Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 110 of 228
Found at i:32041014 original size:17 final size:17
Alignment explanation
Indices: 32040992--32041034 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
32040982 CAAAAAAAGG
32040992 TGTTCTTTTTTCTATTT
1 TGTTCTTTTTTCTATTT
32041009 TGTTCTTTTTTCTATTT
1 TGTTCTTTTTTCTATTT
*
32041026 TTTTCTTTT
1 TGTTCTTTT
32041035 CTTTTTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.05, C:0.12, G:0.05, T:0.79
Consensus pattern (17 bp):
TGTTCTTTTTTCTATTT
Found at i:32041069 original size:15 final size:15
Alignment explanation
Indices: 32040997--32041070 Score: 80
Period size: 15 Copynumber: 4.9 Consensus size: 15
32040987 AAAGGTGTTC
32040997 TTTTTTCTATTTTGTT
1 TTTTTTCTATTTT-TT
32041013 CTTTTTTCTATTTTTT
1 -TTTTTTCTATTTTTT
*
32041029 TCTTTTCT-TTTTTT
1 TTTTTTCTATTTTTT
* *
32041043 TCTTCTCTATTTTTT
1 TTTTTTCTATTTTTT
32041058 TATTTTTC-ATTTT
1 T-TTTTTCTATTTT
32041071 AAAAAGAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
14 13 0.25
15 19 0.37
16 6 0.12
17 13 0.25
ACGTcount: A:0.07, C:0.12, G:0.01, T:0.80
Consensus pattern (15 bp):
TTTTTTCTATTTTTT
Found at i:32041811 original size:25 final size:24
Alignment explanation
Indices: 32041781--32041861 Score: 110
Period size: 25 Copynumber: 3.3 Consensus size: 24
32041771 TTAATTTTGC
32041781 AATTTTATTTAT-TTATTTATTTTA
1 AATTTT-TTTATATTATTTATTTTA
32041805 AACTTTTTTTATATTATTTATTTTA
1 AA-TTTTTTTATATTATTTATTTTA
*
32041830 AATTGTTTTATTATTATTTATTTTA
1 AATTTTTTTA-TATTATTTATTTTA
*
32041855 AGTTTTT
1 AATTTTT
32041862 CACATATTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
24 14 0.27
25 37 0.73
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.69
Consensus pattern (24 bp):
AATTTTTTTATATTATTTATTTTA
Found at i:32041869 original size:25 final size:23
Alignment explanation
Indices: 32041793--32041871 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 23
32041783 TTTTATTTAT
*
32041793 TTATTTATTTTAAACTTTTTTTATA
1 TTATTTATTTTAAA--TTTTTAATA
*
32041818 TTATTTATTTTAAATTGTTTTATTA
1 TTATTTATTTTAAA-T-TTTTAATA
*
32041843 TTATTTATTTTAAGTTTTTCACATA
1 TTATTTATTTTAAATTTTT-A-ATA
32041868 TTAT
1 TTAT
32041872 GCATTTTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.09
24 4 0.09
25 39 0.83
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.66
Consensus pattern (23 bp):
TTATTTATTTTAAATTTTTAATA
Found at i:32042044 original size:28 final size:25
Alignment explanation
Indices: 32042007--32042079 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 25
32041997 TTTTAAAAGA
*
32042007 AAACTGTTTTTTATATTATTCATTTG
1 AAACT-TTTTATATATTATTCATTTG
* *
32042033 AAATTTCTTTTTACATATTATTCATTTT
1 AAA---CTTTTTATATATTATTCATTTG
32042061 AAACTTTTTATATATTATT
1 AAACTTTTTATATATTATT
32042080 TTAAAATTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 15 0.38
26 3 0.08
28 20 0.50
29 2 0.05
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (25 bp):
AAACTTTTTATATATTATTCATTTG
Found at i:32042137 original size:23 final size:23
Alignment explanation
Indices: 32042105--32042152 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
32042095 TGGTTATTTA
* * *
32042105 TTTTAATTTGCTTTGTATGTTAT
1 TTTTAATTTGCGTTGCATATTAT
*
32042128 TTTTATTTTGCGTTGCATATTAT
1 TTTTAATTTGCGTTGCATATTAT
32042151 TT
1 TT
32042153 ACTTTGAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.06, G:0.12, T:0.65
Consensus pattern (23 bp):
TTTTAATTTGCGTTGCATATTAT
Found at i:32054651 original size:23 final size:22
Alignment explanation
Indices: 32054608--32054651 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
32054598 TTTCAAGTCA
32054608 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
32054631 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
32054652 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:32054822 original size:46 final size:46
Alignment explanation
Indices: 32054750--32054870 Score: 215
Period size: 46 Copynumber: 2.6 Consensus size: 46
32054740 ATAAGTGTCA
*
32054750 CACTAATATGTAGCCGAAGCTACCACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTACCACTGAAATGTAGCCAAAGCTAC
* *
32054796 TACTGATATGTAGCCGAAGCTACCACTAAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTACCACTGAAATGTAGCCAAAGCTAC
32054842 CACTGATATGTAGCCGAAGCTACCACTGA
1 CACTGATATGTAGCCGAAGCTACCACTGA
32054871 TCAATAACAC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.21
Consensus pattern (46 bp):
CACTGATATGTAGCCGAAGCTACCACTGAAATGTAGCCAAAGCTAC
Found at i:32054869 original size:23 final size:23
Alignment explanation
Indices: 32054750--32054871 Score: 181
Period size: 23 Copynumber: 5.3 Consensus size: 23
32054740 ATAAGTGTCA
*
32054750 CACTAATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
32054773 CACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
32054796 TACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
32054819 CACTAAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
32054842 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
32054865 CACTGAT
1 CACTGAT
32054872 CAATAACACT
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 86 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:32056690 original size:56 final size:56
Alignment explanation
Indices: 32056604--32056723 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
32056594 ACAAGGGATG
32056604 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
32056660 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
32056716 ATGGGCAA
1 ATGGGCAA
32056724 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:32058084 original size:40 final size:40
Alignment explanation
Indices: 32057853--32058077 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
32057843 TCGAATGATG
* * * *
32057853 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
32057893 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
32057933 TCCGGGCTAAG-CCCGAAGGCATTGGTGGGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
32057972 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
32058012 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
32058053 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
32058078 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:32058099 original size:119 final size:119
Alignment explanation
Indices: 32057853--32058110 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
32057843 TCGAATGATG
* *
32057853 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ***
32057918 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGGGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
32057972 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
32058035 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
32058092 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
32058111 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:32064632 original size:56 final size:56
Alignment explanation
Indices: 32064546--32064665 Score: 213
Period size: 56 Copynumber: 2.1 Consensus size: 56
32064536 ACAAGGGATG
* *
32064546 ATGGGCAAAACATGTCATGAAATATGTTGTGTTAATGGAAAAATTAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
32064602 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
32064658 ATGGGCAA
1 ATGGGCAA
32064666 TAAACTAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.24
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:32066026 original size:40 final size:40
Alignment explanation
Indices: 32065795--32066019 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
32065785 TCGAATGATG
* * * *
32065795 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
32065835 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
32065875 TCCGGGCTAAG-CCCGAAGGCATTGGTGGGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
32065914 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
32065954 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
32065995 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
32066020 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:32066041 original size:119 final size:119
Alignment explanation
Indices: 32065795--32066052 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
32065785 TCGAATGATG
* *
32065795 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ***
32065860 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGGGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
32065914 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
32065977 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
32066034 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
32066053 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:32072573 original size:55 final size:56
Alignment explanation
Indices: 32072489--32072607 Score: 222
Period size: 55 Copynumber: 2.1 Consensus size: 56
32072479 ACAAGGGATG
32072489 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAAT-AAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
32072544 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
32072600 ATGGGCAA
1 ATGGGCAA
32072608 TAAACTAATA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 43 0.69
56 19 0.31
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:32073967 original size:40 final size:40
Alignment explanation
Indices: 32073736--32073960 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
32073726 TCGAATGATG
* * * *
32073736 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
32073776 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
32073816 TCCGGGCTAAG-CCCGAAGGCATTGGTGGGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
32073855 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
32073895 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
32073936 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
32073961 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:32073982 original size:119 final size:119
Alignment explanation
Indices: 32073736--32073993 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
32073726 TCGAATGATG
* *
32073736 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ***
32073801 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGGGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
32073855 TCCGGGTTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
32073918 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
32073975 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
32073994 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 85 0.73
120 29 0.25
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:32080508 original size:55 final size:56
Alignment explanation
Indices: 32080424--32080542 Score: 222
Period size: 55 Copynumber: 2.1 Consensus size: 56
32080414 GACAAGGATG
32080424 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAAT-AAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
32080479 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
32080535 ATGGGCAA
1 ATGGGCAA
32080543 TAAACTAATA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 43 0.69
56 19 0.31
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:32081748 original size:40 final size:39
Alignment explanation
Indices: 32081664--32081887 Score: 283
Period size: 40 Copynumber: 5.7 Consensus size: 39
32081654 TCGAATGATG
* * *
32081664 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
32081704 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
32081743 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
32081782 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
32081822 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
32081862 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
32081888 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 10 0.06
39 50 0.30
40 96 0.59
41 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:32108472 original size:49 final size:47
Alignment explanation
Indices: 32108380--32108603 Score: 299
Period size: 47 Copynumber: 4.7 Consensus size: 47
32108370 TTAGGATTCT
*
32108380 ATGTGATGGATGTGAACA-TGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
32108427 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
32108476 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*** * * * * *
32108523 ATGTGATGAATGTGAAAGTGGCCA-ACGTGATAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
32108569 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
32108604 TCCCGAAGGG
Statistics
Matches: 157, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
46 37 0.24
47 73 0.46
49 47 0.30
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:32111513 original size:16 final size:16
Alignment explanation
Indices: 32111488--32111518 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32111478 GTATGTTCAG
32111488 ATTGAAACCTAGATAA
1 ATTGAAACCTAGATAA
*
32111504 ATTGATACCTAGATA
1 ATTGAAACCTAGATA
32111519 CAAAAAAGAT
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:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (16 bp):
ATTGAAACCTAGATAA
Found at i:32119664 original size:27 final size:27
Alignment explanation
Indices: 32119634--32119733 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
32119624 GTCCCGACGG
*
32119634 ACTATCCCATTTTTAATGTCTCGTCAA
1 ACTATCCCATGTTTAATGTCTCGTCAA
* ***
32119661 ACTATCTCATGTTTAATGTCTCGTTGG
1 ACTATCCCATGTTTAATGTCTCGTCAA
* * *
32119688 ACTAT-CCATGTTTAATGTCCCTTCAG
1 ACTATCCCATGTTTAATGTCTCGTCAA
***
32119714 ACTATCTTGTGTTTAATGTC
1 ACTATCCCATGTTTAATGTC
32119734 CCATTGGACT
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
26 21 0.36
27 38 0.64
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (27 bp):
ACTATCCCATGTTTAATGTCTCGTCAA
Found at i:32119719 original size:53 final size:53
Alignment explanation
Indices: 32119632--32119746 Score: 149
Period size: 53 Copynumber: 2.2 Consensus size: 53
32119622 CTGTCCCGAC
* * * *
32119632 GGACTATCCCATTTTTAATGTCTCGTCAAACTATCTCATGTTTAATGTCTCGTT
1 GGACTAT-CCATGTTTAATGTCCCGTCAAACTATCTCATGTTTAATGTCCCATT
* * **
32119686 GGACTATCCATGTTTAATGTCCCTTCAGACTATCTTGTGTTTAATGTCCCATT
1 GGACTATCCATGTTTAATGTCCCGTCAAACTATCTCATGTTTAATGTCCCATT
32119739 GGACTATC
1 GGACTATC
32119747 TTGTGTTTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 46 0.87
54 7 0.13
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (53 bp):
GGACTATCCATGTTTAATGTCCCGTCAAACTATCTCATGTTTAATGTCCCATT
Found at i:32119734 original size:27 final size:27
Alignment explanation
Indices: 32119661--32119755 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 27
32119651 GTCTCGTCAA
** * * *
32119661 ACTATCTCATGTTTAATGTCTCGTTGG
1 ACTATCTTGTGTTTAATGTCCCATTAG
**
32119688 ACTATC-CATGTTTAATGTCCC-TTCAG
1 ACTATCTTGTGTTTAATGTCCCATT-AG
*
32119714 ACTATCTTGTGTTTAATGTCCCATTGG
1 ACTATCTTGTGTTTAATGTCCCATTAG
32119741 ACTATCTTGTGTTTA
1 ACTATCTTGTGTTTA
32119756 TTTTCTCGAC
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
25 2 0.03
26 21 0.35
27 35 0.58
28 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (27 bp):
ACTATCTTGTGTTTAATGTCCCATTAG
Found at i:32124794 original size:42 final size:43
Alignment explanation
Indices: 32124720--32124800 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 43
32124710 TTATGTTTTG
* *
32124720 GAACCATATGGGTAGAGGACACGGGCATGTGTCCAGGCCGTGC
1 GAACCACATGGGTAGAGGACACGGGCATGTGTCAAGGCCGTGC
* *
32124763 GAACCACATGGGTA-AGGACATGGGCGTGTGTCAAGGCC
1 GAACCACATGGGTAGAGGACACGGGCATGTGTCAAGGCC
32124801 ATGTGGCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 21 0.62
43 13 0.38
ACGTcount: A:0.25, C:0.22, G:0.37, T:0.16
Consensus pattern (43 bp):
GAACCACATGGGTAGAGGACACGGGCATGTGTCAAGGCCGTGC
Found at i:32134122 original size:13 final size:13
Alignment explanation
Indices: 32134104--32134128 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32134094 AAATTTAATA
32134104 TTATTTTGTGTGT
1 TTATTTTGTGTGT
32134117 TTATTTTGTGTG
1 TTATTTTGTGTG
32134129 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:32135226 original size:12 final size:12
Alignment explanation
Indices: 32135209--32135241 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
32135199 TGAAGTTCGA
32135209 ATATGTATATAT
1 ATATGTATATAT
*
32135221 ATATGTATATCT
1 ATATGTATATAT
32135233 AT-TGTATAT
1 ATATGTATAT
32135242 TTGATGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:32135342 original size:112 final size:111
Alignment explanation
Indices: 32135103--32135309 Score: 315
Period size: 112 Copynumber: 1.8 Consensus size: 111
32135093 TTAAATTAGC
** *
32135103 ATATATATATGTATAAATATTGTACATTTGATGAGCTATAATTTAAAGTATACGAATTGAAAATA
1 ATATATATATGTATATCTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAAATA
**
32135168 GTTAAGTATGAATGATATATATATGCATAAATGAAGTTCGAATATGT
66 GTTAAGTATGAATGATATATATACACATAAATGAAGTTCGAATA-GT
* * *
32135215 ATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTA
1 ATATATATATGTATATCTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAAATA
32135280 GTTAAGTATGAATGTTATATATATACACAT
66 GTTAAGTATGAATG--ATATATATACACAT
32135310 GTGTGAGGTT
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
112 73 0.86
114 12 0.14
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.40
Consensus pattern (111 bp):
ATATATATATGTATATCTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAAATA
GTTAAGTATGAATGATATATATACACATAAATGAAGTTCGAATAGT
Found at i:32135701 original size:41 final size:41
Alignment explanation
Indices: 32135647--32135796 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
32135637 TTTCAGACTT
*
32135647 TAAGTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
**
32135688 TAAGCCTAGCAGGCTAAGTGTTGGTGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
* * *
32135729 TAAACCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
* *
32135770 TAAGCTTAGCA-GCGTAAATGCCGGTGA
1 TAAGCCTAGCAGGC-TAAGTGCCGGTGA
32135797 ATATGTTAAA
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 2 0.02
41 96 0.98
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (41 bp):
TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
Found at i:32141491 original size:13 final size:13
Alignment explanation
Indices: 32141473--32141497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32141463 TAATTTAATA
32141473 TTATTTTGTGTGT
1 TTATTTTGTGTGT
32141486 TTATTTTGTGTG
1 TTATTTTGTGTG
32141498 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:32142594 original size:12 final size:12
Alignment explanation
Indices: 32142577--32142609 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
32142567 TGAAGTTCGA
32142577 ATATGTATATAT
1 ATATGTATATAT
*
32142589 ATATGTATATCT
1 ATATGTATATAT
32142601 AT-TGTATAT
1 ATATGTATAT
32142610 TTGATGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:32142668 original size:112 final size:112
Alignment explanation
Indices: 32142471--32142674 Score: 372
Period size: 112 Copynumber: 1.8 Consensus size: 112
32142461 TTAAATCAGC
32142471 ATATATATATGTATAACTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAATTA
1 ATATATATATGTATAACTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAATTA
32142536 GTTAAGTATGAATGATATATATATGCATAAATGAAGTTCGAATATGT
66 GTTAAGTATGAATGATATATATATGCATAAATGAAGTTCGAATATGT
* * *
32142583 ATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTA
1 ATATATATATGTATAACTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAATTA
*
32142648 GTTAAGTATGAATGTTATATATATGCA
66 GTTAAGTATGAATGATATATATATGCA
32142675 CATGTGTGAG
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 88 1.00
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.40
Consensus pattern (112 bp):
ATATATATATGTATAACTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAATTA
GTTAAGTATGAATGATATATATATGCATAAATGAAGTTCGAATATGT
Found at i:32143074 original size:41 final size:41
Alignment explanation
Indices: 32143015--32143164 Score: 219
Period size: 41 Copynumber: 3.7 Consensus size: 41
32143005 TTTCGGACTT
* *
32143015 TAAGTCTAGAAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
*
32143056 TAAGCCTAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
* * *
32143097 TAAACCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
* * *
32143138 TAAGCTTAGCAGTCTAAATGCCGGTGA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGA
32143165 ATATGTTAAA
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 97 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (41 bp):
TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
Found at i:32148467 original size:28 final size:28
Alignment explanation
Indices: 32148385--32148467 Score: 69
Period size: 28 Copynumber: 3.0 Consensus size: 28
32148375 TGGTATCCAT
* * * *
32148385 CACTGGTACATGGTACCTAGAAATATAT
1 CACTGATACATAGTACCTGGAAATATAA
* * * * *
32148413 CACT-AGACAGAATGCTTGGAAACTATAA
1 CACTGATACATAGTACCTGGAAA-TATAA
32148441 CACTGATACATAGTACCTGGAAATATA
1 CACTGATACATAGTACCTGGAAATATA
32148468 TCATTGGCAC
Statistics
Matches: 39, Mismatches: 14, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
27 10 0.26
28 16 0.41
29 13 0.33
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (28 bp):
CACTGATACATAGTACCTGGAAATATAA
Found at i:32155593 original size:21 final size:21
Alignment explanation
Indices: 32155568--32155609 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
32155558 AAAAAAGGGC
32155568 TTAATTGCTTAAA-ATGAAAAT
1 TTAA-TGCTTAAATATGAAAAT
*
32155589 TTAATGGTTAAATATGAAAAT
1 TTAATGCTTAAATATGAAAAT
32155610 GCCTAATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (21 bp):
TTAATGCTTAAATATGAAAAT
Found at i:32156708 original size:43 final size:42
Alignment explanation
Indices: 32156647--32156775 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 42
32156637 CATAGGATTC
* *
32156647 CGATATGTGTTTTCGTGTAAGACCTCGTCTAGGACATTGGCAT
1 CGATATGTGATTACGTGTAAGACC-CGTCTAGGACATTGGCAT
* * *
32156690 CGACT-TGTGCTTACGTGTAAGACCCTGTCTAGGACAGTGGAAT
1 CGA-TATGTGATTACGTGTAAGACCC-GTCTAGGACATTGGCAT
** *
32156733 CGATATGTGATTACACGTAAGACCACGTCTGGGA-AGTTGGCAT
1 CGATATGTGATTACGTGTAAGACC-CGTCTAGGACA-TTGGCAT
32156776 TGTACGAGCC
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
42 3 0.04
43 66 0.93
44 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (42 bp):
CGATATGTGATTACGTGTAAGACCCGTCTAGGACATTGGCAT
Found at i:32161760 original size:27 final size:27
Alignment explanation
Indices: 32161729--32161906 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32161719 TAAATTGTAC
32161729 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
32161756 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32161782 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
32161810 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
32161838 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32161865 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
32161892 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
32161907 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:32161843 original size:82 final size:81
Alignment explanation
Indices: 32161730--32161885 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32161720 AAATTGTACA
* *
32161730 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
32161794 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
32161811 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
32161876 TGCGAGTTGA
65 TGCGAATTGA
32161886 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:32161897 original size:82 final size:81
Alignment explanation
Indices: 32161726--32161906 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
32161716 GATTAAATTG
* *
32161726 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
32161791 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
32161807 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
32161871 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
32161889 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
32161907 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:32163299 original size:25 final size:23
Alignment explanation
Indices: 32163271--32163325 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
32163261 CCATTAATTC
* *
32163271 GGAAGCTTCAGATAGCCATATATCG
1 GGAAGCTTAAGAGAGCC--ATATCG
* *
32163296 GGAAGTTTAAGCGAGCCATATCG
1 GGAAGCTTAAGAGAGCCATATCG
32163319 GGAAGCT
1 GGAAGCT
32163326 CACGAAGAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 12 0.48
25 13 0.52
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (23 bp):
GGAAGCTTAAGAGAGCCATATCG
Found at i:32167323 original size:80 final size:80
Alignment explanation
Indices: 32167219--32167370 Score: 234
Period size: 80 Copynumber: 1.9 Consensus size: 80
32167209 CAATGGTACC
* ** *
32167219 GAAGTACAAACAGGGGCACGTAGGTGCAATTGGGGGTACTGAAGTAAAAATAGGGGCATGTAT-G
1 GAAGTAAAAACAGGGGCACGTAGGTGCAATCAGGGGTACCGAAGTAAAAATAGGGGCATGTATAG
32167283 TGCAATCAGGGATACT
66 -GCAATCAGGGATACT
* *
32167299 GAAGTAAAAATAGGGGCACGTAGGTGCAATCAGGGGTACCGAAGTACAAATAGGGGCATGTATAG
1 GAAGTAAAAACAGGGGCACGTAGGTGCAATCAGGGGTACCGAAGTAAAAATAGGGGCATGTATAG
32167364 GCAATCA
66 GCAATCA
32167371 TACAAAAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
80 64 0.98
81 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.33, T:0.18
Consensus pattern (80 bp):
GAAGTAAAAACAGGGGCACGTAGGTGCAATCAGGGGTACCGAAGTAAAAATAGGGGCATGTATAG
GCAATCAGGGATACT
Found at i:32167370 original size:40 final size:40
Alignment explanation
Indices: 32167213--32167356 Score: 198
Period size: 40 Copynumber: 3.6 Consensus size: 40
32167203 TGCATTCAAT
* * **
32167213 GGTACCGAAGTACAAACAGGGGCACGTAGGTGCAATTGGG
1 GGTACCGAAGTAAAAATAGGGGCACGTAGGTGCAATCAGG
* * *
32167253 GGTACTGAAGTAAAAATAGGGGCATGTATGTGCAATCAGG
1 GGTACCGAAGTAAAAATAGGGGCACGTAGGTGCAATCAGG
* *
32167293 GATACTGAAGTAAAAATAGGGGCACGTAGGTGCAATCAGG
1 GGTACCGAAGTAAAAATAGGGGCACGTAGGTGCAATCAGG
*
32167333 GGTACCGAAGTACAAATAGGGGCA
1 GGTACCGAAGTAAAAATAGGGGCA
32167357 TGTATAGGCA
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 91 1.00
ACGTcount: A:0.35, C:0.14, G:0.34, T:0.17
Consensus pattern (40 bp):
GGTACCGAAGTAAAAATAGGGGCACGTAGGTGCAATCAGG
Found at i:32177669 original size:23 final size:23
Alignment explanation
Indices: 32177639--32177689 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
32177629 GGAGGAAGTG
*
32177639 CTACTGGCAGTTTATCCACATAT
1 CTACTGGCAGTTCATCCACATAT
**
32177662 CTACTGGCAGTTCATCTGCATAT
1 CTACTGGCAGTTCATCCACATAT
32177685 CTACT
1 CTACT
32177690 AGTGGTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (23 bp):
CTACTGGCAGTTCATCCACATAT
Found at i:32178314 original size:9 final size:9
Alignment explanation
Indices: 32178302--32178365 Score: 101
Period size: 9 Copynumber: 7.1 Consensus size: 9
32178292 AAAATAACTA
*
32178302 AATTAACCG
1 AATTACCCG
32178311 AATTACCCG
1 AATTACCCG
*
32178320 AATTAACCG
1 AATTACCCG
32178329 AATTACCCG
1 AATTACCCG
32178338 AATTACCCG
1 AATTACCCG
32178347 AATTACCCG
1 AATTACCCG
*
32178356 AATTAACCG
1 AATTACCCG
32178365 A
1 A
32178366 CTTGAATCAC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:32178325 original size:18 final size:18
Alignment explanation
Indices: 32178302--32178365 Score: 119
Period size: 18 Copynumber: 3.6 Consensus size: 18
32178292 AAAATAACTA
32178302 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
32178320 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
32178338 AATTACCCGAATTACCCG
1 AATTAACCGAATTACCCG
32178356 AATTAACCGA
1 AATTAACCGA
32178366 CTTGAATCAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:32178471 original size:18 final size:18
Alignment explanation
Indices: 32178445--32178497 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
32178435 ATTTTTATGA
32178445 TTGGGTTGGGTTGGGTAC
1 TTGGGTTGGGTTGGGTAC
* *
32178463 TTTGGTTGGGTTGGATAC
1 TTGGGTTGGGTTGGGTAC
*
32178481 TTGGGTTTGGATTGGGT
1 TTGGG-TTGGGTTGGGT
32178498 TTAGGTGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 20 0.69
19 9 0.31
ACGTcount: A:0.08, C:0.04, G:0.45, T:0.43
Consensus pattern (18 bp):
TTGGGTTGGGTTGGGTAC
Found at i:32179536 original size:11 final size:11
Alignment explanation
Indices: 32179520--32179547 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
32179510 TTTAAAATTT
32179520 TATATTTATTA
1 TATATTTATTA
32179531 TATATTTATTA
1 TATATTTATTA
32179542 TATATT
1 TATATT
32179548 CAGGCCGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTTATTA
Found at i:32183305 original size:17 final size:17
Alignment explanation
Indices: 32183285--32183317 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
32183275 TTGAGTCAGG
32183285 ATTGAATTTTAAATTTC
1 ATTGAATTTTAAATTTC
32183302 ATTGAATTTTAAATTT
1 ATTGAATTTTAAATTT
32183318 TGAAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTGAATTTTAAATTTC
Found at i:32186789 original size:342 final size:342
Alignment explanation
Indices: 32186156--32186841 Score: 1061
Period size: 342 Copynumber: 2.0 Consensus size: 342
32186146 TGGAAGCTAA
*
32186156 TGGTTTTGGTGATTCAAATAGAGATGCATGCTTTGAAGAAAAAGGTGGCTGGAGAAGCACACACT
1 TGGTTTTGGTGATTCAAATAGAGATGCATGCTTTGAAGAAAAAGGTGGCTGGAAAAGCACACACT
* * * *
32186221 ACCACTCAGACAATGCAGATCAGGCAGTTGGACATCATTTCATCAGATTTAATAATATACGATCC
66 ACCACTCACACAATGCAGATCAGACAGTTGGACATCATTTCAGCAGATTGAATAATATACGATCC
* * *
32186286 CAAGTGAGTCAACAAAATGAAAATATTGTTGTGAAAAGAGATAATGCTAGTGGAGGAAACAATAG
131 CAAGTGAGTCAACAAAATGAAAATATAGTTGTGAAAAGAGATAATGCTAGTGGAGAAAACAACAG
* ** *
32186351 GACCACATGTGATGGTCCAGAAAGTCATGATGCAACTGAAAAAGCTGGTGTGATTGTCTCAAAAT
196 GACCACATGTGATGGTCCAGAAAATCATGATGCAACTGAAAAAGCTCCTATGATTGTCTCAAAAT
*
32186416 TCAACCAAAGAAGTGAACCTTCTAGTGCAAAAAACATACTGCCTAAAAGGCAAACAAAACATGTA
261 TCAACCAAAGAAGTGAACCTTCTAGTGCAAAAAACATACTGCCTAAAAGGCAAACAAAACATGCA
*
32186481 TTGAACTCAAGAAATAG
326 TTAAACTCAAGAAATAG
* *
32186498 TGGTTTTGGTGATTCAAATAGAGATGCATGCTTTGAAGGAAAAGGTGGCTGGAAAAGCACACATT
1 TGGTTTTGGTGATTCAAATAGAGATGCATGCTTTGAAGAAAAAGGTGGCTGGAAAAGCACACACT
** * * * *
32186563 ACTGCTCACAGAATGCAGATCAGACAGTTGGACATCATTTTAGCAGATTGAATAATGTACGATGC
66 ACCACTCACACAATGCAGATCAGACAGTTGGACATCATTTCAGCAGATTGAATAATATACGATCC
* *
32186628 GAAGTGAGTCAACAAAATGAAAATATAGTTGTGAAAAGAGATAATGCTAGTGGAGAAAAGAACAG
131 CAAGTGAGTCAACAAAATGAAAATATAGTTGTGAAAAGAGATAATGCTAGTGGAGAAAACAACAG
***
32186693 GACTGTATGTGATGGTCCAGAAAATCATGATGCAACT-AAAACAGCTCCTATGATTGTCTCAAAA
196 GACCACATGTGATGGTCCAGAAAATCATGATGCAACTGAAAA-AGCTCCTATGATTGTCTCAAAA
* * * *
32186757 TTCAACCACATAAGTGAACCTTCTCA-TGCAAAAAACATGCTGCCTAAAAGGCAAACACAACATG
260 TTCAACCAAAGAAGTGAACCTTCT-AGTGCAAAAAACATACTGCCTAAAAGGCAAACAAAACATG
32186821 CATTAAACTCAAGAAATAG
324 CATTAAACTCAAGAAATAG
32186840 TG
1 TG
32186842 ATGAAAGTGC
Statistics
Matches: 311, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
341 4 0.01
342 306 0.98
343 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (342 bp):
TGGTTTTGGTGATTCAAATAGAGATGCATGCTTTGAAGAAAAAGGTGGCTGGAAAAGCACACACT
ACCACTCACACAATGCAGATCAGACAGTTGGACATCATTTCAGCAGATTGAATAATATACGATCC
CAAGTGAGTCAACAAAATGAAAATATAGTTGTGAAAAGAGATAATGCTAGTGGAGAAAACAACAG
GACCACATGTGATGGTCCAGAAAATCATGATGCAACTGAAAAAGCTCCTATGATTGTCTCAAAAT
TCAACCAAAGAAGTGAACCTTCTAGTGCAAAAAACATACTGCCTAAAAGGCAAACAAAACATGCA
TTAAACTCAAGAAATAG
Found at i:32188270 original size:122 final size:122
Alignment explanation
Indices: 32188053--32188296 Score: 488
Period size: 122 Copynumber: 2.0 Consensus size: 122
32188043 CATAATATTA
32188053 ATAAATAGTATATTTCATTTAAGCTATTCAACTTGAGTGAAAAGACCTTTTTTGTAGGATTGTAT
1 ATAAATAGTATATTTCATTTAAGCTATTCAACTTGAGTGAAAAGACCTTTTTTGTAGGATTGTAT
32188118 ATTTGTATTTATCAGACAATAGAATCATGAAATATGCTAATATTCAGTCAAGTTTTC
66 ATTTGTATTTATCAGACAATAGAATCATGAAATATGCTAATATTCAGTCAAGTTTTC
32188175 ATAAATAGTATATTTCATTTAAGCTATTCAACTTGAGTGAAAAGACCTTTTTTGTAGGATTGTAT
1 ATAAATAGTATATTTCATTTAAGCTATTCAACTTGAGTGAAAAGACCTTTTTTGTAGGATTGTAT
32188240 ATTTGTATTTATCAGACAATAGAATCATGAAATATGCTAATATTCAGTCAAGTTTTC
66 ATTTGTATTTATCAGACAATAGAATCATGAAATATGCTAATATTCAGTCAAGTTTTC
32188297 TCTTTTTTGT
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 122 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (122 bp):
ATAAATAGTATATTTCATTTAAGCTATTCAACTTGAGTGAAAAGACCTTTTTTGTAGGATTGTAT
ATTTGTATTTATCAGACAATAGAATCATGAAATATGCTAATATTCAGTCAAGTTTTC
Found at i:32191776 original size:63 final size:63
Alignment explanation
Indices: 32191677--32191812 Score: 263
Period size: 63 Copynumber: 2.2 Consensus size: 63
32191667 GTTACAAGGA
32191677 TTTAATCTAAATCTCTTACTAAACACCAAAAACTATGGATTATAACTCTTTTAATGTACTAAT
1 TTTAATCTAAATCTCTTACTAAACACCAAAAACTATGGATTATAACTCTTTTAATGTACTAAT
32191740 TTTAATCTAAATCTCTTACTAAACACCAAAAACTATGGATTATAACTCTTTTAATGTACTAAT
1 TTTAATCTAAATCTCTTACTAAACACCAAAAACTATGGATTATAACTCTTTTAATGTACTAAT
*
32191803 TTTATTCTAA
1 TTTAATCTAA
32191813 GGAAAAGAAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 72 1.00
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.40
Consensus pattern (63 bp):
TTTAATCTAAATCTCTTACTAAACACCAAAAACTATGGATTATAACTCTTTTAATGTACTAAT
Found at i:32193193 original size:16 final size:17
Alignment explanation
Indices: 32193172--32193205 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32193162 ATCACTTGTA
32193172 ACAACT-TTCTAATATT
1 ACAACTCTTCTAATATT
*
32193188 ACAACTCTTCTATTATT
1 ACAACTCTTCTAATATT
32193205 A
1 A
32193206 TTTTTTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (17 bp):
ACAACTCTTCTAATATT
Found at i:32196376 original size:69 final size:69
Alignment explanation
Indices: 32196201--32196376 Score: 203
Period size: 69 Copynumber: 2.6 Consensus size: 69
32196191 GCCTCGGTGG
* * * * * ** *
32196201 ACTCTAATGGTTGGCATAGCCGAGCTATAG-ACTTACACCTTATAATCCCTGTGTTTACTGTCCT
1 ACTCTATTAGTTGCCATAGCCGAGCTATGGTA-TTACATCTTATAATCCCCATGTTTACTATCCT
32196265 GACAA
65 GACAA
* **
32196270 ACTCTGTTAGTTGCCATAGTTGAGCTATGGTATTACATCTTATAATCCCCATGTTTACTAT-CTC
1 ACTCTATTAGTTGCCATAGCCGAGCTATGGTATTACATCTTATAATCCCCATGTTTACTATCCT-
32196334 GACAA
65 GACAA
* *
32196339 ACTCTATTAGTTTCCATAGCCGAGCTATGGTGTTACAT
1 ACTCTATTAGTTGCCATAGCCGAGCTATGGTATTACAT
32196377 TATATACATC
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
68 2 0.02
69 86 0.97
70 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (69 bp):
ACTCTATTAGTTGCCATAGCCGAGCTATGGTATTACATCTTATAATCCCCATGTTTACTATCCTG
ACAA
Found at i:32205030 original size:27 final size:27
Alignment explanation
Indices: 32204991--32205066 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
32204981 TATTGTTAGC
* *
32204991 CCCAAATCCCAGAGGGTCGTGGGTAGT
1 CCCAATTCTCAGAGGGTCGTGGGTAGT
32205018 CCCAATTCTCAGAGGGTCGTGGGTAGT
1 CCCAATTCTCAGAGGGTCGTGGGTAGT
*
32205045 CCCAATTCTCAAAGGGTCGTGG
1 CCCAATTCTCAGAGGGTCGTGG
32205067 ACTACTCTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.21, C:0.25, G:0.32, T:0.22
Consensus pattern (27 bp):
CCCAATTCTCAGAGGGTCGTGGGTAGT
Found at i:32206008 original size:15 final size:15
Alignment explanation
Indices: 32205988--32206019 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
32205978 TATGATGACT
32205988 TAATTTTGTTAATGC
1 TAATTTTGTTAATGC
32206003 TAATTTTGTTAATGC
1 TAATTTTGTTAATGC
32206018 TA
1 TA
32206020 GATTAATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (15 bp):
TAATTTTGTTAATGC
Found at i:32212584 original size:7 final size:6
Alignment explanation
Indices: 32212553--32212584 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
32212543 TGATTTTCTC
32212553 AAAATG AAAATG AAAATG AAAATG AGAAATG A
1 AAAATG AAAATG AAAATG AAAATG A-AAATG A
32212585 TTCATTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.19, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:32212773 original size:25 final size:25
Alignment explanation
Indices: 32212744--32212802 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
32212734 TTTCACCCGA
*
32212744 GGTAAAATTACCATAATTTTATTGG
1 GGTAAAATTACCATAATTTTACTGG
32212769 GGTAAAATTACCATAATTTTACTGG
1 GGTAAAATTACCATAATTTTACTGG
32212794 GGTAAAATT
1 GGTAAAATT
32212803 GAGATGAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (25 bp):
GGTAAAATTACCATAATTTTACTGG
Found at i:32214984 original size:10 final size:10
Alignment explanation
Indices: 32214966--32215011 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
32214956 CTATAACTAA
32214966 ATGTGATTAT
1 ATGTGATTAT
*
32214976 ATGTAATTAT
1 ATGTGATTAT
*
32214986 ATGTGCTTAT
1 ATGTGATTAT
32214996 ATGTGATTGAT
1 ATGTGATT-AT
32215007 ATGTG
1 ATGTG
32215012 TCAGAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 24 0.77
11 7 0.23
ACGTcount: A:0.28, C:0.02, G:0.22, T:0.48
Consensus pattern (10 bp):
ATGTGATTAT
Found at i:32222110 original size:18 final size:18
Alignment explanation
Indices: 32222079--32222131 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
32222069 GCAATATATG
32222079 TAAAAATA-ATTTAAAATA
1 TAAAAATATA-TTAAAATA
* *
32222097 TAAAAATTTATTAATATA
1 TAAAAATATATTAAAATA
*
32222115 TAACAATATATGTAAAA
1 TAAAAATATAT-TAAAA
32222132 ACAATTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
TAAAAATATATTAAAATA
Found at i:32222368 original size:20 final size:20
Alignment explanation
Indices: 32222343--32222381 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
32222333 GCAATTACAC
32222343 AATTC-ACATATACAATATTT
1 AATTCAACATATA-AATATTT
32222363 AATTCAAACATATAAATAT
1 AATTC-AACATATAAATAT
32222382 GCATAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTCAACATATAAATATTT
Found at i:32222541 original size:5 final size:5
Alignment explanation
Indices: 32222512--32222550 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
32222502 TAAATTTAAC
* *
32222512 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
32222551 CATCTTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:32227071 original size:48 final size:48
Alignment explanation
Indices: 32227007--32227113 Score: 198
Period size: 48 Copynumber: 2.2 Consensus size: 48
32226997 CAAAAATGCG
*
32227007 AAATAAAA-TTTGAAAATAATTATCACCTTTAGAAGGATGATATGTAA
1 AAATAAAACATTGAAAATAATTATCACCTTTAGAAGGATGATATGTAA
32227054 AAATAAAACATTGAAAATAATTATCACCTTTAGAAGGATGATATGTAA
1 AAATAAAACATTGAAAATAATTATCACCTTTAGAAGGATGATATGTAA
32227102 AAATAAAACATT
1 AAATAAAACATT
32227114 CTTACACAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
47 8 0.14
48 50 0.86
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.30
Consensus pattern (48 bp):
AAATAAAACATTGAAAATAATTATCACCTTTAGAAGGATGATATGTAA
Found at i:32229351 original size:15 final size:15
Alignment explanation
Indices: 32229331--32229362 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
32229321 CATTTCACTA
32229331 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
32229346 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
32229361 TT
1 TT
32229363 TGCATGCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:32233115 original size:26 final size:26
Alignment explanation
Indices: 32233059--32233117 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
32233049 TATTTTCTCG
* *
32233059 AAATTTTACCAAGGGAAAAATCTTTA
1 AAATTTTACCAAGGGAAAAATCGTCA
*
32233085 AAATTTTACCAAGGGCAAAATCGTCA
1 AAATTTTACCAAGGGAAAAATCGTCA
*
32233111 CAATTTT
1 AAATTTT
32233118 CCTGGAGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTTTACCAAGGGAAAAATCGTCA
Found at i:32239536 original size:26 final size:26
Alignment explanation
Indices: 32239500--32239568 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
32239490 TTTTCAATAG
*
32239500 TGCTCACACGAGCTGTGAAA-TGAGTC
1 TGCTCACACGAGTTGTGAAATTG-GTC
*
32239526 TGCTCACACGATTTGTGAAATTGGTC
1 TGCTCACACGAGTTGTGAAATTGGTC
*
32239552 TACTCACACGAGTTGTG
1 TGCTCACACGAGTTGTG
32239569 GGTCGAAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 36 0.95
27 2 0.05
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (26 bp):
TGCTCACACGAGTTGTGAAATTGGTC
Found at i:32244628 original size:20 final size:21
Alignment explanation
Indices: 32244594--32244636 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
32244584 ATGTATTTAG
*
32244594 CAAAGTTACGATTTTCCAACA
1 CAAAGTTACGATTTTCAAACA
*
32244615 CAAAG-TACGGTTTTCAAACA
1 CAAAGTTACGATTTTCAAACA
32244635 CA
1 CA
32244637 CAACCATGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.26
Consensus pattern (21 bp):
CAAAGTTACGATTTTCAAACA
Found at i:32245454 original size:45 final size:46
Alignment explanation
Indices: 32245405--32245491 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 46
32245395 CATTTTAGAG
*
32245405 AAAACCACATTCATTTCTAAATG-ATTCAATTTCTCCATTTCAAAA
1 AAAACCACAATCATTTCTAAATGTATTCAATTTCTCCATTTCAAAA
* * * * *
32245450 AAAACCATAATCATTTCTGAATGTTTTCCATTTCTCTATTTC
1 AAAACCACAATCATTTCTAAATGTATTCAATTTCTCCATTTC
32245492 TATTCATTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
45 20 0.57
46 15 0.43
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.40
Consensus pattern (46 bp):
AAAACCACAATCATTTCTAAATGTATTCAATTTCTCCATTTCAAAA
Found at i:32247695 original size:20 final size:18
Alignment explanation
Indices: 32247672--32247712 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
32247662 GAGTTGAGAA
*
32247672 AATTATTTAATTGAAAATTT
1 AATTAATTAATT--AAATTT
32247692 AATTAATTAATTAAATTT
1 AATTAATTAATTAAATTT
32247710 AAT
1 AAT
32247713 AAATAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
AATTAATTAATTAAATTT
Found at i:32252406 original size:11 final size:11
Alignment explanation
Indices: 32252390--32252450 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
32252380 TAAAAAAATT
32252390 TATTTTAAAAA
1 TATTTTAAAAA
32252401 TATTTT--AAA
1 TATTTTAAAAA
32252410 -A--TTAAAAA
1 TATTTTAAAAA
* * *
32252418 AAATTAAAAAA
1 TATTTTAAAAA
32252429 GTATTTTAAAAA
1 -TATTTTAAAAA
32252441 TATTTTAAAA
1 TATTTTAAAA
32252451 TTAAAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
6 2 0.05
8 4 0.10
9 4 0.10
11 22 0.55
12 8 0.20
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:32252434 original size:40 final size:41
Alignment explanation
Indices: 32252374--32252481 Score: 173
Period size: 40 Copynumber: 2.6 Consensus size: 41
32252364 AATTTATTTT
*
32252374 AAAAATTAAAAAAATTTATTTTAAAAATATTTTAAAATTAAA
1 AAAAATTAAAAAAA-GTATTTTAAAAATATTTTAAAATTAAA
32252416 AAAAATT-AAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
*
32252456 AAAATTTTAAAAAAAGTATTTTAAAA
1 AAAA-ATTAAAAAAAGTATTTTAAAA
32252482 TTAAAAAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
40 30 0.48
41 8 0.13
42 24 0.39
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (41 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
Found at i:32252451 original size:30 final size:30
Alignment explanation
Indices: 32252417--32252490 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 30
32252407 AAAATTAAAA
32252417 AAAATTAAAAAAGTATTTT-AAAAA-TATTTT
1 AAAATTAAAAAA--ATTTTAAAAAAGTATTTT
32252447 AAAATTAAAAAAATTTTAAAAAAAGTATTTT
1 AAAATTAAAAAAATTTT-AAAAAAGTATTTT
32252478 AAAATTAAAAAAA
1 AAAATTAAAAAAA
32252491 ATATTTATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
28 5 0.12
30 17 0.41
31 19 0.46
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (30 bp):
AAAATTAAAAAAATTTTAAAAAAGTATTTT
Found at i:32255225 original size:24 final size:24
Alignment explanation
Indices: 32255205--32255252 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
32255195 TATTATTCTG
32255205 AATTTCAC-ATGTATTATTATTTAA
1 AATTT-ACTATGTATTATTATTTAA
32255229 AATTTACTATGTATTATTATTTAA
1 AATTTACTATGTATTATTATTTAA
32255253 TTTTAACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (24 bp):
AATTTACTATGTATTATTATTTAA
Found at i:32255489 original size:17 final size:15
Alignment explanation
Indices: 32255461--32255508 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
32255451 GTCATTCCTG
32255461 TATAATATTTTTATC
1 TATAATATTTTTATC
32255476 TATATATATCTTTTAT-
1 TATA-ATAT-TTTTATC
*
32255492 TAAAATTATTTTTATC
1 TATAA-TATTTTTATC
32255508 T
1 T
32255509 CACATACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 11 0.39
16 11 0.39
17 6 0.21
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (15 bp):
TATAATATTTTTATC
Found at i:32257381 original size:12 final size:12
Alignment explanation
Indices: 32257362--32257392 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
32257352 ATAAATAATG
32257362 AATTTTATTTTT
1 AATTTTATTTTT
*
32257374 ATTTTTATTTTT
1 AATTTTATTTTT
32257386 AATTTTA
1 AATTTTA
32257393 ATTTCAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
AATTTTATTTTT
Found at i:32282528 original size:11 final size:11
Alignment explanation
Indices: 32282514--32282548 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
32282504 AAAAACTAAA
*
32282514 AAAATATTAGT
1 AAAATAATAGT
32282525 AAAATAATAGT
1 AAAATAATAGT
32282536 AAAATAATAGT
1 AAAATAATAGT
32282547 AA
1 AA
32282549 TCATATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (11 bp):
AAAATAATAGT
Found at i:32284073 original size:27 final size:27
Alignment explanation
Indices: 32284043--32284094 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
32284033 ACCAATCATA
* *
32284043 CCTCCTTGACAGGCAGCACTGGTGACC
1 CCTCCTTGAAAGGCAGCACTAGTGACC
*
32284070 CCTCCTTGAAAGGCGGCACTAGTGA
1 CCTCCTTGAAAGGCAGCACTAGTGA
32284095 GTAGATTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.21, C:0.33, G:0.27, T:0.19
Consensus pattern (27 bp):
CCTCCTTGAAAGGCAGCACTAGTGACC
Found at i:32284209 original size:4 final size:4
Alignment explanation
Indices: 32284200--32284261 Score: 67
Period size: 4 Copynumber: 15.5 Consensus size: 4
32284190 AAAGAGGGAG
*
32284200 AAGA AAGA AAGA AAGA AAGA AAGAA AAGA GAAGA AA-A AAGA GA-A AAGA
1 AAGA AAGA AAGA AAGA AAGA AAG-A AAGA -AAGA AAGA AAGA AAGA AAGA
32284248 AAG- AAGA ATAGA AA
1 AAGA AAGA A-AGA AA
32284262 TCTGTTTTCT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
3 8 0.16
4 30 0.60
5 12 0.24
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (4 bp):
AAGA
Found at i:32284248 original size:17 final size:17
Alignment explanation
Indices: 32284200--32284261 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
32284190 AAAGAGGGAG
*
32284200 AAGAAAGAAAGA-AAGA
1 AAGAAAGAAAAAGAAGA
32284216 AAGAAAGAAAAGAGAAGA
1 AAGAAAGAAAA-AGAAGA
32284234 AA-AAAGAGAAAAGAA-A
1 AAGAAAGA-AAAAGAAGA
32284250 GAAGAATAGAAA
1 -AAGAA-AGAAA
32284262 TCTGTTTTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
16 11 0.28
17 12 0.31
18 13 0.33
19 3 0.08
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (17 bp):
AAGAAAGAAAAAGAAGA
Found at i:32290857 original size:105 final size:108
Alignment explanation
Indices: 32290655--32290856 Score: 275
Period size: 105 Copynumber: 1.9 Consensus size: 108
32290645 ATTACATTCA
* *
32290655 TAACAAATCACAATAAATATTAAACTAAACAAATAATTAACCTAATAAAAAATTACTAACAAAAT
1 TAACAAATCACAATAAACATTAAACTAAACAAACAATT-A--TAATAAAAAATTACTAACAAAAT
* *
32290720 AACTTTAAAATCAATTAAAAAAACAAAAAAAATTACATTCATAACC
63 AACTTTAAAATAAAGTAAAAAAACAAAAAAAATTACATTCATAACC
* * *
32290766 TAACAAATCACAATAAGCATTAAACTAAACAAACAATT-T-AT-AATAGTTACTAACAAAATAAC
1 TAACAAATCACAATAAACATTAAACTAAACAAACAATTATAATAAAAAATTACTAACAAAATAAC
*
32290828 TTTAAAATAAAGTAAAAACAACATAAAAA
66 TTTAAAATAAAGTAAAAA-AACAAAAAAA
32290857 TCATAATAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
105 35 0.43
106 11 0.13
107 1 0.01
111 35 0.43
ACGTcount: A:0.61, C:0.14, G:0.01, T:0.24
Consensus pattern (108 bp):
TAACAAATCACAATAAACATTAAACTAAACAAACAATTATAATAAAAAATTACTAACAAAATAAC
TTTAAAATAAAGTAAAAAAACAAAAAAAATTACATTCATAACC
Found at i:32291373 original size:21 final size:19
Alignment explanation
Indices: 32291344--32291382 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 19
32291334 AAAATATGGA
32291344 TTTTTTTAGAATAAAAATAT
1 TTTTTTTAGAA-AAAAATAT
32291364 TTTTTATTAGAAAAAAATA
1 TTTTT-TTAGAAAAAAATA
32291383 GGGTGGTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
TTTTTTTAGAAAAAAATAT
Found at i:32291478 original size:13 final size:14
Alignment explanation
Indices: 32291455--32291488 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
32291445 GCATACCTAT
*
32291455 TATTTTTTATTTTA
1 TATTATTTATTTTA
32291469 -ATTATTTATTTTA
1 TATTATTTATTTTA
32291482 TATTATT
1 TATTATT
32291489 GGTGTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTATTTATTTTA
Found at i:32293135 original size:10 final size:10
Alignment explanation
Indices: 32293116--32293225 Score: 61
Period size: 10 Copynumber: 10.8 Consensus size: 10
32293106 ATTATTAACA
32293116 ATTATAAAAAT
1 ATTAT-AAAAT
32293127 ATTATAAAAT
1 ATTATAAAAT
32293137 -TTATAAAA-
1 ATTATAAAAT
*
32293145 ATTTATAAAAA
1 A-TTATAAAAT
*
32293156 ATTGTAATAA-
1 ATTATAA-AAT
32293166 ATTATTAAAA-
1 ATTA-TAAAAT
32293176 ATTTATAAAAT
1 A-TTATAAAAT
*
32293187 -TAATAAATCAT
1 ATTATAAA--AT
32293198 ATT-TAAAAT
1 ATTATAAAAT
* *
32293207 TTTATAAAAC
1 ATTATAAAAT
32293217 ACTTATAAA
1 A-TTATAAA
32293226 TAATAGAAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
9 18 0.22
10 34 0.43
11 27 0.34
12 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (10 bp):
ATTATAAAAT
Found at i:32293142 original size:20 final size:19
Alignment explanation
Indices: 32293100--32293185 Score: 84
Period size: 20 Copynumber: 4.4 Consensus size: 19
32293090 TCATACAAAG
* *
32293100 TATAAAATTATTAACAA-T
1 TATAAAAATATTAAAAATT
32293118 TATAAAAATATTATAAAATT
1 TATAAAAATATTA-AAAATT
* *
32293138 TATAAAAATTTATAAAAAAT
1 TATAAAAATAT-TAAAAATT
*
32293158 TGTAATAAATTATTAAAAATT
1 TATAA-AAA-TATTAAAAATT
32293179 TATAAAA
1 TATAAAA
32293186 TTAATAAATC
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
18 12 0.22
19 3 0.05
20 22 0.40
21 16 0.29
22 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (19 bp):
TATAAAAATATTAAAAATT
Found at i:32293168 original size:31 final size:30
Alignment explanation
Indices: 32293100--32293185 Score: 106
Period size: 31 Copynumber: 2.9 Consensus size: 30
32293090 TCATACAAAG
*
32293100 TATAAAATTATTAACAA-TTATAAAAATAT
1 TATAAAATTATTAAAAATTTATAAAAATAT
32293129 TATAAAATT-TATAAAAATTTATAAAAA-AT
1 TATAAAATTAT-TAAAAATTTATAAAAATAT
*
32293158 TGTAATAAATTATTAAAAATTTATAAAA
1 TAT-A-AAATTATTAAAAATTTATAAAA
32293186 TTAATAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
28 1 0.02
29 18 0.36
30 10 0.20
31 20 0.40
32 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (30 bp):
TATAAAATTATTAAAAATTTATAAAAATAT
Found at i:32294145 original size:38 final size:37
Alignment explanation
Indices: 32294103--32294355 Score: 122
Period size: 38 Copynumber: 6.7 Consensus size: 37
32294093 TTAAATTACT
32294103 TTTTTTATAATTTA-T-AATTTTTCAATAGTTTTTATAAA
1 TTTTTTATAATTTATTAAATTTTT--ATA-TTTTTATAAA
* *
32294141 TTTTTTATATTTTATTACAATTTTTATATTTTTATGAA
1 TTTTTTATAATTTATTA-AATTTTTATATTTTTATAAA
* * *
32294179 -TTTTTATAATCCTTATGAAA-TTTTA-A-ATATATCAAA
1 TTTTTTATAAT--TTATTAAATTTTTATATTTTTAT-AAA
* *
32294215 TATGTTTTATTAA-TT-TTATATTTTTATA-ATTTATAATAA
1 T-T-TTTTA-TAATTTATTAAATTTTTATATTTTTAT-A-AA
*
32294254 TTTTTTATAATTT-TTATAATTTTTATGACTTTTTTTTATAA
1 TTTTTTATAATTTATTA-AATTTTTAT-A--TTTTTATA-AA
* * *
32294295 TTTTATA-AATTT-TTAAAAATTTTAAATTTTTA-AAA
1 TTTTTTATAATTTATT-AAATTTTTATATTTTTATAAA
*
32294330 -TTTTTAAAATTT-TTAAAATTTTTATA
1 TTTTTTATAATTTATT-AAATTTTTATA
32294356 AATTCTTTTA
Statistics
Matches: 173, Mismatches: 21, Indels: 45
0.72 0.09 0.19
Matches are distributed among these distances:
34 5 0.03
35 23 0.13
36 10 0.06
37 36 0.21
38 41 0.24
39 19 0.11
40 17 0.10
41 18 0.10
42 4 0.02
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (37 bp):
TTTTTTATAATTTATTAAATTTTTATATTTTTATAAA
Found at i:32294194 original size:19 final size:18
Alignment explanation
Indices: 32294159--32294203 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
32294149 ATTTTATTAC
**
32294159 AATTTTTATATTTTTATG
1 AATTTTTATATCCTTATG
32294177 AATTTTTATAATCCTTATG
1 AATTTTTAT-ATCCTTATG
*
32294196 AAATTTTA
1 AATTTTTA
32294204 AATATATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (18 bp):
AATTTTTATATCCTTATG
Found at i:32294277 original size:9 final size:9
Alignment explanation
Indices: 32294104--32294356 Score: 144
Period size: 9 Copynumber: 27.0 Consensus size: 9
32294094 TAAATTACTT
32294104 TTTTTATAA
1 TTTTTATAA
32294113 --TTTATAA
1 TTTTTATAA
*
32294120 TTTTTCAATAG
1 TTTTT--ATAA
32294131 TTTTTATAAA
1 TTTTTAT-AA
*
32294141 TTTTTTATAT
1 -TTTTTATAA
*
32294151 TTTATTACAA
1 TTT-TTATAA
32294161 TTTTTAT-A
1 TTTTTATAA
32294169 TTTTTATGAA
1 TTTTTAT-AA
32294179 TTTTTATAA
1 TTTTTATAA
**
32294188 TCCTTATGAA
1 TTTTTAT-AA
*
32294198 ATTTTA-AA
1 TTTTTATAA
* * *
32294206 TATATCAAATA
1 T-TTTTATA-A
32294217 TGTTTTATTAA
1 T-TTTTA-TAA
32294228 -TTTTAT-A
1 TTTTTATAA
32294235 TTTTTATAA
1 TTTTTATAA
*
32294244 TTTATAATAA
1 TTT-TTATAA
32294254 TTTTTTATAA
1 -TTTTTATAA
32294264 TTTTTATAA
1 TTTTTATAA
*
32294273 TTTTTATGACTTT
1 TTTTTAT-A---A
32294286 TTTTTATAA
1 TTTTTATAA
32294295 -TTTTATAAA
1 TTTTTAT-AA
*
32294304 TTTTTAAAA
1 TTTTTATAA
*
32294313 ATTTTA-AA
1 TTTTTATAA
*
32294321 TTTTTAAAA
1 TTTTTATAA
*
32294330 TTTTTAAAA
1 TTTTTATAA
*
32294339 TTTTTAAAA
1 TTTTTATAA
32294348 TTTTTATAA
1 TTTTTATAA
32294357 ATTCTTTTAT
Statistics
Matches: 193, Mismatches: 26, Indels: 50
0.72 0.10 0.19
Matches are distributed among these distances:
7 8 0.04
8 30 0.16
9 83 0.43
10 39 0.20
11 24 0.12
12 2 0.01
13 7 0.04
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:32294308 original size:22 final size:22
Alignment explanation
Indices: 32294264--32294308 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
32294254 TTTTTTATAA
*
32294264 TTTTTATAATTTTTATGACTTT
1 TTTTTATAATTTTTATAACTTT
*
32294286 TTTTTATAA-TTTTATAAATTT
1 TTTTTATAATTTTTATAACTTT
32294307 TT
1 TT
32294309 AAAAATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTATAATTTTTATAACTTT
Found at i:32294595 original size:5 final size:5
Alignment explanation
Indices: 32294585--32294632 Score: 60
Period size: 5 Copynumber: 9.6 Consensus size: 5
32294575 TTCATAAGGT
* * * *
32294585 ATATG ATATG ATATG ATATG ATATG ATATA ACATT ATATA ATATG ATA
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATA
32294633 GAAATGCTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:32294912 original size:6 final size:6
Alignment explanation
Indices: 32294901--32294942 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
32294891 TATGGCTTGA
32294901 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
32294943 AAGGTGGAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
TGTATG
Found at i:32297076 original size:18 final size:19
Alignment explanation
Indices: 32297021--32297077 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
32297011 AATATGCTTT
32297021 TAGAGTTTAAGTCTTGTTTGA
1 TAGAGTTTAAGTC-T-TTTGA
* *
32297042 TAGACTTTTAA-TGTTTTGA
1 TAGA-GTTTAAGTCTTTTGA
32297061 TA-AGTTTAAGTCTTTTG
1 TAGAGTTTAAGTCTTTTG
32297078 GCCACTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
17 5 0.17
18 7 0.23
19 7 0.23
20 1 0.03
21 5 0.17
22 5 0.17
ACGTcount: A:0.25, C:0.05, G:0.19, T:0.51
Consensus pattern (19 bp):
TAGAGTTTAAGTCTTTTGA
Found at i:32303536 original size:94 final size:94
Alignment explanation
Indices: 32303432--32303733 Score: 293
Period size: 96 Copynumber: 3.2 Consensus size: 94
32303422 TAAATAAGGG
** ** * * * * *
32303432 ATTAGGGTTTAGGGTTTGTCAATTAAATTAATTATAAATTTTTCAAAATTGGATTAGGTTTCGTG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAATTAGATTAGGTTTAGAG
** * * *
32303497 TTTATTATTTTTTAA-TAAAAATCAATTAA
66 -TTAAGAGTTTTTAAGGAAAAATCAAATAA
* * *
32303526 ATTAGGGTTTAGGGTTACTTGAGTAATTTAATTATAAATTATTTAAAAATCAGATAAGGGTTTAG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATT-TTTAAAAATTAGATTA-GGTTTAG
*
32303591 AGTTAAGGGTTTTTAAGGAAAAATCAAATAA
64 AGTTAAGAGTTTTTAAGGAAAAATCAAATAA
* * *
32303622 ATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTTTATAAAATTTGATTAGGGGTTAG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTA-AAAATTAGATTA-GGTTTAG
* * * *
32303687 TGTTTAG-GGTTTTAAGTAAAAACTCAAATAA
64 AGTTAAGAGTTTTTAAGGAAAAA-TCAAATAA
* *
32303718 ATTAAGGTTTGGGGTT
1 ATTAGGGTTTAGGGTT
32303734 CAGGGTTACT
Statistics
Matches: 172, Mismatches: 31, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
94 34 0.20
95 39 0.23
96 99 0.58
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (94 bp):
ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAATTAGATTAGGTTTAGAG
TTAAGAGTTTTTAAGGAAAAATCAAATAA
Found at i:32303628 original size:96 final size:96
Alignment explanation
Indices: 32303505--32303733 Score: 311
Period size: 96 Copynumber: 2.4 Consensus size: 96
32303495 TGTTTATTAT
* *
32303505 TTTTTAA-TAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTATAAATTATT
1 TTTTTAAGTAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATT-TT
*
32303569 TA-AAAATCAGATAAGGGTTTAGAGTTAAGGG
65 TATAAAATCAGATAAGGGGTTAGAGTTAAGGG
* *
32303600 TTTTTAAGGAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTTT
1 TTTTTAAGTAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTT
** * * *
32303665 ATAAAATTTGATTAGGGGTTAGTGTTTAGGG
66 ATAAAATCAGATAAGGGGTTAGAGTTAAGGG
* *
32303696 -TTTTAAGTAAAAACTCAAATAAATTAAGGTTTGGGGTT
1 TTTTTAAGTAAAAA-TCAAATAAATTAGGGTTTAGGGTT
32303734 CAGGGTTACT
Statistics
Matches: 117, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
95 23 0.20
96 94 0.80
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.39
Consensus pattern (96 bp):
TTTTTAAGTAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTT
ATAAAATCAGATAAGGGGTTAGAGTTAAGGG
Found at i:32303991 original size:126 final size:126
Alignment explanation
Indices: 32303766--32304308 Score: 818
Period size: 126 Copynumber: 4.3 Consensus size: 126
32303756 TTGTTAATTT
* * *
32303766 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAATAGCTCCTAAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
32303831 GTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTATTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * * *
32303892 AAAGAAGCTCCCACGTGGATGCACTTTTGCTACAGTGGCTTCTGAAAAAATAATTTCGAGTAGAT
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
**
32303957 GTTTCTGAGCAAATAGTGTCAAAAACATTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * * * *
32304018 AAAGAAGCTCTCACGTGGACACGCTTTTGCTACAGTAGCTCCTGAATAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
* * * * * *
32304083 ATTTCTAAGCATATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTTAGTAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * * *
32304144 AAAGAAGCTCCCAGGTGGACGCGCTTTTGCTACAGTGGCTTCTGAAAAAATAATTTTGAATAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
32304209 GTTTCTGAGCAAATAGCGT-AAAACACGCTTTAAGCAGAATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAA-ACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
32304270 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGC
32304309 GCATGTTTGG
Statistics
Matches: 372, Mismatches: 44, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
125 4 0.01
126 368 0.99
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:32309748 original size:11 final size:11
Alignment explanation
Indices: 32309734--32309762 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
32309724 TTTAAATAGA
32309734 AATTTGAGAGG
1 AATTTGAGAGG
32309745 AATTTGAGAGG
1 AATTTGAGAGG
32309756 AATTTGA
1 AATTTGA
32309763 AAGAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (11 bp):
AATTTGAGAGG
Found at i:32309782 original size:23 final size:22
Alignment explanation
Indices: 32309731--32309796 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
32309721 TCTTTTAAAT
*
32309731 AGAAATTTGAGAGGAATTTGAG
1 AGAAATTTGAGAAGAATTTGAG
*
32309753 AGGAATTTGA-AAGAATATTAGAG
1 AGAAATTTGAGAAGAAT-TT-GAG
*
32309776 AGAAATTGAGAGAAAGAATTT
1 AGAAATT-TGAG-AAGAATTT
32309797 AGTTGTGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
21 5 0.14
22 11 0.31
23 9 0.26
24 2 0.06
25 2 0.06
26 6 0.17
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.26
Consensus pattern (22 bp):
AGAAATTTGAGAAGAATTTGAG
Found at i:32311049 original size:23 final size:23
Alignment explanation
Indices: 32311018--32311073 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
32311008 AAAAAATTAA
*
32311018 AATTTGAGTTAATT-GAATCAAGT
1 AATTCGAGTTAATTCGAAT-AAGT
* *
32311041 TATTCGAGTTGATTCGAATAAGT
1 AATTCGAGTTAATTCGAATAAGT
32311064 AATTCGAGTT
1 AATTCGAGTT
32311074 TCGAGTTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (23 bp):
AATTCGAGTTAATTCGAATAAGT
Found at i:32311078 original size:7 final size:7
Alignment explanation
Indices: 32311066--32311099 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
32311056 GAATAAGTAA
32311066 TTCGAGT
1 TTCGAGT
32311073 TTCGAGT
1 TTCGAGT
32311080 TTCGAGT
1 TTCGAGT
32311087 TTCGAGT
1 TTCGAGT
32311094 TT-GAGT
1 TTCGAGT
32311100 CGAGTTGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.15
7 23 0.85
ACGTcount: A:0.15, C:0.12, G:0.29, T:0.44
Consensus pattern (7 bp):
TTCGAGT
Found at i:32315204 original size:4 final size:4
Alignment explanation
Indices: 32315195--32315235 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
32315185 TATTAAAATG
* * *
32315195 ATAA ATAA ATAA ATAA ATAA GTAA ATCA ATAA AAAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
32315236 GATACTATGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:32331969 original size:21 final size:19
Alignment explanation
Indices: 32331949--32332007 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 19
32331939 TTTAAATAAT
32331949 TATAATTAGAATGAAATTAA
1 TATAATTAGAAT-AAATTAA
* *
32331969 TATAAAGTATAATCAAATTAA
1 TAT-AATTAGAAT-AAATTAA
*
32331990 TATATATTTGAATAAATT
1 TATA-ATTAGAATAAATT
32332008 TAAAATATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
20 9 0.29
21 22 0.71
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (19 bp):
TATAATTAGAATAAATTAA
Found at i:32337418 original size:44 final size:44
Alignment explanation
Indices: 32337322--32337563 Score: 203
Period size: 43 Copynumber: 5.6 Consensus size: 44
32337312 ATTACATGAT
* * * * *
32337322 TTCGTATAAGACCATAACTGGGCTA-TGACATTGATATATGTGA
1 TTCGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
** * *
32337365 CTTTTTGTAAGACCATATCTGGGATA-TGACATCGATATATGCGA
1 -TTCGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
* * *
32337409 TTACGTGTAAGACCATGTCTAGGACATTGGCATCG-T-TATGTGA
1 TT-CGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
* * *
32337452 TTTCGTGTAAGACCATGTTTGGGACATTGGCATCGATATA--TGA
1 -TTCGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
* * *
32337495 TTCGTGTAAGACCATAGCTGGGCTATTGGCATCG--ATATGTAA
1 TTCGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
* * *
32337537 TAACATGTAAGACCATATTTGGGATAT
1 T-TCGTGTAAGACCATATCTGGGATAT
32337564 AGCATTGTAT
Statistics
Matches: 163, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
40 3 0.02
42 32 0.20
43 61 0.37
44 58 0.36
45 9 0.06
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (44 bp):
TTCGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
Found at i:32337523 original size:42 final size:43
Alignment explanation
Indices: 32337317--32337532 Score: 178
Period size: 44 Copynumber: 5.0 Consensus size: 43
32337307 ATGGCATTAC
* * * *
32337317 ATGATTTCGTATAAGACCATAACTGGGCTA-TGACATTGATAT
1 ATGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATAT
* * * *
32337359 ATGTGACTTT-TTGTAAGACCATATCTGGGATA-TGACATCGATAT
1 A--TGA-TTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATAT
* * *
32337403 ATGCGATTACGTGTAAGACCAT-GTCTAGGAC-ATTGGCATCGTTAT
1 AT--GATTTCGTGTAAGACCATAG-CT-GGGCTATTGGCATCGATAT
* *
32337448 GTGATTTCGTGTAAGACCAT-GTTTGGGAC-ATTGGCATCGATAT
1 ATGATTTCGTGTAAGACCATAG-CTGGG-CTATTGGCATCGATAT
32337491 ATGA-TTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATAT
1 ATGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATAT
32337533 GTAATAACAT
Statistics
Matches: 143, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
41 1 0.01
42 37 0.26
43 40 0.28
44 49 0.34
45 16 0.11
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
ATGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATAT
Found at i:32337528 original size:85 final size:84
Alignment explanation
Indices: 32337317--32337560 Score: 235
Period size: 85 Copynumber: 2.8 Consensus size: 84
32337307 ATGGCATTAC
* * * * *
32337317 ATGATTTCGTATAAGACCATAACTGGGCTA-TGACATTGATATATGTGACTTT-TTGTAAGACCA
1 ATGA-TTCGTGTAAGACCATAGCTGGGCTATTGGCATCG-T-TATGTGA-TTTCATGTAAGACCA
* *
32337380 TATCTGGGATATGACATCGATAT
62 TATTTGGGACATGACATCGATAT
* *
32337403 ATGCGATTACGTGTAAGACCAT-GTCTAGGAC-ATTGGCATCGTTATGTGATTTCGTGTAAGACC
1 AT--GATT-CGTGTAAGACCATAG-CT-GGGCTATTGGCATCGTTATGTGATTTCATGTAAGACC
* *
32337466 ATGTTTGGGACATTGGCATCGATAT
61 ATATTTGGGACA-TGACATCGATAT
* * **
32337491 ATGATTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGTAATAACATGTAAGACCATATT
1 ATGATTCGTGTAAGACCATAGCTGGGCTATTGGCATCGTTATGTGATTTCATGTAAGACCATATT
32337556 TGGGA
66 TGGGA
32337561 TATAGCATTG
Statistics
Matches: 131, Mismatches: 17, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
84 3 0.02
85 51 0.39
86 10 0.08
87 27 0.21
88 31 0.24
89 9 0.07
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (84 bp):
ATGATTCGTGTAAGACCATAGCTGGGCTATTGGCATCGTTATGTGATTTCATGTAAGACCATATT
TGGGACATGACATCGATAT
Found at i:32347601 original size:19 final size:20
Alignment explanation
Indices: 32347550--32347605 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
32347540 CAAGACACTA
32347550 ACCCAAACCTCAGCCC-AAT
1 ACCCAAACCTCAGCCCAAAT
* * *
32347569 AACC-TACCTGAGCCCAAAT
1 ACCCAAACCTCAGCCCAAAT
32347588 ACCCAAACCT-AGCCCAAA
1 ACCCAAACCTCAGCCCAAA
32347606 ACACCCCAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.30
19 17 0.57
20 4 0.13
ACGTcount: A:0.39, C:0.43, G:0.07, T:0.11
Consensus pattern (20 bp):
ACCCAAACCTCAGCCCAAAT
Found at i:32347611 original size:20 final size:20
Alignment explanation
Indices: 32347574--32347616 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
32347564 CCAATAACCT
*
32347574 ACCTGAGCCCAAATACCCAA
1 ACCTGAGCCCAAACACCCAA
*
32347594 ACCT-AGCCCAAAACACCCCA
1 ACCTGAGCCC-AAACACCCAA
32347614 ACC
1 ACC
32347617 CATCTTCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.40, C:0.47, G:0.07, T:0.07
Consensus pattern (20 bp):
ACCTGAGCCCAAACACCCAA
Found at i:32348658 original size:9 final size:9
Alignment explanation
Indices: 32348646--32348670 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
32348636 TAATAAATTA
32348646 TTATTATTG
1 TTATTATTG
32348655 TTATTATTG
1 TTATTATTG
32348664 TTATTAT
1 TTATTAT
32348671 CTTTTTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:32351367 original size:22 final size:23
Alignment explanation
Indices: 32351326--32351368 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
32351316 AATTAGAAAA
32351326 AAATTTTAAAAATAAAAATTATT
1 AAATTTTAAAAATAAAAATTATT
*
32351349 AAATTTTAATAA-AAAAATTA
1 AAATTTTAAAAATAAAAATTA
32351369 AATTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATTTTAAAAATAAAAATTATT
Found at i:32351376 original size:18 final size:20
Alignment explanation
Indices: 32351336--32351382 Score: 71
Period size: 18 Copynumber: 2.5 Consensus size: 20
32351326 AAATTTTAAA
*
32351336 AATAAAAATTATTAAATTTT
1 AATAAAAATAATTAAATTTT
32351356 AATAAAAA-AATTAAA-TTT
1 AATAAAAATAATTAAATTTT
32351374 AATAAAAAT
1 AATAAAAAT
32351383 TAGAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 11 0.44
19 6 0.24
20 8 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATAAAAATAATTAAATTTT
Found at i:32351445 original size:19 final size:19
Alignment explanation
Indices: 32351337--32351446 Score: 64
Period size: 19 Copynumber: 5.8 Consensus size: 19
32351327 AATTTTAAAA
*
32351337 ATAAAAATTATTAAATTTT
1 ATAAAAATTATAAAATTTT
* * *
32351356 AATAAAAA-AATTAAATTTA
1 -ATAAAAATTATAAAATTTT
* **
32351375 ATAAAAATTAGAATTTTTT
1 ATAAAAATTATAAAATTTT
***
32351394 ATAAAAATCGTA-AAAAAAAT
1 ATAAAAAT--TATAAAATTTT
*
32351414 A-AAAAATTGTAAAATTTT
1 ATAAAAATTATAAAATTTT
*
32351432 ATAAAAATCATAAAA
1 ATAAAAATTATAAAA
32351447 AATTAACGAC
Statistics
Matches: 66, Mismatches: 19, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
17 1 0.02
18 13 0.20
19 39 0.59
20 11 0.17
21 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (19 bp):
ATAAAAATTATAAAATTTT
Found at i:32351614 original size:20 final size:19
Alignment explanation
Indices: 32351589--32351653 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
32351579 TATAATAATT
32351589 TTTATAATTTTTTTACGAAA
1 TTTATAATTTTTTTAC-AAA
* **
32351609 TTTAT-ATTTCTTTACATT
1 TTTATAATTTTTTTACAAA
* *
32351627 TTGTATAATTTTCTTACAAC
1 TT-TATAATTTTTTTACAAA
32351647 TTTATAA
1 TTTATAA
32351654 AAACTTATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
18 3 0.08
19 17 0.47
20 16 0.44
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTATAATTTTTTTACAAA
Found at i:32351720 original size:8 final size:8
Alignment explanation
Indices: 32351658--32351739 Score: 56
Period size: 8 Copynumber: 9.2 Consensus size: 8
32351648 TTATAAAAAC
*
32351658 TTATAATT
1 TTATATTT
32351666 TTATAATTTT
1 TTAT-A-TTT
32351676 TTATATTT
1 TTATATTT
32351684 CTATATATTT
1 -T-TATATTT
*
32351694 TATAATTTTT
1 T-T-ATATTT
*
32351704 TTACAATTT
1 TTA-TATTT
32351713 TTATATTT
1 TTATATTT
*
32351721 TTACGATTT
1 TTA-TATTT
32351730 TTATATTT
1 TTATATTT
32351738 TT
1 TT
32351740 TTTAAATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
8 21 0.35
9 20 0.33
10 19 0.32
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (8 bp):
TTATATTT
Found at i:32351723 original size:17 final size:17
Alignment explanation
Indices: 32351658--32351739 Score: 74
Period size: 17 Copynumber: 4.6 Consensus size: 17
32351648 TTATAAAAAC
* *
32351658 TTATAATTTTATAATTTT
1 TTATATTTTTACAA-TTT
* *
32351676 TTATATTTCTATATATTT
1 TTATATTTTTACA-ATTT
*
32351694 TATAATTTTTTTACAATTT
1 T-T-ATATTTTTACAATTT
*
32351713 TTATATTTTTACGATTT
1 TTATATTTTTACAATTT
32351730 TTATATTTTT
1 TTATATTTTT
32351740 TTTAAATTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
17 23 0.43
18 16 0.30
19 7 0.13
20 8 0.15
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (17 bp):
TTATATTTTTACAATTT
Found at i:32351741 original size:28 final size:28
Alignment explanation
Indices: 32351710--32351776 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
32351700 TTTTTTACAA
* *
32351710 TTTTTATATTTTTACGATTTTT-ATATTT
1 TTTTTAAATTTTTA-AATTTTTAATATTT
32351738 TTTTTAAATTTTTAAATTTTTAATATTT
1 TTTTTAAATTTTTAAATTTTTAATATTT
* *
32351766 TATTAAAATTT
1 TTTTTAAATTT
32351777 AATAATATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 6 0.18
28 28 0.82
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (28 bp):
TTTTTAAATTTTTAAATTTTTAATATTT
Found at i:32351749 original size:8 final size:8
Alignment explanation
Indices: 32351701--32351766 Score: 51
Period size: 8 Copynumber: 7.5 Consensus size: 8
32351691 TTTTATAATT
32351701 TTTTTACAA
1 TTTTTA-AA
*
32351710 TTTTTATA
1 TTTTTAAA
*
32351718 TTTTTACGA
1 TTTTTA-AA
*
32351727 TTTTTATATTT
1 TTTTTA-A--A
32351738 TTTTTAAA
1 TTTTTAAA
32351746 TTTTTAAA
1 TTTTTAAA
32351754 TTTTTAATA
1 TTTTTAA-A
32351763 TTTT
1 TTTT
32351767 ATTAAAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
8 22 0.47
9 18 0.38
10 1 0.02
11 6 0.13
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (8 bp):
TTTTTAAA
Found at i:32351757 original size:17 final size:17
Alignment explanation
Indices: 32351662--32351758 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
32351652 AAAAACTTAT
* *
32351662 AATTTTATAATTTTTTA
1 AATTTTTTAAATTTTTA
* * *
32351679 TATTTCTATATATTTTATA
1 AATTT-TTTAAATTTT-TA
*
32351698 ATTTTTTTACAATTTTTA
1 AATTTTTTA-AATTTTTA
* *
32351716 TA-TTTTTACGATTTTTA
1 AATTTTTTA-AATTTTTA
*
32351733 TATTTTTTTTAAATTTTTA
1 -A-ATTTTTTAAATTTTTA
32351752 AATTTTT
1 AATTTTT
32351759 AATATTTTAT
Statistics
Matches: 60, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
17 23 0.38
18 14 0.23
19 17 0.28
20 6 0.10
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (17 bp):
AATTTTTTAAATTTTTA
Found at i:32351771 original size:27 final size:28
Alignment explanation
Indices: 32351664--32351772 Score: 75
Period size: 28 Copynumber: 4.0 Consensus size: 28
32351654 AAACTTATAA
* *
32351664 TTTTATAATTTTTTATATTTCTA-TATAT
1 TTTTACAATTTTTTATATTT-TATTAAAT
* * * *
32351692 TTTATA-ATTTTTTTACAATTT-TTATAT
1 TTT-TACAATTTTTTATATTTTATTAAAT
* *
32351719 TTTTACGA-TTTTTATATTTTTTTTAAAT
1 TTTTACAATTTTTTATA-TTTTATTAAAT
*
32351747 TTTTA-AATTTTTAATATTTTATTAAA
1 TTTTACAATTTTTTATATTTTATTAAA
32351773 ATTTAATAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
26 9 0.14
27 22 0.34
28 31 0.48
29 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (28 bp):
TTTTACAATTTTTTATATTTTATTAAAT
Found at i:32351821 original size:9 final size:9
Alignment explanation
Indices: 32351658--32351823 Score: 76
Period size: 9 Copynumber: 18.3 Consensus size: 9
32351648 TTATAAAAAC
32351658 TTATAA-TT
1 TTATAATTT
32351666 TTATAATTT
1 TTATAATTT
32351675 TT-TATATTT
1 TTATA-ATTT
*
32351684 CTAT-ATATT
1 TTATAAT-TT
32351693 TTATAATTTTT
1 TTATAA--TTT
*
32351704 TTACAATTT
1 TTATAATTT
32351713 TTAT-ATTT
1 TTATAATTT
**
32351721 TTACGATTT
1 TTATAATTT
*
32351730 TTATATTTT
1 TTATAATTT
*
32351739 TTTTAAATTT
1 TTAT-AATTT
32351749 TTA-AATTT
1 TTATAATTT
*
32351757 TTAATATTTT
1 TT-ATAATTT
*
32351767 ATTA-AAATT
1 -TTATAATTT
* *
32351776 TAATAATAT
1 TTATAATTT
**
32351785 TTATAGCTT
1 TTATAATTT
*
32351794 TTATTGA-TT
1 TTA-TAATTT
**
32351803 TTATTTTTT
1 TTATAATTT
32351812 TTATAATTT
1 TTATAATTT
32351821 TTA
1 TTA
32351824 ATAAAAACAG
Statistics
Matches: 116, Mismatches: 27, Indels: 29
0.67 0.16 0.17
Matches are distributed among these distances:
8 27 0.23
9 65 0.56
10 14 0.12
11 9 0.08
12 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTATAATTT
Found at i:32352042 original size:99 final size:99
Alignment explanation
Indices: 32351859--32352042 Score: 234
Period size: 99 Copynumber: 1.9 Consensus size: 99
32351849 TCTTGAAAAA
* * *
32351859 GTTTGAGGGTCTTTTGATGCATTTTGAAAGCTCAAGTACCCAATTGAATGCAAAAAAATAAAACA
1 GTTTGAGGGTCTTTTGATGCATTTTGAAAGCTCAAATACCCAAATGAATGCAAAAAAATAAAAAA
* *
32351924 GTAGGGGCTTAATTGTTTTTTTTTTTTTTGAAAG
66 GTAGGAGCATAATTGTTTTTTTTTTTTTTGAAAG
* *
32351958 GTTTGAGGG-CTTTTTTATGCATTTTGAAAG-TCCAAATACCCAAATGAGTGCAAAAAAA-AAAA
1 GTTTGAGGGTC-TTTTGATGCATTTTGAAAGCT-CAAATACCCAAATGAATGCAAAAAAATAAAA
**
32352020 AAG-A-GAGCATAATTACTTTTTTT
64 AAGTAGGAGCATAATTGTTTTTTTT
32352043 GAAAAAGCTT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
96 15 0.20
97 1 0.01
98 8 0.11
99 50 0.68
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (99 bp):
GTTTGAGGGTCTTTTGATGCATTTTGAAAGCTCAAATACCCAAATGAATGCAAAAAAATAAAAAA
GTAGGAGCATAATTGTTTTTTTTTTTTTTGAAAG
Found at i:32352185 original size:12 final size:12
Alignment explanation
Indices: 32352162--32352193 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
32352152 ATGAAATGAA
32352162 ATTATCATTTACC
1 ATTAT-ATTTACC
32352175 ATTATATTTACC
1 ATTATATTTACC
32352187 ATTATAT
1 ATTATAT
32352194 CACTCAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTATATTTACC
Done.