Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 74 of 141
Found at i:24380368 original size:81 final size:81
Alignment explanation
Indices: 24380229--24380409 Score: 260
Period size: 81 Copynumber: 2.2 Consensus size: 81
24380219 AGGGGTATAA
* *
24380229 CAGTCATTTTATCCTAT-GAGGTATTTCAGACATTTTACCCTATGGGGGTATTTCGGTC-ATTCT
1 CAGTCATTTTATCCTATGGGGGTATTTCAGACATCTTACCCTATGGGGGTATTTCGGTCAATT-T
* *
24380292 ACCCTATGGGGGTATTT
65 ACCATATGAGGGTATTT
* *
24380309 CGGTCATTTTATCCTATGGGGGTATTTC-GATCATCTTACCCTATGGGGGTATTTTGGTCAATTT
1 CAGTCATTTTATCCTATGGGGGTATTTCAGA-CATCTTACCCTATGGGGGTATTTCGGTCAATTT
24380373 ACCATATGAGGGTATTT
65 ACCATATGAGGGTATTT
*
24380390 CAGTTATTTTATCCTATGGG
1 CAGTCATTTTATCCTATGGG
24380410 CTATTTTAGT
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
80 18 0.20
81 69 0.77
82 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (81 bp):
CAGTCATTTTATCCTATGGGGGTATTTCAGACATCTTACCCTATGGGGGTATTTCGGTCAATTTA
CCATATGAGGGTATTT
Found at i:24383847 original size:27 final size:27
Alignment explanation
Indices: 24383817--24384030 Score: 234
Period size: 27 Copynumber: 7.9 Consensus size: 27
24383807 GGTATAACAG
*
24383817 TCATTTTATCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
24383844 TCATTTTACCCTATGGGAGTATTTC-A
1 TCATTTTACCCTATGGGGGTATTTCGA
* * *
24383870 GTCATTCTACCTTATGGGGGTATTTCTA
1 -TCATTTTACCCTATGGGGGTATTTCGA
* *
24383898 TCATTTTATCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
*
24383925 TTATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
** * *
24383952 TCATTTTACTTTATGAGTGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
** *
24383979 TCATTTTACCCTATAAGGGTATTT-TA
1 TCATTTTACCCTATGGGGGTATTTCGA
* * *
24384005 GTCATTTTACCGTATAGGGATATTTC
1 -TCATTTTACCCTATGGGGGTATTTC
24384031 AGTTATTTTA
Statistics
Matches: 157, Mismatches: 26, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 154 0.98
28 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:24383907 original size:81 final size:81
Alignment explanation
Indices: 24383817--24384043 Score: 280
Period size: 81 Copynumber: 2.8 Consensus size: 81
24383807 GGTATAACAG
*
24383817 TCATTTTATCCTATGGGGGTATTTCGATCATTTTACCCTATGGGAGTATTTCAGTCATTCTACCT
1 TCATTTTATCCTATGGGGGTATTTCGATCATTTTACCCTATGGGAGTATTTCAGTCATTTTACCT
* *
24383882 TATGGGGGTATTTCTA
66 TATGAGGGTATTTCGA
* * * *
24383898 TCATTTTATCCTATGGGGGTATTTCGGTTATTTTACCCTATGGGGGTATTTC-GATCATTTTACT
1 TCATTTTATCCTATGGGGGTATTTCGATCATTTTACCCTATGGGAGTATTTCAG-TCATTTTACC
*
24383962 TTATGAGTGTATTTCGA
65 TTATGAGGGTATTTCGA
* ** * * *
24383979 TCATTTTACCCTATAAGGGTATTT-TAGTCATTTTACCGTATAGGGA-TATTTCAGTTATTTTAC
1 TCATTTTATCCTATGGGGGTATTTCGA-TCATTTTACCCTAT-GGGAGTATTTCAGTCATTTTAC
24384042 CT
64 CT
24384044 ATTTTGGGGT
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.01
81 119 0.96
82 4 0.03
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.45
Consensus pattern (81 bp):
TCATTTTATCCTATGGGGGTATTTCGATCATTTTACCCTATGGGAGTATTTCAGTCATTTTACCT
TATGAGGGTATTTCGA
Found at i:24401846 original size:30 final size:30
Alignment explanation
Indices: 24401812--24401872 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
24401802 CGATTTCCTT
24401812 CCACATCAGCCTCTCGCGCCGACCTGGACG
1 CCACATCAGCCTCTCGCGCCGACCTGGACG
* *
24401842 CCACATCAGCCTCTCGCGCTGACGTGGACG
1 CCACATCAGCCTCTCGCGCCGACCTGGACG
24401872 C
1 C
24401873 GATTTCCTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.16, C:0.44, G:0.25, T:0.15
Consensus pattern (30 bp):
CCACATCAGCCTCTCGCGCCGACCTGGACG
Found at i:24402517 original size:12 final size:12
Alignment explanation
Indices: 24402500--24402525 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24402490 CAAAACAGGC
24402500 TTTTAGCGGCGT
1 TTTTAGCGGCGT
24402512 TTTTAGCGGCGT
1 TTTTAGCGGCGT
24402524 TT
1 TT
24402526 AGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:24402784 original size:115 final size:114
Alignment explanation
Indices: 24402594--24403151 Score: 748
Period size: 114 Copynumber: 4.9 Consensus size: 114
24402584 AAAATAAGCA
* * * * * *
24402594 TTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCTACCGACGTCATTTCCCGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACGCCGTTTTCTGAGCTT
* * *
24402658 TCGGGGATTTAGCGGCGTTTCTAAGAAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAAGGCT
* * * *
24402707 TTAGCGACG-TTTTCAGGAAAGCGCCGCAAAAAAAACCTAAGCCAAACGACGCCGTTTTCTTATC
1 TTAGCGGCGTTTTTGA-GAAAGCGCCGC-AAAAAAACCTAAGCCAAACGACGCCGTTTTCTGAGC
* * *
24402771 TTTCGGGGGTTTAGCGGCGTTTTTACGGAAGCGCCGCTAATGCTCAGGGCT
64 TTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAAGGCT
* * * * *
24402822 TTAGCGGCGTTTTCGGGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACGTCGTTTTCTCATCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACGCCGTTTTCTGAGCTT
* *
24402887 TCGGGGGTTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAAGGAT
66 TCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAAGGCT
* * *
24402936 TTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACGCCGTTTTCTGAGCTT
**
24403001 TCGGGGATTTAGCGGCGTTTTTAAGGAAGCGTTGCTAATGCTCAAGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAAGGCT
* * * *
24403050 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACTTAAGCCCAACGATGCC-TTTTTTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACGCCGTTTTCTGAGCTT
*
24403114 TCGGGGATATAGCGGCGTTTTT--GGAAAAGCGCCGCTAA
66 TCGGGGATTTAGCGGCGTTTTTAAGG--AAGCGCCGCTAA
24403152 AAATATTTTA
Statistics
Matches: 398, Mismatches: 41, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
111 2 0.01
112 5 0.01
113 61 0.15
114 234 0.59
115 93 0.23
116 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAAGGCT
Found at i:24403419 original size:15 final size:15
Alignment explanation
Indices: 24403399--24403429 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24403389 TACATTTTAA
24403399 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
24403414 GGTTTAGGGATTATG
1 GGTTTAGGGAGTATG
24403429 G
1 G
24403430 ATTAGGGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:24403718 original size:146 final size:146
Alignment explanation
Indices: 24403454--24404986 Score: 2791
Period size: 146 Copynumber: 10.4 Consensus size: 146
24403444 TTTAAGGTTT
24403454 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
1 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
24403519 CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
66 CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
24403584 TTTGTTCAAAATAAAA
131 TTTGTTCAAAATAAAA
24403600 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
1 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
24403665 CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
66 CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
24403730 TTTGTTCAAAATAAAA
131 TTTGTTCAAAATAAAA
24403746 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
1 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
24403811 CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
66 CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
24403876 TTTGTTCAAAATAAAA
131 TTTGTTCAAAATAAAA
24403892 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
1 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
24403957 CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
66 CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
24404022 TTTGTTCAAAATAAAA
131 TTTGTTCAAAATAAAA
24404038 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
1 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
24404103 CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
66 CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
24404168 TTTGTTCAAAATAAAA
131 TTTGTTCAAAATAAAA
24404184 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
1 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
24404249 CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
66 CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
24404314 TTTGTTCAAAATAAAA
131 TTTGTTCAAAATAAAA
24404330 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
1 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
* * *
24404395 CGCCGCAAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
66 CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
24404460 TTTGTTCAAAATAAAA
131 TTTGTTCAAAATAAAA
24404476 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
1 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
24404541 CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
66 CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
24404606 TTTGTTCAAAATGAAAA
131 TTTGTTCAAAAT-AAAA
*
24404623 AAAATTTACGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
1 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
* * *
24404688 CGCCGCAAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
66 CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
*
24404753 TTTGTTCAAAAT-GAA
131 TTTGTTCAAAATAAAA
24404768 AAAATATTGCGGCGTTTTTCATAAAAGCAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGT
1 AAAAT-TTGCGGCG-TTTT-AT----G-AAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGT
* * *
24404833 TATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAAC
58 TATAAAAACACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAAC
* * *
24404898 GGCGTTGTTTTATTTAAAATGAAAA
123 GGCGTCGTTTTGTTCAAAAT-AAAA
* * * * *
24404923 AAATTTTACAGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGGGGCGTTT-TTGTAAAAA
1 AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
24404987 ACGCCGAAAT
Statistics
Matches: 1355, Mismatches: 21, Indels: 22
0.97 0.02 0.02
Matches are distributed among these distances:
145 7 0.01
146 1027 0.76
147 180 0.13
148 3 0.00
152 3 0.00
153 123 0.09
154 6 0.00
155 6 0.00
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (146 bp):
AAAATTTGCGGCGTTTTATGAAAAGCGCCGCTAAAGGTAGGCAATAGCGGCGTTTGTTATAAAAA
CACCACGAAAAATAAATCAATTTATAAAAAATAAATTAATTTTTAGAATAGCAAAACGGCGTCGT
TTTGTTCAAAATAAAA
Found at i:24409680 original size:43 final size:43
Alignment explanation
Indices: 24409560--24409821 Score: 221
Period size: 43 Copynumber: 6.1 Consensus size: 43
24409550 TATATATTTT
* * * * * *
24409560 TAAAGGTTAT-GTTTTTAGCGGCGTTTCTGCGACAAGCGCTGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGTGAAAAGCGCCGC
* * * *
24409602 TAAAGGTTTAT--TCTTTAGTGGCATTTGTGAT-AAAAGCGTCGC
1 TAAAGG-TCATGGTCTTTAGCGGCGTTTGTG-TGAAAAGCGCCGC
24409644 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGTGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGTGAAAAGCGCCGC
* * * * *
24409687 TAAATGTCAGGGTCTATAGCGGCGTTTGTGGGAGAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGTGAAAAGCGCCGC
* * * * * *
24409730 TAAATGTCAGGGTCTATAGCGGCGTTT-TTTGGATAAGCGCCAC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGT-GAAAAGCGCCGC
* * *
24409773 TAAAGGTCATGATCTTTAGCGGCGTTTATTTCTGAAAA-CGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCG-TT-TGTGTGAAAAGCGCCGC
24409817 TAAAG
1 TAAAG
24409822 TTAGCGACGC
Statistics
Matches: 183, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
41 3 0.02
42 36 0.20
43 125 0.68
44 12 0.07
45 5 0.03
46 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (43 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGTGTGAAAAGCGCCGC
Found at i:24410940 original size:22 final size:23
Alignment explanation
Indices: 24410912--24410974 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 23
24410902 AATAATTATG
24410912 TTAATTTAATCATTTTC-TTTTT
1 TTAATTTAATCATTTTCATTTTT
24410934 TTAATTTAATCATTTTCATTTTT
1 TTAATTTAATCATTTTCATTTTT
* *
24410957 CTAAGCATTAATCATTTT
1 TTAA--TTTAATCATTTT
24410975 ATTAGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 17 0.47
23 8 0.22
25 11 0.31
ACGTcount: A:0.27, C:0.11, G:0.02, T:0.60
Consensus pattern (23 bp):
TTAATTTAATCATTTTCATTTTT
Found at i:24411886 original size:9 final size:9
Alignment explanation
Indices: 24411873--24411906 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
24411863 GAATAGCATT
24411873 ACAAAATAA
1 ACAAAATAA
*
24411882 TCAAAATAA
1 ACAAAATAA
*
24411891 ACAAAAGAA
1 ACAAAATAA
24411900 ACAAAAT
1 ACAAAAT
24411907 GAGTAAGTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.74, C:0.12, G:0.03, T:0.12
Consensus pattern (9 bp):
ACAAAATAA
Found at i:24413542 original size:21 final size:21
Alignment explanation
Indices: 24413518--24413557 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
24413508 TGGGCATTTC
24413518 CACACGGGC-AGGCCACACATT
1 CACACGGGCTA-GCCACACATT
24413539 CACACGGGCTAGCCACACA
1 CACACGGGCTAGCCACACA
24413558 CCCATGTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (21 bp):
CACACGGGCTAGCCACACATT
Found at i:24413706 original size:23 final size:24
Alignment explanation
Indices: 24413654--24413706 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
24413644 GTCTATAAAT
* *
24413654 ATCAATTAGAAGAAGATCTAAGGA
1 ATCACTTAGAAGAAGATCTAAGAA
*
24413678 AGCACTTAG-AGAAGAT-TGAAGAA
1 ATCACTTAGAAGAAGATCT-AAGAA
24413701 ATCACT
1 ATCACT
24413707 CGAAGAACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 1 0.04
23 16 0.67
24 7 0.29
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (24 bp):
ATCACTTAGAAGAAGATCTAAGAA
Found at i:24414408 original size:14 final size:14
Alignment explanation
Indices: 24414389--24414418 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24414379 GTTGCGTTCA
24414389 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
*
24414403 TAGTTAATTTAGAT
1 TAGTTAAATTAGAT
24414417 TA
1 TA
24414419 AAAATAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:24417043 original size:21 final size:21
Alignment explanation
Indices: 24417019--24417061 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
24417009 AACAAGCTAA
24417019 CAAATCTCCCTAGGACTTAGT
1 CAAATCTCCCTAGGACTTAGT
*
24417040 CAAATCTCCCTAGGTCTTAGT
1 CAAATCTCCCTAGGACTTAGT
24417061 C
1 C
24417062 TTATTACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (21 bp):
CAAATCTCCCTAGGACTTAGT
Found at i:24422660 original size:24 final size:24
Alignment explanation
Indices: 24422631--24422679 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
24422621 ATTTAGTTAT
24422631 TTTTCCTAATAAGCAAGATTCACA
1 TTTTCCTAATAAGCAAGATTCACA
24422655 TTTTCCTAATAAGCAAGATTCACA
1 TTTTCCTAATAAGCAAGATTCACA
24422679 T
1 T
24422680 ACTTCAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (24 bp):
TTTTCCTAATAAGCAAGATTCACA
Found at i:24432462 original size:45 final size:45
Alignment explanation
Indices: 24432398--24432578 Score: 362
Period size: 45 Copynumber: 4.0 Consensus size: 45
24432388 TGCAATATGG
24432398 ATATGAAATTTTAGAAACTTGGATGCCCAAAACATGGAAAAAAGA
1 ATATGAAATTTTAGAAACTTGGATGCCCAAAACATGGAAAAAAGA
24432443 ATATGAAATTTTAGAAACTTGGATGCCCAAAACATGGAAAAAAGA
1 ATATGAAATTTTAGAAACTTGGATGCCCAAAACATGGAAAAAAGA
24432488 ATATGAAATTTTAGAAACTTGGATGCCCAAAACATGGAAAAAAGA
1 ATATGAAATTTTAGAAACTTGGATGCCCAAAACATGGAAAAAAGA
24432533 ATATGAAATTTTAGAAACTTGGATGCCCAAAACATGGAAAAAAGA
1 ATATGAAATTTTAGAAACTTGGATGCCCAAAACATGGAAAAAAGA
24432578 A
1 A
24432579 AAAAAAAATT
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 136 1.00
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.22
Consensus pattern (45 bp):
ATATGAAATTTTAGAAACTTGGATGCCCAAAACATGGAAAAAAGA
Found at i:24436772 original size:21 final size:21
Alignment explanation
Indices: 24436748--24436787 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
24436738 AAGGAATCAG
24436748 GTGATATTTAAAAAGTATTCT
1 GTGATATTTAAAAAGTATTCT
24436769 GTGATATTTAAAAAGTATT
1 GTGATATTTAAAAAGTATT
24436788 TTGTTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (21 bp):
GTGATATTTAAAAAGTATTCT
Found at i:24439468 original size:21 final size:21
Alignment explanation
Indices: 24439442--24439481 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24439432 TTAGTTTTAA
24439442 GTTTGATCA-AATAATATTTGG
1 GTTTGA-CATAATAATATTTGG
*
24439463 GTTTGACATAATATTATTT
1 GTTTGACATAATAATATTT
24439482 CTAATATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (21 bp):
GTTTGACATAATAATATTTGG
Found at i:24443898 original size:3 final size:3
Alignment explanation
Indices: 24443890--24443915 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24443880 TGACTAACAT
24443890 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
24443916 TAAAAAGAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:24446060 original size:11 final size:11
Alignment explanation
Indices: 24446044--24446070 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
24446034 GAAAGAATCT
24446044 ACCTAGACTTC
1 ACCTAGACTTC
24446055 ACCTAGACTTC
1 ACCTAGACTTC
24446066 ACCTA
1 ACCTA
24446071 TTATCCTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.37, G:0.07, T:0.26
Consensus pattern (11 bp):
ACCTAGACTTC
Found at i:24458442 original size:12 final size:12
Alignment explanation
Indices: 24458425--24458470 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
24458415 ACTCATCTCC
24458425 TTATAATTTTTA
1 TTATAATTTTTA
24458437 TTATAATTGTTTA
1 TTATAATT-TTTA
* *
24458450 TAAT-ATTTATA
1 TTATAATTTTTA
24458461 TTATAATTTT
1 TTATAATTTT
24458471 GATATATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 6 0.21
12 15 0.54
13 7 0.25
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (12 bp):
TTATAATTTTTA
Found at i:24458453 original size:22 final size:24
Alignment explanation
Indices: 24458425--24458468 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
24458415 ACTCATCTCC
24458425 TTATAAT-TTT-TATTATAATTGT
1 TTATAATATTTATATTATAATTGT
24458447 TTATAATATTTATATTATAATT
1 TTATAATATTTATATTATAATT
24458469 TTGATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 3 0.15
24 10 0.50
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
TTATAATATTTATATTATAATTGT
Found at i:24458479 original size:24 final size:25
Alignment explanation
Indices: 24458426--24458479 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
24458416 CTCATCTCCT
* *
24458426 TATA-ATTTTTATTATAATTGTTTA
1 TATATATTTATATTATAATTGTTGA
24458450 TA-ATATTTATATTATAATT-TTGA
1 TATATATTTATATTATAATTGTTGA
24458473 TATATAT
1 TATATAT
24458480 ATGTATGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (25 bp):
TATATATTTATATTATAATTGTTGA
Found at i:24467876 original size:24 final size:24
Alignment explanation
Indices: 24467848--24467964 Score: 83
Period size: 25 Copynumber: 4.7 Consensus size: 24
24467838 AAGTTCATGC
*
24467848 GAGCCAATATCGGGTAGCTTCG-AA
1 GAGCCAATATCGGGAAGC-TCGTAA
*
24467872 GAGCCATTAATCGGGAAGCTCGTAA
1 GAGCCAAT-ATCGGGAAGCTCGTAA
* * *
24467897 GAGCCATATATTGGGATGCTCATAA
1 GAGCCA-ATATCGGGAAGCTCGTAA
* * * * *
24467922 TAGCTAAATAACGAGAAGCTCGTGA
1 GAGC-CAATATCGGGAAGCTCGTAA
*
24467947 GAGCCAAATATCAGGAAG
1 GAGCC-AATATCGGGAAG
24467965 GTCAAGAGTG
Statistics
Matches: 69, Mismatches: 19, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
24 10 0.14
25 57 0.83
26 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (24 bp):
GAGCCAATATCGGGAAGCTCGTAA
Found at i:24467964 original size:25 final size:24
Alignment explanation
Indices: 24467812--24467999 Score: 78
Period size: 25 Copynumber: 7.7 Consensus size: 24
24467802 CCACGTAATG
* *
24467812 GGAAGCTCATAAGA-TCAATAATCA
1 GGAAGCTCATGAGAGCCAAT-ATCA
* * *
24467836 GGAAGTTCATGCGAGCCAATATCG
1 GGAAGCTCATGAGAGCCAATATCA
* * *
24467860 GGTAGCT--TCGAAGAGCCATTAATCG
1 GGAAGCTCAT-G-AGAGCCAAT-ATCA
* * **
24467885 GGAAGCTCGTAAGAGCCATATATTG
1 GGAAGCTCATGAGAGCCA-ATATCA
* * * * *
24467910 GGATGCTCATAATAGCTAA-ATAA
1 GGAAGCTCATGAGAGCCAATATCA
*
24467933 CGAGAAGCTCGTGAGAGCCAAATATCA
1 -G-GAAGCTCATGAGAGCC-AATATCA
* * *
24467960 GGAAGGTCAAGAGTGCCAATATCA
1 GGAAGCTCATGAGAGCCAATATCA
*
24467984 GGATGCTCATGAGAGC
1 GGAAGCTCATGAGAGC
24468000 TAATTACTGG
Statistics
Matches: 120, Mismatches: 33, Indels: 22
0.69 0.19 0.13
Matches are distributed among these distances:
22 1 0.01
23 3 0.03
24 47 0.39
25 61 0.51
26 4 0.03
27 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (24 bp):
GGAAGCTCATGAGAGCCAATATCA
Found at i:24475703 original size:50 final size:49
Alignment explanation
Indices: 24475549--24475734 Score: 168
Period size: 50 Copynumber: 3.8 Consensus size: 49
24475539 ATGTAACGAA
* * *
24475549 AAGCTCATAAGAGTC-ATAATCGGGAAGCTCATGCGAGCC-AATATTGGG
1 AAGCTCATAAGAGCCAATAATCGGGAAGCTCATGAGAGCCAAATA-TCGG
* * * * *
24475597 TAGCTC-TGAAGAGCCATTAATCGGGAAGCTCATAAGAGCCATATGTCGAG
1 AAGCTCAT-AAGAGCCAATAATCGGGAAGCTCATGAGAGCCAAATATCG-G
* *
24475647 ATGCTCATAAGAGCTAAATAA-CGGGAAGCTCATGAGAGCCAAATATCAGG
1 AAGCTCATAAGAGC-CAATAATCGGGAAGCTCATGAGAGCCAAATATC-GG
* *
24475697 AAGCTCA-AGAGAGCCAAT-ATCAGGATGCTCATGAGAGC
1 AAGCTCATA-AGAGCCAATAATCGGGAAGCTCATGAGAGC
24475735 TACTAATAGG
Statistics
Matches: 110, Mismatches: 19, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
47 1 0.01
48 12 0.11
49 43 0.39
50 48 0.44
51 6 0.05
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (49 bp):
AAGCTCATAAGAGCCAATAATCGGGAAGCTCATGAGAGCCAAATATCGG
Found at i:24475720 original size:24 final size:25
Alignment explanation
Indices: 24475549--24475734 Score: 123
Period size: 25 Copynumber: 7.6 Consensus size: 25
24475539 ATGTAACGAA
* * * *
24475549 AAGCTCATAAGAGTCATA-ATCGGG
1 AAGCTCATGAGAGCCAAATATCAGG
* **
24475573 AAGCTCATGCGAGCC-AATATTGGG
1 AAGCTCATGAGAGCCAAATATCAGG
* * *
24475597 TAGCTC-TGAAGAGCC-ATTAATCGGG
1 AAGCTCATG-AGAGCCAAAT-ATCAGG
* * *
24475622 AAGCTCATAAGAGCCATATGTC-GAG
1 AAGCTCATGAGAGCCAAATATCAG-G
* * * * *
24475647 ATGCTCATAAGAGCTAAATAACGGG
1 AAGCTCATGAGAGCCAAATATCAGG
24475672 AAGCTCATGAGAGCCAAATATCAGG
1 AAGCTCATGAGAGCCAAATATCAGG
*
24475697 AAGCTCAAGAGAGCC-AATATCAGG
1 AAGCTCATGAGAGCCAAATATCAGG
*
24475721 ATGCTCATGAGAGC
1 AAGCTCATGAGAGC
24475735 TACTAATAGG
Statistics
Matches: 128, Mismatches: 27, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
23 3 0.02
24 51 0.40
25 71 0.55
26 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (25 bp):
AAGCTCATGAGAGCCAAATATCAGG
Found at i:24479171 original size:18 final size:19
Alignment explanation
Indices: 24479148--24479185 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
24479138 TGGTGTGAAG
24479148 AAAAGGAAAAGAAA-AGAA
1 AAAAGGAAAAGAAATAGAA
*
24479166 AAAAGGAGAAGAAATAGAA
1 AAAAGGAAAAGAAATAGAA
24479185 A
1 A
24479186 GAGGAGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.03
Consensus pattern (19 bp):
AAAAGGAAAAGAAATAGAA
Found at i:24490414 original size:74 final size:75
Alignment explanation
Indices: 24490283--24490447 Score: 242
Period size: 74 Copynumber: 2.2 Consensus size: 75
24490273 CAAAACACAC
* * *
24490283 TTTTAGCGGCGTTTTCGAGAAAGCGCCGCAAAAAAAACATATGCCCAACGATACCGTTTTCGTGA
1 TTTT-GCGGCATTTTTGAGAAAGCGCAGCAAAAAAAACATATGCCCAACGATACCGTTTTCGTGA
*
24490348 GCTTTCGGGGA
65 GCTTCCGGGGA
* * *
24490359 TTTTGCGGCATTTTTGAGAAAGCGCAGC-AAAGAAACATATGCCCAACGATGCCGTTTTTGTGAG
1 TTTTGCGGCATTTTTGAGAAAGCGCAGCAAAAAAAACATATGCCCAACGATACCGTTTTCGTGAG
24490423 CTTCCGGGGA
66 CTTCCGGGGA
*
24490433 TTTTGCAGCATTTTT
1 TTTTGCGGCATTTTT
24490448 AGGAAAACAC
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
74 56 0.69
75 21 0.26
76 4 0.05
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (75 bp):
TTTTGCGGCATTTTTGAGAAAGCGCAGCAAAAAAAACATATGCCCAACGATACCGTTTTCGTGAG
CTTCCGGGGA
Found at i:24491432 original size:47 final size:48
Alignment explanation
Indices: 24491363--24491461 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 48
24491353 AAAAATGAAA
*
24491363 TAAAAACACTAAAATTTTTAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
24491411 TAAAAA-ACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
24491458 TAAA
1 TAAA
24491462 CAAAACTATG
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 44 0.88
48 6 0.12
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (48 bp):
TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
Found at i:24492041 original size:25 final size:25
Alignment explanation
Indices: 24491974--24492035 Score: 117
Period size: 24 Copynumber: 2.5 Consensus size: 25
24491964 CCTTAAATAC
24491974 AATTAATAAATAAGTTAATTTTATT
1 AATTAATAAATAAGTTAATTTTATT
24491999 AATTAATAAATAAGTTAA-TTTATT
1 AATTAATAAATAAGTTAATTTTATT
24492023 AATTAATAAATAA
1 AATTAATAAATAA
24492036 AATTAAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 19 0.51
25 18 0.49
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (25 bp):
AATTAATAAATAAGTTAATTTTATT
Found at i:24493932 original size:12 final size:12
Alignment explanation
Indices: 24493917--24493950 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
24493907 TAACCTACAT
24493917 AACTTACATAGA
1 AACTTACATAGA
*
24493929 AACTTATATAGA
1 AACTTACATAGA
*
24493941 AACTTGCATA
1 AACTTACATA
24493951 ACTTACATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (12 bp):
AACTTACATAGA
Found at i:24493999 original size:54 final size:55
Alignment explanation
Indices: 24493941--24494070 Score: 151
Period size: 54 Copynumber: 2.4 Consensus size: 55
24493931 CTTATATAGA
* *
24493941 AACTTGCATAACTTACATAATAACATAAA-AACTTAG-ATAATACATAGCGTACAT
1 AACTTACATAACTTACATAATAACATAAATAACTT-GCATAATACATAGCCTACAT
* * * *
24493995 AACTTACATAA--TACACCACTTACATAAATAACTTGCATAATACATAGCCTACGT
1 AACTTACATAACTTACA-TAATAACATAAATAACTTGCATAATACATAGCCTACAT
*
24494049 AACTTACTTAACTTACATAATA
1 AACTTACATAACTTACATAATA
24494071 CACCACTTAC
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
52 4 0.07
53 10 0.16
54 41 0.67
55 2 0.03
56 4 0.07
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.29
Consensus pattern (55 bp):
AACTTACATAACTTACATAATAACATAAATAACTTGCATAATACATAGCCTACAT
Found at i:24494018 original size:25 final size:24
Alignment explanation
Indices: 24493942--24494021 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 24
24493932 TTATATAGAA
*
24493942 ACTTGCATAACTTACATAATA-AC
1 ACTTACATAACTTACATAATACAC
* * *
24493965 A--TA-AAAACTTAGATAATACAT
1 ACTTACATAACTTACATAATACAC
*
24493986 AGCGTACATAACTTACATAATACACC
1 A-CTTACATAACTTACATAATACA-C
24494012 ACTTACATAA
1 ACTTACATAA
24494022 ATAACTTGCA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
20 13 0.30
21 3 0.07
23 1 0.02
24 2 0.05
25 23 0.53
26 1 0.02
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.28
Consensus pattern (24 bp):
ACTTACATAACTTACATAATACAC
Found at i:24494082 original size:34 final size:32
Alignment explanation
Indices: 24493993--24494097 Score: 101
Period size: 34 Copynumber: 3.2 Consensus size: 32
24493983 CATAGCGTAC
*
24493993 ATAACTTACATAATACACCACTTACATAA---
1 ATAACTTACATAATACACCACTTACGTAACTT
* * *
24494022 ATAACTTGCATAATACA-TAGCCTACGTAACTT
1 ATAACTTACATAATACACCA-CTTACGTAACTT
24494054 ACTTAACTTACATAATACACCACTTACGTAACTT
1 A--TAACTTACATAATACACCACTTACGTAACTT
24494088 AAATAACTTA
1 --ATAACTTA
24494098 AATTTATCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
28 1 0.02
29 23 0.38
32 1 0.02
34 33 0.55
35 1 0.02
36 1 0.02
ACGTcount: A:0.43, C:0.23, G:0.04, T:0.30
Consensus pattern (32 bp):
ATAACTTACATAATACACCACTTACGTAACTT
Found at i:24496599 original size:43 final size:43
Alignment explanation
Indices: 24496552--24496778 Score: 276
Period size: 43 Copynumber: 5.3 Consensus size: 43
24496542 TCTGCTAAAA
* *
24496552 TTAGTGGCGTTTGTGAAAAAAGCGCCGCTAAAGAACATGACCT
1 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCT
* * * *
24496595 TTAGTGACATTTGTGGAAAAAGCGCCGCTAAAGAACATGATCT
1 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCT
* * * *
24496638 GTAGCAGCGTTTGTGGAAAATGTGCCGCTAAAGAACATGATCC-
1 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGA-CCT
** **
24496681 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGTTCT
1 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCT
* * * *
24496724 TTAGCGGCGTTTGTAGTAAAAGCGCCGCTAAAGACCCTGACCT
1 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCT
24496767 TTAGCGGCGTTT
1 TTAGCGGCGTTT
24496779 TTTTCGTATC
Statistics
Matches: 155, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
42 1 0.01
43 153 0.99
44 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCT
Found at i:24507002 original size:16 final size:16
Alignment explanation
Indices: 24506981--24507017 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
24506971 AAAAAGCCTA
24506981 AGAATCTAAATCAAAC
1 AGAATCTAAATCAAAC
24506997 AGAATCTAAATCAAAC
1 AGAATCTAAATCAAAC
24507013 AGAAT
1 AGAAT
24507018 GGGAAGAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.57, C:0.16, G:0.08, T:0.19
Consensus pattern (16 bp):
AGAATCTAAATCAAAC
Found at i:24516534 original size:103 final size:103
Alignment explanation
Indices: 24516355--24516550 Score: 376
Period size: 103 Copynumber: 1.9 Consensus size: 103
24516345 GTTTAGATGG
24516355 ACGATTGGATGCAGTACGGTACTTTTAGCTTACTTTTTGTCTCACACTACAGTATCTAATCTCAC
1 ACGATTGGATGCAGTACGGTACTTTTAGCTTACTTTTTGTCTCACACTACAGTATCTAATCTCAC
24516420 CGCCACCGCTATTTTTACACTAATAATAAGTAGGTTTA
66 CGCCACCGCTATTTTTACACTAATAATAAGTAGGTTTA
24516458 ACGATTGGATGCAGTACGGTACTTTTAGCTTACTTTTTGTCTC-CAACTACAGTATCTAATCTCA
1 ACGATTGGATGCAGTACGGTACTTTTAGCTTACTTTTTGTCTCAC-ACTACAGTATCTAATCTCA
24516522 CCGCCACCGCTATTTTTACACTAATAATA
65 CCGCCACCGCTATTTTTACACTAATAATA
24516551 GGTAAACACA
Statistics
Matches: 92, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
102 1 0.01
103 91 0.99
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (103 bp):
ACGATTGGATGCAGTACGGTACTTTTAGCTTACTTTTTGTCTCACACTACAGTATCTAATCTCAC
CGCCACCGCTATTTTTACACTAATAATAAGTAGGTTTA
Found at i:24528850 original size:14 final size:15
Alignment explanation
Indices: 24528828--24528904 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
24528818 CAATCAAACA
24528828 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
24528842 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
24528857 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
24528877 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
24528891 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
24528905 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:24528869 original size:20 final size:20
Alignment explanation
Indices: 24528844--24528883 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24528834 AATATTTTCC
*
24528844 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
24528864 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
24528884 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:24528889 original size:34 final size:35
Alignment explanation
Indices: 24528832--24528898 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
24528822 CAAACACCAG
*
24528832 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
24528867 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
24528899 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:24529634 original size:25 final size:25
Alignment explanation
Indices: 24529600--24529647 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
24529590 TTGTCTAGAA
24529600 GGTTTTGATCTTTCAAGAAAATATT
1 GGTTTTGATCTTTCAAGAAAATATT
*
24529625 GGTTTTGATCTTTCAAGTAAATA
1 GGTTTTGATCTTTCAAGAAAATA
24529648 GTTTTTCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (25 bp):
GGTTTTGATCTTTCAAGAAAATATT
Found at i:24537148 original size:37 final size:37
Alignment explanation
Indices: 24537093--24537224 Score: 160
Period size: 37 Copynumber: 3.6 Consensus size: 37
24537083 CTTAGTGTCG
* *
24537093 TGGCGTGTTATCGATTGGATTAGCTCTTTTGAGCGAT
1 TGGCGTGTTATCGGTTGGATTAGCTCTTATGAGCGAT
* * *
24537130 TGGCGTGTTATTGGTTGGATTATCTCTTATGAGCGTT
1 TGGCGTGTTATCGGTTGGATTAGCTCTTATGAGCGAT
* *
24537167 TGGCGTGTTAGCGGGTGGATTAGCAT-TTATGAGCGAT
1 TGGCGTGTTATCGGTTGGATTAGC-TCTTATGAGCGAT
* *
24537204 TTGCGTGTT-TTGGTTGGATTA
1 TGGCGTGTTATCGGTTGGATTA
24537225 CTTGTGTACT
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
36 9 0.11
37 70 0.88
38 1 0.01
ACGTcount: A:0.15, C:0.11, G:0.33, T:0.42
Consensus pattern (37 bp):
TGGCGTGTTATCGGTTGGATTAGCTCTTATGAGCGAT
Found at i:24539966 original size:31 final size:31
Alignment explanation
Indices: 24539931--24540038 Score: 101
Period size: 31 Copynumber: 3.3 Consensus size: 31
24539921 ATCACTTTAA
24539931 TATTAAATTAATAAAATACTATTAAGATAAG
1 TATTAAATTAATAAAATACTATTAAGATAAG
** * * *
24539962 TATTAAATTTAATTTAATATTAAGATAATCACTTTAA-
1 TATTAAA-TTAATAAAATACT-A-TTAA-GA---TAAG
24539999 TATTAAATTAATAAAATACTATTAAGATAAG
1 TATTAAATTAATAAAATACTATTAAGATAAG
24540030 TATTAAATT
1 TATTAAATT
24540039 TAATTTAATA
Statistics
Matches: 59, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
30 3 0.05
31 16 0.27
32 10 0.17
33 2 0.03
34 6 0.10
35 2 0.03
36 10 0.17
37 7 0.12
38 3 0.05
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.41
Consensus pattern (31 bp):
TATTAAATTAATAAAATACTATTAAGATAAG
Found at i:24539972 original size:68 final size:68
Alignment explanation
Indices: 24539886--24540052 Score: 316
Period size: 68 Copynumber: 2.5 Consensus size: 68
24539876 GTTTATCTAC
**
24539886 AAGATAAACATTAAATTTAATTTAATATTAAGATAATCACTTTAATATTAAATTAATAAAATACT
1 AAGATAAGTATTAAATTTAATTTAATATTAAGATAATCACTTTAATATTAAATTAATAAAATACT
24539951 ATT
66 ATT
24539954 AAGATAAGTATTAAATTTAATTTAATATTAAGATAATCACTTTAATATTAAATTAATAAAATACT
1 AAGATAAGTATTAAATTTAATTTAATATTAAGATAATCACTTTAATATTAAATTAATAAAATACT
24540019 ATT
66 ATT
24540022 AAGATAAGTATTAAATTTAATTTAATATTAA
1 AAGATAAGTATTAAATTTAATTTAATATTAA
24540053 ACTATTAAAA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 97 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (68 bp):
AAGATAAGTATTAAATTTAATTTAATATTAAGATAATCACTTTAATATTAAATTAATAAAATACT
ATT
Found at i:24540507 original size:9 final size:9
Alignment explanation
Indices: 24540483--24540537 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
24540473 AAAATATCAT
24540483 ATTAATTTTA
1 ATTAA-TTTA
*
24540493 ATTAATTTG
1 ATTAATTTA
24540502 ATTAATTTA
1 ATTAATTTA
* * *
24540511 ATTTTACTTG
1 A-TTAATTTA
24540521 ATTAATTTA
1 ATTAATTTA
24540530 ATTAATTT
1 ATTAATTT
24540538 TTCGAGAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
9 25 0.69
10 11 0.31
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:24540507 original size:19 final size:18
Alignment explanation
Indices: 24540483--24540537 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 18
24540473 AAAATATCAT
24540483 ATTAATTTTAATTAATTTG
1 ATTAA-TTTAATTAATTTG
* *
24540502 ATTAATTTAATTTTACTTG
1 ATTAATTTAA-TTAATTTG
24540521 ATTAATTTAATTAATTT
1 ATTAATTTAATTAATTT
24540538 TTCGAGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 10 0.32
19 21 0.68
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (18 bp):
ATTAATTTAATTAATTTG
Found at i:24541653 original size:14 final size:15
Alignment explanation
Indices: 24541629--24541657 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24541619 CTATGCATGC
24541629 AAAATATCAAAGACA
1 AAAATATCAAAGACA
24541644 AAAATA-CAAAGACA
1 AAAATATCAAAGACA
24541658 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAATATCAAAGACA
Found at i:24542004 original size:372 final size:372
Alignment explanation
Indices: 24541319--24542063 Score: 1490
Period size: 372 Copynumber: 2.0 Consensus size: 372
24541309 AATTAATTCA
24541319 TCTTGGGTCCATTCCAATGTATCATTTTTCCAATTAATACATTTTTCTCTACTCGTGAAGTCAAC
1 TCTTGGGTCCATTCCAATGTATCATTTTTCCAATTAATACATTTTTCTCTACTCGTGAAGTCAAC
24541384 TGTTTCGATAGCCAAGACTAATGATATCCCCAATTGGAATTGTAGATGACATAAAAATCATTCTC
66 TGTTTCGATAGCCAAGACTAATGATATCCCCAATTGGAATTGTAGATGACATAAAAATCATTCTC
24541449 AGTATTTGAATCAAATGCTCACTTTGATTCTTTTATGGGATTACGGACTCATTTTGATTATCTAC
131 AGTATTTGAATCAAATGCTCACTTTGATTCTTTTATGGGATTACGGACTCATTTTGATTATCTAC
24541514 TGAAGTAAGTCATCTTTCTCGCAATGTAAACGTTCTTAAAATGCCACTTATCTTTAGTTTAAACT
196 TGAAGTAAGTCATCTTTCTCGCAATGTAAACGTTCTTAAAATGCCACTTATCTTTAGTTTAAACT
24541579 TAGACAATCAATGAGCTAATATTTGTTTATCACAATTTCGCTATGCATGCAAAATATCAAAGACA
261 TAGACAATCAATGAGCTAATATTTGTTTATCACAATTTCGCTATGCATGCAAAATATCAAAGACA
24541644 AAAATACAAAGACATAATAGTGAAATGTGAAATTAAATTTATTTATT
326 AAAATACAAAGACATAATAGTGAAATGTGAAATTAAATTTATTTATT
24541691 TCTTGGGTCCATTCCAATGTATCATTTTTCCAATTAATACATTTTTCTCTACTCGTGAAGTCAAC
1 TCTTGGGTCCATTCCAATGTATCATTTTTCCAATTAATACATTTTTCTCTACTCGTGAAGTCAAC
24541756 TGTTTCGATAGCCAAGACTAATGATATCCCCAATTGGAATTGTAGATGACATAAAAATCATTCTC
66 TGTTTCGATAGCCAAGACTAATGATATCCCCAATTGGAATTGTAGATGACATAAAAATCATTCTC
24541821 AGTATTTGAATCAAATGCTCACTTTGATTCTTTTATGGGATTACGGACTCATTTTGATTATCTAC
131 AGTATTTGAATCAAATGCTCACTTTGATTCTTTTATGGGATTACGGACTCATTTTGATTATCTAC
24541886 TGAAGTAAGTCATCTTTCTCGCAATGTAAACGTTCTTAAAATGCCACTTATCTTTAGTTTAAACT
196 TGAAGTAAGTCATCTTTCTCGCAATGTAAACGTTCTTAAAATGCCACTTATCTTTAGTTTAAACT
24541951 TAGACAATCAATGAGCTAATATTTGTTTATCACAATTTCGCTATGCATGCAAAATATCAAAGACA
261 TAGACAATCAATGAGCTAATATTTGTTTATCACAATTTCGCTATGCATGCAAAATATCAAAGACA
24542016 AAAATACAAAGACATAATAGTGAAATGTGAAATTAAATTTATTTATT
326 AAAATACAAAGACATAATAGTGAAATGTGAAATTAAATTTATTTATT
24542063 T
1 T
24542064 ATTCATCATT
Statistics
Matches: 373, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
372 373 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.37
Consensus pattern (372 bp):
TCTTGGGTCCATTCCAATGTATCATTTTTCCAATTAATACATTTTTCTCTACTCGTGAAGTCAAC
TGTTTCGATAGCCAAGACTAATGATATCCCCAATTGGAATTGTAGATGACATAAAAATCATTCTC
AGTATTTGAATCAAATGCTCACTTTGATTCTTTTATGGGATTACGGACTCATTTTGATTATCTAC
TGAAGTAAGTCATCTTTCTCGCAATGTAAACGTTCTTAAAATGCCACTTATCTTTAGTTTAAACT
TAGACAATCAATGAGCTAATATTTGTTTATCACAATTTCGCTATGCATGCAAAATATCAAAGACA
AAAATACAAAGACATAATAGTGAAATGTGAAATTAAATTTATTTATT
Found at i:24542025 original size:14 final size:15
Alignment explanation
Indices: 24542001--24542029 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24541991 CTATGCATGC
24542001 AAAATATCAAAGACA
1 AAAATATCAAAGACA
24542016 AAAATA-CAAAGACA
1 AAAATATCAAAGACA
24542030 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAATATCAAAGACA
Found at i:24546755 original size:22 final size:22
Alignment explanation
Indices: 24546730--24546798 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
24546720 AGTCAAGCTG
24546730 CCAGAAATATGTGGACAAGCCA
1 CCAGAAATATGTGGACAAGCCA
* **** *
24546752 CCAGTAAT-TGCATTCAAGCTA
1 CCAGAAATATGTGGACAAGCCA
* *
24546773 CCAGGAATATGTGGACAAACCA
1 CCAGAAATATGTGGACAAGCCA
24546795 CCAG
1 CCAG
24546799 TAATTACAAA
Statistics
Matches: 33, Mismatches: 13, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
21 15 0.45
22 18 0.55
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (22 bp):
CCAGAAATATGTGGACAAGCCA
Found at i:24546757 original size:43 final size:43
Alignment explanation
Indices: 24546696--24546803 Score: 171
Period size: 43 Copynumber: 2.5 Consensus size: 43
24546686 CACACCATTT
* *
24546696 TGTGGACAAACTACCAGTAATTGCAGTCAAGCTGCCAGAAATA
1 TGTGGACAAACCACCAGTAATTGCAGTCAAGCTACCAGAAATA
* * *
24546739 TGTGGACAAGCCACCAGTAATTGCATTCAAGCTACCAGGAATA
1 TGTGGACAAACCACCAGTAATTGCAGTCAAGCTACCAGAAATA
24546782 TGTGGACAAACCACCAGTAATT
1 TGTGGACAAACCACCAGTAATT
24546804 ACAAATAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (43 bp):
TGTGGACAAACCACCAGTAATTGCAGTCAAGCTACCAGAAATA
Found at i:24546775 original size:21 final size:21
Alignment explanation
Indices: 24546706--24546776 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
24546696 TGTGGACAAA
24546706 CTACCAGTAATTGCAGTCAAG
1 CTACCAGTAATTGCAGTCAAG
* * ** *
24546727 CTGCCAGAAATATGTGGACAAG
1 CTACCAGTAAT-TGCAGTCAAG
* *
24546749 CCACCAGTAATTGCATTCAAG
1 CTACCAGTAATTGCAGTCAAG
24546770 CTACCAG
1 CTACCAG
24546777 GAATATGTGG
Statistics
Matches: 36, Mismatches: 13, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
21 21 0.58
22 15 0.42
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (21 bp):
CTACCAGTAATTGCAGTCAAG
Found at i:24546864 original size:40 final size:41
Alignment explanation
Indices: 24546735--24546892 Score: 146
Period size: 40 Copynumber: 3.9 Consensus size: 41
24546725 AGCTGCCAGA
** *
24546735 AATA-TGTGGACAAGCCACCAGTAATTGCAT-TCAAGCTACC
1 AATATTGTGGACAAGCCACCAGTAATTGCATAT-AAATTGCC
* * * **
24546775 AGGA-ATATGTGGACAAACCACCAGTAATTACAAATAAATTGAT
1 A--ATAT-TGTGGACAAGCCACCAGTAATTGCATATAAATTGCC
*
24546818 AGTATTGTGGACAAGCCACCAGT-ATTGCATATAAATTGCC
1 AATATTGTGGACAAGCCACCAGTAATTGCATATAAATTGCC
* *
24546858 AATATTGTGGATAAGCCACCAGT-ATTGCAGATAAA
1 AATATTGTGGACAAGCCACCAGTAATTGCATATAAA
24546893 CTGTCAGTAC
Statistics
Matches: 95, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
40 46 0.48
41 18 0.19
42 3 0.03
43 27 0.28
44 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (41 bp):
AATATTGTGGACAAGCCACCAGTAATTGCATATAAATTGCC
Found at i:24546883 original size:20 final size:20
Alignment explanation
Indices: 24546818--24546884 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 20
24546808 ATAAATTGAT
*
24546818 AGTATTGTGGACAAGCCACC
1 AGTATTGTGGATAAGCCACC
*** ****
24546838 AGTATTGCATATAAATTGCC
1 AGTATTGTGGATAAGCCACC
*
24546858 AATATTGTGGATAAGCCACC
1 AGTATTGTGGATAAGCCACC
24546878 AGTATTG
1 AGTATTG
24546885 CAGATAAACT
Statistics
Matches: 30, Mismatches: 17, Indels: 0
0.64 0.36 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (20 bp):
AGTATTGTGGATAAGCCACC
Found at i:24546890 original size:20 final size:20
Alignment explanation
Indices: 24546830--24546891 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 20
24546820 TATTGTGGAC
*
24546830 AAGCCACCAGTATTGCATAT
1 AAGCCACCAGTATTGCAGAT
**** * **
24546850 AAATTGCCAATATTGTGGAT
1 AAGCCACCAGTATTGCAGAT
24546870 AAGCCACCAGTATTGCAGAT
1 AAGCCACCAGTATTGCAGAT
24546890 AA
1 AA
24546892 ACTGTCAGTA
Statistics
Matches: 27, Mismatches: 15, Indels: 0
0.64 0.36 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (20 bp):
AAGCCACCAGTATTGCAGAT
Found at i:24547152 original size:20 final size:21
Alignment explanation
Indices: 24547115--24547158 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
24547105 TCACACTCTA
24547115 ATATCACCAAACATGCTATTC
1 ATATCACCAAACATGCTATTC
*
24547136 ATATCATCAAA-ATGCTATTC
1 ATATCACCAAACATGCTATTC
24547156 ATA
1 ATA
24547159 ACAAAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.32
Consensus pattern (21 bp):
ATATCACCAAACATGCTATTC
Found at i:24553470 original size:44 final size:43
Alignment explanation
Indices: 24553369--24553674 Score: 224
Period size: 44 Copynumber: 6.9 Consensus size: 43
24553359 AAGCTGTAAA
* * * *
24553369 TTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAG
1 TTACA-ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGA-AG
* * * ** *
24553413 -CA-AACCTTATCTCCCTGAAGTTGTAGTGGAGTAGGTTGAAG
1 TTACAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG
* * *
24553454 TTACAAGTCTTATCTCCCTGAAGTTGCAATGGAACAAACTGAAG
1 TTACAA-TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG
* * * *
24553498 ATAATGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG
1 -TTA-CAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG
* * * *
24553543 CTATAAATCAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAG
1 -T-T--A-CAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG
* * * *
24553591 TTACAAATTTTATCTACCTGAAGTTTCAGTGGAACAGACTGAA-
1 TTAC-AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG
* *
24553634 TAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 T-TA-CAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATT
24553675 AAAATGATGG
Statistics
Matches: 203, Mismatches: 47, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
41 28 0.14
42 4 0.02
43 5 0.02
44 91 0.45
45 36 0.18
46 3 0.01
47 1 0.00
48 35 0.17
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (43 bp):
TTACAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG
Found at i:24553576 original size:137 final size:136
Alignment explanation
Indices: 24553415--24553677 Score: 409
Period size: 137 Copynumber: 1.9 Consensus size: 136
24553405 GATCATAGCA
* * *
24553415 AACCTTATCTCCCTGAAGTTGTAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
1 AACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACAAATCTTATCTACCTGAAGTTG
** *
24553480 CAATGGAACAAACTGAAGATAATGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCT
66 CAATGGAACAAACTGAAGA-AACCAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCT
24553545 ATAAATC
130 ATAAATC
* *
24553552 AACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACAAATTTTATCTACCTGAAGTTT
1 AACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACAAATCTTATCTACCTGAAGTTG
* * * *
24553617 CAGTGGAACAGACTGAATAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
66 CAATGGAACAAACTGAAGAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAA
24553678 ATGATGGATC
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
136 38 0.33
137 76 0.67
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (136 bp):
AACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACAAATCTTATCTACCTGAAGTTG
CAATGGAACAAACTGAAGAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA
TAAATC
Found at i:24553689 original size:44 final size:44
Alignment explanation
Indices: 24553418--24553704 Score: 202
Period size: 44 Copynumber: 6.4 Consensus size: 44
24553408 CATAGCAAAC
* ** * * * *
24553418 CTTATCTCCCTGAAGTTGTAGTGGAGTAGGTTGAAGTTA-CAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAATAATCAA-T
* * * * *
24553462 CTTATCTCCCTGAAGTTGCAATGGAACAAACTGAAGATAATGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGA-TTAAAATAATCAAT
* *
24553507 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATCAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAA---AT-AATCAAT
* * * * * *
24553555 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTA-CAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAATAATC-AAT
* * * * * *
24553599 TTTATCTACCTGAAGTTTCAGTGGAACAGACT-GAATAAACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAAT-AATCAAT
* * **
24553643 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATGGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAATAATCAAT
*
24553687 CTTATCTCTCTGAAGTTG
1 CTTATCTCCCTGAAGTTG
24553705 TAGTAGAGGA
Statistics
Matches: 185, Mismatches: 48, Indels: 20
0.73 0.19 0.08
Matches are distributed among these distances:
43 3 0.02
44 106 0.57
45 37 0.20
46 2 0.01
47 2 0.01
48 35 0.19
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAATAATCAAT
Found at i:24553692 original size:88 final size:89
Alignment explanation
Indices: 24553461--24553704 Score: 231
Period size: 88 Copynumber: 2.7 Consensus size: 89
24553451 AAGTTACAAG
* * * * * *
24553461 TCTTATCTCCCTGAAGTTGCAATGGAACAAACTGAAGATAATGAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAATAATGAATCTTATCT-CCTGAAGTTGC
* * *
24553526 AGTGGAACAGATTAAAGCTATAAATCAA
64 AGTGGAACAGACT--AGCAATAAACCAA
* * * * * * ** * *
24553554 CCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACAAATTTTATCTACCTGAAGTTTCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATGAATCTTATCT-CCTGAAGTTGCA
24553619 GTGGAACAGACT-G-AATAAACCAA
65 GTGGAACAGACTAGCAATAAACCAA
* *
24553642 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATGGATCTTATCTCTCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATGAATCTTATCTC-CTGAAGTTG
24553705 TAGTAGAGGA
Statistics
Matches: 119, Mismatches: 31, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
87 1 0.01
88 58 0.49
89 1 0.01
92 34 0.29
93 25 0.21
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (89 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATGAATCTTATCTCCTGAAGTTGCAG
TGGAACAGACTAGCAATAAACCAA
Found at i:24555262 original size:22 final size:22
Alignment explanation
Indices: 24555195--24555267 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
24555185 TCCTATTTGA
* * *
24555195 TATTTTTGCTATTAATTAATTAAT
1 TATTATTGTTATT-ATT-ATTATT
*
24555219 TATTATTGTTATTATTACTATT
1 TATTATTGTTATTATTATTATT
24555241 TATTATTGTTATTGA-TATTATT
1 TATTATTGTTATT-ATTATTATT
24555263 ATATT
1 -TATT
24555268 TGGTTATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
22 23 0.55
23 8 0.19
24 11 0.26
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (22 bp):
TATTATTGTTATTATTATTATT
Found at i:24555575 original size:4 final size:4
Alignment explanation
Indices: 24555566--24555590 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
24555556 TTTTCATTAC
24555566 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
24555591 ATATACTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:24555688 original size:56 final size:56
Alignment explanation
Indices: 24555617--24555742 Score: 216
Period size: 56 Copynumber: 2.2 Consensus size: 56
24555607 AAATTATATA
* *
24555617 TTTTTACCTATTTTTCTCTCTATATATACTTTATTTCTTTTAAATTCTCTATTTTT
1 TTTTTACCTATTTTTCTATATATATATACTTTATTTCTTTTAAATTCTCTATTTTT
24555673 TTTTTACCTATTTTTCTATATATATATACTTTATTTCTTTTAAATTCTCTATTTTT
1 TTTTTACCTATTTTTCTATATATATATACTTTATTTCTTTTAAATTCTCTATTTTT
*
24555729 TATTTTACTTATTT
1 T-TTTTACCTATTT
24555743 CAACTTTTTA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
56 55 0.83
57 11 0.17
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.65
Consensus pattern (56 bp):
TTTTTACCTATTTTTCTATATATATATACTTTATTTCTTTTAAATTCTCTATTTTT
Found at i:24555763 original size:56 final size:55
Alignment explanation
Indices: 24555642--24555763 Score: 138
Period size: 56 Copynumber: 2.2 Consensus size: 55
24555632 CTCTCTATAT
** * *
24555642 ATACTTTATTTCTTTTAAATTCTCTATTTTTTTTTTACCTATTTTTCTATATATAT
1 ATAC-TTATTTCTTTTAAATTCTCTATTTTTTTTTTACCTATTTAACTATATACAC
* * *
24555698 ATACTTTATTTCTTTTAAATTCTCTATTTTTTATTTTACTTATTTCAACTTTTTACAC
1 ATAC-TTATTTCTTTTAAATTCTCTATTTTTT-TTTTACCTATTT-AACTATATACAC
24555756 ATA-TTATT
1 ATACTTATT
24555764 ATATATATTA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 37 0.65
57 11 0.19
58 9 0.16
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (55 bp):
ATACTTATTTCTTTTAAATTCTCTATTTTTTTTTTACCTATTTAACTATATACAC
Found at i:24566805 original size:44 final size:45
Alignment explanation
Indices: 24566650--24566950 Score: 220
Period size: 44 Copynumber: 6.7 Consensus size: 45
24566640 CATAGCAAAC
* * * * *
24566650 CTTATCTCCCTGAAGTTGCAGTGGAGCTGACTAAAG-ATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTA-AACCAAT
* * * * ** *
24566695 CTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAATTAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---TAAACCAAT
* *
24566743 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGT-TA-CAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAAACCAA-T
* * * *
24566787 CTTATCTACCTGAAGTTGCAGTGGAACAAACTGAA-TAAACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAAACCAAT
*
24566831 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAG-AAACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAAACCAAT
* * * * * * * * ***
24566875 CCTATCTCTCTAAAGTTGTAGTGGAGCTGATTAAAAT-GATGGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAAACCAAT
* *
24566919 C-TATCTCTCTGAAGTTGCAGTAGAGCAGATTG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG
24566951 CATCAGACCT
Statistics
Matches: 202, Mismatches: 45, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
43 29 0.14
44 103 0.51
45 35 0.17
48 34 0.17
49 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAAACCAAT
Found at i:24568483 original size:3 final size:3
Alignment explanation
Indices: 24568475--24568525 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
24568465 CTATTAATTA
* * *
24568475 ATT ATT ATT ATT GTT ATT ATT ACT ATTT ATT ATT GTT ATT GA-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT -ATT ATT
24568521 ATT AT
1 ATT AT
24568526 ATTTGGTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 1 0.03
3 35 0.90
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:24568513 original size:28 final size:27
Alignment explanation
Indices: 24568466--24568529 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 27
24568456 ATATTTTTGC
* *
24568466 TATTA-ATTAATTATTATTATTGTTAT
1 TATTATATTTATTATTATTATTGATAT
*
24568492 TATTACTATTTATTATTGTTATTGATAT
1 TATTA-TATTTATTATTATTATTGATAT
24568520 TATTATATTT
1 TATTATATTT
24568530 GGTTATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.15
27 5 0.15
28 23 0.70
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (27 bp):
TATTATATTTATTATTATTATTGATAT
Found at i:24577228 original size:17 final size:17
Alignment explanation
Indices: 24577206--24577240 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
24577196 AGAAAAGATG
24577206 GACAAAATTTTAGCTTT
1 GACAAAATTTTAGCTTT
24577223 GACAAAATTTTAGCTTT
1 GACAAAATTTTAGCTTT
24577240 G
1 G
24577241 GTTTTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (17 bp):
GACAAAATTTTAGCTTT
Found at i:24578541 original size:14 final size:15
Alignment explanation
Indices: 24578510--24578546 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
24578500 AGTACTTTCA
24578510 ATTTTTTC-TTACTT
1 ATTTTTTCATTACTT
24578524 -TTTTTTCATTA-TT
1 ATTTTTTCATTACTT
24578537 ATTTTTTCAT
1 ATTTTTTCAT
24578547 ATTTTCCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTTTCATTACTT
Found at i:24580175 original size:16 final size:17
Alignment explanation
Indices: 24580140--24580177 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
24580130 AACTCAATTT
* *
24580140 AAAACAATCTTAAACTC
1 AAAATAATCTTAAACCC
24580157 AAAATAATC-TAAACCC
1 AAAATAATCTTAAACCC
24580173 AAAAT
1 AAAAT
24580178 CATCCTAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATAATCTTAAACCC
Found at i:24585281 original size:23 final size:22
Alignment explanation
Indices: 24585255--24585317 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
24585245 TTTAACAGAG
*
24585255 AATCTTCATCGTTTATTGCAGGA
1 AATCTTCAT-GTTTATCGCAGGA
* *
24585278 AATCTCCAGTGTTCATCGCAGGA
1 AATCTTCA-TGTTTATCGCAGGA
24585301 AATCTTCATTGTTTATC
1 AATCTTCA-TGTTTATC
24585318 ACAGAGAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 32 0.97
24 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (22 bp):
AATCTTCATGTTTATCGCAGGA
Found at i:24586719 original size:23 final size:23
Alignment explanation
Indices: 24586693--24586768 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
24586683 AGTCTCTGCG
*
24586693 ATGAACAATGAAGATTCCTTGCA
1 ATGAACAATGAAGATTCTTTGCA
* *
24586716 ATGAACAGTGAAGATTCTTTTCA
1 ATGAACAATGAAGATTCTTTGCA
*
24586739 ATGAACAATGAGGATTCTTTGCA
1 ATGAACAATGAAGATTCTTTGCA
24586762 ATGAACA
1 ATGAACA
24586769 GTAAATATTC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (23 bp):
ATGAACAATGAAGATTCTTTGCA
Found at i:24586727 original size:46 final size:46
Alignment explanation
Indices: 24586669--24586770 Score: 132
Period size: 46 Copynumber: 2.2 Consensus size: 46
24586659 AGAAAAGACG
* *
24586669 AATGAACTGTGAAAAGTCTCTGCGATGAACAATGAAGATTCCTTGC
1 AATGAACAGTGAAAAGTCTCTGCAATGAACAATGAAGATTCCTTGC
* * * * * *
24586715 AATGAACAGTGAAGATTCTTTTCAATGAACAATGAGGATTCTTTGC
1 AATGAACAGTGAAAAGTCTCTGCAATGAACAATGAAGATTCCTTGC
24586761 AATGAACAGT
1 AATGAACAGT
24586771 AAATATTCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (46 bp):
AATGAACAGTGAAAAGTCTCTGCAATGAACAATGAAGATTCCTTGC
Found at i:24586778 original size:23 final size:23
Alignment explanation
Indices: 24586669--24586770 Score: 114
Period size: 23 Copynumber: 4.4 Consensus size: 23
24586659 AGAAAAGACG
* * * *
24586669 AATGAACTGTGAAAAGTCTCTGC
1 AATGAACAGTGAAGATTCTTTGC
* * *
24586692 GATGAACAATGAAGATTCCTTGC
1 AATGAACAGTGAAGATTCTTTGC
*
24586715 AATGAACAGTGAAGATTCTTTTC
1 AATGAACAGTGAAGATTCTTTGC
* *
24586738 AATGAACAATGAGGATTCTTTGC
1 AATGAACAGTGAAGATTCTTTGC
24586761 AATGAACAGT
1 AATGAACAGT
24586771 AAATATTCAC
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (23 bp):
AATGAACAGTGAAGATTCTTTGC
Found at i:24591189 original size:1 final size:1
Alignment explanation
Indices: 24591183--24591208 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
24591173 TGCTTTACCC
24591183 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
24591209 AGACAGGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:24596887 original size:15 final size:15
Alignment explanation
Indices: 24596867--24596896 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24596857 AAGTTGGTGC
24596867 ATATATATCAATCGT
1 ATATATATCAATCGT
24596882 ATATATATCAATCGT
1 ATATATATCAATCGT
24596897 GTCCAACTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
ATATATATCAATCGT
Found at i:24599060 original size:42 final size:42
Alignment explanation
Indices: 24598993--24599092 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 42
24598983 GTGCTAAACA
* * ** * *
24598993 AAAACCCATAATGGTTGAACGGAAGCTCGTAGGAGTTGAACG
1 AAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
*
24599035 AAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
1 AAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
* *
24599077 AAAACCTATTAGGGTT
1 AAAACCCATAAGGGTT
24599093 GAACAGAACT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (42 bp):
AAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
Found at i:24604629 original size:42 final size:42
Alignment explanation
Indices: 24604562--24604661 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 42
24604552 GTGCCAAACA
* * * ** *
24604562 GAAACCTATAGGGGTTGAACGGAAGCTCGTAGGAGCTGAACG
1 GAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
*
24604604 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
* *
24604646 AAAACCCATTAGGGTT
1 GAAACCCATAAGGGTT
24604662 GAATAAAAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.17
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
Found at i:24618121 original size:19 final size:19
Alignment explanation
Indices: 24618067--24618121 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
24618057 TAATGTTTGA
*
24618067 AATATATAAATTTAAACAT
1 AATATATAAATTTAAAAAT
* * *
24618086 AATTTA-AGAAATAAAAAAT
1 AATATATA-AATTTAAAAAT
24618105 AATATATAAATTTAAAA
1 AATATATAAATTTAAAA
24618122 TTTAAAATAA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
18 1 0.04
19 25 0.93
20 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AATATATAAATTTAAAAAT
Found at i:24618158 original size:29 final size:30
Alignment explanation
Indices: 24618110--24618188 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
24618100 AAAATAATAT
**
24618110 ATAAATTTAAA-AT-TTAAAATAAATTTG-A
1 ATAAA-TTAAAGATGTTAAAATAAAGCTGAA
* *
24618138 ATAAATTAACGATGTTGAAAT-AAGCTGAA
1 ATAAATTAAAGATGTTAAAATAAAGCTGAA
24618167 ATAAATTAAAGATGTTAAAATA
1 ATAAATTAAAGATGTTAAAATA
24618189 TTTGAAAGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
27 4 0.10
28 11 0.27
29 26 0.63
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (30 bp):
ATAAATTAAAGATGTTAAAATAAAGCTGAA
Found at i:24620240 original size:88 final size:86
Alignment explanation
Indices: 24620123--24620473 Score: 336
Period size: 88 Copynumber: 4.0 Consensus size: 86
24620113 GCCTGGGAAG
* * **
24620123 TAAGATCTGTAATTCTTTGGTCTATTCCACTGTAATCTCAGGCAGATAAGACCTTACTTTAATCT
1 TAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGA-CTTA-TGCAATCT
*
24620188 ACTCCACTGTAACCTCAGGGAGA
64 ACTCCACTGTAACCTCAGAGAGA
* * *
24620211 TAAGATCTGTAATTCTTCGGTCTATTCCACTTTAATCTCAGGGAGATAAGACCTGATGCGATCTA
1 TAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGA-CTTATGCAATCTA
* *
24620276 CTCTACTGTAACTTCAGAGAGA
65 CTCCACTGTAACCTCAGAGAGA
* ** * * * * *
24620298 TAAGATCAT-TTATT-TT-AATCCACTCCACCGTAA--TCAGGGAAATAGGA-TTACTGGCTTCA
1 TAAGATC-TGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACTTA-T-G---CA
* * * * *
24620357 ATCTGCTTCGCTGTAATCTCAGGGAGA
60 ATCTACTCCACTGTAACCTCAGAGAGA
*
24620384 TAAGATCTGTAATTCTTCGGCCTATTCCACTGTAATCTCAGGGAGATAAGACTTGATGCAATCTA
1 TAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACTT-ATGCAATCTA
* *
24620449 CTCTACTGTAACTTCAGAGAGA
65 CTCCACTGTAACCTCAGAGAGA
24620471 TAA
1 TAA
24620474 AATCCTTTAT
Statistics
Matches: 206, Mismatches: 44, Indels: 27
0.74 0.16 0.10
Matches are distributed among these distances:
81 2 0.01
82 1 0.00
83 13 0.06
85 12 0.06
86 34 0.17
87 63 0.31
88 64 0.31
90 13 0.06
91 3 0.01
92 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (86 bp):
TAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACTTATGCAATCTAC
TCCACTGTAACCTCAGAGAGA
Found at i:24620251 original size:46 final size:46
Alignment explanation
Indices: 24620123--24620261 Score: 178
Period size: 46 Copynumber: 3.1 Consensus size: 46
24620113 GCCTGGGAAG
*
24620123 TAAGATCTGTAATTCTTTGGTCTATTCCACTGTAATCTCAGGCAGA
1 TAAGATCTGTAATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGA
* ** * *
24620169 TAAGACCT-T-A--CTTTAATCTACTCCACTGTAACCTCAGGGAGA
1 TAAGATCTGTAATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGA
* *
24620211 TAAGATCTGTAATTCTTCGGTCTATTCCACTTTAATCTCAGGGAGA
1 TAAGATCTGTAATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGA
24620257 TAAGA
1 TAAGA
24620262 CCTGATGCGA
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
42 34 0.45
43 1 0.01
44 2 0.03
45 1 0.01
46 38 0.50
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (46 bp):
TAAGATCTGTAATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGA
Found at i:24620490 original size:173 final size:174
Alignment explanation
Indices: 24620183--24620564 Score: 579
Period size: 173 Copynumber: 2.2 Consensus size: 174
24620173 ACCTTACTTT
* * * * *
24620183 AATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGTAATTCTTCGGTCTATTCCACTTTAATC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGCCTATTCCACTGTAATC
* *
24620248 TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTT
66 TCAGGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAAATCATTTATTT
* *
24620313 TAATCCACTCCACCGTAA-TCAGGGAAATAGGATTACTGGCTTC
131 TAATCCACTCCACCGTAACTCAGGAAAATAGGATTACTAGCTTC
*
24620356 AATCTGCTTCGCTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGCCTATTCCACTGTAATC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGCCTATTCCACTGTAATC
* *
24620421 TCAGGGAGATAAGACTTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAAATCCTTTATTT
66 TCAGGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAAATCATTTATTT
* * *
24620486 TAATCCGCTCCACTGTAATCTCAGGAAAATAGGATTACTAGTTTC
131 TAATCCACTCCACCGTAA-CTCAGGAAAATAGGATTACTAGCTTC
* *
24620531 AATCTGCTCCGTTGTAATCTTAGGGACG-TAAGAT
1 AATCTGCTCCGCTGTAATCTCAGGGA-GATAAGAT
24620565 TTCTCGCTTC
Statistics
Matches: 188, Mismatches: 18, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
173 136 0.72
175 51 0.27
176 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (174 bp):
AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGCCTATTCCACTGTAATC
TCAGGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAAATCATTTATTT
TAATCCACTCCACCGTAACTCAGGAAAATAGGATTACTAGCTTC
Found at i:24620600 original size:44 final size:44
Alignment explanation
Indices: 24620487--24620606 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 44
24620477 CCTTTATTTT
* * * *
24620487 AATCCGCTCCACTGTAATCTCAGGAAAATAGGATTACTAGTTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTAGCTTC
** * ** * *
24620531 AATCTGCTCCGTTGTAATCTTAGGGACGTAAGATTTCTCGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTAGCTTC
* *
24620575 AATCTGCTCCACTGTAACCTCAGGGAGATAAG
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAG
24620607 GCTGGTGTTT
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTAGCTTC
Found at i:24622767 original size:10 final size:10
Alignment explanation
Indices: 24622752--24622784 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
24622742 TTGGCCTCTC
24622752 CTTTTTATTT
1 CTTTTTATTT
24622762 CTTTTTATTT
1 CTTTTTATTT
*
24622772 CTTCTT-TTT
1 CTTTTTATTT
24622781 CTTT
1 CTTT
24622785 CATTTTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (10 bp):
CTTTTTATTT
Found at i:24623591 original size:25 final size:25
Alignment explanation
Indices: 24623541--24623606 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
24623531 AAGAAAGTCC
* *
24623541 AAAAGAATGAAAGAATAATTATTCA
1 AAAATAATGAAAGAATAATTACTCA
*
24623566 AAAATAATGAAAGAAT-ATTGGCTCA
1 AAAATAATGAAAGAATAATT-ACTCA
24623591 AAAATGAATGCAAAGA
1 AAAAT-AATG-AAAGA
24623607 TGTATTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 23 0.66
26 4 0.11
27 5 0.14
ACGTcount: A:0.58, C:0.06, G:0.15, T:0.21
Consensus pattern (25 bp):
AAAATAATGAAAGAATAATTACTCA
Found at i:24626801 original size:29 final size:30
Alignment explanation
Indices: 24626753--24626831 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
24626743 AAAATAATAT
**
24626753 ATAAATTTAAA-AT-TTAAAATAAATTTG-A
1 ATAAA-TTAAAGATGTTAAAATAAAGCTGAA
* *
24626781 ATAAATTAACGATGTTGAAAT-AAGCTGAA
1 ATAAATTAAAGATGTTAAAATAAAGCTGAA
24626810 ATAAATTAAAGATGTTAAAATA
1 ATAAATTAAAGATGTTAAAATA
24626832 TTTGAAAGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
27 4 0.10
28 11 0.27
29 26 0.63
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (30 bp):
ATAAATTAAAGATGTTAAAATAAAGCTGAA
Found at i:24626964 original size:191 final size:192
Alignment explanation
Indices: 24626663--24627045 Score: 732
Period size: 191 Copynumber: 2.0 Consensus size: 192
24626653 GCTAATAAGA
*
24626663 GGAAACTAATCAAAAATCAAGCAAATTTATAAAACACTAATGTTTGAAATATACAAATTTAAACA
1 GGAAACTAATCAAAAATCAAGCAAATTTATAAAACACTAATGTTTGAAACATACAAATTTAAACA
24626728 TAATTTAAGAAATAAAAAATAATATATAAATTTAAAATTTAAAATAAATTTGAATAAATTAACGA
66 TAATTTAAGAAATAAAAAATAATATATAAATTTAAAATTTAAAATAAATTTGAATAAATTAACGA
*
24626793 TGTTGAAATAAGCTGAAATAAATTAAAGATGTTAAAATATTTGAAAGAAATAAAATATCTAT
131 TGTTGAAATAAGCTGAAATAAATTAAACATGTTAAAATATTTGAAAGAAATAAAATATCTAT
*
24626855 GGAAACTAAT-AAAAATCAAGCAAATTTATATAACACTAATGTTTGAAACATACAAATTTAAACA
1 GGAAACTAATCAAAAATCAAGCAAATTTATAAAACACTAATGTTTGAAACATACAAATTTAAACA
24626919 TAATTTAAGAAATAAAAAATAATATATAAATTTAAAATTTAAAATAAATTTGAATAAATTAACGA
66 TAATTTAAGAAATAAAAAATAATATATAAATTTAAAATTTAAAATAAATTTGAATAAATTAACGA
24626984 TGTTGAAATAAGCTGAAATAAATTAAACATGTTAAAATATTTGAAAGAAATAAAATATCTAT
131 TGTTGAAATAAGCTGAAATAAATTAAACATGTTAAAATATTTGAAAGAAATAAAATATCTAT
24627046 ATAATAATAT
Statistics
Matches: 188, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
191 178 0.95
192 10 0.05
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (192 bp):
GGAAACTAATCAAAAATCAAGCAAATTTATAAAACACTAATGTTTGAAACATACAAATTTAAACA
TAATTTAAGAAATAAAAAATAATATATAAATTTAAAATTTAAAATAAATTTGAATAAATTAACGA
TGTTGAAATAAGCTGAAATAAATTAAACATGTTAAAATATTTGAAAGAAATAAAATATCTAT
Found at i:24649316 original size:3 final size:3
Alignment explanation
Indices: 24649310--24649353 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
24649300 ATTATTATTA
24649310 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
24649354 ATAATAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:24650764 original size:148 final size:150
Alignment explanation
Indices: 24650592--24650935 Score: 487
Period size: 148 Copynumber: 2.3 Consensus size: 150
24650582 TCTATGAGAG
* * * *
24650592 AATCTAAACTTTCTCATTTTAAAAAAAACACTATTTTTCTTAAATATTAAAGCTTTTATTTTGAA
1 AATCTAAACTTTCTCCTTTAAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTACTTTGAA
* *
24650657 GTAGTT-AAAAAAATCAAAACTTTGTTTTCAAAA-TTTAAATTTTCCTTTAAAATAACTAAAAAA
66 ATAGTTAAAAAAAATCAAAACTTTGTTTT-AAAATTTTAAACTTTCCTTTAAAATAACTAAAAAA
24650720 AATAGATTTTTATTT-TTCAA
130 AATAGATTTTTATTTCTTCAA
* *
24650740 AATCTAAACTTTCTCCTTTAAAAAAAAACATTGTTTTTCTTAAAGATTAAAGCTTTTACTTTGAA
1 AATCTAAACTTTCTCCTTTAAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTACTTTGAA
*
24650805 ATAGTTGAAAAAAAAATCAAAACTTTGTTTTAAAATTTTTAACTTTCCTTTAAAATAACTAAAAA
66 ATAGTT--AAAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATAACTAAAAA
* *
24650870 ATATATATTTTTATTTCTTCAA
129 AAATAGATTTTTATTTCTTCAA
*
24650892 AATCTAAACTTTCTCCCTTTTTTTAAAAAAAAGCACTATTTTTC
1 AATCTAAACTTTCT-CC----TTTAAAAAAAAACACTATTTTTC
24650936 CCAAAATCAA
Statistics
Matches: 172, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
148 64 0.37
150 4 0.02
151 63 0.37
152 19 0.11
153 2 0.01
157 20 0.12
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (150 bp):
AATCTAAACTTTCTCCTTTAAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTACTTTGAA
ATAGTTAAAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATAACTAAAAAAA
ATAGATTTTTATTTCTTCAA
Found at i:24662755 original size:11 final size:11
Alignment explanation
Indices: 24662729--24662757 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
24662719 TTAAAAATAA
24662729 AAAATTATTTT
1 AAAATTATTTT
24662740 AAAATTATTTT
1 AAAATTATTTT
24662751 AAAATTA
1 AAAATTA
24662758 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:24662762 original size:19 final size:18
Alignment explanation
Indices: 24662701--24662746 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
24662691 CATTTTTTAA
24662701 TAAACATTAAAAAATATTT
1 TAAA-ATTAAAAAATATTT
*
24662720 TAAAAATAAAAAATTATTT
1 TAAAATTAAAAAA-TATTT
24662739 TAAAATTA
1 TAAAATTA
24662747 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAATTAAAAAATATTT
Found at i:24662773 original size:30 final size:30
Alignment explanation
Indices: 24662710--24662783 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
24662700 ATAAACATTA
* ***
24662710 AAAAATATTTTAAAAATAAAAAATTATTTT
1 AAAAATATTTTAAAAATAAAAAATAAAAAT
* *
24662740 AAAATTATTTTAAAATTAAAAAATAAAAAT
1 AAAAATATTTTAAAAATAAAAAATAAAAAT
24662770 AAAAAATATATTTA
1 -AAAAATAT-TTTA
24662784 TTATNNNNNN
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
30 24 0.69
31 7 0.20
32 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (30 bp):
AAAAATATTTTAAAAATAAAAAATAAAAAT
Found at i:24663125 original size:18 final size:20
Alignment explanation
Indices: 24663102--24663138 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24663092 AATATTGTTA
24663102 AAAGAG-TT-GTAATTTTTT
1 AAAGAGATTGGTAATTTTTT
24663120 AAAGAGATTGGTAATTTTT
1 AAAGAGATTGGTAATTTTT
24663139 GAAGAGTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (20 bp):
AAAGAGATTGGTAATTTTTT
Found at i:24663693 original size:23 final size:24
Alignment explanation
Indices: 24663637--24663693 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
24663627 AATGGTGGAT
24663637 TAATTAAATACATTAAGGTTAATTAA
1 TAATTAAA-ACATTAA-GTTAATTAA
24663663 -AATTAAAACA-TAA-TTAATTAA
1 TAATTAAAACATTAAGTTAATTAA
24663684 CTAATTAAAA
1 -TAATTAAAA
24663694 ACTTAATCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
21 8 0.28
23 11 0.38
24 3 0.10
25 7 0.24
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (24 bp):
TAATTAAAACATTAAGTTAATTAA
Found at i:24665977 original size:24 final size:24
Alignment explanation
Indices: 24665948--24665993 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
24665938 ATCTAAAATC
** *
24665948 AATCAAAGGTTGATATTAAAATTG
1 AATCAAAGACTGATATAAAAATTG
24665972 AATCAAAGACTGATATAAAAAT
1 AATCAAAGACTGATATAAAAAT
24665994 ATTTACACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.07, G:0.13, T:0.28
Consensus pattern (24 bp):
AATCAAAGACTGATATAAAAATTG
Found at i:24668139 original size:496 final size:491
Alignment explanation
Indices: 24667184--24668762 Score: 1454
Period size: 496 Copynumber: 3.2 Consensus size: 491
24667174 ATTCGATATT
* * * * *
24667184 ATATAGTGAAATATATCAAAGCTTTGGACCACTGATGTTTAATTTTAATTTTTTTATCAATTAAA
1 ATATAG-GAAATATA--AAA-CTTTGGACCACTGATGTTTAATTTCAAATATTTGATCAATTTAA
* * * * * *
24667249 GAGTATTTTTCGATTATGCATTCCTCTAACTACTAACGTAATTAAATGATTATAACATTGAACCA
62 GAGTATTTATCAATTATGCATTCCTTTAACTACTAACATAATT-GATGATTATAGCATTGAACCA
* * * * * *
24667314 ATTGAATTGGGTTTATATACGAATTTATTAACATTATGGTGT---AGTAATTTGAAGAGTATTGA
126 ATTGAA-TAGATTTATATACGAATGTACTAACATTGTGGTGTACAAGTAATTTGAA-AATATTG-
* * * * *
24667376 CCAATTACACATTTCCCGCACATTTCTCTAATTACTAATGTAATTCAATAGGCTATGACATTAAT
188 ---A-T-CA-A-TT---GTACATTTCTCTAATTACTAACGTAATTGAATGGGTTATGACATTAAT
* * * * * * * *
24667441 TATTCAAC-CATTGATCCAATTCAATGAATCTATGTAAGAAGGTAATGACAATATAATGTATATG
243 TGTAC-ACTCATTAATCTAATTGAATGAATCTATGTATGAAGGTAATGACATTATAATGTATAAG
* * * *
24667505 TATTTTTAAAAGTATTGACCAATTGTATATTCCTTTAATTATTAGCACAAA-CGAATAATCAATG
307 TATTTTTAAAAGTATTGATCAATTGTATATTCCTCTAATTACTAGGA-AAATCGAATAATC-ATG
* * * * * * * * *
24667569 ACATAAATAATATAACTAAAGATCCAACTAAACAAATTGTATAATTAATTGTACAACCATTGATT
370 ACATTAATAATACATCCAATGATCCAATTGAATAAATTGTATAATTAA-TGTACAATCATTGATT
* *
24667634 CAATTGAATTGATCTATGTAAACACAATATTGAGTATACATGTTTGAAATTCAATACC
434 CAATTGAATTGATCTATGTAAACACAACATTGAGTATACATGTTTGAAATTCAATAAC
* * *
24667692 ATATAGCGAAATATCAAAATTTTGGACTACTGATGTTTAATTTTAAATATTTGATCAATTTAAGA
1 ATATAG-GAAATAT-AAAACTTTGGACCACTGATGTTTAATTTCAAATATTTGATCAATTTAAGA
* * * * **
24667757 TTATTTATCAATTATACATTCCTTTAACTACAAACATAAATGATTCTTATAGCATTGAACCAATT
64 GTATTTATCAATTATGCATTCCTTTAACTACTAACATAATTGATGATTATAGCATTGAACCAATT
*
24667822 GAATCAGATTTATATACGAATGTACTAACATTGTGGTGTACAAGTAATTTGAATAACATTGATCA
129 GAAT-AGATTTATATACGAATGTACTAACATTGTGGTGTACAAGTAATTTGAA-AATATTGATCA
* * * *
24667887 ATTGTACATTTCTCTAA-TACTAACATAACTGAATGGGTTATTATATTAATTGTACACTCATTAA
192 ATTGTACATTTCTCTAATTACTAACGTAATTGAATGGGTTATGACATTAATTGTACACTCATTAA
* * * * * *
24667951 TCTAATTGAATAAATCTATGTATGAAGGTGATGACATTATAGTGTGTAAGTATGTCTAAAAGTAT
257 TCTAATTGAATGAATCTATGTATGAAGGTAATGACATTATAATGTATAAGTATTTTTAAAAGTAT
* * * **
24668016 TTATCAATTGTACATTCCTCTAATTACTAGGAAAATCCAATTAATCATGACATTAACCATACATC
322 TGATCAATTGTATATTCCTCTAATTACTAGGAAAATCGAA-TAATCATGACATTAATAATACATC
*
24668081 CAATGATCCAATTGAATAAATTGTATAATTAATCGTACAATCATTTATTCAATTGAATT-ATTCT
386 CAATGATCCAATTGAATAAATTGTATAATTAAT-GTACAATCATTGATTCAATTGAATTGA-TCT
* * *
24668145 GTGTAAACATAACATTTAGTATACATGTTTG-AATT---TAAC
449 ATGTAAACACAACATTGAGTATACATGTTTGAAATTCAATAAC
* * * * *
24668184 ATA-A-TAAAT-TGAAACTTTGGACCAGTTATGTTTAATTTCAAATATTTGATTAATTTAAGAGT
1 ATATAGGAAATATAAAACTTTGGACCACTGATGTTTAATTTCAAATATTTGATCAATTTAAGAGT
* ** * *
24668246 ATTTATCAATTATGCATTCCTTTCACTACTAATTTAATTGAATGATTATGGCATTAAACCAATTG
66 ATTTATCAATTATGCATTCCTTTAACTACTAACATAATTG-ATGATTATAGCATTGAACCAATTG
* * * * * * * * *
24668311 AATTGAGTCTATATTCGAACGTACTAACAATGTGGTGTACAAGTAATGTGAAAAGTAATGACCAC
130 AATAGA-TTTATATACGAATGTACTAACATTGTGGTGTACAAGTAATTTGAAAA-TATTGATCAA
* * * * ** * * * * *
24668376 TTTTACATTTTTCTAATTTCTAACGTATTTGAATGACTTATGACATTACTTGTAGAATAATTCAT
193 TTGTACATTTCTCTAATTACTAACGTAATTGAATGGGTTATGACATTAATTGTACACTCATTAAT
* * * * *
24668441 CTAATTGAATGAATCTATATATGAAGGTAATAACATTGTATTCTATAAGTATTTTTAAAAGTATT
258 CTAATTGAATGAATCTATGTATGAAGGTAATGACATTATAATGTATAAGTATTTTTAAAAGTATT
* * ** * **
24668506 GATCAATTGTATATTCCTCTAACTT-CTAGTG-TAATCGAACAAATTGTGTCATTAATTGTACAA
323 GATCAATTGTATATTCCTCTAA-TTACTAG-GAAAATCGAA-TAATCATGACATTAATAATAC-A
* * * ** * * * *
24668569 T-CATTGATCCAATTGAATCAGTTGTATAATCGAT-TATAATCATTGATCCAATTGAATCGATCC
384 TCCAATGATCCAATTGAATAAATTGTATAATTAATGTACAATCATTGATTCAATTGAATTGATCT
* * * *
24668632 ATGTAAACACAACATTGGGTATACATCTTT-AGAACTCAATATC
449 ATGTAAACACAACATTGAGTATACATGTTTGA-AATTCAATAAC
*
24668675 ATATAGTGAAATATATCAAATTTTGGACCACCT-ATGTTTAATTTCAAATATTTGAAT-AATTTA
1 ATATAG-GAAATATA--AAACTTTGGACCA-CTGATGTTTAATTTCAAATATTTG-ATCAATTTA
*
24668738 AAAGTATTTATCAATTATGCATTCC
61 AGAGTATTTATCAATTATGCATTCC
24668763 ACTAACTAGA
Statistics
Matches: 878, Mismatches: 162, Indels: 73
0.79 0.15 0.07
Matches are distributed among these distances:
487 129 0.15
488 88 0.10
489 166 0.19
490 5 0.01
491 7 0.01
492 7 0.01
494 4 0.00
495 12 0.01
496 210 0.24
497 81 0.09
498 3 0.00
500 2 0.00
501 1 0.00
502 2 0.00
503 1 0.00
504 2 0.00
505 52 0.06
506 73 0.08
507 3 0.00
508 29 0.03
509 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.38
Consensus pattern (491 bp):
ATATAGGAAATATAAAACTTTGGACCACTGATGTTTAATTTCAAATATTTGATCAATTTAAGAGT
ATTTATCAATTATGCATTCCTTTAACTACTAACATAATTGATGATTATAGCATTGAACCAATTGA
ATAGATTTATATACGAATGTACTAACATTGTGGTGTACAAGTAATTTGAAAATATTGATCAATTG
TACATTTCTCTAATTACTAACGTAATTGAATGGGTTATGACATTAATTGTACACTCATTAATCTA
ATTGAATGAATCTATGTATGAAGGTAATGACATTATAATGTATAAGTATTTTTAAAAGTATTGAT
CAATTGTATATTCCTCTAATTACTAGGAAAATCGAATAATCATGACATTAATAATACATCCAATG
ATCCAATTGAATAAATTGTATAATTAATGTACAATCATTGATTCAATTGAATTGATCTATGTAAA
CACAACATTGAGTATACATGTTTGAAATTCAATAAC
Found at i:24674615 original size:30 final size:29
Alignment explanation
Indices: 24674581--24674662 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 29
24674571 TCCACTTGAC
24674581 TTAGATAGCCACAGAGGAGTCCGCATATCA
1 TTAGATAGCCACA-AGGAGTCCGCATATCA
*
24674611 TTAGATAGCCACAAAGGCGTCCGCATATCA
1 TTAGATAGCCAC-AAGGAGTCCGCATATCA
*
24674641 TTAGATAACCACAAGGATGTCC
1 TTAGATAGCCACAAGGA-GTCC
24674663 AGATTCATAC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
29 4 0.09
30 42 0.89
31 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (29 bp):
TTAGATAGCCACAAGGAGTCCGCATATCA
Found at i:24674867 original size:61 final size:61
Alignment explanation
Indices: 24674772--24675019 Score: 327
Period size: 61 Copynumber: 4.1 Consensus size: 61
24674762 ATTTTGCCAT
* * *
24674772 AAAGGCTTCCATATATAACAGATTCTGCCACTAGGGCTCACATA-AAGCAGAGAACAACCAC
1 AAAGGCTTTCACATATAACAGATTCCGCCACTAGGGCTCACATATAA-CAGAGAACAACCAC
** * * * * * * *
24674833 AAAGGCTTTGGCATATAACAGATTCTGCCTCTAGGGTTTACATAAAATAGAAAACAACCAC
1 AAAGGCTTTCACATATAACAGATTCCGCCACTAGGGCTCACATATAACAGAGAACAACCAC
* * *
24674894 GAAGGCTTCCACATATAACAAATTCCGCCACTAGGGCTCACATATAACAGAGAACAACCAC
1 AAAGGCTTTCACATATAACAGATTCCGCCACTAGGGCTCACATATAACAGAGAACAACCAC
* *
24674955 AAAGGCTTTCACATATAACAGGTTCCGCCACTAGGGCTCACACATAACAGAGAACAACCAC
1 AAAGGCTTTCACATATAACAGATTCCGCCACTAGGGCTCACATATAACAGAGAACAACCAC
24675016 AAAG
1 AAAG
24675020 TCATCACTTT
Statistics
Matches: 160, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
61 158 0.99
62 2 0.01
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.19
Consensus pattern (61 bp):
AAAGGCTTTCACATATAACAGATTCCGCCACTAGGGCTCACATATAACAGAGAACAACCAC
Found at i:24674936 original size:29 final size:29
Alignment explanation
Indices: 24674903--24675003 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 29
24674893 CGAAGGCTTC
24674903 CACATATAACAAATTCCGCCACTAGGGCT
1 CACATATAACAAATTCCGCCACTAGGGCT
* ** * *
24674932 CACATATAACAGAGA-ACAACCACAAAGGCTTT
1 CACATATAACA-A-ATTCCGCCACTAGGGC--T
**
24674964 CACATATAACAGGTTCCGCCACTAGGGCT
1 CACATATAACAAATTCCGCCACTAGGGCT
*
24674993 CACACATAACA
1 CACATATAACA
24675004 GAGAACAACC
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
29 22 0.41
30 10 0.19
31 10 0.19
32 12 0.22
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.18
Consensus pattern (29 bp):
CACATATAACAAATTCCGCCACTAGGGCT
Found at i:24674971 original size:32 final size:30
Alignment explanation
Indices: 24674928--24675019 Score: 96
Period size: 32 Copynumber: 3.0 Consensus size: 30
24674918 CCGCCACTAG
24674928 GGCTCACATATAACAGAGAACAACCACAAA
1 GGCTCACATATAACAGAGAACAACCACAAA
** ** * *
24674958 GGCTTTCACATATAACAG-GTTCCGCCACTAG
1 GGC--TCACATATAACAGAGAACAACCACAAA
*
24674989 GGCTCACACATAACAGAGAACAACCACAAA
1 GGCTCACATATAACAGAGAACAACCACAAA
24675019 G
1 G
24675020 TCATCACTTT
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 12 0.26
30 11 0.24
31 10 0.22
32 13 0.28
ACGTcount: A:0.41, C:0.28, G:0.16, T:0.14
Consensus pattern (30 bp):
GGCTCACATATAACAGAGAACAACCACAAA
Found at i:24680895 original size:44 final size:43
Alignment explanation
Indices: 24680794--24680911 Score: 109
Period size: 44 Copynumber: 2.7 Consensus size: 43
24680784 AACGTCATCA
* **
24680794 TCCCAGACGTGGTCTTATATGTAATCACATATCGATGCCATTG
1 TCCCAGACGTGGTCTTATACGTAATCACATATCGATGCCAACG
* *
24680837 TCTCATACAG-GGTCTTATACGTAAATCACA-AGTC-ACTGCCAACG
1 TCCCAGAC-GTGGTCTTATACGT-AATCACATA-TCGA-TGCCAACG
*
24680881 TCCCAGACGTGGTCTTACACGATAA-CACATA
1 TCCCAGACGTGGTCTTATACG-TAATCACATA
24680912 ATAGAATTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
43 24 0.40
44 35 0.58
45 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTATACGTAATCACATATCGATGCCAACG
Found at i:24692396 original size:21 final size:23
Alignment explanation
Indices: 24692338--24692397 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 23
24692328 AATCCAAGAG
24692338 TGCACACAAGTGCCAAGTATAAA
1 TGCACACAAGTGCCAAGTATAAA
* * ** *
24692361 TGCATAAAAACGCCAA-TA-GAA
1 TGCACACAAGTGCCAAGTATAAA
24692382 TGCACACAAGTGCCAA
1 TGCACACAAGTGCCAA
24692398 ATCTTCCTCT
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
21 14 0.50
22 2 0.07
23 12 0.43
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.15
Consensus pattern (23 bp):
TGCACACAAGTGCCAAGTATAAA
Found at i:24697662 original size:17 final size:16
Alignment explanation
Indices: 24697640--24697685 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
24697630 AAAATATATG
24697640 TTTATATTATTTTTAAT
1 TTTATA-TATTTTTAAT
**
24697657 TTTATAT-TTAATAAT
1 TTTATATATTTTTAAT
24697672 TTTATATATTTTTA
1 TTTATATATTTTTA
24697686 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 13 0.54
16 5 0.21
17 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATATATTTTTAAT
Found at i:24697684 original size:25 final size:25
Alignment explanation
Indices: 24697656--24697705 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
24697646 TTATTTTTAA
24697656 TTTTATAT-TTAATAATTTTATATAT
1 TTTTATATATTAA-AATTTTATATAT
*
24697681 TTTTATTTATTAAAATTTTATATAT
1 TTTTATATATTAAAATTTTATATAT
24697706 AACTGGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTATATATTAAAATTTTATATAT
Found at i:24702691 original size:43 final size:43
Alignment explanation
Indices: 24702643--24702991 Score: 416
Period size: 43 Copynumber: 8.2 Consensus size: 43
24702633 TTATAGAAAA
* **
24702643 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTCTCCAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTAC
*
24702686 AAACGCCGCTATAGAGCAGGGTCTTTAGCGGCG-TTTTTTCTAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTT-TAC
* *
24702729 AAACGCCGCTATAGATCAGGGTCTTTAACGTCGCTTTTTTTAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTAC
*
24702772 AAACGCTGCTATAGATCAGGGTCTTTAGCGGCGC-TTTTTTAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTAC
* * *
24702814 AAATGCCGCTATAGATCAGGGTCTTTAGCAGCGCTTCTTTTAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTAC
* * ** *
24702857 AAACACCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTTTAA
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTAC
* ** * * **
24702900 AAACGCCGTTATAGATCAGGACCTTTAGTGGCACTTTTTCCAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTAC
* ** ** *
24702943 AAACGCCACTATATCTCAGGACCTTTAGCGGCG-TTTTTTTAT
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTAC
24702985 AAACGCC
1 AAACGCC
24702992 AATAATTTTA
Statistics
Matches: 264, Mismatches: 39, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
42 56 0.21
43 202 0.77
44 6 0.02
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTAC
Found at i:24702872 original size:128 final size:128
Alignment explanation
Indices: 24702641--24702955 Score: 416
Period size: 128 Copynumber: 2.4 Consensus size: 128
24702631 GTTTATAGAA
*
24702641 AAAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTCTCCACAAACGCCGCTATAGAGCAGG
1 AAAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTT-TTCACAAACGCCGCTATAGAGCAGG
* * * * ** *
24702706 GTCTTTAGCGGCGTTTTTTCTACAAACGCCGCTATAGATCAGGGTCTTTAACGTCGCTTTTTTT
65 GTCTTTAGCAGCGTTCTTTCTACAAACACCGCTATAGATCAAGACCTTTAACGGCGCTTTTTTT
* * * * *
24702770 ACAAACGCTGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTACAAATGCCGCTATAGATCAGGG
1 AAAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTCACAAACGCCGCTATAGAGCAGGG
*
24702835 TCTTTAGCAGCGCTTCTTT-TACAAACACCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTTT
66 TCTTTAGCAGCG-TTCTTTCTACAAACACCGCTATAGATCAAGACCTTTAACGGCGCTTTTTTT
* ** * * *
24702898 AAAAACGCCGTTATAGATCAGGACCTTTAGTGGCACTTTTTCCACAAACGCCACTATA
1 AAAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTT-CACAAACGCCGCTATA
24702956 TCTCAGGACC
Statistics
Matches: 160, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
128 105 0.66
129 55 0.34
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (128 bp):
AAAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTCACAAACGCCGCTATAGAGCAGGG
TCTTTAGCAGCGTTCTTTCTACAAACACCGCTATAGATCAAGACCTTTAACGGCGCTTTTTTT
Found at i:24702947 original size:171 final size:171
Alignment explanation
Indices: 24702647--24702983 Score: 417
Period size: 171 Copynumber: 2.0 Consensus size: 171
24702637 AGAAAAAAAC
* * * **
24702647 GCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTCTCCACAAACGCCGCTATAGAGCAGGGTCTTT
1 GCCGCTATAGATCAGGGTCTTTAGCAGCGCTTTCTCCACAAACACCGCTATAGAGCAAGACCTTT
* ** * * **
24702712 AGCGGCGTTTTTTCTACAAACGCCGCTATAGATCAGGGTCTTTAACGTCGCTTTTTTTACAAACG
66 AGCGGCGTTTTTTCTAAAAACGCCGCTATAGATCAGGACCTTTAACGGCACTTTTTCCACAAACG
** **
24702777 CTGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTACAAAT
131 CCACTATAGATCAGGACCTTTAGCGGCGCTTTTTTACAAAT
** *
24702818 GCCGCTATAGATCAGGGTCTTTAGCAGCGC-TTCTTTTACAAACACCGCTATAGATCAAGACCTT
1 GCCGCTATAGATCAGGGTCTTTAGCAGCGCTTTC-TCCACAAACACCGCTATAGAGCAAGACCTT
* **
24702882 TAGCGGCGCTTTTTT-TAAAAACGCCGTTATAGATCAGGACCTTTAGTGGCACTTTTTCCACAAA
65 TAGCGGCG-TTTTTTCTAAAAACGCCGCTATAGATCAGGACCTTTAACGGCACTTTTTCCACAAA
** *
24702946 CGCCACTATATCTCAGGACCTTTAGCGGCGTTTTTTTA
129 CGCCACTATAGATCAGGACCTTTAGCGGCGCTTTTTTA
24702984 TAAACGCCAA
Statistics
Matches: 139, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
170 3 0.02
171 130 0.94
172 6 0.04
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (171 bp):
GCCGCTATAGATCAGGGTCTTTAGCAGCGCTTTCTCCACAAACACCGCTATAGAGCAAGACCTTT
AGCGGCGTTTTTTCTAAAAACGCCGCTATAGATCAGGACCTTTAACGGCACTTTTTCCACAAACG
CCACTATAGATCAGGACCTTTAGCGGCGCTTTTTTACAAAT
Found at i:24703426 original size:87 final size:87
Alignment explanation
Indices: 24703280--24703439 Score: 223
Period size: 87 Copynumber: 1.8 Consensus size: 87
24703270 TTCTCATCTG
* *
24703280 CTCTGCTTCCCTCGCTGCTGCATCAGATTTAAGTTGTGCCTGGAGTTCTTCATATTTTCTTTGAA
1 CTCTGCTTCCCTCGCTACAGCATCAGATTTAAGTTGTGCCTGGAGTTCTTCATATTTTCTTTGAA
*
24703345 CCTTAACTTCTTTCGCTGCTGC
66 CCTCAACTTCTTTCGCTGCTGC
* * * * * *
24703367 CTCTGCTTCCCTCGCTACAGCCTCTGCTTTAAGTTGTAG-TTGGAGTTGTTCATATTTTCTTTGG
1 CTCTGCTTCCCTCGCTACAGCATCAGATTTAAGTTGT-GCCTGGAGTTCTTCATATTTTCTTTGA
24703431 ACCTCAACT
65 ACCTCAACT
24703440 GTGGTCGCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
87 62 0.98
88 1 0.02
ACGTcount: A:0.14, C:0.27, G:0.17, T:0.41
Consensus pattern (87 bp):
CTCTGCTTCCCTCGCTACAGCATCAGATTTAAGTTGTGCCTGGAGTTCTTCATATTTTCTTTGAA
CCTCAACTTCTTTCGCTGCTGC
Found at i:24705834 original size:44 final size:44
Alignment explanation
Indices: 24705744--24706592 Score: 1229
Period size: 44 Copynumber: 19.5 Consensus size: 44
24705734 GATATATATT
* *
24705744 TATGTATTAGGTACGTTATGTATAATA-T--TTAAGTTGTGTAT
1 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
*
24705785 TATGTATTATGTACGTTATGTATAATATTATTTAAGTTGTGT-A
1 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
24705828 TAATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
1 T-ATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
24705873 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
1 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
24705917 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
1 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
24705961 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
1 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
24706005 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
1 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
24706049 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
1 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
24706093 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
1 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
24706137 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
1 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
24706181 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
1 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
24706225 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
1 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
24706269 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
1 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
24706313 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
1 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
* * * * **
24706357 TATGTATTATGTACGGTGTAAGT-T-GTGTATAATGCT-AGTTATCAAA
1 TATGTATTATGTAC-GT-TATGTATAATAT-TAAT--TAAGTTGTGTAA
* * **
24706403 GTTATGTATTATGTATGTTAT-T-TAA-GTTACGTAAGTTGTGT-A
1 --TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
* * *
24706445 TA---A-TGT-TA-GTTATGTACT-AT-GTAAGTT-A--TGTGTAT
1 TATGTATTATGTACGTTATGTA-TAATATTAA-TTAAGTTGTGTAA
* * *
24706480 TATGTATTATGTATGTTATGTATAATCTTAATTAAGTTGTGTAT
1 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
* *
24706524 TATGTATTATGTATGTTATGTATAATATTAATTAAGTTGTGTAT
1 TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
* *
24706568 TATTTAAGTTATGTAAGTTATGTAT
1 TATGT-A-TTATGTACGTTATGTAT
24706593 TTAAGTGTAT
Statistics
Matches: 748, Mismatches: 27, Indels: 61
0.89 0.03 0.07
Matches are distributed among these distances:
34 10 0.01
35 5 0.01
36 6 0.01
37 3 0.00
38 1 0.00
39 2 0.00
40 5 0.01
41 38 0.05
42 7 0.01
43 6 0.01
44 606 0.81
45 14 0.02
46 29 0.04
47 3 0.00
48 13 0.02
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (44 bp):
TATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAA
Found at i:24706422 original size:16 final size:16
Alignment explanation
Indices: 24706403--24706502 Score: 54
Period size: 16 Copynumber: 6.6 Consensus size: 16
24706393 AGTTATCAAA
24706403 GTTATGTATTATGTAT
1 GTTATGTATTATGTAT
* * *
24706419 GTTATTTAAGTTACGTAA
1 GTTATGT-A-TTATGTAT
* *
24706437 GTTGTGTATAATGT-T
1 GTTATGTATTATGTAT
* *
24706452 AGTTATGTACTATGTAA
1 -GTTATGTATTATGTAT
24706469 GTTATG-----TGTA-
1 GTTATGTATTATGTAT
24706479 -TTATGTATTATGTAT
1 GTTATGTATTATGTAT
24706494 GTTATGTAT
1 GTTATGTAT
24706503 AATCTTAATT
Statistics
Matches: 61, Mismatches: 12, Indels: 22
0.64 0.13 0.23
Matches are distributed among these distances:
9 5 0.08
11 4 0.07
14 4 0.07
16 35 0.57
17 2 0.03
18 11 0.18
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (16 bp):
GTTATGTATTATGTAT
Found at i:24706429 original size:25 final size:25
Alignment explanation
Indices: 24706375--24706658 Score: 79
Period size: 25 Copynumber: 11.0 Consensus size: 25
24706365 ATGTACGGTG
* * *
24706375 TAAGTTGTGTATAATGCTA-GTTATC
1 TAAGTTATGTATTATG-TATGTTATT
*
24706400 AAAGTTATGTATTATGTATGTTATT
1 TAAGTTATGTATTATGTATGTTATT
* * *
24706425 TAAGTTACGTAAGTTGTGTA--TAATGT
1 TAAGTTATGT-A-TTATGTATGTTAT-T
* *
24706451 T-AGTTATGTACTATGTAAGTTATGT
1 TAAGTTATGTATTATGTATGTTAT-T
24706476 GT-A-TTATGTATTATGTATGTTATGT
1 -TAAGTTATGTATTATGTATGTTAT-T
* *
24706501 ATAA-TCT-T-AATTAAGT-TGTGTA-T
1 -TAAGT-TATGTATTATGTATGT-TATT
* * *
24706524 TATGTATTATGTATGTTATGTATAATATTAAT
1 TAAG--TTATGTA--TTATG--T-ATGTTATT
* * * *
24706556 TAAGTTGTGTATTATTTAAGTTATG
1 TAAGTTATGTATTATGTATGTTATT
*
24706581 TAAGTTATGTATTTAAGTGTATGTTATG
1 TAAGTTATGTA-TT-A-TGTATGTTATT
* * *
24706609 TAAGTTGTGTATAATGT-TAGTTATC
1 TAAGTTATGTATTATGTAT-GTTATT
* *
24706634 AAAGTTATGTATTATGTAAGTTATT
1 TAAGTTATGTATTATGTATGTTATT
24706659 ATGTTATTAT
Statistics
Matches: 193, Mismatches: 39, Indels: 54
0.67 0.14 0.19
Matches are distributed among these distances:
22 2 0.01
23 6 0.03
24 8 0.04
25 113 0.59
26 13 0.07
27 9 0.05
28 27 0.14
30 7 0.04
31 2 0.01
32 6 0.03
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.49
Consensus pattern (25 bp):
TAAGTTATGTATTATGTATGTTATT
Found at i:24706474 original size:9 final size:9
Alignment explanation
Indices: 24706401--24706684 Score: 65
Period size: 9 Copynumber: 32.6 Consensus size: 9
24706391 CTAGTTATCA
24706401 AAGTTATGT
1 AAGTTATGT
24706410 -A-TTATGT
1 AAGTTATGT
* *
24706417 ATGTTATTT
1 AAGTTATGT
*
24706426 AAGTTACGT
1 AAGTTATGT
*
24706435 AAGTTGTGT
1 AAGTTATGT
*
24706444 -A-TAATGT
1 AAGTTATGT
*
24706451 TAGTTATGT
1 AAGTTATGT
*
24706460 -A-CTATGT
1 AAGTTATGT
24706467 AAGTTATGT
1 AAGTTATGT
*
24706476 GTA-TTATGT
1 -AAGTTATGT
24706485 -A-TTATGT
1 AAGTTATGT
*
24706492 ATGTTATGTAT
1 AAGTTATG--T
*
24706503 AATCTTAAT-T
1 AA-GTT-ATGT
*
24706513 AAGTTGTGT
1 AAGTTATGT
24706522 -A-TTATGT
1 AAGTTATGT
24706529 -A-TTATGT
1 AAGTTATGT
*
24706536 ATGTTATGTAT
1 AAGTTATG--T
*
24706547 AATATTAAT-T
1 AA-GTT-ATGT
*
24706557 AAGTTGTGT
1 AAGTTATGT
*
24706566 -A-TTATTT
1 AAGTTATGT
24706573 AAGTTATGT
1 AAGTTATGT
24706582 AAGTTATGT
1 AAGTTATGT
*
24706591 -ATTTAAGTGT
1 AAGTT-A-TGT
*
24706601 ATGTTATGT
1 AAGTTATGT
*
24706610 AAGTTGTGT
1 AAGTTATGT
*
24706619 -A-TAATGT
1 AAGTTATGT
* **
24706626 TAGTTATCA
1 AAGTTATGT
24706635 AAGTTATGT
1 AAGTTATGT
24706644 -A-TTATGT
1 AAGTTATGT
24706651 AAGTTAT-T
1 AAGTTATGT
*
24706659 ATGTTATTATGT
1 AAG---TTATGT
*
24706671 AAGTTATGC
1 AAGTTATGT
24706680 AAGTT
1 AAGTT
24706685 TATATATAAG
Statistics
Matches: 198, Mismatches: 43, Indels: 68
0.64 0.14 0.22
Matches are distributed among these distances:
7 48 0.24
8 20 0.10
9 98 0.49
10 11 0.06
11 10 0.05
12 7 0.04
13 4 0.02
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (9 bp):
AAGTTATGT
Found at i:24706523 original size:21 final size:21
Alignment explanation
Indices: 24706498--24706567 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
24706488 ATGTATGTTA
*
24706498 TGTATAATCTTAATTAAGTTG
1 TGTATAATATTAATTAAGTTG
* * *
24706519 TGTATTATGTATT-ATGTATGTTA
1 TGTA-TA-ATATTAAT-TAAGTTG
24706542 TGTATAATATTAATTAAGTTG
1 TGTATAATATTAATTAAGTTG
24706563 TGTAT
1 TGTAT
24706568 TATTTAAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
21 18 0.47
22 8 0.21
23 12 0.32
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.51
Consensus pattern (21 bp):
TGTATAATATTAATTAAGTTG
Found at i:24706574 original size:16 final size:16
Alignment explanation
Indices: 24706549--24706582 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24706539 TTATGTATAA
*
24706549 TATTAATTAAGTTGTG
1 TATTAATTAAGTTATG
*
24706565 TATTATTTAAGTTATG
1 TATTAATTAAGTTATG
24706581 TA
1 TA
24706583 AGTTATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (16 bp):
TATTAATTAAGTTATG
Found at i:24706684 original size:45 final size:44
Alignment explanation
Indices: 24706622--24706752 Score: 137
Period size: 41 Copynumber: 3.0 Consensus size: 44
24706612 GTTGTGTATA
*
24706622 ATGTTAGTTATCAAAGTTATGTATTATGTAAGTTATTATGTTATT
1 ATGTAAGTTATC-AAGTTATGTATTATGTAAGTTATTATGTTATT
*
24706667 ATGTAAGTTATGCAAG-T-T-TA-TATATAAGTTATTATGTTATT
1 ATGTAAGTTAT-CAAGTTATGTATTATGTAAGTTATTATGTTATT
* *
24706708 ATGTAAGTTATTATGTTATTATGTTATTATGTAAGTTA-TATGTTA
1 ATGTAAGTTATCAAG---TTATG-TATTATGTAAGTTATTATGTTA
24706753 CAAATTTTGG
Statistics
Matches: 72, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
40 2 0.03
41 31 0.43
42 2 0.03
43 1 0.01
44 2 0.03
45 14 0.19
46 1 0.01
47 9 0.12
48 10 0.14
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (44 bp):
ATGTAAGTTATCAAGTTATGTATTATGTAAGTTATTATGTTATT
Found at i:24706707 original size:8 final size:8
Alignment explanation
Indices: 24706694--24706739 Score: 64
Period size: 8 Copynumber: 6.2 Consensus size: 8
24706684 TTATATATAA
24706694 GTTATTAT
1 GTTATTAT
24706702 GTTATTAT
1 GTTATTAT
24706710 G-TA--A-
1 GTTATTAT
24706714 GTTATTAT
1 GTTATTAT
24706722 GTTATTAT
1 GTTATTAT
24706730 GTTATTAT
1 GTTATTAT
24706738 GT
1 GT
24706740 AAGTTATATG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
4 1 0.03
5 3 0.09
7 3 0.09
8 27 0.79
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (8 bp):
GTTATTAT
Found at i:24706746 original size:20 final size:20
Alignment explanation
Indices: 24706638--24706731 Score: 129
Period size: 20 Copynumber: 4.7 Consensus size: 20
24706628 GTTATCAAAG
24706638 TTATG-TATTATGTAAGTTA
1 TTATGTTATTATGTAAGTTA
24706657 TTATGTTATTATGTAAGTTA
1 TTATGTTATTATGTAAGTTA
* * *
24706677 TGCAAGTT-TATATATAAGTTA
1 T-TATGTTAT-TATGTAAGTTA
24706698 TTATGTTATTATGTAAGTTA
1 TTATGTTATTATGTAAGTTA
24706718 TTATGTTATTATGT
1 TTATGTTATTATGT
24706732 TATTATGTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
19 5 0.08
20 44 0.68
21 16 0.25
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.53
Consensus pattern (20 bp):
TTATGTTATTATGTAAGTTA
Done.