATGAAAAT
1 ATTATTTTGAGAAGAGGAATTCAAATTGATATTTTAAGCGGAAAATTCATGTATTTGATGTAAAT
* ** * *
49444716 ATAAATATTTAATGTAATGTAAAATAGTAGCATATGCTTTATAAATTAAGTAATATCTAAGAGTG
66 TTAAATATTTAATGTAAAATAAAATAGTAGCATATGCTTTATAAGTTAAGTAATATCTAAGAGTA
* * ** *
49444781 TCCAACAATTGAACCCAACAATAGTATTTACGAATTAACGGTAATATTCAACTGTGACGATGGCT
131 TCCAACAATTGAACCCAACAATAATATTAACGAATTAACGACAATATTCAACTATGACGATGGCT
* * * * *
49444846 CACGCATCACTAACGAATTAATGACAATATTTTTAAATTTTTAAAATTTACCTTTTTTTATCTTT
196 CACACATCACTAACGAATTAACGACAATATTTTTAAACTTTTAAAAATTACC-TTTTTTGTCTTT
* *
49444911 TACTAATTTGTTAATATTATATTATGCC-AGATAGACCATACAGTTCAAAAATTAAATAAATTAC
260 TACTAATTTGTTAATATTATATTAAGCCAAG-TAGACCATACAGTTCAAAAATTAAGTAAATTAC
* *
49444975 TTTAAAAAG-TTTTT
324 CTTAAAAGGTTTTTT
* ** *
49444989 ATTATTTTGAGAAGAGGAATTCAAATTAATATTTTAAGCAAAAAAATTC-TATATTTGATGTAAA
1 ATTATTTTGAGAAGAGGAATTCAAATTGATATTTTAAGC-GGAAAATTCATGTATTTGATGTAAA
* *
49445053 TTTAAATATGTAAT-TCAAAATAAAATAGTAGTATATGCTTTATAAGTTAAGTAATATCT
65 TTTAAATATTTAATGT-AAAATAAAATAGTAGCATATGCTTTATAAGTTAAGTAATATCT
49445112 TATTTACTAA
Statistics
Matches: 1006, Mismatches: 121, Indels: 32
0.87 0.10 0.03
Matches are distributed among these distances:
336 144 0.14
337 153 0.15
338 330 0.33
339 82 0.08
344 5 0.00
345 153 0.15
346 139 0.14
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.37
Consensus pattern (338 bp):
ATTATTTTGAGAAGAGGAATTCAAATTGATATTTTAAGCGGAAAATTCATGTATTTGATGTAAAT
TTAAATATTTAATGTAAAATAAAATAGTAGCATATGCTTTATAAGTTAAGTAATATCTAAGAGTA
TCCAACAATTGAACCCAACAATAATATTAACGAATTAACGACAATATTCAACTATGACGATGGCT
CACACATCACTAACGAATTAACGACAATATTTTTAAACTTTTAAAAATTACCTTTTTTGTCTTTT
ACTAATTTGTTAATATTATATTAAGCCAAGTAGACCATACAGTTCAAAAATTAAGTAAATTACCT
TAAAAGGTTTTTT
Found at i:49446154 original size:20 final size:20
Alignment explanation
Indices: 49446125--49446166 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
49446115 TACTGTAAAA
*
49446125 TAAAAAAGTAGTACATGCTT
1 TAAAAAAGTACTACATGCTT
* *
49446145 TAAAATAGTACTATATGCTT
1 TAAAAAAGTACTACATGCTT
49446165 TA
1 TA
49446167 TAACGAGTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (20 bp):
TAAAAAAGTACTACATGCTT
Found at i:49447488 original size:29 final size:30
Alignment explanation
Indices: 49447424--49447488 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
49447414 AGAATTTACA
* **
49447424 AAAATTGAATTAAATCAAAATTTTATATAT
1 AAAATTGAATAAAATCAAAATTCAATATAT
*
49447454 AAAATTGCATAAAATCAAAATTCAAT-TAT
1 AAAATTGAATAAAATCAAAATTCAATATAT
*
49447483 ACAATT
1 AAAATT
49447489 ACACAATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTGAATAAAATCAAAATTCAATATAT
Found at i:49447818 original size:45 final size:45
Alignment explanation
Indices: 49447705--49447829 Score: 160
Period size: 45 Copynumber: 2.8 Consensus size: 45
49447695 TTGGTTTCAA
* * * *
49447705 GTTCTTTAGGATCTTGTTTAACACCCTCGACGTTATCATCACCAT
1 GTTCTTCAGGATCTTGTTTAACCCCCTCAATGTTATCATCACCAT
* * *
49447750 GTTCTTCGGGATTTTGTTGAACCCCCTCAATGTTATCATCACCAT
1 GTTCTTCAGGATCTTGTTTAACCCCCTCAATGTTATCATCACCAT
* * *
49447795 GTTCTTCAGGAACTTGTTTAACCCCCACAGTGTTA
1 GTTCTTCAGGATCTTGTTTAACCCCCTCAATGTTA
49447830 ACATTATCTG
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (45 bp):
GTTCTTCAGGATCTTGTTTAACCCCCTCAATGTTATCATCACCAT
Found at i:49449365 original size:19 final size:19
Alignment explanation
Indices: 49449327--49449365 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
49449317 AAAATTCATG
* * *
49449327 TATTTGATGTAAATTTAAA
1 TATTTAATGTAAAATAAAA
49449346 TATTTAATGTAAAATAAAA
1 TATTTAATGTAAAATAAAA
49449365 T
1 T
49449366 GGTAGTGTAT
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:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (19 bp):
TATTTAATGTAAAATAAAA
Found at i:49449717 original size:249 final size:249
Alignment explanation
Indices: 49449276--49449744 Score: 733
Period size: 249 Copynumber: 1.9 Consensus size: 249
49449266 GGTTTTTTTT
* *
49449276 ATTATTTTAAGAAGAGGAATTCAAATTTATATTTTAAGCAAAAAATTCATGTATTTGATGTAAAT
1 ATTATTTTAAGAAGAGAAATTCAAATTAATATTTTAAGCAAAAAATTCATGTATTTGATGTAAAT
* * * *
49449341 TTAAATATTTAATGTAAAATAAAATGGTAGTGTATGCTTTATAAGTTAAGTAATATTTAAGAGTA
66 TTAAATACTTAATGTAAAATAAAATAGTAGCGTATGCTTTATAAGTTAAGTAATATATAAGAGTA
* *
49449406 CCAAACAATTGAACAAAACGACAATACTAACGAATTAACGATAATATTCAAATGTAACGATGGCT
131 CCAAACAATTGAACAAAACGACAATACTAACGAATTAACAACAATATTCAAATGTAACGATGGCT
49449471 CACACATCACAAACGAATTAACGAATTAACGATAATATTTTTAAACTTTTAAAA
196 CACACATCACAAACGAATTAACGAATTAACGATAATATTTTTAAACTTTTAAAA
* **
49449525 ATTATTTTGAGAAGAGAAATTCAAATTAATATTTTAAGCGGAAAATTCATGTATTTGATGTAAAT
1 ATTATTTTAAGAAGAGAAATTCAAATTAATATTTTAAGCAAAAAATTCATGTATTTGATGTAAAT
*
49449590 TTAAATACTTAATGTAAAGTAAAATAGTAGCGTATGCTTTATAAGTTAAGTAATATATAAGAGTA
66 TTAAATACTTAATGTAAAATAAAATAGTAGCGTATGCTTTATAAGTTAAGTAATATATAAGAGTA
** * * * * * *
49449655 TCC-AACAATTGAACCCAACGATAATATTAACGAATTAGCAACAATGTTCAACTGTGACGATGGC
131 -CCAAACAATTGAACAAAACGACAATACTAACGAATTAACAACAATATTCAAATGTAACGATGGC
*
49449719 TCACACATCACTAACGAATTAACGAA
195 TCACACATCACAAACGAATTAACGAA
49449745 AATATTTTTA
Statistics
Matches: 198, Mismatches: 21, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
249 196 0.99
250 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (249 bp):
ATTATTTTAAGAAGAGAAATTCAAATTAATATTTTAAGCAAAAAATTCATGTATTTGATGTAAAT
TTAAATACTTAATGTAAAATAAAATAGTAGCGTATGCTTTATAAGTTAAGTAATATATAAGAGTA
CCAAACAATTGAACAAAACGACAATACTAACGAATTAACAACAATATTCAAATGTAACGATGGCT
CACACATCACAAACGAATTAACGAATTAACGATAATATTTTTAAACTTTTAAAA
Found at i:49450996 original size:19 final size:19
Alignment explanation
Indices: 49450957--49450996 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49450947 GGAAATTCAT
* * *
49450957 ATATTTGATGTAAATTTAA
1 ATATTTAATGTAAAATAAA
49450976 ATATTTAATGTAAAATAAA
1 ATATTTAATGTAAAATAAA
49450995 AT
1 AT
49450997 TGTAGTATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (19 bp):
ATATTTAATGTAAAATAAA
Found at i:49455770 original size:19 final size:19
Alignment explanation
Indices: 49455732--49455771 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49455722 GAAATTCATG
* * *
49455732 TATTTGATGTAAATTTAAA
1 TATTTAATGTAAAATAAAA
49455751 TATTTAATGTAAAATAAAA
1 TATTTAATGTAAAATAAAA
49455770 TA
1 TA
49455772 ATAGTATATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (19 bp):
TATTTAATGTAAAATAAAA
Found at i:49457387 original size:45 final size:45
Alignment explanation
Indices: 49457323--49457408 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
49457313 TTGGTTTCAA
*
49457323 GTTCTTTAGGATCTTGTTTAACACCCTTGGTGTTATCATCATCAT
1 GTTCTTTAGGATCTTGTTTAACACCCTCGGTGTTATCATCATCAT
* *
49457368 GTTCTTTGGGATCTTGTTTAACCCCCTCGGTGTTATCATCA
1 GTTCTTTAGGATCTTGTTTAACACCCTCGGTGTTATCATCA
49457409 GCAACTTTCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.43
Consensus pattern (45 bp):
GTTCTTTAGGATCTTGTTTAACACCCTCGGTGTTATCATCATCAT
Found at i:49461253 original size:20 final size:20
Alignment explanation
Indices: 49461216--49461253 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
49461206 ATATTAAATG
*
49461216 TTGATTGAGTCTTAGTTAGA
1 TTGATTGAGTATTAGTTAGA
49461236 TTGATATGAGTATT-GTTA
1 TTGAT-TGAGTATTAGTTA
49461254 TCAATACAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (20 bp):
TTGATTGAGTATTAGTTAGA
Found at i:49465997 original size:19 final size:19
Alignment explanation
Indices: 49465959--49465998 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49465949 GAAATTCATG
* * *
49465959 TATTTGATGTAAATTTAAA
1 TATTTAATGTAAAATAAAA
49465978 TATTTAATGTAAAATAAAA
1 TATTTAATGTAAAATAAAA
49465997 TA
1 TA
49465999 GATGCTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (19 bp):
TATTTAATGTAAAATAAAA
Found at i:49466512 original size:19 final size:19
Alignment explanation
Indices: 49466474--49466513 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49466464 GAAATTCATG
* * *
49466474 TATTTGATGTAAATTTAAA
1 TATTTAATGTAAAATAAAA
49466493 TATTTAATGTAAAATAAAA
1 TATTTAATGTAAAATAAAA
49466512 TA
1 TA
49466514 GTAGCGTATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (19 bp):
TATTTAATGTAAAATAAAA
Found at i:49466760 original size:19 final size:19
Alignment explanation
Indices: 49466722--49466761 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49466712 GAAATTCATG
* * *
49466722 TATTTGATGTAAATTTAAA
1 TATTTAATGTAAAGTAAAA
49466741 TATTTAATGTAAAGTAAAA
1 TATTTAATGTAAAGTAAAA
49466760 TA
1 TA
49466762 GTAGCGTATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (19 bp):
TATTTAATGTAAAGTAAAA
Found at i:49466887 original size:248 final size:249
Alignment explanation
Indices: 49466425--49466889 Score: 736
Period size: 248 Copynumber: 1.9 Consensus size: 249
49466415 GTTTTTTTAT
* *
49466425 TATTTTAAGAAGAGGAATTCAAATTTATATTTTAAGCCGGAAATTCATGTATTTGATGTAAATTT
1 TATTTTAAGAAGAGAAATTCAAATTGATATTTTAAGCCGGAAATTCATGTATTTGATGTAAATTT
* *
49466490 AAATATTTAATGTAAAATAAAATAGTAGCGTATGCTTTATAAGTTAAGTAATATTTAAGAGTGCC
66 AAATATTTAATGTAAAATAAAATAGTAGCGTATGCTTTATAAGTTAAATAATATCTAAGAGTGCC
*
49466555 AAACAATTGAACACAACGACAGTATTAACGAATTAACGACAATATTCAACTGTAACGATGGCGCA
131 AAACAATTGAACACAACGACAATATTAACGAATTAACGACAATATTCAACTGTAACGATGGCGCA
49466620 CACATCACAAACAAATTAACGAATTAACGATAATATTTTTAAACTTTTAAAAAG
196 CACATCACAAACAAATTAACGAATTAACGATAATATTTTTAAACTTTTAAAAAG
* * *
49466674 TATTTTGA-AAGAGAAATTCAAATTGATATTTTTAGCGGGAAATTCATGTATTTGATGTAAATTT
1 TATTTTAAGAAGAGAAATTCAAATTGATATTTTAAGCCGGAAATTCATGTATTTGATGTAAATTT
* * *
49466738 AAATATTTAATGTAAAGTAAAATAGTAGCGTATGTTTTATAAGTTAAATAATATCTAAGAGTATC
66 AAATATTTAATGTAAAATAAAATAGTAGCGTATGCTTTATAAGTTAAATAATATCTAAGAGT-GC
* * * * * *
49466803 C-AACAATTGAACCCAACGATAATATTAACGAATTAGCGACAATGTTCAACTGTGACGATGGCTC
130 CAAACAATTGAACACAACGACAATATTAACGAATTAACGACAATATTCAACTGTAACGATGGCGC
* *
49466867 ACACATCACTAACGAATTAACGA
195 ACACATCACAAACAAATTAACGA
49466890 CAATATTTTT
Statistics
Matches: 196, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
248 187 0.95
249 9 0.05
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (249 bp):
TATTTTAAGAAGAGAAATTCAAATTGATATTTTAAGCCGGAAATTCATGTATTTGATGTAAATTT
AAATATTTAATGTAAAATAAAATAGTAGCGTATGCTTTATAAGTTAAATAATATCTAAGAGTGCC
AAACAATTGAACACAACGACAATATTAACGAATTAACGACAATATTCAACTGTAACGATGGCGCA
CACATCACAAACAAATTAACGAATTAACGATAATATTTTTAAACTTTTAAAAAG
Found at i:49467810 original size:337 final size:338
Alignment explanation
Indices: 49467406--49468133 Score: 1061
Period size: 337 Copynumber: 2.2 Consensus size: 338
49467396 AAAATTCATG
* * *
49467406 TATTTAATGTAAAATAAAATATTAGCATATGCTTTATAAGTTAATTAATATCTAAGAGTATCCAA
1 TATTTAATGTAAAATAAAATAGTAGCATATGCTTTATAAGTTAAGTAATATCTAAGAGTACCCAA
*
49467471 CAATTGAACCCAACAATAATATTAACAAATTAACGACAATATTCAACTATGATGATGGCTCACAC
66 CAATTGAACCCAACAATAATATTAACAAATTAACGACAATATTCAACTATGACGATGGCTCACAC
* *
49467536 ATCACTAACGAATTAACGATAATATTTTAAAATTTTTAAAAATTACAT-TTTTTTGTCTTTTACT
131 ATCACTAACAAATTAACGACAATATTTTAAAATTTTT-AAAATT-CATCTTTTTTGTCTTTTACT
* * *
49467600 AATTTATTAATATTATATTAGGTCAAGTAGACCATATAGTTCAAAAATTACGTAAATTACCTTAA
194 AATTTATTAATATTATATTAGGCCAAGTAGACCATACAGTTCAAAAATTAAGTAAATTACCTTAA
*
49467665 AA-G-GTTTTATTATTTAGAGAAGA-AGAATTCAAATTGATATTTTAAGC-GAAAAATTCATGTA
259 AATGTGTTTTATTATTTAGAGAAGAGA-AATTCAAATTAATATTTTAAGCGGAAAAA-TCATGTA
49467726 TTTGATGAAAATATAAA
322 TTTGATGAAAATATAAA
* * *
49467743 TATTTAATGTAATATAAAATAGTAGCATATGCTTTATAAATTAAGTAATATCTAAGAGTGCCCAA
1 TATTTAATGTAAAATAAAATAGTAGCATATGCTTTATAAGTTAAGTAATATCTAAGAGTACCCAA
* * * * *
49467808 CAATTGAACCCAACGATAATATTTACGAATTAATGACAATATTCAACTGTGACGATGGCTCACAC
66 CAATTGAACCCAACAATAATATTAACAAATTAACGACAATATTCAACTATGACGATGGCTCACAC
* * * * *
49467873 ATCACTAATAAATTAATGGCAATATTTTTAAATTTTTAAAATTTATCTTTTTTGTCTTTTACTAA
131 ATCACTAACAAATTAACGACAATATTTTAAAATTTTTAAAATTCATCTTTTTTGTCTTTTACTAA
* * *
49467938 TTTGTTAATATTATATTATGCCAGGTAGACCATACAGTTCAAAAATTAAGTAAATTACCTTAAAA
196 TTTATTAATATTATATTAGGCCAAGTAGACCATACAGTTCAAAAATTAAGTAAATTACCTTAAAA
* *
49468003 TGTTTTTTATTATTTTGAGAAGAGAAATTCAAATTAATATTTTAAGCGGAAAAATCATGTATTTG
261 TGTGTTTTATTATTTAGAGAAGAGAAATTCAAATTAATATTTTAAGCGGAAAAATCATGTATTTG
* *
49468068 ATGTAAATTTAAA
326 ATGAAAATATAAA
* * * * * *
49468081 TATGTAATGCAAAATGAAATAGTAGTATATTCTTTTTAAGTTAAGTAATATCT
1 TATTTAATGTAAAATAAAATAGTAGCATATGCTTTATAAGTTAAGTAATATCT
49468134 TATTTACTAA
Statistics
Matches: 348, Mismatches: 38, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
335 2 0.01
336 83 0.24
337 150 0.43
338 106 0.30
339 7 0.02
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (338 bp):
TATTTAATGTAAAATAAAATAGTAGCATATGCTTTATAAGTTAAGTAATATCTAAGAGTACCCAA
CAATTGAACCCAACAATAATATTAACAAATTAACGACAATATTCAACTATGACGATGGCTCACAC
ATCACTAACAAATTAACGACAATATTTTAAAATTTTTAAAATTCATCTTTTTTGTCTTTTACTAA
TTTATTAATATTATATTAGGCCAAGTAGACCATACAGTTCAAAAATTAAGTAAATTACCTTAAAA
TGTGTTTTATTATTTAGAGAAGAGAAATTCAAATTAATATTTTAAGCGGAAAAATCATGTATTTG
ATGAAAATATAAA
Found at i:49469154 original size:20 final size:20
Alignment explanation
Indices: 49469129--49469170 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
49469119 TAATGTAAAC
49469129 TAAAATAATAGTATATGCTT
1 TAAAATAATAGTATATGCTT
*
49469149 TAAAATAGTAGTATATGCTT
1 TAAAATAATAGTATATGCTT
49469169 TA
1 TA
49469171 TAATGAGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (20 bp):
TAAAATAATAGTATATGCTT
Found at i:49475178 original size:48 final size:48
Alignment explanation
Indices: 49475111--49475271 Score: 214
Period size: 48 Copynumber: 3.4 Consensus size: 48
49475101 TAATATTAAT
* * ** * * *
49475111 GAATTAACGATAATATTCAACTGTGATGATGACTCACACATCATTAAT
1 GAATTAACGACAATATTCAATTGTGACAATGGCTCACACATCACTAAC
* * * *
49475159 GAATTAATGACAATTTTCAATTGTGACAATGGTTCACACATTACTAAC
1 GAATTAACGACAATATTCAATTGTGACAATGGCTCACACATCACTAAC
*
49475207 GAGTTAACGACAATATTCAATTGTGACAATGGCTCACACATCACTAAC
1 GAATTAACGACAATATTCAATTGTGACAATGGCTCACACATCACTAAC
49475255 GAATTAACGACAATATT
1 GAATTAACGACAATATT
49475272 TTTAAACTTT
Statistics
Matches: 96, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 96 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (48 bp):
GAATTAACGACAATATTCAATTGTGACAATGGCTCACACATCACTAAC
Found at i:49475450 original size:19 final size:19
Alignment explanation
Indices: 49475426--49475466 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
49475416 TTTAAGTGGG
*
49475426 AAATTCAAGTATTTGATGT
1 AAATTCAAGTATTTAATGT
*
49475445 AAATTCATGTATTTAATGT
1 AAATTCAAGTATTTAATGT
49475464 AAA
1 AAA
49475467 ATAAAATAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (19 bp):
AAATTCAAGTATTTAATGT
Found at i:49481834 original size:30 final size:30
Alignment explanation
Indices: 49481799--49481860 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
49481789 CAACTTAAAA
*
49481799 AACAAATG-CTTCTAAAACAGTAACAAAATT
1 AACAAATGTC-TCTAAAACAATAACAAAATT
*
49481829 AACAAATGTCTCTAAAATAATAACAAAATT
1 AACAAATGTCTCTAAAACAATAACAAAATT
49481859 AA
1 AA
49481861 TAATAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (30 bp):
AACAAATGTCTCTAAAACAATAACAAAATT
Found at i:49481973 original size:21 final size:22
Alignment explanation
Indices: 49481944--49481984 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
49481934 AAAATAGGAG
*
49481944 AAAACAACAATAAAATAGCATT
1 AAAACAACAAAAAAATAGCATT
49481966 AAAA-AACAAAAAAATAGCA
1 AAAACAACAAAAAAATAGCA
49481985 ATTTTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.71, C:0.12, G:0.05, T:0.12
Consensus pattern (22 bp):
AAAACAACAAAAAAATAGCATT
Found at i:49482695 original size:10 final size:10
Alignment explanation
Indices: 49482682--49482706 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
49482672 TTTTCAGGTA
49482682 ACAACGTGAT
1 ACAACGTGAT
49482692 ACAACGTGAT
1 ACAACGTGAT
49482702 ACAAC
1 ACAAC
49482707 TTCAAAGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (10 bp):
ACAACGTGAT
Found at i:49482932 original size:19 final size:20
Alignment explanation
Indices: 49482895--49482934 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
49482885 AACCCAACAA
* *
49482895 AAAAATCAATTTTATTATTT
1 AAAAATCAATATTAATATTT
49482915 AAAAATC-ATATTAATATTT
1 AAAAATCAATATTAATATTT
49482934 A
1 A
49482935 CATATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAAATCAATATTAATATTT
Found at i:49489760 original size:20 final size:20
Alignment explanation
Indices: 49489737--49489804 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 20
49489727 TTTCTAACAT
49489737 TTTTAATAATTTTTTTATAA
1 TTTTAATAATTTTTTTATAA
49489757 TTTTAATAATTTATTTTTATAA
1 TTTTAATAA-TT-TTTTTATAA
* **
49489779 TTTTTATGTTTTTTTTAATAA
1 TTTTAATAATTTTTTT-ATAA
49489800 TTTTA
1 TTTTA
49489805 GAATGTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 14 0.34
21 12 0.29
22 15 0.37
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (20 bp):
TTTTAATAATTTTTTTATAA
Found at i:49493593 original size:206 final size:206
Alignment explanation
Indices: 49493070--49493580 Score: 770
Period size: 206 Copynumber: 2.4 Consensus size: 206
49493060 CCAAGCTGAA
* *
49493070 ATTATCACTCTCGTTAACCACTGTGTTATAGAGTTTAGGGTTCTGGATCTCCATGCTGGAACAAG
1 ATTATCGCTCTCGTTAACCACTGTGTTTTAGAGTTTAGGGTTCTGGATCTCCATGCTGGAACAAG
* * * *
49493135 GTCACCACCTCACCACCATGCTTTTTGACATTATCTCTTGCATTAACCATCGTGTCTTGTCATAT
66 G--------TCACCACCGTGCTTTTTGACATTATCTCTTGCATTAACCATCATGTCTTGACACAT
* * * *
49493200 CTCTGGCATTAACTACCGTGTTTTAGGGTTTAGGGTTTTAGATTTCCAAGTCGAAACAAGGTCCA
123 ATCTGGCATTAACTACCGTGTTTTAGGGTTTAAGATTTTAGATTTCCAAGCCGAAACAAGGTCCA
49493265 TCACAACCAGTTTTTTTAC
188 TCACAACCAGTTTTTTTAC
* *
49493284 ATTATCGCTCCCGTTAACCACTGTGTTTTAGAGTTTAGGGTTTTGGATCTCCATGCTGGAACAAG
1 ATTATCGCTCTCGTTAACCACTGTGTTTTAGAGTTTAGGGTTCTGGATCTCCATGCTGGAACAAG
* *
49493349 GTCGCCACCGTGCTTTTTGACATTATCTCTTGCATTAACCATCATGTTTTGACACATATCTGGCA
66 GTCACCACCGTGCTTTTTGACATTATCTCTTGCATTAACCATCATGTCTTGACACATATCTGGCA
* * * * * *
49493414 TTAACTACTGTGTTTTAGGGTTTAAGATTTTGGATTTTCAGGCCGAAACAAGGTCCGTCACGACC
131 TTAACTACCGTGTTTTAGGGTTTAAGATTTTAGATTTCCAAGCCGAAACAAGGTCCATCACAACC
49493479 AGTTTTTTTAC
196 AGTTTTTTTAC
49493490 ATTATCGCTCTCGTTAACCACTGTGTTTTAGAGTTTAGGGTTCTGGATCTCCATGCTGGAACAAG
1 ATTATCGCTCTCGTTAACCACTGTGTTTTAGAGTTTAGGGTTCTGGATCTCCATGCTGGAACAAG
49493555 GTCACCACCGTGCTTTTTGACATTAT
66 GTCACCACCGTGCTTTTTGACATTAT
49493581 GTCCGGCATT
Statistics
Matches: 274, Mismatches: 23, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
206 212 0.77
214 62 0.23
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (206 bp):
ATTATCGCTCTCGTTAACCACTGTGTTTTAGAGTTTAGGGTTCTGGATCTCCATGCTGGAACAAG
GTCACCACCGTGCTTTTTGACATTATCTCTTGCATTAACCATCATGTCTTGACACATATCTGGCA
TTAACTACCGTGTTTTAGGGTTTAAGATTTTAGATTTCCAAGCCGAAACAAGGTCCATCACAACC
AGTTTTTTTAC
Found at i:49494170 original size:13 final size:13
Alignment explanation
Indices: 49494152--49494177 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49494142 AATATTTATT
49494152 GTATAAAAAAATA
1 GTATAAAAAAATA
49494165 GTATAAAAAAATA
1 GTATAAAAAAATA
49494178 TTGTTTACTG
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:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
GTATAAAAAAATA
Found at i:49499906 original size:34 final size:34
Alignment explanation
Indices: 49499867--49499935 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
49499857 TTGAGATTGG
49499867 TTCATTGATTGATTTGAGGACTAGAGATTTTATC
1 TTCATTGATTGATTTGAGGACTAGAGATTTTATC
49499901 TTCATTGATTGATTTGAGGACTAGAGATTTTATC
1 TTCATTGATTGATTTGAGGACTAGAGATTTTATC
49499935 T
1 T
49499936 ATTTCTAGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (34 bp):
TTCATTGATTGATTTGAGGACTAGAGATTTTATC
Found at i:49505003 original size:13 final size:13
Alignment explanation
Indices: 49504987--49505012 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49504977 TTTTTATGAG
49504987 AAATTATAAAATT
1 AAATTATAAAATT
49505000 AAATTATAAAATT
1 AAATTATAAAATT
49505013 TTCATCTTAT
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:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTATAAAATT
Found at i:49505055 original size:23 final size:22
Alignment explanation
Indices: 49505027--49505101 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
49505017 TCTTATAACT
49505027 ATATAATTTTTTGAAGGATTAA
1 ATATAATTTTTTGAAGGATTAA
49505049 ATCATAATTTTATT-ATA--ATT--
1 AT-ATAATTTT-TTGA-AGGATTAA
*
49505069 ATATAATTTTTAGAAGGATTAA
1 ATATAATTTTTTGAAGGATTAA
49505091 ATTATAATTTT
1 A-TATAATTTT
49505102 ATCACTTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 17
0.70 0.02 0.28
Matches are distributed among these distances:
18 2 0.05
19 9 0.21
20 5 0.12
22 6 0.14
23 18 0.42
24 3 0.07
ACGTcount: A:0.41, C:0.01, G:0.08, T:0.49
Consensus pattern (22 bp):
ATATAATTTTTTGAAGGATTAA
Found at i:49505072 original size:42 final size:42
Alignment explanation
Indices: 49505019--49505103 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
49505009 AATTTTCATC
*
49505019 TTATAACTATATAATTTTTTGAAGGATTAAATCATAATTTTA
1 TTATAACTATATAATTTTTAGAAGGATTAAATCATAATTTTA
* *
49505061 TTATAATTATATAATTTTTAGAAGGATTAAATTATAATTTTA
1 TTATAACTATATAATTTTTAGAAGGATTAAATCATAATTTTA
49505103 T
1 T
49505104 CACTTTAAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (42 bp):
TTATAACTATATAATTTTTAGAAGGATTAAATCATAATTTTA
Found at i:49505479 original size:20 final size:20
Alignment explanation
Indices: 49505454--49505492 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49505444 CGATCAATTG
*
49505454 TAATATTTTTTAAAATATAT
1 TAATATTTTATAAAATATAT
*
49505474 TAATATTTTATAACATATA
1 TAATATTTTATAAAATATA
49505493 AAATCATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATATTTTATAAAATATAT
Found at i:49505659 original size:15 final size:15
Alignment explanation
Indices: 49505641--49505676 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
49505631 AATATTTTTT
49505641 ATTTTTAAATTTTGA
1 ATTTTTAAATTTTGA
* *
49505656 ATTTTGAATTTTTGA
1 ATTTTTAAATTTTGA
49505671 ATTTTT
1 ATTTTT
49505677 TAAAAATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (15 bp):
ATTTTTAAATTTTGA
Found at i:49507483 original size:14 final size:14
Alignment explanation
Indices: 49507466--49507496 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
49507456 TTACTTTTAC
49507466 TAATTTAAAAATTT
1 TAATTTAAAAATTT
*
49507480 TAATTTTAAAATTT
1 TAATTTAAAAATTT
49507494 TAA
1 TAA
49507497 AAGACTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTTAAAAATTT
Found at i:49507495 original size:23 final size:23
Alignment explanation
Indices: 49507452--49507498 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
49507442 ACTAAAATAT
* *
49507452 AATTTTACTTTTACTAATTTAAA
1 AATTTTAATTTTACAAATTTAAA
*
49507475 AATTTTAATTTTA-AAATTTTAA
1 AATTTTAATTTTACAAATTTAAA
49507497 AA
1 AA
49507499 GACTAAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
AATTTTAATTTTACAAATTTAAA
Found at i:49508393 original size:6 final size:6
Alignment explanation
Indices: 49508375--49508429 Score: 69
Period size: 6 Copynumber: 9.3 Consensus size: 6
49508365 ATGGATGTCC
* *
49508375 ATCAAC ATCAAG ATAAAG ATCAAG ATCAAG AT-AAG AATCAAG ATCAAG
1 ATCAAG ATCAAG ATCAAG ATCAAG ATCAAG ATCAAG -ATCAAG ATCAAG
49508423 AT-AAG AT
1 ATCAAG AT
49508430 TTGGTATACC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
5 8 0.18
6 33 0.75
7 3 0.07
ACGTcount: A:0.55, C:0.13, G:0.15, T:0.18
Consensus pattern (6 bp):
ATCAAG
Found at i:49508427 original size:18 final size:19
Alignment explanation
Indices: 49508375--49508428 Score: 85
Period size: 18 Copynumber: 2.9 Consensus size: 19
49508365 ATGGATGTCC
*
49508375 ATCAACATCAAGATAA-AG
1 ATCAAGATCAAGATAAGAG
49508393 ATCAAGATCAAGATAAGA-
1 ATCAAGATCAAGATAAGAG
49508411 ATCAAGATCAAGATAAGA
1 ATCAAGATCAAGATAAGA
49508429 TTTGGTATAC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 33 0.97
19 1 0.03
ACGTcount: A:0.56, C:0.13, G:0.15, T:0.17
Consensus pattern (19 bp):
ATCAAGATCAAGATAAGAG
Found at i:49511355 original size:24 final size:24
Alignment explanation
Indices: 49511325--49511373 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
49511315 AGTAATTCAT
*
49511325 ATTTAGATCATTTCGA-TTTGGGTC
1 ATTTAGATCA-TTCGAGTTTAGGTC
*
49511349 ATTTAGATTATTCGAGTTTAGGTC
1 ATTTAGATCATTCGAGTTTAGGTC
49511373 A
1 A
49511374 AGATCAACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.45
Consensus pattern (24 bp):
ATTTAGATCATTCGAGTTTAGGTC
Found at i:49512715 original size:9 final size:9
Alignment explanation
Indices: 49512701--49512733 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
49512691 CGGTTTAATT
49512701 AAAAATATA
1 AAAAATATA
49512710 AAAAATA-A
1 AAAAATATA
49512718 AAAAATATTA
1 AAAAATA-TA
49512728 AAAAAT
1 AAAAAT
49512734 TTGATTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 7 0.32
10 7 0.32
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAATATA
Found at i:49517302 original size:22 final size:22
Alignment explanation
Indices: 49517283--49517325 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
49517273 GATGGGTGTG
*
49517283 ACACCTCTTTATAAGGGGTGCA
1 ACACCTCTTCATAAGGGGTGCA
*
49517305 ATACCTCTTCATAAGGGGTGC
1 ACACCTCTTCATAAGGGGTGC
49517326 GGTACTTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (22 bp):
ACACCTCTTCATAAGGGGTGCA
Found at i:49526878 original size:17 final size:18
Alignment explanation
Indices: 49526851--49526888 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
49526841 TTCTATGGCA
* *
49526851 ATTTATTTTTATACTATT
1 ATTTATTTTTAAAATATT
49526869 ATTT-TTTTTAAAATATT
1 ATTTATTTTTAAAATATT
49526886 ATT
1 ATT
49526889 ATATATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTATTTTTAAAATATT
Found at i:49529270 original size:13 final size:13
Alignment explanation
Indices: 49529254--49529283 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
49529244 TAAAATACTA
49529254 ACATAACTAAGTT
1 ACATAACTAAGTT
49529267 ACATAACTAAGTT
1 ACATAACTAAGTT
49529280 ACAT
1 ACAT
49529284 TGTGGGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.30
Consensus pattern (13 bp):
ACATAACTAAGTT
Found at i:49530179 original size:60 final size:60
Alignment explanation
Indices: 49530087--49530416 Score: 226
Period size: 60 Copynumber: 5.6 Consensus size: 60
49530077 TTGGTCATGT
* *
49530087 AATGGCCGACACTTTTTTTTTGTC-AG-AAAAAATTCAAAATTTTTGAGTGTTAGCCATCA
1 AATGGCCGACACCTCTTTTTT-TCGAGAAAAAAATTCAAAATTTTTGAGTGTTAGCCATCA
* * * * * *
49530146 AATGGTCGACACCTCTTTTTTTCGAGAAAAAAATTTAAATTTTTTTTA-TGGTGGCCATCA
1 AATGGCCGACACCTCTTTTTTTCGAGAAAAAAATTCAAA-ATTTTTGAGTGTTAGCCATCA
** * *
49530206 AATGGCCGACACC-CCCTATTT--A-AAAAAAATTGC---ATTTTT-AG-GTGTAGGTCATCA
1 AATGGCCGACACCTCTTTTTTTCGAGAAAAAAATT-CAAAATTTTTGAGTGT-TA-GCCATCA
* * * * *
49530260 AATGGCCAACA-CTCTCTTTTCTCGAGAAAAAAATTCAAATTTTTTTTGA-TATTGGCCATCA
1 AATGGCCGACACCTCT-TTTTTTCGAGAAAAAAATTCAAA--ATTTTTGAGTGTTAGCCATCA
* * ** *
49530321 AATGGCCGACATCCAC-TTTTCTCGAGAAAAAAAATAAAAAATTTTTG-GTGTTAGCTATCA
1 AATGGCCGACA-CCTCTTTTTTTCGAG-AAAAAAATTCAAAATTTTTGAGTGTTAGCCATCA
**
49530381 AATGGTTGACACC-CTTTTTTCTCGAGAAAAAAATTC
1 AATGGCCGACACCTCTTTTTT-TCGAGAAAAAAATTC
49530417 TATTGTACAC
Statistics
Matches: 207, Mismatches: 39, Indels: 50
0.70 0.13 0.17
Matches are distributed among these distances:
52 2 0.01
53 7 0.03
54 17 0.08
55 3 0.01
56 9 0.04
57 3 0.01
58 12 0.06
59 39 0.19
60 62 0.30
61 32 0.15
62 17 0.08
63 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (60 bp):
AATGGCCGACACCTCTTTTTTTCGAGAAAAAAATTCAAAATTTTTGAGTGTTAGCCATCA
Found at i:49530958 original size:106 final size:106
Alignment explanation
Indices: 49530764--49530958 Score: 234
Period size: 106 Copynumber: 1.8 Consensus size: 106
49530754 TCTCGAGACC
* *
49530764 AAAAAAATTTGAAATTTTTTTCTCAAAAAAAGAGGTTTCGACCATTTGAAAACCAACATAAAAAA
1 AAAAAAATTTGAAATTTTTTTCTCAAAAAAAGAGGTGTCGACCATTTGAAAACCAACACAAAAAA
* **
49530829 ATTAAATTTTTTTCTTTAAAAAAGGGAGTGTTGCTAACACA
66 ATTAAAATTTTTTCTCGAAAAAAGGGAGTGTTGCTAACACA
* * * * *
49530870 AAAAAAATTT-AATTTTTTTTCT-AGAAAAAAGGGAGTGTCG-CCATTTGATAATCAATACCAAA
1 AAAAAAATTTGAAATTTTTTTCTCA-AAAAAAGAG-GTGTCGACCATTTGAAAACCAACA-CAAA
* *
49530932 AAATTTAAAATTTTTTCTCGAGAAAAG
63 AAAATTAAAATTTTTTCTCGAAAAAAG
49530959 ACGGTGTCAC
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
104 1 0.01
105 33 0.45
106 40 0.54
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (106 bp):
AAAAAAATTTGAAATTTTTTTCTCAAAAAAAGAGGTGTCGACCATTTGAAAACCAACACAAAAAA
ATTAAAATTTTTTCTCGAAAAAAGGGAGTGTTGCTAACACA
Found at i:49531005 original size:59 final size:61
Alignment explanation
Indices: 49530864--49531267 Score: 282
Period size: 59 Copynumber: 6.9 Consensus size: 61
49530854 GAGTGTTGCT
* * * *
49530864 AACACAAAAAAAATTT-AATTTTTTTTCTAGAAAAAAGGGAG-TGTCG-CCATTTGATAATC
1 AACAC-AAAAAAATTTGAATTTTTTCTCGAGAAAAAAGGGAGATGTCGACCATTTGATGACC
* * * * *
49530923 AATACCAAAAAATTTAAAATTTTTTCTCGAGAAAAGA-CG-G-TGTC-ACCATTTGATGACC
1 AACACAAAAAAATTT-GAATTTTTTCTCGAGAAAAAAGGGAGATGTCGACCATTTGATGACC
* * *
49530981 AACAGCAAAAAAATTTGAATTTTTTCTCGAGAAAAAATGGAGATGTCGGCCATTTGATGGCC
1 AACA-CAAAAAAATTTGAATTTTTTCTCGAGAAAAAAGGGAGATGTCGACCATTTGATGACC
*
49531043 AACACAAAAAAAATTTGAATTTTTT-TCGAG--AAAAGGGGGATGTCGACCATTTGATTG-CC
1 AACAC-AAAAAAATTTGAATTTTTTCTCGAGAAAAAAGGGAGATGTCGACCATTTGA-TGACC
* * * * * *
49531102 AAAACCAAAAAAATTTTAATTTTTT-TCCGAG--AATAGGG-GATGTTGACTATTTGATG-GC
1 AACA-CAAAAAAATTTGAATTTTTTCT-CGAGAAAAAAGGGAGATGTCGACCATTTGATGACC
* * * * * *
49531160 AACAC-CAAAAATGT-AATTTTTT-TCGAGAAAATA-GG-G-TGTCGGCCATTTGATGGCT
1 AACACAAAAAAATTTGAATTTTTTCTCGAGAAAAAAGGGAGATGTCGACCATTTGATGACC
* * * *
49531215 AACAACCAAAAATTTTGAAATTTTTT-TCTGACAAAAAAGGG-G-TGTCGGCCATT
1 AAC-ACAAAAAAATTTG-AATTTTTTCTC-GAGAAAAAAGGGAGATGTCGACCATT
49531268 GCATGGCCCA
Statistics
Matches: 287, Mismatches: 37, Indels: 40
0.79 0.10 0.11
Matches are distributed among these distances:
54 17 0.06
55 15 0.05
56 13 0.05
57 7 0.02
58 53 0.18
59 85 0.30
60 38 0.13
61 24 0.08
62 35 0.12
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (61 bp):
AACACAAAAAAATTTGAATTTTTTCTCGAGAAAAAAGGGAGATGTCGACCATTTGATGACC
Found at i:49535191 original size:2 final size:2
Alignment explanation
Indices: 49535153--49535177 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
49535143 TTATACATAC
49535153 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
49535178 AATTTTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49535867 original size:15 final size:16
Alignment explanation
Indices: 49535840--49535888 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
49535830 GCTCTCATTG
49535840 AGTTTATTTTTTTTAT
1 AGTTTATTTTTTTTAT
*
49535856 AGTTTATTTTTTTAAT
1 AGTTTATTTTTTTTAT
* *
49535872 ATTTTTTTGTTTTTTAT
1 AGTTTATT-TTTTTTAT
49535889 GTACTTAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 21 0.75
17 7 0.25
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (16 bp):
AGTTTATTTTTTTTAT
Found at i:49542855 original size:60 final size:60
Alignment explanation
Indices: 49542790--49542906 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 60
49542780 AAAAAATTGC
49542790 ATTTTTAAGTGTAGGCCATCAAATGGCCAACACTCC-CTTTTCTCGAGAAAAAAATTCAAA
1 ATTTTTAAGTGTAGGCCATCAAATGGCCAACAC-CCTCTTTTCTCGAGAAAAAAATTCAAA
** * * * * *
49542850 ATTTTTTGGTGTTGGCTATCAAATGGTCGACACCCTTTTTTCTCGAGAAAAAAATTC
1 ATTTTTAAGTGTAGGCCATCAAATGGCCAACACCCTCTTTTCTCGAGAAAAAAATTC
49542907 TATTGTACAC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
59 2 0.04
60 47 0.96
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (60 bp):
ATTTTTAAGTGTAGGCCATCAAATGGCCAACACCCTCTTTTCTCGAGAAAAAAATTCAAA
Found at i:49543155 original size:59 final size:60
Alignment explanation
Indices: 49543061--49543224 Score: 276
Period size: 59 Copynumber: 2.7 Consensus size: 60
49543051 AGAGGAAGTA
49543061 ATGGCCAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAAAAGGGAGTGTCGGCCATTTG
1 ATGGCCAACACCAAAAAAATTT-AAATTTTTTTCTCGAGAAAAGGGAGTGTCGGCCATTTG
* *
49543122 ATGGCCGACA-CAAAAAAATTTAAATTTTTTTCTCGAGAAAAGGGAGTGTCGGTCATTTG
1 ATGGCCAACACCAAAAAAATTTAAATTTTTTTCTCGAGAAAAGGGAGTGTCGGCCATTTG
* *
49543181 ATGGCTAACACCAAAAAAATTTAAATTTTTTTCTTGAGAAAAGG
1 ATGGCCAACACCAAAAAAATTTAAATTTTTTTCTCGAGAAAAGG
49543225 AGCCAACACC
Statistics
Matches: 97, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
59 45 0.46
60 43 0.44
61 9 0.09
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (60 bp):
ATGGCCAACACCAAAAAAATTTAAATTTTTTTCTCGAGAAAAGGGAGTGTCGGCCATTTG
Found at i:49543298 original size:59 final size:59
Alignment explanation
Indices: 49543227--49543748 Score: 383
Period size: 59 Copynumber: 8.9 Consensus size: 59
49543217 AGAAAAGGAG
* *
49543227 CCAACACCAAAAAAATTTGAATTTTTTTCTCAAAAAAAGAGGTTTCGACCATTTGATAA
1 CCAACACCAAAAAAATTTGAATTTTTTTCTCAAAAAAAGAGGTGTCGACCATTTGATGA
* * * * * * *
49543286 CCAACA-CAAAAAAA-TTAAATTTTTTTCTTTAAAAAAAGGGGTGTTGGCCATTTAATGG
1 CCAACACCAAAAAAATTTGAATTTTTTTC-TCAAAAAAAGAGGTGTCGACCATTTGATGA
* * * * *
49543344 CCAGCA-CAAAAAAATTTAAATTTTTTTTCTCGAAAAAAGGGAGTGTCG-CCATTTGATAA
1 CCAACACCAAAAAAATTTGAA-TTTTTTTCTCAAAAAAAGAG-GTGTCGACCATTTGATGA
* * * * *
49543403 TCAATACCAAAAAAATTTGAAATTTTTTCTCGAGAAAAGAAGGTGTC-ACCATTTGATGA
1 CCAACACCAAAAAAATTTGAATTTTTTTCTCAAAAAAAG-AGGTGTCGACCATTTGATGA
* * * ** * * *
49543462 TCAACAGCAAAAAAAATTGAA-TTTTTTCTCGAGAAAATGGAGATGTCGGCCATTTGATGG
1 CCAACACCAAAAAAATTTGAATTTTTTTCTC-A-AAAAAAGAGGTGTCGACCATTTGATGA
* * * * *
49543522 CCAACACAAAAAAAATTTGAATTTTTTTC-GAGAAAAGGGGGATGTCGACCATTTGATTG-
1 CCAACACCAAAAAAATTTGAATTTTTTTCTCAAAAAAAGAGG-TGTCGACCATTTGA-TGA
* * * * *
49543581 CCAACACCAAAAAAATTTTAATTTTTTTC-CGAGAATAAGAGATGTCGACTATTTGATG-
1 CCAACACCAAAAAAATTTGAATTTTTTTCTC-AAAAAAAGAGGTGTCGACCATTTGATGA
* * * * * *
49543639 GCAACACC--AAAAATGT-AATTTTTTTC-GAGAAAATAG-GGTGTCGGCCATTTGATGG
1 CCAACACCAAAAAAATTTGAATTTTTTTCTCA-AAAAAAGAGGTGTCGACCATTTGATGA
* * * * *
49543694 CTAACATCC-AAAAATTTTGAAATTTTTTTCTGACAAAAAAGGGGTGTCGGCCATT
1 CCAACA-CCAAAAAAATTTG-AATTTTTTTCTCA-AAAAAAGAGGTGTCGACCATT
49543749 GCATGGCCCA
Statistics
Matches: 374, Mismatches: 67, Indels: 42
0.77 0.14 0.09
Matches are distributed among these distances:
54 16 0.04
55 18 0.05
56 9 0.02
57 18 0.05
58 67 0.18
59 151 0.40
60 75 0.20
61 20 0.05
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (59 bp):
CCAACACCAAAAAAATTTGAATTTTTTTCTCAAAAAAAGAGGTGTCGACCATTTGATGA
Found at i:49543498 original size:119 final size:118
Alignment explanation
Indices: 49543226--49543748 Score: 358
Period size: 119 Copynumber: 4.5 Consensus size: 118
49543216 GAGAAAAGGA
* *
49543226 GCCAACACCAAAAAAATTTGAATTTTTTTCTC-A-AAAAAAGAG-GTTTCGACCATTTGATAACC
1 GCCAACACCAAAAAAATTTGAA-TTTTTTCTCGAGAAAAAAGGGAGTGTCG-CCATTTGATAACC
** ** *
49543288 AACA-CAAAAAAA-TT-AAATTTTTTTCTTTA-AAAA-AAGGGGTGTTGGCCATTTAAT
64 AACACCAAAAAAATTTGAAA-TTTTTTCTCGAGAAAAGAA--GGTG-TCACCATTTGAT
* * * ** *
49543342 GGCCAGCA-CAAAAAAATTTAAATTTTTTTTCTCGAAAAAAGGGAGTGTCGCCATTTGATAATCA
1 -GCCAACACCAAAAAAATTTGAATTTTTTCTCGAGAAAAAAGGGAGTGTCGCCATTTGATAACCA
*
49543406 ATACCAAAAAAATTTGAAATTTTTTCTCGAGAAAAGAAGGTGTCACCATTTGAT
65 ACACCAAAAAAATTTGAAATTTTTTCTCGAGAAAAGAAGGTGTCACCATTTGAT
* * * * **
49543460 GATCAACAGCAAAAAAAATTGAATTTTTTCTCGAG--AAAATGGAGATGTCGGCCATTTGATGGC
1 G-CCAACACCAAAAAAATTTGAATTTTTTCTCGAGAAAAAAGGGAG-TGTC-GCCATTTGATAAC
* **
49543523 CAACACAAAAAAAATTTG-AATTTTTT-TCGAGAAAAGGGGGATGTCGACCATTTGATT
63 CAACACCAAAAAAATTTGAAATTTTTTCTCGAGAAAAGAAGG-TGTC-ACCATTTGA-T
* * * * **
49543580 GCCAACACCAAAAAAATTTTAATTTTTT-TCCGAG-AATAAGAGA-TGTCGACTATTTGAT-GGC
1 GCCAACACCAAAAAAATTTGAATTTTTTCT-CGAGAAAAAAGGGAGTGTCG-CCATTTGATAACC
* * * *
49543641 AACACC--AAAAA--TGTAATTTTTT-TCGAGAAAATAGGGTGTCGGCCATTTGAT
64 AACACCAAAAAAATTTGAAATTTTTTCTCGAGAAAAGAAGGTGTC-ACCATTTGAT
* * *
49543692 GGCTAACATCC-AAAAATTTTGAAATTTTTT-TCTGACAAAAAAGGG-GTGTCGGCCATT
1 -GCCAACA-CCAAAAAAATTTG-AATTTTTTCTC-GAGAAAAAAGGGAGTGTC-GCCATT
49543749 GCATGGCCCA
Statistics
Matches: 332, Mismatches: 48, Indels: 54
0.76 0.11 0.12
Matches are distributed among these distances:
112 1 0.00
113 30 0.09
114 33 0.10
115 27 0.08
116 14 0.04
117 58 0.17
118 55 0.17
119 98 0.30
120 14 0.04
121 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (118 bp):
GCCAACACCAAAAAAATTTGAATTTTTTCTCGAGAAAAAAGGGAGTGTCGCCATTTGATAACCAA
CACCAAAAAAATTTGAAATTTTTTCTCGAGAAAAGAAGGTGTCACCATTTGAT
Found at i:49547906 original size:15 final size:16
Alignment explanation
Indices: 49547879--49547926 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
49547869 GCTCTCATTG
49547879 AGTTTATTTTTTTTAT
1 AGTTTATTTTTTTTAT
*
49547895 AGTTTATTTTTTTAAT
1 AGTTTATTTTTTTTAT
*
49547911 A-TTTTTTTGTTTTTAT
1 AGTTTATTT-TTTTTAT
49547927 GTACTTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 6 0.21
16 22 0.79
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (16 bp):
AGTTTATTTTTTTTAT
Found at i:49550233 original size:13 final size:13
Alignment explanation
Indices: 49550207--49550248 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 13
49550197 CCCACCCCCA
49550207 TTATATATTAAAAT
1 TTATATA-TAAAAT
49550221 TTATATATAAAA-
1 TTATATATAAAAT
*
49550233 -TAAATATAAAAT
1 TTATATATAAAAT
49550245 TTAT
1 TTAT
49550249 TAACAGTAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
11 10 0.42
13 7 0.29
14 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TTATATATAAAAT
Found at i:49551277 original size:15 final size:16
Alignment explanation
Indices: 49551259--49551288 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49551249 GTGTATTATA
49551259 TTTTAAA-AAAAATAT
1 TTTTAAATAAAAATAT
49551274 TTTTAAATAAAAATA
1 TTTTAAATAAAAATA
49551289 AATCTAAAAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTTAAATAAAAATAT
Found at i:49552170 original size:31 final size:31
Alignment explanation
Indices: 49552135--49552200 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
49552125 CAATTTCAAA
** *
49552135 AAATTATAAAATTATTTAAAATTTTTTGTTT
1 AAATTATAAAATTATTTAAAAAATTTTATTT
*
49552166 AAATTATTAAATTATTTAAAAAATTTTATTT
1 AAATTATAAAATTATTTAAAAAATTTTATTT
49552197 AAAT
1 AAAT
49552201 CACTTAACTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (31 bp):
AAATTATAAAATTATTTAAAAAATTTTATTT
Found at i:49557351 original size:48 final size:48
Alignment explanation
Indices: 49557292--49557390 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
49557282 ATATAAAAGA
49557292 AAGAATAAAATAGAAGAGTAAAGAGAATGCTCATGAATAAATATATTG
1 AAGAATAAAATAGAAGAGTAAAGAGAATGCTCATGAATAAATATATTG
49557340 AAGAATAAAATAGAAGAGTAAAGAGAATGCTCATGAATAAATATATTG
1 AAGAATAAAATAGAAGAGTAAAGAGAATGCTCATGAATAAATATATTG
49557388 AAG
1 AAG
49557391 CGTGGTTTCG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.55, C:0.04, G:0.19, T:0.22
Consensus pattern (48 bp):
AAGAATAAAATAGAAGAGTAAAGAGAATGCTCATGAATAAATATATTG
Found at i:49564968 original size:20 final size:19
Alignment explanation
Indices: 49564933--49565033 Score: 98
Period size: 20 Copynumber: 5.1 Consensus size: 19
49564923 GATCACCGAG
*
49564933 GTGCTAAACAGGGCACAAAT
1 GTGC-AAACAGAGCACAAAT
*
49564953 GTGCATACAGAAGCACCAAA-
1 GTGCAAACAG-AGCA-CAAAT
*
49564973 GTGCAAACAGAGCACCGAA-
1 GTGCAAACAGAGCA-CAAAT
*
49564992 GTGCATAACAGGGCACAAAT
1 GTGCA-AACAGAGCACAAAT
49565012 GTGCAAACAGAAGCACAAAT
1 GTGCAAACAG-AGCACAAAT
49565032 GT
1 GT
49565034 TCTATCAAGA
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
19 26 0.38
20 39 0.57
21 4 0.06
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.12
Consensus pattern (19 bp):
GTGCAAACAGAGCACAAAT
Found at i:49570067 original size:59 final size:59
Alignment explanation
Indices: 49569975--49570146 Score: 184
Period size: 59 Copynumber: 2.9 Consensus size: 59
49569965 TTAATATAAC
** *
49569975 ATTTGGTACCTAAAATTGACACCTTTTTATAATTTGGTACCTAAAATTTTTTTAACCCA
1 ATTTGGTACCTAAAATTGACATTTTTTTCTAATTTGGTACCTAAAATTTTTTTAACCCA
* * * * **
49570034 ATTTGGTATCTGAACTTGACATTTTTTTCTAATTTGGTACTTAAACA-TTTTTGGACCCA
1 ATTTGGTACCTAAAATTGACATTTTTTTCTAATTTGGTACCTAAA-ATTTTTTTAACCCA
* *** * **
49570093 ATTTGGTACCTAAAATTGGCATTTTCCCCTAATTTGGTGCCTAAGCTTTTTTTA
1 ATTTGGTACCTAAAATTGACATTTTTTTCTAATTTGGTACCTAAAATTTTTTTA
49570147 GATTTAATTT
Statistics
Matches: 89, Mismatches: 22, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
59 88 0.99
60 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (59 bp):
ATTTGGTACCTAAAATTGACATTTTTTTCTAATTTGGTACCTAAAATTTTTTTAACCCA
Found at i:49570395 original size:30 final size:31
Alignment explanation
Indices: 49570360--49570496 Score: 106
Period size: 31 Copynumber: 4.6 Consensus size: 31
49570350 TGGATCCCAA
*
49570360 AAAGTTTAAGTACCAACTTA-AAAAAAGTGT
1 AAAGTTTAAGTACCAAATTAGAAAAAAGTGT
* * *
49570390 CAAGTTTAGGTACCAAATTAGGAAAAAGTGT
1 AAAGTTTAAGTACCAAATTAGAAAAAAGTGT
** * * *
49570421 AAAGTTCGAGTATCAAATTGGATAAAA----
1 AAAGTTTAAGTACCAAATTAGAAAAAAGTGT
*
49570448 AAAGTTTAGGTACCAAATTAAGAAAAAA-TGT
1 AAAGTTTAAGTACCAAATT-AGAAAAAAGTGT
* * *
49570479 CAAGTTCAAATACCAAAT
1 AAAGTTTAAGTACCAAAT
49570497 GTTATATTAA
Statistics
Matches: 80, Mismatches: 22, Indels: 9
0.72 0.20 0.08
Matches are distributed among these distances:
27 15 0.19
28 6 0.08
30 17 0.21
31 42 0.52
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (31 bp):
AAAGTTTAAGTACCAAATTAGAAAAAAGTGT
Found at i:49570411 original size:89 final size:89
Alignment explanation
Indices: 49570313--49570484 Score: 231
Period size: 89 Copynumber: 1.9 Consensus size: 89
49570303 AATTCGGGAT
* ** *
49570313 CCAAATTAGGAAAAAGAGTCAAGTTC-AGGCACCAAATTGGATCCCAAAAAGTTTAAGTACCAAC
1 CCAAATTAGGAAAAAGAGTAAAGTTCGA-GCACCAAATTGGAT-AAAAAAAGTTTAAGTACCAAA
*
49570377 TTAA-AAAAAGTGTCAAGTTTAGGTA
64 TTAAGAAAAAATGTCAAGTTTAGGTA
* * * *
49570402 CCAAATTAGGAAAAAGTGTAAAGTTCGAGTATCAAATTGGATAAAAAAAGTTTAGGTACCAAATT
1 CCAAATTAGGAAAAAGAGTAAAGTTCGAGCACCAAATTGGATAAAAAAAGTTTAAGTACCAAATT
49570467 AAGAAAAAATGTCAAGTT
66 AAGAAAAAATGTCAAGTT
49570485 CAAATACCAA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
88 21 0.29
89 50 0.69
90 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.24
Consensus pattern (89 bp):
CCAAATTAGGAAAAAGAGTAAAGTTCGAGCACCAAATTGGATAAAAAAAGTTTAAGTACCAAATT
AAGAAAAAATGTCAAGTTTAGGTA
Found at i:49570475 original size:27 final size:27
Alignment explanation
Indices: 49570391--49570475 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 27
49570381 AAAAAGTGTC
49570391 AAGTTTAGGTACCAAATTAGGAAAAAGTGTA
1 AAGTTTAGGTACCAAATTAGGAAAAA----A
* *
49570422 AAG-TTCGAGTATCAAATT-GGATAAAAA
1 AAGTTTAG-GTACCAAATTAGGA-AAAAA
*
49570449 AAGTTTAGGTACCAAATTAAGAAAAAA
1 AAGTTTAGGTACCAAATTAGGAAAAAA
49570476 TGTCAAGTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
27 18 0.40
28 5 0.11
30 6 0.13
31 16 0.36
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.25
Consensus pattern (27 bp):
AAGTTTAGGTACCAAATTAGGAAAAAA
Found at i:49572004 original size:16 final size:16
Alignment explanation
Indices: 49571983--49572013 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
49571973 CGATGTTGAT
49571983 AGATTCTTTTTTGGTA
1 AGATTCTTTTTTGGTA
49571999 AGATTCTTTTTTGGT
1 AGATTCTTTTTTGGT
49572014 TACTTAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.19, T:0.58
Consensus pattern (16 bp):
AGATTCTTTTTTGGTA
Found at i:49575337 original size:26 final size:27
Alignment explanation
Indices: 49575308--49575364 Score: 98
Period size: 26 Copynumber: 2.1 Consensus size: 27
49575298 TCGAAAGGTG
49575308 AATTGGTGTTTTAAAA-TTTTTTGGTA
1 AATTGGTGTTTTAAAATTTTTTTGGTA
*
49575334 AATTTGTGTTTTAAAATTTTTTTGGTA
1 AATTGGTGTTTTAAAATTTTTTTGGTA
49575361 AATT
1 AATT
49575365 TGAAAAATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (27 bp):
AATTGGTGTTTTAAAATTTTTTTGGTA
Found at i:49575362 original size:27 final size:26
Alignment explanation
Indices: 49575308--49575366 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 26
49575298 TCGAAAGGTG
*
49575308 AATTGGTGTTTTAAAATTTTTTGGTA
1 AATTTGTGTTTTAAAATTTTTTGGTA
49575334 AATTTGTGTTTTAAAATTTTTTTGGTA
1 AATTTGTGTTTTAAAA-TTTTTTGGTA
49575361 AATTTG
1 AATTTG
49575367 AAAAATGTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 15 0.48
27 16 0.52
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (26 bp):
AATTTGTGTTTTAAAATTTTTTGGTA
Found at i:49580687 original size:3 final size:3
Alignment explanation
Indices: 49580679--49580710 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
49580669 AGCCATCTCT
*
49580679 TCC TCC TCC TTC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
49580711 ATCATCATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (3 bp):
TCC
Found at i:49585392 original size:25 final size:23
Alignment explanation
Indices: 49585352--49585432 Score: 83
Period size: 23 Copynumber: 3.4 Consensus size: 23
49585342 ACACTAGCGC
49585352 GCTCTCTGTTTTGCAC-GTCTCGT
1 GCTCTCTGTTTTGCACTGTCT-GT
*
49585375 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTGTT-TT-GCACTGTCTGT
* *
49585400 GCTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTTGCACTGTCTGT
* *
49585423 ACTCTTTGTT
1 GCTCTCTGTT
49585433 GCCCAGCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
23 29 0.57
24 3 0.06
25 16 0.31
26 3 0.06
ACGTcount: A:0.09, C:0.23, G:0.22, T:0.46
Consensus pattern (23 bp):
GCTCTCTGTTTTGCACTGTCTGT
Found at i:49590566 original size:29 final size:30
Alignment explanation
Indices: 49590508--49590569 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
49590498 ATTTTAAAAT
* * *
49590508 TATACATGAATTTTGATTTAATGTGTAATTA
1 TATACATGAATTTTAATTT-AGGTGCAATTA
49590539 TATACATGAATTTTAATTT-GGTGCAATTA
1 TATACATGAATTTTAATTTAGGTGCAATTA
49590568 TA
1 TA
49590570 CACGTAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 10 0.36
31 18 0.64
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (30 bp):
TATACATGAATTTTAATTTAGGTGCAATTA
Found at i:49591705 original size:92 final size:91
Alignment explanation
Indices: 49591531--49591707 Score: 282
Period size: 92 Copynumber: 1.9 Consensus size: 91
49591521 ATTTGGTACG
* *
49591531 TGTACTTTCATAAAATATTCAATGTGATACTTATACTTTGAAATATCTAATGTAATACATAAATT
1 TGTACTTTCATAAAATATTCAATGTGATACATATACTTTGAAATATCTAATGTAATACATAAACT
49591596 ATCAAAATGTGTTTTATTATCGTGCT
66 ATCAAAATGTGTTTTATTATCGTGCT
* * * *
49591622 TGTACTTTCATAAAATTTTCAATGTGGTACATATACTTTGAAAATATCTAATGTGATACATGAAC
1 TGTACTTTCATAAAATATTCAATGTGATACATATACTTTG-AAATATCTAATGTAATACATAAAC
*
49591687 TATCAATATGTGTTTTATTAT
65 TATCAAAATGTGTTTTATTAT
49591708 AGATTCTAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 37 0.47
92 41 0.53
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (91 bp):
TGTACTTTCATAAAATATTCAATGTGATACATATACTTTGAAATATCTAATGTAATACATAAACT
ATCAAAATGTGTTTTATTATCGTGCT
Found at i:49592976 original size:18 final size:18
Alignment explanation
Indices: 49592953--49592987 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
49592943 AAAGTTAATG
49592953 GTCAACGGAACGATCAAA
1 GTCAACGGAACGATCAAA
*
49592971 GTCAACGGATCGATCAA
1 GTCAACGGAACGATCAA
49592988 CGGTCGAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (18 bp):
GTCAACGGAACGATCAAA
Found at i:49596194 original size:27 final size:27
Alignment explanation
Indices: 49596163--49596215 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
49596153 CTTATTTTAT
*
49596163 TGTTAAATTTGTTATTATTTTAGAGGC
1 TGTTAAATTTGTTACTATTTTAGAGGC
*
49596190 TGTTAATTTTGTTACTATTTTAGAGG
1 TGTTAAATTTGTTACTATTTTAGAGG
49596216 AATTTGTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.19, T:0.53
Consensus pattern (27 bp):
TGTTAAATTTGTTACTATTTTAGAGGC
Found at i:49596354 original size:11 final size:11
Alignment explanation
Indices: 49596338--49596368 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
49596328 ATTGTATATT
49596338 TAAAAATTATA
1 TAAAAATTATA
*
49596349 TAAAAATAATA
1 TAAAAATTATA
49596360 TAAAAATTA
1 TAAAAATTA
49596369 ATATGGGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:49596365 original size:12 final size:11
Alignment explanation
Indices: 49596338--49596372 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
49596328 ATTGTATATT
*
49596338 TAAAAATTATA
1 TAAAAATAATA
49596349 TAAAAATAATA
1 TAAAAATAATA
49596360 TAAAAATTAATA
1 TAAAAA-TAATA
49596372 T
1 T
49596373 GGGCAGGTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:49599906 original size:17 final size:18
Alignment explanation
Indices: 49599886--49599926 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
49599876 TAGGGATGAG
49599886 TAAAATTTAATTT-AATT
1 TAAAATTTAATTTAAATT
*
49599903 TAAAA-ATAATTTAAATT
1 TAAAATTTAATTTAAATT
*
49599920 TTAAATT
1 TAAAATT
49599927 AAATAGTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAATTTAATTTAAATT
Found at i:49603279 original size:92 final size:92
Alignment explanation
Indices: 49603105--49603282 Score: 223
Period size: 92 Copynumber: 1.9 Consensus size: 92
49603095 GTTTGGTATC
* * * * *
49603105 TGTACTTTCATAAAATATTCAATGTGATACTTATACTTTGAAAATGTTTAATGTGATATACGAAC
1 TGTACTTTCATAAAATATTCAATGTGATACATATACTTTGAAAATATCTAATGTAATACACGAAC
* *
49603170 TATCAAAATGTGCTTTATTATGGTGCT
66 TATCAAAATATACTTTATTATGGTGCT
* * * *
49603197 TGTACTTTCATAAAATTTTCAGTGT-AGTACATGTACTTTGAAAATATCTAATGTAATACATGAA
1 TGTACTTTCATAAAATATTCAATGTGA-TACATATACTTTGAAAATATCTAATGTAATACACGAA
* *
49603261 CTATCAATATATATTTTATTAT
65 CTATCAAAATATACTTTATTAT
49603283 ACATTCTAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
91 1 0.01
92 71 0.99
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (92 bp):
TGTACTTTCATAAAATATTCAATGTGATACATATACTTTGAAAATATCTAATGTAATACACGAAC
TATCAAAATATACTTTATTATGGTGCT
Found at i:49615698 original size:20 final size:20
Alignment explanation
Indices: 49615656--49615698 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
49615646 AATTAAAATA
* * * *
49615656 TATTTTAAATTTTTATTTTT
1 TATTTTAAATTATGAATTAT
49615676 TATTTTAAATTATGAATTAT
1 TATTTTAAATTATGAATTAT
49615696 TAT
1 TAT
49615699 ATACATAACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TATTTTAAATTATGAATTAT
Found at i:49620314 original size:109 final size:109
Alignment explanation
Indices: 49620169--49620403 Score: 269
Period size: 109 Copynumber: 2.2 Consensus size: 109
49620159 ATTAGAACCA
* * * **
49620169 GAAATG-TCTAAACCCAAAATGACCCAAGCCTAAAAAGATCTAGT-CTCGAACTGACTCACCTAA
1 GAAATGATCTAAACCCAAAATGACCCAAGCCTAAAAAGAACCAGTCCT-AAACTGACTCAAATAA
** * *
49620232 AAAATGATTTGAACTTGAAATGACAACCTAATATGAC-CTGAACTT
65 AAAATGATTCAAACTTGAAATAACAACCTAAGATGACTC-GAACTT
* * * **
49620277 GAAATGATCTAAACCCAAAATGACCCAGGCCTGAAAAGAACCAGTCCTAAATTGACTCAAATCCA
1 GAAATGATCTAAACCCAAAATGACCCAAGCCTAAAAAGAACCAGTCCTAAACTGACTCAAATAAA
* **
49620342 AAATGATTCAAATTTGAAATAACAACCTAAGATGACTCGATTTT
66 AAATGATTCAAACTTGAAATAACAACCTAAGATGACTCGAACTT
*
49620386 GAAATCATCTAAACCCAA
1 GAAATGATCTAAACCCAA
49620404 GTGTCAAACC
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
108 6 0.06
109 97 0.92
110 3 0.03
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.23
Consensus pattern (109 bp):
GAAATGATCTAAACCCAAAATGACCCAAGCCTAAAAAGAACCAGTCCTAAACTGACTCAAATAAA
AAATGATTCAAACTTGAAATAACAACCTAAGATGACTCGAACTT
Found at i:49628119 original size:2 final size:2
Alignment explanation
Indices: 49628112--49628147 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
49628102 CTTTAATGGG
49628112 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49628148 AGTTGTATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:49631624 original size:13 final size:13
Alignment explanation
Indices: 49631606--49631631 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49631596 TCATTGTACA
49631606 GCAGCATGAGGGT
1 GCAGCATGAGGGT
49631619 GCAGCATGAGGGT
1 GCAGCATGAGGGT
49631632 ATACGTGGCA
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:0.23, C:0.15, G:0.46, T:0.15
Consensus pattern (13 bp):
GCAGCATGAGGGT
Found at i:49644397 original size:433 final size:431
Alignment explanation
Indices: 49643579--49645077 Score: 2005
Period size: 433 Copynumber: 3.4 Consensus size: 431
49643569 ATTTAGGAAT
* * * * * * * * * *
49643579 CTCAGGGTCATGGTTTAGGAAACTTTAAACTACAAGTTAAATCCAGATTGTGCACTAGTACCGAG
1 CTCAGGCTCATAGTTTAGGAAACTTTAAGCAATAAATTAAATCCAAACTATGCACTAGTACTGAG
* * * * * * * *
49643644 CCTCCAGATCATTAGTTAAAATTTTGCCTGGTAGCTTAATCTTAATTTGCAAAATCAATTGCTAG
66 GCTCCAGGTTACTAGTTAAAA-TTTGCCTGCTGGCTTAATCTTAATGTGCAAAATCAATTG-TTG
*
49643709 GATCCGCTTTGCAGCATCAACTTTTATGCCGTGTTTATGCTGCCTGTAATGCCCTTACATTGTTA
129 GATCCGCTTTGCAGCATCGACTTTTATGCCGTGTTTATGCTGCCTGTAATGCCCTTACATTGTTA
*
49643774 AAGGTTCTTTCTTCATTTGTAATCAATGTTATCTTTCAGGAGGAGAAAATGTTTTTTTTTGTGAT
194 AAGGTTCTTTCTTCATTTGTAATCAATGTTATCTTTCAGGAGGAGAATATGTTTTTTTTTGTGAT
49643839 CTGATCACTTTGTATTGATAATGAATATGGGATTGCTTATTCTAGCAGTTAGTTGTCATACGATA
259 CTGATCACTTTGTATTGATAATGAATATGGGATTGCTTATTCTAGCAGTTAGTTGTCATACGATA
* *
49643904 TATATGAATTTGGATTAATAGTACAAGACGCCCCTGAACAATGCCCTGATTCTAGATTGGTCTTA
324 TATATGAATTTGGATTAATAGTACAAGACGTCCCTGAACAATGCCCCGATTCTAGATTGGTCTTA
* *
49643969 ATTGCTACAATACTGATACACCAGAATGTTTTGAAGTTTGGGA
389 ATTGCTACAATACTGATACACTAGAACGTTTTGAAGTTTGGGA
*
49644012 CTCAGGCTCATAGTTTAGGAAATTTTAAGCAATAAATTAAATCCAAACTATGCACTAGTACTGAG
1 CTCAGGCTCATAGTTTAGGAAACTTTAAGCAATAAATTAAATCCAAACTATGCACTAGTACTGAG
* * * ** * *
49644077 GCTTCAGGTTACTAGTTAAAATTTGTCTGCTGGCTTAATCATGGTTTGCGAAATCAATTGTTGTG
66 GCTCCAGGTTACTAGTTAAAATTTGCCTGCTGGCTTAATCTTAATGTGCAAAATCAATTGTTG-G
*
49644142 ATCCGCTTTGCAGCATCGACTTTTATGCCGTGTTTTATGCTGCCTGTAATGCCCTTACATTGATA
130 ATCCGCTTTGCAGCATCGACTTTTATGCCGTG-TTTATGCTGCCTGTAATGCCCTTACATTGTTA
*
49644207 AAGGTTCTTTCTTCATTTGTAATCAAAGTTATCTTTCAGGAGGAGAATATGTTTTTTTTTGTGAT
194 AAGGTTCTTTCTTCATTTGTAATCAATGTTATCTTTCAGGAGGAGAATATGTTTTTTTTTGTGAT
49644272 CTGATCACTTTGTATTGATAATGAATATGGGATTGCTTATTCTAGCAGTTAGTTGTCATACGATA
259 CTGATCACTTTGTATTGATAATGAATATGGGATTGCTTATTCTAGCAGTTAGTTGTCATACGATA
49644337 TATATGAATTTGGATTAATAGTACAAGACGTCCCTGAACAATGCCCCGATTCTAGATTGGTCTTA
324 TATATGAATTTGGATTAATAGTACAAGACGTCCCTGAACAATGCCCCGATTCTAGATTGGTCTTA
* * * * *
49644402 ATTCCTACAATACTGGTACACTAGAGCGTTTTGAATTTTGGCA
389 ATTGCTACAATACTGATACACTAGAACGTTTTGAAGTTTGGGA
* *
49644445 CTCAGGCTCATAGTTTAGGAAACTTTAAGCAATAAATTAAATCCAAACTATGCTCTATTACTGAG
1 CTCAGGCTCATAGTTTAGGAAACTTTAAGCAATAAATTAAATCCAAACTATGCACTAGTACTGAG
* * * * * * *
49644510 GCTTCAAGTTACTAGTTAAAAATTGTCTGCTGGCTTAATCTTCATGTGCGAAATCAAGTGTTGGT
66 GCTCCAGGTTACTAGTTAAAATTTGCCTGCTGGCTTAATCTTAATGTGCAAAATCAATTGTTGG-
* * *
49644575 ATCCGCTTTGCAACATCGACTTTTATGCTGTGTCTATGCTGCCTGTAATGCCCTTACATTGTTTA
130 ATCCGCTTTGCAGCATCGACTTTTATGCCGTGTTTATGCTGCCTGTAATGCCCTTACATTG-TTA
* * * *
49644640 AAGGTTCTTTCTTCTTTTGCAATCAATGTTATCTTTCAGAAGAAGGAAAATGTATTTATTTCTTT
194 AAGGTTCTTTCTTCATTTGTAATCAATGTTATCTTTCAG--G-AGGAGAA--TA--TGTTT-TTT
* * * * * * * *
49644705 TTTGTGAAT-TTATCGCTTTATATTGATCATTG-CTATGGGACTACTTATTCTTGCAGTTAGTTG
251 TTTGTG-ATCTGATCACTTTGTATTGAT-AATGAATATGGGATTGCTTATTCTAGCAGTTAGTTG
** ** * * * * * *
49644768 TTGTGTGATATATATAAATTGGGATTAATAGTACAAGATGTCCCCGAACAATGCCCCAATTTTAG
314 TCATACGATATATATGAATTTGGATTAATAGTACAAGACGTCCCTGAACAATGCCCCGATTCTAG
** * * * *
49644833 ATCAGTCTTAATTGCTACAATACT-ATAGATTGGAACGTTTTGAAGTTTGAGA
379 ATTGGTCTTAATTGCTACAATACTGATACACTAGAACGTTTTGAAGTTTGGGA
** * * *
49644885 CTTGGGCTCATATTTTAGGAAACTTTAAGCAATAAGTTAAATCCAAACTATGCATTAGTACTGAG
1 CTCAGGCTCATAGTTTAGGAAACTTTAAGCAATAAATTAAATCCAAACTATGCACTAGTACTGAG
* *
49644950 GCTCCAGGTTACTAGTTAAAATTTGCCTGTTGGCTTAATCTTAATGTGCAAAATCAACTGTTGGG
66 GCTCCAGGTTACTAGTTAAAATTTGCCTGCTGGCTTAATCTTAATGTGCAAAATCAATTGTT-GG
* * ** *
49645015 ATCTGCTTTGCTGCATCGACTTTTATGTTGTGTTTATGCTGCCTGTAATGCCTTTACATTGTT
130 ATCCGCTTTGCAGCATCGACTTTTATGCCGTGTTTATGCTGCCTGTAATGCCCTTACATTGTT
49645078 TCTTTCTTCT
Statistics
Matches: 945, Mismatches: 106, Indels: 24
0.88 0.10 0.02
Matches are distributed among these distances:
431 2 0.00
432 93 0.10
433 514 0.54
435 1 0.00
436 6 0.01
438 2 0.00
439 2 0.00
440 191 0.20
441 129 0.14
442 5 0.01
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (431 bp):
CTCAGGCTCATAGTTTAGGAAACTTTAAGCAATAAATTAAATCCAAACTATGCACTAGTACTGAG
GCTCCAGGTTACTAGTTAAAATTTGCCTGCTGGCTTAATCTTAATGTGCAAAATCAATTGTTGGA
TCCGCTTTGCAGCATCGACTTTTATGCCGTGTTTATGCTGCCTGTAATGCCCTTACATTGTTAAA
GGTTCTTTCTTCATTTGTAATCAATGTTATCTTTCAGGAGGAGAATATGTTTTTTTTTGTGATCT
GATCACTTTGTATTGATAATGAATATGGGATTGCTTATTCTAGCAGTTAGTTGTCATACGATATA
TATGAATTTGGATTAATAGTACAAGACGTCCCTGAACAATGCCCCGATTCTAGATTGGTCTTAAT
TGCTACAATACTGATACACTAGAACGTTTTGAAGTTTGGGA
Found at i:49648244 original size:3 final size:3
Alignment explanation
Indices: 49648236--49648267 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
49648226 AGAGGCCCTT
49648236 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
49648268 TTGACTGTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:49648498 original size:29 final size:29
Alignment explanation
Indices: 49648452--49648513 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
49648442 TAGCGTGCTC
*
49648452 TTTGTTTTGTTAATGCACTTTAATGCCAT
1 TTTGTTATGTTAATGCACTTTAATGCCAT
* *
49648481 TTTGTTATGATTAA-GCACTTTAGTGCTAT
1 TTTGTTATG-TTAATGCACTTTAATGCCAT
49648510 TTTG
1 TTTG
49648514 CTCTGACATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.52
Consensus pattern (29 bp):
TTTGTTATGTTAATGCACTTTAATGCCAT
Found at i:49655915 original size:12 final size:12
Alignment explanation
Indices: 49655885--49655931 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
49655875 AGTTAGTTAC
49655885 TTAATTATTTAA
1 TTAATTATTTAA
*
49655897 TTTAATTATTGAA
1 -TTAATTATTTAA
49655910 TTAATTATTTAA
1 TTAATTATTTAA
*
49655922 TTAAATATTT
1 TTAATTATTT
49655932 GTAATAATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
12 20 0.65
13 11 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (12 bp):
TTAATTATTTAA
Found at i:49657227 original size:162 final size:161
Alignment explanation
Indices: 49656960--49658084 Score: 1487
Period size: 162 Copynumber: 7.0 Consensus size: 161
49656950 TTTTTGTGCT
* * * * *
49656960 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGGTTTGGTTAGGAGACCGGTGTTCCTCGGA
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATTGATTTGGATAGGAGATCGGTGATCCTCGGA
* * * * *
49657025 AACCAAAATT-CTCGGATTTTCATTGTGATTTAGCATAGCTTGGTTTGTCATCTCGAGACTAAGG
66 AACC-ATATTCCT-GGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGG
* *
49657089 AAGTTTACTTTTGTTTGATTGTCATCTCCTCCC
129 AAGTTCACTTTTGTTTGATTGTCATCTCCTGCC
* *
49657122 ATGGTTGTTTGCTCTGAACTTGAATGAACCCTATTGATTTGGATAGGAGATCGGTG-TCCCTCGG
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATTGATTTGGATAGGAGATCGGTGAT-CCTCGG
* * **
49657186 AAACCATTATTCCTGGATTTTCATCGTGATTTAGTATAGCTTGGTTTATCATCTAGGGACTAATG
65 AAACCA-TATTCCTGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGG
49657251 AAGTT-ACTTTTGTTTGATTGTCATCTCCTGCC
129 AAGTTCACTTTTGTTTGATTGTCATCTCCTGCC
* *
49657283 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGG-T------TCGGTGATCCTCAGA
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATTGATTTGGATAGGAGATCGGTGATCCTCGGA
** * *
49657341 AACCGATATTCCCAGATTTTCATCTTGATTTAGTATAAGCTTGGTTTATCATCTAGAGACTAGGG
66 AACC-ATATTCCTGGATTTTCATCGTGATTTAGTAT-AGCTTGGTTTGTCATCTAGAGACTAGGG
49657406 AAGTTCAC-TTTGTTTGATTGTCATCTCCTGCC
129 AAGTTCACTTTTGTTTGATTGTCATCTCCTGCC
* * ** *
49657438 ATGGTTGTTTACTCTGAACCTGAATGAACCTTATCGATTTTCATAGGAGATTGGTGATCCTCGGA
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATTGATTTGGATAGGAGATCGGTGATCCTCGGA
* *
49657503 AACCGATATTCCCGGATTTTTATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGA
66 AACC-ATATTCCTGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGA
*
49657568 AGTTCACTTTTGCTTGATTGTCATCTCCTGCC
130 AGTTCACTTTTGTTTGATTGTCATCTCCTGCC
* * ** * *
49657600 ATGGTTTTTTACTCTAAACTTGAATGAACCTT-TCAATTTGAATAGGAGATCAGTGATCCTCGGA
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATTGATTTGGATAGGAGATCGGTGATCCTCGGA
* * * ** *
49657664 AACCAATATTCCCAGATTCGATTCTCATCATGATTTAGTATAGCTTCATTTGTCATCCAGAGACT
66 AACC-ATATT-CC----TGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACT
49657729 A-GGAAGTTCACTTTTGTTTGATTGTCATCTCCTGCC
125 AGGGAAGTTCACTTTTGTTTGATTGTCATCTCCTGCC
* * * *
49657765 GTGGTTGTTTACTTTGAACTTGAATGAACCTTA-TCATTTGGATAGGAGATCGGTGATCTTC---
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATTGATTTGGATAGGAGATCGGTGATCCTCGGA
*
49657826 -A-GATATTCCTGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGAA
66 AACCATATTCCTGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGAA
*
49657889 GTTCACTTTTGTTTGATTATCATCTCCTGCC
131 GTTCACTTTTGTTTGATTGTCATCTCCTGCC
* *
49657920 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATTGATTTGGATTGGAGATTGGTGATCCTCGGA
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATTGATTTGGATAGGAGATCGGTGATCCTCGGA
* * *
49657985 AACCTATATTCCCGGATTTTCATCATGATTTAGTATAGCTTGGTTTGTTATCTAGAGACTAGGGA
66 AACC-ATATTCCTGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGA
*
49658050 AGTTCACTTTTGTTTGATTATCATCTCCTGCC
130 AGTTCACTTTTGTTTGATTGTCATCTCCTGCC
49658082 ATG
1 ATG
49658085 ATTCCCTATA
Statistics
Matches: 855, Mismatches: 79, Indels: 58
0.86 0.08 0.06
Matches are distributed among these distances:
154 86 0.10
155 160 0.19
156 27 0.03
158 2 0.00
159 5 0.01
160 2 0.00
161 139 0.16
162 306 0.36
163 2 0.00
165 85 0.10
166 41 0.05
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.39
Consensus pattern (161 bp):
ATGGTTGTTTACTCTGAACTTGAATGAACCTTATTGATTTGGATAGGAGATCGGTGATCCTCGGA
AACCATATTCCTGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGAA
GTTCACTTTTGTTTGATTGTCATCTCCTGCC
Found at i:49657540 original size:316 final size:317
Alignment explanation
Indices: 49656960--49658084 Score: 1466
Period size: 316 Copynumber: 3.5 Consensus size: 317
49656950 TTTTTGTGCT
* *
49656960 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGGTTTGGTTAGGAGACCGGTGTTCCTCGGA
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGTT-------CGGTGATCCTCGGA
* * * ** * * *
49657025 AACCAAAATTCTCGGATTTTCATTGTGATTTAGCATAGCTTGGTTTGTCATCTCGAGACTAAGGA
59 AACCAATATTCCCAGATTTTCATCATGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGA
* * * *
49657090 AGTTTACTTTTGTTTGATTGTCATCTCCTCCCATGGTTGTTTGCTCTGAACTTGAATGAACCCTA
124 AGTTCACTTTTGTTTGATTGTCATCTCCTGCCATGGTTGTTTACTCTGAACTTGAATGAACCTTA
*
49657155 TTGATTTGGATAGGAGATCGGTG-TCCCTCGGAAACC-ATTATTCCTGGATTTTCATCGTGATTT
189 TCGATTTGGATAGGAGATCGGTGAT-CCTCGGAAACCGA-TATTCCTGGATTTTCATCGTGATTT
* * **
49657218 AGTATAGCTTGGTTTATCATCTAGGGACTAATGAAGTT-ACTTTTGTTTGATTGTCATCTCCTGC
252 AGTATAGCTTGGTTTGTCATCTAGAGACTAGGGAAGTTCACTTTTGTTTGATTGTCATCTCCTGC
49657282 C
317 C
* *
49657283 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGTTCGGTGATCCTCAGAAACCGAT
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGTTCGGTGATCCTCGGAAACCAAT
* *
49657348 ATTCCCAGATTTTCATCTTGATTTAGTATAAGCTTGGTTTATCATCTAGAGACTAGGGAAGTTCA
66 ATTCCCAGATTTTCATCATGATTTAGTAT-AGCTTGGTTTGTCATCTAGAGACTAGGGAAGTTCA
*
49657413 C-TTTGTTTGATTGTCATCTCCTGCCATGGTTGTTTACTCTGAACCTGAATGAACCTTATCGATT
130 CTTTTGTTTGATTGTCATCTCCTGCCATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATT
** * * *
49657477 TTCATAGGAGATTGGTGATCCTCGGAAACCGATATTCCCGGATTTTTATCGTGATTTAGTATAGC
195 TGGATAGGAGATCGGTGATCCTCGGAAACCGATATTCCTGGATTTTCATCGTGATTTAGTATAGC
*
49657542 TTGGTTTGTCATCTAGAGACTAGGGAAGTTCACTTTTGCTTGATTGTCATCTCCTGCC
260 TTGGTTTGTCATCTAGAGACTAGGGAAGTTCACTTTTGTTTGATTGTCATCTCCTGCC
* * * * *
49657600 ATGGTTTTTTACTCTAAACTTGAATGAACCTT-TCAATTTGAATAGGAGATCAGTGATCCTCGGA
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGA-TT---T--G-GTTCGGTGATCCTCGGA
** *
49657664 AACCAATATTCCCAGATTCGATTCTCATCATGATTTAGTATAGCTTCATTTGTCATCCAGAGACT
59 AACCAATATTCCCAGA-T---TT-TCATCATGATTTAGTATAGCTTGGTTTGTCATCTAGAGACT
* *
49657729 A-GGAAGTTCACTTTTGTTTGATTGTCATCTCCTGCCGTGGTTGTTTACTTTGAACTTGAATGAA
119 AGGGAAGTTCACTTTTGTTTGATTGTCATCTCCTGCCATGGTTGTTTACTCTGAACTTGAATGAA
*
49657793 CCTTATC-ATTTGGATAGGAGATCGGTGATCTTC----A--GATATTCCTGGATTTTCATCGTGA
184 CCTTATCGATTTGGATAGGAGATCGGTGATCCTCGGAAACCGATATTCCTGGATTTTCATCGTGA
*
49657851 TTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGAAGTTCACTTTTGTTTGATTATCATCTCC
249 TTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGAAGTTCACTTTTGTTTGATTGTCATCTCC
49657916 TGCC
314 TGCC
* *
49657920 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATTGATTTGGATTGGAGATTGGTGATCCTCGGA
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGG--T-----TCGGTGATCCTCGGA
* * *
49657985 AACCTATATTCCCGGATTTTCATCATGATTTAGTATAGCTTGGTTTGTTATCTAGAGACTAGGGA
59 AACCAATATTCCCAGATTTTCATCATGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGA
*
49658050 AGTTCACTTTTGTTTGATTATCATCTCCTGCCATG
124 AGTTCACTTTTGTTTGATTGTCATCTCCTGCCATG
49658085 ATTCCCTATA
Statistics
Matches: 709, Mismatches: 67, Indels: 58
0.85 0.08 0.07
Matches are distributed among these distances:
314 1 0.00
315 1 0.00
316 222 0.31
317 131 0.18
320 123 0.17
321 29 0.04
322 2 0.00
323 72 0.10
324 1 0.00
326 32 0.05
327 79 0.11
328 16 0.02
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.39
Consensus pattern (317 bp):
ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGTTCGGTGATCCTCGGAAACCAAT
ATTCCCAGATTTTCATCATGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGAAGTTCAC
TTTTGTTTGATTGTCATCTCCTGCCATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTT
GGATAGGAGATCGGTGATCCTCGGAAACCGATATTCCTGGATTTTCATCGTGATTTAGTATAGCT
TGGTTTGTCATCTAGAGACTAGGGAAGTTCACTTTTGTTTGATTGTCATCTCCTGCC
Found at i:49657934 original size:482 final size:478
Alignment explanation
Indices: 49656960--49658084 Score: 1596
Period size: 482 Copynumber: 2.3 Consensus size: 478
49656950 TTTTTGTGCT
* * ** *
49656960 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGGTTTGGTTAGGAGACCGGTGTTCCTCGGA
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGATAGGAGATTGGTGATCCTCGGA
* * * * * *
49657025 AACCAAAATTCTCGGATTTTCATTGTGATTTAGCATAGCTTGGTTTGTCATCTCGAGACTAAGGA
66 AACCAATATTCCCGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGA
* * * *
49657090 AGTTTACTTTTGTTTGATTGTCATCTCCTCCCATGGTTGTTTGCTCTGAACTTGAATGAACCCTA
131 AGTTCACTTTTGTTTGATTGTCATCTCCTGCCATGGTTGTTTACTCTAAACTTGAATGAACCCTA
* * * * * * *
49657155 TTGATTTGGATAGGAGATCGGTGTCCCTCGGAAACCATTATTCCTGGATTTTCATCGTGATTTAG
196 TTAATTTGAATAGGAGATCAGTGTCCCTCGGAAACCAATATTCCTCGATTCTCATCATGATTTAG
** * * *
49657220 TATAGCTTGGTTTATCATCTAGGGACTAATGAAGTTACTTTTGTTTGATTGTCATCTCCTGCCAT
261 TATAGCTTCATTTATCATCCAGAGACTAAGGAAGTTACTTTTGTTTGATTGTCATCTCCTGCCAT
* * * *
49657285 GGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGTTCGGTGATCCTCAGAAACCGATAT
326 GGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGATAGGAGATCCTCAGAAACAGATAT
*
49657350 TCCCAGATTTTCATCTTGATTTAGTATAAGCTTGGTTTATCATCTAGAGACTAGGGAAGTTCACT
391 TCCCAGATTTTCATCGTGATTTAGTATAAGCTTGGTTTATCATCTAGAGACTAGGGAAGTTCACT
*
49657415 TTGTTTGATTGTCATCTCCTGCC
456 TTGTTTGATTATCATCTCCTGCC
* **
49657438 ATGGTTGTTTACTCTGAACCTGAATGAACCTTATCGATTTTCATAGGAGATTGGTGATCCTCGGA
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGATAGGAGATTGGTGATCCTCGGA
* *
49657503 AACCGATATTCCCGGATTTTTATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGA
66 AACCAATATTCCCGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGA
* *
49657568 AGTTCACTTTTGCTTGATTGTCATCTCCTGCCATGGTTTTTTACTCTAAACTTGAATGAA-CCT-
131 AGTTCACTTTTGTTTGATTGTCATCTCCTGCCATGGTTGTTTACTCTAAACTTGAATGAACCCTA
49657631 TTCAATTTGAATAGGAGATCAGTGAT-CCTCGGAAACCAATATTCCCAGATTCGATTCTCATCAT
196 TT-AATTTGAATAGGAGATCAGTG-TCCCTCGGAAACCAATATT-CC----TCGATTCTCATCAT
*
49657695 GATTTAGTATAGCTTCATTTGTCATCCAGAGACT-AGGAAGTTCACTTTTGTTTGATTGTCATCT
254 GATTTAGTATAGCTTCATTTATCATCCAGAGACTAAGGAAGTT-ACTTTTGTTTGATTGTCATCT
* * * * **
49657759 CCTGCCGTGGTTGTTTACTTTGAACTTGAATGAACCTTATC-ATTTGGATAGGAGATCGGTGATC
318 CCTGCCATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGATAGGAGATC-CTCAGA
** ** *
49657823 TTCAGATATTCCTGGATTTTCATCGTGATTTAGTAT-AGCTTGGTTTGTCATCTAGAGACTAGGG
382 AACAGATATTCCCAGATTTTCATCGTGATTTAGTATAAGCTTGGTTTATCATCTAGAGACTAGGG
49657887 AAGTTCACTTTTGTTTGATTATCATCTCCTGCC
447 AAGTTCAC-TTTGTTTGATTATCATCTCCTGCC
* *
49657920 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATTGATTTGGATTGGAGATTGGTGATCCTCGGA
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGATAGGAGATTGGTGATCCTCGGA
* * *
49657985 AACCTATATTCCCGGATTTTCATCATGATTTAGTATAGCTTGGTTTGTTATCTAGAGACTAGGGA
66 AACCAATATTCCCGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGA
*
49658050 AGTTCACTTTTGTTTGATTATCATCTCCTGCCATG
131 AGTTCACTTTTGTTTGATTGTCATCTCCTGCCATG
49658085 ATTCCCTATA
Statistics
Matches: 574, Mismatches: 63, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
476 2 0.00
477 37 0.06
478 171 0.30
481 55 0.10
482 309 0.54
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.39
Consensus pattern (478 bp):
ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGATAGGAGATTGGTGATCCTCGGA
AACCAATATTCCCGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGA
AGTTCACTTTTGTTTGATTGTCATCTCCTGCCATGGTTGTTTACTCTAAACTTGAATGAACCCTA
TTAATTTGAATAGGAGATCAGTGTCCCTCGGAAACCAATATTCCTCGATTCTCATCATGATTTAG
TATAGCTTCATTTATCATCCAGAGACTAAGGAAGTTACTTTTGTTTGATTGTCATCTCCTGCCAT
GGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGATAGGAGATCCTCAGAAACAGATAT
TCCCAGATTTTCATCGTGATTTAGTATAAGCTTGGTTTATCATCTAGAGACTAGGGAAGTTCACT
TTGTTTGATTATCATCTCCTGCC
Found at i:49667140 original size:23 final size:23
Alignment explanation
Indices: 49667066--49667256 Score: 123
Period size: 23 Copynumber: 8.5 Consensus size: 23
49667056 TAAACGGAAC
* * *
49667066 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
49667088 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
49667110 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
49667136 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
49667156 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
49667175 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
49667198 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
49667223 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
49667246 AATCAAAGAGC
1 AAACAGAGAGC
49667257 GCGCTAGTGT
Statistics
Matches: 131, Mismatches: 22, Indels: 31
0.71 0.12 0.17
Matches are distributed among these distances:
16 10 0.08
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.02
22 18 0.14
23 57 0.44
24 2 0.02
25 29 0.22
26 8 0.06
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:49668342 original size:33 final size:36
Alignment explanation
Indices: 49668281--49668346 Score: 93
Period size: 33 Copynumber: 1.9 Consensus size: 36
49668271 CTCTTTTACC
* *
49668281 CCTTGCTCTACTCTTTTCCTTTGTCTTCAATTTGAT
1 CCTTGCTCTACTCTTCTCCTTTCTCTTCAATTTGAT
49668317 CCTTGC-CT-CTCTTCT-CTTTCTCTTCAATTT
1 CCTTGCTCTACTCTTCTCCTTTCTCTTCAATTT
49668347 CACATAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 14 0.50
34 6 0.21
35 2 0.07
36 6 0.21
ACGTcount: A:0.09, C:0.32, G:0.06, T:0.53
Consensus pattern (36 bp):
CCTTGCTCTACTCTTCTCCTTTCTCTTCAATTTGAT
Found at i:49671841 original size:22 final size:23
Alignment explanation
Indices: 49671781--49671843 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
49671771 TAGGGGGGCG
49671781 AAATTAAATTATAATTTTTACAA
1 AAATTAAATTATAATTTTTACAA
* *
49671804 AAATAAAAGTATAATTTTTA-AA
1 AAATTAAATTATAATTTTTACAA
* *
49671826 AGATTAAATTAAAATTTT
1 AAATTAAATTATAATTTT
49671844 ATCATTTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 16 0.47
23 18 0.53
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (23 bp):
AAATTAAATTATAATTTTTACAA
Found at i:49681868 original size:13 final size:13
Alignment explanation
Indices: 49681850--49681884 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
49681840 AATATTGAAA
49681850 ATTTTTTCTTTGT
1 ATTTTTTCTTTGT
*
49681863 ATTTTTTCTTTTT
1 ATTTTTTCTTTGT
*
49681876 CTTTTTTCT
1 ATTTTTTCT
49681885 CAGATTCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.11, G:0.03, T:0.80
Consensus pattern (13 bp):
ATTTTTTCTTTGT
Found at i:49686995 original size:12 final size:12
Alignment explanation
Indices: 49686978--49687007 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49686968 TAATTTATAC
49686978 ATAATATAAAGA
1 ATAATATAAAGA
49686990 ATAATATAAAGA
1 ATAATATAAAGA
*
49687002 TTAATA
1 ATAATA
49687008 ACATAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (12 bp):
ATAATATAAAGA
Found at i:49697079 original size:15 final size:14
Alignment explanation
Indices: 49697040--49697078 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
49697030 CAATTTATTC
49697040 TTTATATTTTAATT
1 TTTATATTTTAATT
49697054 TGATTA-ATTTTAATT
1 T--TTATATTTTAATT
49697069 TTTATATTTT
1 TTTATATTTT
49697079 TCGAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.14
14 6 0.27
15 10 0.45
16 3 0.14
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTATATTTTAATT
Found at i:49702136 original size:31 final size:31
Alignment explanation
Indices: 49702012--49702146 Score: 100
Period size: 31 Copynumber: 4.5 Consensus size: 31
49702002 TTTATTTTTA
* * * *
49702012 AATTAATTTAAATTAAATTATTATATGATGT
1 AATTAAATTAAATTAAAATATTATATAATAT
* *** *
49702043 GATT-AA-TAACGAAAAATATGATAT-A-AT
1 AATTAAATTAAATTAAAATATTATATAATAT
* *
49702070 AATTAAATTAAATT-AACTATTATTTAATAT
1 AATTAAATTAAATTAAAATATTATATAATAT
* * *
49702100 GATTAAATTAAATTAAAATATTATATATTGT
1 AATTAAATTAAATTAAAATATTATATAATAT
*
49702131 AATTAAATTAAGTTAA
1 AATTAAATTAAATTAA
49702147 TAGTGGCTAT
Statistics
Matches: 77, Mismatches: 22, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
27 4 0.05
28 11 0.14
29 17 0.22
30 16 0.21
31 29 0.38
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.42
Consensus pattern (31 bp):
AATTAAATTAAATTAAAATATTATATAATAT
Found at i:49703565 original size:41 final size:37
Alignment explanation
Indices: 49703465--49703566 Score: 87
Period size: 37 Copynumber: 2.6 Consensus size: 37
49703455 TTCGAAGCAA
* * *
49703465 TAAAGTGACACCAAGTGTCTCATCGGCCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGACCTAGCCGAAG
** ** * *
49703502 TAAAATGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCG-ACCTAGCCGAAG
49703540 TAAAATAATGACACCCAGTGTCTCATC
1 T--AA-AATGACACCCAGTGTCTCATC
49703567 AACTCAAAGT
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
37 19 0.40
38 10 0.21
40 2 0.04
41 17 0.35
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (37 bp):
TAAAATGACACCCAGTGTCTCATCGACCTAGCCGAAG
Found at i:49710556 original size:21 final size:21
Alignment explanation
Indices: 49710531--49710577 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
49710521 ATTATAAATA
*
49710531 TTAAAACAATAAAAAA-TTAT
1 TTAAAACAAAAAAAAATTTAT
*
49710551 TCTAAAATAAAAAAAAATTTAT
1 T-TAAAACAAAAAAAAATTTAT
49710573 TTAAA
1 TTAAA
49710578 TCTTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (21 bp):
TTAAAACAAAAAAAAATTTAT
Found at i:49714511 original size:23 final size:23
Alignment explanation
Indices: 49714485--49714650 Score: 159
Period size: 23 Copynumber: 7.4 Consensus size: 23
49714475 AGTGCTGGGC
49714485 AACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
49714508 AACAGAGAGTACACAAA--G-T-
1 AACAGAGAGCACACAAAGTGCTA
*
49714527 -AC--TGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
49714547 ATCAGAGAGCACACGAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
49714570 ATCAGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACACAAAGTGCT-A
* *
49714594 TAACAGAGAGCACGA-GACGTGCTA
1 -AACAGAGAGCAC-ACAAAGTGCTA
*
49714618 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
49714641 ATCAGAGAGC
1 AACAGAGAGC
49714651 GAGCTAGTGT
Statistics
Matches: 116, Mismatches: 16, Indels: 22
0.75 0.10 0.14
Matches are distributed among these distances:
16 10 0.09
18 3 0.03
19 1 0.01
20 1 0.01
21 2 0.02
22 1 0.01
23 79 0.68
24 2 0.02
25 16 0.14
26 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.11
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:49714516 original size:48 final size:44
Alignment explanation
Indices: 49714460--49714650 Score: 167
Period size: 48 Copynumber: 4.2 Consensus size: 44
49714450 TGAAGTACTG
*
49714460 AACAGAGAGCACATAAGTGCTGGGCAACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACAGAAGTGCT----AACAGAGAGCACACAAAGTGCTA
* * * *
49714508 AACAGAGAGTACACAA-AG-T-AC--TGAGCACACAAAGTGCTA
1 AACAGAGAGCACAGAAGTGCTAACAGAGAGCACACAAAGTGCTA
* *
49714547 ATCAGAGAGCACACGAAGTGCTAATCAGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACA-GAAGTGCTAA-CAGAGAGCACACAAAGTGCT-A
* *
49714594 TAACAGAGAGCACGAGACGTGCTAAACAGAGAGCACACACAGTGCTA
1 -AACAGAGAGCAC-AGAAGTGCT-AACAGAGAGCACACAAAGTGCTA
*
49714641 ATCAGAGAGC
1 AACAGAGAGC
49714651 GAGCTAGTGT
Statistics
Matches: 119, Mismatches: 13, Indels: 24
0.76 0.08 0.15
Matches are distributed among these distances:
39 28 0.24
40 2 0.02
41 3 0.03
42 1 0.01
43 1 0.01
44 1 0.01
46 25 0.21
47 3 0.03
48 52 0.44
49 3 0.03
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.12
Consensus pattern (44 bp):
AACAGAGAGCACAGAAGTGCTAACAGAGAGCACACAAAGTGCTA
Found at i:49714545 original size:39 final size:39
Alignment explanation
Indices: 49714491--49714565 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
49714481 GGGCAACAGA
*
49714491 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
49714530 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
49714566 GCTAATCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:49716152 original size:14 final size:14
Alignment explanation
Indices: 49716133--49716159 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49716123 TTCTCTAGAA
49716133 ATCTCACTTAAAAT
1 ATCTCACTTAAAAT
49716147 ATCTCACTTAAAA
1 ATCTCACTTAAAA
49716160 AAATGGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
ATCTCACTTAAAAT
Found at i:49716840 original size:17 final size:17
Alignment explanation
Indices: 49716764--49716842 Score: 65
Period size: 17 Copynumber: 4.6 Consensus size: 17
49716754 CCCAATAAAG
*
49716764 ATTTAAATTTAGTTTTAA
1 ATTTAAATTTA-TTATAA
* *
49716782 A-TTAAATTTATTTTGA
1 ATTTAAATTTATTATAA
49716798 ATTTAAATTTGCA-TA-AA
1 ATTTAAATTT--ATTATAA
*
49716815 ATTTGAATTTATTATAA
1 ATTTAAATTTATTATAA
*
49716832 ATCTAAATTTA
1 ATTTAAATTTA
49716843 AAATTAAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
15 1 0.02
16 8 0.16
17 38 0.76
18 2 0.04
19 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (17 bp):
ATTTAAATTTATTATAA
Found at i:49717563 original size:18 final size:16
Alignment explanation
Indices: 49717540--49717582 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 16
49717530 GGCATTAATG
49717540 ATAATATTAATAATAA
1 ATAATATTAATAATAA
49717556 GTATAATATTAATAATAA
1 --ATAATATTAATAATAA
49717574 ATAATATTA
1 ATAATATTA
49717583 GTATTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 9 0.36
18 16 0.64
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
ATAATATTAATAATAA
Found at i:49718366 original size:31 final size:33
Alignment explanation
Indices: 49718314--49718380 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 33
49718304 TATTTGCGCG
*
49718314 TTTAGTCCTTCTGCAT-TTTTTATT-GTTTTAA
1 TTTAGTCCTTCTGCATCTTTTAATTAGTTTTAA
* *
49718345 TTTAGTCCTT-TTCATACTTTTAATTATTTTTAA
1 TTTAGTCCTTCTGCAT-CTTTTAATTAGTTTTAA
49718378 TTT
1 TTT
49718381 GGCCCAGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 4 0.13
31 10 0.33
32 7 0.23
33 9 0.30
ACGTcount: A:0.19, C:0.12, G:0.06, T:0.63
Consensus pattern (33 bp):
TTTAGTCCTTCTGCATCTTTTAATTAGTTTTAA
Found at i:49718771 original size:58 final size:57
Alignment explanation
Indices: 49718657--49719194 Score: 650
Period size: 58 Copynumber: 9.3 Consensus size: 57
49718647 CCTGGACTGT
* ** *
49718657 CCAAAAATTATCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAAACCTCAATTTCA
1 CCAAAAATTACCATTTTACCCCTAAAC-TTCCAAAATTCCATTTT-AACCTCGATTTCA
* * * * *
49718716 CAAAAAATTACCATTTTACCCCTAAACTTCCTAAAATCCCATTTAAACC-CTAATTTTA
1 CCAAAAATTACCATTTTACCCCTAAACTTCC-AAAATTCCATTTTAACCTC-GATTTCA
* * *
49718774 CCAAAAATTACTATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCTCAATTTCA
1 CCAAAAATTACCATTTTACCCCTAAAC-TTCCAAAATTCCA-TTTTAACCTCGATTTCA
* ** * *
49718833 CCAAAAATTACGATTTTACCCCCGAACTTTCCAAGATTCCATTTTTACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAAC-TTCCAAAATTCCATTTTAACCTCGATTTCA
* ** * *
49718891 TCAAAAATTACCATTTTACCCCCGAACTTTCTAAGATTCCATTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAAC-TTCCAAAATTCCATTTTAACCTCGATTTCA
* * *
49718949 CCAAAGATTACCATTTTACCCCTAAACTTCCTAAAATCCCATTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTCC-AAAATTCCATTTTAACCTCGATTTCA
* ** *
49719007 CCAAAAATTACCATTTTACCCTCGAATTTTCCAAAATTCCATTTTAACTTCGATTTCA
1 CCAAAAATTACCATTTTACCC-CTAAACTTCCAAAATTCCATTTTAACCTCGATTTCA
*
49719065 CCAAAAATTACCATTTTACCCCTAAACTTCCCAAAATCCCATTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTT-CCAAAATTCCATTTTAACCTCGATTTCA
* * *
49719123 CTAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCA-TTTAACCT-AATTTCA
1 CCAAAAATTACCATTTTACCCCTAAAC-TTCCAAAATTCCATTTTAACCTCGATTTCA
49719179 CCAAAAATTACCATTT
1 CCAAAAATTACCATTT
49719195 GCCCCCGCAA
Statistics
Matches: 422, Mismatches: 48, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
56 21 0.05
57 17 0.04
58 287 0.68
59 96 0.23
60 1 0.00
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (57 bp):
CCAAAAATTACCATTTTACCCCTAAACTTCCAAAATTCCATTTTAACCTCGATTTCA
Found at i:49718993 original size:116 final size:116
Alignment explanation
Indices: 49718657--49719194 Score: 760
Period size: 116 Copynumber: 4.6 Consensus size: 116
49718647 CCTGGACTGT
* *
49718657 CCAAAAATTATCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAAACCTCAATTTCACAAAAA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTT-AACCTCAATTTCACCAAAA
* * *
49718722 ATTACCATTTTACCCCTAAACTTCCTAAAATCCCATTTAAACC-CTAATTTTA
65 ATTACCATTTTACCCCTAAACTTCCTAAAATCCCATTTTAACCTC-GATTTCA
* ** *
49718774 CCAAAAATTACTATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCTCAATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCA-TTTTAACCTCAATTTCACCAAAA
* ** * * *
49718839 ATTACGATTTTACCCCCGAACTTTCC-AAGATTCCATTTTTACCTCGATTTCA
65 ATTACCATTTTACCCCTAAAC-TTCCTAAAATCCCATTTTAACCTCGATTTCA
* * * * *
49718891 TCAAAAATTACCATTTTACCCCCGAACTTTCTAAGATTCCATTTTAACCTCGATTTCACCAAAGA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCTCAATTTCACCAAAAA
*
49718956 TTACCATTTTACCCCTAAACTTCCTAAAATCCCATTTTAACCCCGATTTCA
66 TTACCATTTTACCCCTAAACTTCCTAAAATCCCATTTTAACCTCGATTTCA
* * * *
49719007 CCAAAAATTACCATTTTACCCTCGAATTTTCCAAAATTCCATTTTAACTTCGATTTCACCAAAAA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCTCAATTTCACCAAAAA
*
49719072 TTACCATTTTACCCCTAAACTTCCCAAAATCCCATTTTAACCTCGATTTCA
66 TTACCATTTTACCCCTAAACTTCCTAAAATCCCATTTTAACCTCGATTTCA
* *
49719123 CTAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCA-TTTAACCT-AATTTCACCAAAAA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCTCAATTTCACCAAAAA
49719186 TTACCATTT
66 TTACCATTT
49719195 GCCCCCGCAA
Statistics
Matches: 371, Mismatches: 46, Indels: 11
0.87 0.11 0.03
Matches are distributed among these distances:
114 22 0.06
115 11 0.03
116 204 0.55
117 125 0.34
118 9 0.02
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (116 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCTCAATTTCACCAAAAA
TTACCATTTTACCCCTAAACTTCCTAAAATCCCATTTTAACCTCGATTTCA
Found at i:49719062 original size:174 final size:173
Alignment explanation
Indices: 49718657--49719194 Score: 751
Period size: 174 Copynumber: 3.1 Consensus size: 173
49718647 CCTGGACTGT
* *
49718657 CCAAAAATTATCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAAACCTCAATTTCACAAAAA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTT-AACCTCGATTTCAC-AAAA
* * * *
49718722 ATTACCATTTTACCCCTAAACTTCCTAAAATCCCATTTAAACC-CTAATTTTACCAAAAATTACT
64 ATTACCATTTTACCCCTAAACTTCCTAAAATCCCATTTTAACCTC-GATTTCACCAAAAATTACC
* *
49718786 ATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCTCAATTTCA
128 ATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCAATTTCA
* * *
49718833 CCAAAAATTACGATTTTACCCCCGAACTTTCCAAGATTCCATTTTTACCTCGATTTCATCAAAAA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCTCGATTTCA-CAAAAA
** * * * *
49718898 TTACCATTTTACCCCCGAACTTTCTAAGATTCCATTTTAACCTCGATTTCACCAAAGATTACCAT
65 TTACCATTTTACCCCTAAACTTCCTAAAATCCCATTTTAACCTCGATTTCACCAAAAATTACCAT
* *
49718963 TTTACCCCTAAAC-TTCCTAAAATCCCATTTTAACCCCGATTTCA
130 TTTACCCCTAAACTTTCC-AAAATTCCATTTTAACCCCAATTTCA
* * *
49719007 CCAAAAATTACCATTTTACCCTCGAATTTTCCAAAATTCCATTTTAACTTCGATTTCACCAAAAA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCTCGATTTCA-CAAAAA
* *
49719072 TTACCATTTTACCCCTAAACTTCCCAAAATCCCATTTTAACCTCGATTTCACTAAAAATTACCAT
65 TTACCATTTTACCCCTAAACTTCCTAAAATCCCATTTTAACCTCGATTTCACCAAAAATTACCAT
* *
49719137 TTTACCCCTGAACTTTCCAAAATTCCA-TTTAA-CCTAATTTCA
130 TTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCAATTTCA
49719179 CCAAAAATTACCATTT
1 CCAAAAATTACCATTT
49719195 GCCCCCGCAA
Statistics
Matches: 320, Mismatches: 38, Indels: 12
0.86 0.10 0.03
Matches are distributed among these distances:
172 24 0.08
173 5 0.02
174 153 0.48
175 94 0.29
176 44 0.14
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (173 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCTCGATTTCACAAAAAT
TACCATTTTACCCCTAAACTTCCTAAAATCCCATTTTAACCTCGATTTCACCAAAAATTACCATT
TTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCAATTTCA
Found at i:49719192 original size:28 final size:30
Alignment explanation
Indices: 49718689--49719194 Score: 257
Period size: 29 Copynumber: 17.4 Consensus size: 30
49718679 CGAACTTTCC
*
49718689 AAAATT-CCATTTTAAACCTCAATTTCACAA
1 AAAATTACCATTTT-AACCTCAATTTCACCA
* * * *
49718719 AAAATTACCATTTTACCCCTAAACTT--CCT
1 AAAATTACCATTTTA-ACCTCAATTTCACCA
* * *
49718748 AAAA-TCCCATTTAAACC-CTAATTTTACCA
1 AAAATTACCATTTTAACCTC-AATTTCACCA
* * *
49718777 AAAATTACTATTTTACCCCTAAACTTT--CC-
1 AAAATTACCATTTTA-ACCTCAA-TTTCACCA
*
49718806 AAAATT-CCATTTTTGACCTCAATTTCACCA
1 AAAATTACCA-TTTTAACCTCAATTTCACCA
* * *
49718836 AAAATTACGATTTTACCCCCGAACTTT--CC-
1 AAAATTACCATTTTAACCTC-AA-TTTCACCA
* * * *
49718865 AAGATT-CCATTTTTACCTCGATTTCATCA
1 AAAATTACCATTTTAACCTCAATTTCACCA
* * *
49718894 AAAATTACCATTTTACCCCCGAACTTT---CT
1 AAAATTACCATTTTAACCTC-AA-TTTCACCA
* *
49718923 AAGATT-CCATTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTAACCTCAATTTCACCA
* * * * *
49718952 AAGATTACCATTTTACCCCTAAACTT--CCT
1 AAAATTACCATTTTA-ACCTCAATTTCACCA
* * *
49718981 AAAA-TCCCATTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTAACCTCAATTTCACCA
* *
49719010 AAAATTACCATTTTACCCTCGAATTT-TCC-
1 AAAATTACCATTTTAACCTC-AATTTCACCA
* *
49719039 AAAATT-CCATTTTAACTTCGATTTCACCA
1 AAAATTACCATTTTAACCTCAATTTCACCA
* * *
49719068 AAAATTACCATTTTACCCCTAAACTTC-CC-
1 AAAATTACCATTTTA-ACCTCAATTTCACCA
* * *
49719097 AAAA-TCCCATTTTAACCTCGATTTCACTA
1 AAAATTACCATTTTAACCTCAATTTCACCA
* *
49719126 AAAATTACCATTTTACCCCTGAACTTT--CC-
1 AAAATTACCATTTTA-ACCTCAA-TTTCACCA
49719155 AAAATT-CCA-TTTAACCT-AATTTCACCA
1 AAAATTACCATTTTAACCTCAATTTCACCA
49719182 AAAATTACCATTT
1 AAAATTACCATTT
49719195 GCCCCCGCAA
Statistics
Matches: 350, Mismatches: 81, Indels: 91
0.67 0.16 0.17
Matches are distributed among these distances:
24 3 0.01
25 2 0.01
26 11 0.03
27 37 0.11
28 74 0.21
29 85 0.24
30 83 0.24
31 43 0.12
32 12 0.03
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTACCATTTTAACCTCAATTTCACCA
Found at i:49725512 original size:22 final size:21
Alignment explanation
Indices: 49725480--49725520 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 21
49725470 TAAAAATTCA
49725480 AAAAAATTGAATATATAAAAAAT
1 AAAAAATTGAA-A-ATAAAAAAT
49725503 AAAAAA-TGAAAATAAAAA
1 AAAAAATTGAAAATAAAAA
49725521 GTTAAGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 1 0.06
22 4 0.22
23 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAAATTGAAAATAAAAAAT
Found at i:49725893 original size:2 final size:2
Alignment explanation
Indices: 49725888--49725928 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
49725878 ATTTTCAATT
49725888 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49725929 TCTTTTTTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:49748546 original size:16 final size:15
Alignment explanation
Indices: 49748510--49748545 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
49748500 CAAAACCAAG
49748510 ATTTTTACAATATCC
1 ATTTTTACAATATCC
*
49748525 ATTTTTACAATATTC
1 ATTTTTACAATATCC
49748540 ATTTTT
1 ATTTTT
49748546 TTAAATTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTTACAATATCC
Found at i:49748558 original size:16 final size:17
Alignment explanation
Indices: 49748511--49748560 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 17
49748501 AAAACCAAGA
*
49748511 TTTTTACAATATCCA--
1 TTTTTACAATATTCATT
49748526 TTTTTACAATATTCATT
1 TTTTTACAATATTCATT
49748543 TTTTTA-AAT-TTACATT
1 TTTTTACAATATT-CATT
49748559 TT
1 TT
49748561 AAGTTACCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 16 0.52
16 9 0.29
17 6 0.19
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTTACAATATTCATT
Found at i:49749021 original size:20 final size:19
Alignment explanation
Indices: 49748984--49749021 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
49748974 TCCAAATTTT
49748984 AAAATCTTAAAAGTAAAAA
1 AAAATCTTAAAAGTAAAAA
49749003 AAAATCTTGAAAA-TAAAAA
1 AAAATCTT-AAAAGTAAAAA
49749022 TATATAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (19 bp):
AAAATCTTAAAAGTAAAAA
Found at i:49749846 original size:86 final size:86
Alignment explanation
Indices: 49749701--49749864 Score: 256
Period size: 86 Copynumber: 1.9 Consensus size: 86
49749691 TATTTGTAAT
* * * * *
49749701 GATAAATACTTTAATCATTAGAAGAATACACGAATTTTTTATTTTTAATTACTTTTAAGAAGGAC
1 GATAAACACTTTAATCATCAGAAGAACACACGAATTTTTCAATTTTAATTACTTTTAAGAAGGAC
49749766 AAATAAATTCAAATCTGAGAC
66 AAATAAATTCAAATCTGAGAC
* * *
49749787 GATAAACACTTTGATCATCAGAAGAACACATGAGTTTTTCAATTTTAATTACTTTTAAGAAGGAC
1 GATAAACACTTTAATCATCAGAAGAACACACGAATTTTTCAATTTTAATTACTTTTAAGAAGGAC
49749852 AAATAAATTCAAA
66 AAATAAATTCAAA
49749865 CAAATTGTTG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (86 bp):
GATAAACACTTTAATCATCAGAAGAACACACGAATTTTTCAATTTTAATTACTTTTAAGAAGGAC
AAATAAATTCAAATCTGAGAC
Found at i:49750380 original size:21 final size:21
Alignment explanation
Indices: 49750354--49750399 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
49750344 AATTATATAA
49750354 TAAAATATATTTCT-AAAATTT
1 TAAAATAT-TTTCTGAAAATTT
* *
49750375 TAAAATGTTTTTTGAAAATTT
1 TAAAATATTTTCTGAAAATTT
49750396 TAAA
1 TAAA
49750400 TTTCATGGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (21 bp):
TAAAATATTTTCTGAAAATTT
Found at i:49751777 original size:22 final size:22
Alignment explanation
Indices: 49751739--49751790 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
49751729 TGAGAAAACT
49751739 AGAAAAAA-AACAAAATATAAA
1 AGAAAAAAGAACAAAATATAAA
**
49751760 AGAAAAAAGAACTGAATATAAA
1 AGAAAAAAGAACAAAATATAAA
*
49751782 A-AAGAAAGA
1 AGAAAAAAGA
49751791 GGCAGGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.75, C:0.04, G:0.12, T:0.10
Consensus pattern (22 bp):
AGAAAAAAGAACAAAATATAAA
Done.