Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 236 of 292
Found at i:68526176 original size:17 final size:18
Alignment explanation
Indices: 68526156--68526189 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
68526146 AATTTTTTAT
68526156 TTTAA-TTATTCGAATTA
1 TTTAAGTTATTCGAATTA
68526173 TTTAAGTTATTCGAATT
1 TTTAAGTTATTCGAATT
68526190 GTAAAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (18 bp):
TTTAAGTTATTCGAATTA
Found at i:68535116 original size:17 final size:16
Alignment explanation
Indices: 68535094--68535149 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 16
68535084 GGAGCCATAA
68535094 TTTTAACTATGAACTTT
1 TTTTAACTATGAA-TTT
68535111 TTTTAAC--T-AATTT
1 TTTTAACTATGAATTT
* *
68535124 ATTTGACTATGAATTTT
1 TTTTAACTATGAA-TTT
68535141 TTTTAACTA
1 TTTTAACTA
68535150 ATTTATTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 8 0.26
14 2 0.06
15 2 0.06
16 2 0.06
17 17 0.55
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.55
Consensus pattern (16 bp):
TTTTAACTATGAATTT
Found at i:68535134 original size:30 final size:30
Alignment explanation
Indices: 68535099--68535159 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
68535089 CATAATTTTA
68535099 ACTATGAACTTTTTTTAACTAATTTATTTG
1 ACTATGAACTTTTTTTAACTAATTTATTTG
*
68535129 ACTATGAATTTTTTTTAACTAATTTATTTG
1 ACTATGAACTTTTTTTAACTAATTTATTTG
68535159 A
1 A
68535160 AAAATTAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.08, G:0.07, T:0.54
Consensus pattern (30 bp):
ACTATGAACTTTTTTTAACTAATTTATTTG
Found at i:68542275 original size:51 final size:51
Alignment explanation
Indices: 68542204--68542313 Score: 175
Period size: 51 Copynumber: 2.2 Consensus size: 51
68542194 CTGATCACAT
*
68542204 TTATCATTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * *
68542255 TTATCACTTGTCACTGATCAGGTAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
68542306 TTGTCACT
1 TTATCACT
68542314 GATCAGAAGT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:68546745 original size:26 final size:26
Alignment explanation
Indices: 68546708--68546843 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
68546698 TGATACAAAT
* *
68546708 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
68546734 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
68546760 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
68546786 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
68546812 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
68546838 TGATAA
1 TGATAA
68546844 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:68548874 original size:136 final size:136
Alignment explanation
Indices: 68548630--68548914 Score: 543
Period size: 136 Copynumber: 2.1 Consensus size: 136
68548620 GAGTAGTCTC
68548630 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
68548695 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
68548760 CTGTTA
131 CTGTTA
68548766 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
68548831 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGTTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
68548896 CTGTTA
131 CTGTTA
**
68548902 CCTGAATGGGCTT
1 CCCAAATGGGCTT
68548915 AGGCCCAATG
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 146 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:68553274 original size:51 final size:51
Alignment explanation
Indices: 68553203--68553363 Score: 268
Period size: 51 Copynumber: 3.2 Consensus size: 51
68553193 CTGATCACAT
68553203 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
68553254 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * * * *
68553305 TTGTCACTTATCACTGATCAGGTAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
68553356 TTGTCACT
1 TTATCACT
68553364 GATCAAAGTA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 105 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:68555986 original size:60 final size:59
Alignment explanation
Indices: 68555920--68556074 Score: 170
Period size: 60 Copynumber: 2.6 Consensus size: 59
68555910 TAATAAGATT
* * *
68555920 ATTATTAAATATAATTTAATAAAAATATTA-ATAAGTAATTAATTATATT-TTAACATAATT
1 ATTATTAAATATAATTTAATAAAAATAATATATAA-T--TTAATAATATTCTTAACATAATA
* * * *
68555980 TTTATTAAATACAATTTTATAAAAATAATATATAATTTAATAATATTCTTAATATAATA
1 ATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAATATTCTTAACATAATA
* *
68556039 ATTATTAAAATATAAATTAATAAAAATTATAATATA
1 ATTATT-AAATATAATTTAATAAAAATAAT-ATATA
68556075 TAATATTAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
58 10 0.13
59 14 0.18
60 46 0.58
61 9 0.11
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.44
Consensus pattern (59 bp):
ATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAATATTCTTAACATAATA
Found at i:68563216 original size:19 final size:19
Alignment explanation
Indices: 68563194--68563237 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
68563184 ACAAAATATT
68563194 TATAAACATAAATAAAATA
1 TATAAACATAAATAAAATA
68563213 TATAAACATAAATAAAATA
1 TATAAACATAAATAAAATA
68563232 TATAAA
1 TATAAA
68563238 AGAACTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (19 bp):
TATAAACATAAATAAAATA
Found at i:68563227 original size:10 final size:9
Alignment explanation
Indices: 68563195--68563238 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
68563185 CAAAATATTT
68563195 ATAAACATAA
1 ATAAA-ATAA
*
68563205 ATAAAATAT
1 ATAAAATAA
68563214 ATAAACATAA
1 ATAAA-ATAA
*
68563224 ATAAAATAT
1 ATAAAATAA
68563233 ATAAAA
1 ATAAAA
68563239 GAACTAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
9 17 0.57
10 13 0.43
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (9 bp):
ATAAAATAA
Found at i:68563248 original size:19 final size:19
Alignment explanation
Indices: 68563194--68563247 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
68563184 ACAAAATATT
*
68563194 TATAAACATAAATAAAATA
1 TATAAACAGAAATAAAATA
*
68563213 TATAAACATAAATAAAATA
1 TATAAACAGAAATAAAATA
*
68563232 TATAAA-AGAACTAAAA
1 TATAAACAGAAATAAAA
68563248 AGCATATCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
18 8 0.24
19 25 0.76
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (19 bp):
TATAAACAGAAATAAAATA
Found at i:68563349 original size:8 final size:8
Alignment explanation
Indices: 68563336--68563361 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
68563326 TTGAGGTAAA
68563336 ATTTGTTT
1 ATTTGTTT
68563344 ATTTGTTT
1 ATTTGTTT
68563352 ATTTGTTT
1 ATTTGTTT
68563360 AT
1 AT
68563362 ATTTTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (8 bp):
ATTTGTTT
Found at i:68563376 original size:16 final size:17
Alignment explanation
Indices: 68563335--68563376 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
68563325 ATTGAGGTAA
68563335 AATTTGTTTATTTGTTT
1 AATTTGTTTATTTGTTT
68563352 -ATTTGTTTATATT-TTT
1 AATTTGTTTAT-TTGTTT
68563368 AATTT-TTTA
1 AATTTGTTTA
68563377 AAATTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (17 bp):
AATTTGTTTATTTGTTT
Found at i:68563832 original size:40 final size:40
Alignment explanation
Indices: 68563774--68563852 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
68563764 AAGAATAAAC
68563774 TACATATTATGCTATGTTTGGATAAACAATAATTGAAAGT
1 TACATATTATGCTATGTTTGGATAAACAATAATTGAAAGT
*
68563814 TACATATTATGCTTTGTTTGGATAAACAATAATTGAAAG
1 TACATATTATGCTATGTTTGGATAAACAATAATTGAAAG
68563853 AATGTTGTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (40 bp):
TACATATTATGCTATGTTTGGATAAACAATAATTGAAAGT
Found at i:68569646 original size:46 final size:46
Alignment explanation
Indices: 68569579--68569879 Score: 413
Period size: 46 Copynumber: 6.7 Consensus size: 46
68569569 TGGCAACCTG
68569579 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
68569625 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
68569663 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
68569709 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* * *
68569755 TGTGTAAGACCATGGTTAAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
68569801 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
68569847 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
68569880 TCACGTCAAA
Statistics
Matches: 231, Mismatches: 15, Indels: 18
0.88 0.06 0.07
Matches are distributed among these distances:
38 36 0.16
41 2 0.01
43 2 0.01
45 1 0.00
46 190 0.82
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:68569665 original size:84 final size:84
Alignment explanation
Indices: 68569530--68569835 Score: 486
Period size: 84 Copynumber: 3.5 Consensus size: 84
68569520 AGTGTGCTAT
68569530 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
68569595 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
68569614 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
68569679 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
68569698 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
*
68569763 ACCATGGTTAAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * * **
68569790 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
68569836 ATGACAGAAA
Statistics
Matches: 208, Mismatches: 6, Indels: 8
0.94 0.03 0.04
Matches are distributed among these distances:
84 131 0.63
89 1 0.00
91 1 0.00
92 75 0.36
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (84 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:68570185 original size:23 final size:25
Alignment explanation
Indices: 68570140--68570186 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
68570130 AATAAATATA
*
68570140 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
68570165 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
68570187 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:68575764 original size:14 final size:14
Alignment explanation
Indices: 68575742--68575771 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
68575732 GAATAACCAT
*
68575742 AAAATAGAAAAAAA
1 AAAAAAGAAAAAAA
68575756 AAAAAAGAAAAAAA
1 AAAAAAGAAAAAAA
68575770 AA
1 AA
68575772 CTTCAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.07, T:0.03
Consensus pattern (14 bp):
AAAAAAGAAAAAAA
Found at i:68577154 original size:12 final size:12
Alignment explanation
Indices: 68577137--68577163 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
68577127 ATATGGTTTA
68577137 TTCAAGGATTTG
1 TTCAAGGATTTG
68577149 TTCAAGGATTTG
1 TTCAAGGATTTG
68577161 TTC
1 TTC
68577164 CACAGTGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (12 bp):
TTCAAGGATTTG
Found at i:68578778 original size:26 final size:26
Alignment explanation
Indices: 68578748--68578801 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
68578738 TTATTGTAGG
68578748 ACACTTTCAACACATAATTTTATTTT
1 ACACTTTCAACACATAATTTTATTTT
68578774 ACACTTTCAACACATAATTTTATTTT
1 ACACTTTCAACACATAATTTTATTTT
68578800 AC
1 AC
68578802 TTTTCTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.44
Consensus pattern (26 bp):
ACACTTTCAACACATAATTTTATTTT
Found at i:68580350 original size:12 final size:12
Alignment explanation
Indices: 68580333--68580357 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68580323 GATTGAAAAC
68580333 TAACGACTTAGA
1 TAACGACTTAGA
68580345 TAACGACTTAGA
1 TAACGACTTAGA
68580357 T
1 T
68580358 GACTCTGTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (12 bp):
TAACGACTTAGA
Found at i:68581538 original size:18 final size:16
Alignment explanation
Indices: 68581509--68581574 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 16
68581499 AAAATTACAA
68581509 AAAAATTCAAAATATTTAT
1 AAAAATT-AAAA-A-TTAT
68581528 AAAAATTAAAAAAATTAT
1 AAAAATT--AAAAATTAT
** *
68581546 ATTATTTAAAAATTAT
1 AAAAATTAAAAATTAT
68581562 AAAAATTTAAAAA
1 AAAAA-TTAAAAA
68581575 AAATTAAAGG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
16 11 0.29
17 7 0.18
18 8 0.21
19 8 0.21
20 4 0.11
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAAATTAAAAATTAT
Found at i:68581566 original size:9 final size:9
Alignment explanation
Indices: 68581524--68581574 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
68581514 TTCAAAATAT
68581524 TTATAAAAA
1 TTATAAAAA
*
68581533 TTAAAAAAA
1 TTATAAAAA
**
68581542 TTAT-ATTA
1 TTATAAAAA
68581550 TT-TAAAAA
1 TTATAAAAA
68581558 TTATAAAAA
1 TTATAAAAA
68581567 TT-TAAAAA
1 TTATAAAAA
68581575 AAATTAAAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
7 1 0.03
8 14 0.41
9 19 0.56
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TTATAAAAA
Found at i:68581575 original size:18 final size:18
Alignment explanation
Indices: 68581509--68581575 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 18
68581499 AAAATTACAA
* *
68581509 AAAAATTCAAAATATTTAT
1 AAAAATTTAAAA-AATTAT
*
68581528 AAAAATTAAAAAAATTAT
1 AAAAATTTAAAAAATTAT
**
68581546 -ATTATTT-AAAAATTAT
1 AAAAATTTAAAAAATTAT
68581562 AAAAATTTAAAAAA
1 AAAAATTTAAAAAA
68581576 AATTAAAGGA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 9 0.23
17 9 0.23
18 10 0.26
19 11 0.28
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATTTAAAAAATTAT
Found at i:68583280 original size:20 final size:20
Alignment explanation
Indices: 68583243--68583280 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
68583233 TGATGGGGAA
*
68583243 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
68583263 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
68583281 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:68585229 original size:46 final size:46
Alignment explanation
Indices: 68585177--68585400 Score: 333
Period size: 46 Copynumber: 4.9 Consensus size: 46
68585167 TGCTCTCTGT
*
68585177 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGA
1 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
68585223 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
1 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
*
68585269 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGA
1 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
*** *
68585315 TATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGA
1 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
* * * * *
68585361 CA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
68585401 TCATGTCAAA
Statistics
Matches: 165, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 164 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
Found at i:68587283 original size:14 final size:14
Alignment explanation
Indices: 68587264--68587293 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
68587254 ACCAACTACT
68587264 TATCAGTAGCATTC
1 TATCAGTAGCATTC
68587278 TATCAGTAGCATTC
1 TATCAGTAGCATTC
68587292 TA
1 TA
68587294 CCTTAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (14 bp):
TATCAGTAGCATTC
Found at i:68591675 original size:14 final size:14
Alignment explanation
Indices: 68591656--68591700 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
68591646 AATAAATTTT
68591656 TTAAAAATAAGAAA
1 TTAAAAATAAGAAA
*
68591670 TTAAAAATAAAAATTA
1 TTAAAAATAAGAA--A
68591686 TTAAAAATAGAGAAA
1 TTAAAAATA-AGAAA
68591701 ACAAATTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 12 0.46
15 1 0.04
16 10 0.38
17 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (14 bp):
TTAAAAATAAGAAA
Found at i:68592708 original size:18 final size:19
Alignment explanation
Indices: 68592685--68592722 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
68592675 TTCTTTGAAT
*
68592685 TATTTCTACTATTGT-TTA
1 TATTTCAACTATTGTATTA
*
68592703 TATTTCAATTATTGTATTA
1 TATTTCAACTATTGTATTA
68592722 T
1 T
68592723 CTTTTTTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.61
Consensus pattern (19 bp):
TATTTCAACTATTGTATTA
Found at i:68592888 original size:19 final size:21
Alignment explanation
Indices: 68592852--68592893 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
68592842 AAAGTTATTG
* *
68592852 TTTGATTTAAGT-TTTTAATA
1 TTTGATTTAAGTAATTAAATA
68592872 TTTGA-TTAAGTAATTAAATA
1 TTTGATTTAAGTAATTAAATA
68592892 TT
1 TT
68592894 AAAAACTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTGATTTAAGTAATTAAATA
Found at i:68593015 original size:22 final size:22
Alignment explanation
Indices: 68592990--68593034 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
68592980 ATGTTAATCT
68592990 AAATACGAAGCAAAATATAATA
1 AAATACGAAGCAAAATATAATA
68593012 AAATACGAAGCAAAATATAATA
1 AAATACGAAGCAAAATATAATA
68593034 A
1 A
68593035 CTTATTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.18
Consensus pattern (22 bp):
AAATACGAAGCAAAATATAATA
Found at i:68594161 original size:26 final size:26
Alignment explanation
Indices: 68594130--68594181 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
68594120 TAAAAGTAAG
68594130 CAAATTCTTTTATTTATTTCATTTTT
1 CAAATTCTTTTATTTATTTCATTTTT
68594156 CAAATTCTTTTATTTATTTCATTTTT
1 CAAATTCTTTTATTTATTTCATTTTT
68594182 TTCTCTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (26 bp):
CAAATTCTTTTATTTATTTCATTTTT
Found at i:68597501 original size:5 final size:5
Alignment explanation
Indices: 68597491--68597519 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
68597481 AATGCCCCAT
68597491 CAAAA CAAAA CAAAA CAAAA CAAAA CAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA CAAA
68597520 GATGTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:68604461 original size:80 final size:81
Alignment explanation
Indices: 68604308--68604461 Score: 186
Period size: 80 Copynumber: 1.9 Consensus size: 81
68604298 ATAATATACC
* * * * *
68604308 TATTTACAATCTAAGAAAAAAAATAAAAAAATTTGCGTTATTGTATTCTATTGTATTTCATATCA
1 TATTTACAATCTAACAAAAAAAATAAAAAAATTTGCGTTATTGTATTCTACTATATTTCACATAA
*
68604373 ATAGTATATACTTATT
66 ATAATATATACTTATT
* * ** *
68604389 TATTTACAATCT-ACAAAAATAAT-AAAAATTTTGTTTATATTGTATTCTACTATATTTTACATA
1 TATTTACAATCTAACAAAAAAAATAAAAAAATTTGCGT-TATTGTATTCTACTATATTTCACATA
68604452 AATAATATAT
65 AATAATATAT
68604462 CAATATTTAC
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
79 10 0.16
80 39 0.64
81 12 0.20
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (81 bp):
TATTTACAATCTAACAAAAAAAATAAAAAAATTTGCGTTATTGTATTCTACTATATTTCACATAA
ATAATATATACTTATT
Found at i:68604469 original size:80 final size:81
Alignment explanation
Indices: 68604308--68604485 Score: 179
Period size: 80 Copynumber: 2.3 Consensus size: 81
68604298 ATAATATACC
* * * * *
68604308 TATTTACAATCTAAGAAAAAAAATAAAAAAATTTGCGTTATTGTATTCTATTGTATTTCATATCA
1 TATTTACAATCTAACAAAAAAAATAAAAAAATTTGCGTTATTGTATTCTACTATATTTCACATAA
* *
68604373 ATAGTATATACTTATT
66 ATAATATATACATATT
* * ** *
68604389 TATTTACAATCT-ACAAAAATAAT-AAAAATTTTGTTTATATTGTATTCTACTATATTTTACATA
1 TATTTACAATCTAACAAAAAAAATAAAAAAATTTGCGT-TATTGTATTCTACTATATTTCACATA
68604452 AATAATATAT-CA-A--
65 AATAATATATACATATT
* *
68604465 TATTTACAATTTACCAAAAAA
1 TATTTACAATCTAACAAAAAA
68604486 TGAAAAGCAA
Statistics
Matches: 80, Mismatches: 15, Indels: 8
0.78 0.15 0.08
Matches are distributed among these distances:
76 11 0.14
77 6 0.08
78 1 0.01
79 11 0.14
80 39 0.49
81 12 0.15
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (81 bp):
TATTTACAATCTAACAAAAAAAATAAAAAAATTTGCGTTATTGTATTCTACTATATTTCACATAA
ATAATATATACATATT
Found at i:68605839 original size:23 final size:22
Alignment explanation
Indices: 68605762--68605848 Score: 54
Period size: 23 Copynumber: 3.8 Consensus size: 22
68605752 GTCACAACTG
68605762 TTATTAA-TGAA-TTTGAAAATA
1 TTATTAATTGAATTTTGAAAA-A
* **
68605783 TTATTAAGTTGATATAATTGATTAA
1 TTATTAA-TTGA-AT-TTTGAAAAA
* *
68605808 TTCTGAATTGAATTCTTGAAAAA
1 TTATTAATTGAATT-TTGAAAAA
68605831 TTATTAATT-AATATTTGA
1 TTATTAATTGAAT-TTTGA
68605849 TGAACTGATT
Statistics
Matches: 49, Mismatches: 10, Indels: 13
0.68 0.14 0.18
Matches are distributed among these distances:
21 7 0.14
22 7 0.14
23 19 0.39
24 5 0.10
25 6 0.12
26 5 0.10
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.46
Consensus pattern (22 bp):
TTATTAATTGAATTTTGAAAAA
Found at i:68608112 original size:14 final size:13
Alignment explanation
Indices: 68608092--68608127 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 13
68608082 ATTTGAAAAA
68608092 AAATTAAAAATAT
1 AAATTAAAAATAT
68608105 AGAATTAAAAAATAT
1 A-AATT-AAAAATAT
68608120 AAATTAAA
1 AAATTAAA
68608128 TCTACAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 4 0.19
14 8 0.38
15 9 0.43
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (13 bp):
AAATTAAAAATAT
Found at i:68608117 original size:15 final size:14
Alignment explanation
Indices: 68608092--68608127 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
68608082 ATTTGAAAAA
68608092 AAATT-AAAAATAT
1 AAATTAAAAAATAT
68608105 AGAATTAAAAAATAT
1 A-AATTAAAAAATAT
68608120 AAATTAAA
1 AAATTAAA
68608128 TCTACAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 11 0.52
15 9 0.43
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
AAATTAAAAAATAT
Found at i:68608653 original size:13 final size:13
Alignment explanation
Indices: 68608597--68608650 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
68608587 GGTTAGTTTG
68608597 ATTAATTAATTTT
1 ATTAATTAATTTT
* *
68608610 ATTAATTGATTTA
1 ATTAATTAATTTT
*
68608623 ATCAATTAATTTT
1 ATTAATTAATTTT
68608636 ATTAATT-ATTTT
1 ATTAATTAATTTT
68608648 ATT
1 ATT
68608651 TAAAAGTGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
12 8 0.23
13 27 0.77
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (13 bp):
ATTAATTAATTTT
Found at i:68610806 original size:20 final size:20
Alignment explanation
Indices: 68610781--68610822 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
68610771 TGTCGACATA
*
68610781 TAGAACTAATAATATATACT
1 TAGAACCAATAATATATACT
68610801 TAGAACCAATAATATATACT
1 TAGAACCAATAATATATACT
68610821 TA
1 TA
68610823 CTTCCATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (20 bp):
TAGAACCAATAATATATACT
Found at i:68613883 original size:17 final size:17
Alignment explanation
Indices: 68613861--68613895 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
68613851 TAGTTTGATA
68613861 GTGTGATAGGTTCTCCG
1 GTGTGATAGGTTCTCCG
68613878 GTGTGATAGGTTCTCCG
1 GTGTGATAGGTTCTCCG
68613895 G
1 G
68613896 CGACTTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.37, T:0.34
Consensus pattern (17 bp):
GTGTGATAGGTTCTCCG
Found at i:68614993 original size:51 final size:50
Alignment explanation
Indices: 68614931--68615070 Score: 181
Period size: 51 Copynumber: 2.7 Consensus size: 50
68614921 AGGTGTCCTG
* * *
68614931 CACATAGTACCACCCTTGTAGCCAAAGCTATTTTATTTACAAAGTGGGCTT
1 CACATAGTACCACACTTGT-GCCAAAGCTATTTTATTCACAAAGTGGCCTT
* * *
68614982 TACATAGTACCACACTTGTTTCCAAAGCTATTATATTCACAAAGTGGCCTT
1 CACATAGTACCACACTTG-TGCCAAAGCTATTTTATTCACAAAGTGGCCTT
* *
68615033 CACATAGCACTACACTTGTGTCCAAAGCTATTTTATTC
1 CACATAGTACCACACTTGTG-CCAAAGCTATTTTATTC
68615071 TTAAGGTTTA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.01
51 74 0.97
52 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (50 bp):
CACATAGTACCACACTTGTGCCAAAGCTATTTTATTCACAAAGTGGCCTT
Found at i:68615126 original size:28 final size:27
Alignment explanation
Indices: 68615094--68615212 Score: 133
Period size: 24 Copynumber: 4.5 Consensus size: 27
68615084 GGGAAATTTC
*
68615094 TCACTTAGCACAATGCTATGGACTTATT
1 TCACTTAGCA-AATGCCATGGACTTATT
68615122 TCACTT---AAATGCCATGGACTTATT
1 TCACTTAGCAAATGCCATGGACTTATT
* *
68615146 TCACTTAGCATACTGCTATGGACTTATT
1 TCACTTAGCA-AATGCCATGGACTTATT
*
68615174 TCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCAAATGCCATGGACTTATT
68615198 TCACTTAGCACAATG
1 TCACTTAGCA-AATG
68615213 TCATATCCTA
Statistics
Matches: 77, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
24 43 0.56
25 1 0.01
27 1 0.01
28 32 0.42
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (27 bp):
TCACTTAGCAAATGCCATGGACTTATT
Found at i:68615150 original size:52 final size:52
Alignment explanation
Indices: 68615094--68615212 Score: 202
Period size: 52 Copynumber: 2.3 Consensus size: 52
68615084 GGGAAATTTC
68615094 TCACTTAGCACAATGCTATGGACTTATTTCACTTAAATGCCATGGACTTATT
1 TCACTTAGCACAATGCTATGGACTTATTTCACTTAAATGCCATGGACTTATT
* * * *
68615146 TCACTTAGCATACTGCTATGGACTTATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCACAATGCTATGGACTTATTTCACTTAAATGCCATGGACTTATT
68615198 TCACTTAGCACAATG
1 TCACTTAGCACAATG
68615213 TCATATCCTA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (52 bp):
TCACTTAGCACAATGCTATGGACTTATTTCACTTAAATGCCATGGACTTATT
Found at i:68616365 original size:35 final size:35
Alignment explanation
Indices: 68616320--68616390 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
68616310 GAGTGCCCAA
*
68616320 ACGTCGAAATTTTTGAACGAAATTTTCATGAAATC
1 ACGTCAAAATTTTTGAACGAAATTTTCATGAAATC
68616355 ACGTCAAAATTTTTGAACGAAATTTTCATGAAATC
1 ACGTCAAAATTTTTGAACGAAATTTTCATGAAATC
68616390 A
1 A
68616391 TTCCTTGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (35 bp):
ACGTCAAAATTTTTGAACGAAATTTTCATGAAATC
Found at i:68616750 original size:13 final size:13
Alignment explanation
Indices: 68616734--68616771 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
68616724 AAGCAGCTAT
68616734 TAAAATTTTATAA
1 TAAAATTTTATAA
* *
68616747 TAAAA-TTCAAAA
1 TAAAATTTTATAA
68616759 TAAAATTTTATAA
1 TAAAATTTTATAA
68616772 GAATGAACTT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAAATTTTATAA
Found at i:68618215 original size:17 final size:18
Alignment explanation
Indices: 68618193--68618226 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
68618183 CTTAATGAAA
68618193 AAATAAAATAC-AAAAAG
1 AAATAAAATACGAAAAAG
68618210 AAATAAAATACGAAAAA
1 AAATAAAATACGAAAAA
68618227 ATAACTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (18 bp):
AAATAAAATACGAAAAAG
Found at i:68618225 original size:32 final size:32
Alignment explanation
Indices: 68618158--68618230 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
68618148 AAAATAGTAT
* **
68618158 AAAAAATAAAATACTAAAAGAATATCTTAATG
1 AAAAAATAAAATACAAAAAGAATATCAAAATG
68618190 AAAAAATAAAATACAAAAAGAA-AT-AAAATACG
1 AAAAAATAAAATACAAAAAGAATATCAAAAT--G
68618222 AAAAAATAA
1 AAAAAATAA
68618231 CTTTTTTGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 3 0.08
31 2 0.06
32 31 0.86
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.18
Consensus pattern (32 bp):
AAAAAATAAAATACAAAAAGAATATCAAAATG
Found at i:68618284 original size:11 final size:11
Alignment explanation
Indices: 68618268--68618301 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 11
68618258 GTTTTTTACT
68618268 AAAATAATATG
1 AAAATAATATG
68618279 AAAATAATATATG
1 AAAAT-A-ATATG
68618292 AAAATAATAT
1 AAAATAATAT
68618302 ATTTTAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 9 0.43
12 2 0.10
13 10 0.48
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (11 bp):
AAAATAATATG
Found at i:68618292 original size:13 final size:13
Alignment explanation
Indices: 68618274--68618303 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
68618264 TACTAAAATA
68618274 ATATGAAAATAAT
1 ATATGAAAATAAT
68618287 ATATGAAAATAAT
1 ATATGAAAATAAT
68618300 ATAT
1 ATAT
68618304 TTTAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (13 bp):
ATATGAAAATAAT
Found at i:68622829 original size:17 final size:18
Alignment explanation
Indices: 68622798--68622833 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
68622788 CTGGTTTTGG
68622798 TTTTTATTTGTGTTTTTT
1 TTTTTATTTGTGTTTTTT
*
68622816 TTTTTTTTTG-GTTTTTT
1 TTTTTATTTGTGTTTTTT
68622833 T
1 T
68622834 AATTTCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (18 bp):
TTTTTATTTGTGTTTTTT
Found at i:68624197 original size:20 final size:20
Alignment explanation
Indices: 68624159--68624206 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
68624149 TAAATTCTAA
* **
68624159 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
68624179 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
68624199 AAA-ATAAA
1 AAAGATAAA
68624207 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:68625031 original size:14 final size:14
Alignment explanation
Indices: 68625012--68625047 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
68625002 TCTTTATAAT
68625012 GATACTATTCTAAC
1 GATACTATTCTAAC
68625026 GATACTATTCTAAC
1 GATACTATTCTAAC
68625040 GATACTAT
1 GATACTAT
68625048 ATTTACTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (14 bp):
GATACTATTCTAAC
Found at i:68629028 original size:29 final size:29
Alignment explanation
Indices: 68628996--68629130 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
68628986 ATACCCTCCG
** * *
68628996 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
68629025 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
68629054 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
68629083 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
68629112 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
68629131 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:68629063 original size:58 final size:58
Alignment explanation
Indices: 68628942--68629131 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
68628932 TACTCGATTT
* * * *** *
68628942 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
68629000 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
68629058 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
68629116 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
68629132 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:68636254 original size:16 final size:19
Alignment explanation
Indices: 68636235--68636271 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
68636225 TTCAATTTCA
68636235 TTAATT-TAC-TC-ACTAT
1 TTAATTCTACTTCTACTAT
68636251 TTAATTCTACTTCTACTAT
1 TTAATTCTACTTCTACTAT
68636270 TT
1 TT
68636272 TTAGTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
17 3 0.17
18 2 0.11
19 7 0.39
ACGTcount: A:0.27, C:0.19, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAATTCTACTTCTACTAT
Found at i:68637151 original size:29 final size:29
Alignment explanation
Indices: 68637119--68637253 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
68637109 ATACCCTCCG
** * *
68637119 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
68637148 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
68637177 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
68637206 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
68637235 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
68637254 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:68637186 original size:58 final size:58
Alignment explanation
Indices: 68637065--68637254 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
68637055 TACTCGATTT
* * * *** *
68637065 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
68637123 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
68637181 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
68637239 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
68637255 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:68641340 original size:12 final size:12
Alignment explanation
Indices: 68641298--68641347 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
68641288 ACACATAATT
68641298 AATCTAAATACA
1 AATCTAAATACA
*
68641310 AAACTAAA-ACA
1 AATCTAAATACA
*
68641321 CATACTAAATACA
1 AAT-CTAAATACA
68641334 AATCTAAATACA
1 AATCTAAATACA
68641346 AA
1 AA
68641348 ATTAAATTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 4 0.12
12 23 0.72
13 5 0.16
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.20
Consensus pattern (12 bp):
AATCTAAATACA
Found at i:68641353 original size:12 final size:12
Alignment explanation
Indices: 68641301--68641354 Score: 65
Period size: 12 Copynumber: 4.5 Consensus size: 12
68641291 CATAATTAAT
68641301 CTAAATACAAAA
1 CTAAATACAAAA
*
68641313 CTAAA-ACACATA
1 CTAAATACA-AAA
*
68641325 CTAAATACAAAT
1 CTAAATACAAAA
68641337 CTAAATACAAAA
1 CTAAATACAAAA
*
68641349 TTAAAT
1 CTAAAT
68641355 TAGTAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 3 0.09
12 29 0.83
13 3 0.09
ACGTcount: A:0.61, C:0.17, G:0.00, T:0.22
Consensus pattern (12 bp):
CTAAATACAAAA
Found at i:68641682 original size:13 final size:13
Alignment explanation
Indices: 68641643--68641685 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
68641633 TTCTCCTTCC
68641643 TTCTTTCTCTCTATT
1 TTCTTTCT-TCT-TT
*
68641658 CTCTTT-TTCTTT
1 TTCTTTCTTCTTT
68641670 TTCTTTCTTCTTT
1 TTCTTTCTTCTTT
68641683 TTC
1 TTC
68641686 CCTCACCAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 7 0.28
13 12 0.48
14 1 0.04
15 5 0.20
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (13 bp):
TTCTTTCTTCTTT
Found at i:68641730 original size:11 final size:11
Alignment explanation
Indices: 68641705--68641751 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
68641695 TGCTGCCCTC
* *
68641705 TCTTCTCCTTC
1 TCTTCTCTTTT
68641716 TCTTCTCTTTT
1 TCTTCTCTTTT
68641727 TCTT-TCTTTT
1 TCTTCTCTTTT
* *
68641737 TCTTTTCTTCT
1 TCTTCTCTTTT
68641748 TCTT
1 TCTT
68641752 GCTTCTTGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
10 10 0.31
11 22 0.69
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
TCTTCTCTTTT
Found at i:68641873 original size:27 final size:26
Alignment explanation
Indices: 68641836--68641886 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
68641826 GGCCGTGCAT
*
68641836 CCTTGGTGCCGCCTCTGGCACCTCCA
1 CCTTGGTGCCGCCTCTAGCACCTCCA
68641862 CCTTCGGTGCCGCCTCTAGCACCTC
1 CCTT-GGTGCCGCCTCTAGCACCTC
68641887 TTCCATCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.08, C:0.47, G:0.22, T:0.24
Consensus pattern (26 bp):
CCTTGGTGCCGCCTCTAGCACCTCCA
Found at i:68642629 original size:20 final size:20
Alignment explanation
Indices: 68642592--68642629 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
68642582 ATAAATTTAT
* *
68642592 AGATTAAATTTATTAAATAA
1 AGATTAAATTGATAAAATAA
68642612 AGATTAAATTGATAAAAT
1 AGATTAAATTGATAAAAT
68642630 TTATAAATAT
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:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (20 bp):
AGATTAAATTGATAAAATAA
Found at i:68643339 original size:39 final size:39
Alignment explanation
Indices: 68643295--68643372 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
68643285 TTGAAGACAA
68643295 TCCATTACGTTTTCATCTATCTTTCAAATAAATTATGAG
1 TCCATTACGTTTTCATCTATCTTTCAAATAAATTATGAG
68643334 TCCATTACGTTTTCATCTATCTTTCAAATAAATTATGAG
1 TCCATTACGTTTTCATCTATCTTTCAAATAAATTATGAG
68643373 AATCATACTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.44
Consensus pattern (39 bp):
TCCATTACGTTTTCATCTATCTTTCAAATAAATTATGAG
Found at i:68649689 original size:18 final size:18
Alignment explanation
Indices: 68649666--68649726 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
68649656 AACTCTTTTG
68649666 CTTTTAGATTCAAAAGCA
1 CTTTTAGATTCAAAAGCA
* *
68649684 CTTTTA-ACTCCAAAAGTTA
1 CTTTTAGA-TTCAAAAG-CA
*
68649703 TTTGTTAGATTCAAAAGCA
1 CTT-TTAGATTCAAAAGCA
68649722 CTTTT
1 CTTTT
68649727 TACTTGAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 1 0.03
18 15 0.45
19 6 0.18
20 10 0.30
21 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.39
Consensus pattern (18 bp):
CTTTTAGATTCAAAAGCA
Found at i:68650314 original size:24 final size:24
Alignment explanation
Indices: 68650266--68650315 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
68650256 TTAATTTTAG
*
68650266 AAAAAGAAAAATATAAAATATAAA
1 AAAAAGAAAAAAATAAAATATAAA
*
68650290 AAAAAGAAAAACAATGAAATA-AAA
1 AAAAAGAAAAA-AATAAAATATAAA
68650314 AA
1 AA
68650316 TATAACTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (24 bp):
AAAAAGAAAAAAATAAAATATAAA
Found at i:68653745 original size:46 final size:46
Alignment explanation
Indices: 68653685--68653958 Score: 385
Period size: 46 Copynumber: 6.0 Consensus size: 46
68653675 TTTGACATGA
* * * * * *
68653685 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*** *
68653731 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
68653777 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
*
68653823 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*
68653869 TGCCATGGTATCTTTCAACCAT-GTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
68653914 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGG
68653959 AGCACACTCC
Statistics
Matches: 211, Mismatches: 13, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
45 52 0.25
46 156 0.74
47 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
Found at i:68653942 original size:91 final size:92
Alignment explanation
Indices: 68653685--68653958 Score: 424
Period size: 92 Copynumber: 3.0 Consensus size: 92
68653675 TTTGACATGA
* * * * * * *
68653685 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
*** *
68653750 CATGGTCTTGTTCATTTCATATCACGT
66 CATGGTCTTACACATTTCATATCAGGT
*
68653777 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
*
68653842 CATGGTCTTACACATTTTATATCAGGT
66 CATGGTCTTACACATTTCATATCAGGT
68653869 TGCCATGGTATCTTTCAACCAT-GTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
68653933 CATGGTCTTACACATTTCATATCAGG
66 CATGGTCTTACACATTTCATATCAGG
68653959 AGCACACTCC
Statistics
Matches: 167, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 66 0.40
92 101 0.60
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGT
Found at i:68656108 original size:11 final size:11
Alignment explanation
Indices: 68656092--68656143 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
68656082 TATACTAAAT
68656092 AAATAATAATA
1 AAATAATAATA
*
68656103 AAATAAT-ATT
1 AAATAATAATA
* *
68656113 AAATATCTCATA
1 AAATA-ATAATA
*
68656125 AAATATTAATA
1 AAATAATAATA
68656136 AAATAATA
1 AAATAATA
68656144 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:68657350 original size:18 final size:18
Alignment explanation
Indices: 68657317--68657428 Score: 82
Period size: 18 Copynumber: 6.2 Consensus size: 18
68657307 GGTTTCATTT
* *
68657317 AGTAACATTCAATTATTC
1 AGTAACAGTCAGTTATTC
* *
68657335 AGTAGCAGTTAGTTATTC
1 AGTAACAGTCAGTTATTC
* * **
68657353 AGTAACAATCATTTGCTC
1 AGTAACAGTCAGTTATTC
* * *
68657371 AATAGCAATCAGTTATTC
1 AGTAACAGTCAGTTATTC
*
68657389 AGTAAC-GATCAATTATTC
1 AGTAACAG-TCAGTTATTC
* *
68657407 AGTAACAGTTAGTCATTC
1 AGTAACAGTCAGTTATTC
68657425 AGTA
1 AGTA
68657429 CTTTTATTTA
Statistics
Matches: 70, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
18 69 0.99
19 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
AGTAACAGTCAGTTATTC
Found at i:68657377 original size:36 final size:36
Alignment explanation
Indices: 68657317--68657428 Score: 116
Period size: 36 Copynumber: 3.1 Consensus size: 36
68657307 GGTTTCATTT
* * *
68657317 AGTAACATTCAATTATTCAGTAGCAGTTAGTTATTC
1 AGTAACAATCAATTACTCAATAGCAGTTAGTTATTC
* * * *
68657353 AGTAACAATCATTTGCTCAATAGCAATCAGTTATTC
1 AGTAACAATCAATTACTCAATAGCAGTTAGTTATTC
* * * * *
68657389 AGTAACGATCAATTATTCAGTAACAGTTAGTCATTC
1 AGTAACAATCAATTACTCAATAGCAGTTAGTTATTC
68657425 AGTA
1 AGTA
68657429 CTTTTATTTA
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (36 bp):
AGTAACAATCAATTACTCAATAGCAGTTAGTTATTC
Found at i:68658365 original size:12 final size:11
Alignment explanation
Indices: 68658342--68658375 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
68658332 TTTGTTACTC
68658342 AATTTCTATTT
1 AATTTCTATTT
68658353 AATTTCTACTTT
1 AATTTCTA-TTT
*
68658365 AATTTCAATTT
1 AATTTCTATTT
68658376 TAATCTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (11 bp):
AATTTCTATTT
Found at i:68658677 original size:13 final size:13
Alignment explanation
Indices: 68658659--68658683 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68658649 TCAACTAAAT
68658659 TTCTAAAACTTCG
1 TTCTAAAACTTCG
68658672 TTCTAAAACTTC
1 TTCTAAAACTTC
68658684 TAAAACATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (13 bp):
TTCTAAAACTTCG
Found at i:68658862 original size:19 final size:21
Alignment explanation
Indices: 68658838--68658877 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
68658828 TTCATTTACT
*
68658838 TTATATATTAA-T-AATATAC
1 TTATATAATAAGTAAATATAC
68658857 TTATATAATAAGTAAATATAC
1 TTATATAATAAGTAAATATAC
68658878 ATGTATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (21 bp):
TTATATAATAAGTAAATATAC
Found at i:68661021 original size:13 final size:14
Alignment explanation
Indices: 68660997--68661025 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
68660987 GTGTATATGG
68660997 AAAATTCATTTTAA
1 AAAATTCATTTTAA
68661011 AAAATTC-TTTTAA
1 AAAATTCATTTTAA
68661024 AA
1 AA
68661026 TGGTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATTCATTTTAA
Found at i:68666355 original size:54 final size:55
Alignment explanation
Indices: 68666292--68666403 Score: 190
Period size: 54 Copynumber: 2.1 Consensus size: 55
68666282 CTTAAATATA
* * *
68666292 TAATTAAATTAACTATGGTAATGTCAATCACATGCA-TTTTTTCATGCATGGCCC
1 TAATTAAATTAACTATAGTAATGGCAACCACATGCATTTTTTTCATGCATGGCCC
68666346 TAATTAAATTAACTATAGTAATGGCAACCACATGCATTTTTTTCATGCATGGCCC
1 TAATTAAATTAACTATAGTAATGGCAACCACATGCATTTTTTTCATGCATGGCCC
68666401 TAA
1 TAA
68666404 AGAGGAGACA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
54 33 0.61
55 21 0.39
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (55 bp):
TAATTAAATTAACTATAGTAATGGCAACCACATGCATTTTTTTCATGCATGGCCC
Found at i:68669084 original size:2 final size:2
Alignment explanation
Indices: 68669077--68669152 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
68669067 AAGGGGACTT
68669077 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
68669119 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
68669153 TAAAGATAAT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:68671738 original size:38 final size:38
Alignment explanation
Indices: 68671696--68671774 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
68671686 ATATGTTGAT
68671696 ATTCTATCAAAATATAGTCAATTATTTACCCAAAATAA
1 ATTCTATCAAAATATAGTCAATTATTTACCCAAAATAA
68671734 ATTCTATCAAAATATAGTCAATTATTTACCCAAAATAA
1 ATTCTATCAAAATATAGTCAATTATTTACCCAAAATAA
68671772 ATT
1 ATT
68671775 TTGTATTTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (38 bp):
ATTCTATCAAAATATAGTCAATTATTTACCCAAAATAA
Found at i:68680132 original size:2 final size:2
Alignment explanation
Indices: 68680127--68680166 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
68680117 TCAAGTGATA
68680127 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68680167 TGCAAGGTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68687268 original size:133 final size:134
Alignment explanation
Indices: 68686948--68687347 Score: 522
Period size: 133 Copynumber: 3.0 Consensus size: 134
68686938 TTTAGAGAGT
* * * * * * * * *
68686948 ATGAGTGAAATTCTAAAAGAATC-TTCGATCATTTTGAACAAACAAGAGATCGCAACCCAGCACA
1 ATGAATGAAATTCTAAAGGGA-CATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACG
* ** * * * **
68687012 ATAGGGCACGATTCCCCGAATTGCTAAACATCGAACATTGCCTTCGTTTTGGAGAATTTTTAAAC
65 TTAGGGCACGATTCCGAGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAAAC
*
68687077 G---C
130 GAATA
* *
68687079 ATGAATGAAATTCTAAAGGGACATTCAATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGT
1 ATGAATGAAATTCTAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGT
* *
68687144 TAGGGCACGATTCCGTGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAA-TTTTAAAGG
66 TAGGGCACGATTCCGAGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAAACG
68687208 AATA
131 AATA
*
68687212 ATGAATGAAATTCTAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTACAACCCAGCACGT
1 ATGAATGAAATTCTAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGT
* * *
68687277 TAGGGCACGATTCCGAGAATTGTCAAATATCGAACACCGCCTTCGTTTTAAAGAATTTTTAAATG
66 TAGGGCACGATTCCGAGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAAACG
68687342 AATA
131 AATA
68687346 AT
1 AT
68687348 TGCAAAAATA
Statistics
Matches: 236, Mismatches: 28, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
130 9 0.04
131 99 0.42
133 114 0.48
134 14 0.06
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (134 bp):
ATGAATGAAATTCTAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGT
TAGGGCACGATTCCGAGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAAACG
AATA
Found at i:68688409 original size:34 final size:34
Alignment explanation
Indices: 68688371--68688439 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
68688361 GGAATTAATA
68688371 ATATATGTAGAATAAGAAAACTAAGTTAATCATG
1 ATATATGTAGAATAAGAAAACTAAGTTAATCATG
68688405 ATATATGTAGAATAAGAAAACTAAGTTAATCATG
1 ATATATGTAGAATAAGAAAACTAAGTTAATCATG
68688439 A
1 A
68688440 ATTCTATAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (34 bp):
ATATATGTAGAATAAGAAAACTAAGTTAATCATG
Found at i:68693650 original size:58 final size:58
Alignment explanation
Indices: 68693580--68693697 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
68693570 TTCCACTCAC
68693580 TTAGTTCTTTTGAGGTTGCCTTTTTTTTTTCATTATAAGATAATAATTAAATTTTAAT
1 TTAGTTCTTTTGAGGTTGCCTTTTTTTTTTCATTATAAGATAATAATTAAATTTTAAT
68693638 TTAGTTCTTTTGAGGTTGCCTTTTTTTTTTCATTATAAGATAATAATTAAATTTTAAT
1 TTAGTTCTTTTGAGGTTGCCTTTTTTTTTTCATTATAAGATAATAATTAAATTTTAAT
68693696 TT
1 TT
68693698 TAGCCCCACT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.56
Consensus pattern (58 bp):
TTAGTTCTTTTGAGGTTGCCTTTTTTTTTTCATTATAAGATAATAATTAAATTTTAAT
Found at i:68696432 original size:19 final size:18
Alignment explanation
Indices: 68696410--68696449 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
68696400 TGAATAAAAC
68696410 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
*
68696429 TTATCTAGCTAAATAAAT
1 TTATCTACCTAAATAAAT
68696447 TTA
1 TTA
68696450 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:68701018 original size:42 final size:42
Alignment explanation
Indices: 68700967--68701056 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
68700957 ACTTAAATAG
*
68700967 AGAAAATAGTTCTCTTATTCTAATAAACTACTAAAACATAAA
1 AGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAA
*
68701009 AGAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAA
1 AGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAA
*
68701051 ATAAAA
1 AGAAAA
68701057 ATATTATTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (42 bp):
AGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAA
Found at i:68701103 original size:19 final size:18
Alignment explanation
Indices: 68701081--68701120 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
68701071 TGAATAAAAC
*
68701081 TTATCTATCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
68701100 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
68701118 TTA
1 TTA
68701121 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:68716940 original size:121 final size:121
Alignment explanation
Indices: 68716787--68717018 Score: 414
Period size: 121 Copynumber: 1.9 Consensus size: 121
68716777 GTTTAGGGTC
*
68716787 AGATGAATGTGGACAATTAAACTTAGACATTCATTTGTTCAAATTTACTTT-GGAAGTGAAATAT
1 AGATGAATGTGGACAATTAAACTTAGACATTCATTTGTTCAAATTTA-TTTCGGAAGTGAAATAA
68716851 TTTTTTATTAATTTATATATATTTTTAAAAAAATTAAAGATTATATAGTTTAGATTA
65 TTTTTTATTAATTTATATATATTTTTAAAAAAATTAAAGATTATATAGTTTAGATTA
68716908 AGATGAATGTGGACAATTAAACTTA-AGCATTCATTTGTTCAAATTTATTTCGGAAGTGAAATAA
1 AGATGAATGTGGACAATTAAACTTAGA-CATTCATTTGTTCAAATTTATTTCGGAAGTGAAATAA
*
68716972 TTTTTTATTAATTTATATATTTTTTTAAAAAAATTAAAGATTATATA
65 TTTTTTATTAATTTATATATATTTTTAAAAAAATTAAAGATTATATA
68717019 ATTTCTTTTT
Statistics
Matches: 107, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
120 4 0.04
121 103 0.96
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (121 bp):
AGATGAATGTGGACAATTAAACTTAGACATTCATTTGTTCAAATTTATTTCGGAAGTGAAATAAT
TTTTTATTAATTTATATATATTTTTAAAAAAATTAAAGATTATATAGTTTAGATTA
Found at i:68717514 original size:3 final size:3
Alignment explanation
Indices: 68717506--68717556 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
68717496 CGTCTGCCAT
*
68717506 GTC GTC GTC GTC GTC GTC TTC GTC GTC GTC GTC GTC GTC GTC GTC GTC
1 GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC
68717554 GTC
1 GTC
68717557 TTCCTTGCCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.00, C:0.33, G:0.31, T:0.35
Consensus pattern (3 bp):
GTC
Found at i:68719093 original size:15 final size:16
Alignment explanation
Indices: 68719059--68719093 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
68719049 TCTTGATGCC
*
68719059 AAAATCTACCTTGAGA
1 AAAACCTACCTTGAGA
68719075 AAAACCTACCTTGAGA
1 AAAACCTACCTTGAGA
68719091 AAA
1 AAA
68719094 TTAATATGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.20, G:0.11, T:0.20
Consensus pattern (16 bp):
AAAACCTACCTTGAGA
Found at i:68726545 original size:17 final size:19
Alignment explanation
Indices: 68726506--68726545 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
68726496 TACAATCTAG
*
68726506 ACAGAGAAGTTTTATAATC
1 ACAGAGAAGTTTTATAAGC
68726525 -CAGA-AAGTTTTA-AAGC
1 ACAGAGAAGTTTTATAAGC
68726541 ACAGA
1 ACAGA
68726546 TGAGAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 3 0.16
17 12 0.63
18 4 0.21
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.25
Consensus pattern (19 bp):
ACAGAGAAGTTTTATAAGC
Found at i:68727515 original size:20 final size:20
Alignment explanation
Indices: 68727482--68727519 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
68727472 AAAAGAAGGA
*
68727482 AAAGAGGGTAGTGAAAAAAT
1 AAAGAAGGTAGTGAAAAAAT
*
68727502 AAAGAAGGTCGTGAAAAA
1 AAAGAAGGTAGTGAAAAA
68727520 GTTTTACCAT
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:0.55, C:0.03, G:0.29, T:0.13
Consensus pattern (20 bp):
AAAGAAGGTAGTGAAAAAAT
Found at i:68736200 original size:40 final size:40
Alignment explanation
Indices: 68736156--68736347 Score: 242
Period size: 40 Copynumber: 4.8 Consensus size: 40
68736146 ATAGCCACAA
* * *
68736156 GCACAATTGTCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGGTATAACAACTC
* * *
68736196 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGGTATAACAACTC
*
68736236 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGGTATAACAACTC
* * * *
68736276 GCACAAATGCCTTCGGGTCTTAGCTCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGGTATAA-CAACTC
* * *
68736316 GCATAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGGTAT
68736348 CATTCAAATG
Statistics
Matches: 132, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
40 131 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGGTATAACAACTC
Found at i:68736259 original size:80 final size:80
Alignment explanation
Indices: 68736136--68736347 Score: 318
Period size: 80 Copynumber: 2.7 Consensus size: 80
68736126 TCTTCGGAAT
* * * *
68736136 TTAG-CCGGATATAGCCACAAGCACAATTGTCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAACAACTCGCAC
68736200 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
68736215 TTAGCCCGGATATAACCACTCGCACAATTGCCTTCGGGTCTTAACCCGGGTATAACAACTCGCAC
1 TTAGCCCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAACAACTCGCAC
68736280 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * * * * *
68736295 TTAGCTCGGATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 TTAGCCCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTAT
68736348 CATTCAAATG
Statistics
Matches: 120, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 4 0.03
80 116 0.97
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAACAACTCGCAC
AAATGCCTTCGGGTC
Found at i:68737587 original size:4 final size:4
Alignment explanation
Indices: 68737578--68737606 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
68737568 AGCAAACGTG
68737578 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
68737607 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:68738434 original size:47 final size:47
Alignment explanation
Indices: 68738370--68738480 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
68738360 GACATTGAGT
*
68738370 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
68738417 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
68738464 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
68738481 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:68742311 original size:11 final size:11
Alignment explanation
Indices: 68742295--68742324 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
68742285 AACCAAAAAT
68742295 ATATTTTTTTA
1 ATATTTTTTTA
68742306 ATA-TTTTTTA
1 ATATTTTTTTA
68742316 ATATTTTTT
1 ATATTTTTT
68742325 ATTTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATATTTTTTTA
Found at i:68742322 original size:9 final size:10
Alignment explanation
Indices: 68742299--68742325 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
68742289 AAAAATATAT
68742299 TTTTTTAATA
1 TTTTTTAATA
68742309 TTTTTTAATA
1 TTTTTTAATA
68742319 TTTTTTA
1 TTTTTTA
68742326 TTTAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTAATA
Found at i:68770080 original size:16 final size:17
Alignment explanation
Indices: 68770059--68770096 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
68770049 TTATATTTAA
68770059 TAATATAA-TGAATTAT
1 TAATATAACTGAATTAT
* *
68770075 TAATATAACTTAATTTT
1 TAATATAACTGAATTAT
68770092 TAATA
1 TAATA
68770097 AATTATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
TAATATAACTGAATTAT
Found at i:68775130 original size:17 final size:18
Alignment explanation
Indices: 68775094--68775131 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
68775084 TTGGGCCGGG
68775094 CACTAGTCTCTTCATAAA
1 CACTAGTCTCTTCATAAA
* *
68775112 CACTAGT-TTTTCTTAAA
1 CACTAGTCTCTTCATAAA
68775129 CAC
1 CAC
68775132 AAGCACTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (18 bp):
CACTAGTCTCTTCATAAA
Found at i:68775513 original size:40 final size:40
Alignment explanation
Indices: 68775469--68775547 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
68775459 ATTTCATGAT
* * *
68775469 TTTTAGTTTTTATACTTTTTGAGTTTTAAAATTTTAATCA
1 TTTTAATTTTTATACTTTTTGAATTTTAAAATTTCAATCA
68775509 TTTTAATTTTTATACTTTTTGAATTTTAAAATTTCAATC
1 TTTTAATTTTTATACTTTTTGAATTTTAAAATTTCAATC
68775548 TCAATCAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.59
Consensus pattern (40 bp):
TTTTAATTTTTATACTTTTTGAATTTTAAAATTTCAATCA
Found at i:68776928 original size:92 final size:93
Alignment explanation
Indices: 68776798--68776982 Score: 345
Period size: 92 Copynumber: 2.0 Consensus size: 93
68776788 AGCAATCCTT
68776798 TTCTTCGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGATTAGAGATTTTGTTTTGGGTTTAAT
1 TTCTTCGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGATTAGAGATTTTGTTTTGGGTTTAAT
68776863 TGTTGATTCATCTTTTTTCTATTATTTC
66 TGTTGATTCATCTTTTTTCTATTATTTC
* *
68776891 TTCTTCGCTTTTATTTAC-TTTGTTAGGATTGAGCTCTGATTAGAGGTTTTGTTTTGGGTTTAAT
1 TTCTTCGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGATTAGAGATTTTGTTTTGGGTTTAAT
68776955 TGTTGATTCATCTTTTTTCTATTATTTC
66 TGTTGATTCATCTTTTTTCTATTATTTC
68776983 CTGGCAGCTC
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 73 0.81
93 17 0.19
ACGTcount: A:0.16, C:0.11, G:0.17, T:0.56
Consensus pattern (93 bp):
TTCTTCGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGATTAGAGATTTTGTTTTGGGTTTAAT
TGTTGATTCATCTTTTTTCTATTATTTC
Found at i:68777871 original size:21 final size:21
Alignment explanation
Indices: 68777845--68777889 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
68777835 AGGTGGTAAT
*
68777845 TCTGAAGGTTCCTTGAACTCA
1 TCTGAAGATTCCTTGAACTCA
68777866 TCTGAAGATTCCTTGAACTCA
1 TCTGAAGATTCCTTGAACTCA
68777887 TCT
1 TCT
68777890 AAGTAGGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (21 bp):
TCTGAAGATTCCTTGAACTCA
Found at i:68783163 original size:20 final size:21
Alignment explanation
Indices: 68783135--68783175 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
68783125 TTCAATTCTA
68783135 AAATATTAAAT-GATTTATTT
1 AAATATTAAATCGATTTATTT
* *
68783155 AAATTTTAAATCTATTTATTT
1 AAATATTAAATCGATTTATTT
68783176 TTAAGTCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
AAATATTAAATCGATTTATTT
Found at i:68783721 original size:22 final size:22
Alignment explanation
Indices: 68783695--68783744 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
68783685 ACTCTAGTGG
*
68783695 ATATTTTGAGAAAATAAAA-AAA
1 ATATTTT-AAAAAATAAAATAAA
68783717 ATA-TTTAAAAAATAAAATAAA
1 ATATTTTAAAAAATAAAATAAA
68783738 A-ATTTTA
1 ATATTTTA
68783745 TTTTAGGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 11 0.44
21 11 0.44
22 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (22 bp):
ATATTTTAAAAAATAAAATAAA
Found at i:68783936 original size:29 final size:30
Alignment explanation
Indices: 68783904--68783965 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
68783894 CAATTTGATG
*
68783904 CATGAAA-TTTGATTTG-ATACAATTATACA
1 CATGAAACTTTGATTTGAAT-CAAATATACA
*
68783933 CATGAAACTTTTATTTGAATCAAATATACA
1 CATGAAACTTTGATTTGAATCAAATATACA
68783963 CAT
1 CAT
68783966 TTAAAGGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 7 0.24
30 20 0.69
31 2 0.07
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (30 bp):
CATGAAACTTTGATTTGAATCAAATATACA
Found at i:68784167 original size:31 final size:29
Alignment explanation
Indices: 68784090--68784167 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
68784080 AAATTTGATC
* *
68784090 AAATCAAAATTCCATATATAAAATTGCACA
1 AAATCAAAATT-CATGTATAAAATTACACA
* * *
68784120 AAACCAAAGTTCATGTATAGAATTACACA
1 AAATCAAAATTCATGTATAAAATTACACA
68784149 TTAAATCAAAATTCATGTA
1 --AAATCAAAATTCATGTA
68784168 AGTGTCACGG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 15 0.38
30 9 0.23
31 15 0.38
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.28
Consensus pattern (29 bp):
AAATCAAAATTCATGTATAAAATTACACA
Found at i:68792817 original size:2 final size:2
Alignment explanation
Indices: 68792810--68792839 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
68792800 AGATAAAAGA
*
68792810 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68792840 TTCTTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:68798271 original size:3 final size:3
Alignment explanation
Indices: 68798263--68798288 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
68798253 AGAGTTGAAC
68798263 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
68798289 TGGTTCTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:68808171 original size:13 final size:14
Alignment explanation
Indices: 68808146--68808178 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
68808136 TTTTCTCATC
68808146 TTCT-TCCCAAAAA
1 TTCTATCCCAAAAA
68808159 TTCTATCCCAAAAA
1 TTCTATCCCAAAAA
68808173 TTCTAT
1 TTCTAT
68808179 GGAGACTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (14 bp):
TTCTATCCCAAAAA
Found at i:68814397 original size:13 final size:13
Alignment explanation
Indices: 68814381--68814414 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
68814371 TTCTCCGTAA
68814381 TCGTTCTGTTGAT
1 TCGTTCTGTTGAT
68814394 TCGTTCTGTTGAT
1 TCGTTCTGTTGAT
68814407 TCGTTCTG
1 TCGTTCTG
68814415 CAACGCCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.06, C:0.18, G:0.24, T:0.53
Consensus pattern (13 bp):
TCGTTCTGTTGAT
Found at i:68836752 original size:42 final size:42
Alignment explanation
Indices: 68836594--68836743 Score: 113
Period size: 42 Copynumber: 3.6 Consensus size: 42
68836584 TTGTGTTTAC
* * * ** * * *
68836594 TTTCCGTTTAGCTCTCACAAGCTTTTGTTTAACTCATATGAG
1 TTTCTGTTCAGCTCTCACGAGCTTTCATTCAACACTTATGAG
*** * * * *
68836636 TTT-TCGTTCAGCTCTTTTGAACTTTTATTTAACCCTTATGAG
1 TTTCT-GTTCAGCTCTCACGAGCTTTCATTCAACACTTATGAG
* *
68836678 TTTCTGTTCAGCTCTTACGAGCTTTCATTCAACACTTATGGG
1 TTTCTGTTCAGCTCTCACGAGCTTTCATTCAACACTTATGAG
* *
68836720 TTTCTGTTTAGCTCTCATGAGCTT
1 TTTCTGTTCAGCTCTCACGAGCTT
68836744 CTGTTCAACC
Statistics
Matches: 86, Mismatches: 20, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
42 85 0.99
43 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTCACGAGCTTTCATTCAACACTTATGAG
Found at i:68839302 original size:31 final size:31
Alignment explanation
Indices: 68839267--68839327 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
68839257 TGCACTACTG
68839267 TACTTTCTCAACTTAATTTTACTAGTCCAAT
1 TACTTTCTCAACTTAATTTTACTAGTCCAAT
68839298 TACTTTCTCAACTTAATTTTACTAGTCCAA
1 TACTTTCTCAACTTAATTTTACTAGTCCAA
68839328 GGCTTATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.44
Consensus pattern (31 bp):
TACTTTCTCAACTTAATTTTACTAGTCCAAT
Found at i:68842701 original size:16 final size:17
Alignment explanation
Indices: 68842680--68842725 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
68842670 AGCAGGGGTG
68842680 GAGAAAGGGAGAGGA-A
1 GAGAAAGGGAGAGGAGA
*
68842696 GAGAAAGAGAGA-GAGA
1 GAGAAAGGGAGAGGAGA
68842712 GAGAAAAGGGAGAG
1 GAG-AAAGGGAGAG
68842726 AGGGTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 2 0.08
16 15 0.60
17 8 0.32
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (17 bp):
GAGAAAGGGAGAGGAGA
Found at i:68855298 original size:23 final size:23
Alignment explanation
Indices: 68855268--68855312 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
68855258 AACACCGTAC
68855268 GAATTTATTATTGACAATAAGAA
1 GAATTTATTATTGACAATAAGAA
*
68855291 GAATTTATTATTGACCATAAGA
1 GAATTTATTATTGACAATAAGA
68855313 GAAAAACTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (23 bp):
GAATTTATTATTGACAATAAGAA
Found at i:68857200 original size:39 final size:38
Alignment explanation
Indices: 68857157--68857245 Score: 90
Period size: 39 Copynumber: 2.3 Consensus size: 38
68857147 TATTGGCATC
** *
68857157 TTAATATTTTTTTTAATGTTTATGTTATAATATTATAT-A
1 TTAATATTTTTAGT-ATGTTTATGTTATAA-ATTACATAA
* *
68857196 TTAATATGATTTAGTATTTTTATGTTATAAATTACATAA
1 TTAATAT-TTTTAGTATGTTTATGTTATAAATTACATAA
68857235 TATAATATTTT
1 T-TAATATTTT
68857246 AACAAATTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
38 6 0.15
39 25 0.61
40 10 0.24
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (38 bp):
TTAATATTTTTAGTATGTTTATGTTATAAATTACATAA
Found at i:68858565 original size:2 final size:2
Alignment explanation
Indices: 68858558--68858589 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
68858548 AAGTAGTAGG
68858558 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
68858590 AACTGGCTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:68862235 original size:19 final size:19
Alignment explanation
Indices: 68862211--68862249 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
68862201 CAAGATTAGC
68862211 TGCAACATGCTTTCCTTCG
1 TGCAACATGCTTTCCTTCG
68862230 TGCAACATGCTTTCCTTCG
1 TGCAACATGCTTTCCTTCG
68862249 T
1 T
68862250 ACGGGGGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (19 bp):
TGCAACATGCTTTCCTTCG
Found at i:68863149 original size:28 final size:28
Alignment explanation
Indices: 68863104--68863159 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
68863094 GGGCTTGAAT
* * *
68863104 AATATTATTTTATAAATTATAAATTATA
1 AATATTATTTTAAAAATTAAAAAATATA
68863132 AATA-TATTTTAAATAATTAAAAAATATA
1 AATATTATTTTAAA-AATTAAAAAATATA
68863160 TTAAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
AATATTATTTTAAAAATTAAAAAATATA
Found at i:68863163 original size:20 final size:21
Alignment explanation
Indices: 68863125--68863164 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
68863115 ATAAATTATA
* *
68863125 AATTATAAATATATTTTAAAT
1 AATTATAAAAATATATTAAAT
68863146 AATTA-AAAAATATATTAAA
1 AATTATAAAAATATATTAAA
68863165 ATTTTCTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTATAAAAATATATTAAAT
Found at i:68868360 original size:14 final size:13
Alignment explanation
Indices: 68868339--68868376 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
68868329 GTCTTTTCTC
68868339 TTTA-TTTATTTA
1 TTTATTTTATTTA
68868351 TTTTATTTTATTTA
1 -TTTATTTTATTTA
68868365 TTTATTATTATT
1 TTTATT-TTATT
68868377 AACTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTTATTTA
Done.