Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 83 of 438
Found at i:22602491 original size:40 final size:40
Alignment explanation
Indices: 22602434--22602520 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
22602424 TGCACGAATG
* * *
22602434 CCCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAA
1 CCCGGATTTACTCACTAGCATAAATGCCTTCGGGACTTAA
* *
22602474 CCCGGATTTAACT-ACTAGCATAAATGTCTTCGGGACTTAG
1 CCCGGATTT-ACTCACTAGCATAAATGCCTTCGGGACTTAA
22602514 CCCGGAT
1 CCCGGAT
22602521 ATCATTTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 39 0.95
41 2 0.05
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (40 bp):
CCCGGATTTACTCACTAGCATAAATGCCTTCGGGACTTAA
Found at i:22604866 original size:43 final size:42
Alignment explanation
Indices: 22604791--22604904 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 42
22604781 GAAATTTACG
* * * * *
22604791 TGTAAGACCATATCTGAGATATGGCATCGATATGAGA-CTTCA
1 TGTATGACCATAGCTGGGATATGGCATTGATATGAGATC-ACA
*
22604833 TGTATGACCATAGCTGGGCTATTGGCATTGATATGAGATCACA
1 TGTATGACCATAGCTGGGATA-TGGCATTGATATGAGATCACA
*
22604876 TGTATGACCATATCTGGGATATGGCATTG
1 TGTATGACCATAGCTGGGATATGGCATTG
22604905 GTACGATACT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 25 0.40
43 36 0.58
44 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTATGACCATAGCTGGGATATGGCATTGATATGAGATCACA
Found at i:22605100 original size:15 final size:16
Alignment explanation
Indices: 22605074--22605103 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22605064 ATGAACCCTC
22605074 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
22605090 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
22605104 ATAAGACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:22607487 original size:54 final size:54
Alignment explanation
Indices: 22607402--22607511 Score: 175
Period size: 54 Copynumber: 2.0 Consensus size: 54
22607392 AAAATGAGAG
* *
22607402 CACATGGTCGTGTCCCAACCCATGTCTTACCCCGTGTAACTCTCTGACTTGGGT
1 CACATGGCCGTGTCCCAACCCATGTCCTACCCCGTGTAACTCTCTGACTTGGGT
* * *
22607456 CACATGGCCGTGTCCCAGCCCGTGTCCTACCCCGTGTAACTCTTTGACTTGGGT
1 CACATGGCCGTGTCCCAACCCATGTCCTACCCCGTGTAACTCTCTGACTTGGGT
22607510 CA
1 CA
22607512 TACGGCCAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.15, C:0.35, G:0.22, T:0.28
Consensus pattern (54 bp):
CACATGGCCGTGTCCCAACCCATGTCCTACCCCGTGTAACTCTCTGACTTGGGT
Found at i:22611845 original size:29 final size:29
Alignment explanation
Indices: 22611806--22611880 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
22611796 GGTTGAGAGA
* *
22611806 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
22611835 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
22611864 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
22611881 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:22614751 original size:44 final size:45
Alignment explanation
Indices: 22614694--22614817 Score: 173
Period size: 44 Copynumber: 2.8 Consensus size: 45
22614684 ATAACAGAAA
*
22614694 CGAGTAAAACCATGACTGAAAGACGTTAT-GCATCATGATGT-TAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCATGAT-TCTAT
*
22614738 CGAGTAAGACCATGACTGAAAGACTTTATGGCATCATGATTCTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTAT
* * *
22614783 TGAG-AAGACCATGACTGAAAAATGTTATGGCATCA
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCA
22614818 CAAATCAAAC
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
44 56 0.78
45 16 0.22
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (45 bp):
CGAGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTAT
Found at i:22616007 original size:40 final size:40
Alignment explanation
Indices: 22615963--22616149 Score: 284
Period size: 40 Copynumber: 4.7 Consensus size: 40
22615953 CCAACCCAAT
* * * * *
22615963 TGCCTTCAGGATTTAGCCCGGATATAACAACCAACACAAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* *
22616003 TGCCTTCGGGACTTAACCTGGATATAAAAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* *
22616043 TGCCTTCGGGACTTAATCCGGACATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
*
22616083 TGCCTTCGGGACTTAACCCGAATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
22616123 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGATATAA
22616150 TCCTTAATTG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 132 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.20
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
Found at i:22623445 original size:13 final size:13
Alignment explanation
Indices: 22623427--22623457 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
22623417 CGTGGCCTAG
*
22623427 CACACGGCCTGTT
1 CACACGGCCTATT
22623440 CACACGGCCTATT
1 CACACGGCCTATT
22623453 CACAC
1 CACAC
22623458 AGGCAAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.42, G:0.16, T:0.19
Consensus pattern (13 bp):
CACACGGCCTATT
Found at i:22627819 original size:24 final size:24
Alignment explanation
Indices: 22627767--22627932 Score: 230
Period size: 24 Copynumber: 7.0 Consensus size: 24
22627757 GCTTTATCAT
*
22627767 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
22627792 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
22627816 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
22627839 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
22627863 ATAATTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
22627887 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
22627910 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
22627933 GCACTTCCTC
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
23 43 0.34
24 72 0.57
25 12 0.09
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:22627843 original size:47 final size:48
Alignment explanation
Indices: 22627766--22627932 Score: 232
Period size: 47 Copynumber: 3.5 Consensus size: 48
22627756 TGCTTTATCA
* *
22627766 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
22627815 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* * *
22627862 GATAATTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
22627909 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
22627933 GCACTTCCTC
Statistics
Matches: 107, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
47 68 0.64
48 26 0.24
49 13 0.12
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:22627872 original size:71 final size:71
Alignment explanation
Indices: 22627767--22627933 Score: 255
Period size: 71 Copynumber: 2.3 Consensus size: 71
22627757 GCTTTATCAT
* * *
22627767 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
22627831 GCCCTTTA
64 GCCCTTTA
* * *
22627839 ATAACTGGGGCGTAAGCCCTTTTGATAATTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
22627904 CCTTTA
66 CCTTTA
22627910 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
22627934 CACTTCCTCC
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 76 0.86
72 12 0.14
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:22628087 original size:25 final size:24
Alignment explanation
Indices: 22628045--22628092 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
22628035 ATATATAAAC
* * *
22628045 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
22628070 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
22628093 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:22629351 original size:27 final size:27
Alignment explanation
Indices: 22629331--22629590 Score: 335
Period size: 27 Copynumber: 9.6 Consensus size: 27
22629321 AGGGTAGTTT
*
22629331 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
22629358 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
22629385 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
22629412 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
22629439 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
22629466 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * * *
22629493 GGTAATTATGTAAATTGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
22629520 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
22629547 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
22629574 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
22629591 GGAGTACTTT
Statistics
Matches: 209, Mismatches: 20, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
26 2 0.01
27 205 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:22629417 original size:81 final size:81
Alignment explanation
Indices: 22629332--22629590 Score: 378
Period size: 81 Copynumber: 3.2 Consensus size: 81
22629322 GGGTAGTTTA
* * * *
22629332 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
22629397 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* *
22629413 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGT
*
22629477 AAATCGGGGGTAAAATG
65 AAATCGAGGGTAAAATG
* * * *
22629494 GTAATTATGTAAATTGGGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
*
22629559 AA-CTGAGGGTAAAACG
66 AATC-GAGGGTAAAATG
22629575 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
22629591 GGAGTACTTT
Statistics
Matches: 158, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
80 2 0.01
81 155 0.98
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
AATCGAGGGTAAAATG
Found at i:22646390 original size:14 final size:14
Alignment explanation
Indices: 22646371--22646398 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22646361 TACCGGTAAG
22646371 GCGCTATTGTCTCT
1 GCGCTATTGTCTCT
22646385 GCGCTATTGTCTCT
1 GCGCTATTGTCTCT
22646399 CAAGTAAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.21, T:0.43
Consensus pattern (14 bp):
GCGCTATTGTCTCT
Found at i:22653525 original size:42 final size:43
Alignment explanation
Indices: 22653467--22653552 Score: 138
Period size: 42 Copynumber: 2.0 Consensus size: 43
22653457 CGCATCCATG
*
22653467 ATGAACTCGGACCACTCAACAAGTTCAGATGC-CTCATATATC
1 ATGAACTCGGACCACTCAACAAGTTCAGATGCTCACATATATC
* *
22653509 ATGAACTTGGACCACTCAACAAGTTCAGATTCTCACATATATC
1 ATGAACTCGGACCACTCAACAAGTTCAGATGCTCACATATATC
22653552 A
1 A
22653553 CGAGCTCGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 30 0.75
43 10 0.25
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.26
Consensus pattern (43 bp):
ATGAACTCGGACCACTCAACAAGTTCAGATGCTCACATATATC
Found at i:22656163 original size:40 final size:40
Alignment explanation
Indices: 22656118--22656284 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
22656108 CGGAATATAA
22656118 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
22656158 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
22656198 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
22656238 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
22656277 CCGGATAT
1 CCGGATAT
22656285 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:22657125 original size:17 final size:19
Alignment explanation
Indices: 22657102--22657147 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
22657092 AAGAAGCATG
22657102 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
22657120 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
22657138 AATCATGCTC
1 AATCATGCTC
22657148 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:22664160 original size:40 final size:41
Alignment explanation
Indices: 22664115--22664281 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 41
22664105 CGGAATATAA
*
22664115 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
22664155 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
22664195 CCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
22664235 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
22664274 CCGGATAT
1 CCGGATAT
22664282 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 17 0.16
40 87 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:22665127 original size:17 final size:19
Alignment explanation
Indices: 22665104--22665149 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
22665094 AAGAAGCATG
22665104 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
22665122 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
22665140 AATCATGCTC
1 AATCATGCTC
22665150 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:22669458 original size:22 final size:22
Alignment explanation
Indices: 22669416--22669459 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
22669406 GAAAATAATC
**
22669416 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATACATTAT
22669438 AAAATTAAAT-AAAATACATTAT
1 AAAATT-AATCAAAATACATTAT
22669460 GTTAATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATTAATCAAAATACATTAT
Found at i:22673051 original size:35 final size:35
Alignment explanation
Indices: 22673012--22673083 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
22673002 CAGAAGAACA
* *
22673012 ATTCGGTAAATTTCTTAAATTATTAAAGAAGTTAC
1 ATTCGGTAAAATCCTTAAATTATTAAAGAAGTTAC
22673047 ATTCGGTAAAATCCTTAAATTATTAAAGAAGTTAC
1 ATTCGGTAAAATCCTTAAATTATTAAAGAAGTTAC
22673082 AT
1 AT
22673084 ATTAACTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.38
Consensus pattern (35 bp):
ATTCGGTAAAATCCTTAAATTATTAAAGAAGTTAC
Found at i:22677618 original size:2 final size:2
Alignment explanation
Indices: 22677611--22677638 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22677601 CTTGTTCTTA
22677611 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22677639 TACATATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22683162 original size:52 final size:52
Alignment explanation
Indices: 22683105--22683206 Score: 170
Period size: 52 Copynumber: 2.0 Consensus size: 52
22683095 ATAGAGATTG
*
22683105 TTTTCTATTTATCCATTACATATCAAAGAACAATTTCT-ATGAATAGTAATTA
1 TTTTCTATCTATCCATTACATATCAAAGAACAATTT-TGATGAATAGTAATTA
*
22683157 TTTTCTATCTATCCATTACATATCAAAGAACAATTTTGGTGAATAGTAAT
1 TTTTCTATCTATCCATTACATATCAAAGAACAATTTTGATGAATAGTAAT
22683207 CCCTTTATTG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 1 0.02
52 46 0.98
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (52 bp):
TTTTCTATCTATCCATTACATATCAAAGAACAATTTTGATGAATAGTAATTA
Found at i:22683932 original size:2 final size:2
Alignment explanation
Indices: 22683912--22683956 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
22683902 CAATTAACAA
* * * *
22683912 AT AT GT AT AT AT GT GT AT AT AT AT AT AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22683954 AT A
1 AT A
22683957 GCCACATATC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (2 bp):
AT
Found at i:22685621 original size:2 final size:2
Alignment explanation
Indices: 22685614--22685639 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22685604 ACATAACCGA
22685614 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
22685640 TCATGAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22694095 original size:37 final size:34
Alignment explanation
Indices: 22694015--22694140 Score: 100
Period size: 36 Copynumber: 3.7 Consensus size: 34
22694005 ATATTAAATC
** * *
22694015 TATTAAATT-AATAGAATATTTATCTACAAGATAAA
1 TATTAAATTAAATTTAATATTAATATA-AAGAT-AA
* *
22694050 TATTAAATTAAATTTAATATTAATAT-AA-TTAC
1 TATTAAATTAAATTTAATATTAATATAAAGATAA
*
22694082 T-TTAATATTAAA-TTAATAAAATAATATAAAGATACA
1 TATTAA-ATTAAATTTAAT--ATTAATATAAAGATA-A
22694118 TATTAAATTAAATTTAATATTAA
1 TATTAAATTAAATTTAATATTAA
22694141 ATTTATTAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
31 9 0.12
32 8 0.11
33 8 0.11
34 4 0.06
35 15 0.21
36 19 0.26
37 9 0.12
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (34 bp):
TATTAAATTAAATTTAATATTAATATAAAGATAA
Found at i:22694156 original size:68 final size:72
Alignment explanation
Indices: 22694015--22694157 Score: 179
Period size: 68 Copynumber: 2.0 Consensus size: 72
22694005 ATATTAAATC
* *
22694015 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTTAATATTAATATAATT
1 TATTAAATTAATAGAATATTAATATACAAGATAAATATTAAATTAAATTTAATATTAATATAATT
***
22694080 ACTTTAA
66 AAAATAA
* *
22694087 TATTAAATTAATA-AA-A-TAATATA-AAGATACATATTAAATTAAATTTAATATTAA-ATTTAT
1 TATTAAATTAATAGAATATTAATATACAAGATAAATATTAAATTAAATTTAATATTAATA-TAAT
22694147 TAAAATAA
65 TAAAATAA
22694155 TAT
1 TAT
22694158 AATTTTTGGA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
67 1 0.02
68 41 0.65
69 5 0.08
70 1 0.02
71 2 0.03
72 13 0.21
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (72 bp):
TATTAAATTAATAGAATATTAATATACAAGATAAATATTAAATTAAATTTAATATTAATATAATT
AAAATAA
Found at i:22694550 original size:16 final size:15
Alignment explanation
Indices: 22694503--22694554 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 15
22694493 GTCTAACTTT
22694503 AAAATTAATTTC-CA
1 AAAATTAATTTCTCA
22694517 AAAATATCATATTTTCTCA
1 AAAAT-T-A-A-TTTCTCA
22694536 AAAATTAACTTTCTCA
1 AAAATTAA-TTTCTCA
22694552 AAA
1 AAA
22694555 TTCACTGAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
14 5 0.16
15 1 0.03
16 12 0.38
17 2 0.06
18 5 0.16
19 7 0.22
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATTAATTTCTCA
Found at i:22701392 original size:26 final size:26
Alignment explanation
Indices: 22701355--22701408 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
22701345 GTCCCAGACA
*
22701355 TGGTCTTGTACTAGCTCTCGCATATC
1 TGGTCTTATACTAGCTCTCGCATATC
22701381 TGGTCTTATACTAGCTCTCGCATATC
1 TGGTCTTATACTAGCTCTCGCATATC
22701407 TG
1 TG
22701409 TGTCGATGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.39
Consensus pattern (26 bp):
TGGTCTTATACTAGCTCTCGCATATC
Found at i:22701555 original size:46 final size:45
Alignment explanation
Indices: 22701456--22701629 Score: 147
Period size: 46 Copynumber: 3.8 Consensus size: 45
22701446 ACAACGTTTA
* * * * * *
22701456 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACGTTTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCCT-CGTCTCAAT
* *
22701502 GCTGATGCATGTCCCTGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-CTCGTCTCAAT
* * *
22701548 GCCGATGCCATGTCCTAGACATGGTCTTACAATTG-CTC-TCAT-AATGT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCCTCGTC-TCAA--T
*
22701595 GGCCTATGCATGTCCCAGACATGTCTTACACTAGC
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGC
22701630 TCACACAAGT
Statistics
Matches: 103, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
45 4 0.04
46 56 0.54
47 27 0.26
48 16 0.16
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCCTCGTCTCAAT
Found at i:22715268 original size:42 final size:44
Alignment explanation
Indices: 22715218--22715312 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
22715208 ATCCCAGACA
*
22715218 GGTCTTACACG-AAATCA-AA-TACGATGCCAACGTCCCAAATGT
1 GGTCTTACACGTAAATCATAAGT-CGATGCCAACGTCCCAAACGT
* *
22715260 GGTTTTACACGTAAATCATAAGTCGATGCCAACGTCCCAGACGT
1 GGTCTTACACGTAAATCATAAGTCGATGCCAACGTCCCAAACGT
22715304 GGTCTTACA
1 GGTCTTACA
22715313 TGAGAACAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 10 0.22
43 6 0.13
44 29 0.63
45 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (44 bp):
GGTCTTACACGTAAATCATAAGTCGATGCCAACGTCCCAAACGT
Found at i:22715289 original size:44 final size:42
Alignment explanation
Indices: 22715159--22715312 Score: 134
Period size: 42 Copynumber: 3.6 Consensus size: 42
22715149 CTCGTACATG
* * * * **
22715159 GCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATTAAT
1 GCCAACGTCCCAAACGTGGTCTTACACGAAATCAAATA-CGAT
* * *
22715202 GCC-ACTATCCCAGAC-AGGTCTTACACGAAATCAAATACGAT
1 GCCAAC-GTCCCAAACGTGGTCTTACACGAAATCAAATACGAT
* *
22715243 GCCAACGTCCCAAATGTGGTTTTACACGTAAATCATAAGT-CGAT
1 GCCAACGTCCCAAACGTGGTCTTACACG-AAATCA-AA-TACGAT
*
22715287 GCCAACGTCCCAGACGTGGTCTTACA
1 GCCAACGTCCCAAACGTGGTCTTACA
22715313 TGAGAACAGA
Statistics
Matches: 90, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
41 11 0.12
42 32 0.36
43 17 0.19
44 29 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
GCCAACGTCCCAAACGTGGTCTTACACGAAATCAAATACGAT
Found at i:22719895 original size:15 final size:17
Alignment explanation
Indices: 22719864--22719895 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
22719854 GACTTTTCAC
22719864 TTGATAAATTGGCTGAG
1 TTGATAAATTGGCTGAG
22719881 TTGA-AAATT-GCTGAG
1 TTGATAAATTGGCTGAG
22719896 ATTGTTAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.34
Consensus pattern (17 bp):
TTGATAAATTGGCTGAG
Found at i:22722040 original size:40 final size:40
Alignment explanation
Indices: 22721948--22722152 Score: 168
Period size: 40 Copynumber: 5.0 Consensus size: 40
22721938 GTTTGACGCT
* *
22721948 GATTTGAGATAGCTTCGGCTATATATGGCACTTAGTATGT
1 GATTTGAGATAGCTTCGGCTATATATGGCACTTAGTGTGC
* *
22721988 GAATCGAGATAGCTTCGGCTATATATGGCACTTAGTGTGC
1 GATTTGAGATAGCTTCGGCTATATATGGCACTTAGTGTGC
* *
22722028 GATTTG-GAATAGCTTCAGCTATATATCGG-ACTTAATGTGC
1 GATTTGAG-ATAGCTTCGGCTATATAT-GGCACTTAGTGTGC
** * * * * * *
22722068 GAGACTGAGATAGCTTAGGCTATGTAAGACACTTATTTTGC
1 GA-TTTGAGATAGCTTCGGCTATATATGGCACTTAGTGTGC
*
22722109 GAGATTAT-A-ATAGCTTGGGCTATGGAT-TGGCACTTAGTGTGC
1 --GATT-TGAGATAGCTTCGGCTAT--ATATGGCACTTAGTGTGC
22722151 GA
1 GA
22722153 GATATCGAGC
Statistics
Matches: 130, Mismatches: 25, Indels: 20
0.74 0.14 0.11
Matches are distributed among these distances:
39 1 0.01
40 72 0.55
41 40 0.31
42 13 0.10
43 4 0.03
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (40 bp):
GATTTGAGATAGCTTCGGCTATATATGGCACTTAGTGTGC
Found at i:22725728 original size:48 final size:48
Alignment explanation
Indices: 22725657--22725933 Score: 235
Period size: 48 Copynumber: 5.7 Consensus size: 48
22725647 CATACATCGG
* * *
22725657 TGCCGATGCCATGTCCCAGACATGGTCTTATACTGACACATATAACAA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGACACATATAACAA
* * **
22725705 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC-TCATACATCGG
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGACACAT-ATA-A-CAA
*
22725755 TGCCGATGCCATG-TCCTAGACATGGTCTTACACTGACACATATAACAA
1 TGCCGATGCCATGTTCC-AAACATGGTCTTACACTGACACATATAACAA
* * * * * **
22725803 TACCGATGCTATGTTCCAAAGATGGTCTTACACTAGCTCGCATAT--TGA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACT-G-ACACATATAACAA
* * *
22725851 GGCCGATGCCATG-TCCTAGACATGGTCTTACACT-AGCTC-TCATAACAA
1 TGCCGATGCCATGTTCC-AAACATGGTCTTACACTGA-CACAT-ATAACAA
** *
22725899 TGTTGATGCCATGTTCCAAACATGGTGTTACACTG
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTG
22725934 GCTCCCACAT
Statistics
Matches: 180, Mismatches: 34, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
45 1 0.01
46 4 0.02
47 4 0.02
48 116 0.64
49 12 0.07
50 42 0.23
51 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (48 bp):
TGCCGATGCCATGTTCCAAACATGGTCTTACACTGACACATATAACAA
Found at i:22725810 original size:98 final size:98
Alignment explanation
Indices: 22725641--22725937 Score: 424
Period size: 98 Copynumber: 3.1 Consensus size: 98
22725631 AAGGGTAAAA
* *
22725641 GGCTCTCATACATCGGTGCCGATGCCATGTCCCAGACATGGTCTTATACTGACACATATAACAAT
1 GGCTCTCATACATCGGTGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACATATAACAAT
22725706 GCCGATGCCATGTTCCAAACATGGTCTTACACT
66 GCCGATGCCATGTTCCAAACATGGTCTTACACT
22725739 GGCTCTCATACATCGGTGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACATATAACAAT
1 GGCTCTCATACATCGGTGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACATATAACAAT
* * *
22725804 ACCGATGCTATGTTCCAAAGATGGTCTTACACT
66 GCCGATGCCATGTTCCAAACATGGTCTTACACT
* * * *
22725837 AGCTCGCAT--ATTGAG-GCCGATGCCATGTCCTAGACATGGTCTTACACT-AGCTC-TCATAAC
1 GGCTCTCATACATCG-GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGA-CACAT-ATAAC
** *
22725897 AATGTTGATGCCATGTTCCAAACATGGTGTTACACT
63 AATGCCGATGCCATGTTCCAAACATGGTCTTACACT
22725933 GGCTC
1 GGCTC
22725938 CCACATGACC
Statistics
Matches: 180, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
95 2 0.01
96 77 0.43
97 1 0.01
98 100 0.56
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (98 bp):
GGCTCTCATACATCGGTGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACATATAACAAT
GCCGATGCCATGTTCCAAACATGGTCTTACACT
Found at i:22730722 original size:40 final size:40
Alignment explanation
Indices: 22730620--22730803 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
22730610 AAATTGAATG
* * * * * *
22730620 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
22730660 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
22730700 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
22730740 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
22730780 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
22730804 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:22730828 original size:80 final size:80
Alignment explanation
Indices: 22730660--22730848 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
22730650 GCTGGAAATT
* * *
22730660 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
22730725 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
22730740 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
22730803 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
22730820 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
22730849 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:22738730 original size:40 final size:40
Alignment explanation
Indices: 22738628--22738811 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
22738618 AAATTGAATG
* * * * * *
22738628 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
22738668 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
22738708 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
22738748 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
22738788 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
22738812 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:22738836 original size:80 final size:80
Alignment explanation
Indices: 22738668--22738856 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
22738658 GCTGGAAATT
* * *
22738668 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
22738733 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
22738748 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
22738811 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
22738828 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
22738857 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:22740710 original size:2 final size:2
Alignment explanation
Indices: 22740703--22740727 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22740693 TTAAACATTA
22740703 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
22740728 CGACATTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22742638 original size:42 final size:42
Alignment explanation
Indices: 22742467--22742638 Score: 166
Period size: 43 Copynumber: 4.0 Consensus size: 42
22742457 AGCTCGTACA
* * * * *
22742467 ATGCCAACATCCCAGACATGGTCTTACATGTAATCACATACCG
1 ATGCCAA-GTCCCAAACATGGTCTTACACGAAATCACATATCG
* * * * *
22742510 ATGCCACTGTCCCAAACAAGGTCTTACACCAACTCATATA-CG
1 ATGCCA-AGTCCCAAACATGGTCTTACACGAAATCACATATCG
* * *
22742552 ATGCCAATGTCCCAGACATGGTCTTGCACGTAAATCACAAATCG
1 ATGCCAA-GTCCCAAACATGGTCTTACACG-AAATCACATATCG
**
22742596 ATGCCAAGTCCCAAATGTGGTCTTACACGAAATCACATATCG
1 ATGCCAAGTCCCAAACATGGTCTTACACGAAATCACATATCG
22742638 A
1 A
22742639 AATCCTATGT
Statistics
Matches: 103, Mismatches: 22, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
42 39 0.38
43 55 0.53
44 9 0.09
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (42 bp):
ATGCCAAGTCCCAAACATGGTCTTACACGAAATCACATATCG
Found at i:22744410 original size:56 final size:55
Alignment explanation
Indices: 22744272--22744427 Score: 188
Period size: 56 Copynumber: 2.8 Consensus size: 55
22744262 TTTGATGACA
*
22744272 TGATACATGCTAGGTCCGGGAGCTTGTGTAGCCCCGTTGAGAGGCATGTAATTATG
1 TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCCGTTGAGAGGCATG-AATTATG
** * * *
22744328 TGGCACACGCTAGGTCTGGGAGCTTATGTAGCCCCGTTGAGAGGCATG-GTTATG
1 TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCCGTTGAGAGGCATGAATTATG
* * **
22744382 TGATGCATGCTAGGTCCGGGTGCTCTTATGTAGCCCTATTGAGAGG
1 TGATACATGCTAGGTCCGGGAG--CTTATGTAGCCCCGTTGAGAGG
22744428 TGTGCTATGT
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
54 21 0.25
56 63 0.75
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.28
Consensus pattern (55 bp):
TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCCGTTGAGAGGCATGAATTATG
Found at i:22748743 original size:43 final size:42
Alignment explanation
Indices: 22748638--22748752 Score: 97
Period size: 43 Copynumber: 2.7 Consensus size: 42
22748628 ATGTGTTCTT
* * ** *
22748638 ATGTAAGCCCACGTCAGGGATTTTGGCATCGATAAGTGATTAT
1 ATGTAAGACCACGTCTGGGA-CGTGGCATCGATAAGTGATTAC
* * * * *
22748681 GTGTAAAACC-CTATTTGGGACAGTGGCATCGATATGTGATTAC
1 ATGTAAGACCAC-GTCTGGGAC-GTGGCATCGATAAGTGATTAC
22748724 ATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATGTAAGACCACGTCTGGGACG-TGGCAT
22748753 TGTACGATAT
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
42 2 0.04
43 51 0.94
44 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (42 bp):
ATGTAAGACCACGTCTGGGACGTGGCATCGATAAGTGATTAC
Found at i:22752113 original size:39 final size:39
Alignment explanation
Indices: 22752024--22752186 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
22752014 TATGGTAACC
* *
22752024 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
22752064 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
22752103 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
22752142 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
22752181 CGCACA
1 CGCACA
22752187 TTCATACACA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 96 0.86
40 16 0.14
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:22757231 original size:40 final size:40
Alignment explanation
Indices: 22757148--22757300 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
22757138 TCGAATGATG
* *
22757148 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
22757188 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
22757228 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
22757269 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
22757301 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:22766965 original size:28 final size:29
Alignment explanation
Indices: 22766934--22766992 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
22766924 ATTTTTGACT
*
22766934 AAAATGTCAATT-AGGGATTAAATTGAGA
1 AAAATGTAAATTGAGGGATTAAATTGAGA
* *
22766962 AAAATGTAAATTGAGGGGTTAAATTGCGA
1 AAAATGTAAATTGAGGGATTAAATTGAGA
22766991 AA
1 AA
22766993 TAAATAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (29 bp):
AAAATGTAAATTGAGGGATTAAATTGAGA
Found at i:22767000 original size:29 final size:28
Alignment explanation
Indices: 22766942--22767000 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
22766932 CTAAAATGTC
*
22766942 AATTAGGGATTAAATTGAGAAAAATGTA
1 AATTAGGGATTAAATTGAGAAAAATATA
* *
22766970 AATTGAGGGGTTAAATTGCGAAATAA-ATA
1 AATT-AGGGATTAAATTGAGAAA-AATATA
22766999 AA
1 AA
22767001 AAATATGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 4 0.15
29 20 0.77
30 2 0.08
ACGTcount: A:0.49, C:0.02, G:0.22, T:0.27
Consensus pattern (28 bp):
AATTAGGGATTAAATTGAGAAAAATATA
Found at i:22767600 original size:47 final size:47
Alignment explanation
Indices: 22767540--22767667 Score: 161
Period size: 47 Copynumber: 2.7 Consensus size: 47
22767530 GCGAATAATG
* * **
22767540 CCTTGATTTGGCTATGGGTCATGATATAGGTATTTTGAGAGGA-GTTA
1 CCTTGATTTGGCTATGGGCCATGATATAGGTACTCCGAGA-GATGTTA
* *
22767587 CCTTGATTTGGCTATGGGCCAT-AGTATAGGTACTCCGGGATATGTTA
1 CCTTGATTTGGCTATGGGCCATGA-TATAGGTACTCCGAGAGATGTTA
*
22767634 CCTTGATTTGGCTATGGGCCATGGTATAGGTACT
1 CCTTGATTTGGCTATGGGCCATGATATAGGTACT
22767668 TATCTATTGC
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
46 2 0.03
47 69 0.97
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (47 bp):
CCTTGATTTGGCTATGGGCCATGATATAGGTACTCCGAGAGATGTTA
Found at i:22777624 original size:29 final size:29
Alignment explanation
Indices: 22777557--22777655 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
22777547 CCTATATCTA
* *
22777557 GCCCATTAAGCCC-AATCATAT-TCATATG
1 GCCCATTAGGCCCAAATCACATGT-ATATG
* * *
22777585 GCCCTTTTAGGTCCAAATCACCTGTATATG
1 GCCC-ATTAGGCCCAAATCACATGTATATG
* * *
22777615 GCCCATTAGGCCCGAATCACATTTCTATG
1 GCCCATTAGGCCCAAATCACATGTATATG
*
22777644 GCCCGTTAGGCC
1 GCCCATTAGGCC
22777656 TAGTCACATT
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
28 4 0.07
29 36 0.64
30 15 0.27
31 1 0.02
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATGTATATG
Found at i:22783552 original size:43 final size:42
Alignment explanation
Indices: 22783504--22783602 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
22783494 TCCCGGACAT
**
22783504 GGTCTTACATGTAATTCA-ATATCGATGCCTCTGTCCCAAACAG
1 GGTCTTACATGTAA-TCAGATA-CGATGCCGATGTCCCAAACAG
* * * *
22783547 GGTCTTACACGGAATCAGATACGATGCCGATGTCCCAGACAT
1 GGTCTTACATGTAATCAGATACGATGCCGATGTCCCAAACAG
*
22783589 GGTCTTATATGTAA
1 GGTCTTACATGTAA
22783603 ATCTCAATCA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 31 0.67
43 15 0.33
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGTAATCAGATACGATGCCGATGTCCCAAACAG
Found at i:22783636 original size:85 final size:85
Alignment explanation
Indices: 22783485--22783642 Score: 203
Period size: 85 Copynumber: 1.9 Consensus size: 85
22783475 AATAAGTACA
* * * * *
22783485 ATGCCGACATCCCGGACATGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAAACAGGGT
1 ATGCCGACATCCCAGACATGGTCTTACATGTAATTCAATATCAAGGCCTATGTCCCAAACACGGT
22783550 CTTACACGGAATCAGATACG
66 CTTACACGGAATCAGATACG
** * *
22783570 ATGCCGATGTCCCAGACATGGTCTTATATGTAAATCTC-A-ATCAAGGCCTATGTCCCAGACACG
1 ATGCCGACATCCCAGACATGGTCTTACATGT-AAT-TCAATATCAAGGCCTATGTCCCAAACACG
22783633 GTCTTACACG
64 GTCTTACACG
22783643 ATGTCTCAGA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 56 0.90
86 4 0.06
87 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (85 bp):
ATGCCGACATCCCAGACATGGTCTTACATGTAATTCAATATCAAGGCCTATGTCCCAAACACGGT
CTTACACGGAATCAGATACG
Found at i:22797244 original size:71 final size:71
Alignment explanation
Indices: 22797158--22797321 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22797148 CGATTTGTCT
22797158 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22797223 CTTTCA
66 CTTTCA
22797229 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22797294 CTTTCA
66 CTTTCA
22797300 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
22797322 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:22797359 original size:71 final size:70
Alignment explanation
Indices: 22797158--22797355 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
22797148 CGATTTGTCT
* * * *
22797158 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
22797223 CTTTCA
65 CTTTCA
* * * *
22797229 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
22797294 CTTTCA
65 CTTTCA
* *
22797300 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
22797356 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:22805849 original size:12 final size:12
Alignment explanation
Indices: 22805832--22805864 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
22805822 TGACTTGGGT
*
22805832 CACACGGCCGGC
1 CACACGCCCGGC
22805844 CACACGCCCGGC
1 CACACGCCCGGC
22805856 CACACGCCC
1 CACACGCCC
22805865 ATATGTCAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.58, G:0.24, T:0.00
Consensus pattern (12 bp):
CACACGCCCGGC
Found at i:22807671 original size:44 final size:44
Alignment explanation
Indices: 22807527--22807729 Score: 238
Period size: 44 Copynumber: 4.7 Consensus size: 44
22807517 AGCTCGTACA
* * *
22807527 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AAT-CAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATACCAA-ATCG
* **
22807570 ATGCC-ACTGTCCCAGACAGGGTCTTACAC--AAA-ATTAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATACCAAAT-CG
*
22807612 ATGTCAACGTCCCAGACATGGTCTTACACGTAAATACCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATACCAAATCG
* *
22807656 ATGCCAACGTCCCAGACGTGGTCTTACACATAAATACCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATACCAAATCG
* *
22807700 ATGCCAACGTCCTAGACATAGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
22807730 ATTTCACATA
Statistics
Matches: 136, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
41 2 0.01
42 32 0.24
43 25 0.18
44 72 0.53
45 5 0.04
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATACCAAATCG
Found at i:22807679 original size:86 final size:86
Alignment explanation
Indices: 22807527--22807729 Score: 254
Period size: 86 Copynumber: 2.3 Consensus size: 86
22807517 AGCTCGTACA
* *
22807527 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
*
22807592 CTTACACA-AAAT-TAAATACG
66 CTTACACATAAATACAAAT-CG
* *
22807612 ATGTCAACGTCCCAGACATGGTCTTACACGTAAATACCAA-ATCGATGCCAAC-GTCCCAGAC-G
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AAT-CAAATATCGATGCC-ACTGTCCCAGACAG
22807674 TGGTCTTACACATAAATACCAAATCG
63 -GGTCTTACACATAAATA-CAAATCG
* *
22807700 ATGCCAACGTCCTAGACATAGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
22807730 ATTTCACATA
Statistics
Matches: 103, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
85 29 0.28
86 32 0.31
87 9 0.09
88 29 0.28
89 4 0.04
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
CTTACACATAAATACAAATCG
Found at i:22809706 original size:23 final size:23
Alignment explanation
Indices: 22809668--22809741 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
22809658 CTCCTGAGCT
22809668 GCTG-AACAGTAAGCTCTATTGA
1 GCTGAAACAGTAAGCTCTATTGA
* **
22809690 GCTGAAACGGTAAGCTCTATCAA
1 GCTGAAACAGTAAGCTCTATTGA
*
22809713 GCTGAAAATAGTAAGCTCT-TTCGA
1 GCTG-AAACAGTAAGCTCTATT-GA
22809737 GCTGA
1 GCTGA
22809742 TATATCGGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
22 4 0.10
23 21 0.50
24 17 0.40
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (23 bp):
GCTGAAACAGTAAGCTCTATTGA
Found at i:22809731 original size:24 final size:24
Alignment explanation
Indices: 22809672--22809741 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
22809662 TGAGCTGCTG
*
22809672 AACAGTAAGCTCTATTGAGCTG-A
1 AACAGTAAGCTCTATCGAGCTGAA
* *
22809695 AACGGTAAGCTCTATCAAGCTGAA
1 AACAGTAAGCTCTATCGAGCTGAA
* *
22809719 AATAGTAAGCTCTTTCGAGCTGA
1 AACAGTAAGCTCTATCGAGCTGA
22809742 TATATCGGTA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 19 0.49
24 20 0.51
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (24 bp):
AACAGTAAGCTCTATCGAGCTGAA
Found at i:22811984 original size:21 final size:21
Alignment explanation
Indices: 22811958--22812020 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
22811948 TATATGCTTA
*
22811958 GTAAGTTCATCTAACAGGAAT
1 GTAAGTTCATATAACAGGAAT
*
22811979 GTAAGTTCGTATAACAGGAAT
1 GTAAGTTCATATAACAGGAAT
* *
22812000 GTAAGTTCGTATAATAGGAAT
1 GTAAGTTCATATAACAGGAAT
22812021 TAAAACTTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (21 bp):
GTAAGTTCATATAACAGGAAT
Found at i:22816531 original size:29 final size:29
Alignment explanation
Indices: 22816492--22816570 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
22816482 CTTAATAATC
*
22816492 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
22816522 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
22816551 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
22816571 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:22817270 original size:44 final size:44
Alignment explanation
Indices: 22817196--22817282 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
22817186 ACATAAGCTC
* *
22817196 CTAAGTGATGGCCGAATATGTATATCTATATATATATATATATA
1 CTAAGTGATGGCCGAATATATATATATATATATATATATATATA
*
22817240 CTAAGTGATGGCCGAATATATATCTATATATATATATATATAT
1 CTAAGTGATGGCCGAATATATATATATATATATATATATATAT
22817283 CAACTACACT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (44 bp):
CTAAGTGATGGCCGAATATATATATATATATATATATATATATA
Found at i:22827021 original size:49 final size:50
Alignment explanation
Indices: 22826954--22827083 Score: 167
Period size: 49 Copynumber: 2.6 Consensus size: 50
22826944 ATTGAAGTTT
* *
22826954 ATGACGTGTCCCAAACAGGTCTTACACTGACAT-TCATATATCGAG-GCCA
1 ATGACATGTCCCAGACAGGTCTTACACTGACATCTCATATATCG-GTGCCA
* * * * *
22827003 ATGCCATGTCCCAGACAGGTCTTAGACTGGC-TCTCATCTATCGGTGTCA
1 ATGACATGTCCCAGACAGGTCTTACACTGACATCTCATATATCGGTGCCA
22827052 ATGACATGTCCCAGACAGGTCTTACACTGACA
1 ATGACATGTCCCAGACAGGTCTTACACTGACA
22827084 CACAACAAGC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 2 0.03
49 66 0.97
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (50 bp):
ATGACATGTCCCAGACAGGTCTTACACTGACATCTCATATATCGGTGCCA
Found at i:22828813 original size:48 final size:47
Alignment explanation
Indices: 22828742--22829024 Score: 278
Period size: 48 Copynumber: 5.9 Consensus size: 47
22828732 GACATTTAGT
* * * *
22828742 GATATGTGTGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCAC
1 GATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGG-CAC
* *
22828790 GATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAA
1 GATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAC
** * * * *
22828837 TTTAATGAGAGCCAGAGTAAGACCATGTCTGGGACATGGCATCGGCATT
1 GAT-ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCA-C
* * * ** *
22828886 GATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGACATTAGCATT
1 GATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCA-C
* * * *
22828934 GAGACGAGAGCTAGTGTAAGACTATGTTTGGGACATGGCATCGGCCTC
1 GATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGG-CAC
* * * * *
22828982 GACATGTGAGCCAGTGTAAGACCATATTTGGAACATGGCATCG
1 GATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCG
22829025 ACAATTCACC
Statistics
Matches: 192, Mismatches: 40, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
47 3 0.02
48 187 0.97
49 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (47 bp):
GATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAC
Found at i:22828922 original size:96 final size:97
Alignment explanation
Indices: 22828757--22829030 Score: 347
Period size: 96 Copynumber: 2.8 Consensus size: 97
22828747 GTGTGCTAGT
* *
22828757 GTAAGACCATGTCTGGGACATAGCATCGGCCA-CGATATGAGAGCTAGTGTAAGACCATGTTTGG
1 GTAAGACCATGTCTGGGACATGGCATCGG-CATCGATATGTGAGCTAGTGTAAGACCATGTTTGG
* *
22828821 AACATGGCATCGGCAATTTA-ATGAGAGCCAGA
65 AACATGGCATCGGCAATTGAGACGAGAGCCAGA
* * *
22828853 GTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCTAGTGTAAGACCATGTTTGGG
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAGTGTAAGACCATGTTTGGA
* ** * *
22828918 ACATGACATTAGC-ATTGAGACGAGAGCTAGT
66 ACATGGCATCGGCAATTGAGACGAGAGCCAGA
* * * * * *
22828949 GTAAGACTATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATATTTGGA
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAGTGTAAGACCATGTTTGGA
*
22829014 ACATGGCATCGACAATT
66 ACATGGCATCGGCAATT
22829031 CACCCTCTTG
Statistics
Matches: 150, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
95 6 0.04
96 141 0.94
97 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (97 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAGTGTAAGACCATGTTTGGA
ACATGGCATCGGCAATTGAGACGAGAGCCAGA
Found at i:22828954 original size:144 final size:144
Alignment explanation
Indices: 22828741--22829024 Score: 376
Period size: 144 Copynumber: 2.0 Consensus size: 144
22828731 TGACATTTAG
* * *
22828741 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCACGATATGAGAGCTAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATAGCATCAGCCACGAGACGAGAGCTAGTG
** * *
22828806 TAAGACCATGTTTGGAACATGGCATCGGCAATTTA-ATGAGAGCCAGAGTAAGACCATGTCTGGG
66 TAAGACCATGTTTGGAACATGGCATCGGC-ATCGACATGAGAGCCAGAGTAAGACCATATCTGGA
22828870 ACATGGCATCGGCAT
130 ACATGGCATCGGCAT
* * *
22828885 TGATATGTGTGCTAGTGTAAGACCATGTTTGGGACAT-GACATTAG-CATTGAGACGAGAGCTAG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATAG-CATCAGCCA-CGAGACGAGAGCTAG
* * * * * *
22828948 TGTAAGACTATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATATTTGG
64 TGTAAGACCATGTTTGGAACATGGCATCGGCATCGACATGAGAGCCAGAGTAAGACCATATCTGG
22829013 AACATGGCATCG
129 AACATGGCATCG
22829025 ACAATTCACC
Statistics
Matches: 121, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
143 5 0.04
144 116 0.96
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (144 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATAGCATCAGCCACGAGACGAGAGCTAGTG
TAAGACCATGTTTGGAACATGGCATCGGCATCGACATGAGAGCCAGAGTAAGACCATATCTGGAA
CATGGCATCGGCAT
Found at i:22835823 original size:21 final size:21
Alignment explanation
Indices: 22835775--22835824 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
22835765 TTTTCACTCA
*
22835775 TTTTTCACCCAAATTGAGAGT
1 TTTTTCTCCCAAATTGAGAGT
* *
22835796 TTTTTCTCCCGAATTGGGAGT
1 TTTTTCTCCCAAATTGAGAGT
22835817 TTTTTCTC
1 TTTTTCTC
22835825 TCTCTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (21 bp):
TTTTTCTCCCAAATTGAGAGT
Found at i:22838612 original size:26 final size:26
Alignment explanation
Indices: 22838583--22838632 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
22838573 AAATTATAGT
22838583 TAATTAGTCATAAATGAGGTGTTAGA
1 TAATTAGTCATAAATGAGGTGTTAGA
22838609 TAATTAGTCATAAATGAGGTGTTA
1 TAATTAGTCATAAATGAGGTGTTA
22838633 TAAGGTTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.36
Consensus pattern (26 bp):
TAATTAGTCATAAATGAGGTGTTAGA
Found at i:22840567 original size:29 final size:28
Alignment explanation
Indices: 22840529--22840631 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 28
22840519 GTGACGAGAT
* *
22840529 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
22840558 TGGCACTAAGTGTGCGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
22840587 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
22840616 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
22840632 TGAACGATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
28 4 0.06
29 63 0.94
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:22847713 original size:6 final size:6
Alignment explanation
Indices: 22847699--22847734 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
22847689 CCAAAATCTG
*
22847699 CTATTC CTATGC CTATGC CTATGC CTATGC CTATGC
1 CTATGC CTATGC CTATGC CTATGC CTATGC CTATGC
22847735 ATTTGACCGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.33, G:0.14, T:0.36
Consensus pattern (6 bp):
CTATGC
Found at i:22851945 original size:43 final size:42
Alignment explanation
Indices: 22851862--22851945 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 42
22851852 GCTAAATTTG
*
22851862 TTAAATTTATTATTATATCAATAAAATATATAAACTTTAAAAA
1 TTAAATATATTATTATATCAATAAAATATATAAAC-TTAAAAA
*
22851905 TTAAATATGTTATTATATCAATAAAAATATATATAA-TTAAA
1 TTAAATATATTATTATATCAAT-AAAATATATA-AACTTAAA
22851946 GAAAACATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
43 25 0.68
44 10 0.27
45 2 0.05
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (42 bp):
TTAAATATATTATTATATCAATAAAATATATAAACTTAAAAA
Found at i:22857966 original size:15 final size:15
Alignment explanation
Indices: 22857948--22857981 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
22857938 CAGCAACAGC
*
22857948 AGAAGAAGAAGAAAA
1 AGAAGAAAAAGAAAA
22857963 AGAAGAAAAAGAAAA
1 AGAAGAAAAAGAAAA
22857978 AGAA
1 AGAA
22857982 TTCAGCCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AGAAGAAAAAGAAAA
Found at i:22860392 original size:29 final size:28
Alignment explanation
Indices: 22860357--22860457 Score: 130
Period size: 29 Copynumber: 3.5 Consensus size: 28
22860347 ATAATCGATT
*
22860357 TCGCACACTTAGTGCCATGTGATTTAAGC
1 TCGCACACTTAGTGCCATAT-ATTTAAGC
* *
22860386 TCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATAT-ATTTAAGC
*
22860415 TCGCACACTTAGTGCCATATATTTCAAAC
1 TCGCACACTTAGTGCCATATATTT-AAGC
*
22860444 TTGCACACTTAGTG
1 TCGCACACTTAGTG
22860458 TCAATCTTGT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
28 4 0.06
29 59 0.94
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATATATTTAAGC
Found at i:22860907 original size:2 final size:2
Alignment explanation
Indices: 22860895--22860939 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
22860885 CATACTTATG
22860895 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22860936 TA TA
1 TA TA
22860940 CACTTCCAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22863160 original size:29 final size:25
Alignment explanation
Indices: 22863103--22863151 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
22863093 AAATATTTAT
22863103 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
22863128 TAGAAATAAATAGATATTATAAAA
1 TAGAAATAAATAGATATTATAAAA
22863152 GAAACTAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (25 bp):
TAGAAATAAATAGATATTATAAAAA
Found at i:22868810 original size:29 final size:28
Alignment explanation
Indices: 22868775--22868878 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
22868765 ATAATCGATT
*
22868775 TCGCACACTTAGTGCCATGTGATTTAAGC
1 TCGCACACTTAGTGCCAT-TAATTTAAGC
* *
22868804 TCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCAT-TAATTTAAGC
*
22868833 TCGCACACTTAGTGCCATTTATTTCAAGC
1 TCGCACACTTAGTGCCATTAATTT-AAGC
*
22868862 TTGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
22868879 ATCTTGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
28 5 0.08
29 61 0.92
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATTAATTTAAGC
Found at i:22869326 original size:2 final size:2
Alignment explanation
Indices: 22869313--22869346 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
22869303 CATACTTATG
*
22869313 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22869347 CACTTCCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:22885305 original size:24 final size:24
Alignment explanation
Indices: 22885278--22885340 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
22885268 CTTATTATGT
*
22885278 TCGCACACGTAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
22885302 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
22885326 CCGCACACATAGTGC
1 TCGCACACATAGTGC
22885341 AATTGAGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:22890197 original size:13 final size:13
Alignment explanation
Indices: 22890179--22890205 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22890169 GGAGTAATCG
22890179 CACACAGGCGTGT
1 CACACAGGCGTGT
22890192 CACACAGGCGTGT
1 CACACAGGCGTGT
22890205 C
1 C
22890206 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (13 bp):
CACACAGGCGTGT
Found at i:22898544 original size:2 final size:2
Alignment explanation
Indices: 22898537--22898577 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
22898527 CTGTATTCTT
22898537 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22898578 TCGAAATTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22899287 original size:18 final size:18
Alignment explanation
Indices: 22899248--22899290 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
22899238 CTCACATCCT
*
22899248 ATTCTCTCAAATCTTTCT
1 ATTCTCTCAAATCTTTCA
*
22899266 ATTCTCTCAACTCTCTT-A
1 ATTCTCTCAAATCT-TTCA
22899284 ATTCTCT
1 ATTCTCT
22899291 TAATTTTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.21, C:0.30, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTCTCTCAAATCTTTCA
Found at i:22901940 original size:44 final size:44
Alignment explanation
Indices: 22901649--22902265 Score: 346
Period size: 44 Copynumber: 13.6 Consensus size: 44
22901639 AATTTACTCT
* * * * * *
22901649 ACTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAGTCTACTCC
1 ACTGCAACTTTAGGGAGATAAGATTTG-TAACTTTAATCTGCTCC
* * * ** *
22901694 ACTACAACTTTAGGTAGATAAGACTTGTTGTAACTTCACCCTGCTCT
1 ACTGCAACTTTAGGGAGATAAGA--T-TTGTAACTTTAATCTGCTCC
* * * * * * *
22901741 ACTGTAACTTCAGGGAGAAAAGGTTTATAGCTTTAATCTGCTCT
1 ACTGCAACTTTAGGGAGATAAGATTTGTAACTTTAATCTGCTCC
* * * *
22901785 ATTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATTTGTTCC
1 ACTGCAACTTTAGGGAGATAAGATTTGTAAC---T---TT-AATCTGCTCC
* ** * **
22901836 ACTGCAACTTTAGGGAAATAAGATTTGCTCTCTTTAGTCTATTCC
1 ACTGCAACTTTAGGGAGATAAGATTTG-TAACTTTAATCTGCTCC
* * *
22901881 ACTGCAA-TTTCAGGGAGATAAGACTTGTAACTTTAACCTACTCC
1 ACTGCAACTTT-AGGGAGATAAGATTTGTAACTTTAATCTGCTCC
* * * * *
22901925 ACTACAACTTTAGGGA-AAAAGATTTGCTATCTTCAGTCTGCTCC
1 ACTGCAACTTTAGGGAGATAAGATTTG-TAACTTTAATCTGCTCC
*
22901969 ACTGCAACTTTAGGGAGATAAGATTTGTAACTTCAA-CATGCTCC
1 ACTGCAACTTTAGGGAGATAAGATTTGTAACTTTAATC-TGCTCC
* * * **
22902013 ACTACAACTTTAGGGAGAGAAGGTTTGTGGCTTTAATCTGC-CTC
1 ACTGCAACTTTAGGGAGATAAGATTTGTAACTTTAATCTGCTC-C
* * *
22902057 ACTGCAACTTTAGGGAGATAATGTTTATAATTTGTAGCTTCAATCTGTTCC
1 ACTGCAACTTTAGGGAGATAA-G------ATTTGTAACTTTAATCTGCTCC
* * * * *
22902108 ACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCC
1 ACTGCAACTTTAGGGAGATAAGATTTG-TAACTTTAATCTGCTCC
* * * * * * *
22902153 ACTACAA-TTTCAAGGAGATAAGACTTGTAACTTCAACCTGTTCA
1 ACTGCAACTTT-AGGGAGATAAGATTTGTAACTTTAATCTGCTCC
* * * * * ** * *
22902197 ACTACAAATTCAGGG-GAAGAAGGTTTGTGGCTTTAATTTGCTCT
1 ACTGCAACTTTAGGGAG-ATAAGATTTGTAACTTTAATCTGCTCC
*
22902241 ACTGCAACTTCAGGGAGATAAGATT
1 ACTGCAACTTTAGGGAGATAAGATT
22902266 CGTCATGGTA
Statistics
Matches: 442, Mismatches: 99, Indels: 63
0.73 0.16 0.10
Matches are distributed among these distances:
43 11 0.02
44 224 0.51
45 99 0.22
46 2 0.00
47 31 0.07
48 2 0.00
49 1 0.00
50 3 0.01
51 66 0.15
52 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (44 bp):
ACTGCAACTTTAGGGAGATAAGATTTGTAACTTTAATCTGCTCC
Found at i:22902094 original size:272 final size:272
Alignment explanation
Indices: 22901643--22902265 Score: 784
Period size: 272 Copynumber: 2.3 Consensus size: 272
22901633 TGCTTCAATT
* * * * *
22901643 TACTCTACTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAGTCTACTCCACTACAACTTTAGG
1 TACTCAACTACAACTTTAGGGAAA-AAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGG
* * * * **
22901708 TAGATAAGACTTGTTGTAACTTCACCCTGCTCTACTGTAACTTCAGGGAGAAAAGGTTTATAGCT
65 GAGATAAGA--T-TTGTAACTTCAACATGCTCCACTACAACTTCAGGGAGAAAAGGTTTATAGCT
* * *
22901773 TTAATCTGCTCTATTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATTTGTTCCAC
127 TTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTCAATCTGTTCCAC
* * * * * *
22901838 TGCAACTTTAGGGAAATAAGATTTGCTCTCTTTAGTCTATTCCACTGCAATTTCAGGGAGATAAG
192 TGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTACTCCACTACAATTTCAAGGAGATAAG
*
22901903 ACTTGTAACTTTAACC
257 ACTTGTAACTTCAACC
*
22901919 TACTCCACTACAACTTTAGGGAAAAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGG
1 TACTCAACTACAACTTTAGGGAAAAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGG
* * * *
22901984 AGATAAGATTTGTAACTTCAACATGCTCCACTACAACTTTAGGGAGAGAAGGTTTGTGGCTTTAA
66 AGATAAGATTTGTAACTTCAACATGCTCCACTACAACTTCAGGGAGAAAAGGTTTATAGCTTTAA
* *
22902049 TCTGC-CTCACTGCAACTTTAGGGAGATAATG-TTTATAATTTGTAGCTTCAATCTGTTCCACTG
131 TCTGCTCT-ACTGCAACTTCAGGGAGATAA-GATTTATAACTTGTAGCTTCAATCTGTTCCACTG
*
22902112 CAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTACAATTTCAAGGAGATAAGAC
194 CAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTACTCCACTACAATTTCAAGGAGATAAGAC
22902177 TTGTAACTTCAACC
259 TTGTAACTTCAACC
** * * * * ** * * * * *
22902191 TGTTCAACTACAAATTCAGGGGAAGAAGGTTTG-TGGCTTTAATTTGCTCTACTGCAACTTCAGG
1 TACTCAACTACAACTTTA-GGGAAAAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGG
22902255 GAGATAAGATT
65 GAGATAAGATT
22902266 CGTCATGGTA
Statistics
Matches: 302, Mismatches: 42, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
271 2 0.01
272 219 0.73
273 14 0.05
275 45 0.15
276 22 0.07
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (272 bp):
TACTCAACTACAACTTTAGGGAAAAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGG
AGATAAGATTTGTAACTTCAACATGCTCCACTACAACTTCAGGGAGAAAAGGTTTATAGCTTTAA
TCTGCTCTACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTCAATCTGTTCCACTGCA
ACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTACTCCACTACAATTTCAAGGAGATAAGACTT
GTAACTTCAACC
Found at i:22902133 original size:184 final size:183
Alignment explanation
Indices: 22901922--22902261 Score: 515
Period size: 184 Copynumber: 1.9 Consensus size: 183
22901912 TTTAACCTAC
* * *
22901922 TCCACTACAACTTTAGGGAAAAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTT-AGGGAG
1 TCCACTACAACTTCAGGGAAAAAGATTTGCTATCTTCAGTCTGCTCCACTACAA-TTTCAAGGAG
* * * *
22901986 ATAAGATTTGTAACTTCAACATGCTCCACTACAACTTTA-GGGAGAGAAGGTTTGTGGCTTTAAT
65 ATAAGACTTGTAACTTCAACATGCTCAACTACAAATTCAGGGGA-AGAAGGTTTGTGGCTTTAAT
*
22902050 CTGC-CTCACTGCAACTTTAGGGAGATAATGTTTATAATTTGTAGCTTCAATCTGT
129 CTGCTCT-ACTGCAACTTCAGGGAGATAATGTTTATAATTTGTAGCTTCAATCTGT
*
22902105 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTACAATTTCAAGGAG
1 TCCACTACAACTTCAGGGAAA-AAGATTTGCTATCTTCAGTCTGCTCCACTACAATTTCAAGGAG
* * *
22902170 ATAAGACTTGTAACTTCAACCTGTTCAACTACAAATTCAGGGGAAGAAGGTTTGTGGCTTTAATT
65 ATAAGACTTGTAACTTCAACATGCTCAACTACAAATTCAGGGGAAGAAGGTTTGTGGCTTTAATC
22902235 TGCTCTACTGCAACTTCAGGGAGATAA
130 TGCTCTACTGCAACTTCAGGGAGATAA
22902262 GATTCGTCAT
Statistics
Matches: 141, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
183 22 0.16
184 113 0.80
185 6 0.04
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (183 bp):
TCCACTACAACTTCAGGGAAAAAGATTTGCTATCTTCAGTCTGCTCCACTACAATTTCAAGGAGA
TAAGACTTGTAACTTCAACATGCTCAACTACAAATTCAGGGGAAGAAGGTTTGTGGCTTTAATCT
GCTCTACTGCAACTTCAGGGAGATAATGTTTATAATTTGTAGCTTCAATCTGT
Found at i:22908436 original size:24 final size:25
Alignment explanation
Indices: 22908423--22908561 Score: 80
Period size: 24 Copynumber: 5.6 Consensus size: 25
22908413 TAATTAAAAT
22908423 AATAA-ATAAAAAATTTAAAAAATA
1 AATAATATAAAAAATTTAAAAAATA
*
22908447 AATAATAT-AAAAATGTT-TAAAATA
1 AATAATATAAAAAAT-TTAAAAAATA
* *
22908471 AATAATAAATGAAACAATTT--AAAGTA
1 AATAAT--AT-AAAAAATTTAAAAAATA
* *
22908497 AAAAATATAAAAAGTTTTAAAAAA-A
1 AATAATATAAAAA-ATTTAAAAAATA
22908522 TAAT-ATATGAAAAAAATTT--AAAATA
1 -AATAATAT--AAAAAATTTAAAAAATA
* *
22908547 AGTAATATATAAAAT
1 AATAATATAAAAAAT
22908562 GGTTCAGAAT
Statistics
Matches: 90, Mismatches: 11, Indels: 29
0.69 0.08 0.22
Matches are distributed among these distances:
23 10 0.11
24 34 0.38
25 14 0.16
26 20 0.22
27 7 0.08
28 5 0.06
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (25 bp):
AATAATATAAAAAATTTAAAAAATA
Found at i:22908447 original size:16 final size:16
Alignment explanation
Indices: 22908421--22908459 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22908411 ATTAATTAAA
*
22908421 ATAATAAATAAAAAAT
1 ATAAAAAATAAAAAAT
* *
22908437 TTAAAAAATAAATAAT
1 ATAAAAAATAAAAAAT
22908453 ATAAAAA
1 ATAAAAA
22908460 TGTTTAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAAAAATAAAAAAT
Found at i:22908449 original size:27 final size:27
Alignment explanation
Indices: 22908419--22908493 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 27
22908409 AAATTAATTA
22908419 AAATAATAAATAAAAAATTTAAAAAAT
1 AAATAATAAATAAAAAATTTAAAAAAT
*
22908446 AAATAAT--AT-AAAAATGTT-TAAAAT
1 AAATAATAAATAAAAAAT-TTAAAAAAT
*
22908470 AAATAATAAATGAAACAATTTAAA
1 AAATAATAAAT-AAAAAATTTAAA
22908494 GTAAAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
24 18 0.46
25 4 0.10
26 2 0.05
27 9 0.23
28 6 0.15
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (27 bp):
AAATAATAAATAAAAAATTTAAAAAAT
Found at i:22908491 original size:26 final size:25
Alignment explanation
Indices: 22908419--22908829 Score: 160
Period size: 26 Copynumber: 16.2 Consensus size: 25
22908409 AAATTAATTA
*
22908419 AAATAATAAATAAAAAATTT-AAA-
1 AAATAATAAATAAACAATTTAAAAT
22908442 AAATAAATAATATAAA-AATGTTTAAAAT
1 AAAT-AATAA-ATAAACAA--TTTAAAAT
*
22908470 AAATAATAAATGAAACAATTTAAAGT
1 AAATAATAAAT-AAACAATTTAAAAT
*
22908496 AAA-AA-ATATAAA-AAGTTTTAAAA-
1 AAATAATAAATAAACAA--TTTAAAAT
* *
22908519 AAATAATATATGAAAAAAATTTAAAAT
1 AAATAATAAAT--AAACAATTTAAAAT
* * *
22908546 AAGTAATATAT-AA-AATGGTTCAGAAT
1 AAATAATAAATAAACAAT--TT-AAAAT
* * * *
22908572 AGACAATATATACATA-AATTTTAACAT
1 AAATAATAAATA-A-ACAA-TTTAAAAT
* *
22908599 AAAT-A-AAATACAAAATAGTTTGAAAT
1 AAATAATAAATA-AACA-A-TTTAAAAT
* ** *
22908625 AAATAGTTTATAAAACAATTTAAAGT
1 AAATAATAAAT-AAACAATTTAAAAT
*
22908651 AAATAATATATAAACAATTTAAAAT
1 AAATAATAAATAAACAATTTAAAAT
* * * *
22908676 -AATCATACA-AAATAAATTAAAAT
1 AAATAATAAATAAACAATTTAAAAT
*
22908699 AAATAATATGATAAAACAATTTAAAAT
1 AAATAATA-AAT-AAACAATTTAAAAT
* * *
22908726 AAATACTACATAAAAAAATTTAAAAT
1 AAATAATAAAT-AAACAATTTAAAAT
*
22908752 AAATAAT-AATAAA-ACTGTTCAAAAT
1 AAATAATAAATAAACAAT-TT-AAAAT
* * *
22908777 AAATAAT-AAGAAA-GATTTATAAT
1 AAATAATAAATAAACAATTTAAAAT
**
22908800 AAAT-A-AAATAAGTAAGTTTAAAAT
1 AAATAATAAATAAACAA-TTTAAAAT
22908824 AAATAA
1 AAATAA
22908830 CATATAAAAG
Statistics
Matches: 303, Mismatches: 47, Indels: 74
0.71 0.11 0.17
Matches are distributed among these distances:
22 7 0.02
23 36 0.12
24 52 0.17
25 55 0.18
26 83 0.27
27 49 0.16
28 16 0.05
29 4 0.01
30 1 0.00
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (25 bp):
AAATAATAAATAAACAATTTAAAAT
Found at i:22908516 original size:50 final size:49
Alignment explanation
Indices: 22908418--22908785 Score: 173
Period size: 50 Copynumber: 7.2 Consensus size: 49
22908408 CAAATTAATT
*
22908418 AAAATAATAAAT-AAAAAATTTAAAAAATAAATAATATAAAAATGTTTAAA
1 AAAATAATAAATGAAAAAATTT--AAAATAAAAAATATAAAAATGTTTAAA
* *
22908468 ATAAATAATAAATGAAACAATTTAAAGTAAAAAATATAAAAA-GTTTTAAA
1 A-AAATAATAAATGAAAAAATTTAAAATAAAAAATATAAAAATG-TTTAAA
* ** *
22908518 AAAATAATATATGAAAAAAATTTAAAATAAGTAATATATAAAATGGTTCAGAA
1 AAAATAATAAATG-AAAAAATTTAAAATAAAAAATATA-AAAAT-GTTTA-AA
* * * * * *
22908571 TAGACAATATAT-ACATAAATTTTAACATAAATAAA-ATACAAAATAGTTTGAAA
1 AAAATAATAAATGA-A-AAAATTTAAAATAAA-AAATATA-AAAAT-GTTT-AAA
* * ** *
22908624 TAAATAGTTTAT-AAAACAATTTAAAGTAAATAATATATAAACAA--TTTAAA
1 AAAATAATAAATGAAAA-AATTTAAAATAAA-AA-ATATAAA-AATGTTTAAA
* * * *
22908674 ATAATCATACAA--AATAAA-TTAAAATAAATAATATGATAAAACA-ATTTAAA
1 AAAATAATA-AATGAAAAAATTTAAAATAAA-AA-AT-ATAAAA-ATGTTTAAA
* * * * * *
22908724 ATAAATACTACATAAAAAAATTTAAAATAAATAATAATAAAACTGTTCAAA
1 A-AAATAATAAATGAAAAAATTTAAAATAAAAAAT-ATAAAAATGTTTAAA
22908775 ATAAATAATAA
1 A-AAATAATAA
22908786 GAAAGATTTA
Statistics
Matches: 247, Mismatches: 46, Indels: 49
0.72 0.13 0.14
Matches are distributed among these distances:
48 16 0.06
49 20 0.08
50 63 0.26
51 49 0.20
52 32 0.13
53 59 0.24
54 8 0.03
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (49 bp):
AAAATAATAAATGAAAAAATTTAAAATAAAAAATATAAAAATGTTTAAA
Found at i:22908545 original size:76 final size:73
Alignment explanation
Indices: 22908416--22908785 Score: 184
Period size: 76 Copynumber: 4.9 Consensus size: 73
22908406 GACAAATTAA
* **
22908416 TTAAAATAATAAATAAAAAATTTAAAAAATAAATAATATAAAAATGTTTAAAATAAATAATAAAT
1 TTAAAATAAAAAATAAAAAATTTAAAAAATAAATAATATAAAAAAATTTAAAATAAATAATAAAT
22908481 GAAACAAT
66 GAAACAAT
* *
22908489 TTAAAGTAAAAAATATAAAAAGTTTTAAAAAA-ATAAT-ATATGAAAAAAATTTAAAATAAGTAA
1 TTAAAATAAAAAATA-AAAAA--TTTAAAAAATA-AATAATAT-AAAAAAATTTAAAATAAATAA
* * ***
22908552 TATATAAAATGGT
61 TAAATGAAACAAT
* * * * * * * *
22908565 TCAGAATAGACAATATATACATAAATTT-TAACATAAATAAAATACAAAATAGTTTGAAATAAAT
1 TTAAAATA-A-AA-A-ATA-AAAAATTTAAAAAATAAATAATATA-AAAA-AATTTAAAATAAAT
* ** *
22908629 AGTTTATAAAACAAT
59 AATAAATGAAACAAT
* * *
22908644 TTAAAGTAAATAATATATAAACAATTT--AAAAT-AATCATACAAAATAAA-TTAAAATAAATAA
1 TTAAAATAAA-AA-ATA-AAA-AATTTAAAAAATAAATAATATAAAA-AAATTTAAAATAAATAA
* *
22908705 TATGATAAAACAAT
61 TA-AATGAAACAAT
* *
22908719 TTAAAATAAATACTACATAAAAAAATTT--AAAATAAATAATA-ATAAAACTGTTCAAAATAAAT
1 TTAAAATAAA-A--A-AT-AAAAAATTTAAAAAATAAATAATATAAAAAAAT-TT-AAAATAAAT
22908781 AATAA
59 AATAA
22908786 GAAAGATTTA
Statistics
Matches: 227, Mismatches: 46, Indels: 44
0.72 0.15 0.14
Matches are distributed among these distances:
73 13 0.06
74 17 0.07
75 32 0.14
76 63 0.28
77 34 0.15
78 34 0.15
79 27 0.12
80 7 0.03
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (73 bp):
TTAAAATAAAAAATAAAAAATTTAAAAAATAAATAATATAAAAAAATTTAAAATAAATAATAAAT
GAAACAAT
Found at i:22908755 original size:53 final size:52
Alignment explanation
Indices: 22908419--22908838 Score: 309
Period size: 53 Copynumber: 8.3 Consensus size: 52
22908409 AAATTAATTA
* *
22908419 AAATAATAAAT-AAAAAATTTAAAAAATAAATAATATA-AAAA-TGTTTAAAAT
1 AAATAATATATAAAAAAATTT--AAAATAAATAATATATAAAACAGTTTAAAAT
* * * *
22908470 AAATAATAAATGAAACAATTTAAAGTAAA-AA-ATATAAAA-AGTTTTAAAA-
1 AAATAATATATAAAAAAATTTAAAATAAATAATATATAAAACAG-TTTAAAAT
* ** * *
22908519 AAATAATATATGAAAAAAATTTAAAATAAGTAATATATAAAATGGTTCAGAAT
1 AAATAATATAT-AAAAAAATTTAAAATAAATAATATATAAAACAGTTTAAAAT
* * * * * * * * *
22908572 AGACAATATATACATAAATTTTAACATAAATAAAATACAAAATAGTTTGAAAT
1 AAATAATATATA-AAAAAATTTAAAATAAATAATATATAAAACAGTTTAAAAT
* * * * *
22908625 AAATAGTTTATAAAACAATTTAAAGTAAATAATATAT-AAACAATTTAAAAT
1 AAATAATATATAAAAAAATTTAAAATAAATAATATATAAAACAGTTTAAAAT
* * * *
22908676 -AATCATACA-AAATAAA-TTAAAATAAATAATATGATAAAACAATTTAAAAT
1 AAATAATATATAAAAAAATTTAAAATAAATAATAT-ATAAAACAGTTTAAAAT
* * * *
22908726 AAATACTACATAAAAAAATTTAAAATAAATAATA-ATAAAACTGTTCAAAAT
1 AAATAATATATAAAAAAATTTAAAATAAATAATATATAAAACAGTTTAAAAT
* * * *
22908777 AAAT-A-ATA-AGAAAGATTTATAATAAATAA-A-ATAAGTA-AGTTTAAAAT
1 AAATAATATATAAAAAAATTTAAAATAAATAATATATAA-AACAGTTTAAAAT
*
22908824 AAATAACATATAAAA
1 AAATAATATATAAAA
22908839 GTACCTAAAG
Statistics
Matches: 292, Mismatches: 59, Indels: 37
0.75 0.15 0.10
Matches are distributed among these distances:
47 17 0.06
48 38 0.13
49 29 0.10
50 50 0.17
51 49 0.17
52 46 0.16
53 63 0.22
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (52 bp):
AAATAATATATAAAAAAATTTAAAATAAATAATATATAAAACAGTTTAAAAT
Found at i:22908785 original size:25 final size:26
Alignment explanation
Indices: 22908419--22908784 Score: 195
Period size: 26 Copynumber: 14.3 Consensus size: 26
22908409 AAATTAATTA
*
22908419 AAATAATAAATAAAA-AATTTAAAAAAT
1 AAATAATACATAAAACAATTT--AAAAT
*
22908446 AAATAAT--ATAAAA-ATGTTTAAAAT
1 AAATAATACATAAAACA-ATTTAAAAT
* * *
22908470 AAATAATAAATGAAACAATTTAAAGT
1 AAATAATACATAAAACAATTTAAAAT
* *
22908496 AAA-AA-ATATAAAA-AGTTTTAAAA-
1 AAATAATACATAAAACA-ATTTAAAAT
* *
22908519 AAATAATATATGAAAAAAATTTAAAAT
1 AAATAATACAT-AAAACAATTTAAAAT
* * *** * *
22908546 AAGTAATATATAAAATGGTTCAGAAT
1 AAATAATACATAAAACAATTTAAAAT
* * * * *
22908572 AGACAATATATACATAA-ATTTTAACAT
1 AAATAATACATA-A-AACAATTTAAAAT
* * * * * *
22908599 AAATAAAATACAAAATAGTTTGAAAT
1 AAATAATACATAAAACAATTTAAAAT
* ** *
22908625 AAATAGTTTATAAAACAATTTAAAGT
1 AAATAATACATAAAACAATTTAAAAT
*
22908651 AAATAATATAT-AAACAATTTAAAAT
1 AAATAATACATAAAACAATTTAAAAT
*
22908676 -AATCATACA-AAATA-AA-TTAAAAT
1 AAATAATACATAAA-ACAATTTAAAAT
*
22908699 AAATAATATGATAAAACAATTTAAAAT
1 AAATAATA-CATAAAACAATTTAAAAT
* *
22908726 AAATACTACATAAAAAAATTTAAAAT
1 AAATAATACATAAAACAATTTAAAAT
** *
22908752 AAATAATA-ATAAAACTGTTCAAAAT
1 AAATAATACATAAAACAATTTAAAAT
22908777 AAATAATA
1 AAATAATA
22908785 AGAAAGATTT
Statistics
Matches: 266, Mismatches: 53, Indels: 42
0.74 0.15 0.12
Matches are distributed among these distances:
23 11 0.04
24 43 0.16
25 52 0.20
26 111 0.42
27 47 0.18
28 2 0.01
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (26 bp):
AAATAATACATAAAACAATTTAAAAT
Found at i:22908801 original size:101 final size:100
Alignment explanation
Indices: 22908419--22908838 Score: 316
Period size: 101 Copynumber: 4.2 Consensus size: 100
22908409 AAATTAATTA
* * *
22908419 AAATAATAAAT-AAAAAATTT-AAA-AAATAAATAATATAAAAATGTTTAAAATAAATAATAAAT
1 AAATAATATATAAAAAAATTTAAAATAAAT-AAT-ATATAAAAATGTTCAAAATAAATAATACA-
*
22908481 GAAACAATTTAAAGTAAA-AAATATAAAAAGTTTTAAAA-
63 GAAACAATTTAAA-TAAATAAATATAAAAA-ATTTAAAAT
* *
22908519 AAATAATATATGAAAAAAATTTAAAATAAGTAATATAT-AAAATGGTTCAGAATAGACAATATAT
1 AAATAATATAT-AAAAAAATTTAAAATAAATAATATATAAAAAT-GTTCA-AA-ATA-AATA-AT
* * *
22908583 ACA-TAA-ATTTTAACATAAATAAA-ATACAAAATAGTTTGAAAT
60 ACAGAAACAATTTAA-ATAAATAAATATA-AAAA-A-TTTAAAAT
* * * * *
22908625 AAATAGTTTATAAAACAATTTAAAGTAAATAATATATAAACAAT-TT-AAAAT-AATCATACA-A
1 AAATAATATATAAAAAAATTTAAAATAAATAATATATAAA-AATGTTCAAAATAAATAATACAGA
* *
22908686 AATAAATTAAAATAAATAATATGATAAAACAATTTAAAAT
65 AA-CAATTTAAATAAATAA-AT-ATAAAA-AATTTAAAAT
* * *
22908726 AAATACTACATAAAAAAATTTAAAATAAATAATA-ATAAAACTGTTCAAAATAAATAATA-AGAA
1 AAATAATATATAAAAAAATTTAAAATAAATAATATATAAAAATGTTCAAAATAAATAATACAGAA
* * *
22908789 A-GATTTATAATAAATAAA-ATAAGTAAGTTTAAAAT
66 ACAATTTA-AATAAATAAATATAA-AAAATTTAAAAT
*
22908824 AAATAACATATAAAA
1 AAATAATATATAAAA
22908839 GTACCTAAAG
Statistics
Matches: 257, Mismatches: 35, Indels: 58
0.73 0.10 0.17
Matches are distributed among these distances:
98 25 0.10
99 10 0.04
100 33 0.13
101 62 0.24
102 31 0.12
103 27 0.11
104 16 0.06
105 35 0.14
106 15 0.06
107 3 0.01
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (100 bp):
AAATAATATATAAAAAAATTTAAAATAAATAATATATAAAAATGTTCAAAATAAATAATACAGAA
ACAATTTAAATAAATAAATATAAAAAATTTAAAAT
Found at i:22910255 original size:17 final size:17
Alignment explanation
Indices: 22910229--22910262 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
22910219 TTTAAACTCT
22910229 TTTTTATTTAT-TCTGG
1 TTTTTATTTATCTCTGG
22910245 TTTTTATTTTATCTCTGG
1 TTTTTA-TTTATCTCTGG
22910263 AGCAGGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.68
Consensus pattern (17 bp):
TTTTTATTTATCTCTGG
Found at i:22910651 original size:19 final size:21
Alignment explanation
Indices: 22910629--22910681 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
22910619 AAAACTACTT
*
22910629 AAAATTTAAAAAAAA-TT-TA
1 AAAATCTAAAAAAAAGTTATA
22910648 AAAATCTAAAAAAAAGTTATAA
1 AAAATCTAAAAAAAAGTTAT-A
*
22910670 AAAATCTCAAAA
1 AAAATCTAAAAA
22910682 TATTTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.48
20 2 0.07
21 1 0.03
22 12 0.41
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.25
Consensus pattern (21 bp):
AAAATCTAAAAAAAAGTTATA
Found at i:22910931 original size:20 final size:20
Alignment explanation
Indices: 22910898--22910944 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
22910888 ATTTCTTTGC
*
22910898 ATTTTT-ATGAAATTTTTGAT
1 ATTTTTAATGAAA-TTCTGAT
22910918 ATTTTTAATG-AATTCTGAT
1 ATTTTTAATGAAATTCTGAT
22910937 -TTTTTAAT
1 ATTTTTAAT
22910945 TAAAAATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 8 0.32
19 6 0.24
20 8 0.32
21 3 0.12
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.60
Consensus pattern (20 bp):
ATTTTTAATGAAATTCTGAT
Found at i:22917679 original size:22 final size:22
Alignment explanation
Indices: 22917654--22917716 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
22917644 ATTTCATCTT
*
22917654 TTTTTTGTCCATGTAATTTGAA
1 TTTTTTGTCCATATAATTTGAA
* * *
22917676 TTTTTGGTCCCTATAATTTTAA
1 TTTTTTGTCCATATAATTTGAA
*
22917698 TTTTTTATTCCA-ATAATTT
1 TTTTTT-GTCCATATAATTT
22917717 CACCTAATAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
22 30 0.91
23 3 0.09
ACGTcount: A:0.24, C:0.11, G:0.08, T:0.57
Consensus pattern (22 bp):
TTTTTTGTCCATATAATTTGAA
Found at i:22917859 original size:13 final size:13
Alignment explanation
Indices: 22917841--22917881 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
22917831 TTTAAATAAA
22917841 CAGTTAATAGAAT
1 CAGTTAATAGAAT
*
22917854 CAGTTAGTCA-AAT
1 CAGTTAAT-AGAAT
22917867 CAGTTAATAGAAT
1 CAGTTAATAGAAT
22917880 CA
1 CA
22917882 ATTGGTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (13 bp):
CAGTTAATAGAAT
Found at i:22917871 original size:26 final size:26
Alignment explanation
Indices: 22917841--22917891 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
22917831 TTTAAATAAA
*
22917841 CAGTTAATAGAATCAGTTAGTCAAAT
1 CAGTTAATAGAATCAATTAGTCAAAT
*
22917867 CAGTTAATAGAATCAATTGGTCAAA
1 CAGTTAATAGAATCAATTAGTCAAA
22917892 CCATCCACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (26 bp):
CAGTTAATAGAATCAATTAGTCAAAT
Found at i:22924808 original size:29 final size:29
Alignment explanation
Indices: 22924775--22924848 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
22924765 GTGACGAGAT
22924775 TGGCACTAAGTGTGCGTGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
22924804 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
22924833 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
22924849 AGCTCGAAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:22924864 original size:29 final size:29
Alignment explanation
Indices: 22924832--22924907 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
22924822 CTGGAAATAT
* *
22924832 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
* * * *
22924861 ATGGCACTATGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
22924890 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
22924908 AATCGAGTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:22924865 original size:58 final size:58
Alignment explanation
Indices: 22924775--22924907 Score: 142
Period size: 58 Copynumber: 2.3 Consensus size: 58
22924765 GTGACGAGAT
* * * * *
22924775 TGGCACTAAGTGTGCGTGCTGGAAAAATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCT-GAAATCACA
*** * * * *
22924833 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTATGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCTGAAATCACA
22924891 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
22924908 AATCGAGTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
57 4 0.06
58 58 0.94
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.24
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:22927026 original size:30 final size:31
Alignment explanation
Indices: 22926981--22927039 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
22926971 AATTCAATTT
* **
22926981 TGTTTTTTCCTTTTTGTCTGTTTTTATTTTA
1 TGTTTTGTCCTTTTTGTCTACTTTTATTTTA
22927012 TGTTTTGT-CTTTTTGTCTACTTTTATTT
1 TGTTTTGTCCTTTTTGTCTACTTTTATTT
22927040 ACAATTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.07, C:0.10, G:0.10, T:0.73
Consensus pattern (31 bp):
TGTTTTGTCCTTTTTGTCTACTTTTATTTTA
Found at i:22930886 original size:48 final size:48
Alignment explanation
Indices: 22930798--22931017 Score: 177
Period size: 48 Copynumber: 4.7 Consensus size: 48
22930788 TGAAAACCCG
* *****
22930798 TGTAAGACCATATCTGGGATATGGCACCAAAATC-AGTATGAGATCCCA
1 TGTAAGACCATATCTGGGACATGGCATTGGCATCGA-TATGAGATCCCA
* * *
22930846 TGTAAGACCATATCTGGGATATGACATTGGCATCGATATGAGATCCCG
1 TGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGAGATCCCA
* * ** * * *
22930894 TATAAGACCATGTCTGGGACATGGCATCAGCA-CTGTTATGAGA-CTTCG
1 TGTAAGACCATATCTGGGACATGGCATTGGCATC-GATATGAGATC-CCA
* *
22930942 TGTAAGACCATAGCTGGG-C-T---ATTGGCATCGATGTGAGATCCCA
1 TGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGAGATCCCA
* *
22930985 TGTAAGACTATGTCTGGGACATGGCATTGGCAT
1 TGTAAGACCATATCTGGGACATGGCATTGGCAT
22931018 TTTTTCATGT
Statistics
Matches: 135, Mismatches: 27, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
43 28 0.21
44 3 0.02
45 1 0.01
46 1 0.01
47 3 0.02
48 98 0.73
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (48 bp):
TGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGAGATCCCA
Found at i:22930934 original size:96 final size:91
Alignment explanation
Indices: 22930794--22931011 Score: 233
Period size: 96 Copynumber: 2.3 Consensus size: 91
22930784 GTATTGAAAA
* * *
22930794 CCCGTGTAAGACCATATCTGGGATATGGCACCAAAATCAGTATGAGA-TCCCATGTAAGACCATA
1 CCCGTGTAAGACCATGTCTGGGACATGGCATCAAAATCAGTATGAGACT-CCATGTAAGACCATA
*
22930858 TCTGGGATATGACATTGGCATCGATATGAGAT
65 GCTGGG--AT---ATTGGCATCGATATGAGAT
* ** * * *
22930890 CCCGTATAAGACCATGTCTGGGACATGGCATCAGCA-CTGTTATGAGACTTCGTGTAAGACCATA
1 CCCGTGTAAGACCATGTCTGGGACATGGCATCAAAATCAG-TATGAGACTCCATGTAAGACCATA
* *
22930954 GCTGGGCTATTGGCATCGATGTGAGAT
65 GCTGGGATATTGGCATCGATATGAGAT
* *
22930981 CCCATGTAAGACTATGTCTGGGACATGGCAT
1 CCCGTGTAAGACCATGTCTGGGACATGGCAT
22931012 TGGCATTTTT
Statistics
Matches: 105, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
91 46 0.44
94 1 0.01
95 2 0.02
96 55 0.52
97 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (91 bp):
CCCGTGTAAGACCATGTCTGGGACATGGCATCAAAATCAGTATGAGACTCCATGTAAGACCATAG
CTGGGATATTGGCATCGATATGAGAT
Found at i:22934341 original size:21 final size:22
Alignment explanation
Indices: 22934317--22934358 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
22934307 GGTTTGAATT
*
22934317 TTTTCTGAGTTT-AATTTTTTA
1 TTTTCTGAATTTGAATTTTTTA
*
22934338 TTTTTTGAATTTGAATTTTTT
1 TTTTCTGAATTTGAATTTTTT
22934359 TAAATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.19, C:0.02, G:0.10, T:0.69
Consensus pattern (22 bp):
TTTTCTGAATTTGAATTTTTTA
Found at i:22934354 original size:22 final size:22
Alignment explanation
Indices: 22934316--22934358 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22934306 GGGTTTGAAT
*
22934316 TTTTTCTGAGTTTAATTTTTTA
1 TTTTTCTGAATTTAATTTTTTA
22934338 TTTTT-TGAATTTGAATTTTTT
1 TTTTTCTGAATTT-AATTTTTT
22934359 TAAATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.19, C:0.02, G:0.09, T:0.70
Consensus pattern (22 bp):
TTTTTCTGAATTTAATTTTTTA
Found at i:22934357 original size:16 final size:16
Alignment explanation
Indices: 22934338--22934373 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
22934328 TAATTTTTTA
* *
22934338 TTTTTTGAATTTGAAT
1 TTTTTTAAATTTAAAT
22934354 TTTTTTAAATTTAAAT
1 TTTTTTAAATTTAAAT
22934370 TTTT
1 TTTT
22934374 AACTTTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTTTTAAATTTAAAT
Found at i:22934371 original size:38 final size:38
Alignment explanation
Indices: 22934309--22934382 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
22934299 TAATTTTGGG
* * * *
22934309 TTTGAATTTTTTCTGAGTTTAATTTTTTATTTTTTGAA
1 TTTGAATTTTTTCTAAATTTAATTTTTAACTTTTTGAA
22934347 TTTGAATTTTTT-TAAATTTAAATTTTTAACTTTTTG
1 TTTGAATTTTTTCTAAATTT-AATTTTTAACTTTTTG
22934383 TCAAATCGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 5 0.16
38 26 0.84
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (38 bp):
TTTGAATTTTTTCTAAATTTAATTTTTAACTTTTTGAA
Found at i:22943517 original size:18 final size:19
Alignment explanation
Indices: 22943494--22943531 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
22943484 CAAAAATATT
*
22943494 AATAT-AAATAATTTAAAA
1 AATATAAAAAAATTTAAAA
22943512 AATATAAAAAAATTTAAAA
1 AATATAAAAAAATTTAAAA
22943531 A
1 A
22943532 TTTAATGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AATATAAAAAAATTTAAAA
Found at i:22944503 original size:27 final size:25
Alignment explanation
Indices: 22944464--22944540 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 25
22944454 ACAATATTGA
22944464 ATTTTTGAATTTTTATATTTTTAAAAT
1 ATTTTT-AATTTTTATATTTTT-AAAT
*
22944491 CATTTTTAATTTTTTTATTTTTAAAT
1 -ATTTTTAATTTTTATATTTTTAAAT
*
22944517 AGTTTTTATCTTTTTCATATTTTT
1 A-TTTTTA-ATTTTT-ATATTTTT
22944541 TTAAAATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
25 1 0.02
26 10 0.23
27 19 0.44
28 13 0.30
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.68
Consensus pattern (25 bp):
ATTTTTAATTTTTATATTTTTAAAT
Found at i:22944530 original size:26 final size:28
Alignment explanation
Indices: 22944464--22944540 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
22944454 ACAATATTGA
22944464 ATTTTTGAA-TTTTTATATTTTTAAAATC
1 ATTTTT-AATTTTTTATATTTTTAAAATC
22944492 ATTTTTAATTTTTT-TATTTTT-AAAT-
1 ATTTTTAATTTTTTATATTTTTAAAATC
22944517 AGTTTTT-ATCTTTTTCATATTTTT
1 A-TTTTTAAT-TTTTT-ATATTTTT
22944541 TTAAAATTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
25 3 0.07
26 14 0.32
27 9 0.20
28 18 0.41
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.68
Consensus pattern (28 bp):
ATTTTTAATTTTTTATATTTTTAAAATC
Found at i:22944540 original size:18 final size:17
Alignment explanation
Indices: 22944492--22944541 Score: 50
Period size: 18 Copynumber: 3.0 Consensus size: 17
22944482 TTTTAAAATC
22944492 ATTTTT-AAT-TTTTTT
1 ATTTTTAAATATTTTTT
*
22944507 ATTTTTAAATAGTTTTT
1 ATTTTTAAATATTTTTT
**
22944524 ATCTTTTTCATATTTTTT
1 AT-TTTTAAATATTTTTT
22944542 TAAAATTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 6 0.21
16 3 0.11
17 7 0.25
18 12 0.43
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (17 bp):
ATTTTTAAATATTTTTT
Found at i:22948143 original size:24 final size:24
Alignment explanation
Indices: 22948105--22948150 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
22948095 CCATAGTTTT
* *
22948105 TTTTTTTTTTTTTTCATTTGTTGC
1 TTTTTTTATTCTTTCATTTGTTGC
22948129 TTTTTTTATTCTTTCATTTGTT
1 TTTTTTTATTCTTTCATTTGTT
22948151 TGTACCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.07, C:0.09, G:0.07, T:0.78
Consensus pattern (24 bp):
TTTTTTTATTCTTTCATTTGTTGC
Found at i:22948194 original size:20 final size:20
Alignment explanation
Indices: 22948157--22948194 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22948147 TGTTTGTACC
*
22948157 TTTTCGTTTTTTTATTTTGT
1 TTTTCGTTTATTTATTTTGT
22948177 TTTTC-TTTATTTACTTTT
1 TTTTCGTTTATTTA-TTTT
22948195 TTAGCTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTCGTTTATTTATTTTGT
Found at i:22948222 original size:20 final size:19
Alignment explanation
Indices: 22948182--22948227 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
22948172 TTTGTTTTTC
22948182 TTTATTTACTTTTTTAGCTT
1 TTTATTTACTTTTTTAGC-T
22948202 TTTATTTA-TTTATTT-GTCT
1 TTTATTTACTTT-TTTAG-CT
22948221 TTTATTT
1 TTTATTT
22948228 GTTTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTATTTACTTTTTTAGCT
Found at i:22948222 original size:29 final size:28
Alignment explanation
Indices: 22948182--22948258 Score: 74
Period size: 29 Copynumber: 2.9 Consensus size: 28
22948172 TTTGTTTTTC
22948182 TTTATTTACTTTT-TTAGCTTTTTATTTA
1 TTTATTTACTTTTATTAG-TTTTTATTTA
* * *
22948210 TTTATTTGTCTTTTATTTGTTTTTATTTG
1 TTTATTT-ACTTTTATTAGTTTTTATTTA
22948239 TTTA-TT-CTTTT-TT-GTTTTTA
1 TTTATTTACTTTTATTAGTTTTTA
22948259 CTATTTTACC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
24 7 0.16
25 2 0.05
26 5 0.11
28 9 0.20
29 18 0.41
30 3 0.07
ACGTcount: A:0.13, C:0.05, G:0.06, T:0.75
Consensus pattern (28 bp):
TTTATTTACTTTTATTAGTTTTTATTTA
Found at i:22948235 original size:10 final size:10
Alignment explanation
Indices: 22948210--22948241 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
22948200 TTTTTATTTA
22948210 TTTATTTGTCT
1 TTTATTTGT-T
22948221 TTTATTTGTT
1 TTTATTTGTT
22948231 TTTATTTGTT
1 TTTATTTGTT
22948241 T
1 T
22948242 ATTCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.09, C:0.03, G:0.09, T:0.78
Consensus pattern (10 bp):
TTTATTTGTT
Found at i:22949242 original size:21 final size:21
Alignment explanation
Indices: 22949202--22949242 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22949192 AATTGATACT
*
22949202 AAAATAGTTAATTTTCAAATC
1 AAAATAGTTAATTTTAAAATC
22949223 AAAAGTAGTTAA-TTTAAAAT
1 AAAA-TAGTTAATTTTAAAAT
22949243 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (21 bp):
AAAATAGTTAATTTTAAAATC
Done.