Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 145 of 335
Found at i:42676775 original size:29 final size:29
Alignment explanation
Indices: 42676712--42676767 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
42676702 TAAATATTAT
* *
42676712 TTTTTAAATATTAAATATATTTTTAATAA
1 TTTTTAAACATTAAATATATTTTAAATAA
*
42676741 TATTTAAACATTAAA-AT-TTTTAAATAA
1 TTTTTAAACATTAAATATATTTTAAATAA
42676768 AATTTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 9 0.38
28 2 0.08
29 13 0.54
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (29 bp):
TTTTTAAACATTAAATATATTTTAAATAA
Found at i:42676781 original size:12 final size:11
Alignment explanation
Indices: 42676753--42676792 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
42676743 TTTAAACATT
42676753 AAAATTTTTAAA
1 AAAATTTTT-AA
42676765 TAAAATTTTTATA
1 -AAAATTTTTA-A
42676778 AAAATTTTTAA
1 AAAATTTTTAA
42676789 AAAA
1 AAAA
42676793 GTTTAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.19
12 11 0.42
13 10 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAAATTTTTAA
Found at i:42676883 original size:12 final size:13
Alignment explanation
Indices: 42676863--42676900 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
42676853 ATTTTAAAGA
*
42676863 TATTTAAAATTTT
1 TATTTAAAAATTT
42676876 TA-TTAAAAATTT
1 TATTTAAAAATTT
42676888 TATTTAAAAATTT
1 TATTTAAAAATTT
42676901 CAAATGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTTAAAAATTT
Found at i:42677016 original size:20 final size:20
Alignment explanation
Indices: 42676996--42677044 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
42676986 CATATTATTA
*
42676996 AAAAATATATTT-AATTTTT
1 AAAAATATATTTAAAATTTT
42677015 AAAAATAATATTTAAAATTTT
1 AAAAAT-ATATTTAAAATTTT
42677036 AAAAATATA
1 AAAAATATA
42677045 AATTATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 6 0.22
20 9 0.33
21 12 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAAATATATTTAAAATTTT
Found at i:42677134 original size:13 final size:13
Alignment explanation
Indices: 42677096--42677204 Score: 55
Period size: 13 Copynumber: 8.2 Consensus size: 13
42677086 TTAATAACAA
42677096 AAAATAAAATAAAT
1 AAAATAAAA-AAAT
42677110 -AAATAAACAAAAT
1 AAAATAAA-AAAAT
*
42677123 AAAATAAGAAAA-
1 AAAATAAAAAAAT
*
42677135 AATATAAAACTTAAA-
1 AAAATAAAA---AAAT
*
42677150 AAAAGAAAAAAAT
1 AAAATAAAAAAAT
* * * *
42677163 TAAAGAAAAAGAC
1 AAAATAAAAAAAT
42677176 AAAAGTTAAAAAAA-
1 AAAA--TAAAAAAAT
*
42677190 AAAGTAAAAAAAT
1 AAAATAAAAAAAT
42677203 AA
1 AA
42677205 GAAGCAACGT
Statistics
Matches: 74, Mismatches: 12, Indels: 19
0.70 0.11 0.18
Matches are distributed among these distances:
12 18 0.24
13 30 0.41
14 10 0.14
15 16 0.22
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.15
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:42677143 original size:22 final size:21
Alignment explanation
Indices: 42677096--42677161 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
42677086 TTAATAACAA
42677096 AAAATAAAATAA-ATAAATAAAC
1 AAAATAAAATAAGA-AAA-AAAC
*
42677118 AAAATAAAATAAGAAAAAATAT
1 AAAATAAAATAAGAAAAAA-AC
*
42677140 AAAACTTAAAAAAAGAAAAAAA
1 AAAA--TAAAATAAGAAAAAAA
42677162 TTAAAGAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 2 0.05
22 20 0.53
23 2 0.05
24 14 0.37
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (21 bp):
AAAATAAAATAAGAAAAAAAC
Found at i:42677171 original size:19 final size:20
Alignment explanation
Indices: 42677147--42677202 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
42677137 TATAAAACTT
42677147 AAAAAAAGAAAAAAATT-AA
1 AAAAAAAGAAAAAAATTAAA
* * *
42677166 AGAAAAAGACAAAAGTTAAA
1 AAAAAAAGAAAAAAATTAAA
42677186 AAAAAAAGTAAAAAAAT
1 AAAAAAAG-AAAAAAAT
42677203 AAGAAGCAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 14 0.48
20 9 0.31
21 6 0.21
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.11
Consensus pattern (20 bp):
AAAAAAAGAAAAAAATTAAA
Found at i:42678017 original size:23 final size:24
Alignment explanation
Indices: 42677977--42678024 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
42677967 TGTTAGGCAC
* * *
42677977 CACCATCTGATGTCCACCAA-TCA
1 CACCATCCGACGTACACCAAGTCA
42678000 CACCATCCGACGTACACCAAGTCA
1 CACCATCCGACGTACACCAAGTCA
42678024 C
1 C
42678025 CATCATCGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.31, C:0.42, G:0.10, T:0.17
Consensus pattern (24 bp):
CACCATCCGACGTACACCAAGTCA
Found at i:42681823 original size:39 final size:39
Alignment explanation
Indices: 42681597--42681812 Score: 369
Period size: 39 Copynumber: 5.5 Consensus size: 39
42681587 ACAAAGCATG
42681597 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
*
42681638 CGGGACTTAGCCCGGATATAATGCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
**
42681677 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
42681716 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
42681755 CAGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
42681794 CAGGACTTAGCCCGGATAT
1 CGGGACTTAGCCCGGATAT
42681813 TTTTCCAGCA
Statistics
Matches: 168, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 160 0.95
40 2 0.01
41 6 0.04
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:42681848 original size:39 final size:39
Alignment explanation
Indices: 42681805--42681936 Score: 194
Period size: 39 Copynumber: 3.4 Consensus size: 39
42681795 AGGACTTAGC
* * * * *
42681805 CCGGATATTTTTCCAGCACT-TAGCCTGTGAACTTTAAGT
1 CCGGATATATTTCCAGCA-TAAAGCCTGCGGACTTCAAGT
42681844 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
42681883 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
*
42681922 CCGGATATTTTTCCA
1 CCGGATATATTTCCA
42681937 ATACCATGCA
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
38 1 0.01
39 85 0.99
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
Found at i:42681848 original size:78 final size:79
Alignment explanation
Indices: 42681599--42681929 Score: 347
Period size: 78 Copynumber: 4.2 Consensus size: 79
42681589 AAAGCATGCG
*
42681599 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATGCCA
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
42681664 GCACGAATGCCTTC
66 GCACGAATGCCTTC
** *
42681678 GGGAC-TT-AGCCCGGATATAGCACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATACC
1 -GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCC
42681741 AGCACGAATGCCTTC
65 AGCACGAATGCCTTC
* **
42681756 AGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATTTTTCC
1 -GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCC
**
42681819 AGCACTTA-GCCTGT-
65 AGCACGAATGCCT-TC
* * * * * * * * *
42681833 GAACTTTAAGTCCGGATATATTTCCAGCA-TAAAGCCTGC-GGACTTCAAGTCCGGATATATTTC
1 GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT--AGCCCGGATATAATTC
* * *
42681896 CAGCA-TAAAGCCTGC
64 CAGCACGAATGCCTTC
* *
42681911 GGACTTCAAGTCCGGATAT
1 GGACTTTAAGCCCGGATAT
42681930 TTTTCCAATA
Statistics
Matches: 219, Mismatches: 25, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
76 9 0.04
77 15 0.07
78 189 0.86
79 2 0.01
80 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
GGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATTCCA
GCACGAATGCCTTC
Found at i:42681887 original size:117 final size:117
Alignment explanation
Indices: 42681601--42681936 Score: 353
Period size: 117 Copynumber: 2.9 Consensus size: 117
42681591 AGCATGCGGG
* *
42681601 ACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAATGCCAGC
1 ACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAATACCAGC
**** *
42681666 ACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTTCGGG
66 ACGAATGCCTTC-GGACTTAGCCCGGATATTTTTCCAGCACGAATGCCTTC-GA
42681720 AC-TT-AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAATACCAGC
1 ACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAATACCAGC
**
42681783 ACGAATGCCTTCAGGACTTAGCCCGGATATTTTTCCAGCACTTA-GCCTGT-GA
66 ACGAATGCCTTC-GGACTTAGCCCGGATATTTTTCCAGCACGAATGCCT-TCGA
* * * * * * * * *
42681835 ACTTTAAGTCCGGATATATTTCCAGCA-TAAAGCCTGC-GGACTTCAAGTCCGGATATATTTCCA
1 ACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTT--AGCCCGGATATAATACCA
* * * *
42681898 GCA-TAAAGCCTGCGGACTTCAAGTCCGGATATTTTTCCA
64 GCACGAATGCCTTCGGACTT--AGCCCGGATATTTTTCCA
42681937 ATACCATGCA
Statistics
Matches: 187, Mismatches: 23, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
115 15 0.08
116 20 0.11
117 148 0.79
118 2 0.01
119 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (117 bp):
ACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAATACCAGC
ACGAATGCCTTCGGACTTAGCCCGGATATTTTTCCAGCACGAATGCCTTCGA
Found at i:42682607 original size:2 final size:2
Alignment explanation
Indices: 42682600--42682626 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42682590 TAAGATACCT
42682600 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
42682627 GTGCATAGAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42684583 original size:40 final size:39
Alignment explanation
Indices: 42684418--42684601 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
42684408 AAATTGAATG
* * *
42684418 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
42684458 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
42684498 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
42684538 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
42684577 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
42684602 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:42684626 original size:80 final size:81
Alignment explanation
Indices: 42684458--42684646 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
42684448 GCTGGAAATT
* * * *
42684458 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
42684523 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
42684539 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
42684602 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
42684618 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
42684647 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:42688647 original size:42 final size:42
Alignment explanation
Indices: 42688538--42688647 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
42688528 TCACATTGAT
* * ** * * *
42688538 GCCATATCCCATATATGGTCTTATACGAATTCTCATTTCGAC
1 GCCATATCCCAGATATGGTCTTACATAAAATCTCATATCAAC
* **
42688580 GCCATGTCCCAGACGTGGTCTTACATAAAATCTCATATCAAC
1 GCCATATCCCAGATATGGTCTTACATAAAATCTCATATCAAC
*
42688622 TCCATATCCCAGATATGGTCTTACAT
1 GCCATATCCCAGATATGGTCTTACAT
42688648 GATAACTCAT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACATAAAATCTCATATCAAC
Found at i:42702066 original size:26 final size:24
Alignment explanation
Indices: 42702034--42702096 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
42702024 CTTATTATGT
*
42702034 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCACAGTAAA
*
42702058 TCGCACACATAGTGCTACAGTAAA
1 TCGCACACATAGTGCCACAGTAAA
42702082 TCGCACACATAGTGC
1 TCGCACACATAGTGC
42702097 ATTTGAGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCACAGTAAA
Found at i:42704759 original size:30 final size:30
Alignment explanation
Indices: 42704723--42704853 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
42704713 GACAAGATTG
* * * * *
42704723 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
42704753 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
42704781 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
42704811 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
42704840 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
42704854 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:42704814 original size:58 final size:58
Alignment explanation
Indices: 42704723--42704853 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
42704713 GACAAGATTG
* * * * * *
42704723 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
42704781 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
42704840 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
42704854 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:42708760 original size:25 final size:25
Alignment explanation
Indices: 42708732--42708782 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
42708722 CTTTGTTGGA
42708732 ACTTATTGGACCAAACAAACTCAAC
1 ACTTATTGGACCAAACAAACTCAAC
42708757 ACTTATTGGACCAAACAAACTCAAC
1 ACTTATTGGACCAAACAAACTCAAC
42708782 A
1 A
42708783 TTTTTCTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.27, G:0.08, T:0.20
Consensus pattern (25 bp):
ACTTATTGGACCAAACAAACTCAAC
Found at i:42711894 original size:34 final size:34
Alignment explanation
Indices: 42711851--42711918 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
42711841 GCATTTTTGA
* *
42711851 CACTGTACTGAAATGGGCTAAGGCTCAA-ACTGT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
*
42711884 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAGACTGT
42711919 TTAACTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:42716511 original size:71 final size:71
Alignment explanation
Indices: 42716395--42716601 Score: 369
Period size: 71 Copynumber: 2.9 Consensus size: 71
42716385 ATAGGAGTTT
*
42716395 CTCCTACTGTTGCTGAATGTGGGCTCGAGGCTACCGAGCGTATTATGACAGACCTTGATTATACT
1 CTCCTACTGTTGCTGAATATGGGCTCGAGGCTACCGAGCGTATTATGACAGACCTTGATTATACT
42716460 CTTTTG
66 CTTTTG
42716466 CTCCTACTGTTGCTGAATATGGGCTCGAGGCTACCGAGCGTATTATGACAGACCTTGATTATACT
1 CTCCTACTGTTGCTGAATATGGGCTCGAGGCTACCGAGCGTATTATGACAGACCTTGATTATACT
42716531 CTTTTG
66 CTTTTG
* * * *
42716537 CTCCTACTGTTACTAAATATGGGCTCGAGGCTACCGAGCGTATTATGAAAGGCCTTGATTATACT
1 CTCCTACTGTTGCTGAATATGGGCTCGAGGCTACCGAGCGTATTATGACAGACCTTGATTATACT
42716602 TTTACTCAGA
Statistics
Matches: 131, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 131 1.00
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (71 bp):
CTCCTACTGTTGCTGAATATGGGCTCGAGGCTACCGAGCGTATTATGACAGACCTTGATTATACT
CTTTTG
Found at i:42722383 original size:21 final size:21
Alignment explanation
Indices: 42722358--42722496 Score: 170
Period size: 21 Copynumber: 6.6 Consensus size: 21
42722348 AAAGCTTGAA
*
42722358 AGCTGAACAGAAGCTCGTAAG
1 AGCTGAACAGAAACTCGTAAG
42722379 AGCTGAACAGAAACTCGTAAG
1 AGCTGAACAGAAACTCGTAAG
* * *
42722400 AGCTAAACAAAAACTCATAAG
1 AGCTGAACAGAAACTCGTAAG
* * *
42722421 AGTTGAACAGAAGCTCGTAAA
1 AGCTGAACAGAAACTCGTAAG
* *
42722442 AGCTGAACAAAAACTCATAAG
1 AGCTGAACAGAAACTCGTAAG
* * *
42722463 AGTTGAATAGAAGCTCGTAAG
1 AGCTGAACAGAAACTCGTAAG
42722484 AGCTGAACAGAAA
1 AGCTGAACAGAAA
42722497 GTAAAACACT
Statistics
Matches: 95, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 95 1.00
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.16
Consensus pattern (21 bp):
AGCTGAACAGAAACTCGTAAG
Found at i:42722438 original size:42 final size:42
Alignment explanation
Indices: 42722358--42722492 Score: 198
Period size: 42 Copynumber: 3.2 Consensus size: 42
42722348 AAAGCTTGAA
* * * * *
42722358 AGCTGAACAGAAGCTCGTAAGAGCTGAACAGAAACTCGTAAG
1 AGCTGAACAAAAACTCATAAGAGTTGAACAGAAGCTCGTAAG
* *
42722400 AGCTAAACAAAAACTCATAAGAGTTGAACAGAAGCTCGTAAA
1 AGCTGAACAAAAACTCATAAGAGTTGAACAGAAGCTCGTAAG
*
42722442 AGCTGAACAAAAACTCATAAGAGTTGAATAGAAGCTCGTAAG
1 AGCTGAACAAAAACTCATAAGAGTTGAACAGAAGCTCGTAAG
42722484 AGCTGAACA
1 AGCTGAACA
42722493 GAAAGTAAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.16
Consensus pattern (42 bp):
AGCTGAACAAAAACTCATAAGAGTTGAACAGAAGCTCGTAAG
Found at i:42726453 original size:3 final size:3
Alignment explanation
Indices: 42726445--42726479 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
42726435 AAACATGACC
*
42726445 TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
42726480 TTAAAAGCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:42729531 original size:27 final size:25
Alignment explanation
Indices: 42729501--42729556 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 25
42729491 TTTTCGTCCT
*
42729501 TTTTAAATTTTTTATACAATTTATTTA
1 TTTTAAATATTTTATA-AA-TTATTTA
*
42729528 TTTTAAATATTTTATATATTATTTA
1 TTTTAAATATTTTATAAATTATTTA
42729553 TTTT
1 TTTT
42729557 TACTATAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 11 0.41
26 1 0.04
27 15 0.56
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTTAAATATTTTATAAATTATTTA
Found at i:42729640 original size:25 final size:24
Alignment explanation
Indices: 42729587--42729633 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
42729577 TATAAAAAAA
42729587 TTTATATATAAATTTTTTTCATAT
1 TTTATATATAAATTTTTTTCATAT
*
42729611 TTTAT-TATACATTTTATTT-ATAT
1 TTTATATATAAATTTT-TTTCATAT
42729634 GCTTTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTATATATAAATTTTTTTCATAT
Found at i:42729663 original size:3 final size:3
Alignment explanation
Indices: 42729645--42729716 Score: 71
Period size: 3 Copynumber: 24.0 Consensus size: 3
42729635 CTTTATAATA
*
42729645 TAT TAT TCAT TA- TAT TAT TTT TAT TAT ATAT TA- TAT TAT T-T TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
42729689 TAT T-T TAT TATT TAT TATT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TA-T TAT TAT TAT
42729717 GTACAATTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
2 8 0.14
3 39 0.66
4 12 0.20
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:42729670 original size:21 final size:20
Alignment explanation
Indices: 42729645--42729716 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 20
42729635 CTTTATAATA
42729645 TATTATTCATTATATTATTTT
1 TATTATT-ATTATATTATTTT
42729666 TATTATATATTATATTA-TTT
1 TATTAT-TATTATATTATTTT
42729686 TATTATT-TTATTATTTATTATT
1 TATTATTATTA-TA-TTATT-TT
42729708 TATTATTAT
1 TATTATTAT
42729717 GTACAATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
18 3 0.07
19 3 0.07
20 12 0.27
21 16 0.36
22 10 0.22
23 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTATTATTATATTATTTT
Found at i:42729675 original size:28 final size:27
Alignment explanation
Indices: 42729608--42729713 Score: 103
Period size: 28 Copynumber: 3.9 Consensus size: 27
42729598 ATTTTTTTCA
*
42729608 TATTTTATTATACA-T-TTTATT-TA-
1 TATTTTATTATATATTATTTATTATAT
* *
42729631 TATGCTTTATAATATATTATTCATTATAT
1 TAT--TTTATTATATATTATTTATTATAT
*
42729660 TATTTTTATTATATATTATATTATTTTAT
1 TA-TTTTATTATATATTAT-TTATTATAT
*
42729689 TATTTTATTATTTATTATTTATTAT
1 TATTTTATTATATATTATTTATTAT
42729714 TATGTACAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
23 3 0.04
25 9 0.13
26 1 0.01
27 11 0.16
28 31 0.46
29 11 0.16
30 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (27 bp):
TATTTTATTATATATTATTTATTATAT
Found at i:42729676 original size:16 final size:15
Alignment explanation
Indices: 42729655--42729713 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 15
42729645 TATTATTCAT
42729655 TATATTATTTTTATTA
1 TATATTA-TTTTATTA
*
42729671 TATATTATATTATT-
1 TATATTATTTTATTA
42729685 T-TATTATTTTATTA
1 TATATTATTTTATTA
*
42729699 TTTATTA-TTTATTA
1 TATATTATTTTATTA
42729713 T
1 T
42729714 TATGTACAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
13 11 0.28
14 10 0.26
15 11 0.28
16 7 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATATTATTTTATTA
Found at i:42729714 original size:7 final size:7
Alignment explanation
Indices: 42729645--42729714 Score: 74
Period size: 7 Copynumber: 10.0 Consensus size: 7
42729635 CTTTATAATA
42729645 TATTATT
1 TATTATT
*
42729652 CATTATAT
1 TATTAT-T
42729660 TATT-TT
1 TATTATT
*
42729666 TATTATA
1 TATTATT
42729673 TATTA--
1 TATTATT
42729678 TATTATTT
1 TATTA-TT
42729686 TATTATTT
1 TATTA-TT
42729694 TATTATT
1 TATTATT
42729701 TATTATT
1 TATTATT
42729708 TATTATT
1 TATTATT
42729715 ATGTACAATT
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
5 5 0.09
6 5 0.09
7 28 0.51
8 17 0.31
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (7 bp):
TATTATT
Found at i:42729716 original size:28 final size:29
Alignment explanation
Indices: 42729636--42729716 Score: 105
Period size: 28 Copynumber: 2.9 Consensus size: 29
42729626 ATTTATATGC
* *
42729636 TTTATAATATATTATTCATTA-TATTATT
1 TTTATTATATATTATTTATTATTATTATT
42729664 TTTATTATATATTATATTATT-TTATTA-T
1 TTTATTATATATTAT-TTATTATTATTATT
*
42729692 TTTATTATTTATTATTTATTATTAT
1 TTTATTATATATTATTTATTATTAT
42729717 GTACAATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
27 5 0.11
28 33 0.70
29 9 0.19
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTATTATATATTATTTATTATTATTATT
Found at i:42730188 original size:14 final size:15
Alignment explanation
Indices: 42730160--42730206 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
42730150 TATATATATT
*
42730160 TATTAGTAATAAATTA
1 TATTA-TAATTAATTA
42730176 TATTA-AATTAATT-
1 TATTATAATTAATTA
42730189 TATTATAATTATATTA
1 TATTATAATTA-ATTA
42730205 TA
1 TA
42730207 AGATATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.19
14 12 0.44
15 3 0.11
16 7 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TATTATAATTAATTA
Found at i:42730618 original size:20 final size:21
Alignment explanation
Indices: 42730581--42730628 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
42730571 ATATATGTAT
*
42730581 TTAATTATTAATAGATATTTA
1 TTAATTATTAAAAGATATTTA
42730602 TTAATTA-TAAAAGATATTTA
1 TTAATTATTAAAAGATATTTA
*
42730622 TAAATTA
1 TTAATTA
42730629 AATAATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
TTAATTATTAAAAGATATTTA
Found at i:42730782 original size:2 final size:2
Alignment explanation
Indices: 42730775--42730808 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
42730765 TAAGTTATTT
42730775 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
42730809 GTAAATGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:42731184 original size:15 final size:16
Alignment explanation
Indices: 42731151--42731194 Score: 72
Period size: 15 Copynumber: 2.8 Consensus size: 16
42731141 TTAAATTAAT
42731151 ATTGAATTATATATTG
1 ATTGAATTATATATTG
*
42731167 ATTGAATT-TATTTTG
1 ATTGAATTATATATTG
42731182 ATTGAATTATATA
1 ATTGAATTATATA
42731195 ATAAATATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (16 bp):
ATTGAATTATATATTG
Found at i:42731680 original size:24 final size:22
Alignment explanation
Indices: 42731652--42731698 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
42731642 GAGGATATAT
42731652 TATTCCGGGTGTGTTTGGGTTGGA
1 TATT-CGGGTGTGTTT-GGTTGGA
*
42731676 TATTCTGGTGTGTTTGGTTGGA
1 TATTCGGGTGTGTTTGGTTGGA
42731698 T
1 T
42731699 CCGTGTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
23 10 0.45
24 4 0.18
ACGTcount: A:0.09, C:0.06, G:0.38, T:0.47
Consensus pattern (22 bp):
TATTCGGGTGTGTTTGGTTGGA
Found at i:42732914 original size:35 final size:37
Alignment explanation
Indices: 42732843--42732940 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
42732833 ATAATCTTCA
42732843 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
42732881 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
42732916 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
42732941 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:42732940 original size:17 final size:19
Alignment explanation
Indices: 42732843--42732933 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
42732833 ATAATCTTCA
42732843 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
42732862 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
42732881 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
42732898 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
42732916 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
42732934 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:42732959 original size:22 final size:22
Alignment explanation
Indices: 42732843--42732956 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
42732833 ATAATCTTCA
42732843 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
42732862 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
42732881 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
42732898 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
42732916 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
42732938 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
42732957 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:42735209 original size:28 final size:28
Alignment explanation
Indices: 42735161--42735250 Score: 137
Period size: 28 Copynumber: 3.2 Consensus size: 28
42735151 GTGACAGAGT
*
42735161 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
42735190 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
42735218 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
42735246 CACCA
1 CACCA
42735251 CGACGCTTCC
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 50 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:42735404 original size:28 final size:28
Alignment explanation
Indices: 42735357--42735421 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
42735347 AAATTAACCC
*
42735357 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
42735385 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
42735413 TAGGGGTAT
1 TAGGGGTAT
42735422 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:42739963 original size:29 final size:29
Alignment explanation
Indices: 42739930--42739994 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
42739920 GTGACGAGAT
42739930 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
42739959 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
42739988 CGGCACT
1 TGGCACT
42739995 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:42740100 original size:2 final size:2
Alignment explanation
Indices: 42740095--42740119 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
42740085 GTGCGTACAC
42740095 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
42740120 CTCCGATCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42747459 original size:40 final size:40
Alignment explanation
Indices: 42747414--42747580 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
42747404 CGGAATATAA
42747414 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
42747454 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
42747494 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
42747534 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
42747573 CCGGATAT
1 CCGGATAT
42747581 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:42747564 original size:80 final size:79
Alignment explanation
Indices: 42747414--42747580 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
42747404 CGGAATATAA
* *
42747414 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
42747479 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
42747494 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
42747556 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
42747573 CCGGATAT
1 CCGGATAT
42747581 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:42748429 original size:17 final size:19
Alignment explanation
Indices: 42748406--42748451 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
42748396 AAGAAGCATG
42748406 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
42748424 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
42748442 AATCATGCTC
1 AATCATGCTC
42748452 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:42751148 original size:29 final size:29
Alignment explanation
Indices: 42751115--42751179 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
42751105 GTGACGAGAT
42751115 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
42751144 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
42751173 CGGCACT
1 TGGCACT
42751180 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:42751285 original size:2 final size:2
Alignment explanation
Indices: 42751280--42751304 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
42751270 GTGCGTACAT
42751280 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
42751305 CTCCGATCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42755820 original size:19 final size:18
Alignment explanation
Indices: 42755785--42755848 Score: 83
Period size: 21 Copynumber: 3.3 Consensus size: 18
42755775 TTCTATTTCA
*
42755785 AAAAAAAAGGAAAAAAAAT
1 AAAAAAAA-GAGAAAAAAT
42755804 AAAAGAGAAAGAGAAAAAAAT
1 AAAA-A-AAAGAG-AAAAAAT
42755825 AAAAAAAAGAGAAAAAAT
1 AAAAAAAAGAGAAAAAAT
42755843 AAAAAA
1 AAAAAA
42755849 TGCAGAGGCC
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
18 13 0.32
19 10 0.24
20 4 0.10
21 14 0.34
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (18 bp):
AAAAAAAAGAGAAAAAAT
Found at i:42755846 original size:25 final size:25
Alignment explanation
Indices: 42755795--42755849 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
42755785 AAAAAAAAGG
* *
42755795 AAAAA-AAATAAAAGAGAAAGAGAA
1 AAAAATAAAAAAAAGAGAAAGAAAA
42755819 AAAAATAAAAAAAAGAGAAA-AAATA
1 AAAAATAAAAAAAAGAGAAAGAAA-A
42755844 AAAAAT
1 AAAAAT
42755850 GCAGAGGCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (25 bp):
AAAAATAAAAAAAAGAGAAAGAAAA
Found at i:42756900 original size:44 final size:44
Alignment explanation
Indices: 42756849--42757591 Score: 585
Period size: 44 Copynumber: 16.9 Consensus size: 44
42756839 GATCCAAGAT
* * *
42756849 GATTTGGCATCTTTGTATTGGCAAAGAGCAGATCGAAGACAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * * *
42756893 GATTTGGCGTCTTTGTATTGGCAGAGAGAAGATCGAAGATGACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * * * * *
42756937 GATTTGGCATCTCTGTTTTCGGCGGAGAGCAGAACAAAGACATAGCT
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAG--ATAACA
* * * ** * *
42756984 GTTTTGGCTTC-CATGTGTTTAC-GTTGAAGCA-AGTCTAAGAT----
1 GATTTGGCATCTC-TGTATTGGCAG-AG-AGCAGA-TCGAAGATAACA
* *
42757025 GATTTGTCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * *
42757069 GATTTGGCATCTCTGTATTGGCAGAGAGAAGATCAAAGATGACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * *
42757113 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGATA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
** ***
42757157 GATTTGGCATCTCTGTATTCGGTGGAGAGCAGATCGAAGACATAGTT
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAG--ATAACA
* * ** *
42757204 GATTTGGCTTCCACGTGT-TTGCGTTGA-AGCA-AGTCTAAGAT----
1 GATTTGGCAT-CTC-TGTATTG-GCAGAGAGCAGA-TCGAAGATAACA
*
42757245 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * * * *
42757289 AATATGGCATCTCTGTATTGGTAGAGAGCAGATCAAAGATGACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * *
42757333 GATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAG--ATAACA
* * * ** *
42757380 GATTTGGCTTCAACGTGT-TTATGTTGA-AGCA-AGTCTAAGAT----
1 GATTTGGCATC-TC-TGTATT-GGCAGAGAGCAGA-TCGAAGATAACA
42757421 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* *
42757465 GATTTGACATCTCTGTATTGGCAGAGAGCAGATCGAAGATAATA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
*
42757509 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGA-A
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA-ACA
* * * * *
42757553 AATTTGGCGTCTCTGTTTTGTCAGAGAGCATATCGAAGA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGA
42757592 GAAGAACAAC
Statistics
Matches: 569, Mismatches: 88, Indels: 84
0.77 0.12 0.11
Matches are distributed among these distances:
39 12 0.02
40 41 0.07
41 37 0.07
42 2 0.00
44 327 0.57
45 55 0.10
46 6 0.01
47 69 0.12
48 14 0.02
49 6 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.28
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
Found at i:42757231 original size:220 final size:220
Alignment explanation
Indices: 42756849--42757372 Score: 823
Period size: 220 Copynumber: 2.4 Consensus size: 220
42756839 GATCCAAGAT
* * * ** * *
42756849 GATTTGGCATCTTTGTATTGGCAAAGAGCAGATCGAAGACAACAGATTTGGCGTCTTTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTGG
* *
42756914 CAGAGAGAAGATCGAAGATGACAGATTTGGCATCTCTGTTTTCGGCGGAGAGCAGAACAAAGACA
66 CAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTCGGCGGAGAGCAGAACAAAGACA
* * *
42756979 TAGCTGTTTTGGCTTCCATGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGTCATCTCTGTATT
131 TAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATT
42757044 GGCAGAGAGCAGATCGAAGATAGCA
196 GGCAGAGAGCAGATCGAAGATAGCA
*
42757069 GATTTGGCATCTCTGTATTGGCAGAGAGAAGATCAAAGATGACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTGG
* * * * *
42757134 CAGAGAGCAGATCAAAGATGATAGATTTGGCATCTCTGTATTCGGTGGAGAGCAGATCGAAGACA
66 CAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTCGGCGGAGAGCAGAACAAAGACA
* *
42757199 TAGTTGATTTGGCTTCCACGTGTTTGCGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATT
131 TAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATT
42757264 GGCAGAGAGCAGATCGAAGATAGCA
196 GGCAGAGAGCAGATCGAAGATAGCA
* * *
42757289 AATATGGCATCTCTGTATTGGTAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATT-G
*
42757354 GCGGAGAGCAGATCGAAGA
65 GCAGAGAGCAGATCGAAGA
42757373 CATAGCTGAT
Statistics
Matches: 277, Mismatches: 26, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
220 259 0.94
221 18 0.06
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (220 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTGG
CAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTCGGCGGAGAGCAGAACAAAGACA
TAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATT
GGCAGAGAGCAGATCGAAGATAGCA
Found at i:42757251 original size:176 final size:175
Alignment explanation
Indices: 42757069--42757547 Score: 780
Period size: 176 Copynumber: 2.7 Consensus size: 175
42757059 GAAGATAGCA
* *
42757069 GATTTGGCATCTCTGTATTGGCAGAGAGAAGATCAAAGATGACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACAGATTTGGCATCTCTGTATTGG
*
42757134 CAGAGAGCAGATCAAAGATGATAGATTTGGCATCTCTGTATTCGGTGGAGAGCAGATCGAAGACA
65 CAGAGAGCAGATCAAAGATGATAGATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAGACA
* * *
42757199 TAGTTGATTTGGCTTCCACGTGTTTGCGTTGAAGCAAGTCTAAGAT
130 TAGCTGATTTGGCTTCAACGTGTTTACGTTGAAGCAAGTCTAAGAT
* *
42757245 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAAATATGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA-CAGATTTGGCATCTCTGTATTGG
* *
42757310 TAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAGACA
65 CAGAGAGCAGATCAAAGATGATAGATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAGACA
*
42757375 TAGCTGATTTGGCTTCAACGTGTTTATGTTGAAGCAAGTCTAAGAT
130 TAGCTGATTTGGCTTCAACGTGTTTACGTTGAAGCAAGTCTAAGAT
*
42757421 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGACATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACAGATTTGGCATCTCTGTATTGG
* * * *
42757486 CAGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTATT-GGCAGAGAGCAGATCGAAGA
65 CAGAGAGCAGATCAAAGATGATAGATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAGA
42757548 TAGAAAATTT
Statistics
Matches: 281, Mismatches: 20, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
175 20 0.07
176 260 0.93
177 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (175 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATACAGATTTGGCATCTCTGTATTGGC
AGAGAGCAGATCAAAGATGATAGATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAGACAT
AGCTGATTTGGCTTCAACGTGTTTACGTTGAAGCAAGTCTAAGAT
Found at i:42757478 original size:220 final size:218
Alignment explanation
Indices: 42756849--42757591 Score: 733
Period size: 220 Copynumber: 3.4 Consensus size: 218
42756839 GATCCAAGAT
* * * ** * *
42756849 GATTTGGCATCTTTGTATTGGCAAAGAGCAGATCGAAGACAACAGATTTGGCGTCTTTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTGG
* * * * * * * *
42756914 CAGAGAGAAGATCGAAG--ATGACAGATTTGGCATCTCTGTTTTCGGCGGAGAGCAGAACAAAGA
66 CAGAGAGCAGATCGAAGACATGATAGATTTGGCATCACTGTATTAGGTGGAGAGCAGATCGAAG-
* * * * ** * *
42756977 CATAGCTGTTTTGGCTTCCATGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGTCATCTCTGTA
130 -A-AG-TGATTTGGCATCCACGTGTTTGCGCAGAAGCAAGTCGAAGATGATTTGACATCTCTGTA
42757042 TTGGCAGAGAGCAGATCGAAGATAGCA
192 TTGGCAGAGAGCAGATCGAAGATAGCA
*
42757069 GATTTGGCATCTCTGTATTGGCAGAGAGAAGATCAAAGATGACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTGG
* * *
42757134 CAGAGAGCAGATC-AA-AGATGATAGATTTGGCATCTCTGTATTCGGTGGAGAGCAGATCGAAGA
66 CAGAGAGCAGATCGAAGACATGATAGATTTGGCATCACTGTATTAGGTGGAGAGCAGATCGAAG-
* ** * *
42757197 CATAGTTGATTTGGCTTCCACGTGTTTGCGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTA
130 -A-AG-TGATTTGGCATCCACGTGTTTGCGCAGAAGCAAGTCGAAGATGATTTGACATCTCTGTA
42757262 TTGGCAGAGAGCAGATCGAAGATAGCA
192 TTGGCAGAGAGCAGATCGAAGATAGCA
* * *
42757289 AATATGGCATCTCTGTATTGGTAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATT-G
* * * * *
42757354 GCGGAGAGCAGATCGAAGACATAGCT-GATTTGGCTTCAACGTGT-TTATGTTGA-AGCA-AGTC
65 GCAGAGAGCAGATCGAAGACAT-GATAGATTTGGCATC-AC-TGTATTAGGTGGAGAGCAGA-TC
* *
42757415 TAAG-A-TGATTTGGCAT-CTC-TGTATTG-GCAGAGAGC-AGATCGAAGATAACAGATTTGACA
126 GAAGAAGTGATTTGGCATCCACGTGT-TTGCGCAGA-AGCAAG-TCGAAGAT----GATTTGACA
**
42757474 TCTCTGTATTGGCAGAGAGCAGATCGAAGATAATA
184 TCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* * * * *
42757509 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGA-AAATTTGGCGTCTCTGTTTTG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT-GACAGATTTGGCATCTCTGTATTG
* *
42757573 TCAGAGAGCATATCGAAGA
65 GCAGAGAGCAGATCGAAGA
42757592 GAAGAACAAC
Statistics
Matches: 455, Mismatches: 51, Indels: 35
0.84 0.09 0.06
Matches are distributed among these distances:
215 8 0.02
216 15 0.03
217 10 0.02
219 20 0.04
220 349 0.77
221 16 0.04
222 3 0.01
223 22 0.05
224 9 0.02
225 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.28
Consensus pattern (218 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTGG
CAGAGAGCAGATCGAAGACATGATAGATTTGGCATCACTGTATTAGGTGGAGAGCAGATCGAAGA
AGTGATTTGGCATCCACGTGTTTGCGCAGAAGCAAGTCGAAGATGATTTGACATCTCTGTATTGG
CAGAGAGCAGATCGAAGATAGCA
Found at i:42757786 original size:44 final size:45
Alignment explanation
Indices: 42757738--42757922 Score: 164
Period size: 44 Copynumber: 4.2 Consensus size: 45
42757728 GATTTTAACA
*
42757738 TGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAACTGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGATTGAAGATAACAGATT
* * * *
42757782 TGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAAACATAGCAGATC
1 TGGCATCCCTGTGTTTATAGGGAACAAGATTG--AAGATAACAGATT
* * * * * ** **
42757828 TGACATTCCTGTGCTTACAGCGAAGTAGATTGAAGATTTCAGCA--
1 TGGCATCCCTGTGTTTATAGGGAACAAGATTGAAGATAACAG-ATT
**
42757872 TGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGTAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGATTGAAGATAACAGATT
42757916 TGGCATC
1 TGGCATC
42757923 TCCATATTCG
Statistics
Matches: 109, Mismatches: 25, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
42 1 0.01
43 12 0.11
44 55 0.50
45 7 0.06
46 29 0.27
47 5 0.05
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (45 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGATTGAAGATAACAGATT
Found at i:42757883 original size:134 final size:133
Alignment explanation
Indices: 42757643--42757992 Score: 470
Period size: 134 Copynumber: 2.6 Consensus size: 133
42757633 AGATCCAAGA
*
42757643 TGATTTGGCATTCCTGTGTTTACAGGGAACAGATCAAAGACATAGCAGATCTGACATTCCTGTGC
1 TGATTTGGCATCCCTGTGTTTACAGGGAACAGATCAAAGACATAGCAGATCTGACATTCCTGTGC
* *
42757708 TTACAGTGAAGTAGATTAAAGATTTTAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
66 TTACAGCGAAGTAGATTAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
42757773 TAAC
131 T-AC
*
42757777 TGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAA-ACATAGCAGATCTGACATTCCTGTG
1 TGATTTGGCATCCCTGTGTTTACAGGGAACAGATC-AAAGACATAGCAGATCTGACATTCCTGTG
* *
42757841 CTTACAGCGAAGTAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAG
65 CTTACAGCGAAGTAGATTAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAG
*
42757906 ATAG
130 ATAC
* ** * * * * * *
42757910 TAGATTTGGCATCTCCATAT-TCGACGGGGAGCAGATTAAAGACATAGTAGATCTGACCTTCATG
1 T-GATTTGGCATC-CC-TGTGTTTACAGGGAACAGATCAAAGACATAGCAGATCTGACATTCCTG
* * *
42757974 TGTTTACATCGAAGCAGAT
63 TGCTTACAGCGAAGTAGAT
42757993 CCAAGATGAC
Statistics
Matches: 191, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
133 2 0.01
134 135 0.71
135 52 0.27
136 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (133 bp):
TGATTTGGCATCCCTGTGTTTACAGGGAACAGATCAAAGACATAGCAGATCTGACATTCCTGTGC
TTACAGCGAAGTAGATTAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
TAC
Found at i:42758105 original size:43 final size:45
Alignment explanation
Indices: 42757986--42758184 Score: 213
Period size: 45 Copynumber: 4.5 Consensus size: 45
42757976 TTTACATCGA
* * * * * *
42757986 AGCAGATCCAAGATGACAGATTTGACATCTTTGTATTAGACTGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* * *
42758031 AGCAAATCGAAGATAATAGATTTGGCATCTCTGTATTAGAC-GGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* * *
42758075 AGCAGATTGAAGA-AGCAAATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* ***
42758119 AGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTAGGTAGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* * *
42758164 AGTAGATCAAAGATAGCAGAT
1 AGCAGATCGAAGATAACAGAT
42758185 ATTGCCTTCC
Statistics
Matches: 131, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
43 23 0.18
44 28 0.21
45 80 0.61
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
Found at i:42758574 original size:14 final size:15
Alignment explanation
Indices: 42758557--42758594 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
42758547 TCTTAGTTAT
42758557 GATATG-CAATCTTA
1 GATATGACAATCTTA
42758571 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
42758588 GATATGA
1 GATATGA
42758595 TTGCAATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:42758611 original size:35 final size:37
Alignment explanation
Indices: 42758536--42758633 Score: 132
Period size: 35 Copynumber: 2.7 Consensus size: 37
42758526 ATAATCTTCA
* *
42758536 ATGATATGCAATCTTAGTTATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAAAT
42758574 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAAAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAAAT
42758609 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
42758634 ATTTTGTAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
35 21 0.38
36 18 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAAAT
Found at i:42758633 original size:17 final size:19
Alignment explanation
Indices: 42758536--42758626 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
42758526 ATAATCTTCA
*
42758536 ATGATATGCAATCTTAGTT
1 ATGATATGCAATCTTAGAT
42758555 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
42758574 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
42758591 ATGAT-TGCAATCTTAAAT
1 ATGATATGCAATCTTAGAT
42758609 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
42758627 AGATATGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 15 0.23
19 35 0.53
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:42759661 original size:28 final size:26
Alignment explanation
Indices: 42759629--42759689 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
42759619 TTTTTATGTT
*
42759629 ATTTATTGTTTTATATATTTGCGTGGAA
1 ATTTATTGTTGT-TATATTTGCGT-GAA
42759657 ATTTA-TGTTGTTATATTTGCGTGAA
1 ATTTATTGTTGTTATATTTGCGTGAA
42759682 ATATTATT
1 AT-TTATT
42759690 ATATATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.17
26 14 0.47
27 6 0.20
28 5 0.17
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.54
Consensus pattern (26 bp):
ATTTATTGTTGTTATATTTGCGTGAA
Found at i:42759696 original size:25 final size:25
Alignment explanation
Indices: 42759639--42759698 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
42759629 ATTTATTGTT
42759639 TTATATATTTGCGTGGAAATTTATG
1 TTATATATTTGCGTGGAAATTTATG
*
42759664 TTGTTATATTTGCGT-GAAATATTAT-
1 TT-ATATATTTGCGTGGAAAT-TTATG
42759689 TATATATATT
1 T-TATATATT
42759699 ATGTAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (25 bp):
TTATATATTTGCGTGGAAATTTATG
Found at i:42771818 original size:46 final size:46
Alignment explanation
Indices: 42771751--42771871 Score: 215
Period size: 46 Copynumber: 2.6 Consensus size: 46
42771741 TATTTGGTCA
42771751 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATG
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATG
*
42771797 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATG
* *
42771843 TCCGAACTCATTGAGTTGAGTCCGAGTTC
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTC
42771872 GTGAAATGTA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (46 bp):
TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATG
Found at i:42772664 original size:27 final size:26
Alignment explanation
Indices: 42772616--42772675 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
42772606 GCGAGGCTGC
*
42772616 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
42772643 CAGATATTGTGCCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
42772669 CAGATAT
1 CAGATAT
42772676 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:42772720 original size:71 final size:67
Alignment explanation
Indices: 42772643--42772784 Score: 194
Period size: 67 Copynumber: 2.1 Consensus size: 67
42772633 TCACCAGATA
* * * *
42772643 CAGATATTGTGCCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACTAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
42772708 GGCTGC
62 GGCTGC
* *
42772714 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
42772779 GC
66 GC
42772781 CAGA
1 CAGA
42772785 ACGCTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
67 40 0.62
71 25 0.38
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:42772762 original size:27 final size:26
Alignment explanation
Indices: 42772714--42772765 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
42772704 GCGAGGCTGC
*
42772714 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
42772740 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
42772766 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:42780070 original size:21 final size:21
Alignment explanation
Indices: 42780044--42780086 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
42780034 CACCACAAAA
**
42780044 ATTGTAGCGAGGCTGCCAGAT
1 ATTGTAGCGAGGCCACCAGAT
*
42780065 ATTGTAGCTAGGCCACCAGAT
1 ATTGTAGCGAGGCCACCAGAT
42780086 A
1 A
42780087 CAGATATTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (21 bp):
ATTGTAGCGAGGCCACCAGAT
Found at i:42780098 original size:27 final size:26
Alignment explanation
Indices: 42780060--42780119 Score: 102
Period size: 27 Copynumber: 2.3 Consensus size: 26
42780050 GCGAGGCTGC
42780060 CAGATATTGTAGCTAGGCCACCAGATA
1 CAGATATTGTAGCTAGGCCACCAGA-A
42780087 CAGATATTGTAGCTAGGCCACCAGAA
1 CAGATATTGTAGCTAGGCCACCAGAA
*
42780113 TAGATAT
1 CAGATAT
42780120 ATATATGTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 7 0.22
27 25 0.78
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTAGCTAGGCCACCAGAA
Found at i:42781578 original size:12 final size:12
Alignment explanation
Indices: 42781560--42781626 Score: 73
Period size: 12 Copynumber: 5.6 Consensus size: 12
42781550 TGCACCAGCT
42781560 CCGGAGCCAGAG
1 CCGGAGCCAGAG
*
42781572 CCAGAGCCAGAG
1 CCGGAGCCAGAG
* *
42781584 CCGGAGGCAGTG
1 CCGGAGCCAGAG
*
42781596 CCGGACCCAGAG
1 CCGGAGCCAGAG
*
42781608 -CGGCGGCCAGAG
1 CCGG-AGCCAGAG
42781620 CCGGAGC
1 CCGGAGC
42781627 TACACTCAGG
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 3 0.07
12 37 0.86
13 3 0.07
ACGTcount: A:0.22, C:0.34, G:0.42, T:0.01
Consensus pattern (12 bp):
CCGGAGCCAGAG
Found at i:42781786 original size:33 final size:33
Alignment explanation
Indices: 42781744--42781828 Score: 116
Period size: 33 Copynumber: 2.6 Consensus size: 33
42781734 CCACATCTGC
42781744 ACTCTACTCCTCCCGGCTCATATCCACCACCGT
1 ACTCTACTCCTCCCGGCTCATATCCACCACCGT
* * * *
42781777 ACTCTACTCCTCCTGGCCCATATCCAGCGCCGT
1 ACTCTACTCCTCCCGGCTCATATCCACCACCGT
* *
42781810 TCTCTACTCCACCCGGCTC
1 ACTCTACTCCTCCCGGCTC
42781829 GAGTTCATCA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.15, C:0.48, G:0.12, T:0.25
Consensus pattern (33 bp):
ACTCTACTCCTCCCGGCTCATATCCACCACCGT
Found at i:42782982 original size:15 final size:14
Alignment explanation
Indices: 42782950--42783016 Score: 89
Period size: 14 Copynumber: 4.7 Consensus size: 14
42782940 CCAGAAAAGT
42782950 AAATCATTTTCCAG
1 AAATCATTTTCCAG
42782964 AAATCATTTTCCAAG
1 AAATCATTTTCC-AG
* *
42782979 AAATTATTTTTCAG
1 AAATCATTTTCCAG
*
42782993 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
42783007 AAAACATTTT
1 AAATCATTTT
42783017 ACCTGCAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 34 0.74
15 12 0.26
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:42785309 original size:25 final size:27
Alignment explanation
Indices: 42785272--42785324 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
42785262 TCAAACATGC
42785272 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
42785298 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
42785324 A
1 A
42785325 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:42786841 original size:32 final size:32
Alignment explanation
Indices: 42786804--42786868 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
42786794 AATGCTTACC
42786804 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
42786836 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
42786868 A
1 A
42786869 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:42791723 original size:12 final size:12
Alignment explanation
Indices: 42791706--42791736 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
42791696 AGTACTACCT
42791706 CGGCCTCGACCA
1 CGGCCTCGACCA
42791718 CGGCCTCGACCA
1 CGGCCTCGACCA
42791730 CGGCCTC
1 CGGCCTC
42791737 TTCCCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:42793368 original size:25 final size:27
Alignment explanation
Indices: 42793331--42793380 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
42793321 TCAAACATGC
42793331 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
42793357 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
42793381 TAAAACTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:42794880 original size:32 final size:32
Alignment explanation
Indices: 42794843--42794907 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
42794833 AATGCTTACC
42794843 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
42794875 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
42794907 A
1 A
42794908 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:42799587 original size:25 final size:25
Alignment explanation
Indices: 42799550--42799598 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
42799540 TTACACGACT
* *
42799550 TGGAACACGGGCGTGTGATACGGCC
1 TGGAACACAGGCGTGTGACACGGCC
42799575 TGGAACACAGGCGTGTGACACGGC
1 TGGAACACAGGCGTGTGACACGGC
42799599 TGTGTGACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.24, G:0.39, T:0.14
Consensus pattern (25 bp):
TGGAACACAGGCGTGTGACACGGCC
Found at i:42803916 original size:17 final size:17
Alignment explanation
Indices: 42803893--42803931 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
42803883 TATTTAATAC
* *
42803893 ATTATTATCATCGTATT
1 ATTATTACCATCATATT
*
42803910 TTTATTACCATCATATT
1 ATTATTACCATCATATT
42803927 ATTAT
1 ATTAT
42803932 GTTATTACAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.13, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTATTACCATCATATT
Found at i:42804387 original size:21 final size:20
Alignment explanation
Indices: 42804355--42804398 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
42804345 ATGTTTTTCT
*
42804355 TTTATTTACTTATGTATTCG
1 TTTATTTACTTATGCATTCG
* *
42804375 TTTATTTCCCTTATGCATTTG
1 TTTATTT-ACTTATGCATTCG
42804396 TTT
1 TTT
42804399 TATATTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.16, C:0.14, G:0.09, T:0.61
Consensus pattern (20 bp):
TTTATTTACTTATGCATTCG
Found at i:42808241 original size:19 final size:19
Alignment explanation
Indices: 42808203--42808241 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
42808193 AAATAGTAAG
*
42808203 AATTTGTTTTCTAAGTATA
1 AATTTGTTTTCTAAGAATA
* *
42808222 AATTTTTTTTCTAGGAATA
1 AATTTGTTTTCTAAGAATA
42808241 A
1 A
42808242 CAATTCTGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
AATTTGTTTTCTAAGAATA
Found at i:42812442 original size:14 final size:14
Alignment explanation
Indices: 42812423--42812453 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
42812413 TCATAATTTG
42812423 ATGTAAATGGGCTT
1 ATGTAAATGGGCTT
42812437 ATGTAAATGGGCTT
1 ATGTAAATGGGCTT
42812451 ATG
1 ATG
42812454 GAAGGCCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (14 bp):
ATGTAAATGGGCTT
Found at i:42814057 original size:25 final size:25
Alignment explanation
Indices: 42814028--42814075 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
42814018 TTATAATATG
* * *
42814028 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
42814053 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
42814076 GTTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:42814159 original size:11 final size:11
Alignment explanation
Indices: 42814123--42814178 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
42814113 CATGGTATGT
42814123 ATGATATGCAC
1 ATGATATGCAC
* *
42814134 ATGACATG--T
1 ATGATATGCAC
42814143 ATGATATGCAC
1 ATGATATGCAC
*
42814154 ATGATATG--T
1 ATGATATGCAC
42814163 ATGATATGCAC
1 ATGATATGCAC
42814174 ATGAT
1 ATGAT
42814179 GTATTATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:42814178 original size:20 final size:20
Alignment explanation
Indices: 42814112--42814178 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
42814102 ATTTTGATAA
*
42814112 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
42814132 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
42814152 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
42814172 ACATGAT
1 ACATGAT
42814179 GTATTATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:42814292 original size:45 final size:45
Alignment explanation
Indices: 42814228--42814320 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
42814218 AGGAAGTGCA
42814228 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTT-TGCCCCAGTTATT
42814273 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTTGCCCCAGTTATT
42814318 AAA
1 AAA
42814321 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 2 0.04
45 45 0.96
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (45 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTTGCCCCAGTTATT
Found at i:42814322 original size:23 final size:23
Alignment explanation
Indices: 42814228--42814320 Score: 172
Period size: 22 Copynumber: 4.1 Consensus size: 23
42814218 AGGAAGTGCA
42814228 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
42814251 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
42814273 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
42814296 AAAGGGCTT-TGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
42814318 AAA
1 AAA
42814321 AGAGGCTAGG
Statistics
Matches: 69, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
22 38 0.55
23 31 0.45
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:42822095 original size:25 final size:25
Alignment explanation
Indices: 42822066--42822113 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
42822056 TTATAATATG
* * *
42822066 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
42822091 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
42822114 GTTTATATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:42822195 original size:11 final size:11
Alignment explanation
Indices: 42822159--42822214 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
42822149 CATGGTATGT
42822159 ATGATATGCAC
1 ATGATATGCAC
* *
42822170 ATGACATG--T
1 ATGATATGCAC
42822179 ATGATATGCAC
1 ATGATATGCAC
*
42822190 ATGATATG--T
1 ATGATATGCAC
42822199 ATGATATGCAC
1 ATGATATGCAC
42822210 ATGAT
1 ATGAT
42822215 GTATTTATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:42822214 original size:20 final size:20
Alignment explanation
Indices: 42822148--42822214 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
42822138 ATTTTGATAA
*
42822148 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
42822168 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
42822188 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
42822208 ACATGAT
1 ACATGAT
42822215 GTATTTATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:42822344 original size:24 final size:24
Alignment explanation
Indices: 42822264--42822358 Score: 124
Period size: 23 Copynumber: 4.0 Consensus size: 24
42822254 GAGGAAGTGC
42822264 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
42822288 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
42822311 AAAAAGGGCTT-TGCCCTAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
42822335 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
42822359 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
23 29 0.46
24 18 0.29
25 16 0.25
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:42824034 original size:27 final size:27
Alignment explanation
Indices: 42824003--42824339 Score: 406
Period size: 27 Copynumber: 12.5 Consensus size: 27
42823993 AATACTTTAG
* ***
42824003 TTTACTAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACTGTTTTACCCTCGA
* *
42824030 TTTACAAAATTGCCGTTTTACCCTCGA
1 TTTACAAAATTACTGTTTTACCCTCGA
* *
42824057 TTTACAGAATTACTGTTTTACCCTCAA
1 TTTACAAAATTACTGTTTTACCCTCGA
*
42824084 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACTGTTTTACCCTCGA
*
42824111 TTTACAAAATTACTATTTTACCCTCGA
1 TTTACAAAATTACTGTTTTACCCTCGA
* * *
42824138 TTTACAGAATTACAGTTTTACCCTCAA
1 TTTACAAAATTACTGTTTTACCCTCGA
* * * *
42824165 TTTACAGAATTATTGTTTTGCCCTCAA
1 TTTACAAAATTACTGTTTTACCCTCGA
**
42824192 TTTACAAAATTACCATTTTACCCTCGA
1 TTTACAAAATTACTGTTTTACCCTCGA
*
42824219 TTTACAAAATTACTATTTTACCCTCGA
1 TTTACAAAATTACTGTTTTACCCTCGA
*
42824246 TTTACAGAATTA-TCGTTTTACCCTCGA
1 TTTACAAAATTACT-GTTTTACCCTCGA
* *
42824273 TTTACAAAATTATTGTTTTACCCTCAA
1 TTTACAAAATTACTGTTTTACCCTCGA
*** * *
42824300 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGTTTTACCCTCGA
42824327 TTTACAAAATTAC
1 TTTACAAAATTAC
42824340 CAAAATACCC
Statistics
Matches: 268, Mismatches: 40, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 266 0.99
28 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (27 bp):
TTTACAAAATTACTGTTTTACCCTCGA
Found at i:42824437 original size:27 final size:27
Alignment explanation
Indices: 42824305--42824566 Score: 115
Period size: 27 Copynumber: 9.8 Consensus size: 27
42824295 CTCAATTTAC
** * * **
42824305 AAAATTACTGAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
**
42824332 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GATTTGT
**
42824359 AAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* *
42824386 AAAATTATCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
42824413 GAAATTATCAAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
*** **
42824440 AAAA-TATTGAAATACCCCTG-TAGGGT
1 AAAATTACCAAAATACCCCTGAT-TTGT
* ** * **
42824466 AGAATTACGGAAATACCCCAG-TAGGGT
1 AAAATTACCAAAATACCCCTGAT-TTGT
* * **
42824493 AGAATTACCAAAATACCCTTG-TAGGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * **
42824519 AGAATTACCGAAATACCCCTG-TAGGAT
1 AAAATTACCAAAATACCCCTGATTTG-T
*
42824546 AGAATTACCAAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
42824567 TAGGGTAGAA
Statistics
Matches: 191, Mismatches: 37, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
25 1 0.01
26 46 0.24
27 140 0.73
28 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:42824567 original size:27 final size:27
Alignment explanation
Indices: 42824448--42824661 Score: 306
Period size: 27 Copynumber: 8.0 Consensus size: 27
42824438 GTAAAATATT
*
42824448 GAAATACCCCTGTAGGGTAGAATTACG
1 GAAATACCCCTGTAGGGTAGAATTACC
*
42824475 GAAATACCCCAGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
42824502 AAAATACCCTTGTA-GGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
42824528 GAAATACCCCTGTAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
42824555 AAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
42824582 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
42824609 GAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
42824636 GAGATACCCTTTTGGGGTA-AATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
42824662 ATTTTGCCCC
Statistics
Matches: 167, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
26 31 0.19
27 136 0.81
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:42824659 original size:80 final size:80
Alignment explanation
Indices: 42824448--42824662 Score: 299
Period size: 80 Copynumber: 2.7 Consensus size: 80
42824438 GTAAAATATT
* * * *
42824448 GAAATACCCCTGTAGGGTAGAATTACGGAAATACCCCAGTAGGGTAGAATTACCAAAATACCCTT
1 GAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCT
42824513 GTAGGTAGAATTACC
66 GTAGGTAGAATTACC
* **
42824528 GAAATACCCCTGT-AGGATAGAATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCC
1 GAAATACCCCTGTAAGG-TAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCC
42824592 TGTAGGGTAGAATTACC
65 TGTA-GGTAGAATTACC
* * * *
42824609 GAAATACCCCTGTAAGGTAGAATTACCGAGATACCCTTTTGGGGTA-AATTACCA
1 GAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCA
42824663 TTTTGCCCCT
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 2 0.02
80 64 0.54
81 49 0.42
82 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (80 bp):
GAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCT
GTAGGTAGAATTACC
Found at i:42824672 original size:107 final size:107
Alignment explanation
Indices: 42824449--42824644 Score: 338
Period size: 107 Copynumber: 1.8 Consensus size: 107
42824439 TAAAATATTG
*
42824449 AAATACCCCTGTAGGGTAGAATTACGGAAATACCCCAGTAGGGTAGAATTACCAAAATACCCTTG
1 AAATACCCCTGTAGGGTAGAATTACGGAAATACCCCAGTAGGGTAGAATTACCAAAATACCCCTG
42824514 TAGGTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCA
66 TAGGTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCA
* * *
42824556 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTG
1 AAATACCCCTGTAGGGTAGAATTACGGAAATACCCCAGTAGGGTAGAATTACCAAAATACCCCTG
*
42824621 TAAGGTAGAATTACCGAGATACCC
66 T-AGGTAGAATTACCGAAATACCC
42824645 TTTTGGGGTA
Statistics
Matches: 83, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
107 62 0.75
108 21 0.25
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (107 bp):
AAATACCCCTGTAGGGTAGAATTACGGAAATACCCCAGTAGGGTAGAATTACCAAAATACCCCTG
TAGGTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCA
Found at i:42825161 original size:31 final size:29
Alignment explanation
Indices: 42825126--42825208 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 29
42825116 CGTTTACAGT
* **
42825126 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGT-ATATG-TTAAACG
*
42825157 AAAGGCTTCGGCCCAGTA-ACAGTTAAACG
1 AAAGGCTTCGGCCCAGTATA-TGTTAAACG
42825186 AAAGGCTTCGGCCCAGTATATGT
1 AAAGGCTTCGGCCCAGTATATGT
42825209 CGAGACTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
29 25 0.56
30 3 0.07
31 17 0.38
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (29 bp):
AAAGGCTTCGGCCCAGTATATGTTAAACG
Found at i:42841393 original size:31 final size:31
Alignment explanation
Indices: 42841355--42841417 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
42841345 CGTTCCACAC
42841355 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
**
42841386 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
42841417 T
1 T
42841418 AATGTAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCGAAGCCTT
Found at i:42841718 original size:25 final size:24
Alignment explanation
Indices: 42841630--42841756 Score: 157
Period size: 25 Copynumber: 5.2 Consensus size: 24
42841620 GGCCTAGTGT
42841630 CTTTTAATAACTGGGGCA-AAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
42841653 CTTTTAATAACTTGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
42841677 CTTTTAATAACTAGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
42841701 CTTTATCATAATTGGGGCATAAGCC
1 CTTT-TAATAACTGGGGCATAAGCC
* * * *
42841726 ATTTATCATAACTGAGGCATAGGCC
1 CTTT-TAATAACTGGGGCATAAGCC
42841751 CTTTTA
1 CTTTTA
42841757 CACTTCCTCC
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
23 17 0.19
24 33 0.36
25 41 0.45
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:42841830 original size:20 final size:20
Alignment explanation
Indices: 42841805--42841851 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
42841795 TTATGAATAC
42841805 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
42841825 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
42841845 ACCATGT
1 ATCATGT
42841852 TTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:42849413 original size:31 final size:31
Alignment explanation
Indices: 42849375--42849437 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
42849365 CGTTTCACAC
42849375 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
** *
42849406 TTCATATTTCATATTACTGGGCTGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
42849437 T
1 T
42849438 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCGAAGCCTT
Found at i:42849742 original size:25 final size:25
Alignment explanation
Indices: 42849621--42849797 Score: 222
Period size: 25 Copynumber: 7.2 Consensus size: 25
42849611 AGTATAGCTG
*
42849621 CTTTATCATATAACTGGAGGCCT-AGCC
1 CTTTATC--ATAACTGG-GGCATAAGCC
*
42849648 TCTTT-TAATAACTGGGGCA-AAGCC
1 -CTTTATCATAACTGGGGCATAAGCC
*
42849672 CTTT-TAATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
* *
42849696 CTTT-TAATAA-TTGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
42849719 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
*
42849744 CTTTATCATAACTAGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
42849769 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
42849794 CTTT
1 CTTT
42849798 TACACTTCCT
Statistics
Matches: 138, Mismatches: 7, Indels: 11
0.88 0.04 0.07
Matches are distributed among these distances:
23 34 0.25
24 27 0.20
25 72 0.52
27 1 0.01
28 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (25 bp):
CTTTATCATAACTGGGGCATAAGCC
Found at i:42849872 original size:20 final size:20
Alignment explanation
Indices: 42849847--42849913 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
42849837 TTATGAATAC
*
42849847 ATCATGTGCGTATCATACAT
1 ATCATGTGCATATCATACAT
42849867 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
42849887 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
42849907 ACCATGT
1 ATCATGT
42849914 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:42851973 original size:40 final size:40
Alignment explanation
Indices: 42851929--42852023 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 40
42851919 CATCTATTTG
* *
42851929 TGGCACTTAGTGTGCAATTCGACATAGCTTCTGGTATATA
1 TGGCACTTAGTGTGCAATTCGACATAGCTTCAGCTATATA
* * * * *
42851969 TGGCACTTAATGTGCGATTTGAGATAGCTTCAGCTATGTA
1 TGGCACTTAGTGTGCAATTCGACATAGCTTCAGCTATATA
* *
42852009 CGACACTTAGTGTGC
1 TGGCACTTAGTGTGC
42852024 GAGATATCGA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGCAATTCGACATAGCTTCAGCTATATA
Found at i:42859057 original size:28 final size:28
Alignment explanation
Indices: 42858970--42859046 Score: 136
Period size: 28 Copynumber: 2.8 Consensus size: 28
42858960 CTTCGGCTAT
*
42858970 GTATGACACTTAGTGTGTGAGATATCGA
1 GTATGGCACTTAGTGTGTGAGATATCGA
*
42858998 GTGTGGCACTTAGTGTGTGAGATATCGA
1 GTATGGCACTTAGTGTGTGAGATATCGA
42859026 GTATGGCACTTAGTGTGTGAG
1 GTATGGCACTTAGTGTGTGAG
42859047 GCATTTAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.23, C:0.10, G:0.34, T:0.32
Consensus pattern (28 bp):
GTATGGCACTTAGTGTGTGAGATATCGA
Found at i:42861995 original size:40 final size:40
Alignment explanation
Indices: 42861889--42862072 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
42861879 TGCTGGAAAT
* * * * * **
42861889 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
42861929 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
42861969 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
42862007 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
42862048 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
42862073 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:42870100 original size:40 final size:40
Alignment explanation
Indices: 42869994--42870177 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 40
42869984 TGCTGGAAAT
* * * * * **
42869994 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
42870034 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
42870074 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * * *
42870112 TGATATCCGGGTTAAGTCCTGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
42870153 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
42870178 GTTTGAACGA
Statistics
Matches: 113, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
38 1 0.01
39 28 0.25
40 84 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:42877500 original size:25 final size:25
Alignment explanation
Indices: 42877450--42877557 Score: 157
Period size: 25 Copynumber: 4.4 Consensus size: 25
42877440 TTGGAGGCCT
*
42877450 AGCCTCTTTT-GATAAA-TGGGGGAA
1 AGCC-CTTTTCGATAAACTGGGGCAA
*
42877474 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCCTTTTCGATAAACTGGGGCAA
*
42877499 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTTCGATAAACTGGGGCAA
*
42877524 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTTCGATAAACTGGGGCAA
42877549 AGCCCTTTT
1 AGCCCTTTT
42877558 AGCACTTCCT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
23 5 0.06
24 10 0.13
25 64 0.81
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTCGATAAACTGGGGCAA
Found at i:42877792 original size:27 final size:27
Alignment explanation
Indices: 42877763--42877957 Score: 282
Period size: 27 Copynumber: 7.2 Consensus size: 27
42877753 GGGCAAAATG
* * * * *
42877763 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
42877790 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
42877817 GTAATTCTACCCTACAAGGGTATTTTT
1 GTAATTCTACCCTACAGGGGTATTTCA
42877844 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
42877871 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
42877898 GTAATTCTACCTTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
42877925 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
42877952 ATAATT
1 GTAATT
42877958 TTGTAAATCG
Statistics
Matches: 150, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:42877972 original size:27 final size:27
Alignment explanation
Indices: 42877942--42878316 Score: 147
Period size: 27 Copynumber: 13.9 Consensus size: 27
42877932 TACCCTACAG
*
42877942 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
** * *
42877969 GGGTAAAAT-GGTAATTCTGTAAATC-A
1 GGGT-ATTTCAGTAATTTTGTAAATCGA
* * * *
42877995 GAGGTACTTT-GGTAATTTTTGCAAGTCAA
1 G-GGTA-TTTCAGTAA-TTTTGTAAATCGA
**
42878024 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
42878051 GGGTATTTCAGTAATTTTGTAAA-CTGA
1 GGGTATTTCAGTAATTTTGTAAATC-GA
* *** *
42878078 GGGTATTTCGGTAATTTCACAAATCAA
1 GGGTATTTCAGTAATTTTGTAAATCGA
** ** *
42878105 GGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTCAGTAATTTTGTAAATCGA
** * * *
42878131 GAGGTATTTTGGTAATTTTATAAACCAA
1 G-GGTATTTCAGTAATTTTGTAAATCGA
** ** *
42878159 GGGTATTTTGGTAATTTTACAAGTCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
* ***
42878186 GGGTATTTTAGTAATTTCACAAATC-A
1 GGGTATTTCAGTAATTTTGTAAATCGA
** ** *
42878212 GGGGTATTTTGGTAATTTTACAAA-CCA
1 -GGGTATTTCAGTAATTTTGTAAATCGA
* ** *
42878239 GGGGTATTT-TGATAATTTTACAAA-CCA
1 -GGGTATTTCAG-TAATTTTGTAAATCGA
* * *
42878266 GGGGTATTTTAGTAATTTTATAAATTGA
1 -GGGTATTTCAGTAATTTTGTAAATCGA
* * *
42878294 GGGCATTTTAGTAATTTGGTAAA
1 GGGTATTTCAGTAATTTTGTAAA
42878317 CTAAAGTATT
Statistics
Matches: 290, Mismatches: 43, Indels: 30
0.80 0.12 0.08
Matches are distributed among these distances:
26 10 0.03
27 254 0.88
28 24 0.08
29 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTGTAAATCGA
Found at i:42878037 original size:28 final size:28
Alignment explanation
Indices: 42878006--42878310 Score: 186
Period size: 27 Copynumber: 11.2 Consensus size: 28
42877996 AGGTACTTTG
* *
42878006 GTAATTTTTGCAAGTCAAGGGTATTTCA
1 GTAATTTTTACAAATCAAGGGTATTTCA
*
42878034 GTAA-TTTTACAAATCGAGGGTATTTCA
1 GTAATTTTTACAAATCAAGGGTATTTCA
* * *
42878061 GTAATTTTGTA-AACT-GAGGGTATTTCG
1 GTAATTTT-TACAAATCAAGGGTATTTCA
* **
42878088 GTAA-TTTCACAAATCAAGGGTATTTTG
1 GTAATTTTTACAAATCAAGGGTATTTCA
* **
42878115 GTAA-TTTTACAAA-CCAGAGGTATTTTG
1 GTAATTTTTACAAATCAAG-GGTATTTCA
* * **
42878142 GTAA-TTTTATAAACCAAGGGTATTTTG
1 GTAATTTTTACAAATCAAGGGTATTTCA
* * *
42878169 GTAA-TTTTACAAGTCGAGGGTATTTTA
1 GTAATTTTTACAAATCAAGGGTATTTCA
* * **
42878196 GTAA-TTTCACAAATCAGGGGTATTTTG
1 GTAATTTTTACAAATCAAGGGTATTTCA
* * *
42878223 GTAA-TTTTACAAACCAGGGGTATTT-T
1 GTAATTTTTACAAATCAAGGGTATTTCA
* * *
42878249 GATAA-TTTTACAAACCAGGGGTATTTTA
1 G-TAATTTTTACAAATCAAGGGTATTTCA
* ** * *
42878277 GTAA-TTTTATAAATTGAGGGCATTTTA
1 GTAATTTTTACAAATCAAGGGTATTTCA
42878304 GTAATTT
1 GTAATTT
42878311 GGTAAACTAA
Statistics
Matches: 235, Mismatches: 33, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.00
26 10 0.04
27 206 0.88
28 16 0.07
29 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (28 bp):
GTAATTTTTACAAATCAAGGGTATTTCA
Found at i:42878092 original size:54 final size:54
Alignment explanation
Indices: 42878023--42878310 Score: 296
Period size: 54 Copynumber: 5.3 Consensus size: 54
42878013 TTGCAAGTCA
* * ** *
42878023 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAAACTG
1 AGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTATAAACTG
** * * *
42878077 AGGGTATTTCGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAAC-C
1 AGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTATAAACTG
* * * * *
42878130 AGAGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTA-CAAGTCG
1 AG-GGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTATAAACT-G
* * * *
42878185 AGGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAAC-C
1 AGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTATAAACTG
* * * *
42878238 AGGGGTATTTT-GATAATTTTACAAACCAGGGGTATTTTAGTAATTTTATAAATTG
1 A-GGGTATTTTAG-TAATTTTACAAATCAAGGGTATTTTGGTAATTTTATAAACTG
*
42878293 AGGGCATTTTAGTAATTT
1 AGGGTATTTTAGTAATTT
42878311 GGTAAACTAA
Statistics
Matches: 196, Mismatches: 30, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
53 6 0.03
54 184 0.94
55 6 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTATAAACTG
Found at i:42878137 original size:81 final size:80
Alignment explanation
Indices: 42877997--42878290 Score: 338
Period size: 81 Copynumber: 3.6 Consensus size: 80
42877987 GTAAATCAGA
* * * * **
42877997 GGTACTTTGGTAATTTTTGCAAGTCAAGGGTATTTCAGTAATTTTACAAATC-GAGGGTATTTCA
1 GGTATTTTGGTAA-TTTTACAAATCAAGGGTATTTTAGTAATTTTACAAATCAGA-GGTATTTTG
* *
42878061 GTAATTTTGTAAACTGAG
64 GTAATTTTATAAAC-AAG
* * * *
42878079 GGTATTTCGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAATCAGAGGTATTTTGGT
42878144 AATTTTATAAACCAAG
66 AATTTTATAAA-CAAG
* * * *
42878160 GGTATTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAATCAGAGGTATTTTGGT
* *
42878225 AATTTTACAAACCAGG
66 AATTTTATAAA-CAAG
* * * *
42878241 GGTATTTTGATAATTTTACAAACCAGGGGTATTTTAGTAATTTTATAAAT
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAAT
42878291 TGAGGGCATT
Statistics
Matches: 181, Mismatches: 29, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
81 167 0.92
82 14 0.08
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (80 bp):
GGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAATCAGAGGTATTTTGGT
AATTTTATAAACAAG
Found at i:42878302 original size:81 final size:80
Alignment explanation
Indices: 42877979--42878310 Score: 317
Period size: 81 Copynumber: 4.1 Consensus size: 80
42877969 GGGTAAAATG
* * * * * * * * *
42877979 GTAATTCTGTAAATCAGAGGTACTTTGGTAATTTTTGCAAGTCAAGGGTATTTCAGTAATTTTAC
1 GTAATTTTATAAACCAGGGGTATTTTGGTAA-TTTTACAAATCAGGGGTATTTTAGTAATTTTAC
* *
42878044 AAATCGAGGGTATTTCA
65 AAA-CCAGGGTATTTTA
* * * * * *
42878061 GTAATTTTGTAAA-CTGAGGGTATTTCGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTAC
1 GTAATTTTATAAACCAG-GGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTAC
*
42878125 AAACCAGAGGTATTTTG
65 AAACCAG-GGTATTTTA
* * *
42878142 GTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAGTC-GAGGGTATTTTAGTAATTTCAC
1 GTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTAGTAATTTTAC
* *
42878206 AAATCAGGGGTATTTTG
65 AAACCA-GGGTATTTTA
* * * *
42878223 GTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTAGTAATTTTATA
1 GTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACA
** *
42878288 AATTGAGGGCATTTTA
66 AA-CCAGGGTATTTTA
42878304 GTAATTT
1 GTAATTT
42878311 GGTAAACTAA
Statistics
Matches: 210, Mismatches: 33, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
80 3 0.01
81 179 0.85
82 28 0.13
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (80 bp):
GTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACA
AACCAGGGTATTTTA
Found at i:42878723 original size:21 final size:21
Alignment explanation
Indices: 42878697--42878739 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
42878687 CTCTCCTCAT
42878697 GGTTCTCTCTATTTAAAGCTA
1 GGTTCTCTCTATTTAAAGCTA
42878718 GGTTCTCTCTATTTAAAGCTA
1 GGTTCTCTCTATTTAAAGCTA
42878739 G
1 G
42878740 CTTCGCATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (21 bp):
GGTTCTCTCTATTTAAAGCTA
Found at i:42879672 original size:19 final size:19
Alignment explanation
Indices: 42879648--42879685 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
42879638 TAATGTAATG
42879648 ACATTTGTATCCTATACTA
1 ACATTTGTATCCTATACTA
42879667 ACATTTGTATCCTATACTA
1 ACATTTGTATCCTATACTA
42879686 TTCCTAAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (19 bp):
ACATTTGTATCCTATACTA
Found at i:42882718 original size:30 final size:30
Alignment explanation
Indices: 42882682--42882739 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
42882672 GAGGCATAAG
42882682 CTATGACTTTGCCTTCCTACATCAAAACGC
1 CTATGACTTTGCCTTCCTACATCAAAACGC
42882712 CTATGACTTTGCCTTCCTACATCAAAAC
1 CTATGACTTTGCCTTCCTACATCAAAAC
42882740 ACAACCTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.33, G:0.09, T:0.31
Consensus pattern (30 bp):
CTATGACTTTGCCTTCCTACATCAAAACGC
Found at i:42891457 original size:20 final size:20
Alignment explanation
Indices: 42891432--42891546 Score: 81
Period size: 20 Copynumber: 5.8 Consensus size: 20
42891422 TTGTACGAGA
*
42891432 TTTGCACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCTTG
*
42891452 TTTGCAC-TCTAGTGCCCTTG
1 TTTGCACTTC-GGTGCCCTTG
* * * * *
42891472 TATACACTTTGGTGTCTTTG
1 TTTGCACTTCGGTGCCCTTG
* *
42891492 TTCGCACTACGGTGCCCTTG
1 TTTGCACTTCGGTGCCCTTG
* *
42891512 TTTGCACATT-TGTGCCCCTG
1 TTTGCAC-TTCGGTGCCCTTG
* *
42891532 TCTGCACTTTGGTGC
1 TTTGCACTTCGGTGC
42891547 TCTAGTTATG
Statistics
Matches: 70, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
19 4 0.06
20 64 0.91
21 2 0.03
ACGTcount: A:0.10, C:0.29, G:0.23, T:0.39
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCTTG
Found at i:42894259 original size:68 final size:67
Alignment explanation
Indices: 42894187--42894336 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
42894177 CATCATGTGT
* * * *
42894187 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
42894249 ATGTAG
62 ATGTAG
** * *
42894255 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
42894320 AG
66 AG
42894322 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
42894337 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Done.