Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 255 of 297
Found at i:87212010 original size:18 final size:18
Alignment explanation
Indices: 87211963--87212010 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
87211953 CTTAGCCCAT
87211963 TACAGTAACAGTAAACAG
1 TACAGTAACAGTAAACAG
*
87211981 TACAATAACAGTAAACAG
1 TACAGTAACAGTAAACAG
*
87211999 TACAGTAGCAGT
1 TACAGTAACAGT
87212011 TACGGTATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (18 bp):
TACAGTAACAGTAAACAG
Found at i:87212439 original size:27 final size:27
Alignment explanation
Indices: 87212409--87212478 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
87212399 CCTTACACGA
* *
87212409 GTATTACAGTTATTTTATCCTACT-GGG
1 GTATTTCAGTCATTTTATCCTA-TGGGG
*
87212436 GTATTTCGGTCATTTTATCCTATGGGG
1 GTATTTCAGTCATTTTATCCTATGGGG
87212463 GTATTTCAGTCATTTT
1 GTATTTCAGTCATTTT
87212479 TAAGTAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.03
27 37 0.97
ACGTcount: A:0.19, C:0.14, G:0.20, T:0.47
Consensus pattern (27 bp):
GTATTTCAGTCATTTTATCCTATGGGG
Found at i:87212892 original size:8 final size:8
Alignment explanation
Indices: 87212879--87212919 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
87212869 CGACAACCCA
*
87212879 CTTTTCGG
1 CTTTTCAG
87212887 CTTTTCAG
1 CTTTTCAG
* *
87212895 CCTTTCGG
1 CTTTTCAG
87212903 CTTTTCAG
1 CTTTTCAG
87212911 CTTTTCAG
1 CTTTTCAG
87212919 C
1 C
87212920 CTTTGCATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.07, C:0.29, G:0.17, T:0.46
Consensus pattern (8 bp):
CTTTTCAG
Found at i:87212902 original size:16 final size:16
Alignment explanation
Indices: 87212881--87212916 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
87212871 ACAACCCACT
87212881 TTTCGGCTTTTCAGCC
1 TTTCGGCTTTTCAGCC
*
87212897 TTTCGGCTTTTCAGCT
1 TTTCGGCTTTTCAGCC
87212913 TTTC
1 TTTC
87212917 AGCCTTTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.06, C:0.28, G:0.17, T:0.50
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCC
Found at i:87214710 original size:31 final size:31
Alignment explanation
Indices: 87214655--87214732 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
87214645 CTCAACATAT
* *
87214655 ACTGGGCTGAAGCC-TTTCATAATTCATAAC
1 ACTGGGCCGAAGCCTTTTCAAAATTCATAAC
*
87214685 ACTGGGCCGAAGCCTTTTCAAAATTCATATC
1 ACTGGGCCGAAGCCTTTTCAAAATTCATAAC
87214716 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
87214733 ATTATAAGCG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 13 0.30
31 31 0.70
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCAAAATTCATAAC
Found at i:87214979 original size:25 final size:25
Alignment explanation
Indices: 87214951--87215022 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
87214941 CTCTTTTAAT
* *
87214951 AACTGAGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAACCCTTTTTGATA
*
87214976 AACTGGGGCAAAACCCTTTTTGGTA
1 AACTGGGGCAAAACCCTTTTTGATA
87215001 AACTGGGGCAAAACCCTTTTTG
1 AACTGGGGCAAAACCCTTTTTG
87215023 CACTTCCTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAACCCTTTTTGATA
Found at i:87215093 original size:21 final size:21
Alignment explanation
Indices: 87215068--87215118 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
87215058 TATATTGAGT
*
87215068 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCATAAC
**
87215089 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
87215110 ATATCATGT
1 ATATCATGT
87215119 ATATCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:87222652 original size:31 final size:31
Alignment explanation
Indices: 87222605--87222674 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
87222595 ATACTGGGCT
*
87222605 GAAGCC-TTTCATAATTCATAACACTAGGCC
1 GAAGCCTTTTCAAAATTCATAACACTAGGCC
* *
87222635 GAAGCCTTTTCAAAATTCATATCACTGGGCC
1 GAAGCCTTTTCAAAATTCATAACACTAGGCC
87222666 GAAGCCTTT
1 GAAGCCTTT
87222675 ACTATAAGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 6 0.17
31 30 0.83
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (31 bp):
GAAGCCTTTTCAAAATTCATAACACTAGGCC
Found at i:87222907 original size:24 final size:23
Alignment explanation
Indices: 87222866--87222937 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 23
87222856 CTGCTTTATC
**
87222866 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACT-GAGGCAAAGCC-CTTTTA
*
87222891 ATAACTGAGGCAAAGCCCTTTTTG
1 ATAACTGAGGCAAAGCCC-TTTTA
*
87222915 ATAAACTGGGGCAAAGCCCTTTT
1 AT-AACTGAGGCAAAGCCCTTTT
87222938 TGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 1 0.02
24 19 0.46
25 21 0.51
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
ATAACTGAGGCAAAGCCCTTTTA
Found at i:87231168 original size:25 final size:25
Alignment explanation
Indices: 87231073--87231156 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
87231063 AGTGGTAAGA
* * *
87231073 TACTTTGATGTTTATAATGAGGATT
1 TACTTTGATTTTTGTAATGAGGAAT
** *
87231098 TACTTTGATTCTTCTATGTTTTTAGGAAT
1 TACTTTGA-T-TT-T-TGTAATGAGGAAT
87231127 TACTTTGATTTTTGTAATGAGGAAT
1 TACTTTGATTTTTGTAATGAGGAAT
87231152 TACTT
1 TACTT
87231157 GTTTAGTTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
25 23 0.50
26 2 0.04
27 3 0.07
28 2 0.04
29 16 0.35
ACGTcount: A:0.25, C:0.07, G:0.17, T:0.51
Consensus pattern (25 bp):
TACTTTGATTTTTGTAATGAGGAAT
Found at i:87232006 original size:19 final size:19
Alignment explanation
Indices: 87231982--87232018 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
87231972 TCAATTCCAT
*
87231982 TATTTAAATTTTGTTTTAG
1 TATTTAAATTTTATTTTAG
87232001 TATTTAAATTTTATTTTA
1 TATTTAAATTTTATTTTA
87232019 TCCATATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
TATTTAAATTTTATTTTAG
Found at i:87233749 original size:4 final size:4
Alignment explanation
Indices: 87233736--87233766 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
87233726 TGGTTTTTTG
87233736 AATT -ATT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
87233767 GAAATTCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
AATT
Found at i:87237978 original size:125 final size:126
Alignment explanation
Indices: 87237733--87238250 Score: 747
Period size: 126 Copynumber: 4.1 Consensus size: 126
87237723 ATATAAATTT
** * * * *
87237733 TTTTTCTACAACAGTATCTAAAAAAATAATTTTGAGAAAACGTTTTTAAACAAATAGTGTCGAAA
1 TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCCAAA
* * * *
87237798 ACACTTCAAGCAGGATGTACTGTAAGCAAAATTATTGAAAAAAGCT-TCCACGTGGACACTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCT-CACGTGGACACTC
* * * * * *
87237859 TTTTTCTACAATAGTATTTGAAAAAATAATTTTGAGAATATGTTTCTGAACAAATAGTGTCTAAA
1 TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCCAAA
*
87237924 ATG-TTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTC-CTACGTGGA-AGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTC-ACGTGGACA-CTC
* *
87237984 TTTTTCTACAGTAGTATCTAAAAAAATAACTTTGAGAAGATGTTTCTAAACAAATACTGTCCAAA
1 TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCCAAA
* * * *
87238049 ACGCTTTAAGAAGGATGCATTGTCAGCAAAATTACTGAAAAAAGCTCTCAAGTGGACACTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACACTC
* *
87238110 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCCAAA
1 TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCCAAA
*
87238175 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACACTC
87238236 TTTTTCTACAGTAGT
1 TTTTTCTACAGTAGT
87238251 TCCTATCTGG
Statistics
Matches: 351, Mismatches: 35, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
124 2 0.01
125 108 0.31
126 239 0.68
127 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCCAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACACTC
Found at i:87241845 original size:18 final size:18
Alignment explanation
Indices: 87241824--87241858 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
87241814 GAAAAGGAAA
*
87241824 CATATAAGGGTTAGGATG
1 CATATAAGGGCTAGGATG
87241842 CATATAAGGGCTAGGAT
1 CATATAAGGGCTAGGAT
87241859 ACGCACTTGG
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:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
CATATAAGGGCTAGGATG
Found at i:87241973 original size:30 final size:29
Alignment explanation
Indices: 87241939--87242011 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
87241929 TATGGGCACC
87241939 GTTGATGGGCCTGCGTCTTATATGAGCGCT
1 GTTGATGGGCC-GCGTCTTATATGAGCGCT
* * * *
87241969 GTTGATGGGTCCGCGTCTTGTGTGGGCGTT
1 GTTGATGGG-CCGCGTCTTATATGAGCGCT
87241999 GTTGATGGGCCGC
1 GTTGATGGGCCGC
87242012 ATCGTCATCC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 4 0.11
30 32 0.84
31 2 0.05
ACGTcount: A:0.08, C:0.19, G:0.40, T:0.33
Consensus pattern (29 bp):
GTTGATGGGCCGCGTCTTATATGAGCGCT
Found at i:87244379 original size:8 final size:8
Alignment explanation
Indices: 87244366--87244417 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
87244356 TCATTTTAAA
87244366 AATATTTT
1 AATATTTT
87244374 AATA--TT
1 AATATTTT
87244380 AATATTTT
1 AATATTTT
87244388 AATATTCATT
1 AATATT--TT
87244398 -A-ATTTT
1 AATATTTT
87244404 AATATTTT
1 AATATTTT
87244412 AATATT
1 AATATT
87244418 AAAATTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
6 8 0.21
7 1 0.03
8 26 0.68
9 1 0.03
10 2 0.05
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (8 bp):
AATATTTT
Found at i:87244385 original size:14 final size:14
Alignment explanation
Indices: 87244366--87244424 Score: 63
Period size: 14 Copynumber: 4.5 Consensus size: 14
87244356 TCATTTTAAA
87244366 AATATTTTAATATT
1 AATATTTTAATATT
87244380 AATATTTTAATATT
1 AATATTTTAATATT
* *
87244394 --CA--TTAATTTT
1 AATATTTTAATATT
87244404 AATATTTTAATATT
1 AATATTTTAATATT
*
87244418 AAAATTT
1 AATATTT
87244425 AATTAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
10 7 0.19
12 2 0.06
14 27 0.75
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATTTTAATATT
Found at i:87244405 original size:24 final size:24
Alignment explanation
Indices: 87244372--87244417 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
87244362 TAAAAATATT
87244372 TTAATATTAATATTTTAATATTCA
1 TTAATATTAATATTTTAATATTCA
*
87244396 TTAATTTTAATATTTTAATATT
1 TTAATATTAATATTTTAATATT
87244418 AAAATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TTAATATTAATATTTTAATATTCA
Found at i:87251649 original size:20 final size:20
Alignment explanation
Indices: 87251624--87251665 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
87251614 TATATTAATA
87251624 TACTAGCATTTAACTTATAG
1 TACTAGCATTTAACTTATAG
87251644 TACTAGCATTTAACTTATAG
1 TACTAGCATTTAACTTATAG
87251664 TA
1 TA
87251666 GACTATGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
TACTAGCATTTAACTTATAG
Found at i:87252959 original size:29 final size:29
Alignment explanation
Indices: 87252913--87252989 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 29
87252903 TATATTGTGT
* *
87252913 TAGAAAGAAAATGAGAGAAGAAAAATATG
1 TAGAGAGAAAATGAGAGAAGAAAAAGATG
*
87252942 TAGAGAGAAAATGGGAGAAGAAAAAGATG
1 TAGAGAGAAAATGAGAGAAGAAAAAGATG
* * * *
87252971 TTGGGAGAAATTGAAAGAA
1 TAGAGAGAAAATGAGAGAA
87252990 TTTTGATAGA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.56, C:0.00, G:0.30, T:0.14
Consensus pattern (29 bp):
TAGAGAGAAAATGAGAGAAGAAAAAGATG
Found at i:87258597 original size:69 final size:69
Alignment explanation
Indices: 87258479--87258608 Score: 217
Period size: 69 Copynumber: 1.9 Consensus size: 69
87258469 TCGATATAAA
87258479 TATATTAGTTATATTATAAATTCACTTAATAATAATGTTAATTTCAGTTATAAAATAAATGTGTA
1 TATATTAGTTATATTATAAATTCACTTAATAATAATGTTAATTTCAGTTATAAAATAAATGTGTA
87258544 GAAG
66 GAAG
* * *
87258548 TATATTAGTTATATTATAAATTCACTTAATGATACTGTTAATATT-AGTTATGAAATAAATG
1 TATATTAGTTATATTATAAATTCACTTAATAATAATGTTAAT-TTCAGTTATAAAATAAATG
87258609 CTTATATATA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
69 55 0.96
70 2 0.04
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (69 bp):
TATATTAGTTATATTATAAATTCACTTAATAATAATGTTAATTTCAGTTATAAAATAAATGTGTA
GAAG
Found at i:87259660 original size:29 final size:29
Alignment explanation
Indices: 87259623--87259681 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
87259613 ATTGAAACTC
*
87259623 AATTTTAAGTTTATTTTTTAATTTACTGT
1 AATTCTAAGTTTATTTTTTAATTTACTGT
87259652 AATTCTAAGTTTATTTTTTAATTTACTGT
1 AATTCTAAGTTTATTTTTTAATTTACTGT
87259681 A
1 A
87259682 CTTAAAACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (29 bp):
AATTCTAAGTTTATTTTTTAATTTACTGT
Found at i:87259693 original size:28 final size:29
Alignment explanation
Indices: 87259633--87259695 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
87259623 AATTTTAAGT
* **
87259633 TTATTTTTTAATTTACTGTAATTCTAAGT
1 TTATTTTTTAATTTACTGTAATTCAAAAC
*
87259662 TTATTTTTTAATTTACTGTACTT-AAAAC
1 TTATTTTTTAATTTACTGTAATTCAAAAC
87259690 TTATTT
1 TTATTT
87259696 AATTTTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.59
Consensus pattern (29 bp):
TTATTTTTTAATTTACTGTAATTCAAAAC
Found at i:87262004 original size:743 final size:743
Alignment explanation
Indices: 87260992--87262468 Score: 2954
Period size: 743 Copynumber: 2.0 Consensus size: 743
87260982 ATTGCAAAGA
87260992 ATCTTTTATTTAACTTTGTGAATATATCTTATATCCAATGTTGATTAGCATTTGAAATATAACTT
1 ATCTTTTATTTAACTTTGTGAATATATCTTATATCCAATGTTGATTAGCATTTGAAATATAACTT
87261057 TTTATTTGAGGATAGTGGAATCATTGCAATGGTGTGGGAGTGATATGTTTATAGGTTTTGCCTTA
66 TTTATTTGAGGATAGTGGAATCATTGCAATGGTGTGGGAGTGATATGTTTATAGGTTTTGCCTTA
87261122 GCCTTTTCTCGTTGTTATGAAAGAAAGTGCTTGTCAGATGATGTGCAAGGTAGGCAAAGGGTAAA
131 GCCTTTTCTCGTTGTTATGAAAGAAAGTGCTTGTCAGATGATGTGCAAGGTAGGCAAAGGGTAAA
87261187 GAGAAGGTGTTAATATCGCCTGAGTTGCTAAGCACCGAAAAAATTCTTGGAGAAGTAATTTAGGG
196 GAGAAGGTGTTAATATCGCCTGAGTTGCTAAGCACCGAAAAAATTCTTGGAGAAGTAATTTAGGG
87261252 TACATATATTAAATATTAATATATTGTTAAATATACTGAACCTAGTATTCTAGAATAGTTAGATA
261 TACATATATTAAATATTAATATATTGTTAAATATACTGAACCTAGTATTCTAGAATAGTTAGATA
87261317 AGTTATCTAAAATATTTGTGTTCATTCCATTTCTTGCATTTTCTGGAAAGTTTATTTGTGTGTAA
326 AGTTATCTAAAATATTTGTGTTCATTCCATTTCTTGCATTTTCTGGAAAGTTTATTTGTGTGTAA
87261382 ATATAGATTTTTAACTTTCACCAATTCCATGGTGCTATGTTACTTGGAGTTGGATATGAATGTTG
391 ATATAGATTTTTAACTTTCACCAATTCCATGGTGCTATGTTACTTGGAGTTGGATATGAATGTTG
87261447 GAGTTGGACCTATGGGGTATGGTTCAGTTAGTCCTAATTGTTTCAGTATATTGAGGGTTGTATGT
456 GAGTTGGACCTATGGGGTATGGTTCAGTTAGTCCTAATTGTTTCAGTATATTGAGGGTTGTATGT
87261512 CTTGTGTTCATTTTGAGATTTTCAACATGTTAGGATAGAGGAAGAGTCGAAACAAGAATTTTAAC
521 CTTGTGTTCATTTTGAGATTTTCAACATGTTAGGATAGAGGAAGAGTCGAAACAAGAATTTTAAC
87261577 CCATATGCTCACATTTTATATTAACTGAAAGAATGTTGCACTCTAGCTTTTAAGGGTTGAGGTGA
586 CCATATGCTCACATTTTATATTAACTGAAAGAATGTTGCACTCTAGCTTTTAAGGGTTGAGGTGA
87261642 ATTGAAAGGGGAAGCTTAGATGTTCCAAATAGGGAATTCTTTTCTACCTCTCCCTGACCATGAAA
651 ATTGAAAGGGGAAGCTTAGATGTTCCAAATAGGGAATTCTTTTCTACCTCTCCCTGACCATGAAA
87261707 AAATGAAAAAAAAAAAGTTTGTGAATAT
716 AAATGAAAAAAAAAAAGTTTGTGAATAT
87261735 ATCTTTTATTTAACTTTGTGAATATATCTTATATCCAATGTTGATTAGCATTTGAAATATAACTT
1 ATCTTTTATTTAACTTTGTGAATATATCTTATATCCAATGTTGATTAGCATTTGAAATATAACTT
87261800 TTTATTTGAGGATAGTGGAATCATTGCAATGGTGTGGGAGTGATATGTTTATAGGTTTTGCCTTA
66 TTTATTTGAGGATAGTGGAATCATTGCAATGGTGTGGGAGTGATATGTTTATAGGTTTTGCCTTA
87261865 GCCTTTTCTCGTTGTTATGAAAGAAAGTGCTTGTCAGATGATGTGCAAGGTAGGCAAAGGGTAAA
131 GCCTTTTCTCGTTGTTATGAAAGAAAGTGCTTGTCAGATGATGTGCAAGGTAGGCAAAGGGTAAA
87261930 GAGAAGGTGTTAATATCGCCTGAGTTGCTAAGCACCGAAAAAATTCTTGGAGAAGTAATTTAGGG
196 GAGAAGGTGTTAATATCGCCTGAGTTGCTAAGCACCGAAAAAATTCTTGGAGAAGTAATTTAGGG
87261995 TACATATATTAAATATTAATATATTGTTAAATATACTGAACCTAGTATTCTAGAATAGTTAGATA
261 TACATATATTAAATATTAATATATTGTTAAATATACTGAACCTAGTATTCTAGAATAGTTAGATA
87262060 AGTTATCTAAAATATTTGTGTTCATTCCATTTCTTGCATTTTCTGGAAAGTTTATTTGTGTGTAA
326 AGTTATCTAAAATATTTGTGTTCATTCCATTTCTTGCATTTTCTGGAAAGTTTATTTGTGTGTAA
87262125 ATATAGATTTTTAACTTTCACCAATTCCATGGTGCTATGTTACTTGGAGTTGGATATGAATGTTG
391 ATATAGATTTTTAACTTTCACCAATTCCATGGTGCTATGTTACTTGGAGTTGGATATGAATGTTG
87262190 GAGTTGGACCTATGGGGTATGGTTCAGTTAGTCCTAATTGTTTCAGTATATTGAGGGTTGTATGT
456 GAGTTGGACCTATGGGGTATGGTTCAGTTAGTCCTAATTGTTTCAGTATATTGAGGGTTGTATGT
87262255 CTTGTGTTCATTTTGAGATTTTCAACATGTTAGGATAGAGGAAGAGTCGAAACAAGAATTTTAAC
521 CTTGTGTTCATTTTGAGATTTTCAACATGTTAGGATAGAGGAAGAGTCGAAACAAGAATTTTAAC
87262320 CCATATGCTCACATTTTATATTAACTGAAAGAATGTTGCACTCTAGCTTTTAAGGGTTGAGGTGA
586 CCATATGCTCACATTTTATATTAACTGAAAGAATGTTGCACTCTAGCTTTTAAGGGTTGAGGTGA
87262385 ATTGAAAGGGGAAGCTTAGATGTTCCAAATAGGGAATTCTTTTCTACCTCTCCCTGACCATGAAA
651 ATTGAAAGGGGAAGCTTAGATGTTCCAAATAGGGAATTCTTTTCTACCTCTCCCTGACCATGAAA
87262450 AAATGAAAAAAAAAAAGTT
716 AAATGAAAAAAAAAAAGTT
87262469 AGCAACTTCT
Statistics
Matches: 734, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
743 734 1.00
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (743 bp):
ATCTTTTATTTAACTTTGTGAATATATCTTATATCCAATGTTGATTAGCATTTGAAATATAACTT
TTTATTTGAGGATAGTGGAATCATTGCAATGGTGTGGGAGTGATATGTTTATAGGTTTTGCCTTA
GCCTTTTCTCGTTGTTATGAAAGAAAGTGCTTGTCAGATGATGTGCAAGGTAGGCAAAGGGTAAA
GAGAAGGTGTTAATATCGCCTGAGTTGCTAAGCACCGAAAAAATTCTTGGAGAAGTAATTTAGGG
TACATATATTAAATATTAATATATTGTTAAATATACTGAACCTAGTATTCTAGAATAGTTAGATA
AGTTATCTAAAATATTTGTGTTCATTCCATTTCTTGCATTTTCTGGAAAGTTTATTTGTGTGTAA
ATATAGATTTTTAACTTTCACCAATTCCATGGTGCTATGTTACTTGGAGTTGGATATGAATGTTG
GAGTTGGACCTATGGGGTATGGTTCAGTTAGTCCTAATTGTTTCAGTATATTGAGGGTTGTATGT
CTTGTGTTCATTTTGAGATTTTCAACATGTTAGGATAGAGGAAGAGTCGAAACAAGAATTTTAAC
CCATATGCTCACATTTTATATTAACTGAAAGAATGTTGCACTCTAGCTTTTAAGGGTTGAGGTGA
ATTGAAAGGGGAAGCTTAGATGTTCCAAATAGGGAATTCTTTTCTACCTCTCCCTGACCATGAAA
AAATGAAAAAAAAAAAGTTTGTGAATAT
Found at i:87268427 original size:38 final size:38
Alignment explanation
Indices: 87268374--87268452 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
87268364 TGTATAAAAG
87268374 TTTACCTCTAAATACTAGAGAACAACATTAGATTGTAC
1 TTTACCTCTAAATACTAGAGAACAACATTAGATTGTAC
*
87268412 TTTACCTCTAGATACTAGAGAACAACATTAGATTGTAC
1 TTTACCTCTAAATACTAGAGAACAACATTAGATTGTAC
87268450 TTT
1 TTT
87268453 GAAGTGGTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (38 bp):
TTTACCTCTAAATACTAGAGAACAACATTAGATTGTAC
Found at i:87268707 original size:16 final size:16
Alignment explanation
Indices: 87268686--87268726 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
87268676 TACCGTCCCT
87268686 TTTAAGATTACTATTA
1 TTTAAGATTACTATTA
87268702 TTTAAGATTACTATTA
1 TTTAAGATTACTATTA
87268718 TTTAA-ATTA
1 TTTAAGATTA
87268727 TATACACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (16 bp):
TTTAAGATTACTATTA
Found at i:87271827 original size:81 final size:81
Alignment explanation
Indices: 87271742--87271903 Score: 281
Period size: 81 Copynumber: 2.0 Consensus size: 81
87271732 TCTTCAGTAG
*
87271742 GAAAAAATTGTACCTTCATATAAAA-AATTTTTTTTGATGGTGAATTAACATACACCATTAACCA
1 GAAAAAATTGTACCTTCATATAAAACAA-ATTTTTTGATGGTGAATTAACATACACCATTAACCA
*
87271806 TAAAGAAATTTAGCTAT
65 CAAAGAAATTTAGCTAT
*
87271823 GAAAAATTTGTACCTTCATATAAAACAAATTTTTTGATGGTGAATTAACATACACCATTAACCAC
1 GAAAAAATTGTACCTTCATATAAAACAAATTTTTTGATGGTGAATTAACATACACCATTAACCAC
87271888 AAAGAAATTTAGCTAT
66 AAAGAAATTTAGCTAT
87271904 CCATAAGATT
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
81 75 0.97
82 2 0.03
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (81 bp):
GAAAAAATTGTACCTTCATATAAAACAAATTTTTTGATGGTGAATTAACATACACCATTAACCAC
AAAGAAATTTAGCTAT
Found at i:87276519 original size:24 final size:24
Alignment explanation
Indices: 87276469--87276520 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
87276459 TTTCTAGAAG
* **
87276469 ATTTAGTATTTATTAGTACAATAT
1 ATTTAGCATTTATTACCACAATAT
* *
87276493 ATTTAGCATTTATTACCATAATTT
1 ATTTAGCATTTATTACCACAATAT
87276517 ATTT
1 ATTT
87276521 GACCTATGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTACCACAATAT
Found at i:87278699 original size:26 final size:26
Alignment explanation
Indices: 87278659--87278708 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
87278649 GAAAAAAATG
*
87278659 AATAAGTGCTCAAATACTTAGTTTAA
1 AATAAGTACTCAAATACTTAGTTTAA
*
87278685 AATAAGTACTTAAATACTTAGTTT
1 AATAAGTACTCAAATACTTAGTTT
87278709 GATCTCTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (26 bp):
AATAAGTACTCAAATACTTAGTTTAA
Found at i:87282232 original size:53 final size:54
Alignment explanation
Indices: 87282032--87282251 Score: 201
Period size: 54 Copynumber: 4.1 Consensus size: 54
87282022 ATTAGGGTTT
* * * * ** *
87282032 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTAAAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAACTTCAAAAAGGA
* * * * * * * *
87282086 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AACTTCAAAAAGG-A
* ** * * *
87282142 AA-GATCCCATGTAAGACCATGCCAAGGTATGGCAATGGTGAGTTC-ATAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAACTTCAAAAAGGA
* *
87282194 AAGGATACCATGTAAGACCATGTCAAGACATGGAAATGGTAACTTCAAAAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAACTTCAAAAAGGA
87282248 AAGG
1 AAGG
87282252 TACTCGTGTA
Statistics
Matches: 131, Mismatches: 31, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
52 3 0.02
53 42 0.32
54 47 0.36
55 37 0.28
56 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAACTTCAAAAAGGA
Found at i:87283845 original size:7 final size:7
Alignment explanation
Indices: 87283833--87283871 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
87283823 AAATATGAGA
87283833 GGTGAAT
1 GGTGAAT
*
87283840 GGTGAAC
1 GGTGAAT
87283847 GGTGAAT
1 GGTGAAT
*
87283854 GGTGAGT
1 GGTGAAT
*
87283861 GGTGAAC
1 GGTGAAT
87283868 GGTG
1 GGTG
87283872 GTGTTTGGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.23, C:0.05, G:0.49, T:0.23
Consensus pattern (7 bp):
GGTGAAT
Found at i:87283864 original size:14 final size:14
Alignment explanation
Indices: 87283828--87283871 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
87283818 AAAAGAAATA
87283828 TGAGAGGTGAATGG
1 TGAGAGGTGAATGG
87283842 TGA-ACGGTGAATGG
1 TGAGA-GGTGAATGG
* *
87283856 TGAGTGGTGAACGG
1 TGAGAGGTGAATGG
87283870 TG
1 TG
87283872 GTGTTTGGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 25 0.96
ACGTcount: A:0.25, C:0.05, G:0.48, T:0.23
Consensus pattern (14 bp):
TGAGAGGTGAATGG
Found at i:87284426 original size:24 final size:25
Alignment explanation
Indices: 87284366--87284420 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
87284356 AATGGTTTTG
87284366 GGGTTATTATTTGGGTTAGGGGATT
1 GGGTTATTATTTGGGTTAGGGGATT
*
87284391 -GGTTATTATTTGGGTTAGGGGTGTT
1 GGGTTATTATTTGGGTTAGGGG-ATT
87284416 GGGTT
1 GGGTT
87284421 TTTTTGTAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 21 0.78
25 2 0.07
26 4 0.15
ACGTcount: A:0.13, C:0.00, G:0.42, T:0.45
Consensus pattern (25 bp):
GGGTTATTATTTGGGTTAGGGGATT
Found at i:87288581 original size:26 final size:26
Alignment explanation
Indices: 87288552--87288659 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
87288542 TGGTACAAAT
87288552 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
87288578 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
87288604 TGATAACGGGTTGGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
87288630 TGATAATTGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87288656 TGAT
1 TGAT
87288660 GGGCATTTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87295284 original size:5 final size:5
Alignment explanation
Indices: 87295274--87295305 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
87295264 TTGTGTGTTC
87295274 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
87295306 TCACAGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:87295288 original size:9 final size:9
Alignment explanation
Indices: 87295274--87295304 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
87295264 TTGTGTGTTC
87295274 TTTATTTTA
1 TTTATTTTA
87295283 TTTATTTTA
1 TTTATTTTA
87295292 TTTTATTTTA
1 -TTTATTTTA
87295302 TTT
1 TTT
87295305 TTCACAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:87300001 original size:23 final size:23
Alignment explanation
Indices: 87299975--87300019 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
87299965 CATTCAATAC
*
87299975 AAAGCGAACATGAAAA-ATAAAAG
1 AAAG-GAACATAAAAACATAAAAG
*
87299998 AAAGTAACATAAAAACATAAAA
1 AAAGGAACATAAAAACATAAAA
87300020 TGCTACCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.69, C:0.09, G:0.11, T:0.11
Consensus pattern (23 bp):
AAAGGAACATAAAAACATAAAAG
Found at i:87314160 original size:93 final size:93
Alignment explanation
Indices: 87313997--87314166 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
87313987 CCCCTAAGTT
* *
87313997 AACTCAGACTCAACTCAACGAGCTCGAGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGAGCATTCACATCCATAAGTGAACTCAGACTCAACTCAAC
*
87314062 GAGTTCGGATGCCTAGTTACATCTCACG
66 AAGTTCGGATGCCTAGTTACATCTCACG
* * * *
87314090 AACTCGGACTTAACTCAACGAGTTCG-GACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 AACTCAGACTCAACTCAACGAGCTCGAG-CATTCACATCCATAAGTGAACTCAGACTCAACTCAA
87314154 CAAGTTCGGATGC
65 CAAGTTCGGATGC
87314167 TCAACCATCC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 68 0.99
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGAGCATTCACATCCATAAGTGAACTCAGACTCAACTCAAC
AAGTTCGGATGCCTAGTTACATCTCACG
Found at i:87314162 original size:46 final size:47
Alignment explanation
Indices: 87313991--87314163 Score: 178
Period size: 46 Copynumber: 3.7 Consensus size: 47
87313981 AACCCGCCCC
* * *
87313991 TAAGTTAACTCAGACTCAACTCAACGAGCTC-GAGCGTTCACATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGAGCATTCACATCCA
*
87314037 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA-G-C-A-TTCACATCCA
* * * * *
87314085 TCA-CGAACTCGGACTTAACTCAACGAGTTCGGA-CATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGAGCATTCACATCCA
*
87314130 TAAGTGAACTCAGACTCAACTCAACAAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
87314164 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 54 0.51
47 30 0.29
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (47 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGAGCATTCACATCCA
Found at i:87317116 original size:52 final size:52
Alignment explanation
Indices: 87317028--87317180 Score: 150
Period size: 52 Copynumber: 2.9 Consensus size: 52
87317018 GACGAAAAAG
* ** *
87317028 ATGTGATATGTA-CTTCCGTATAAGATAATAGTTGGGCTATGGCATCGGAACA
1 ATGTGATATG-AGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGAACA
****
87317080 ATGTGAT-TCGAG-TTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATAT-GAGATT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGAACA
* * *
87317132 ATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGG
1 ATGTGAT-ATGAGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGG
87317181 TATGTTATGT
Statistics
Matches: 85, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
51 4 0.05
52 45 0.53
53 33 0.39
54 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (52 bp):
ATGTGATATGAGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGAACA
Found at i:87317220 original size:46 final size:51
Alignment explanation
Indices: 87317095--87317236 Score: 127
Period size: 53 Copynumber: 2.8 Consensus size: 51
87317085 ATTCGAGTTC
*
87317095 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATGTGATAATGTGATT
1 CCGTATAAGACCAT-GATGGGCTATGGCATCGGTGTGATGT-ATAATGTGATT
*
87317148 CCGTATAAGACCAT-ATCTGGGATATGGCATC-G-GT-ATGT-T-ATGTGA-T
1 CCGTATAAGACCATGA--TGGGCTATGGCATCGGTGTGATGTATAATGTGATT
* * *
87317194 CCGTGTAAGACCATGGTAGGGCTATGGCTTCAGTGTGTGATGT
1 CCGTATAAGACCATGAT-GGGCTATGGCATC-G-GTGTGATGT
87317237 GTGAAAATGT
Statistics
Matches: 74, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
45 1 0.01
46 25 0.34
47 6 0.08
48 1 0.01
49 1 0.01
50 6 0.08
51 6 0.08
52 1 0.01
53 27 0.36
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.31
Consensus pattern (51 bp):
CCGTATAAGACCATGATGGGCTATGGCATCGGTGTGATGTATAATGTGATT
Found at i:87320113 original size:20 final size:20
Alignment explanation
Indices: 87320090--87320156 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
87320080 ATTTTGATAT
87320090 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
87320110 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
87320130 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
87320150 ACATGAT
1 ACATGAT
87320157 GTATTCATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:87320117 original size:11 final size:11
Alignment explanation
Indices: 87320101--87320156 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
87320091 CATGATTGAT
87320101 ATGATATGCAC
1 ATGATATGCAC
*
87320112 ATGATATG--T
1 ATGATATGCAC
87320121 ATGATATGCAC
1 ATGATATGCAC
*
87320132 ATGATATG--T
1 ATGATATGCAC
87320141 ATGATATGCAC
1 ATGATATGCAC
87320152 ATGAT
1 ATGAT
87320157 GTATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:87325312 original size:24 final size:26
Alignment explanation
Indices: 87325260--87325317 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 26
87325250 TAAAATAAGT
87325260 ACTTTGGTGCTTATCGTAATTATTTTGC
1 ACTTTGGTGCTTATCG--ATTATTTTGC
87325288 ACTTTGGTGCTTATCG-TTA-TTTGC
1 ACTTTGGTGCTTATCGATTATTTTGC
87325312 ACTTTG
1 ACTTTG
87325318 TTCCTAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.37
25 3 0.10
28 16 0.53
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.50
Consensus pattern (26 bp):
ACTTTGGTGCTTATCGATTATTTTGC
Found at i:87335303 original size:34 final size:34
Alignment explanation
Indices: 87335260--87335345 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 34
87335250 TCTGTTTGCA
* *
87335260 TACTGTTACTGTAATGGGCTCAGGCCCAAACTTC
1 TACTGTTACTGTAATGGGATCAGGCCCAAACTGC
* * *
87335294 TACTGTTACTGTAGTGGGATTAGGCCCAGACTGC
1 TACTGTTACTGTAATGGGATCAGGCCCAAACTGC
* *
87335328 TACTGTTATTGAAATGGG
1 TACTGTTACTGTAATGGG
87335346 TTAAGGCTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (34 bp):
TACTGTTACTGTAATGGGATCAGGCCCAAACTGC
Found at i:87341250 original size:17 final size:17
Alignment explanation
Indices: 87341228--87341260 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
87341218 TGTTTAAGTT
87341228 ATGTTAATTAAATAATG
1 ATGTTAATTAAATAATG
*
87341245 ATGTTAATTAAGTAAT
1 ATGTTAATTAAATAAT
87341261 TTAATTACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (17 bp):
ATGTTAATTAAATAATG
Found at i:87341698 original size:28 final size:27
Alignment explanation
Indices: 87341666--87341771 Score: 103
Period size: 28 Copynumber: 3.9 Consensus size: 27
87341656 AAATTAGCGC
* *
87341666 GCTTATCGTAATTATTTCGTACTTCGGT
1 GCTTATCGTAATTATTT-GCACTTTGGT
* *
87341694 GCTTATCATTGTAA-AATATGCACTTTGGT
1 GCTTATC---GTAATTATTTGCACTTTGGT
87341723 GCTTATCGTAATTATTTTGCACTTTGGT
1 GCTTATCGTAATTA-TTTGCACTTTGGT
87341751 GCTTATCG---TTATTTGCACTTT
1 GCTTATCGTAATTATTTGCACTTT
87341772 ATGCTTAATG
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
24 10 0.15
25 3 0.04
26 4 0.06
27 1 0.01
28 27 0.40
29 15 0.22
30 3 0.04
31 4 0.06
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.47
Consensus pattern (27 bp):
GCTTATCGTAATTATTTGCACTTTGGT
Found at i:87343063 original size:21 final size:21
Alignment explanation
Indices: 87343039--87343086 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
87343029 GTTGTGGCTA
87343039 CATCT-GATTCTGGTGTGGATG
1 CATCTAGATT-TGGTGTGGATG
* *
87343060 CATCTAGCTTTGTTGTGGATG
1 CATCTAGATTTGGTGTGGATG
87343081 CATCTA
1 CATCTA
87343087 TGTGTACTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.40
Consensus pattern (21 bp):
CATCTAGATTTGGTGTGGATG
Found at i:87357507 original size:46 final size:46
Alignment explanation
Indices: 87357457--87357624 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 46
87357447 TATTTGGGCA
* *
87357457 TCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
* * * * *
87357503 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGAAATGTAACT-AG-GCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACT--TATG-GA-TGAGAACG
*
87357550 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
* *
87357596 CCCGAGCTCATTGAGTTGAGTCCGAGTTC
1 TCCGAACTCATTGAGTTGAGTCCGAGTTC
87357625 GTTTATGGGC
Statistics
Matches: 102, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 60 0.59
47 33 0.32
48 4 0.04
49 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
Found at i:87357564 original size:93 final size:93
Alignment explanation
Indices: 87357453--87357624 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
87357443 CGGATATTTG
* * * *
87357453 GGCATCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCATTGAG
87357518 TTGAGTCCGAGTTCATGAAATGTAACTA
66 TTGAGTCCGAGTTCATGAAATGTAACTA
* *
87357546 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCATTGAG
87357611 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
87357625 GTTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCATGAAATGTAACTA
Found at i:87361319 original size:53 final size:53
Alignment explanation
Indices: 87361137--87361343 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 53
87361127 ATTAGGGTTT
* * * * * *
87361137 AAGGATACCAAGTAAGACCATGCCAAGGA-ATGACATTGGTAAGTTTTACAAGGT
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
87361191 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
87361246 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
87361299 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
87361344 TAAAAAGGAA
Statistics
Matches: 122, Mismatches: 28, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
53 48 0.39
54 35 0.29
55 39 0.32
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:87366730 original size:20 final size:20
Alignment explanation
Indices: 87366705--87366749 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
87366695 AGGGACTAAA
* *
87366705 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
87366725 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
87366745 ATGAA
1 ATGAA
87366750 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:87368150 original size:16 final size:16
Alignment explanation
Indices: 87368131--87368161 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87368121 CTTCTTCACT
87368131 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
87368147 TACTTACTTACTTAA
1 TACTCACTTACTTAA
87368162 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:87368167 original size:20 final size:20
Alignment explanation
Indices: 87368128--87368167 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
87368118 AAACTTCTTC
* *
87368128 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
87368148 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
87368168 TTATTAACAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:87368278 original size:23 final size:24
Alignment explanation
Indices: 87368240--87368284 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
87368230 TTTGCTCTTC
*
87368240 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
87368264 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
87368285 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:87368607 original size:55 final size:53
Alignment explanation
Indices: 87368399--87368607 Score: 231
Period size: 55 Copynumber: 3.9 Consensus size: 53
87368389 TATCCTTTTG
* * * *
87368399 AAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTGTCCTTACCTTAT
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT
* * * *
87368452 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTAT
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT
* ** * *
87368505 AGTAACTTATCAATGCCATGTATTGACATGGTCTTACATGATTTCCTTGCCTTAT
1 A--AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT
* *
87368560 AAACCTTACCAATTGCCATGCCTTGGCATGGTCTTATATGGTATCCTT
1 AAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
87368608 AAACCCTAAT
Statistics
Matches: 126, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
52 2 0.02
53 44 0.35
54 7 0.06
55 71 0.56
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT
Found at i:87375030 original size:44 final size:44
Alignment explanation
Indices: 87374967--87375063 Score: 167
Period size: 44 Copynumber: 2.2 Consensus size: 44
87374957 GATTGCATGA
87374967 AGTAATCCCATTGACCTTGTTATAGAAAGGATTTAGCTCGAACG
1 AGTAATCCCATTGACCTTGTTATAGAAAGGATTTAGCTCGAACG
* *
87375011 AGTAATCCCATTGACCTTGTTATAGAAAGGATTTAGCTTGGACG
1 AGTAATCCCATTGACCTTGTTATAGAAAGGATTTAGCTCGAACG
*
87375055 GGTAATCCC
1 AGTAATCCC
87375064 GATATAATAC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
AGTAATCCCATTGACCTTGTTATAGAAAGGATTTAGCTCGAACG
Found at i:87379075 original size:21 final size:21
Alignment explanation
Indices: 87379000--87379075 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
87378990 CATCATGAAC
*
87379000 TCAGACCATAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* **
87379021 TCAGATGCCACATATGTC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
87379045 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
*
87379066 TCAGATCACA
1 TCAGACCACA
87379076 TAGTTTTTAG
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
20 2 0.05
21 19 0.45
22 5 0.12
23 4 0.10
24 10 0.24
25 2 0.05
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.22
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:87383176 original size:48 final size:48
Alignment explanation
Indices: 87383075--87383444 Score: 220
Period size: 46 Copynumber: 7.8 Consensus size: 48
87383065 TCATTTGTGC
87383075 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT---ATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGAGATGAGA
*
87383121 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGA
* * * *
87383169 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATTGGCCTCGAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATG-AGA
* * *
87383215 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGC-TACGAGATGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGATGAGA
* * * * *
87383260 TC-AGTGTAAGACCATGTCCGGAACATGGCATCGGTACGTAT-AGA-G-GT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG--CAT-TGAGATGAGA
* * * ** * *
87383307 G-TCAATGTAAGACCATGTCCGGAACATGGCATCGGCACGGATATGTAAAA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATG--AGA
* * * * * ** *
87383357 GCTAGTGTAAGACCATGTTTGGGATATGGCGTCGGCCTCGATTTTGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GATGAGA
*
87383406 G-TCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATT
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
87383445 ACACCCTATG
Statistics
Matches: 258, Mismatches: 40, Indels: 49
0.74 0.12 0.14
Matches are distributed among these distances:
44 9 0.03
45 18 0.07
46 73 0.28
47 30 0.12
48 58 0.22
49 36 0.14
50 30 0.12
51 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGA
Found at i:87386982 original size:16 final size:17
Alignment explanation
Indices: 87386963--87386994 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
87386953 ATTGAGTTGA
87386963 AAAAATT-ATTAAATTG
1 AAAAATTAATTAAATTG
87386979 AAAAATTAATTAAATT
1 AAAAATTAATTAAATT
87386995 AATTAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AAAAATTAATTAAATTG
Found at i:87390349 original size:24 final size:25
Alignment explanation
Indices: 87390321--87390370 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
87390311 TTTTAGAGAA
87390321 AGAATCTA-TTTTTTTACCGTTTTC
1 AGAATCTATTTTTTTTACCGTTTTC
87390345 AGAATCTATTTTTTTTTACCGTTTTC
1 AGAATCTA-TTTTTTTTACCGTTTTC
87390371 TGTGTTCAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 8 0.33
26 16 0.67
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (25 bp):
AGAATCTATTTTTTTTACCGTTTTC
Found at i:87394574 original size:38 final size:38
Alignment explanation
Indices: 87394523--87394764 Score: 214
Period size: 38 Copynumber: 5.9 Consensus size: 38
87394513 GGAATGGAAA
87394523 AACGTGGTGCTAAGTGGATATACCACGGTTATATGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATATGTGT
*
87394561 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTT----ATA-TG-----TGT
* *
87394609 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGG-T---TATA-TG--T--GT
* * **
87394656 AACGTGGTGTTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATATGTGT
* * *
87394694 AACGTGGTGCTAAGTGGATATACCACGATTAAATATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATATGTGT
*
87394732 AACGTGGTGCTAAGTGGATATGCCACGGTTATA
1 AACGTGGTGCTAAGTGGATATACCACGGTTATA
87394765 CATGTTAATT
Statistics
Matches: 170, Mismatches: 18, Indels: 32
0.77 0.08 0.15
Matches are distributed among these distances:
38 95 0.56
40 1 0.01
42 3 0.02
43 5 0.03
45 1 0.01
46 1 0.01
47 27 0.16
48 35 0.21
49 1 0.01
52 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATATGTGT
Found at i:87394629 original size:48 final size:47
Alignment explanation
Indices: 87394558--87394729 Score: 204
Period size: 48 Copynumber: 3.9 Consensus size: 47
87394548 CGGTTATATG
87394558 TGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACA
1 TGTAACGTGGTGCTAAGTGGATATACCACGATTACA-ATATTGATACA
* * *
87394606 TGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCA
1 TGTAACGTGGTGCTAAGTGGATATACCACGATTACA-ATATTGATACA
* *
87394654 T-TAACGTGGTGTTAAGTGGATATACCACG-GT----TA---A-ACA
1 TGTAACGTGGTGCTAAGTGGATATACCACGATTACAATATTGATACA
87394691 TGTAACGTGGTGCTAAGTGGATATACCACGATTA-AATAT
1 TGTAACGTGGTGCTAAGTGGATATACCACGATTACAATAT
87394730 GTAACGTGGT
Statistics
Matches: 108, Mismatches: 10, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
37 3 0.03
38 28 0.26
39 1 0.01
41 2 0.02
42 2 0.02
46 1 0.01
47 26 0.24
48 45 0.42
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (47 bp):
TGTAACGTGGTGCTAAGTGGATATACCACGATTACAATATTGATACA
Found at i:87394682 original size:47 final size:48
Alignment explanation
Indices: 87394558--87394691 Score: 207
Period size: 48 Copynumber: 2.8 Consensus size: 48
87394548 CGGTTATATG
*
87394558 TGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACA
1 TGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACA
* * *
87394606 TGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCA
1 TGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACA
* *
87394654 T-TAACGTGGTGTTAAGTGGATATACCACGGTTAAACAT
1 TGTAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
87394692 GTAACGTGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 33 0.42
48 45 0.58
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (48 bp):
TGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACA
Found at i:87400258 original size:25 final size:25
Alignment explanation
Indices: 87400183--87400259 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
87400173 TGGTATAATG
* * *
87400183 TTAATTATGCACTTGGACAATGTTA
1 TTAATTATGCATTTGGATAATATTA
* * *
87400208 TT-GTTAT-CATGTGG-T-ATACTA
1 TTAATTATGCATTTGGATAATATTA
*
87400229 CTAATTATGCATTTGGATAATATTA
1 TTAATTATGCATTTGGATAATATTA
87400254 TTAATT
1 TTAATT
87400260 TCTAATATTA
Statistics
Matches: 37, Mismatches: 11, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
21 5 0.14
22 4 0.11
23 11 0.30
24 5 0.14
25 12 0.32
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.45
Consensus pattern (25 bp):
TTAATTATGCATTTGGATAATATTA
Found at i:87400575 original size:20 final size:19
Alignment explanation
Indices: 87400535--87400571 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
87400525 ATCCAAACAT
*
87400535 CAAAAAAGTAAATTATTTC
1 CAAAAAAGTAAATCATTTC
87400554 CAAAAAAGTAAATCATTT
1 CAAAAAAGTAAATCATTT
87400572 TCCAGAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (19 bp):
CAAAAAAGTAAATCATTTC
Found at i:87400582 original size:14 final size:14
Alignment explanation
Indices: 87400563--87400600 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
87400553 CCAAAAAAGT
87400563 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
87400577 AAATCATTTTTCAG
1 AAATCATTTTCCAG
*
87400591 AAAACATTTT
1 AAATCATTTT
87400601 ACTCGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:87401140 original size:37 final size:36
Alignment explanation
Indices: 87401086--87401158 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 36
87401076 AAAATCTGCC
87401086 GGTTCAGCAACATCCATGAATTGGCCATCAGATGAA
1 GGTTCAGCAACATCCATGAATTGGCCATCAGATGAA
*
87401122 NGGTTCAGCAAC-TACCATGAATTGGCCATCGGATGAA
1 -GGTTCAGCAACAT-CCATGAATTGGCCATCAGATGAA
87401159 AAGCAGATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 1 0.03
37 33 0.97
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.22
Consensus pattern (36 bp):
GGTTCAGCAACATCCATGAATTGGCCATCAGATGAA
Found at i:87401709 original size:18 final size:18
Alignment explanation
Indices: 87401686--87401723 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
87401676 GATTACAAAG
87401686 ATAGTGTTTGAAAATAAC
1 ATAGTGTTTGAAAATAAC
87401704 ATAGTGTTTGAAAATAAC
1 ATAGTGTTTGAAAATAAC
87401722 AT
1 AT
87401724 GCAGTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (18 bp):
ATAGTGTTTGAAAATAAC
Found at i:87401836 original size:12 final size:13
Alignment explanation
Indices: 87401819--87401847 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
87401809 ATATACGCAA
87401819 ATATAT-ACAAAT
1 ATATATAACAAAT
87401831 ATATATAACAAAT
1 ATATATAACAAAT
87401844 ATAT
1 ATAT
87401848 TTATTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (13 bp):
ATATATAACAAAT
Found at i:87407197 original size:51 final size:51
Alignment explanation
Indices: 87407137--87407239 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 51
87407127 AAAAGTAAAC
* * * *
87407137 AAACTATAAAGAAAATTAAAGAAAAACGTGCCTACTCCTTTAGGGAAAGAG
1 AAACTATAAAGAAAATCAAAGAAAAACGTACCCACTCCCTTAGGGAAAGAG
* *
87407188 AAACTATAAAGAAAATCAAAGAAAAACGTACCCACTCCCTTGGGGAACGAG
1 AAACTATAAAGAAAATCAAAGAAAAACGTACCCACTCCCTTAGGGAAAGAG
87407239 A
1 A
87407240 TTGCCCGTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (51 bp):
AAACTATAAAGAAAATCAAAGAAAAACGTACCCACTCCCTTAGGGAAAGAG
Found at i:87411865 original size:46 final size:45
Alignment explanation
Indices: 87411797--87411887 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 45
87411787 AGCTCCCAAA
* *
87411797 TGGGGACTATTGTGATCCATAAGTTCCCAGCCCGAATCTTTCCCT
1 TGGGGACCATCGTGATCCATAAGTTCCCAGCCCGAATCTTTCCCT
*
87411842 NTGGGGACCATCGTGATCTATAAGTTCCCAGCCCGAATCTTTCCCT
1 -TGGGGACCATCGTGATCCATAAGTTCCCAGCCCGAATCTTTCCCT
87411888 AAAGGAGAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (45 bp):
TGGGGACCATCGTGATCCATAAGTTCCCAGCCCGAATCTTTCCCT
Found at i:87412040 original size:20 final size:20
Alignment explanation
Indices: 87412015--87412059 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
87412005 GTTTGAGTCC
87412015 AACACGCCAACTTCTATTCT
1 AACACGCCAACTTCTATTCT
87412035 AACACGCCAACTTCTATTCT
1 AACACGCCAACTTCTATTCT
87412055 AACAC
1 AACAC
87412060 ACTTCCCCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.36, G:0.04, T:0.27
Consensus pattern (20 bp):
AACACGCCAACTTCTATTCT
Found at i:87414406 original size:29 final size:30
Alignment explanation
Indices: 87414350--87414407 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
87414340 CACATGGGTA
*
87414350 GACACACGGGCTTGTGTCTAGGCCATGTGC
1 GACACACGGGCTTGTGTCCAGGCCATGTGC
*
87414380 GACACACGGG-TTGT-TCCATGGGCATGTG
1 GACACACGGGCTTGTGTCCA-GGCCATGTG
87414408 TCTGGGTCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 12 0.48
30 10 0.40
ACGTcount: A:0.17, C:0.24, G:0.34, T:0.24
Consensus pattern (30 bp):
GACACACGGGCTTGTGTCCAGGCCATGTGC
Found at i:87420400 original size:21 final size:21
Alignment explanation
Indices: 87420376--87420416 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
87420366 GTATGTGTAG
87420376 TTGTATGGCCACTTTTGAGTT
1 TTGTATGGCCACTTTTGAGTT
87420397 TTGTATGGCCACTTTTGAGT
1 TTGTATGGCCACTTTTGAGT
87420417 CCCTCGTAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.46
Consensus pattern (21 bp):
TTGTATGGCCACTTTTGAGTT
Found at i:87433649 original size:55 final size:55
Alignment explanation
Indices: 87433584--87433691 Score: 216
Period size: 55 Copynumber: 2.0 Consensus size: 55
87433574 ATTGTATGGC
87433584 AGCCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGA
1 AGCCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGA
87433639 AGCCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTT
1 AGCCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTT
87433692 AAAGTTGACG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (55 bp):
AGCCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGA
Found at i:87435824 original size:23 final size:23
Alignment explanation
Indices: 87435793--87435856 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
87435783 CAATTTTGGG
87435793 CCCAAAACCCCTAACCCAATTTA
1 CCCAAAACCCCTAACCCAATTTA
* *
87435816 TCCAAAACCCCTAACCTAATTTA
1 CCCAAAACCCCTAACCCAATTTA
*
87435839 CCCAAAA-CACTAACCCAA
1 CCCAAAACCCCTAACCCAA
87435857 CCCAAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 9 0.25
23 27 0.75
ACGTcount: A:0.42, C:0.41, G:0.00, T:0.17
Consensus pattern (23 bp):
CCCAAAACCCCTAACCCAATTTA
Found at i:87437023 original size:21 final size:22
Alignment explanation
Indices: 87436999--87437040 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
87436989 ATTTAACACT
87436999 TATATATATATATATT-TTATG
1 TATATATATATATATTATTATG
* *
87437020 TATATGTTTATATATTATTAT
1 TATATATATATATATTATTAT
87437041 TATTCCCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (22 bp):
TATATATATATATATTATTATG
Found at i:87437450 original size:9 final size:9
Alignment explanation
Indices: 87437436--87437461 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
87437426 TATCATATTT
87437436 TTTTGTTTG
1 TTTTGTTTG
87437445 TTTTGTTTG
1 TTTTGTTTG
87437454 TTTTGTTT
1 TTTTGTTT
87437462 CTATTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (9 bp):
TTTTGTTTG
Found at i:87442533 original size:46 final size:45
Alignment explanation
Indices: 87442352--87442531 Score: 261
Period size: 46 Copynumber: 3.9 Consensus size: 45
87442342 TTATCTTCGA
* * * * * *
87442352 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTCGTTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACAC-ATTTCTAT
87442398 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTAT
*
87442444 CATGTTGCCATGGTATCTTTCAATCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TAT
*
87442490 CATGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
87442532 ATTTCAGAAA
Statistics
Matches: 123, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
45 4 0.03
46 119 0.97
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (45 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTAT
Found at i:87447526 original size:27 final size:27
Alignment explanation
Indices: 87447494--87447550 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
87447484 AACATTCCAA
87447494 GTTGAGCATTTTATCACGAAAACATAG
1 GTTGAGCATTTTATCACGAAAACATAG
87447521 GTTGAGCATTTTATCACGAAAACATAG
1 GTTGAGCATTTTATCACGAAAACATAG
87447548 GTT
1 GTT
87447551 TCTCCCCTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (27 bp):
GTTGAGCATTTTATCACGAAAACATAG
Found at i:87448858 original size:45 final size:45
Alignment explanation
Indices: 87448809--87449621 Score: 1626
Period size: 45 Copynumber: 18.1 Consensus size: 45
87448799 ATCTAAGTAG
87448809 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87448854 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87448899 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87448944 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87448989 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87449034 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87449079 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87449124 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87449169 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87449214 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87449259 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87449304 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87449349 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87449394 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87449439 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87449484 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87449529 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87449574 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
1 AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
87449619 AAG
1 AAG
87449622 CAATATAATA
Statistics
Matches: 768, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 768 1.00
ACGTcount: A:0.51, C:0.20, G:0.11, T:0.18
Consensus pattern (45 bp):
AAGACAAGAAAACACACCAAATGAATATTCAACTCAGTAAGTCAT
Found at i:87449924 original size:32 final size:32
Alignment explanation
Indices: 87449883--87449947 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
87449873 AGCACTTTAT
87449883 TCTTTCCCTATACTTCTTATATCATCAACCGA
1 TCTTTCCCTATACTTCTTATATCATCAACCGA
87449915 TCTTTCCCTATACTTCTTATATCATCAACCGA
1 TCTTTCCCTATACTTCTTATATCATCAACCGA
87449947 T
1 T
87449948 TTCGCACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.31, G:0.03, T:0.42
Consensus pattern (32 bp):
TCTTTCCCTATACTTCTTATATCATCAACCGA
Found at i:87450074 original size:24 final size:24
Alignment explanation
Indices: 87449948--87450109 Score: 123
Period size: 24 Copynumber: 6.8 Consensus size: 24
87449938 ATCAACCGAT
* ** *
87449948 TTCGCACACATAGTGCTAAACAAG
1 TTCGCACACATAGTGCCATTCAAA
* *
87449972 TTCGCACACATAGTGCCATGCTACA
1 TTCGCACACATAGTGCCATTC-AAA
* *
87449997 -CCGCACACATAGTGCC-TTAAAGA
1 TTCGCACACATAGTGCCATTCAA-A
* * ** * *
87450020 TTCACTCATGTATTGACATTCAAA
1 TTCGCACACATAGTGCCATTCAAA
*
87450044 -TCAGCACACATAGTGCCATTCAAT
1 TTC-GCACACATAGTGCCATTCAAA
87450068 TTCGCACACATAGTGCCATTCAAA
1 TTCGCACACATAGTGCCATTCAAA
* *
87450092 TCCGCACACTTAGTGCCA
1 TTCGCACACATAGTGCCA
87450110 ATGTTGACCC
Statistics
Matches: 105, Mismatches: 27, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
22 1 0.01
23 4 0.04
24 93 0.89
25 7 0.07
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (24 bp):
TTCGCACACATAGTGCCATTCAAA
Found at i:87450088 original size:48 final size:48
Alignment explanation
Indices: 87449950--87450109 Score: 144
Period size: 48 Copynumber: 3.3 Consensus size: 48
87449940 CAACCGATTT
* ** * * *
87449950 CGCACACATAGTGCTAAACAAGTTCGCACACATAGTGCCATGCTACA-C
1 CGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCATTC-AAATC
* * * ** * *
87449998 CGCACACATAGTGCC-TTAAAGATTCACTCATGTATTGACATTCAAATC
1 CGCACACATAGTGCCATTCAA-ATTCGCACACATAGTGCCATTCAAATC
* *
87450046 AGCACACATAGTGCCATTCAATTTCGCACACATAGTGCCATTCAAATC
1 CGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCATTCAAATC
*
87450094 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
87450110 ATGTTGACCC
Statistics
Matches: 85, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
47 4 0.05
48 77 0.91
49 4 0.05
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (48 bp):
CGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCATTCAAATC
Found at i:87452861 original size:6 final size:6
Alignment explanation
Indices: 87452850--87452879 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
87452840 CTTCAAAAAT
*
87452850 AAATAA AAATAA AAGTAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
87452880 TATGAGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:87459958 original size:19 final size:20
Alignment explanation
Indices: 87459921--87459958 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
87459911 ATAAGGTGGT
87459921 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
87459941 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
87459959 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:87460567 original size:30 final size:30
Alignment explanation
Indices: 87460533--87460592 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
87460523 ATTTAATACG
87460533 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
87460563 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
87460593 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:87467528 original size:30 final size:30
Alignment explanation
Indices: 87467494--87467553 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
87467484 ATTTAATACG
87467494 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
87467524 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
87467554 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:87469161 original size:49 final size:48
Alignment explanation
Indices: 87469105--87469198 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 48
87469095 CCGTGTGAGG
*
87469105 TGGCTTAGGCCGTGTTT-AGAGTCTGCTAAATAGACATGGCCATGTGGTA
1 TGGCTTAGGCCATGTTTCA-A-TCTGCTAAATAGACATGGCCATGTGGTA
* * *
87469154 TGGCTTAGGCCATGTTTCAATCTGTTAAATAGATATGGGCATGTG
1 TGGCTTAGGCCATGTTTCAATCTGCTAAATAGACATGGCCATGTG
87469199 AACTACCCGT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
48 22 0.55
49 17 0.43
50 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (48 bp):
TGGCTTAGGCCATGTTTCAATCTGCTAAATAGACATGGCCATGTGGTA
Found at i:87472100 original size:43 final size:43
Alignment explanation
Indices: 87471945--87472103 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
87471935 TGTGTTTTTG
* * *
87471945 TGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATTGA-TATTTGA-TTACA
* * * * * *
87471989 TGTAAGACCATGTCTGGGACATCGG-AATCATATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATTGATATTTGATTACA
*
87472031 TGTAAGACC-CTGTCTGGGATAG-TGGCATTGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATTGATATTTGATTACA
*
87472074 TGTAAGACCACATCTGGGACGTTGGCATTG
1 TGTAAGACCACGTCTGGGACGTTGGCATTG
87472104 TACTAGCTTT
Statistics
Matches: 91, Mismatches: 18, Indels: 13
0.75 0.15 0.11
Matches are distributed among these distances:
42 24 0.26
43 44 0.48
44 23 0.25
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATTGATATTTGATTACA
Found at i:87473434 original size:84 final size:84
Alignment explanation
Indices: 87473293--87473665 Score: 542
Period size: 84 Copynumber: 4.5 Consensus size: 84
87473283 CAAAATTTAG
87473293 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
87473358 GTGGAGCAGATCGAAGACC
66 GTGGAGCAGATCGAAGACC
* *
87473377 CGCCTTAATCCCCTGAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
87473442 GTAGAGCAGATCAAAGACC
66 GTGGAGCAGATCGAAGACC
* *
87473461 CGCTTTAATCCCCTAAGCAGTAGGTTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTA-TCTCCCTAAGCAGT
*
87473526 ACTGGAGCAGATCGAAGACTC
65 AGTGGAGCAGATCGAAGAC-C
** *
87473547 C-CCTTAATCCCCTAAATAGTAGGGTAACAGGTT-CA----CAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* * *
87473606 GCGAAGCAGATCGATGATGACT
66 GTGGAGCAGATCGA--A-GACC
87473628 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAAT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAAT
87473666 AAGCAGTAAC
Statistics
Matches: 258, Mismatches: 23, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
79 26 0.10
80 9 0.03
81 2 0.01
82 33 0.13
83 1 0.00
84 127 0.49
85 58 0.22
86 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACC
Found at i:87473575 original size:169 final size:165
Alignment explanation
Indices: 87473293--87473665 Score: 538
Period size: 169 Copynumber: 2.2 Consensus size: 165
87473283 CAAAATTTAG
87473293 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* * * *
87473358 GTGGAGCAGATCGAAGACCCGCCTTAATCCCCTGAGCAGTAGGGTAACAGGTTAAATTTGTAGAT
66 CTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAACAGTAGGGTAACAGGTT-AA----CAGAT
87473423 CTTATCTCCCTAAGCAGTAGTAG-AGCAGATC-A-AAGACC
126 CTTATCTCCCTAAGCAGTAG-AGAAGCAGATCGAGAAGACC
* *
87473461 CGCTTTAATCCCCTAAGCAGTAGGTTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTA-TCTCCCTAAGCAGT
* *
87473526 ACTGGAGCAGATCGAAGACTCC-CCTTAATCCCCTAAATAGTAGGGTAACAGGTTCACAGATCTT
65 ACTGGAGCAGATCGAAGAC-CCGCCTTAATCCCCTAAACAGTAGGGTAACAGGTTAACAGATCTT
* * *
87473590 ATCTCCCTAAGCAGTAGCGAAGCAGATCGATGATGACT
129 ATCTCCCTAAGCAGTAGAGAAGCAGATCGA-GAAGACC
87473628 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAAT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAAT
87473666 AAGCAGTAAC
Statistics
Matches: 186, Mismatches: 13, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
163 1 0.01
164 32 0.17
165 1 0.01
167 40 0.22
168 49 0.26
169 61 0.33
170 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (165 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
CTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAACAGTAGGGTAACAGGTTAACAGATCTTAT
CTCCCTAAGCAGTAGAGAAGCAGATCGAGAAGACC
Found at i:87473706 original size:68 final size:68
Alignment explanation
Indices: 87473597--87474481 Score: 1736
Period size: 68 Copynumber: 13.0 Consensus size: 68
87473587 CTTATCTCCC
* *
87473597 TAAGCAGTAGC-GAAGCAGATCGATGATGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
1 TAAGCAGTAACAG-AGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
87473661 TAAA
65 TAAA
87473665 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
1 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
87473730 AAA
66 AAA
87473733 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
1 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
87473798 AAA
66 AAA
87473801 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
1 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
87473866 AAA
66 AAA
87473869 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
1 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
87473934 AAA
66 AAA
87473937 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
1 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
87474002 AAA
66 AAA
87474005 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
1 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
87474070 AAA
66 AAA
87474073 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
1 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
87474138 AAA
66 AAA
87474141 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
1 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
87474206 AAA
66 AAA
87474209 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
1 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
87474274 AAA
66 AAA
87474277 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
1 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
87474342 AAA
66 AAA
87474345 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
1 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
87474410 AAA
66 AAA
87474413 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
1 TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
87474478 AAA
66 AAA
87474481 T
1 T
87474482 TTGTAGATCT
Statistics
Matches: 814, Mismatches: 2, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
68 813 1.00
69 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (68 bp):
TAAGCAGTAACAGAGCAGATCGATGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
AAA
Found at i:87474685 original size:86 final size:86
Alignment explanation
Indices: 87474594--87474874 Score: 263
Period size: 86 Copynumber: 3.2 Consensus size: 86
87474584 CACGTGTTTA
87474594 CACTGAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTTGACGGAGAGCAGATACATAGCA
1 CACTGAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTTGACGGAGAGCAGATACATAGCA
87474659 GATCTAACCTTCAGATGATTT
66 GATCTAACCTTCAGATGATTT
* * * * * *
87474680 TACTGAAGCAGATCCAAGAT----GATTTGGC-T-TCCTTGTGTTCAC-AATGAGCAAATCGAAG
1 CACTGAAGCAGATCCAAGATAACAGATCTGGCATCTCCAT-T-TTGACGGA-GAGC--A--G-AT
* * * *
87474738 ACATAGCAGATTTGACTTTCGGATG-TTCT
58 ACATAGCAGATCTAACCTTCAGATGATT-T
** * * *
87474767 CACACCAAAGCAGATCCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGAGCAGATACATGG
1 --CACTGAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTTGACGGAGAGCAGATACATAG
*
87474832 CAGATCTAACCTTTAGATGATTT
64 CAGATCTAACCTTCAGATGATTT
87474855 CACTGAAGCAGATCCAAGAT
1 CACTGAAGCAGATCCAAGAT
87474875 GATTTGGCAC
Statistics
Matches: 148, Mismatches: 28, Indels: 38
0.69 0.13 0.18
Matches are distributed among these distances:
80 4 0.03
81 3 0.02
82 15 0.10
84 1 0.01
86 40 0.27
87 23 0.16
88 21 0.14
89 20 0.14
91 1 0.01
93 13 0.09
94 3 0.02
95 4 0.03
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (86 bp):
CACTGAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTTGACGGAGAGCAGATACATAGCA
GATCTAACCTTCAGATGATTT
Found at i:87474806 original size:175 final size:175
Alignment explanation
Indices: 87474599--87474932 Score: 562
Period size: 175 Copynumber: 1.9 Consensus size: 175
87474589 GTTTACACTG
* *
87474599 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTTGACGGAGAGCAGATACATAGCAGATCT
1 AAGCAGATCCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCT
* * *
87474664 AACCTTCAGATGATTTTACTGAAGCAGATCCAAGATGATTTGGCTTC-CTTGTGTTCACAATGAG
66 AACCTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGC-ACACTTGTGTTCACAAGGAG
*
87474728 CAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCA
130 AAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCA
*
87474774 AAGCAGATCCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGAGCAGATACATGGCAGATCT
1 AAGCAGATCCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCT
* *
87474839 AACCTTTAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCACATTTGTGTTCACAAGGAGA
66 AACCTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCACACTTGTGTTCACAAGGAGA
*
87474904 AAATCGAAGACATAGCAGATTTGGCTTTC
131 AAATCGAAGACATAGCAGATTTGACTTTC
87474933 TCGTGTTTAC
Statistics
Matches: 148, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
174 1 0.01
175 147 0.99
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (175 bp):
AAGCAGATCCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCT
AACCTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCACACTTGTGTTCACAAGGAGA
AAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCA
Found at i:87475420 original size:19 final size:19
Alignment explanation
Indices: 87475396--87475475 Score: 128
Period size: 19 Copynumber: 4.3 Consensus size: 19
87475386 AATCTTTAAG
87475396 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
87475415 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
87475434 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
87475453 GATA--CAATTTTAGATAT
1 GATATGCAATCTTAGATAT
87475470 GATATG
1 GATATG
87475476 ATATGATATG
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
17 16 0.29
19 40 0.71
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:87477835 original size:13 final size:13
Alignment explanation
Indices: 87477817--87477842 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87477807 TGTTACACAC
87477817 ACGCCCGTGTGCT
1 ACGCCCGTGTGCT
87477830 ACGCCCGTGTGCT
1 ACGCCCGTGTGCT
87477843 TAATTTCTCG
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:0.08, C:0.38, G:0.31, T:0.23
Consensus pattern (13 bp):
ACGCCCGTGTGCT
Found at i:87484379 original size:21 final size:21
Alignment explanation
Indices: 87484353--87484405 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
87484343 GAACCACTCC
*
87484353 CCTCTAGTTCAATAGGAACGG
1 CCTCTAGTTCAATAGGAACAG
*
87484374 CCTCTAGTTCAATAGGAATAG
1 CCTCTAGTTCAATAGGAACAG
87484395 CCTCTAGTTCA
1 CCTCTAGTTCA
87484406 GAAAATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (21 bp):
CCTCTAGTTCAATAGGAACAG
Found at i:87484508 original size:18 final size:19
Alignment explanation
Indices: 87484459--87484508 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
87484449 ATCATCGGAT
*
87484459 TCAAC-TTCCACCTTATTC
1 TCAACTTTCCACTTTATTC
*
87484477 TCAACTTT-CTCTTTATTC
1 TCAACTTTCCACTTTATTC
*
87484495 TTAA-TTTCCACTTT
1 TCAACTTTCCACTTT
87484509 GCTATCAACC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 3 0.12
18 21 0.81
19 2 0.08
ACGTcount: A:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (19 bp):
TCAACTTTCCACTTTATTC
Found at i:87493260 original size:28 final size:26
Alignment explanation
Indices: 87493220--87493272 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 26
87493210 ATAAGTGGGA
87493220 GATCCAACACTTAATGCATGTTATATTT
1 GATCCAACACTTAATG--TGTTATATTT
*
87493248 GATCCAACGCTTAATGTGTTATATT
1 GATCCAACACTTAATGTGTTATATT
87493273 GCAATAGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 9 0.38
28 15 0.62
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (26 bp):
GATCCAACACTTAATGTGTTATATTT
Found at i:87505988 original size:20 final size:22
Alignment explanation
Indices: 87505963--87506002 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
87505953 TTGTAAAGAA
*
87505963 ATTGAT-GA-ATTAGGCTTAAC
1 ATTGATAGATATTAAGCTTAAC
87505983 ATTGATAGATATTAAGCTTA
1 ATTGATAGATATTAAGCTTA
87506003 GACCATGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 2 0.12
22 9 0.53
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (22 bp):
ATTGATAGATATTAAGCTTAAC
Found at i:87507673 original size:11 final size:12
Alignment explanation
Indices: 87507647--87507679 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
87507637 GACCTGCCCG
87507647 TATTAATTTTTAA
1 TATT-ATTTTTAA
87507660 TATTATTTTT-A
1 TATTATTTTTAA
87507671 TATTATTTT
1 TATTATTTT
87507680 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 6 0.30
13 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TATTATTTTTAA
Found at i:87507847 original size:30 final size:30
Alignment explanation
Indices: 87507804--87507865 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
87507794 CTTAACAAGC
*
87507804 AAATGCCTCTAAAATAATAAAAAAATTAAT
1 AAATGCATCTAAAATAATAAAAAAATTAAT
* *
87507834 AAATGCATTTAAAATAATAACAAAATTAAT
1 AAATGCATCTAAAATAATAAAAAAATTAAT
87507864 AA
1 AA
87507866 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATGCATCTAAAATAATAAAAAAATTAAT
Found at i:87516956 original size:42 final size:42
Alignment explanation
Indices: 87516897--87516982 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
87516887 TCTTACGAAA
87516897 TTGAGTACTTCATTTTCTCAATGCCATAGTTCAACTATGGTC
1 TTGAGTACTTCATTTTCTCAATGCCATAGTTCAACTATGGTC
87516939 TTGAGTACTTCATTTTCTCAATGCCATAGTTCAACTATGGTC
1 TTGAGTACTTCATTTTCTCAATGCCATAGTTCAACTATGGTC
87516981 TT
1 TT
87516983 ACACATCTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (42 bp):
TTGAGTACTTCATTTTCTCAATGCCATAGTTCAACTATGGTC
Found at i:87517005 original size:42 final size:41
Alignment explanation
Indices: 87516959--87517082 Score: 146
Period size: 42 Copynumber: 3.0 Consensus size: 41
87516949 CATTTTCTCA
* * *
87516959 ATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT-G
1 ATGCCATAG-CCAGCTATGGTCTTACACATATTCACAT-ATCG
*
87517001 ATGCCATAGCCTAGCTATGGTCTTACACATATTCATATATCG
1 ATGCCATAGCC-AGCTATGGTCTTACACATATTCACATATCG
87517043 ATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATATC
1 ATGCCATAG-CCAGCTATGGTCTTACAC-ATATTCACATATC
87517083 TCACTGATGC
Statistics
Matches: 73, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
41 11 0.15
42 59 0.81
43 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (41 bp):
ATGCCATAGCCAGCTATGGTCTTACACATATTCACATATCG
Found at i:87517161 original size:46 final size:46
Alignment explanation
Indices: 87517042--87517161 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 46
87517032 TTCATATATC
* * * *
87517042 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACT
1 GATGCCATATCCCAGATATGGTCTTATACGAATCACATATCACACT
* *
87517088 GATGCCATATCCCAGATATGGTATTATAC-AGT-AGCATATTCACACT
1 GATGCCATATCCCAGATATGGTCTTATACGAATCA-CATA-TCACACT
87517134 GATGCCATATCCCAGATATGGTCTTATA
1 GATGCCATATCCCAGATATGGTCTTATA
87517162 TGGAAATCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.02
45 6 0.09
46 58 0.89
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (46 bp):
GATGCCATATCCCAGATATGGTCTTATACGAATCACATATCACACT
Found at i:87517223 original size:31 final size:31
Alignment explanation
Indices: 87517188--87517274 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
87517178 CTTGTCACTT
*
87517188 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
87517219 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
87517250 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
87517275 TGTTATTTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:87517356 original size:50 final size:51
Alignment explanation
Indices: 87517250--87517378 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
87517240 CACTGATCAG
* * * *
87517250 GTAGCAGAAGCTACCACTTTTCACTTGTTATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
87517301 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
87517351 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
87517379 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:87517893 original size:23 final size:23
Alignment explanation
Indices: 87517863--87517908 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
87517853 TCTTGAGCTA
87517863 CAGAACTCCAAATTAAGATCCAT
1 CAGAACTCCAAATTAAGATCCAT
*
87517886 CAGAACTCTAAATTAAGATCCAT
1 CAGAACTCCAAATTAAGATCCAT
87517909 AAATTTTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.24
Consensus pattern (23 bp):
CAGAACTCCAAATTAAGATCCAT
Found at i:87523762 original size:29 final size:29
Alignment explanation
Indices: 87523729--87523820 Score: 118
Period size: 29 Copynumber: 3.2 Consensus size: 29
87523719 CTACATAATG
*
87523729 CATATGGCCCACTAGGCCCAAATCTCATT
1 CATATGGCCCATTAGGCCCAAATCTCATT
87523758 CATATGGCCCATTAGGCCCAAATCAT-ATT
1 CATATGGCCCATTAGGCCCAAATC-TCATT
*
87523787 -AGTATGGCCCATTAGACCCAAAT-TACATT
1 CA-TATGGCCCATTAGGCCCAAATCT-CATT
87523816 CATAT
1 CATAT
87523821 ACATGCTTTC
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
27 1 0.02
28 1 0.02
29 52 0.93
30 2 0.04
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCTCATT
Found at i:87524862 original size:26 final size:26
Alignment explanation
Indices: 87524823--87524882 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
87524813 TGAGGGAGAA
87524823 TTCGGCATTAGCCTGGCAACCTCACAT
1 TTCGGCATTAGCCTGGCAACCTCAC-T
87524850 TT-GGCATTAGCCTGGCAACCTCACT
1 TTCGGCATTAGCCTGGCAACCTCACT
87524875 TTCGGCAT
1 TTCGGCAT
87524883 CTATATATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 3 0.09
26 27 0.84
27 2 0.06
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.28
Consensus pattern (26 bp):
TTCGGCATTAGCCTGGCAACCTCACT
Found at i:87528874 original size:34 final size:34
Alignment explanation
Indices: 87528821--87528886 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
87528811 TTTTTAAGTC
* *
87528821 TTAGGGTTTAGTTTATTTAAATTATGGTTTAGTG
1 TTAGGGTTTAGTTTATTTAAAGTAGGGTTTAGTG
* *
87528855 TTAGTGTTTTGTTTATTTAAAGTAGGGTTTAG
1 TTAGGGTTTAGTTTATTTAAAGTAGGGTTTAG
87528887 GGCTTTTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.23, C:0.00, G:0.24, T:0.53
Consensus pattern (34 bp):
TTAGGGTTTAGTTTATTTAAAGTAGGGTTTAGTG
Found at i:87530354 original size:48 final size:50
Alignment explanation
Indices: 87530279--87530377 Score: 166
Period size: 48 Copynumber: 2.0 Consensus size: 50
87530269 AGAATTGGGT
* *
87530279 CTGAAATGCTCAGGATTTTCATTTTCCCTTGCCTATG-TTTAGT-ATACG
1 CTGAAATACTCAGGATTTTCATGTTCCCTTGCCTATGTTTTAGTAATACG
87530327 CTGAAATACTCAGGATTTTCATGTTCCCTTGCCTATGTTTTAGTAATACG
1 CTGAAATACTCAGGATTTTCATGTTCCCTTGCCTATGTTTTAGTAATACG
87530377 C
1 C
87530378 GGCACGACGT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
48 35 0.74
49 6 0.13
50 6 0.13
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.40
Consensus pattern (50 bp):
CTGAAATACTCAGGATTTTCATGTTCCCTTGCCTATGTTTTAGTAATACG
Found at i:87537746 original size:57 final size:57
Alignment explanation
Indices: 87537667--87537775 Score: 137
Period size: 57 Copynumber: 1.9 Consensus size: 57
87537657 AAGTCCTCTC
* * ** *
87537667 GAGCATATGTTATAGATTGGATTTAGCCCGGACGGGTAATCCAGATTAAGCTCTTTA
1 GAGCATATGTCATAAAAAGGATTTAGCCCGGACGGGTAATCCAGACTAAGCTCTTTA
* * * *
87537724 GAGCATATGTCATAAAAAGGATTTAGCCTGGACTGGTCATCCTGACTAAGCT
1 GAGCATATGTCATAAAAAGGATTTAGCCCGGACGGGTAATCCAGACTAAGCT
87537776 TTATTGAGTA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 43 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (57 bp):
GAGCATATGTCATAAAAAGGATTTAGCCCGGACGGGTAATCCAGACTAAGCTCTTTA
Found at i:87540095 original size:12 final size:12
Alignment explanation
Indices: 87540078--87540102 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87540068 AAGAGATATC
87540078 AGATTTTTCTGA
1 AGATTTTTCTGA
87540090 AGATTTTTCTGA
1 AGATTTTTCTGA
87540102 A
1 A
87540103 AATGTGATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (12 bp):
AGATTTTTCTGA
Found at i:87546727 original size:34 final size:34
Alignment explanation
Indices: 87546689--87546803 Score: 115
Period size: 34 Copynumber: 3.4 Consensus size: 34
87546679 GCAACCCAAT
87546689 CAAAAATACAAGAATGATGATTGTTGCGGTCGAC
1 CAAAAATACAAGAATGATGATTGTTGCGGTCGAC
* * ** * *** * *
87546723 CAAAAACACAAGGACT-ATGGGTGTGGCAACCCAAT
1 CAAAAATACAA-GAATGATGATTGTTGC-GGTCGAC
87546758 CAAAAATACAAGAATGATGATTGTTGCGGTCGAC
1 CAAAAATACAAGAATGATGATTGTTGCGGTCGAC
87546792 CAAAAATACAAG
1 CAAAAATACAAG
87546804 GACTATGGGT
Statistics
Matches: 58, Mismatches: 20, Indels: 6
0.69 0.24 0.07
Matches are distributed among these distances:
34 35 0.60
35 23 0.40
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (34 bp):
CAAAAATACAAGAATGATGATTGTTGCGGTCGAC
Found at i:87546768 original size:69 final size:69
Alignment explanation
Indices: 87546672--87546834 Score: 281
Period size: 69 Copynumber: 2.4 Consensus size: 69
87546662 CGAAGATGAC
*
87546672 GGGTGTAGCAACCCAATCAAAAATACAAGAATGATGATTGTTGCGGTCGACCAAAAACACAAGGA
1 GGGTGTGGCAACCCAATCAAAAATACAAGAATGATGATTGTTGCGGTCGACCAAAAACACAAGGA
87546737 CTAT
66 CTAT
*
87546741 GGGTGTGGCAACCCAATCAAAAATACAAGAATGATGATTGTTGCGGTCGACCAAAAATACAAGGA
1 GGGTGTGGCAACCCAATCAAAAATACAAGAATGATGATTGTTGCGGTCGACCAAAAACACAAGGA
87546806 CTAT
66 CTAT
* * *
87546810 GGGTGTGGCGACCCAACCATAAATA
1 GGGTGTGGCAACCCAATCAAAAATA
87546835 TGAGGATGAC
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 89 1.00
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (69 bp):
GGGTGTGGCAACCCAATCAAAAATACAAGAATGATGATTGTTGCGGTCGACCAAAAACACAAGGA
CTAT
Found at i:87548793 original size:20 final size:21
Alignment explanation
Indices: 87548752--87548793 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
87548742 TCAACTTAAA
87548752 GACAACTTAAATTCGGCAGCTAG
1 GACAACTTAAATT--GCAGCTAG
87548775 GACAACTTAAATT-CAGCTA
1 GACAACTTAAATTGCAGCTA
87548794 AGAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
23 13 0.68
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (21 bp):
GACAACTTAAATTGCAGCTAG
Found at i:87550951 original size:45 final size:46
Alignment explanation
Indices: 87550880--87551002 Score: 153
Period size: 45 Copynumber: 2.7 Consensus size: 46
87550870 CAACTCGTAT
** * * *
87550880 GAGCTTACTGATTCAGCT-TGTAAGAGCTTACTGTTTCAGCTCATTG
1 GAGCTTACTG-TTCAGCTCAATAAGAGCTTACCGTTTCAGCTCAATA
87550926 GAGCTTACTGTTCAGCTCAAT-AGAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACTGTTCAGCTCAATAAGAGCTTACCGTTTCAGCTCAATA
* *
87550971 GAGCTTACTGTTCAGCTCGA-AGGAGCTTACCG
1 GAGCTTACTGTTCAGCTCAATAAGAGCTTACCG
87551003 ACCATGACTC
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 57 0.84
46 11 0.16
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (46 bp):
GAGCTTACTGTTCAGCTCAATAAGAGCTTACCGTTTCAGCTCAATA
Done.