Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 149 of 425
Found at i:45357583 original size:9 final size:9
Alignment explanation
Indices: 45357569--45357594 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
45357559 AGTAAAGACA
45357569 AACTAAAAT
1 AACTAAAAT
45357578 AACTAAAAT
1 AACTAAAAT
45357587 AACTAAAA
1 AACTAAAA
45357595 ATAAATGAAT
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:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (9 bp):
AACTAAAAT
Found at i:45362906 original size:27 final size:27
Alignment explanation
Indices: 45362876--45362936 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
45362866 GCTCTCAATC
*
45362876 TCTTTTTGTTCTCTTTCGTTCTCTTTT
1 TCTTTTTGTTCTCTTTCATTCTCTTTT
* *
45362903 TCTTTTTGTTTTCTTTCATTCTTTTTT
1 TCTTTTTGTTCTCTTTCATTCTCTTTT
45362930 TCTTTTT
1 TCTTTTT
45362937 ATATTTCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.02, C:0.18, G:0.05, T:0.75
Consensus pattern (27 bp):
TCTTTTTGTTCTCTTTCATTCTCTTTT
Found at i:45364485 original size:37 final size:37
Alignment explanation
Indices: 45364435--45364505 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
45364425 TTTAGCTCGA
*
45364435 ATAATCGCCACACGTAGTCATCCGGTCTTACCCGGGC
1 ATAATCGCCACACGTAGCCATCCGGTCTTACCCGGGC
* * *
45364472 ATAATCTCCACACGTAGCCATCGGGTCTTTCCCG
1 ATAATCGCCACACGTAGCCATCCGGTCTTACCCG
45364506 AAATATATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.21, C:0.35, G:0.20, T:0.24
Consensus pattern (37 bp):
ATAATCGCCACACGTAGCCATCCGGTCTTACCCGGGC
Found at i:45364700 original size:48 final size:48
Alignment explanation
Indices: 45364640--45364745 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
45364630 CGGCCACAAT
* *
45364640 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
45364688 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
45364736 ACATATATAT
1 ATATACATAT
45364746 ATTTATCTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:45367018 original size:37 final size:37
Alignment explanation
Indices: 45366976--45367056 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
45366966 CGGGGTTTTA
* *
45366976 ACCCGGATAAAATCTCCACACGTGGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
*
45367013 ACCCGGACAGAATCTCCACACGTAGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
45367050 ACCCGGA
1 ACCCGGA
45367057 ATATATTTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.21
Consensus pattern (37 bp):
ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
Found at i:45367330 original size:48 final size:48
Alignment explanation
Indices: 45367215--45367340 Score: 180
Period size: 48 Copynumber: 2.6 Consensus size: 48
45367205 TATTGCACAA
* ** *
45367215 TAGCCATTCGGCTTTACCAAATATACATCCCTCATACATATTTCATAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
* *
45367263 TAGCCATTTGGCTTTACCACATATACATATCTCATACATGTCTCATAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
* *
45367311 TAGCCATTCGGCTTTACCACACATATATAT
1 TAGCCATTCGGCTTTACCACATATACATAT
45367341 ATTTACCTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
Found at i:45372663 original size:28 final size:28
Alignment explanation
Indices: 45372632--45372711 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 28
45372622 ACTGACCGAT
45372632 CTCGCACACATAGTGCTCGGTTGA-AGAA
1 CTCGCACACATAGTGCTCGGTT-ACAGAA
* ** * *
45372660 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTG-CTCGGTTACAGAA
45372689 CTCGCACACATAGTGCTCGGTTA
1 CTCGCACACATAGTGCTCGGTTA
45372712 ACGGAATTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (28 bp):
CTCGCACACATAGTGCTCGGTTACAGAA
Found at i:45372951 original size:43 final size:43
Alignment explanation
Indices: 45372890--45373110 Score: 408
Period size: 43 Copynumber: 5.2 Consensus size: 43
45372880 CCTTGCTCGA
** *
45372890 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
45372933 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
45372976 ATCACCGGCACGAAGCCTGCTAGGCAC-AAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
45373018 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
45373061 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
45373104 ATCACCG
1 ATCACCG
45373111 AGTTTCATGC
Statistics
Matches: 174, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
42 42 0.24
43 132 0.76
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.13
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:45373034 original size:85 final size:86
Alignment explanation
Indices: 45372890--45373110 Score: 408
Period size: 85 Copynumber: 2.6 Consensus size: 86
45372880 CCTTGCTCGA
** *
45372890 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCGAATACATATCACCGGCACGAAGCCTGCTA
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACGAAGCCTGCTA
45372955 GGCACGAAGGCCCGAATACAT
66 GGCACGAAGGCCCGAATACAT
45372976 ATCACCGGCACGAAGCCTGCTAGGCAC-AAGGCCCGAATACATATCACCGGCACGAAGCCTGCTA
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACGAAGCCTGCTA
45373040 GGCACGAAGGCCCGAATACAT
66 GGCACGAAGGCCCGAATACAT
45373061 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCG
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCG
45373111 AGTTTCATGC
Statistics
Matches: 131, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
85 84 0.64
86 47 0.36
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.13
Consensus pattern (86 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACGAAGCCTGCTA
GGCACGAAGGCCCGAATACAT
Found at i:45375059 original size:48 final size:48
Alignment explanation
Indices: 45374999--45375104 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
45374989 CGGCCACAAT
* *
45374999 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
45375047 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
45375095 ACATATATAT
1 ATATACATAT
45375105 ATTTATCTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:45378131 original size:25 final size:25
Alignment explanation
Indices: 45378103--45378152 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
45378093 AACTATGAAC
* *
45378103 ATTTTCAATCTCTTTTTTTTTAATA
1 ATTTTCAATCTCCTTTTTTTAAATA
* *
45378128 ATTTTGAATTTCCTTTTTTTAAATA
1 ATTTTCAATCTCCTTTTTTTAAATA
45378153 CTTACTCCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.02, T:0.62
Consensus pattern (25 bp):
ATTTTCAATCTCCTTTTTTTAAATA
Found at i:45379654 original size:39 final size:39
Alignment explanation
Indices: 45379591--45379667 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
45379581 ATGTAGAACA
*
45379591 CATATTAATGATGTGCAAACTATGACATAATTAAAGACT
1 CATATTAATGATGTGCAAAATATGACATAATTAAAGACT
*
45379630 CATATTAATGATGTTCAAAATATGACATAATTAAAGAC
1 CATATTAATGATGTGCAAAATATGACATAATTAAAGAC
45379668 ACAAAGTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (39 bp):
CATATTAATGATGTGCAAAATATGACATAATTAAAGACT
Found at i:45382445 original size:40 final size:40
Alignment explanation
Indices: 45382283--45382464 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
45382273 TATTCGGATG
* *
45382283 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
45382323 A-ATTCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
**
45382363 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
45382403 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
45382443 ATAGCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
45382465 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
39 18 0.14
40 109 0.85
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:45393293 original size:29 final size:28
Alignment explanation
Indices: 45393236--45393321 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
45393226 TACCTGTATT
* *
45393236 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
45393264 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
45393293 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
45393321 T
1 T
45393322 TCATGCTCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 26 0.51
29 25 0.49
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:45393573 original size:24 final size:23
Alignment explanation
Indices: 45393530--45393575 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
45393520 CCGTAGCCAA
45393530 ACTTTTGGCTTTTCGGCATTTCT
1 ACTTTTGGCTTTTCGGCATTTCT
45393553 ACTTTTCGGCATTTT-GGCATTTC
1 ACTTTT-GGC-TTTTCGGCATTTC
45393576 GGCATTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 11 0.52
25 4 0.19
ACGTcount: A:0.11, C:0.22, G:0.17, T:0.50
Consensus pattern (23 bp):
ACTTTTGGCTTTTCGGCATTTCT
Found at i:45393575 original size:16 final size:16
Alignment explanation
Indices: 45393532--45393582 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
45393522 GTAGCCAAAC
45393532 TTTTGGCTTTTCGGCA
1 TTTTGGCTTTTCGGCA
*
45393548 TTTCT-ACTTTTCGGCA
1 TTT-TGGCTTTTCGGCA
*
45393564 TTTTGGCATTTCGGCA
1 TTTTGGCTTTTCGGCA
45393580 TTT
1 TTT
45393583 CATCTTTTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.10, C:0.20, G:0.20, T:0.51
Consensus pattern (16 bp):
TTTTGGCTTTTCGGCA
Found at i:45393583 original size:8 final size:8
Alignment explanation
Indices: 45393540--45393583 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
45393530 ACTTTTGGCT
45393540 TTTCGGCA
1 TTTCGGCA
** *
45393548 TTTCTACT
1 TTTCGGCA
45393556 TTTCGGCA
1 TTTCGGCA
*
45393564 TTTTGGCA
1 TTTCGGCA
45393572 TTTCGGCA
1 TTTCGGCA
45393580 TTTC
1 TTTC
45393584 ATCTTTTGCC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (8 bp):
TTTCGGCA
Found at i:45394656 original size:16 final size:16
Alignment explanation
Indices: 45394632--45394663 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45394622 AAGTTCGGGA
45394632 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
*
45394648 TTTCGGGATTTTTGGG
1 TTTCAGGATTTTTGGG
45394664 GCGTTACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:45396697 original size:40 final size:40
Alignment explanation
Indices: 45396652--45396818 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
45396642 CGGAATACAA
45396652 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
45396692 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
45396732 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * * * *
45396772 CCGGATATAATTTCCAGCA-TAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
45396811 CCGGATAT
1 CCGGATAT
45396819 CATTCAATTG
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 25 0.24
40 80 0.76
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:45404742 original size:40 final size:40
Alignment explanation
Indices: 45404697--45404863 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
45404687 CGGAATACAA
45404697 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
45404737 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
45404777 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * * * *
45404817 CCGGATATAATTTCCAGCA-TAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
45404856 CCGGATAT
1 CCGGATAT
45404864 CATTCAATTG
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 25 0.24
40 80 0.76
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:45409858 original size:29 final size:29
Alignment explanation
Indices: 45409694--45409857 Score: 265
Period size: 29 Copynumber: 5.7 Consensus size: 29
45409684 GCTTGGAAGG
*
45409694 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
45409723 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
45409752 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
45409781 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
45409810 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
45409839 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
45409858 GATCGTTTAT
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 126 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:45417883 original size:29 final size:29
Alignment explanation
Indices: 45417719--45417882 Score: 265
Period size: 29 Copynumber: 5.7 Consensus size: 29
45417709 GCTTGGAAGG
*
45417719 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
45417748 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
45417777 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
45417806 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
45417835 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
45417864 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
45417883 GATCGTTTAT
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 126 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:45425115 original size:30 final size:30
Alignment explanation
Indices: 45425058--45425116 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
45425048 TTTTTAGGCC
**
45425058 TAAGGGTAAAATCATAATTTTTGCAAAGTT
1 TAAGGGTAAAATCATAATTTTACCAAAGTT
*
45425088 TAAGGGTAAAA-CGATCATTTTACCAAAGT
1 TAAGGGTAAAATC-ATAATTTTACCAAAGT
45425117 ATGAGTCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (30 bp):
TAAGGGTAAAATCATAATTTTACCAAAGTT
Found at i:45429255 original size:24 final size:24
Alignment explanation
Indices: 45429226--45429287 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
45429216 CAACCGTATT
* * *
45429226 TGCACACATAGTGCTA-ATTACAC
1 TGCACACATAGTGCCATAGTAAAC
45429249 TCGCACACATAGTGCCATAGTAAAC
1 T-GCACACATAGTGCCATAGTAAAC
45429274 TGCACACATAGTGC
1 TGCACACATAGTGC
45429288 ATTGGATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.03
24 27 0.79
25 6 0.18
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (24 bp):
TGCACACATAGTGCCATAGTAAAC
Found at i:45432055 original size:30 final size:30
Alignment explanation
Indices: 45432021--45432081 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
45432011 TCCTTAACTC
45432021 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
45432051 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
45432081 A
1 A
45432082 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:45438769 original size:29 final size:29
Alignment explanation
Indices: 45438736--45438924 Score: 238
Period size: 29 Copynumber: 6.5 Consensus size: 29
45438726 GTGACGAGAT
45438736 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
45438765 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
45438794 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
45438823 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
45438852 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
45438881 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
45438910 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
45438925 GAAATCGAGT
Statistics
Matches: 140, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
28 2 0.01
29 137 0.98
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:45446883 original size:29 final size:29
Alignment explanation
Indices: 45446850--45447036 Score: 220
Period size: 29 Copynumber: 6.5 Consensus size: 29
45446840 GTGACGAGAT
45446850 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
45446879 TGGCACTAA--GTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
45446906 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
45446935 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
45446964 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
45446993 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
45447022 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
45447037 GAAATCGAGT
Statistics
Matches: 136, Mismatches: 17, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
27 27 0.20
28 2 0.01
29 106 0.78
30 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:45446936 original size:56 final size:57
Alignment explanation
Indices: 45446850--45446970 Score: 217
Period size: 56 Copynumber: 2.1 Consensus size: 57
45446840 GTGACGAGAT
45446850 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAA-GTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGGTGCATGCTGGAAATATA
45446906 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAG-GTGCATGCTGGAAATATA
*
45446964 CGGCACT
1 TGGCACT
45446971 GGGTGTGCGA
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
56 38 0.61
58 24 0.39
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (57 bp):
TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGGTGCATGCTGGAAATATA
Found at i:45452264 original size:21 final size:19
Alignment explanation
Indices: 45452240--45452280 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
45452230 AACAAAAATT
45452240 TATAAAAGAATAATAATTATA
1 TATAAAAGAA-AATAA-TATA
*
45452261 TATAAAATAAAATAATATA
1 TATAAAAGAAAATAATATA
45452280 T
1 T
45452281 TGGTTTAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 5 0.26
21 9 0.47
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
TATAAAAGAAAATAATATA
Found at i:45452534 original size:3 final size:3
Alignment explanation
Indices: 45452526--45452828 Score: 54
Period size: 3 Copynumber: 100.7 Consensus size: 3
45452516 GTTAAAACCT
* * *
45452526 ATA ATA ATA ATA ACA TATA GATA A-A A-A ATA TATA ATA GT- ATA AAA
1 ATA ATA ATA ATA ATA -ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* *
45452571 ATA AT- ATA AT- ATA A-A ATA ATT ATA AT- ATA AT- ATGA A-A GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * * *
45452611 TATA TGTA AAA ATA ATA TATA ATA TATA AAA ATA ATTA ATAA ATA TATT
1 -ATA -ATA ATA ATA ATA -ATA ATA -ATA ATA ATA A-TA AT-A ATA -ATA
* * *
45452660 ATA CA-A GTA AAA AT- ATA ATA ATA ATA TATAA ATA ATA AT- GTA A-A
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA
* * *
45452704 ATA ATA ATA TTTC GTGA A-A AGTA ATA TATA ATAA ATA ATA ATA AT-
1 ATA ATA ATA -ATA AT-A ATA A-TA ATA -ATA AT-A ATA ATA ATA ATA
* * * *
45452749 ATA GATA ATA TATA ATG A-A ATA ATG AT- ATA ATGT ATA AT- ATA AAA
1 ATA -ATA ATA -ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
** * *
45452794 ATA AGG TTA AAA ATA A-A ATA A-A A-A ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
45452829 TTATATATAT
Statistics
Matches: 216, Mismatches: 45, Indels: 78
0.64 0.13 0.23
Matches are distributed among these distances:
2 36 0.17
3 129 0.60
4 50 0.23
5 1 0.00
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:45452573 original size:11 final size:11
Alignment explanation
Indices: 45452559--45452696 Score: 50
Period size: 11 Copynumber: 11.6 Consensus size: 11
45452549 AAAAATATAT
*
45452559 AATAGTATAAA
1 AATAATATAAA
45452570 AATAATATAATA
1 AATAATATAA-A
45452582 TAA-AATAATTATAA
1 -AATAAT-A-TA-AA
*
45452596 TATAATATGAAA
1 AATAATAT-AAA
* *
45452608 GTATATATGTAAA
1 -AATA-ATATAAA
*
45452621 AATAATAT-AT
1 AATAATATAAA
45452631 AAT-ATATAAA
1 AATAATATAAA
45452641 AATAAT-TAATA
1 AATAATATAA-A
45452652 AATATATTATACAA
1 AATA-A-TATA-AA
* *
45452666 GTAAAAATATAAT
1 --AATAATATAAA
*
45452679 AATAATATATA
1 AATAATATAAA
45452690 AATAATA
1 AATAATA
45452697 ATGTAAAATA
Statistics
Matches: 97, Mismatches: 12, Indels: 36
0.67 0.08 0.25
Matches are distributed among these distances:
9 4 0.04
10 11 0.11
11 34 0.35
12 11 0.11
13 15 0.15
14 16 0.16
15 3 0.03
16 3 0.03
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.34
Consensus pattern (11 bp):
AATAATATAAA
Found at i:45452576 original size:14 final size:15
Alignment explanation
Indices: 45452540--45452600 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 15
45452530 TAATAATAAC
*
45452540 ATATAGATAAAAAATA
1 ATATA-ATATAAAATA
*
45452556 TATAATAGTATAAAAATA
1 -AT-ATAATAT-AAAATA
45452574 ATATAATATAAAATA
1 ATATAATATAAAATA
45452589 ATTATAATATAA
1 A-TATAATATAA
45452601 TATGAAAGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
15 7 0.18
16 16 0.42
17 6 0.16
18 9 0.24
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATAATATAAAATA
Found at i:45452583 original size:39 final size:36
Alignment explanation
Indices: 45452525--45452651 Score: 104
Period size: 36 Copynumber: 3.5 Consensus size: 36
45452515 AGTTAAAACC
*
45452525 TATAATAATAATA-ACATATAGATAAAAAATATATAATA
1 TATAAAAATAATATA-ATATA-A-AAAAAATATATAATA
*
45452563 GTATAAAAATAATATAATAT-AAAATAAT-TATAATA
1 -TATAAAAATAATATAATATAAAAAAAATATATAATA
* * *
45452598 TAATATGAAAGT-ATAT-ATGTAAAAATAATATATAATA
1 T-ATA--AAAATAATATAATATAAAAAAAATATATAATA
45452635 TATAAAAATAAT-TAATA
1 TATAAAAATAATATAATA
45452652 AATATATTAT
Statistics
Matches: 74, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
34 6 0.08
35 17 0.23
36 21 0.28
37 13 0.18
39 16 0.22
40 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (36 bp):
TATAAAAATAATATAATATAAAAAAAATATATAATA
Found at i:45452634 original size:7 final size:7
Alignment explanation
Indices: 45452622--45452790 Score: 70
Period size: 7 Copynumber: 24.1 Consensus size: 7
45452612 ATATGTAAAA
45452622 ATAATAT
1 ATAATAT
45452629 ATAATAT
1 ATAATAT
*
45452636 ATAA-AA
1 ATAATAT
45452642 ATAAT-T
1 ATAATAT
45452648 AATAA-AT
1 -ATAATAT
*
45452655 ATATTAT
1 ATAATAT
*
45452662 ACAAGTA-
1 ATAA-TAT
45452669 A-AA-AT
1 ATAATAT
45452674 ATAATA-
1 ATAATAT
45452680 ATAATAT
1 ATAATAT
45452687 ATAA-AT
1 ATAATAT
*
45452693 AATAATGT
1 -ATAATAT
*
45452701 AAAATA-
1 ATAATAT
45452707 ATAATAT
1 ATAATAT
* ** *
45452714 TTCGTGAAA
1 ATAAT--AT
45452723 AGTAATAT
1 A-TAATAT
*
45452731 ATAATAA
1 ATAATAT
45452738 ATAATA-
1 ATAATAT
45452744 ATAATAT
1 ATAATAT
45452751 AGATAATAT
1 --ATAATAT
*
45452760 ATAATGAA
1 ATAAT-AT
45452768 ATAATGAT
1 ATAAT-AT
*
45452776 ATAATGT
1 ATAATAT
45452783 ATAATAT
1 ATAATAT
45452790 A
1 A
45452791 AAAATAAGGT
Statistics
Matches: 121, Mismatches: 22, Indels: 38
0.67 0.12 0.21
Matches are distributed among these distances:
4 1 0.01
5 1 0.01
6 31 0.26
7 60 0.50
8 18 0.15
9 8 0.07
10 2 0.02
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (7 bp):
ATAATAT
Found at i:45452668 original size:58 final size:58
Alignment explanation
Indices: 45452571--45452708 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 58
45452561 TAGTATAAAA
* * *
45452571 ATAATATAATATAAAATAATTATAATATAATATGAAAGTATATATGTAAAAATAATAT
1 ATAATATAATATAAAATAATTATAATATAATATGAAAGTAAAAATATAAAAATAATAT
* *
45452629 ATAATAT-ATA-AAAATAATTAATAAATATATTAT-ACAAGTAAAAATATAATAATAATAT
1 ATAATATAATATAAAATAATT-AT-AATATAATATGA-AAGTAAAAATATAAAAATAATAT
*
45452687 ATAAATAATAATGTAAAATAAT
1 AT-AAT-ATAATATAAAATAAT
45452709 AATATTTCGT
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
56 9 0.13
57 6 0.09
58 37 0.55
59 3 0.04
60 2 0.03
61 2 0.03
62 8 0.12
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.35
Consensus pattern (58 bp):
ATAATATAATATAAAATAATTATAATATAATATGAAAGTAAAAATATAAAAATAATAT
Found at i:45452709 original size:58 final size:58
Alignment explanation
Indices: 45452549--45452710 Score: 145
Period size: 58 Copynumber: 2.7 Consensus size: 58
45452539 CATATAGATA
* *
45452549 AAAAATAT-ATAATAGTATAAAAATAATATAATATAAAATAATTATAATATAATATGAAAGT
1 AAAAATATAATAATAATATATAAAT-ATATAAT-TAAAATAA-TA-AATATAATATGAAAGT
* * * * * *
45452610 ATATATGTAAAAATAATATAT-AATATATAA-AAATAATTAATAAATATATTAT-ACAAGT
1 AAAAATATAATAATAATATATAAATATATAATTAA-AA-TAATAAATATAATATGA-AAGT
45452668 AAAAATATAATAATAATATATAAATA-ATAATGTAAAATAATAA
1 AAAAATATAATAATAATATATAAATATATAAT-TAAAATAATAA
45452711 TATTTCGTGA
Statistics
Matches: 81, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
57 1 0.01
58 42 0.52
59 10 0.12
60 11 0.14
61 8 0.10
62 9 0.11
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (58 bp):
AAAAATATAATAATAATATATAAATATATAATTAAAATAATAAATATAATATGAAAGT
Found at i:45452713 original size:38 final size:38
Alignment explanation
Indices: 45452629--45452713 Score: 86
Period size: 38 Copynumber: 2.3 Consensus size: 38
45452619 AAAATAATAT
*
45452629 ATAAT-ATATAAAAATAATTAATAAATATATTATACAA
1 ATAATAATATAAAAATAATTAATAAATATAATATACAA
* * * *
45452666 GTAAAAATATAATAATAA-TATATAAATAATAATGTA-AA
1 ATAATAATATAAAAATAATTA-ATAAAT-ATAATATACAA
45452704 ATAATAATAT
1 ATAATAATAT
45452714 TTCGTGAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
37 5 0.13
38 27 0.71
39 6 0.16
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (38 bp):
ATAATAATATAAAAATAATTAATAAATATAATATACAA
Found at i:45452790 original size:30 final size:28
Alignment explanation
Indices: 45452552--45452780 Score: 59
Period size: 26 Copynumber: 8.4 Consensus size: 28
45452542 ATAGATAAAA
* *
45452552 AATATATAATAGTATAAAAATAATATAAT
1 AATATATAATA-AATAATAATAATATAAT
45452581 -ATA-A-AATAATTATAAT-ATAATATGAA-
1 AATATATAATAA--ATAATAATAATAT-AAT
* * *
45452607 AGTATAT-AT--GTAAAAATAATAT-AT
1 AATATATAATAAATAATAATAATATAAT
45452631 AATATATAA-AAATAATTAATAA-AT-AT
1 AATATATAATAAATAA-TAATAATATAAT
* *
45452657 ATTATACAAGTAAA-AAT-AT-A-ATAAT
1 AATATATAA-TAAATAATAATAATATAAT
* *
45452682 AATATATAA-ATAATAAT-GTAAAATAAT
1 AATATATAATA-AATAATAATAATATAAT
* **
45452709 AATATTTCGTGAAAAGTAATATATAATA-AAT
1 AATATATAAT--AAA-TAATA-ATAATATAAT
45452740 AATA-ATAATATAGATAATATATAATGA-AAT
1 AATATATAATA-A-ATAATA-ATAAT-ATAAT
45452770 AATGATATAAT
1 AAT-ATATAAT
45452781 GTATAATATA
Statistics
Matches: 149, Mismatches: 21, Indels: 57
0.66 0.09 0.25
Matches are distributed among these distances:
23 2 0.01
24 14 0.09
25 23 0.15
26 27 0.18
27 27 0.18
28 10 0.07
29 14 0.09
30 15 0.10
31 8 0.05
32 9 0.06
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (28 bp):
AATATATAATAAATAATAATAATATAAT
Found at i:45453666 original size:15 final size:15
Alignment explanation
Indices: 45453646--45453675 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
45453636 AAGAAATCTT
45453646 TCGATTTCTTTCCAA
1 TCGATTTCTTTCCAA
45453661 TCGATTTCTTTCCAA
1 TCGATTTCTTTCCAA
45453676 ACTCTGTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.47
Consensus pattern (15 bp):
TCGATTTCTTTCCAA
Found at i:45457229 original size:51 final size:50
Alignment explanation
Indices: 45457164--45457391 Score: 144
Period size: 51 Copynumber: 4.4 Consensus size: 50
45457154 TTTTTTTGAG
45457164 GGTGGAG-GAGGAGAGATGGGTAGCACCAGTATAAAAAATTAGAATTTTTTT
1 GGTGGAGAGA-GAGAGATGGGTAGCACCAGTATAAAAAATTA-AATTTTTTT
* * * *
45457215 GGTGGAGAGAGAGAGATGGATGGCACTAGTATAAAAAAAAATT-ATTTTTTTT
1 GGTGGAGAGAGAGAGATGGGTAGCACCAGTAT---AAAAAATTAAATTTTTTT
* * * *
45457267 GGTGAAGGGAGAGAGATAGGCGT--CTCCAGTATAAAAAAAATT-ACTTTTTTT
1 GGTGGAGAGAGAGAGAT-GG-GTAGCACCAGTAT--AAAAAATTAAATTTTTTT
* * * ** * * *
45457318 GGGTGGAGGGAGAGAGTTAGGCGGCATCAGTATAAAAAAGTAATATTATTTT
1 -GGTGGAGAGAGAGAGATGGGTAGCACCAGTATAAAAAATTAA-ATTTTTTT
**
45457370 ATTGGA-AGGAGAGAGATGGGTA
1 GGTGGAGA-GAGAGAGATGGGTA
45457392 ATATCAGTAT
Statistics
Matches: 139, Mismatches: 26, Indels: 24
0.74 0.14 0.13
Matches are distributed among these distances:
50 8 0.06
51 60 0.43
52 60 0.43
53 2 0.01
54 9 0.06
ACGTcount: A:0.36, C:0.06, G:0.31, T:0.28
Consensus pattern (50 bp):
GGTGGAGAGAGAGAGATGGGTAGCACCAGTATAAAAAATTAAATTTTTTT
Found at i:45457339 original size:52 final size:51
Alignment explanation
Indices: 45457207--45457356 Score: 164
Period size: 52 Copynumber: 2.9 Consensus size: 51
45457197 AAAAATTAGA
* * *
45457207 ATTTTTTT-GGTGGAGAGAGAGAGAT-GGATGGCA-CTAGTATAAAAAAAAATT
1 ATTTTTTTGGGTGAAGGGAGAGAGATAGG-CGGCATC-AGTAT-AAAAAAAATT
* *
45457258 ATTTTTTTTGGTGAAGGGAGAGAGATAGGCGTC-TCCAGTATAAAAAAAATT
1 ATTTTTTTGGGTGAAGGGAGAGAGATAGGCGGCAT-CAGTATAAAAAAAATT
* *
45457309 ACTTTTTTTGGGTGGAGGGAGAGAGTTAGGCGGCATCAGTATAAAAAA
1 A-TTTTTTTGGGTGAAGGGAGAGAGATAGGCGGCATCAGTATAAAAAA
45457357 GTAATATTAT
Statistics
Matches: 85, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
51 19 0.22
52 62 0.73
53 4 0.05
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.29
Consensus pattern (51 bp):
ATTTTTTTGGGTGAAGGGAGAGAGATAGGCGGCATCAGTATAAAAAAAATT
Found at i:45459604 original size:44 final size:44
Alignment explanation
Indices: 45459536--45459623 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
45459526 ACTCGGTCTA
* *
45459536 CACTTAACCTTTTCACCTACAATGAATTTTCTTTATCTAATTAG
1 CACTTAACCTTTTCACCTAAAATGAATTTTCTTCATCTAATTAG
45459580 CACTTAACCTTTTCACCTAAAATGAATTTTCTTCATCTAATTAG
1 CACTTAACCTTTTCACCTAAAATGAATTTTCTTCATCTAATTAG
45459624 TCATCTATGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.42
Consensus pattern (44 bp):
CACTTAACCTTTTCACCTAAAATGAATTTTCTTCATCTAATTAG
Found at i:45465636 original size:9 final size:9
Alignment explanation
Indices: 45465622--45465656 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
45465612 TAAAGACACA
45465622 AACTAAAAT
1 AACTAAAAT
45465631 AACTAAAAT
1 AACTAAAAT
45465640 AACTAAAAT
1 AACTAAAAT
45465649 AACTAAAA
1 AACTAAAA
45465657 ATAAATGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (9 bp):
AACTAAAAT
Found at i:45467295 original size:27 final size:27
Alignment explanation
Indices: 45467265--45467325 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
45467255 GCTCTCAATC
*
45467265 TCTTTTTGTTCTCTTTCGTTCTCTTTT
1 TCTTTTTGTTCTCTTTCATTCTCTTTT
* * *
45467292 TCTTTTTTTTTTCTTTCATTCTTTTTT
1 TCTTTTTGTTCTCTTTCATTCTCTTTT
45467319 TCTTTTT
1 TCTTTTT
45467326 ATATTTCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.02, C:0.18, G:0.03, T:0.77
Consensus pattern (27 bp):
TCTTTTTGTTCTCTTTCATTCTCTTTT
Found at i:45467297 original size:6 final size:6
Alignment explanation
Indices: 45467286--45467344 Score: 57
Period size: 6 Copynumber: 9.3 Consensus size: 6
45467276 TCTTTCGTTC
* *
45467286 TCTTTT TCTTTT T-TTTT TCTTTCAT TCTTTTTT TCTTTT TATATT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTT--T TC--TTTT TCTTTT TCTTTT TCTTTT
45467337 TCTTTT TC
1 TCTTTT TC
45467345 ACATACTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
5 5 0.11
6 30 0.68
8 6 0.14
10 3 0.07
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (6 bp):
TCTTTT
Found at i:45467333 original size:20 final size:20
Alignment explanation
Indices: 45467290--45467344 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
45467280 TCGTTCTCTT
45467290 TTTCTTTTTTTTTTCTTTCA
1 TTTCTTTTTTTTTTCTTTCA
45467310 -TTCTTTTTTTCTTT-TTAT-A
1 TTTCTTTTTTT-TTTCTT-TCA
45467329 TTTCTTTTTCTTTTTC
1 TTTCTTTTT-TTTTTC
45467345 ACATACTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
19 13 0.43
20 15 0.50
21 2 0.07
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTCTTTTTTTTTTCTTTCA
Found at i:45469974 original size:39 final size:39
Alignment explanation
Indices: 45469916--45469992 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
45469906 ATGTAGAACA
45469916 CATATTAATGATGTGCAAACTATGACATAATTAAAGACT
1 CATATTAATGATGTGCAAACTATGACATAATTAAAGACT
*
45469955 CATATTAATGATGTTCAAACTATGACATAATTAAAGAC
1 CATATTAATGATGTGCAAACTATGACATAATTAAAGAC
45469993 ACAAACTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (39 bp):
CATATTAATGATGTGCAAACTATGACATAATTAAAGACT
Found at i:45473402 original size:385 final size:384
Alignment explanation
Indices: 45472693--45473463 Score: 1452
Period size: 385 Copynumber: 2.0 Consensus size: 384
45472683 AAATTGCTTT
45472693 GAGGGAAATGAAAATTAGTAAAAAGGAGAGGGGTTTATATAGGGAAAAATTAGGGCAACACGTAG
1 GAGGGAAATGAAAATTAGTAAAAAGGAGAGGGGTTTATATAGGGAAAAATTAGGGCAACACGTAG
45472758 CGAAAATTTAGCTACATTAGGGTTACTTGGGCGGCAAGTAAAGGGGTGGCAGCAAGTGTGGATTT
66 CGAAAATTTAGCTACATTAGGGTTACTTGGGCGGCAAGTAAAGGGGTGGCAGCAAGTGTGGATTT
*
45472823 TTTTCCTTTTTGCTATCTTGGGCCTGAAACTCAGACTGTATCTACAAACTTAGTCAAGAAAAAAA
131 TTTTCCTTTTTACTATCTTGGGCCTGAAACTCAGACTGTATCTACAAACTTAGTCAAGAAAAAAA
45472888 ACTGATTAATACTTGGGCCAAATTTGACCCCCTTTATTAACATAAAAATTTAAAATTTAAACAAA
196 ACTGATTAATACTTGGGCCAAATTTGACCCCCTTTATTAACATAAAAATTTAAAATTTAAACAAA
45472953 ACAAACGAAACTTAAAAATTTTAAGTCTTAATTAGAAACTTTCTTCTTAACAAATTACATTAAAT
261 ACAAACGAAACTTAAAAATTTTAAGTCTTAATTAGAAACTTTCTTCTTAACAAATTACATTAAAT
* *
45473018 TAATTCCCAAGAAAGGTTGGAAGGGTCACAGCGGTCCCACTTAAGTTCCAATCCCCTTA
326 TAATTCCCAAGAAAGGTTAGAAGGGTCACAACGGTCCCACTTAAGTTCCAATCCCCTTA
* *
45473077 GAGGGAAATGAAAATTAGTAGAATGGAGAGGGGTTTATATAGGGAAAAATTAGGGCAACACGTAG
1 GAGGGAAATGAAAATTAGTAAAAAGGAGAGGGGTTTATATAGGGAAAAATTAGGGCAACACGTAG
* * *
45473142 TGAAAATTTAGCTACATTAGGGTTACTTGGGTGGCAAGTAAAGGGAGTGGCAGTAAGTGTGGATT
66 CGAAAATTTAGCTACATTAGGGTTACTTGGGCGGCAAGTAAAGGG-GTGGCAGCAAGTGTGGATT
45473207 TTTTTCCTTTTTACTATCTTGGGCCTGAAACTCAGACTGTATCTACAAACTTAGTCAAGAAAAAA
130 TTTTTCCTTTTTACTATCTTGGGCCTGAAACTCAGACTGTATCTACAAACTTAGTCAAGAAAAAA
45473272 AACTGATTAATACTTGGGCCAAATTTGACCCCCTTTATTAACATAAAAATTTAAAATTTAAACAA
195 AACTGATTAATACTTGGGCCAAATTTGACCCCCTTTATTAACATAAAAATTTAAAATTTAAACAA
45473337 AACAAACGAAACTTAAAAATTTTAAGTCTTAATTAGAAACTTTCTTCTTAACAAATTACATTAAA
260 AACAAACGAAACTTAAAAATTTTAAGTCTTAATTAGAAACTTTCTTCTTAACAAATTACATTAAA
*
45473402 TTAATTCCCAGGAAAGGTTAGAAGGGTCACAACGGTCCCACTTAAGTTCCAATCCCCTTA
325 TTAATTCCCAAGAAAGGTTAGAAGGGTCACAACGGTCCCACTTAAGTTCCAATCCCCTTA
45473462 GA
1 GA
45473464 CAAAATTAAT
Statistics
Matches: 377, Mismatches: 9, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
384 106 0.28
385 271 0.72
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (384 bp):
GAGGGAAATGAAAATTAGTAAAAAGGAGAGGGGTTTATATAGGGAAAAATTAGGGCAACACGTAG
CGAAAATTTAGCTACATTAGGGTTACTTGGGCGGCAAGTAAAGGGGTGGCAGCAAGTGTGGATTT
TTTTCCTTTTTACTATCTTGGGCCTGAAACTCAGACTGTATCTACAAACTTAGTCAAGAAAAAAA
ACTGATTAATACTTGGGCCAAATTTGACCCCCTTTATTAACATAAAAATTTAAAATTTAAACAAA
ACAAACGAAACTTAAAAATTTTAAGTCTTAATTAGAAACTTTCTTCTTAACAAATTACATTAAAT
TAATTCCCAAGAAAGGTTAGAAGGGTCACAACGGTCCCACTTAAGTTCCAATCCCCTTA
Found at i:45476134 original size:20 final size:20
Alignment explanation
Indices: 45476109--45476149 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
45476099 TTCCTGCATC
45476109 TAACCATTTGATCACTTTCT
1 TAACCATTTGATCACTTTCT
45476129 TAACCATTTGATCACTTTCT
1 TAACCATTTGATCACTTTCT
45476149 T
1 T
45476150 TCTCACAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.46
Consensus pattern (20 bp):
TAACCATTTGATCACTTTCT
Found at i:45480566 original size:28 final size:29
Alignment explanation
Indices: 45480524--45480638 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
45480514 TACCTGTATT
* *
45480524 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
45480552 TGGCACATTAGGCCCAAATTACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
45480581 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
45480610 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
45480638 T
1 T
45480639 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
28 26 0.36
29 46 0.63
30 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:45480585 original size:57 final size:58
Alignment explanation
Indices: 45480514--45480625 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
45480504 CAATTTCACA
* *
45480514 TACCTGTATTTGGCCCATTAAGCCC-AATCATATTCATATGGCACATTAGGCCCAAAT
1 TACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCACATTAGGCCCAAAT
* * * *
45480571 TACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 TACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCACATTAGGCCCA
45480626 GTCACATTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 23 0.48
58 25 0.52
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (58 bp):
TACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCACATTAGGCCCAAAT
Found at i:45480719 original size:17 final size:18
Alignment explanation
Indices: 45480697--45480730 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45480687 TGCCTATTAT
45480697 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
45480714 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
45480731 TTCGGCCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:45489861 original size:30 final size:30
Alignment explanation
Indices: 45489804--45489862 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
45489794 TTTTTAGGCC
**
45489804 TAAGGGTAAAATCATAATTTTTGCAAAGTT
1 TAAGGGTAAAATCATAATTTTACCAAAGTT
*
45489834 TAAGGGTAAAA-CGATCATTTTACCAAAGT
1 TAAGGGTAAAATC-ATAATTTTACCAAAGT
45489863 ATGAGTCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (30 bp):
TAAGGGTAAAATCATAATTTTACCAAAGTT
Found at i:45493282 original size:40 final size:40
Alignment explanation
Indices: 45493197--45493347 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
45493187 AATTGAATGA
* ** * *
45493197 TATCCGGGCTAAGCCCCGAAGATAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
45493237 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
45493278 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
45493317 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
45493348 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:45493361 original size:40 final size:40
Alignment explanation
Indices: 45493234--45493363 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
45493224 ATGCTGGAAA
* * * *
45493234 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
45493274 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
45493314 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
45493354 TTATATCCGG
1 TTATATCCGG
45493364 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:45495326 original size:40 final size:40
Alignment explanation
Indices: 45495281--45495359 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
45495271 TACATTTAAA
45495281 ACTAGATCATATCTTTATAAAATACCACAATTCAGATACT
1 ACTAGATCATATCTTTATAAAATACCACAATTCAGATACT
45495321 ACTAGATCATATCTTTATAAAATACCACAATTCAGATAC
1 ACTAGATCATATCTTTATAAAATACCACAATTCAGATAC
45495360 GCAAAATAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (40 bp):
ACTAGATCATATCTTTATAAAATACCACAATTCAGATACT
Found at i:45497467 original size:30 final size:30
Alignment explanation
Indices: 45497433--45497493 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
45497423 TCCTTAACTC
*
45497433 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTCGAAAAATTACAATTTTGCCCCT
* * * *
45497463 AAACTTTCGCATATTTACACTTTTGCCCCT
1 AAACTTTCGAAAAATTACAATTTTGCCCCT
45497493 A
1 A
45497494 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTCGAAAAATTACAATTTTGCCCCT
Found at i:45499286 original size:3 final size:3
Alignment explanation
Indices: 45499278--45499450 Score: 65
Period size: 3 Copynumber: 58.0 Consensus size: 3
45499268 TTTAATTACT
** * *
45499278 TTA TTA TTA AAA TTAA TTA TT- TTA GTA TTA TTA TTA TTA TTA GTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
45499323 CTA TTCA TATA CATA TATA TTA TCA TTA TTG TTA CTA TTA CTA TTA TTA
1 TTA TT-A T-TA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
45499372 ATC TTC GTA TTA TTA CTA TTA TT- TCT- TTA TT- TTA -TA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * *
45499413 TTA -TA TTA -TA TTA TTA GTTT TTA CTA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
45499451 GTTTTAGCTT
Statistics
Matches: 123, Mismatches: 33, Indels: 28
0.67 0.18 0.15
Matches are distributed among these distances:
2 14 0.11
3 95 0.77
4 13 0.11
5 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:45499640 original size:38 final size:37
Alignment explanation
Indices: 45499578--45499684 Score: 126
Period size: 37 Copynumber: 2.9 Consensus size: 37
45499568 GTGTATATTC
* *
45499578 TTTTAATAGATATCATGTATATATTTTTATATATTAT-
1 TTTTAATATATATTATGTATATATTTTTA-ATATTATA
*
45499615 TTTTAACTTTATATTATGTATATATTTTTAATATTATA
1 TTTTAA-TATATATTATGTATATATTTTTAATATTATA
* * * *
45499653 TTTTTATATATATTAGGTACATATTTTCAATA
1 TTTTAATATATATTATGTATATATTTTTAATA
45499685 CTATTAATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
37 35 0.58
38 25 0.42
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.57
Consensus pattern (37 bp):
TTTTAATATATATTATGTATATATTTTTAATATTATA
Found at i:45499645 original size:25 final size:24
Alignment explanation
Indices: 45499607--45499663 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
45499597 TATATTTTTA
45499607 TATATTATTTTTAACT-TTATATTATG
1 TATA-TATTTTTAA-TATTATATT-TG
*
45499633 TATATATTTTTAATATTATATTTT
1 TATATATTTTTAATATTATATTTG
45499657 TATATAT
1 TATATAT
45499664 ATTAGGTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 9 0.31
25 16 0.55
26 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
TATATATTTTTAATATTATATTTG
Found at i:45499654 original size:14 final size:12
Alignment explanation
Indices: 45499595--45499666 Score: 65
Period size: 13 Copynumber: 5.7 Consensus size: 12
45499585 AGATATCATG
45499595 TATATATTTTTA
1 TATATATTTTTA
45499607 TATATTATTTTTAA
1 TATA-TATTTTT-A
* *
45499621 CTTTATATTATGTA
1 -TATATATT-TTTA
*
45499635 TATAT-TTTTAA
1 TATATATTTTTA
45499646 TATTATATTTTTA
1 TA-TATATTTTTA
45499659 TATATATT
1 TATATATT
45499667 AGGTACATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
11 4 0.08
12 15 0.31
13 18 0.38
14 6 0.12
15 5 0.10
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (12 bp):
TATATATTTTTA
Found at i:45499855 original size:21 final size:20
Alignment explanation
Indices: 45499822--45499860 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
45499812 ATTCATGATT
*
45499822 TTATTTCGTGTTTAATATTA
1 TTATTTCATGTTTAATATTA
45499842 TTATTATCATGTTTAATAT
1 TTATT-TCATGTTTAATAT
45499861 CATGTGCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (20 bp):
TTATTTCATGTTTAATATTA
Found at i:45501062 original size:17 final size:19
Alignment explanation
Indices: 45501039--45501080 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
45501029 AAAACACTCT
*
45501039 ATAAAACCAG-AAATTAAG
1 ATAAAACCAGTAAATAAAG
45501057 -TAAAACCAGTAAATAAAG
1 ATAAAACCAGTAAATAAAG
45501075 ATAAAA
1 ATAAAA
45501081 AGAACATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 7 0.33
19 5 0.24
ACGTcount: A:0.64, C:0.10, G:0.10, T:0.17
Consensus pattern (19 bp):
ATAAAACCAGTAAATAAAG
Found at i:45504511 original size:23 final size:23
Alignment explanation
Indices: 45504485--45504794 Score: 367
Period size: 23 Copynumber: 13.5 Consensus size: 23
45504475 CAAAGTGCCA
* * *
45504485 CACTGTAATATAGGCGAAGCTAT
1 CACTGTAATGTAGCCGAAGCTAC
* *
45504508 CACTGTAACGTAGCCGAAGCTAT
1 CACTGTAATGTAGCCGAAGCTAC
* *
45504531 CACTGTAACGTAGCCAAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
* **
45504554 CACTGTATTGTAGCAAAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
45504577 CACTG-AGATGTAGCCGAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
*
45504600 CACTGTATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
45504623 CACTG-AGATGTAGCCGAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* *
45504646 CATTGTATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
45504669 CACTG-AGATGTAGCCGAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* *
45504692 CACTATATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
* *
45504715 CACTGTATTGTAGCCAAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
45504738 CACTG-AGATGTAGCCAAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* *
45504761 CACTATATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
45504784 CACTGAAATGT
1 CACTGTAATGT
45504795 TGCCTAAATA
Statistics
Matches: 251, Mismatches: 28, Indels: 16
0.85 0.09 0.05
Matches are distributed among these distances:
22 4 0.02
23 243 0.97
24 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGTAATGTAGCCGAAGCTAC
Found at i:45505924 original size:2 final size:2
Alignment explanation
Indices: 45505917--45505943 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45505907 ATATACAATA
45505917 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
45505944 AAAGGGTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45506221 original size:18 final size:19
Alignment explanation
Indices: 45506173--45506232 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 19
45506163 ACAATATATA
* *
45506173 ATATATAATAACAAAAATT
1 ATATATAAGAATAAAAATT
* *
45506192 -TATAAAAGAATAATAATT
1 ATATATAAGAATAAAAATT
*
45506210 ATATATAA-AATACAAAAAT
1 ATATATAAGAATA-AAAATT
45506229 ATAT
1 ATAT
45506233 TGGTTTAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
18 18 0.56
19 14 0.44
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (19 bp):
ATATATAAGAATAAAAATT
Found at i:45506343 original size:21 final size:23
Alignment explanation
Indices: 45506285--45506343 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
45506275 AATTTATATT
*
45506285 TATA-ATAAAATAA-TTATATAA
1 TATATATAAAATAAGTTATAGAA
45506306 TATATATAAATATAAGTT-TAGAA
1 TATATATAAA-ATAAGTTATAGAA
45506329 TA-ATATAAAATAAGT
1 TATATATAAAATAAGT
45506344 AATTAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (23 bp):
TATATATAAAATAAGTTATAGAA
Found at i:45506525 original size:36 final size:35
Alignment explanation
Indices: 45506479--45506593 Score: 107
Period size: 36 Copynumber: 3.3 Consensus size: 35
45506469 AAAACCTTTA
*
45506479 ATAATAATAATATATAGATAAAAAATATATAATAGT
1 ATAAAAATAATATATAGATAAAAAATATATAATA-T
*
45506515 ATAAAAATAATATA-ATATAAAATAAT-TATAATAT
1 ATAAAAATAATATATAGATAAAA-AATATATAATAT
*
45506549 AATATGAAAGT-ATATAT-G-T-AAAAATATATAATAT
1 -ATA--AAAATAATATATAGATAAAAAATATATAATAT
*
45506583 ATATAAATAAT
1 ATAAAAATAAT
45506594 TAATAAATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
31 3 0.05
32 2 0.03
33 6 0.09
34 12 0.18
35 18 0.27
36 21 0.32
37 4 0.06
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (35 bp):
ATAAAAATAATATATAGATAAAAAATATATAATAT
Found at i:45506526 original size:14 final size:15
Alignment explanation
Indices: 45506477--45506734 Score: 68
Period size: 16 Copynumber: 16.7 Consensus size: 15
45506467 TTAAAACCTT
45506477 TAATAATAATAAT-ATA
1 TAAT-ATAA-AATAATA
*
45506493 TAGATAAAAAATATATAA
1 TA-ATATAAAATA-AT-A
*
45506511 TAGTATAAAAATAATA
1 TAATAT-AAAATAATA
45506527 TAATATAAAATAATTA
1 TAATATAAAATAA-TA
*
45506543 TAATATAATATGAAAGTA
1 TAATATAAAAT--AA-TA
*
45506561 TATATGTAAAA-ATATA
1 TA-ATATAAAATA-ATA
45506577 TAATATATATAAATAAT-
1 T-A-ATATA-AAATAATA
* *
45506594 TAATA-AATATATTA
1 TAATATAAAATAATA
45506608 TAGA-AGTAAAA-ATATAA
1 TA-ATA-TAAAATA-AT-A
45506625 TAATATATAAAT-A-A
1 TAATATA-AAATAATA
*
45506639 TAATGTAAAATAATAA
1 TAATATAAAATAAT-A
*
45506655 TATTTCATGAAAAGTAATA
1 TA-AT-AT-AAAA-TAATA
45506674 T-ATA-ATAAAT-A-A
1 TAATATA-AAATAATA
45506686 TAATAT-AAATAATA
1 TAATATAAAATAATA
45506700 T-ATAATAAAATAAT-
1 TAAT-ATAAAATAATA
45506714 T-ATAT--AAT-ATA
1 TAATATAAAATAATA
45506725 TAATATAAAA
1 TAATATAAAA
45506735 ATAAGGTTAA
Statistics
Matches: 185, Mismatches: 17, Indels: 82
0.65 0.06 0.29
Matches are distributed among these distances:
10 2 0.01
11 4 0.02
12 10 0.05
13 18 0.10
14 23 0.12
15 25 0.14
16 40 0.22
17 25 0.14
18 21 0.11
19 13 0.07
20 4 0.02
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (15 bp):
TAATATAAAATAATA
Found at i:45506581 original size:55 final size:57
Alignment explanation
Indices: 45506521--45506656 Score: 149
Period size: 55 Copynumber: 2.4 Consensus size: 57
45506511 TAGTATAAAA
* * *
45506521 ATAATATAATATAAAATAATT-AT-AATATAATAT-GAAAGTATATATGTAAAAATAT
1 ATAATATAATATAAAATAATTAATAAATATAATATAG-AAGTAAAAATATAAAAATAT
* *
45506576 ATAATAT-ATAT-AAATAATTAATAAATATATTATAGAAGTAAAAATATAATAATAT
1 ATAATATAATATAAAATAATTAATAAATATAATATAGAAGTAAAAATATAAAAATAT
*
45506631 ATAAATAATAATGTAAAATAA-TAATA
1 AT-AAT-ATAATATAAAATAATTAATA
45506657 TTTCATGAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
53 8 0.12
54 6 0.09
55 34 0.50
56 4 0.06
57 2 0.03
58 8 0.12
59 6 0.09
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (57 bp):
ATAATATAATATAAAATAATTAATAAATATAATATAGAAGTAAAAATATAAAAATAT
Found at i:45506640 original size:19 final size:19
Alignment explanation
Indices: 45506478--45506737 Score: 76
Period size: 19 Copynumber: 13.8 Consensus size: 19
45506468 TAAAACCTTT
*
45506478 AATAATAATAATATATAGATA
1 AATAAT-ATAATA-ATATATA
*
45506499 AAAAATAT-ATAATAGTATA
1 AATAATATAATAATA-TATA
45506518 AA-AATA-ATATAATATA-A
1 AATAATATA-ATAATATATA
45506535 AATAATTATAAT-ATAATATGA
1 AATAA-TATAATAAT-ATAT-A
*
45506556 AAGTATATATGTAAAAATATAT-
1 AA-TA-ATA--TAATAATATATA
45506578 AATATATATAAATAAT-TAATA
1 AATA-ATAT-AATAATAT-ATA
* *
45506599 AAT-ATATTATAGA-A-GTA
1 AATAATATAATA-ATATATA
45506616 AA-AATATAATAATATATA
1 AATAATATAATAATATATA
*
45506634 AATAATA-ATGTAA-A-AT-
1 AATAATATA-ATAATATATA
* *
45506650 AATAATAT-TTCATGA-A-A
1 AATAATATAATAAT-ATATA
* *
45506667 AGTAATAT-ATAATAAAT-
1 AATAATATAATAATATATA
45506684 AATAATATAAATAATATAT-
1 AATAATAT-AATAATATATA
* *
45506703 AATAAAATAATTATATAATA
1 AATAATATAATAATAT-ATA
* *
45506723 TATAATATAAAAATA
1 AATAATATAATAATA
45506738 AGGTTAAAAA
Statistics
Matches: 183, Mismatches: 22, Indels: 69
0.67 0.08 0.25
Matches are distributed among these distances:
15 2 0.01
16 9 0.05
17 37 0.20
18 29 0.16
19 52 0.28
20 21 0.11
21 17 0.09
22 6 0.03
23 1 0.01
24 7 0.04
25 2 0.01
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (19 bp):
AATAATATAATAATATATA
Found at i:45506647 original size:30 final size:29
Alignment explanation
Indices: 45506614--45506737 Score: 93
Period size: 27 Copynumber: 4.3 Consensus size: 29
45506604 ATTATAGAAG
*
45506614 TAAAAATATAATAATATATAAATAATAATG
1 TAAAAATATAAT-ATATATAAATAATAATA
*
45506644 T-AAAATAATAATATTTCATGAAAAGTAAT-ATA
1 TAAAAAT-ATAATATAT-AT--AAA-TAATAATA
*
45506676 TAATAA-ATAATA-ATATAAATAAT-ATA
1 TAAAAATATAATATATATAAATAATAATA
45506702 TAATAAA-ATAAT-TATAT-AATATATAATA
1 TAA-AAATATAATATATATAAATA-ATAATA
45506730 TAAAAATA
1 TAAAAATA
45506738 AGGTTAAAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 24
0.73 0.05 0.22
Matches are distributed among these distances:
26 14 0.18
27 19 0.24
28 7 0.09
29 10 0.13
30 9 0.12
31 6 0.08
32 6 0.08
33 7 0.09
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (29 bp):
TAAAAATATAATATATATAAATAATAATA
Found at i:45506695 original size:12 final size:12
Alignment explanation
Indices: 45506678--45506796 Score: 68
Period size: 12 Copynumber: 9.6 Consensus size: 12
45506668 GTAATATATA
45506678 ATAAATAATAAT
1 ATAAATAATAAT
45506690 ATAAATAAT-AT
1 ATAAATAATAAT
*
45506701 ATAATAAAATAATT
1 ATAA-ATAATAA-T
45506715 ATATAATATATAAT
1 ATA-AATA-ATAAT
45506729 ATAAA-AATAAGGT
1 ATAAATAATAA--T
*
45506742 -TAAA-AATAAA
1 ATAAATAATAAT
*
45506752 ACAAATAATAAT
1 ATAAATAATAAT
* *
45506764 AATAATTTAT-AT
1 -ATAAATAATAAT
*
45506776 ATATAATAATAGAA
1 ATA-AATAATA-AT
45506790 ATAAATA
1 ATAAATA
45506797 TATAGGGTTA
Statistics
Matches: 83, Mismatches: 11, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
11 16 0.19
12 34 0.41
13 14 0.17
14 14 0.17
15 5 0.06
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:45506724 original size:47 final size:44
Alignment explanation
Indices: 45506568--45506737 Score: 123
Period size: 47 Copynumber: 3.6 Consensus size: 44
45506558 GTATATATGT
* *
45506568 AAAAATATATAATATATATAAATAATTAATA-AATATATTATAGAAGT-
1 AAAAATATAT-A-ATATATAAATAA-TAATATAA-ATAATATATAA-TA
* * *
45506615 AAAAATATAATAATATATAAATAATAATGTAAAATAATAATATTTCATG
1 AAAAATAT-ATAATATATAAATAATAATAT-AAATAAT-ATA--TAATA
*
45506664 AAAAGTA-AT-ATATAATAAATAATAATATAAATAATATATAATA
1 AAAAATATATAATAT-ATAAATAATAATATAAATAATATATAATA
*
45506707 AAATAATTATATAATATATAATATAAAAATA
1 AAA-AA-TATATAATATATAA-ATAATAATA
45506738 AGGTTAAAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 9 0.09
46 33 0.33
47 41 0.41
48 3 0.03
49 7 0.07
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (44 bp):
AAAAATATATAATATATAAATAATAATATAAATAATATATAATA
Found at i:45506735 original size:26 final size:27
Alignment explanation
Indices: 45506478--45506738 Score: 101
Period size: 26 Copynumber: 9.9 Consensus size: 27
45506468 TAAAACCTTT
* *
45506478 AATAATA-ATAATATATAGATAA-A-A
1 AATAATATATAATATAAAAATAATATA
*
45506502 AATATATA-ATAGTATAAAAATAATATA
1 AATA-ATATATAATATAAAAATAATATA
* *
45506529 ATATAA-A-ATAAT-TATAATATAATATG
1 A-ATAATATATAATATA-AAAATAATATA
* *
45506555 AA-AGTATAT-ATGTAAAAAT-ATATA
1 AATAATATATAATATAAAAATAATATA
*
45506579 ATATATATAAATAAT-TAATAAATATATTATA
1 A-ATA-ATATATAATATAA-AAATA-A-TATA
* * * *
45506610 GA-AGTA-AAAATATAATAAT-ATATA
1 AATAATATATAATATAAAAATAATATA
* * * *
45506634 AATAATAATGTAAAATAATAATATTTCATGAA
1 AATAAT-ATATAATATAAAAATA-AT-AT--A
*
45506666 AAGTAATATATAATA-AATAATAATATA
1 AA-TAATATATAATATAAAAATAATATA
45506693 AATAATATAT-A-AT-AAAATAAT-TA
1 AATAATATATAATATAAAAATAATATA
*
45506716 TATAATATATAATATAAAAATAA
1 AATAATATATAATATAAAAATAA
45506739 GGTTAAAAAT
Statistics
Matches: 181, Mismatches: 26, Indels: 58
0.68 0.10 0.22
Matches are distributed among these distances:
23 11 0.06
24 24 0.13
25 32 0.18
26 37 0.20
27 30 0.17
28 14 0.08
29 4 0.02
30 5 0.03
31 11 0.06
32 9 0.05
33 4 0.02
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.34
Consensus pattern (27 bp):
AATAATATATAATATAAAAATAATATA
Found at i:45506786 original size:3 final size:3
Alignment explanation
Indices: 45506477--45506769 Score: 59
Period size: 3 Copynumber: 96.3 Consensus size: 3
45506467 TTAAAACCTT
* *
45506477 TAA TAA TAA TAA TATA TAGA TAA -AA -AA TATA TAA TAG T-A TAA AAA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* *
45506522 TAA T-A TAA T-A TAA -AA TAA TTA TAA T-A TAA T-A TGAA -AG TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA-A
* * *
45506563 TATG TAA AAA TATA TAA T-A TATA TAAA TAA TTAA TAAA TATA TTA TAGA
1 TA-A TAA TAA TA-A TAA TAA TA-A T-AA TAA -TAA T-AA TA-A TAA TA-A
* * *
45506612 -AG TAA AAA T-A TAA TAA TATA TAAA TAA TAA T-G TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A T-AA TAA TAA TAA TAA TAA TAA TAA
* *
45506655 TATT TCA TGAA -AA GTAA TATA TAA TAAA TAA TAA T-A TAAA TAA TATA
1 TA-A TAA T-AA TAA -TAA TA-A TAA T-AA TAA TAA TAA T-AA TAA TA-A
* * ***
45506702 TAA TAA -AA TAA TTA T-A TAA TATA TAA T-A TAA AAA TAA GGT TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* *
45506745 AAA TAA -AA CAAA TAA TAA TAA TAA T
1 TAA TAA TAA -TAA TAA TAA TAA TAA T
45506770 TTATATATAT
Statistics
Matches: 212, Mismatches: 37, Indels: 82
0.64 0.11 0.25
Matches are distributed among these distances:
2 35 0.17
3 120 0.57
4 55 0.26
5 2 0.01
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:45508856 original size:205 final size:205
Alignment explanation
Indices: 45508330--45509285 Score: 1455
Period size: 205 Copynumber: 4.7 Consensus size: 205
45508320 AATCTACTTT
* * * * *
45508330 TTTGATTTGTTTTTTGACAGTACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCATG
1 TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACG
* *
45508395 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTG
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
* * * * *
45508460 GATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGG
131 GATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAA-GTGG
* **
45508525 AGACGCCAAAC
195 AGATGCCGGAC
* * *
45508536 TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAAG
1 TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACG
* * * * * *
45508601 CGAAAACCAAATCAGCTATGTCTTCGATTTGTTTCTTGTAATCACAAGGATACCAAACCATCTTG
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
* *
45508666 GATGTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTTTGCCCTCCGTCGAAGTGGA
131 GATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGA
45508731 GATGCCGGA-
196 GATGCCGGAC
* * *
45508740 TTTCAATTTGTTCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAACGCAAGCAC
1 TTT-GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* *
45508805 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCTTTGTAAGCTCAAGGATGCCAAACCATCTT
65 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
45508870 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTTGAAGTAG
130 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
45508935 AGATGCCGGAC
195 AGATGCCGGAC
* *
45508946 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGCAAGCACG
1 TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACG
***
45509011 TGAAAGCCAAATCTTTTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
* * *
45509076 GATCTACTTCAGTATAAACTTCTGAAGGTTGGATCTGCTATGCGTCTGCTCTCCGTCGAAGTGGA
131 GATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGA
*
45509141 GATACCGGAC
196 GATGCCGGAC
* * * *
45509151 TTTGATTTGTTTTCTGACAATACAGAGATGCCAAATCATTTTAGATTTGCTTTAACATAAGCACG
1 TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACG
* *
45509216 TGAAAGCCAAACCAGCTATGTCTTCAATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
45509281 GATCT
131 GATCT
45509286 TGCTTCAGCC
Statistics
Matches: 685, Mismatches: 63, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
204 3 0.00
205 506 0.74
206 176 0.26
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (205 bp):
TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACG
TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
GATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGA
GATGCCGGAC
Found at i:45517511 original size:40 final size:40
Alignment explanation
Indices: 45517456--45517648 Score: 291
Period size: 40 Copynumber: 4.8 Consensus size: 40
45517446 TTATTTGATG
*
45517456 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTTGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
45517496 TGGAATCGTATCCGGGCTTAAAGACCCACAGGCTTCGTAC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
45517536 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCATGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
45517576 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
45517616 TGGAA-TGACATCCGGG-TTAAAAACCTGCAGGCT
1 TGGAATTG-TATCCGGGCTTAAAGACCCGCAGGCT
45517649 GTGCTAGATA
Statistics
Matches: 140, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 17 0.12
40 123 0.88
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:45518486 original size:13 final size:13
Alignment explanation
Indices: 45518465--45518506 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
45518455 ATGGACAAAA
*
45518465 AAAAAAAAGAAAG
1 AAAAGAAAGAAAG
*
45518478 AAAAGAAAGAAAA
1 AAAAGAAAGAAAG
45518491 AAAAGAAA-AAAG
1 AAAAGAAAGAAAG
45518503 AAAA
1 AAAA
45518507 AAATTTATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 7 0.27
13 19 0.73
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:45518500 original size:9 final size:9
Alignment explanation
Indices: 45518461--45518509 Score: 59
Period size: 9 Copynumber: 5.8 Consensus size: 9
45518451 TTATATGGAC
45518461 AAAAAAAA-
1 AAAAAAAAG
*
45518469 AAAAGAAAG
1 AAAAAAAAG
*
45518478 AAAAGAAAG
1 AAAAAAAAG
45518487 AAAAAAAAG
1 AAAAAAAAG
45518496 --AAAAAAG
1 AAAAAAAAG
45518503 AAAAAAA
1 AAAAAAA
45518510 TTTATTGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
7 7 0.19
8 7 0.19
9 22 0.61
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:45518507 original size:13 final size:12
Alignment explanation
Indices: 45518462--45518509 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
45518452 TATATGGACA
45518462 AAAAAAAAAAAG
1 AAAAAAAAAAAG
*
45518474 AAAGAAAAGAAAG
1 AAA-AAAAAAAAG
45518487 AAAAAAAAGAAA-
1 AAAAAAAA-AAAG
45518499 AAAGAAAAAAA
1 AAA-AAAAAAA
45518510 TTTATTGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 12 0.39
13 19 0.61
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:45521295 original size:46 final size:46
Alignment explanation
Indices: 45521245--45521370 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
45521235 TGGTTGAGCA
*
45521245 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
45521291 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
45521337 CCCGAGCTCGTTGATTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45521371 GGGGCGGGTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:45521632 original size:19 final size:20
Alignment explanation
Indices: 45521595--45521632 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
45521585 ATAAGGTGGT
45521595 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
45521615 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
45521633 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:45523538 original size:40 final size:40
Alignment explanation
Indices: 45523483--45523732 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
45523473 AACATTGGAA
45523483 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45523523 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45523563 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45523603 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
45523643 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
45523682 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
45523723 CTATATCCGG
1 ATATATCCGG
45523733 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:45531713 original size:40 final size:40
Alignment explanation
Indices: 45531658--45531904 Score: 358
Period size: 40 Copynumber: 6.2 Consensus size: 40
45531648 AACATTGGAA
45531658 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45531698 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45531738 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45531778 ATATATCCGGGCT-AGA-CCGAAGGC-TTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
45531815 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
45531854 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
45531895 CTATATCCGG
1 ATATATCCGG
45531905 TTAAATCCCG
Statistics
Matches: 186, Mismatches: 16, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
37 26 0.14
38 11 0.06
39 13 0.07
40 136 0.73
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:45531891 original size:117 final size:120
Alignment explanation
Indices: 45531658--45531904 Score: 358
Period size: 117 Copynumber: 2.1 Consensus size: 120
45531648 AACATTGGAA
45531658 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
* * * * * *
45531723 CATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
66 CATTCGTGCAAGTTCACAAATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCG
45531778 ATATATCCGGGCT-AGA-CCGAAGGC-TTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
* * * *
45531840 CCTTTGTGCAAG-TCACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
66 CATTCGTGCAAGTTCA-CAAATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCG
*
45531895 CTATATCCGG
1 ATATATCCGG
45531905 TTAAATCCCG
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
116 2 0.02
117 89 0.77
118 8 0.07
119 3 0.03
120 13 0.11
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (120 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
CATTCGTGCAAGTTCACAAATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCG
Found at i:45536260 original size:14 final size:14
Alignment explanation
Indices: 45536241--45536270 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
45536231 TATGGCAGCC
45536241 AGGTATGGTGAGTA
1 AGGTATGGTGAGTA
45536255 AGGTATGGTGAGTA
1 AGGTATGGTGAGTA
45536269 AG
1 AG
45536271 ACCGTGGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.43, T:0.27
Consensus pattern (14 bp):
AGGTATGGTGAGTA
Found at i:45538277 original size:17 final size:19
Alignment explanation
Indices: 45538255--45538291 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
45538245 ACTCAATATA
45538255 GCCCGAT-AAATGG-AAAT
1 GCCCGATAAAATGGTAAAT
45538272 GCCCGATAAAATGGTAAAT
1 GCCCGATAAAATGGTAAAT
45538291 G
1 G
45538292 AATAAAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 6 0.33
19 5 0.28
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (19 bp):
GCCCGATAAAATGGTAAAT
Found at i:45540323 original size:28 final size:28
Alignment explanation
Indices: 45540264--45540327 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
45540254 GTGGAAGTAG
* *
45540264 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
* * *
45540292 TTGGGCCTGATGGGCCATGTGAGCGAGC
1 TTGGGCCTGATGGGCCATATGAACGAGA
45540320 TTGGGCCT
1 TTGGGCCT
45540328 AAAGGGGCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.16, C:0.19, G:0.39, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAGA
Found at i:45540673 original size:27 final size:27
Alignment explanation
Indices: 45540643--45540848 Score: 238
Period size: 27 Copynumber: 7.7 Consensus size: 27
45540633 TAATAAAGAG
* *
45540643 AAATTATCGAAACAACCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
45540670 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
45540697 AAATTACCGAAATACCCT-TAATTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
*
45540723 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
** **
45540750 AAATTATTAAAATACCCTTAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
45540777 AAATTACCGAAACACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
45540804 AAATTA-CTGAAACACCC-CAGATTTGTA
1 AAATTATC-GAAATACCCTC-GATTTGTA
45540831 AAATTATCGAAATACCCT
1 AAATTATCGAAATACCCT
45540849 TGTAGTGTAA
Statistics
Matches: 153, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
26 25 0.16
27 127 0.83
28 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:45540775 original size:80 final size:81
Alignment explanation
Indices: 45540642--45540849 Score: 294
Period size: 80 Copynumber: 2.6 Consensus size: 81
45540632 ATAATAAAGA
* * **
45540642 GAAATTATCGAAACAACCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCGA
1 GAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTTAATTTGTAAAATTACCGA
* *
45540707 AATACCCTTAA-TTGT
66 AACACCCTCAATTTGT
* **
45540722 GAAATTACCGAAATACCCTCGATTTGTAAAATTATTAAAATACCCTTAATTTGTAAAATTACCGA
1 GAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTTAATTTGTAAAATTACCGA
45540787 AACACCCTCAATTTGT
66 AACACCCTCAATTTGT
* *
45540803 AAAATTACTGAAACACCC-CAGATTTGTAAAATTATCGAAATACCCTT
1 GAAATTACCGAAACACCCTC-GATTTGTAAAATTATCGAAATACCCTT
45540850 GTAGTGTAAA
Statistics
Matches: 112, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
80 68 0.61
81 44 0.39
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (81 bp):
GAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTTAATTTGTAAAATTACCGA
AACACCCTCAATTTGT
Found at i:45540805 original size:54 final size:54
Alignment explanation
Indices: 45540663--45540874 Score: 259
Period size: 54 Copynumber: 3.9 Consensus size: 54
45540653 AACAACCTCG
* *
45540663 ATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTA
1 ATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTTA
* * *
45540717 A-TTGTGAAATTACCGAAATACCCTCGATTTGTAAAATTATTAAAATACCCTTA
1 ATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTTA
* * * *
45540770 ATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAATTACTGAAACACCC-CA
1 ATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTTA
* * * * *
45540823 GATTTGTAAAATTATCGAAATACCCTTG-TAGTGTAAAATGACTGACATACCC
1 -ATTTGTAAAATTACCGAAATACCCTCGAT-TTGTAAAATTACTGAAATACCC
45540875 CTGTAGGGTA
Statistics
Matches: 135, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
53 50 0.37
54 85 0.63
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
ATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTTA
Found at i:45544580 original size:49 final size:49
Alignment explanation
Indices: 45544508--45544769 Score: 451
Period size: 49 Copynumber: 5.4 Consensus size: 49
45544498 TTTACCACAT
*
45544508 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
45544557 ATATATATACATTTTCACATTCATCACATC--CCATGAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
45544604 ATATATATAC-CTTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
45544653 ATATATATAC-CTTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
45544702 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
45544751 ATATATATACACTTTCACA
1 ATATATATACACTTTCACA
45544770 AATTTTGATA
Statistics
Matches: 204, Mismatches: 5, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
47 44 0.22
49 159 0.78
50 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:45548223 original size:40 final size:40
Alignment explanation
Indices: 45548179--45548568 Score: 510
Period size: 40 Copynumber: 9.8 Consensus size: 40
45548169 CCAGCATGAT
* * * *
45548179 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
*** *
45548219 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
45548259 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * *
45548299 TGCTCTTTGGAACTTATCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * *
45548339 TGCTCTTCGGAATTTAGCCCAGATATATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
45548379 TGCTCTTCGGAACTTAGTCCGGATATATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * *
45548419 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACAAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * *
45548459 TGCTCTTCGGAACTTAGTCCAGATATATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * * *
45548499 TGCTCTTCGAAACTTAGTCCGGATACATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
45548539 TGCTCTTCGGAACTTAGTCCGGATACATCA
1 TGCTCTTCGGAACTTAGCCCGGATATATCA
45548569 TTCTCAATTC
Statistics
Matches: 315, Mismatches: 35, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 315 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:45550669 original size:49 final size:49
Alignment explanation
Indices: 45550597--45550762 Score: 289
Period size: 49 Copynumber: 3.4 Consensus size: 49
45550587 TTTACCACAT
*
45550597 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
45550646 ATATATATACATTTTCACATTCATCACATCGGCCATGAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
45550695 ATATATATAC-CTTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
45550744 ATATATATACACTTTCACA
1 ATATATATACACTTTCACA
45550763 AATTTTGATA
Statistics
Matches: 110, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
49 109 0.99
50 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:45553937 original size:28 final size:28
Alignment explanation
Indices: 45553905--45553969 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
45553895 GGGAAGTAGC
*
45553905 TGGGCCTAATGGGCCATATGAATGTGAT
1 TGGGCCTAATGGGCCATATGAATGAGAT
* * * *
45553933 TGGGCTTGATGGGCCATGTGAGTGAGAT
1 TGGGCCTAATGGGCCATATGAATGAGAT
45553961 TGGGCCTAA
1 TGGGCCTAA
45553970 AGGGGCCAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.22, C:0.14, G:0.37, T:0.28
Consensus pattern (28 bp):
TGGGCCTAATGGGCCATATGAATGAGAT
Found at i:45554314 original size:27 final size:27
Alignment explanation
Indices: 45554284--45554488 Score: 225
Period size: 27 Copynumber: 7.7 Consensus size: 27
45554274 TAATAAAGAG
* *
45554284 AAATTACCGAAACACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
45554311 AAATTACCAAAATACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
45554338 AAATTATCGAAATACCCTCGA-TTGTC
1 AAATTACCGAAATACCCTCGATTTGTA
* *
45554364 AAATTATCGAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
45554391 AAACTACCGAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** * *
45554418 AAATTATTG-AACACCTTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** * *
45554444 AAATTACTAAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
45554471 AAATTATCGAAATACCCT
1 AAATTACCGAAATACCCT
45554489 TGTAGTGTAG
Statistics
Matches: 147, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 45 0.31
27 102 0.69
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:45554387 original size:53 final size:54
Alignment explanation
Indices: 45554284--45554490 Score: 240
Period size: 53 Copynumber: 3.9 Consensus size: 54
45554274 TAATAAAGAG
* * * **
45554284 AAATTACCGAAACACCCTTGATTTGTAAAATTACCAAAATACCCCCGATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTTGATTTGTA
* * *
45554338 AAATTATCGAAATACCCTCGA-TTGTCAAATTATCGAAATACCCTTGATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTTGATTTGTA
* * * * *
45554391 AAACTACCGAAATACCCTCAATTTGTAAAATTATTG-AACA-CCTTCGATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTT-GATTTGTA
** *
45554444 AAATTACTAAAACACCCCCGATTTGTAAAATTATCGAAATACCCTTG
1 AAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTTG
45554491 TAGTGTAGAT
Statistics
Matches: 127, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
52 4 0.03
53 85 0.67
54 34 0.27
55 4 0.03
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (54 bp):
AAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTTGATTTGTA
Found at i:45554417 original size:80 final size:79
Alignment explanation
Indices: 45554284--45554488 Score: 250
Period size: 80 Copynumber: 2.6 Consensus size: 79
45554274 TAATAAAGAG
* * *
45554284 AAATTACCGAAACACCCTTGATTTGTAAAATTACCAAAATACCCCCGATTTGTAAAATTATCGAA
1 AAATTA-CGAAACACCCTTGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTATCG-A
* *
45554349 ATACCCTCGA-TTGTC
64 ACACCCTCGATTTGTA
* * *
45554364 AAATTATCGAAATACCCTTGATTTGTAAAACTACCGAAATACCCTCAATTTGTAAAATTATTGAA
1 AAATTA-CGAAACACCCTTGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTATCGAA
*
45554429 CACCTTCGATTTGTA
65 CACCCTCGATTTGTA
* ** *
45554444 AAATTACTAAAACACCCCCGATTTGTAAAATTATCGAAATACCCT
1 AAATTAC-GAAACACCCTTGATTTGTAAAATTACCGAAATACCCT
45554489 TGTAGTGTAG
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 10 0.09
80 97 0.91
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (79 bp):
AAATTACGAAACACCCTTGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAC
ACCCTCGATTTGTA
Found at i:45569941 original size:41 final size:41
Alignment explanation
Indices: 45569884--45569966 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
45569874 TTTATGATTG
45569884 TAAGGTCCTTATGAGGTTATTTGACCATTGAAGGAATTAAA
1 TAAGGTCCTTATGAGGTTATTTGACCATTGAAGGAATTAAA
45569925 TAAGGTCCTTATGAGGTTATTTGACCATTGAAGGAATTAAA
1 TAAGGTCCTTATGAGGTTATTTGACCATTGAAGGAATTAAA
45569966 T
1 T
45569967 GACATAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.35
Consensus pattern (41 bp):
TAAGGTCCTTATGAGGTTATTTGACCATTGAAGGAATTAAA
Found at i:45574010 original size:22 final size:21
Alignment explanation
Indices: 45573961--45574014 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
45573951 CGGCCTCTAG
**
45573961 CACGGGCGTGTCCCAGGGTCA
1 CACGGGCGTGTCCCAGGACCA
* *
45573982 CATGGGCGTGTCCCTTGGACCA
1 CACGGGCGTGTCCC-AGGACCA
45574004 CACGGGCGTGT
1 CACGGGCGTGT
45574015 GAGCCTTGCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.13, C:0.31, G:0.37, T:0.19
Consensus pattern (21 bp):
CACGGGCGTGTCCCAGGACCA
Found at i:45580839 original size:136 final size:136
Alignment explanation
Indices: 45580670--45580941 Score: 535
Period size: 136 Copynumber: 2.0 Consensus size: 136
45580660 TTGGTTTTTC
45580670 ATCGTCCGAGGTAAGTTTATAAGCAAATAGACATTGTTAATTTTAATTAAATGCGAACTATATAT
1 ATCGTCCGAGGTAAGTTTATAAGCAAATAGACATTGTTAATTTTAATTAAATGCGAACTATATAT
*
45580735 GCTGAAATGAAATATGTGAATATATATAAGCACTATTCGAATGTATACAAGCTTGGCAACTATGT
66 GCTGAAATGAAATATGTGAATATATATAAGCACTATTCGAATGTATACAAGCTTGGAAACTATGT
45580800 TTGTGA
131 TTGTGA
45580806 ATCGTCCGAGGTAAGTTTATAAGCAAATAGACATTGTTAATTTTAATTAAATGCGAACTATATAT
1 ATCGTCCGAGGTAAGTTTATAAGCAAATAGACATTGTTAATTTTAATTAAATGCGAACTATATAT
45580871 GCTGAAATGAAATATGTGAATATATATAAGCACTATTCGAATGTATACAAGCTTGGAAACTATGT
66 GCTGAAATGAAATATGTGAATATATATAAGCACTATTCGAATGTATACAAGCTTGGAAACTATGT
45580936 TTGTGA
131 TTGTGA
45580942 GGTTGATTCA
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 135 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (136 bp):
ATCGTCCGAGGTAAGTTTATAAGCAAATAGACATTGTTAATTTTAATTAAATGCGAACTATATAT
GCTGAAATGAAATATGTGAATATATATAAGCACTATTCGAATGTATACAAGCTTGGAAACTATGT
TTGTGA
Found at i:45582875 original size:27 final size:28
Alignment explanation
Indices: 45582819--45582888 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
45582809 AAATTTGTAC
45582819 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
* *
45582847 AGCACTAAGTGTGCTAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
45582874 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
45582889 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:45582899 original size:27 final size:27
Alignment explanation
Indices: 45582819--45582900 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
45582809 AAATTTGTAC
* *
45582819 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * * *
45582847 AGCACTAAGTGTGCTAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
45582874 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
45582901 GCTTTTGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.62
28 17 0.36
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:45586346 original size:15 final size:16
Alignment explanation
Indices: 45586315--45586348 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45586305 TATATACTTG
*
45586315 TAATGTCATATTATGT
1 TAATGACATATTATGT
45586331 TAATGACATA-TATGT
1 TAATGACATATTATGT
45586346 TAA
1 TAA
45586349 GTAGTTGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
TAATGACATATTATGT
Found at i:45588577 original size:39 final size:39
Alignment explanation
Indices: 45588523--45588648 Score: 207
Period size: 39 Copynumber: 3.2 Consensus size: 39
45588513 TTCAGTGATG
45588523 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
45588562 TATATCCGGACTTAGGGTCCGCAGGCTATATGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
45588601 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
45588640 TATGTCCGG
1 TATATCCGG
45588649 GCTAAAGTCC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:45588662 original size:39 final size:39
Alignment explanation
Indices: 45588523--45588686 Score: 197
Period size: 39 Copynumber: 4.2 Consensus size: 39
45588513 TTCAGTGATG
* *
45588523 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* **
45588562 TATATCCGGACTTAGGGTCCGCAGGCTATATGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
*
45588601 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
45588640 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAT
45588679 TATA-CCGG
1 TATATCCGG
45588687 GTTTAAATTC
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
38 9 0.08
39 102 0.92
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:45590552 original size:16 final size:17
Alignment explanation
Indices: 45590523--45590554 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45590513 AAGGTCACTT
45590523 TCATAATGATCATGAAC
1 TCATAATGATCATGAAC
45590540 TCATAAT-ATCATGAA
1 TCATAATGATCATGAA
45590555 GCCAATGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (17 bp):
TCATAATGATCATGAAC
Found at i:45590867 original size:31 final size:33
Alignment explanation
Indices: 45590803--45590867 Score: 89
Period size: 35 Copynumber: 2.0 Consensus size: 33
45590793 CCATGTCCCC
*
45590803 GATATGGTCTTACACGTAGATGTTGCCATAACCCA
1 GATATGGTCTTACACGTAGA-GCT-CCATAACCCA
45590838 GATATGGTCTTACACGTAGA-CT-CATAACCC
1 GATATGGTCTTACACGTAGAGCTCCATAACCC
45590868 TAATGTCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 8 0.28
33 1 0.03
35 20 0.69
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (33 bp):
GATATGGTCTTACACGTAGAGCTCCATAACCCA
Found at i:45598026 original size:93 final size:93
Alignment explanation
Indices: 45597914--45598084 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
45597904 GCCCATAAGT
* *
45597914 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45597979 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
45598007 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45598072 CGAGTTCGGATGC
66 CGAGTTCGGATGC
45598085 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:45598081 original size:46 final size:46
Alignment explanation
Indices: 45597906--45598081 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
45597896 TGTAACCCGC
* * *
45597906 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
45597952 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
45598002 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
45598045 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45598082 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 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 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:45600493 original size:29 final size:29
Alignment explanation
Indices: 45600454--45600541 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
45600444 CAAAGATAAC
*
45600454 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
45600483 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
45600512 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
45600542 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:45600512 original size:15 final size:15
Alignment explanation
Indices: 45600454--45600532 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
45600444 CAAAGATAAC
*
45600454 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
45600468 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
45600483 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
45600497 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
45600512 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
45600527 AAGAAA
1 AAGAAA
45600533 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:45600541 original size:15 final size:15
Alignment explanation
Indices: 45600465--45600541 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
45600455 AGAAAACCGA
45600465 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
45600480 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
45600494 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
45600508 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
45600524 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
45600539 ATA
1 ATA
45600542 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:45603605 original size:93 final size:93
Alignment explanation
Indices: 45603493--45603663 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
45603483 GCCCATAAGT
* *
45603493 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45603558 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
45603586 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45603651 CGAGTTCGGATGC
66 CGAGTTCGGATGC
45603664 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:45603660 original size:46 final size:46
Alignment explanation
Indices: 45603485--45603660 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
45603475 TGTAACCCGC
* * *
45603485 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
45603531 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
45603581 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
45603624 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45603661 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 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 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:45608201 original size:6 final size:6
Alignment explanation
Indices: 45608175--45608214 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
45608165 TAAAGAAGAT
* *
45608175 AAATAA AGATAA AAGTAA AAATAA AAATAA TAAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA AAA
45608215 GTTCTTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:45608201 original size:13 final size:14
Alignment explanation
Indices: 45608185--45608216 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
45608175 AAATAAAGAT
45608185 AAAAGTAA-AAATA
1 AAAAGTAATAAATA
45608198 AAAA-TAATAAATA
1 AAAAGTAATAAATA
45608211 AAAAGT
1 AAAAGT
45608217 TCTTAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 13 0.76
14 1 0.06
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (14 bp):
AAAAGTAATAAATA
Found at i:45614402 original size:38 final size:38
Alignment explanation
Indices: 45614351--45614504 Score: 247
Period size: 38 Copynumber: 4.0 Consensus size: 38
45614341 GATGTGTATG
45614351 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
45614389 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
*
45614427 AATGTGCGAGA-TATGATATCCGGGCTAAGCCCGAAGGC
1 AATGTGCGA-ATTGTGATATCCGGGCTAAGCCCGAAGGC
* * *
45614465 ATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
45614504 A
1 A
45614505 TTTGTGCGGG
Statistics
Matches: 108, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
38 97 0.90
39 11 0.10
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (38 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
Found at i:45614527 original size:39 final size:40
Alignment explanation
Indices: 45614370--45614547 Score: 149
Period size: 38 Copynumber: 4.6 Consensus size: 40
45614360 ATTGTGATAT
* * ** *
45614370 CCGGGCTAAG-CCCGAAGGCA-ATGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGACATAA
* *
45614408 CCGGGCTAAG-CCCGAAGGCA-ATGTGCGAGATATG--ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-T-TGACATAA
** *
45614446 CCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGACATAA
* *
45614484 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTT-ACATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGACATAA
* *
45614523 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
45614548 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 10, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
36 2 0.02
37 1 0.01
38 73 0.59
39 36 0.29
40 12 0.10
ACGTcount: A:0.23, C:0.22, G:0.33, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGACATAA
Done.