Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 67 of 213
Found at i:18056953 original size:31 final size:33
Alignment explanation
Indices: 18056880--18056969 Score: 94
Period size: 35 Copynumber: 2.7 Consensus size: 33
18056870 AAGGGTGAGA
*
18056880 AGTAAAAGTTTAGGGGGAAAATAAAAAGTTTTGGAG
1 AGTAAAAGTTTAGAGGGAAAATAAAAAG---TGGAG
* *
18056916 AATAAAAGTTT-GAGGGAAAATAAATAG-GGAG
1 AGTAAAAGTTTAGAGGGAAAATAAAAAGTGGAG
* *
18056947 AGTAAAATTTTGGAGGGAAAATA
1 AGTAAAAGTTTAGAGGGAAAATA
18056970 TTAAAAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
31 13 0.27
32 11 0.23
35 14 0.29
36 10 0.21
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.23
Consensus pattern (33 bp):
AGTAAAAGTTTAGAGGGAAAATAAAAAGTGGAG
Found at i:18061350 original size:68 final size:68
Alignment explanation
Indices: 18061269--18061406 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
18061259 CCAAATCAAT
18061269 CAGTTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTT
1 CAGTTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTT
18061334 TTC
66 TTC
18061337 CAGTTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTT
1 CAGTTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTT
18061402 TTC
66 TTC
18061405 CA
1 CA
18061407 ATTTCTTCTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (68 bp):
CAGTTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTT
TTC
Found at i:18062134 original size:2 final size:2
Alignment explanation
Indices: 18062121--18062160 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
18062111 ATCTAAATAT
*
18062121 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
18062161 CATATATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:18067737 original size:8 final size:8
Alignment explanation
Indices: 18067713--18067767 Score: 94
Period size: 8 Copynumber: 6.9 Consensus size: 8
18067703 TTTACTTTAA
18067713 TTTT-AAT
1 TTTTAAAT
18067720 TTTTAGAAT
1 TTTTA-AAT
18067729 TTTTAAAT
1 TTTTAAAT
18067737 TTTTAAAT
1 TTTTAAAT
18067745 TTTTAAAT
1 TTTTAAAT
18067753 TTTTAAAT
1 TTTTAAAT
18067761 TTTTAAA
1 TTTTAAA
18067768 AAGAATTTCA
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
7 4 0.09
8 34 0.74
9 8 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (8 bp):
TTTTAAAT
Found at i:18070174 original size:24 final size:25
Alignment explanation
Indices: 18070147--18070194 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
18070137 AGAGGAAAGT
18070147 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
18070171 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
18070195 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:18072990 original size:57 final size:56
Alignment explanation
Indices: 18072928--18073078 Score: 223
Period size: 56 Copynumber: 2.7 Consensus size: 56
18072918 GTTGGGACAT
* *
18072928 TGATGGTTGACATCCTTGTACTAGATTTGAGAAAAAAAATTTTGGGTGCTGGCACAC
1 TGATGGTTGACACCCTTGTACTAGATTTGA-AAAAAAAAATTTGGGTGCTGGCACAC
* *
18072985 TGATGGTCGACACCCTTGTACTAGATTTGAAAAAAAAAATTTGGGTGCTGGGACAC
1 TGATGGTTGACACCCTTGTACTAGATTTGAAAAAAAAAATTTGGGTGCTGGCACAC
* * *
18073041 TGATGGGTAACACCCTTGTACCAGATTT-AAAAAAAAAA
1 TGATGGTTGACACCCTTGTACTAGATTTGAAAAAAAAAA
18073079 GGTGTTGTGA
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
55 10 0.12
56 48 0.56
57 28 0.33
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (56 bp):
TGATGGTTGACACCCTTGTACTAGATTTGAAAAAAAAAATTTGGGTGCTGGCACAC
Found at i:18073095 original size:51 final size:54
Alignment explanation
Indices: 18072941--18073097 Score: 160
Period size: 56 Copynumber: 2.9 Consensus size: 54
18072931 TGGTTGACAT
* * * *
18072941 CCTTGTACTAGATTTGAGAAAAAAAATTTTGGGTGCTGGCACACTGAT-GGTCGACAC
1 CCTTGTACCAGATTTGA-AAAAAAAA--AT-GGTGCTGGGACACTGATGGGTCAACAC
*
18072998 CCTTGTACTAGATTTGAAAAAAAAAATTTGGGTGCTGGGACACTGATGGGT-AACAC
1 CCTTGTACCAGATTTGAAAAAAAAAA--T-GGTGCTGGGACACTGATGGGTCAACAC
* *
18073054 CCTTGTACCAGATTT-AAAAAAAAAA-GGTGTTGTGACACTGATGG
1 CCTTGTACCAGATTTGAAAAAAAAAATGGTGCTGGGACACTGATGG
18073098 CCAGCACCCT
Statistics
Matches: 91, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
51 17 0.19
55 10 0.11
56 44 0.48
57 20 0.22
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (54 bp):
CCTTGTACCAGATTTGAAAAAAAAAATGGTGCTGGGACACTGATGGGTCAACAC
Found at i:18075103 original size:13 final size:14
Alignment explanation
Indices: 18075066--18075104 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
18075056 TATTTTAAAG
18075066 ATTTATAAATTTGT
1 ATTTATAAATTTGT
*
18075080 ATTTCTAAATTT-T
1 ATTTATAAATTTGT
*
18075093 TTTTATAAATTT
1 ATTTATAAATTT
18075105 ATAGGTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (14 bp):
ATTTATAAATTTGT
Found at i:18076176 original size:47 final size:48
Alignment explanation
Indices: 18076117--18076208 Score: 143
Period size: 47 Copynumber: 1.9 Consensus size: 48
18076107 TATCCAATTA
*
18076117 TTAAATAAATAAAATTTTTAA-TTATTATATAGTG-TAAAATAAATGTT
1 TTAAATAAAT-AAATTATTAAGTTATTATATAGTGTTAAAATAAATGTT
*
18076164 TTAAATAAATAAATTATTAAGTTATTATATAGTGTTAAAGTAAAT
1 TTAAATAAATAAATTATTAAGTTATTATATAGTGTTAAAATAAAT
18076209 AAATTATTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
46 9 0.22
47 23 0.56
48 9 0.22
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (48 bp):
TTAAATAAATAAATTATTAAGTTATTATATAGTGTTAAAATAAATGTT
Found at i:18076257 original size:80 final size:82
Alignment explanation
Indices: 18076087--18076293 Score: 290
Period size: 80 Copynumber: 2.6 Consensus size: 82
18076077 TAGTGTGAAA
* * *
18076087 TAAATAAA-AAATTATTCAATTATCCA-AT--TATTAAA-TAAATAAAATT-TTTAATTATTATA
1 TAAATAAATAAATTATTCAATTAT-TATATAGTGTTAAAGTAAAT-AAATTATTCAATTATTATA
18076146 TAGTGTAAAATAAATGTTT
64 TAGTGTAAAATAAATGTTT
18076165 TAAATAAATAAATTATT-AAGTTATTATATAGTGTTAAAGTAAATAAATTATTCAATTA-T-TAT
1 TAAATAAATAAATTATTCAA-TTATTATATAGTGTTAAAGTAAATAAATTATTCAATTATTATAT
18076227 AGTGTAAAATAAATGTTT
65 AGTGTAAAATAAATGTTT
18076245 TAAATAAATAAATTATTCAATTATTATATAGTG-TAAAGTAAATAAATTA
1 TAAATAAATAAATTATTCAATTATTATATAGTGTTAAAGTAAATAAATTA
18076294 AATAAACAAA
Statistics
Matches: 118, Mismatches: 3, Indels: 15
0.87 0.02 0.11
Matches are distributed among these distances:
78 11 0.09
79 30 0.25
80 51 0.43
81 14 0.12
82 12 0.10
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (82 bp):
TAAATAAATAAATTATTCAATTATTATATAGTGTTAAAGTAAATAAATTATTCAATTATTATATA
GTGTAAAATAAATGTTT
Found at i:18076295 original size:47 final size:47
Alignment explanation
Indices: 18076198--18076342 Score: 215
Period size: 47 Copynumber: 3.1 Consensus size: 47
18076188 TTATATAGTG
***
18076198 TTAAAGTAAATAAATTATTCAATTA-T-TATAGTGTAAAATAAATGTT
1 TTAAA-TAAATAAATTATTCAATTATTATATAGTGTAAAATAAATAAA
*
18076244 TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAGTAAATAAA
1 TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAATAAATAAA
*
18076291 TTAAATAAACAAATTATTCAATTATTATATAGTGTAAAATAAATAAA
1 TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAATAAATAAA
18076338 -TAAAT
1 TTAAAT
18076343 TATTCAACAA
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
45 19 0.21
46 11 0.12
47 61 0.67
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (47 bp):
TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAATAAATAAA
Found at i:18079614 original size:36 final size:37
Alignment explanation
Indices: 18079541--18079623 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 37
18079531 ATTTTTGTCC
*
18079541 CCAATTTAACCAATGGTCTACTTACAATTTAAAGGCCT
1 CCAATTTAACCAATGGTCTAATTA-AATTTAAAGGCCT
*
18079579 CCAATTTAACCAATGGTCTAATT-AATTTAAGGGCCT
1 CCAATTTAACCAATGGTCTAATTAAATTTAAAGGCCT
18079615 CCAATTTAA
1 CCAATTTAA
18079624 AATTTCATGA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 21 0.49
38 22 0.51
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.33
Consensus pattern (37 bp):
CCAATTTAACCAATGGTCTAATTAAATTTAAAGGCCT
Found at i:18079793 original size:9 final size:9
Alignment explanation
Indices: 18079769--18079802 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
18079759 ATTGTAGACC
18079769 ATAAGAATATA
1 ATAA-AATA-A
18079780 ATAAAATAA
1 ATAAAATAA
18079789 ATAAAATAA
1 ATAAAATAA
18079798 ATAAA
1 ATAAA
18079803 TTTTTCCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.65
10 4 0.17
11 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (9 bp):
ATAAAATAA
Found at i:18080185 original size:20 final size:19
Alignment explanation
Indices: 18080160--18080214 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
18080150 ATAGGAATAG
18080160 ATAAATAATATAAAAAGGAA
1 ATAAATAATATAAAAA-GAA
* * * *
18080180 ATAAATAAAATAGAAATAT
1 ATAAATAATATAAAAAGAA
*
18080199 ATCAATAATATAAAAA
1 ATAAATAATATAAAAA
18080215 CAATATTCTA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (19 bp):
ATAAATAATATAAAAAGAA
Found at i:18080243 original size:24 final size:22
Alignment explanation
Indices: 18080183--18080267 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 22
18080173 AAAGGAAATA
18080183 AATA-AAATAGAAATATATCAAT
1 AATATAAATA-AAATATATCAAT
18080205 AATATAAA-AACAATAT-TCTAAT
1 AATATAAATAA-AATATATC-AAT
* *
18080227 ATATTATAAATAAAATAGATAAAT
1 A-A-TATAAATAAAATATATCAAT
*
18080251 AA-ATTAATAAAATATAT
1 AATATAAATAAAATATAT
18080268 AAATCAATTC
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
21 16 0.31
22 14 0.27
23 5 0.10
24 14 0.27
25 3 0.06
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (22 bp):
AATATAAATAAAATATATCAAT
Found at i:18080261 original size:21 final size:21
Alignment explanation
Indices: 18080235--18080276 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18080225 ATATATTATA
18080235 AATAAAATAGATAAATAAATT
1 AATAAAATAGATAAATAAATT
* *
18080256 AATAAAATATATAAATCAATT
1 AATAAAATAGATAAATAAATT
18080277 CTAATACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AATAAAATAGATAAATAAATT
Found at i:18080926 original size:109 final size:107
Alignment explanation
Indices: 18080725--18080954 Score: 338
Period size: 109 Copynumber: 2.1 Consensus size: 107
18080715 TGGATTAAGA
* *
18080725 TTTAAGAA-GATATTTGGCTATTTGGTCAAATGAAAAGTCGAAACCCAACACATTAGGGCACGTT
1 TTTAA-AAGGATATTTGGCTATTTGGTCAAATGAAAAATCGAAACCCAACACATTAGGGCACGCT
*
18080789 TTCTCGAATTTCCAAAAGAAAAATATTGCCTTATTTTGAAATT
65 TTCTCGAATTTCCAAAAGAAAAACATTGCCTTATTTTGAAATT
* *
18080832 TTTAAAAGGATATTTGGCTATTTGGTCGAACGA-GAAAAATCGAAACCTAGCACATTAGGGCACG
1 TTTAAAAGGATATTTGGCTATTTGGTC-AA--ATGAAAAATCGAAACCCAACACATTAGGGCACG
* * *
18080896 CTTTCTCGAATTTCCTAACGCAAAACATTGCCTTATTTTGAAATT
63 CTTTCTCGAATTTCCAAAAGAAAAACATTGCCTTATTTTGAAATT
18080941 TTTAAAAGGATATT
1 TTTAAAAGGATATT
18080955 AGTATGCGTA
Statistics
Matches: 111, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
106 2 0.02
107 24 0.22
108 2 0.02
109 82 0.74
110 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (107 bp):
TTTAAAAGGATATTTGGCTATTTGGTCAAATGAAAAATCGAAACCCAACACATTAGGGCACGCTT
TCTCGAATTTCCAAAAGAAAAACATTGCCTTATTTTGAAATT
Found at i:18081275 original size:12 final size:11
Alignment explanation
Indices: 18081243--18081293 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
18081233 TTAAAATTAT
*
18081243 TATATAAAAAA
1 TATATAATAAA
18081254 TATAT-ATAAA
1 TATATAATAAA
18081264 TATATAAGTAAA
1 TATATAA-TAAA
* *
18081276 CATATACATACA
1 TATATA-ATAAA
18081288 TATATA
1 TATATA
18081294 TGTATGTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
10 9 0.27
11 6 0.18
12 17 0.52
13 1 0.03
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (11 bp):
TATATAATAAA
Found at i:18081647 original size:41 final size:40
Alignment explanation
Indices: 18081570--18081770 Score: 258
Period size: 41 Copynumber: 4.9 Consensus size: 40
18081560 GAGTTTTAGG
* *
18081570 GGGCATTTAGCGGCGTTTTTGAAAAATCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTC
* *
18081611 GGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCACTAATACTC
1 GGGCCTTTAGCGGCGTTTTTAAA-AAGCGCCGCTAATGCTC
* * *
18081652 AGGCCTTTAGCGTCGTTTTTTGAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCG-TTTTTAAAAAGCGCCGCTAATGCTC
* * *
18081693 GGGCCTTTAGTGGCATTTTTTGAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGC-GTTTTTAAAAAGCGCCGCTAATGCTC
*
18081734 GTGCCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAT
1 GGGCCTTTAGCGGCG-TTTTTAAAAAGCGCCGCTAAT
18081771 AATAATAAAA
Statistics
Matches: 139, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.02
41 129 0.93
42 7 0.05
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.30
Consensus pattern (40 bp):
GGGCCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTC
Found at i:18082305 original size:15 final size:15
Alignment explanation
Indices: 18082285--18082321 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
18082275 CCATGAACTT
18082285 GGATTTTCATTCTTG
1 GGATTTTCATTCTTG
18082300 GGATTTTCATTCTTG
1 GGATTTTCATTCTTG
*
18082315 GAATTTT
1 GGATTTT
18082322 TGTGAGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.16, C:0.11, G:0.19, T:0.54
Consensus pattern (15 bp):
GGATTTTCATTCTTG
Found at i:18084022 original size:17 final size:17
Alignment explanation
Indices: 18084000--18084032 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18083990 ATTTTTATTT
18084000 TGTAGCATTAAGTTTTC
1 TGTAGCATTAAGTTTTC
18084017 TGTAGCATTAAGTTTT
1 TGTAGCATTAAGTTTT
18084033 TATTTTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.48
Consensus pattern (17 bp):
TGTAGCATTAAGTTTTC
Found at i:18084577 original size:49 final size:43
Alignment explanation
Indices: 18084425--18084589 Score: 258
Period size: 43 Copynumber: 3.8 Consensus size: 43
18084415 TTTTTGCTAG
* * * **
18084425 AAGCGCCGCAAAAGGTCATGGTCTATAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
18084468 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
*
18084511 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGGA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* *
18084554 AAGCGCCGCTAAAAGTCGTGGTCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTT
18084590 TTTTCGGCAC
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 114 1.00
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.27
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
Found at i:18084668 original size:22 final size:22
Alignment explanation
Indices: 18084632--18084674 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18084622 TAACGGCGCT
*
18084632 AAAAAGCGTCACTAAAGGCCTA
1 AAAAAGCGTCACTAAAAGCCTA
**
18084654 AAAAAGCGTTGCTAAAAGCCT
1 AAAAAGCGTCACTAAAAGCCT
18084675 GTTTTGGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (22 bp):
AAAAAGCGTCACTAAAAGCCTA
Found at i:18084815 original size:25 final size:24
Alignment explanation
Indices: 18084783--18084829 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
18084773 AAAATATGTA
18084783 CATGTATATATATTATAAAAAAACG
1 CATGTATATATA-TATAAAAAAACG
*
18084808 CATGTATATATATATAACAAAA
1 CATGTATATATATATAAAAAAA
18084830 TTTAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (24 bp):
CATGTATATATATATAAAAAAACG
Found at i:18087593 original size:109 final size:107
Alignment explanation
Indices: 18087404--18087633 Score: 343
Period size: 109 Copynumber: 2.1 Consensus size: 107
18087394 TGGATTAAGA
* * * * *
18087404 TTTAAGAGGATATTTGGCTATTTGGTCGAACGAGAAGTCGAAACCCAGCACATTAGGGCACGTTT
1 TTTAAAAGGATATTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACATTAGGGCACGCTT
* * * *
18087469 TTTTGAATTTCCAAACGCAAAATATTGCCTTATTTTTAAATT
66 TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
*
18087511 TTTAAAAGGATATTTAGCTATTTGGTCGAACAAGAAAAATCGAAACCTAGCACATTAGGGCACGC
1 TTTAAAAGGATATTTAGCTATTTGGTCGAAC--GAAAAATCGAAACCCAGCACATTAGGGCACGC
*
18087576 TTTCTCGAATTTCCAAACGCGAAACATTGCCTTATTTTGAAATT
64 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
18087620 TTTAAAAGGATATT
1 TTTAAAAGGATATT
18087634 AGTATGCGTA
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
107 29 0.26
109 81 0.74
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (107 bp):
TTTAAAAGGATATTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACATTAGGGCACGCTT
TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
Found at i:18087975 original size:12 final size:12
Alignment explanation
Indices: 18087934--18087994 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
18087924 TTAAAATTAT
18087934 TATATAAA-A-A
1 TATATAAATATA
*
18087944 TATATATATATA
1 TATATAAATATA
18087956 TATATAAATATA
1 TATATAAATATA
*
18087968 TA-AGTAAACATA
1 TATA-TAAATATA
* *
18087980 TACATACATATA
1 TATATAAATATA
18087992 TAT
1 TAT
18087995 GTATGTACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
10 7 0.17
11 2 0.05
12 31 0.76
13 1 0.02
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (12 bp):
TATATAAATATA
Found at i:18093163 original size:7 final size:7
Alignment explanation
Indices: 18093151--18093241 Score: 64
Period size: 7 Copynumber: 12.6 Consensus size: 7
18093141 AGTATTTTGA
18093151 AAAATAT
1 AAAATAT
18093158 AAAATAT
1 AAAATAT
18093165 AAAATAT
1 AAAATAT
18093172 AAAA-ATT
1 AAAATA-T
*
18093179 ATAATAT
1 AAAATAT
18093186 AAAATAT
1 AAAATAT
18093193 ATAAAT-T
1 A-AAATAT
18093200 AATAA-A-
1 AA-AATAT
*
18093206 AAATTAT
1 AAAATAT
*
18093213 GAAATTAT
1 -AAAATAT
18093221 AACAAATAT
1 -A-AAATAT
18093230 AAATATAT
1 AAA-ATAT
18093238 AAAA
1 AAAA
18093242 GAACTAAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
5 1 0.01
6 5 0.07
7 37 0.54
8 21 0.30
9 5 0.07
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (7 bp):
AAAATAT
Found at i:18093184 original size:28 final size:29
Alignment explanation
Indices: 18093152--18093241 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 29
18093142 GTATTTTGAA
18093152 AAATATAAAATATAAAATATAAAAATTAT
1 AAATATAAAATATAAAATATAAAAATTAT
18093181 -AATATAAAATATATAAATTAATAAAAAATTAT
1 AAATATAAAATATA-AAA-T-AT-AAAAATTAT
18093213 GAAATTATAACAAATATAAATATATAAAA
1 -AAA-TAT-A-AAATATAAA-ATATAAAA
18093242 GAACTAAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
28 13 0.25
29 3 0.06
30 1 0.02
31 2 0.04
32 9 0.18
34 6 0.12
35 5 0.10
36 4 0.08
37 8 0.16
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (29 bp):
AAATATAAAATATAAAATATAAAAATTAT
Found at i:18093190 original size:35 final size:37
Alignment explanation
Indices: 18093152--18093241 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 37
18093142 GTATTTTGAA
18093152 AAATATAAAATATAAAATATAAAAATTAT-AA-TAT-A
1 AAATATAAAATATAAAATA-AAAAATTATAAATTATAA
18093187 AAATATATAAAT-T--AATAAAAAATTATGAAATTATAA
1 AAATATA-AAATATAAAATAAAAAATTAT-AAATTATAA
18093223 CAAATATAAATATATAAAA
1 -AAATATAAA-ATATAAAA
18093242 GAACTAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
32 9 0.20
33 4 0.09
34 2 0.04
35 11 0.24
36 7 0.16
37 9 0.20
38 1 0.02
40 2 0.04
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (37 bp):
AAATATAAAATATAAAATAAAAAATTATAAATTATAA
Found at i:18093208 original size:19 final size:19
Alignment explanation
Indices: 18093160--18093230 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
18093150 AAAAATATAA
* *
18093160 AATATAAAATATAAAAATTAT
1 AATAAAAAATATATAAA-T-T
*
18093181 AATATAAAATATATAAATT
1 AATAAAAAATATATAAATT
18093200 AATAAAAAAT-TATGAAATT
1 AATAAAAAATATAT-AAATT
*
18093219 -ATAACAAATATA
1 AATAAAAAATATA
18093231 AATATATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
18 11 0.24
19 17 0.38
20 1 0.02
21 16 0.36
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (19 bp):
AATAAAAAATATATAAATT
Found at i:18118569 original size:31 final size:31
Alignment explanation
Indices: 18118527--18118604 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
18118517 CACTTGTACT
* *
18118527 AAAAATTAATTAAACCCTCGTAAAATAATTG
1 AAAAATAAATTAAACCCTCATAAAATAATTG
* * * *
18118558 AAAAATAAATTAAGCCCTCATAAATTTATTT
1 AAAAATAAATTAAACCCTCATAAAATAATTG
*
18118589 AAAAATCAATTAAACC
1 AAAAATAAATTAAACC
18118605 TTTTTCATGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.53, C:0.14, G:0.04, T:0.29
Consensus pattern (31 bp):
AAAAATAAATTAAACCCTCATAAAATAATTG
Found at i:18128254 original size:33 final size:33
Alignment explanation
Indices: 18128217--18128283 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
18128207 CAATGAAAGC
* *
18128217 AGCACTCATTCTTAGTTTAAACAAATACACAGT
1 AGCACTCATGCATAGTTTAAACAAATACACAGT
18128250 AGCACTCATGCATAGTTTAAACAAATACACAGT
1 AGCACTCATGCATAGTTTAAACAAATACACAGT
18128283 A
1 A
18128284 CATTTCCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (33 bp):
AGCACTCATGCATAGTTTAAACAAATACACAGT
Found at i:18136385 original size:22 final size:23
Alignment explanation
Indices: 18136337--18136390 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
18136327 GACCCGTTTT
* *
18136337 TTAAAATTAAAATTATATTTTTA
1 TTAAAATTAAAACTATATTGTTA
18136360 TTAAAATTAAAACTA-ATTGTTA
1 TTAAAATTAAAACTATATTGTTA
18136382 TTAAAATTA
1 TTAAAATTA
18136391 TATCAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
TTAAAATTAAAACTATATTGTTA
Found at i:18136399 original size:22 final size:22
Alignment explanation
Indices: 18136337--18136399 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
18136327 GACCCGTTTT
* * *
18136337 TTAAAATTAAAATTATATTTTTA
1 TTAAAATTAAAA-CAAATTGTTA
*
18136360 TTAAAATTAAAACTAATTGTTA
1 TTAAAATTAAAACAAATTGTTA
* *
18136382 TTAAAATTATATCAAATT
1 TTAAAATTAAAACAAATT
18136400 ATATTTTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 21 0.64
23 12 0.36
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (22 bp):
TTAAAATTAAAACAAATTGTTA
Found at i:18141793 original size:3 final size:3
Alignment explanation
Indices: 18141785--18141821 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
18141775 AGATGAAAAC
18141785 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18141822 GGGATATCCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18142161 original size:6 final size:6
Alignment explanation
Indices: 18142150--18142185 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
18142140 TTTACAATAT
18142150 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA
18142186 TATAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:18151771 original size:35 final size:35
Alignment explanation
Indices: 18151726--18151815 Score: 110
Period size: 35 Copynumber: 2.5 Consensus size: 35
18151716 ATGCATTTTG
*
18151726 TTATATATATATATACATACGTACATATT-TTTAAT
1 TTATTTATATATATACATACGTACATATTATTT-AT
* *
18151761 TTATTTATATATATACATACTTATATATTATTTAT
1 TTATTTATATATATACATACGTACATATTATTTAT
* *
18151796 ATACTTTATATATGTACATA
1 TTA-TTTATATATATACATA
18151816 TATGTGTTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
35 30 0.62
36 18 0.38
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (35 bp):
TTATTTATATATATACATACGTACATATTATTTAT
Found at i:18155245 original size:20 final size:20
Alignment explanation
Indices: 18155207--18155245 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18155197 TAAATTATGC
18155207 ATATTTATATGTTTGAATTAA
1 ATATTTATATG-TTGAATTAA
18155228 ATATTGTATATG-TGAATT
1 ATATT-TATATGTTGAATT
18155246 TGTGTAGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 5 0.29
22 6 0.35
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (20 bp):
ATATTTATATGTTGAATTAA
Found at i:18159826 original size:27 final size:27
Alignment explanation
Indices: 18159761--18159830 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
18159751 CAAATTTTAG
* *
18159761 ATTGTTGGATTTTGATATATGTCTTGA
1 ATTGTTGGATATTGATATATGTCTTAA
* *
18159788 ATTGGTTAGATATTGAT-TATGTTTTAA
1 ATT-GTTGGATATTGATATATGTCTTAA
18159815 CATTGTTGGATATTGA
1 -ATTGTTGGATATTGA
18159831 ATTGATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (27 bp):
ATTGTTGGATATTGATATATGTCTTAA
Found at i:18161232 original size:14 final size:14
Alignment explanation
Indices: 18161209--18161250 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
18161199 ACAGAAAAGT
*
18161209 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
18161223 AAATCATTTTACGG
1 AAAACATTTTACAG
18161237 AAAACATTTTACAG
1 AAAACATTTTACAG
18161251 CCAATCAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:18161234 original size:34 final size:35
Alignment explanation
Indices: 18161174--18161240 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
18161164 CAAACACCAG
* *
18161174 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
18161209 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
18161241 CATTTTACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:18175922 original size:22 final size:23
Alignment explanation
Indices: 18175897--18175944 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
18175887 AAATCATTTT
18175897 TAGTCT-TTTATAACCCATCGGC
1 TAGTCTCTTTATAACCCATCGGC
18175919 TAGTCTCCTTTATAACCCATCGGC
1 TAGTCT-CTTTATAACCCATCGGC
18175943 TA
1 TA
18175945 ACCCATGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.25
24 18 0.75
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.35
Consensus pattern (23 bp):
TAGTCTCTTTATAACCCATCGGC
Found at i:18179617 original size:26 final size:27
Alignment explanation
Indices: 18179573--18179623 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
18179563 CCAAATTTTC
*
18179573 TTTCTTTCTTTCCTTCCCT-TTTTCTT
1 TTTCTTTCTTTCCTCCCCTGTTTTCTT
18179599 TTTCTTTCATTT-CTCCCCTGTTTTC
1 TTTCTTTC-TTTCCTCCCCTGTTTTC
18179624 GTTTGCCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.02, C:0.31, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTCTTTCTTTCCTCCCCTGTTTTCTT
Found at i:18179855 original size:14 final size:13
Alignment explanation
Indices: 18179829--18179879 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
18179819 ATTTATTTGA
18179829 AATATAATAATAT
1 AATATAATAATAT
18179842 AATATAATTAATAT
1 AATATAA-TAATAT
* *
18179856 AAT-TTACAATAT
1 AATATAATAATAT
*
18179868 AATAAAATAATA
1 AATATAATAATA
18179880 ATATACTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 8 0.26
13 14 0.45
14 9 0.29
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:18180390 original size:14 final size:15
Alignment explanation
Indices: 18180359--18180391 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18180349 GTTGAGATAT
*
18180359 TAGTTTTTAAAAATA
1 TAGTTTATAAAAATA
18180374 TAGTTTATAAAAA-A
1 TAGTTTATAAAAATA
18180388 TAGT
1 TAGT
18180392 CCCTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (15 bp):
TAGTTTATAAAAATA
Found at i:18184923 original size:28 final size:28
Alignment explanation
Indices: 18184900--18185092 Score: 205
Period size: 28 Copynumber: 7.0 Consensus size: 28
18184890 ATTTTATAAA
*
18184900 TTTT-CCCTTATTTTTTAAATTTTACAG
1 TTTTGCCCTTATTTTTTAGATTTTACAG
* * *
18184927 TTTTGCCCTTATTTTTCAAATTTTACAA
1 TTTTGCCCTTATTTTTTAGATTTTACAG
* * *
18184955 TTTT-ACCTCTATTTTCTAGATTTTACAA
1 TTTTGCCCT-TATTTTTTAGATTTTACAG
* * * *
18184983 TTTTGCCCATGTTTTGTAGATTTTAAAG
1 TTTTGCCCTTATTTTTTAGATTTTACAG
*
18185011 TTTTGCCC-TATTTTTTAGATTTTGCAG
1 TTTTGCCCTTATTTTTTAGATTTTACAG
* *
18185038 TTTTG-CCTCTATTTTCTAGATTTTATAG
1 TTTTGCCCT-TATTTTTTAGATTTTACAG
*
18185066 TTTTACCCTTATTTTTTAGATTTTACA
1 TTTTGCCCTTATTTTTTAGATTTTACA
18185093 ATTTCCCCCT
Statistics
Matches: 138, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.01
27 27 0.20
28 104 0.75
29 5 0.04
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.55
Consensus pattern (28 bp):
TTTTGCCCTTATTTTTTAGATTTTACAG
Found at i:18185042 original size:55 final size:55
Alignment explanation
Indices: 18184878--18185092 Score: 226
Period size: 56 Copynumber: 3.9 Consensus size: 55
18184868 GTCGTATGTC
* * * *
18184878 CCCTATTTTCAGATTTTATAAATTTT-CCCTTATTTTTTAAATTTTACAGTTTTG
1 CCCTATTTTTAGATTTTACAAGTTTTACCCTTATTTTTTAGATTTTACAGTTTTG
* * *
18184932 CCCTTATTTTTCAAATTTTACAA-TTTTA-CCTCTATTTTCTAGATTTTACAATTTTG
1 CCC-TATTTTT-AGATTTTACAAGTTTTACCCT-TATTTTTTAGATTTTACAGTTTTG
* * *
18184988 CCCATGTTTTGTAGATTTTA-AAGTTTTGCCC-TATTTTTTAGATTTTGCAGTTTTG
1 CCC-TATTTT-TAGATTTTACAAGTTTTACCCTTATTTTTTAGATTTTACAGTTTTG
*
18185043 CCTCTATTTTCTAGATTTTA-TAGTTTTACCCTTATTTTTTAGATTTTACA
1 CC-CTATTTT-TAGATTTTACAAGTTTTACCCTTATTTTTTAGATTTTACA
18185093 ATTTCCCCCT
Statistics
Matches: 134, Mismatches: 18, Indels: 16
0.80 0.11 0.10
Matches are distributed among these distances:
54 3 0.02
55 61 0.46
56 67 0.50
57 3 0.02
ACGTcount: A:0.22, C:0.15, G:0.08, T:0.54
Consensus pattern (55 bp):
CCCTATTTTTAGATTTTACAAGTTTTACCCTTATTTTTTAGATTTTACAGTTTTG
Found at i:18185047 original size:83 final size:83
Alignment explanation
Indices: 18184880--18185090 Score: 264
Period size: 83 Copynumber: 2.5 Consensus size: 83
18184870 CGTATGTCCC
* *
18184880 CTATTTTC-AGATTTTATAAATTTTCCCTTATTTTTTAAATTTTACAGTTTTGCCCTTATTTTTC
1 CTATTTTCTAGATTTTA-AAATTTTCCCTTATTTTTTAGATTTTAAAGTTTTGCCCTTATTTTTC
18184944 AAATTTTACAATTTTACCT
65 AAATTTTACAATTTTACCT
* * * * *
18184963 CTATTTTCTAGATTTTACAATTTTGCCCATGTTTTGTAGATTTTAAAGTTTTGCCC-TATTTTTT
1 CTATTTTCTAGATTTTAAAATTTT-CCCTTATTTTTTAGATTTTAAAGTTTTGCCCTTATTTTTC
* * * *
18185027 AGATTTTGCAGTTTTGCCT
65 AAATTTTACAATTTTACCT
* *
18185046 CTATTTTCTAGATTTTATAGTTTTACCCTTATTTTTTAGATTTTA
1 CTATTTTCTAGATTTTAAAATTTT-CCCTTATTTTTTAGATTTTA
18185091 CAATTTCCCC
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
83 75 0.69
84 34 0.31
ACGTcount: A:0.22, C:0.14, G:0.08, T:0.55
Consensus pattern (83 bp):
CTATTTTCTAGATTTTAAAATTTTCCCTTATTTTTTAGATTTTAAAGTTTTGCCCTTATTTTTCA
AATTTTACAATTTTACCT
Found at i:18185103 original size:83 final size:82
Alignment explanation
Indices: 18184880--18185114 Score: 249
Period size: 83 Copynumber: 2.8 Consensus size: 82
18184870 CGTATGTCCC
* * * *
18184880 CTATTTTC-AGATTTTATAAATTTTCCCTTATTTTTTAAATTTTACAGTTTTGCCCTTATTTTTC
1 CTATTTTCTAGATTTTAT-AATTTTCCCTTATTTTTTAGATTTTACA-ATTTCCCCCTATTTTTC
18184944 AAATTTTACAATTTTACCT
64 AAATTTTACAATTTTACCT
* * * * ** *
18184963 CTATTTTCTAGATTTTACAATTTTGCCCATGTTTTGTAGATTTTA-AAGTTTTGCCCTATTTTTT
1 CTATTTTCTAGATTTTATAATTTT-CCCTTATTTTTTAGATTTTACAA-TTTCCCCCTATTTTTC
* * * *
18185027 AGATTTTGCAGTTTTGCCT
64 AAATTTTACAATTTTACCT
* * *
18185046 CTATTTTCTAGATTTTATAGTTTTACCCTTATTTTTTAGATTTTACAATTTCCCCCTACTTTACA
1 CTATTTTCTAGATTTTATAATTTT-CCCTTATTTTTTAGATTTTACAATTTCCCCCTATTTTTCA
18185111 AATT
65 AATT
18185115 ACAACTTTGC
Statistics
Matches: 122, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
83 96 0.79
84 26 0.21
ACGTcount: A:0.23, C:0.16, G:0.07, T:0.54
Consensus pattern (82 bp):
CTATTTTCTAGATTTTATAATTTTCCCTTATTTTTTAGATTTTACAATTTCCCCCTATTTTTCAA
ATTTTACAATTTTACCT
Found at i:18185830 original size:138 final size:138
Alignment explanation
Indices: 18185581--18185871 Score: 395
Period size: 138 Copynumber: 2.1 Consensus size: 138
18185571 AAATTTTTTG
* * ** *
18185581 TGCACCCACAACCCAGTGGCAAT-TTTCATCCTTTAACTGCAAATATGTTGTACATCTACAACCC
1 TGCACCCACAACCTAATGGTGATGTTT-ATCCTTTAACTGCAAATATGTTGTACATCCACAACCC
* *
18185645 ATCAACAACTTTTACCTGCAAATATGTTGTGCATCTACAGCCCAGTGGTAGATTTTATCTACGAT
65 ATCAACAACTTTTACCTGCAAATATATTGTGCATCTACAGCCCAGTGGCAGATTTTATCTACGAT
18185710 ATTTTGCTA
130 ATTTTGCTA
* * *
18185719 TGCACCCACAGCCTAATGGTGATGTTTATCCTTTAATTGCAAATATGTTTTACATCCACAACCCA
1 TGCACCCACAACCTAATGGTGATGTTTATCCTTTAACTGCAAATATGTTGTACATCCACAACCCA
** * * * **
18185784 TCGGCAGCTTTTACCTGCAAATATATTGTGCATCTACTGCCTAGTGGCAGATTTTATCTGTGATA
66 TCAACAACTTTTACCTGCAAATATATTGTGCATCTACAGCCCAGTGGCAGATTTTATCTACGATA
*
18185849 TTTTGCTG
131 TTTTGCTA
*
18185857 TGTACCCACAACCTA
1 TGCACCCACAACCTA
18185872 GTGGCAGGTT
Statistics
Matches: 132, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
138 129 0.98
139 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (138 bp):
TGCACCCACAACCTAATGGTGATGTTTATCCTTTAACTGCAAATATGTTGTACATCCACAACCCA
TCAACAACTTTTACCTGCAAATATATTGTGCATCTACAGCCCAGTGGCAGATTTTATCTACGATA
TTTTGCTA
Found at i:18185876 original size:45 final size:45
Alignment explanation
Indices: 18185823--18185930 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
18185813 GCATCTACTG
* *
18185823 CCTAGTGGCAGATTTTATCTGTG-ATATTTTGCTGTGTACCCACAA
1 CCTAGTGGCAGATTTTATCTATGAAT-TTTTACTGTGTACCCACAA
* * * * *
18185868 CCTAGTGGCAGGTTTCATCTATGAATTTTTACTTTGTATCCACAG
1 CCTAGTGGCAGATTTTATCTATGAATTTTTACTGTGTACCCACAA
*
18185913 CCTAGTGGAAGATTTTAT
1 CCTAGTGGCAGATTTTAT
18185931 TTGCAAAACT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 50 0.96
46 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (45 bp):
CCTAGTGGCAGATTTTATCTATGAATTTTTACTGTGTACCCACAA
Found at i:18186995 original size:87 final size:86
Alignment explanation
Indices: 18186850--18187013 Score: 231
Period size: 87 Copynumber: 1.9 Consensus size: 86
18186840 TACATGCATA
* * * *
18186850 AGGTTGACTTCTTTCTCTTAATGAATTCATATCCTAAAGTTTTGGTGGTATTATTGAGACGGACT
1 AGGTTGACTTCTTACTCTTAATGAATTCATATCCTAAAGTTTGGGTGGTACTATTGAGACGAACT
18186915 TGATGAATTCATCAACATGTG
66 TGATGAATTCATCAACATGTG
* * * *
18186936 AGGTTGAATTTCTTACTCTTAATGAGTTCATATTCTAGAA-TTTGGGTGGTCCTATTGAGACGAA
1 AGGTTG-ACTTCTTACTCTTAATGAATTCATATCCTA-AAGTTTGGGTGGTACTATTGAGACGAA
18187000 CTTGATGAATTCAT
64 CTTGATGAATTCAT
18187014 TGAACTTAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 6 0.09
87 60 0.88
88 2 0.03
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (86 bp):
AGGTTGACTTCTTACTCTTAATGAATTCATATCCTAAAGTTTGGGTGGTACTATTGAGACGAACT
TGATGAATTCATCAACATGTG
Found at i:18188156 original size:18 final size:20
Alignment explanation
Indices: 18188114--18188161 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
18188104 TTTATGAAGT
*
18188114 TTTTAAAATTATTTTTAATA
1 TTTTAAAATTATTTTTAAGA
18188134 TTTTAAAATTA-TTTT-AGA
1 TTTTAAAATTATTTTTAAGA
*
18188152 TTTTATAATT
1 TTTTAAAATT
18188162 TTACTTAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 11 0.42
19 4 0.15
20 11 0.42
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTAAAATTATTTTTAAGA
Found at i:18188329 original size:15 final size:15
Alignment explanation
Indices: 18188311--18188346 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
18188301 GTTAATAATA
18188311 AAAATGTATAGTTCT
1 AAAATGTATAGTTCT
18188326 AAAATGTATAGTTCT
1 AAAATGTATAGTTCT
18188341 AAAATG
1 AAAATG
18188347 GTAAGCCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (15 bp):
AAAATGTATAGTTCT
Found at i:18189137 original size:25 final size:25
Alignment explanation
Indices: 18189109--18189187 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
18189099 CTCGTTTGGT
* * *
18189109 CTTACCGTTACTCAGCTCGCATGAG
1 CTTACCATTACTCAGCTCGAAAGAG
* **
18189134 CTTATCATTTTTCAGCTCGAAAGAG
1 CTTACCATTACTCAGCTCGAAAGAG
*
18189159 CTTACCATTA--CAGCTCGTAAGAG
1 CTTACCATTACTCAGCTCGAAAGAG
*
18189182 CATACC
1 CTTACC
18189188 GATTCAAAGC
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
23 17 0.39
25 27 0.61
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (25 bp):
CTTACCATTACTCAGCTCGAAAGAG
Found at i:18189180 original size:23 final size:25
Alignment explanation
Indices: 18189146--18189211 Score: 82
Period size: 23 Copynumber: 2.7 Consensus size: 25
18189136 TATCATTTTT
* *
18189146 CAGCTCGAAAGAGCTTACC-ATT-A
1 CAGCTCGTAAGAGCATACCGATTCA
18189169 CAGCTCGTAAGAGCATACCGATTCA
1 CAGCTCGTAAGAGCATACCGATTCA
* *
18189194 AAGCTCGTATGAGCATAC
1 CAGCTCGTAAGAGCATAC
18189212 ATGTACAGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 17 0.46
24 3 0.08
25 17 0.46
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (25 bp):
CAGCTCGTAAGAGCATACCGATTCA
Found at i:18192096 original size:36 final size:38
Alignment explanation
Indices: 18192023--18192115 Score: 106
Period size: 36 Copynumber: 2.6 Consensus size: 38
18192013 TAGATCTTCC
* * *
18192023 CAAG-CTCCTGAAAGAGATAT-TAGGTATTCTTAGTCT
1 CAAGACTCCTGAATGAGATATCTAGGTATTCTCAATCT
*
18192059 CAA-ACTCCTGAATGAGATATCTA-GTCTTCTCAATCT
1 CAAGACTCCTGAATGAGATATCTAGGTATTCTCAATCT
*
18192095 CAAGA-TCCTGAATAAGATATC
1 CAAGACTCCTGAATGAGATATC
18192116 GAGTTTTCCC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
36 46 0.94
37 3 0.06
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (38 bp):
CAAGACTCCTGAATGAGATATCTAGGTATTCTCAATCT
Found at i:18197630 original size:16 final size:17
Alignment explanation
Indices: 18197609--18197646 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
18197599 TAGATGAAAA
18197609 GGAAAG-AAAGGAAAGG
1 GGAAAGAAAAGGAAAGG
18197625 GGAAAGAAAAGGAAAGG
1 GGAAAGAAAAGGAAAGG
18197642 GGAAA
1 GGAAA
18197647 ACTAGGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (17 bp):
GGAAAGAAAAGGAAAGG
Found at i:18198770 original size:23 final size:23
Alignment explanation
Indices: 18198743--18198828 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 23
18198733 GTTTTGCCGA
*
18198743 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
**
18198766 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTTATGTGTCGTATT
* **
18198787 TCAGGCACCTTGTGTGT--TGCT
1 TCAGGCACCTTATGTGTCGTATT
*
18198808 TCAGGCA-CTTATGTGCCGTAT
1 TCAGGCACCTTATGTGTCGTAT
18198829 ATTGATTAGG
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.02
20 7 0.14
21 23 0.46
22 1 0.02
23 18 0.36
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:18206759 original size:47 final size:47
Alignment explanation
Indices: 18206693--18207123 Score: 700
Period size: 47 Copynumber: 9.1 Consensus size: 47
18206683 GAAATGATAG
*
18206693 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18206740 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
18206789 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
18206836 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18206883 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18206930 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
18206977 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
18207026 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
18207073 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18207120 TAAG
1 TAAG
18207124 TCCCGAAGGG
Statistics
Matches: 363, Mismatches: 17, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
47 270 0.74
49 93 0.26
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:18206972 original size:143 final size:141
Alignment explanation
Indices: 18206693--18207123 Score: 700
Period size: 143 Copynumber: 3.0 Consensus size: 141
18206683 GAAATGATAG
*
18206693 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
18206758 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
18206823 TGTATATACGTGA
129 TGTATATATGTGA
*
18206836 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
18206901 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
18206966 TATATATGTGA
131 TATATATGTGA
* *
18206977 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* * * * * * * *
18207042 ATGTGATGAATGTGAAAGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
64 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
18207107 TGTATAAATGTGA
129 TGTATATATGTGA
18207120 TAAG
1 TAAG
18207124 TCCCGAAGGG
Statistics
Matches: 270, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
141 91 0.34
143 179 0.66
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (141 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGA
Found at i:18207035 original size:190 final size:189
Alignment explanation
Indices: 18206693--18207123 Score: 702
Period size: 190 Copynumber: 2.3 Consensus size: 189
18206683 GAAATGATAG
*
18206693 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
18206758 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
18206823 TGTATATACGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGA
130 TGTATATACGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTATATATATGTGA
18206883 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
18206948 GTGATGAATGTGAAAGTG-TATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGT
66 GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * *
18207012 GTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
131 G--TATATACGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTATATATATGTGA
* * * * * * * *
18207073 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
18207124 TCCCGAAGGG
Statistics
Matches: 225, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
188 46 0.20
190 179 0.80
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (189 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTATATACGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTATATATATGTGA
Found at i:18207298 original size:37 final size:37
Alignment explanation
Indices: 18207242--18207320 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18207232 CCGAGCTCTA
* * *
18207242 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
18207279 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
18207316 AAGAC
1 AAGAC
18207321 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:18209113 original size:43 final size:43
Alignment explanation
Indices: 18209065--18209167 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
18209055 TTGGTTTTCA
*
18209065 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGGGTTCACGGTTGTGAGATTG
18209108 GCACTAAGTGTGCGGGCAATAAGGGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGGGTTCACGGTTGTGAGATTG
18209151 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
18209168 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.22, C:0.16, G:0.37, T:0.25
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGGGTTCACGGTTGTGAGATTG
Found at i:18209182 original size:29 final size:29
Alignment explanation
Indices: 18209149--18209222 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
18209139 GTTGTGAGAT
* * *
18209149 TGGCACTAAGTGTGCGGGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTAAAATACA
*
18209178 TGGCACTAAGTGTGCGAGTTTAAAATACA
1 TGGCACTAAGTGTGCGAGCTTAAAATACA
18209207 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18209223 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTAAAATACA
Found at i:18209695 original size:40 final size:40
Alignment explanation
Indices: 18209533--18209887 Score: 303
Period size: 40 Copynumber: 8.9 Consensus size: 40
18209523 TCGAATGATG
** *
18209533 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** *
18209573 TCCGGACTAAGAT-CCGAAG-GCATTTGTGC--GAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGATA-T-A
** * * *
18209612 TTCCGGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TATA
*
18209652 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
**
18209692 TCCGGGCTAAGTTTCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
18209732 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* **
18209772 TCCGGGCTAAGTTCCGAAGAGCATTTGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
18209812 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
18209852 TCCGGGCTAGGTCCCGAAGAGTAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
18209888 CGTGTATTCG
Statistics
Matches: 261, Mismatches: 43, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
37 1 0.00
38 4 0.02
39 27 0.10
40 205 0.79
41 22 0.08
42 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:18213355 original size:47 final size:47
Alignment explanation
Indices: 18213289--18213998 Score: 1142
Period size: 47 Copynumber: 15.1 Consensus size: 47
18213279 GAAATGATAG
* *
18213289 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
*
18213336 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
18213385 TAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
18213431 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-GTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
*
18213477 TAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
*
18213523 TAAGGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
18213570 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
18213617 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
18213664 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
18213711 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
18213758 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
* *
18213804 TAAGGCCTAATGGCCGATGTGATGTATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
* *
18213853 TAGGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
* * *
18213901 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
* * * * * * * * *
18213948 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
18213995 TAAG
1 TAAG
18213999 TCCCGAAGGG
Statistics
Matches: 634, Mismatches: 20, Indels: 18
0.94 0.03 0.03
Matches are distributed among these distances:
45 36 0.06
46 86 0.14
47 376 0.59
48 69 0.11
49 67 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
Found at i:18214173 original size:37 final size:37
Alignment explanation
Indices: 18214117--18214195 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18214107 CCGAGCTCTA
* * *
18214117 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
18214154 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
18214191 AAGAC
1 AAGAC
18214196 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:18218240 original size:31 final size:32
Alignment explanation
Indices: 18218171--18218240 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
18218161 ATTTTAAAAT
18218171 AAAATAACACAAATGTGTTAAAATAATTAATTA
1 AAAATAACACAAATGTGTT-AAATAATTAATTA
*
18218204 AAAATAATACAAATGTGTT-AAT-ATGTAATTA
1 AAAATAACACAAATGTGTTAAATAAT-TAATTA
*
18218235 CAAATA
1 AAAATA
18218241 TTTAATGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 2 0.06
31 14 0.41
33 18 0.53
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (32 bp):
AAAATAACACAAATGTGTTAAATAATTAATTA
Found at i:18230931 original size:18 final size:18
Alignment explanation
Indices: 18230910--18230944 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18230900 CTGGGGTAGG
18230910 TTTGGG-TTTCAGTTTGGT
1 TTTGGGCTTT-AGTTTGGT
18230928 TTTGGGCTTTAGTTTGG
1 TTTGGGCTTTAGTTTGG
18230945 GTACTAGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.06, C:0.06, G:0.34, T:0.54
Consensus pattern (18 bp):
TTTGGGCTTTAGTTTGGT
Found at i:18237823 original size:109 final size:109
Alignment explanation
Indices: 18237632--18237831 Score: 382
Period size: 109 Copynumber: 1.8 Consensus size: 109
18237622 TTTCTAATTG
*
18237632 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCAAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
*
18237697 CGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTATAAAATA
66 CGTTCAACCAAATAGCTAAACATCCTTTCAAAAATTATAAAATA
18237741 AGGCAATGTTTTGCGTTTGGAAATTCAAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCAAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
18237806 CGTTCAACCAAATAGCTAAACATCCT
66 CGTTCAACCAAATAGCTAAACATCCT
18237832 CTTGAATTTT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 89 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (109 bp):
AGGCAATGTTTTGCGTTTGGAAATTCAAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CGTTCAACCAAATAGCTAAACATCCTTTCAAAAATTATAAAATA
Found at i:18249796 original size:125 final size:125
Alignment explanation
Indices: 18249587--18250599 Score: 1765
Period size: 125 Copynumber: 8.1 Consensus size: 125
18249577 CAATTCAAAC
*
18249587 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
*
18249652 CAGTGGAATAAATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
*
18249712 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* * *
18249777 CAGTGAAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCAACATTACAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
18249837 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* *
18249902 CAGTGAAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTACAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* *
18249962 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAATAGTGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
18250027 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
*
18250087 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCTAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
*
18250152 CAGTGGAATAAATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* * * *
18250212 GATTAAAGCCACATCGATGAATCTTGATTAAAGCTACAACAACAAATCTTACGCCCCAAACGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* * *
18250277 TAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATCGTAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
*
18250337 TATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* * *
18250402 CAGTGGAACAGATTAAAACCAAATTGGTGAATCTTGTTTCTCCGACATCGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* * **
18250462 GATTAAAGCCACATCGTTGAATCTTGATTAAAGTTACAACAGTAAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* *
18250527 CAGTGGAACAGATTAAAACCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
18250587 GATTAAAGCCACA
1 GATTAAAGCCACA
18250600 ATGACGAAAC
Statistics
Matches: 850, Mismatches: 38, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
125 850 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (125 bp):
GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
Found at i:18249883 original size:25 final size:25
Alignment explanation
Indices: 18249837--18249886 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
18249827 CAGTTAAAAA
* * *
18249837 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
18249862 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
18249887 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:18250133 original size:25 final size:25
Alignment explanation
Indices: 18250087--18250136 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
18250077 CAGTTAAAAA
* * *
18250087 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
18250112 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
18250137 ACGCCCTAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:18253098 original size:108 final size:108
Alignment explanation
Indices: 18252909--18253107 Score: 371
Period size: 108 Copynumber: 1.8 Consensus size: 108
18252899 TTTCTAATTG
*
18252909 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
*
18252974 CGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTATAAAAA
66 CGTTCAACCAAATAGCTAAACATCCTTTCAAAAATTATAAAAA
*
18253017 AGGCAATATTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
18253082 CGTTCAACCAAATAGCTAAACATCCT
66 CGTTCAACCAAATAGCTAAACATCCT
18253108 CTTGAATTTT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 88 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (108 bp):
AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CGTTCAACCAAATAGCTAAACATCCTTTCAAAAATTATAAAAA
Found at i:18257656 original size:10 final size:10
Alignment explanation
Indices: 18257613--18257671 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
18257603 CAAAATAGTA
18257613 AAAAAACAAT
1 AAAAAACAAT
* **
18257623 AAGAAAATAGC
1 AA-AAAACAAT
* *
18257634 AAAAAATAGT
1 AAAAAACAAT
18257644 AAAAAACAAT
1 AAAAAACAAT
18257654 --AAAACAAT
1 AAAAAACAAT
18257662 AAAAAACAAT
1 AAAAAACAAT
18257672 TTTTTTTACA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
8 8 0.20
10 25 0.62
11 7 0.17
ACGTcount: A:0.75, C:0.08, G:0.05, T:0.12
Consensus pattern (10 bp):
AAAAAACAAT
Found at i:18267026 original size:18 final size:18
Alignment explanation
Indices: 18267005--18267049 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
18266995 CATTCTTCTC
18267005 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTTCTCCTT
18267023 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTTCTCCTT
18267041 CCCTTTCCC
1 CCCTTTCCC
18267050 ATTTCGAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (18 bp):
CCCTTTCCCCTTCTCCTT
Found at i:18268232 original size:14 final size:14
Alignment explanation
Indices: 18268209--18268248 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
18268199 ACAGAAATGT
*
18268209 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
18268223 AAATCATTTTACGG
1 AAAACATTTTACAG
18268237 AAAACATTTTAC
1 AAAACATTTTAC
18268249 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:18269319 original size:22 final size:23
Alignment explanation
Indices: 18269294--18269339 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
18269284 TTTACTTTTT
18269294 TATATAAATAAA-AAAATTAACA
1 TATATAAATAAATAAAATTAACA
18269316 TATATAAATAAATAAAATTAACA
1 TATATAAATAAATAAAATTAACA
18269339 T
1 T
18269340 TTATTATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (23 bp):
TATATAAATAAATAAAATTAACA
Found at i:18276971 original size:16 final size:17
Alignment explanation
Indices: 18276950--18276981 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18276940 AAATATGCAA
18276950 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
18276966 TCACATAACTTCATAT
1 TCACATAACTTCATAT
18276982 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:18277201 original size:43 final size:43
Alignment explanation
Indices: 18277140--18277310 Score: 208
Period size: 43 Copynumber: 4.0 Consensus size: 43
18277130 AAGACTCGTA
*
18277140 CAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCCAATGTCCCAGACGTGGTCTTACACGTAATCACATAT
* *
18277183 CAATGCCACTGTCCCAGACAG-GGTCTTACACG-AATCAAATA-
1 CAATGCCAATGTCCCAGAC-GTGGTCTTACACGTAATCACATAT
* * *
18277224 CGATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGT
1 CAATGCCAATGTCCCAGACGTGGTCTTACACGTAATCACATA-T
* *
18277267 CGATGCCAACGTCCCAGACGTGGTCTTACACGATAA-CACATAT
1 CAATGCCAATGTCCCAGACGTGGTCTTACACG-TAATCACATAT
18277310 C
1 C
18277311 GGAAATCCTA
Statistics
Matches: 111, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
41 29 0.26
42 13 0.12
43 64 0.58
44 5 0.05
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACGTGGTCTTACACGTAATCACATAT
Found at i:18277283 original size:84 final size:84
Alignment explanation
Indices: 18277142--18277299 Score: 232
Period size: 84 Copynumber: 1.9 Consensus size: 84
18277132 GACTCGTACA
* * *
18277142 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCACATATCAATGCCACTGTCCCAGACAG-GG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCACTGTCCCAGAC-GTGG
18277206 TCTTACACGAATCAAATACG
65 TCTTACACGAATCAAATACG
*
18277226 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCAAC-GTCCCAGACGTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACATA-TCAATGCC-ACTGTCCCAGACGTG
18277289 GTCTTACACGA
64 GTCTTACACGA
18277300 TAACACATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
83 2 0.03
84 63 0.94
85 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (84 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCACTGTCCCAGACGTGGT
CTTACACGAATCAAATACG
Found at i:18284307 original size:16 final size:17
Alignment explanation
Indices: 18284286--18284317 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18284276 AAATATGCAA
18284286 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
18284302 TCACATAACTTCATAT
1 TCACATAACTTCATAT
18284318 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:18284616 original size:83 final size:84
Alignment explanation
Indices: 18284477--18284633 Score: 205
Period size: 83 Copynumber: 1.9 Consensus size: 84
18284467 GACTCGTACA
* * *
18284477 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCAATGCCACTGTCCCAG-CAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCACTGTCCCAGAC-GTGG
18284540 TCTTACACGAATCAAATACG
65 TCTTACACGAATCAAATACG
* * *
18284560 ATGCCAATGTCCTAGACATGGTCTTACACGTAAACACA-AGTCGATGCCAAC-GTCCCAGACGTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCAATGCC-ACTGTCCCAGACGTG
18284623 GTCTTACACGA
64 GTCTTACACGA
18284634 TAACACATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
82 1 0.02
83 48 0.75
84 15 0.23
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCACTGTCCCAGACGTGGT
CTTACACGAATCAAATACG
Found at i:18284625 original size:43 final size:41
Alignment explanation
Indices: 18284477--18284645 Score: 166
Period size: 43 Copynumber: 4.0 Consensus size: 41
18284467 GACTCGTACA
* * *
18284477 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAACACA-ATCG
*
18284520 ATGCC-ACTGTCCCAG-CAG-GGTCTTACACGAATCA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAACACAAT-CG
* * *
18284560 ATGCCAATGTCCTAGACATGGTCTTACACGTAAACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAACACAA-TCG
18284603 ATGCCAACGTCCCAGACGTGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA-AACACA-ATCG
18284646 GAAATCCTAT
Statistics
Matches: 106, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
39 2 0.02
40 13 0.12
41 18 0.17
42 18 0.17
43 53 0.50
44 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAACACAATCG
Found at i:18291903 original size:43 final size:43
Alignment explanation
Indices: 18291835--18292004 Score: 190
Period size: 43 Copynumber: 4.0 Consensus size: 43
18291825 AAGACTCGTA
*
18291835 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
* *
18291878 CAATGCC-ACTGTCCCAAACAG-GGTCTTACACG-AATCAAATA-
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATAT
* * * *
18291919 CGATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATA-T
*
18291962 CGATGCCAACGTCCCAGACGTGGTCTTACACGATAA-CACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACG-TAATCACATAT
18292005 TGGAAACCCT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
41 26 0.24
42 16 0.15
43 60 0.56
44 5 0.05
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
Found at i:18291987 original size:84 final size:84
Alignment explanation
Indices: 18291837--18291994 Score: 214
Period size: 84 Copynumber: 1.9 Consensus size: 84
18291827 GACTCGTACA
* * *
18291837 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCAATGCCACTGTCCCAAACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCACTGTCCCAAACAGGGT
18291902 CTTACACGAATCAAATACG
66 CTTACACGAATCAAATACG
* * *
18291921 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCAAC-GTCCCAGAC-GT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCAATGCC-ACTGTCCCAAACAG-
18291983 GGTCTTACACGA
63 GGTCTTACACGA
18291995 TAACACATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
83 2 0.03
84 61 0.94
85 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCACTGTCCCAAACAGGGT
CTTACACGAATCAAATACG
Found at i:18303721 original size:40 final size:40
Alignment explanation
Indices: 18303666--18304012 Score: 604
Period size: 40 Copynumber: 8.7 Consensus size: 40
18303656 AGCATTGGAT
18303666 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
18303706 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
18303746 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
18303786 TATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
18303826 TATATCCGGGCTAAGACCCGAAGGCAACTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
18303866 TATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
18303906 TATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
18303946 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
18303986 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
18304013 ATGTGTTTGC
Statistics
Matches: 295, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 295 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:18315324 original size:89 final size:89
Alignment explanation
Indices: 18315173--18315757 Score: 839
Period size: 89 Copynumber: 6.6 Consensus size: 89
18315163 GCTATCTTTA
* * * * * *
18315173 ATCTGCTTTCTTCGATCTACTTCGCCACTAGTATGGGAAGACAAGATCTGCTGTCTTTGATCTAC
1 ATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTAC
*
18315238 TTCACGCCAATA-AGTGAAGACAAG
66 TTCACGCCAGTACA-TGAAGACAAG
* * * *
18315262 ATCTGTTCTCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTCGATCTAC
1 ATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTAC
* *
18315327 TTCATGCCAGTATATGAAGACAAG
66 TTCACGCCAGTACATGAAGACAAG
* *
18315351 ATCTATTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTAC
1 ATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTAC
18315416 TTCACGCCAGTACATGAAGACAAG
66 TTCACGCCAGTACATGAAGACAAG
18315440 ATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTAC
1 ATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTAC
*
18315505 TTCACCCCAGTACATGAAGACAAG
66 TTCACGCCAGTACATGAAGACAAG
* * *
18315529 ATCTGTTTTCTTCGATCTACTCCACCACTAGTATGGGGAGACAAGATCTGATATCTTTGATCTAC
1 ATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTAC
*
18315594 TTCACGCCAGTACGTGAAGACAAG
66 TTCACGCCAGTACATGAAGACAAG
* * * * * * * *
18315618 ATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATTTGTTATTTTTGATCTAC
1 ATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTAC
*
18315683 TTCACGCTAGTACATGAAGACAAG
66 TTCACGCCAGTACATGAAGACAAG
* * * * * *
18315707 ATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGG
1 ATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGG
18315758 GTCAAAGATA
Statistics
Matches: 454, Mismatches: 41, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
89 453 1.00
90 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (89 bp):
ATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTAC
TTCACGCCAGTACATGAAGACAAG
Found at i:18316041 original size:44 final size:46
Alignment explanation
Indices: 18315978--18316075 Score: 141
Period size: 44 Copynumber: 2.2 Consensus size: 46
18315968 CAGTGGAATC
* *
18315978 GATC-GAAGAAAGCAGATCTTGTCTTCATGTATTGGT-GTGAAGTA
1 GATCGGAAGAAAGCAGATCTTGTCTTCATATACTGGTGGTGAAGTA
*
18316022 GATCGGAA-AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTA
1 GATCGGAAGAAAGCAGATCTTGTCTTCATATACTGGTGGTGAAGTA
18316067 GATC-GAAGA
1 GATCGGAAGA
18316076 TACAAGCCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
44 32 0.67
45 16 0.33
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.29
Consensus pattern (46 bp):
GATCGGAAGAAAGCAGATCTTGTCTTCATATACTGGTGGTGAAGTA
Found at i:18317639 original size:21 final size:21
Alignment explanation
Indices: 18317613--18317653 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
18317603 CTATTGTTGT
*
18317613 TTTTTTTATTTGTTTTATTTG
1 TTTTTTTATTTGGTTTATTTG
18317634 TTTTTTTATTTGGTTTATTT
1 TTTTTTTATTTGGTTTATTT
18317654 TTTGTTTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (21 bp):
TTTTTTTATTTGGTTTATTTG
Found at i:18321694 original size:25 final size:25
Alignment explanation
Indices: 18321664--18321719 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
18321654 TTAAAGGGGC
* *
18321664 AATCAAATCAATTTGATTAAAATAA
1 AATCAAATCAATTAGAATAAAATAA
** *
18321689 AATCAAATTGATTAGAATCAAATAA
1 AATCAAATCAATTAGAATAAAATAA
18321714 AATCAA
1 AATCAA
18321720 GATATATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.09, G:0.05, T:0.29
Consensus pattern (25 bp):
AATCAAATCAATTAGAATAAAATAA
Found at i:18321711 original size:20 final size:20
Alignment explanation
Indices: 18321664--18321716 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
18321654 TTAAAGGGGC
*
18321664 AATCAAATCAATTTGATTAA
1 AATCAAATCAAATTGATTAA
* *
18321684 AATAAAATCAAATTGATTAG
1 AATCAAATCAAATTGATTAA
*
18321704 AATCAAATAAAAT
1 AATCAAATCAAAT
18321717 CAAGATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.57, C:0.08, G:0.06, T:0.30
Consensus pattern (20 bp):
AATCAAATCAAATTGATTAA
Found at i:18325425 original size:81 final size:81
Alignment explanation
Indices: 18325222--18325489 Score: 383
Period size: 82 Copynumber: 3.2 Consensus size: 81
18325212 AGTCTTCTTG
* **
18325222 TTTGGAAACAAAATCAAAATCGAATAAAATATGTTAAACGATTGGAATAAATCCTGAAACAGATT
1 TTTGGAAACAAAATTAAAATCGAATAAAATATGTTAAACGGCTGGAATAAATCCTGAAACAGATT
*
18325287 ATTCAATTTAATTCTA
66 ATTCAATTTAATTTTA
* **
18325303 TTTTGGAAACAAAATTAAAATCAAATAAAATATGTTAAACGGCTGGAATAAATCCCAAAACAGAT
1 -TTTGGAAACAAAATTAAAATCGAATAAAATATGTTAAACGGCTGGAATAAATCCTGAAACAGAT
18325368 TATTCAATTTAATTTTA
65 TATTCAATTTAATTTTA
* *
18325385 TTTGGAAACAAAATTAAAATCGAATAAAATCTGTTAAACGGCAGGAATAAATCCTGAAACAGATT
1 TTTGGAAACAAAATTAAAATCGAATAAAATATGTTAAACGGCTGGAATAAATCCTGAAACAGA--
*
18325450 TTATTTAATTTTAATTTCTCA
64 TTATTCAA-TTTAATTT-T-A
*
18325471 TTTGGAAACAAAATAAAAA
1 TTTGGAAACAAAATTAAAA
18325490 AATGGAATCA
Statistics
Matches: 167, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
81 58 0.35
82 74 0.44
83 7 0.04
84 8 0.05
85 1 0.01
86 19 0.11
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (81 bp):
TTTGGAAACAAAATTAAAATCGAATAAAATATGTTAAACGGCTGGAATAAATCCTGAAACAGATT
ATTCAATTTAATTTTA
Found at i:18325520 original size:88 final size:81
Alignment explanation
Indices: 18325159--18325545 Score: 375
Period size: 82 Copynumber: 4.6 Consensus size: 81
18325149 ACAAAATCAA
* ** * ** *
18325159 AATAAAATCTGTTAAGCGACGAGAATAAATCCCGAAACATAATTATTTGA-TTAAGTCTTCTTGT
1 AATAAAATCTGTTAAACGGTG-GAATAAATCCCGAAACA-GATTATTCAATTTAA-T-TTC-TAT
*
18325223 TTGGAAACAAAATCAAAATCG
61 TTGGAAACAAAATTAAAATCG
* * *
18325244 AATAAAATATGTTAAACGATTGGAATAAATCCTGAAACAGATTATTCAATTTAA-TTCTATTTTG
1 AATAAAATCTGTTAAACG-GTGGAATAAATCCCGAAACAGATTATTCAATTTAATTTCTA-TTTG
*
18325308 GAAACAAAATTAAAATCA
64 GAAACAAAATTAAAATCG
* *
18325326 AATAAAATATGTTAAACGGCTGGAATAAATCCCAAAACAGATTATTCAATTTAATTT-TATTTGG
1 AATAAAATCTGTTAAACGG-TGGAATAAATCCCGAAACAGATTATTCAATTTAATTTCTATTTGG
18325390 AAACAAAATTAAAATCG
65 AAACAAAATTAAAATCG
* * *
18325407 AATAAAATCTGTTAAACGGCAGGAATAAATCCTGAAACAGATTTTATTTAATTTTAATTTCTCAT
1 AATAAAATCTGTTAAACGG-TGGAATAAATCCCGAAACAGA--TTATTCAA-TTTAATTTCT-AT
* *
18325472 TTGGAAACAAAATAAAAAAATGG
61 TTGGAAACAAAAT--TAAAATCG
* * * * *
18325495 AATCAAATCTGATGATCGGTGGGAATAAATCCCGAAATAGATATTATTCAA
1 AATAAAATCTGTTAAACGGT-GGAATAAATCCCGAAACAG--ATTATTCAA
18325546 AGATAGAATA
Statistics
Matches: 257, Mismatches: 30, Indels: 27
0.82 0.10 0.09
Matches are distributed among these distances:
81 59 0.23
82 75 0.29
83 9 0.04
84 15 0.06
85 37 0.14
86 16 0.06
88 45 0.18
90 1 0.00
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.31
Consensus pattern (81 bp):
AATAAAATCTGTTAAACGGTGGAATAAATCCCGAAACAGATTATTCAATTTAATTTCTATTTGGA
AACAAAATTAAAATCG
Found at i:18326217 original size:20 final size:20
Alignment explanation
Indices: 18326174--18326217 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
18326164 AGAGGCAATT
*
18326174 AAATCAATTTGATTAAAATC
1 AAATCAATTTGATTAAAATA
*
18326194 AAATCAAATTT-ATTAGAATA
1 AAATC-AATTTGATTAAAATA
18326214 AAAT
1 AAAT
18326218 AAAACCAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.34
Consensus pattern (20 bp):
AAATCAATTTGATTAAAATA
Found at i:18327762 original size:27 final size:27
Alignment explanation
Indices: 18327732--18327844 Score: 147
Period size: 27 Copynumber: 4.2 Consensus size: 27
18327722 GGTATAATAG
18327732 TCATTTTACCCTAT-GAGGGTATTTCGA
1 TCATTTTACCCTATAG-GGGTATTTCGA
*
18327759 TCATTTTACCTTATAGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
* * *
18327786 TCATTCTACCTTATGGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
** *
18327813 TTGTTTTACCCTATAGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGA
18327840 TCATT
1 TCATT
18327845 ATTTTAGTCA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 73 0.99
28 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCGA
Found at i:18327776 original size:54 final size:54
Alignment explanation
Indices: 18327718--18327834 Score: 146
Period size: 54 Copynumber: 2.2 Consensus size: 54
18327708 TTTCATCTCC
* *
18327718 TAGGGGTATAATAG-TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCTTA
1 TAGGGGTAT-ATAGATCATTCTACCCTATGAGGGTATTTCGATCATTTTACCCTA
* * * * **
18327772 TAGGGGTATTTCGATCATTCTACCTTATGGGGGTATTTCGATTGTTTTACCCTA
1 TAGGGGTATATAGATCATTCTACCCTATGAGGGTATTTCGATCATTTTACCCTA
18327826 TAGGGGTAT
1 TAGGGGTAT
18327835 TTCGGTCATT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
53 2 0.04
54 52 0.96
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (54 bp):
TAGGGGTATATAGATCATTCTACCCTATGAGGGTATTTCGATCATTTTACCCTA
Found at i:18327835 original size:54 final size:54
Alignment explanation
Indices: 18327732--18327844 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
18327722 GGTATAATAG
* *
18327732 TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCTTATAGGGGTATTTCGA
1 TCATTCTACCCTATGAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGA
* * ** *
18327786 TCATTCTACCTTATGGGGGTATTTCGATTGTTTTACCCTATAGGGGTATTTCGG
1 TCATTCTACCCTATGAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGA
18327840 TCATT
1 TCATT
18327845 ATTTTAGTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.43
Consensus pattern (54 bp):
TCATTCTACCCTATGAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGA
Found at i:18337802 original size:40 final size:36
Alignment explanation
Indices: 18337742--18337827 Score: 93
Period size: 40 Copynumber: 2.3 Consensus size: 36
18337732 AAACTAGTAT
* * *
18337742 TATTATTATGGTTAGTTATTATTTTTAGTA-AAACCC
1 TATTATTATTGTTAGTTATTATTTTGAGTATAAA-AC
18337778 TAATTATTATTGTTAGTTACTATTATTTTGAGTATAAAAC
1 T-ATTATTATTGTTAG-T--TATTATTTTGAGTATAAAAC
18337818 TATTATTATT
1 TATTATTATT
18337828 TTCATTGTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 1 0.02
37 13 0.31
38 1 0.02
39 9 0.21
40 15 0.36
41 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (36 bp):
TATTATTATTGTTAGTTATTATTTTGAGTATAAAAC
Found at i:18341988 original size:28 final size:27
Alignment explanation
Indices: 18341940--18341993 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
18341930 TACATACATA
18341940 TGTATAATAAAAATAATTTAATATAGGT
1 TGTATAATAAAAATAATTTAA-ATAGGT
18341968 TGTATACAT-AAAA-AATATTAAATAGG
1 TGTATA-ATAAAAATAAT-TTAAATAGG
18341994 GATATTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 8 0.33
28 14 0.58
29 2 0.08
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (27 bp):
TGTATAATAAAAATAATTTAAATAGGT
Found at i:18342056 original size:28 final size:27
Alignment explanation
Indices: 18342025--18342091 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
18342015 ATAGAGGAAA
* * *
18342025 TATATAAAAATGTCTTTTAAAAGTATAT
1 TATATAAAAAAGT-TATTAAAAATATAT
*
18342053 TATAAAATAAAAGTTATTAAAAATATAT
1 TATATAA-AAAAGTTATTAAAAATATAT
18342081 TATATAAAAAA
1 TATATAAAAAA
18342092 AATAATTCGT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 4 0.12
28 24 0.73
29 5 0.15
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (27 bp):
TATATAAAAAAGTTATTAAAAATATAT
Found at i:18342065 original size:18 final size:16
Alignment explanation
Indices: 18342042--18342077 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
18342032 AAATGTCTTT
18342042 TAAAAGTATATTATAAAA
1 TAAAAGT-TATTA-AAAA
18342060 TAAAAGTTATTAAAAA
1 TAAAAGTTATTAAAAA
18342076 TA
1 TA
18342078 TATTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAAGTTATTAAAAA
Found at i:18342870 original size:6 final size:6
Alignment explanation
Indices: 18342859--18342887 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
18342849 AAGAAAACGC
18342859 AGAGAA AGAGAA AGAGAA AGA-AA AGAGAA
1 AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA
18342888 CCACTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
AGAGAA
Found at i:18343313 original size:26 final size:27
Alignment explanation
Indices: 18343284--18343334 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
18343274 CCACATTAGC
*
18343284 TGGGCTAGGTTAATTGGGT-TTTGGTT
1 TGGGCTAGGTTAAGTGGGTATTTGGTT
18343310 TGGGCTAGGTTAAGTGGGTATTTGG
1 TGGGCTAGGTTAAGTGGGTATTTGG
18343335 GATTTGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.14, C:0.04, G:0.41, T:0.41
Consensus pattern (27 bp):
TGGGCTAGGTTAAGTGGGTATTTGGTT
Found at i:18343761 original size:50 final size:50
Alignment explanation
Indices: 18343705--18343830 Score: 128
Period size: 50 Copynumber: 2.5 Consensus size: 50
18343695 TTAATCTGCT
** * *
18343705 TAACTGCAATGTCGGGGAAGCAAGATTCGTTGTTGTAGCTTCAATCTGTTC
1 TAACTGCAATGTCGGGGAAGCAAGATTCACTATTGCAGCTTCAATCT-TTC
** * * * * *
18343756 T-ACTGCACCGACTGGGCAGTAAGATTTACTATTGCAGCTTCAATCTTTC
1 TAACTGCAATGTCGGGGAAGCAAGATTCACTATTGCAGCTTCAATCTTTC
*
18343805 TAACTGCAATGTTGGGGAAGCAAGAT
1 TAACTGCAATGTCGGGGAAGCAAGAT
18343831 CCACCGTTGT
Statistics
Matches: 56, Mismatches: 18, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
49 4 0.07
50 51 0.91
51 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (50 bp):
TAACTGCAATGTCGGGGAAGCAAGATTCACTATTGCAGCTTCAATCTTTC
Found at i:18343924 original size:47 final size:46
Alignment explanation
Indices: 18343870--18344320 Score: 191
Period size: 46 Copynumber: 10.2 Consensus size: 46
18343860 ACACCGCTTG
* *
18343870 GGAGATAAGGTCTGTAATTTCTTCGGTCTATTCCACTGTAATCTCAA
1 GGAGATAAGATCTGTAA-TTCTTCAGTCTATTCCACTGTAATCTCAA
* * *
18343917 TGAGATAAGACCTGTAATTCTTCAGTCTATTCCACTGTAATCTCAG
1 GGAGATAAGATCTGTAATTCTTCAGTCTATTCCACTGTAATCTCAA
* * * *
18343963 GGAGATAAGATCTG--ATAC--GA-TCTACTCTACTGTAA-CTTC-A
1 GGAGATAAGATCTGTAATTCTTCAGTCTATTCCACTGTAATC-TCAA
* * * *
18344003 GAGAGATAAGATC-GTTTATT-TT-AATCTGTTCCACTGTAATCTCAG
1 G-GAGATAAGATCTG-TAATTCTTCAGTCTATTCCACTGTAATCTCAA
* * * ** ** * *
18344048 GGAAATAGGA--T-T-ATTGGCTTCAATCTGCTCTGCTTTAATCTCAG
1 GGAGATAAGATCTGTAATT--CTTCAGTCTATTCCACTGTAATCTCAA
* *
18344092 GGAGATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAG
1 GGAGATAAGATCTGTAATTCTTCAGTCTATTCCACTGTAATCTCAA
* * * * *
18344138 GGAGATAAGACCTG--ATGC--GA-TCTACTCTACTGTAA-CTTC-A
1 GGAGATAAGATCTGTAATTCTTCAGTCTATTCCACTGTAATC-TCAA
* * ** * *
18344178 GAGAGATAAGATCCT-TCATT-TT-AATCGGTTCCACTGTAATCTTAG
1 G-GAGATAAGAT-CTGTAATTCTTCAGTCTATTCCACTGTAATCTCAA
* * * * * * ** *
18344223 GGAAATAGGA--T-TACTGGCTTCAATTTGCTCCGCTGTAATCTCAA
1 GGAGATAAGATCTGTAAT-TCTTCAGTCTATTCCACTGTAATCTCAA
* * * *
18344267 GGAGATGAGATCTATAATTCTTCGGTCTATTCCACTGTAATCTCAG
1 GGAGATAAGATCTGTAATTCTTCAGTCTATTCCACTGTAATCTCAA
18344313 GGAGATAA
1 GGAGATAA
18344321 AACCTGATGC
Statistics
Matches: 298, Mismatches: 71, Indels: 71
0.68 0.16 0.16
Matches are distributed among these distances:
40 8 0.03
41 54 0.18
42 3 0.01
43 10 0.03
44 97 0.33
45 4 0.01
46 101 0.34
47 18 0.06
48 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (46 bp):
GGAGATAAGATCTGTAATTCTTCAGTCTATTCCACTGTAATCTCAA
Found at i:18344201 original size:175 final size:175
Alignment explanation
Indices: 18343905--18344475 Score: 953
Period size: 175 Copynumber: 3.3 Consensus size: 175
18343895 GTCTATTCCA
* * *
18343905 CTGTAATCTCAATGAGATAAGACCTGTAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATA
1 CTGTAATCTCAAGGAGATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATA
* * *
18343970 AGATCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCGTTTATTTTAATCTGTTCC
66 AGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGTTCC
* *
18344035 ACTGTAATCTCAGGGAAATAGGATTATTGGCTTCAATCTGCTCTG
131 ACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCG
* *
18344080 CTTTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATA
1 CTGTAATCTCAAGGAGATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATA
* *
18344145 AGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCGGTTCC
66 AGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGTTCC
* *
18344210 ACTGTAATCTTAGGGAAATAGGATTACTGGCTTCAATTTGCTCCG
131 ACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCG
* *
18344255 CTGTAATCTCAAGGAGATGAGATCTATAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATA
1 CTGTAATCTCAAGGAGATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATA
*
18344320 AAACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGTTCC
66 AGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGTTCC
* *
18344385 ACTATAATCTCAGGGAAATAGGATTACTGGCTTCAATCTACTCCG
131 ACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCG
* *
18344430 CTGTAATCTCAGGGAGATAAGATCTGTAATTCGTCGGTCTATTCCA
1 CTGTAATCTCAAGGAGATAAGATCTGTAATTCTTCGGTCTATTCCA
18344476 TTGCTGACCA
Statistics
Matches: 367, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
175 367 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (175 bp):
CTGTAATCTCAAGGAGATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATA
AGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGTTCC
ACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCG
Found at i:18347888 original size:28 final size:27
Alignment explanation
Indices: 18347840--18347893 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
18347830 TACATACATA
18347840 TGTATAATAAAAATAATTTAATATAGGT
1 TGTATAATAAAAATAATTTAA-ATAGGT
18347868 TGTATACAT-AAAA-AATATTAAATAGG
1 TGTATA-ATAAAAATAAT-TTAAATAGG
18347894 GATATTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 8 0.33
28 14 0.58
29 2 0.08
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (27 bp):
TGTATAATAAAAATAATTTAAATAGGT
Found at i:18347964 original size:18 final size:16
Alignment explanation
Indices: 18347941--18347976 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
18347931 AAAATGGCTT
18347941 TAAAAGTATATTATAAAA
1 TAAAAGT-TATTA-AAAA
18347959 TAAAAGTTATTAAAAA
1 TAAAAGTTATTAAAAA
18347975 TA
1 TA
18347977 TATTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAAGTTATTAAAAA
Found at i:18348936 original size:5 final size:5
Alignment explanation
Indices: 18348928--18348957 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
18348918 TAGTCGAATC
18348928 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
18348958 ATACATCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:18349250 original size:26 final size:27
Alignment explanation
Indices: 18349213--18349263 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
18349203 CCACATTAGC
*
18349213 TGGGCTAAGTTAATTGGGT-TTTGGTT
1 TGGGCTAAGTTAAGTGGGTATTTGGTT
*
18349239 TGGGCTAGGTTAAGTGGGTATTTGG
1 TGGGCTAAGTTAAGTGGGTATTTGG
18349264 GATCTGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.16, C:0.04, G:0.39, T:0.41
Consensus pattern (27 bp):
TGGGCTAAGTTAAGTGGGTATTTGGTT
Found at i:18352014 original size:33 final size:31
Alignment explanation
Indices: 18351931--18352016 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 31
18351921 ATTACAACAT
18351931 TCTAAATAAATTTCATAAAAAGAATTTGTAA
1 TCTAAATAAATTTCATAAAAAGAATTTGTAA
* * * *
18351962 TC-AACATACAATTTACATAACATGAATTTTTTCA
1 TCTAA-ATA-AATTT-CATAAAAAGAA-TTTGTAA
18351996 TGCTAAATAAATTTCATAAAA
1 T-CTAAATAAATTTCATAAAA
18352017 TTTATATGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
30 2 0.05
31 5 0.11
32 5 0.11
33 15 0.34
34 11 0.25
35 4 0.09
36 2 0.05
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (31 bp):
TCTAAATAAATTTCATAAAAAGAATTTGTAA
Found at i:18352194 original size:38 final size:39
Alignment explanation
Indices: 18352155--18352256 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 39
18352145 TCCCCTCTTC
*
18352155 TTCTTCTTCTTCTTTTTTTCTCTTCTCCTTTCCTTTTCT
1 TTCTTCTTCTTCTTTTTTTCTCTTCTCCTTTCATTTTCT
* *
18352194 TTCCTTCTTTTTCTTTCTTTC-C-TCTCCTTTCATTTTCT
1 TT-CTTCTTCTTCTTTTTTTCTCTTCTCCTTTCATTTTCT
*
18352232 TTCATT-TTCTTTCTTTTTTTTTCTT
1 TTC-TTCTTC-TTCTTTTTTTCTCTT
18352257 TTTTCCCTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
37 3 0.06
38 28 0.54
39 4 0.08
40 17 0.33
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (39 bp):
TTCTTCTTCTTCTTTTTTTCTCTTCTCCTTTCATTTTCT
Found at i:18352195 original size:10 final size:10
Alignment explanation
Indices: 18352182--18352258 Score: 63
Period size: 10 Copynumber: 8.0 Consensus size: 10
18352172 TTCTCTTCTC
18352182 CTTTCCTTTT
1 CTTTCCTTTT
18352192 CTTTCCTTCTT
1 CTTTCCTT-TT
18352203 -TTT-C-TTT
1 CTTTCCTTTT
* *
18352210 CTTTCCTCTC
1 CTTTCCTTTT
*
18352220 CTTTCATTTT
1 CTTTCCTTTT
*
18352230 CTTTCATTTT
1 CTTTCCTTTT
18352240 CTTT-CTTTT
1 CTTTCCTTTT
* *
18352249 TTTTTCTTTT
1 CTTTCCTTTT
18352259 TTCCCTCTCC
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
7 2 0.04
8 4 0.07
9 9 0.16
10 38 0.69
11 2 0.04
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:18352363 original size:27 final size:27
Alignment explanation
Indices: 18352315--18352372 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
18352305 ATATGGGCAT
* *
18352315 TGCCGCCTATAGGAATGGCACCATCGG
1 TGCCGCCTATAGGAAAGACACCATCGG
* * *
18352342 TGCCGCCTATGGGAAAGACACCTTTGG
1 TGCCGCCTATAGGAAAGACACCATCGG
18352369 TGCC
1 TGCC
18352373 TCCAGAGGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (27 bp):
TGCCGCCTATAGGAAAGACACCATCGG
Found at i:18352448 original size:20 final size:20
Alignment explanation
Indices: 18352412--18352449 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18352402 CACCTACAAC
*
18352412 TTTTTTTTGTCTGATTTTTG
1 TTTTTTTTGTATGATTTTTG
*
18352432 TTTTTTTTGTATTATTTT
1 TTTTTTTTGTATGATTTT
18352450 CGTAATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.03, G:0.11, T:0.79
Consensus pattern (20 bp):
TTTTTTTTGTATGATTTTTG
Found at i:18358717 original size:39 final size:39
Alignment explanation
Indices: 18358663--18358737 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
18358653 GCCGTTATTT
18358663 GCTTGGATGATTGGATGCGAGCTAAGGGATTTTCAATAG
1 GCTTGGATGATTGGATGCGAGCTAAGGGATTTTCAATAG
18358702 GCTTGGATGATTGGATGCGAGCTAAGGGATTTTCAA
1 GCTTGGATGATTGGATGCGAGCTAAGGGATTTTCAA
18358738 CAAGTAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.25, C:0.11, G:0.33, T:0.31
Consensus pattern (39 bp):
GCTTGGATGATTGGATGCGAGCTAAGGGATTTTCAATAG
Found at i:18362637 original size:16 final size:17
Alignment explanation
Indices: 18362618--18362660 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
18362608 ATTATAGCTT
18362618 TATTTC-ATTACAACTC
1 TATTTCAATTACAACTC
*
18362634 TA-TTCAATTACAGCTC
1 TATTTCAATTACAACTC
18362650 TA-TTCAATTAC
1 TATTTCAATTAC
18362661 GTTAAACCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 3 0.12
16 22 0.88
ACGTcount: A:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (17 bp):
TATTTCAATTACAACTC
Found at i:18363620 original size:22 final size:22
Alignment explanation
Indices: 18363595--18363645 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
18363585 TGAAAAAAAT
*
18363595 TATTTAACCCAAATAA-CTCAAA
1 TATTAAACCCAAATAATCTC-AA
18363617 TATTAAACCCAAATAATCTCAA
1 TATTAAACCCAAATAATCTCAA
18363639 TATTAAA
1 TATTAAA
18363646 TTTGAATGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.89
23 3 0.11
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (22 bp):
TATTAAACCCAAATAATCTCAA
Done.