Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 280 of 325
Found at i:89646231 original size:34 final size:34
Alignment explanation
Indices: 89646138--89646220 Score: 148
Period size: 34 Copynumber: 2.4 Consensus size: 34
89646128 TAAAAATATT
*
89646138 TATCTAATTTATTTTAAACAGAATATCATCCATA
1 TATCTAATTTATTTTAAACAAAATATCATCCATA
89646172 TATCTAATTTATTTTAAACAAAATATCATCCATA
1 TATCTAATTTATTTTAAACAAAATATCATCCATA
89646206 TAATCTAATTTATTT
1 T-ATCTAATTTATTT
89646221 AAGTTAAATA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
34 34 0.72
35 13 0.28
ACGTcount: A:0.41, C:0.13, G:0.01, T:0.45
Consensus pattern (34 bp):
TATCTAATTTATTTTAAACAAAATATCATCCATA
Found at i:89649500 original size:20 final size:18
Alignment explanation
Indices: 89649471--89649510 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
89649461 ACATTAATTT
89649471 ATTTTAATATTAAATTAAAA
1 ATTTTAATA-T-AATTAAAA
*
89649491 ATTTTTATATAATTAAAA
1 ATTTTAATATAATTAAAA
89649509 AT
1 AT
89649511 GTCACTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 1 0.05
20 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTTAATATAATTAAAA
Found at i:89650000 original size:18 final size:18
Alignment explanation
Indices: 89649967--89650001 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
89649957 AATTAATATT
89649967 TTAATTTATTTAGAAAAC
1 TTAATTTATTTAGAAAAC
89649985 TTAATATTATTT-GAAAA
1 TTAAT-TTATTTAGAAAA
89650002 TTCCATAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (18 bp):
TTAATTTATTTAGAAAAC
Found at i:89655902 original size:26 final size:26
Alignment explanation
Indices: 89655873--89655925 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
89655863 TTGTAAAAGA
*
89655873 TAGAGATAAATAAAGTGAATCAAATC
1 TAGAGATAAATAAAGTCAATCAAATC
89655899 TAGAGATAAATAAAGTCAATCAAATC
1 TAGAGATAAATAAAGTCAATCAAATC
89655925 T
1 T
89655926 GAATATGGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.25
Consensus pattern (26 bp):
TAGAGATAAATAAAGTCAATCAAATC
Found at i:89657997 original size:38 final size:37
Alignment explanation
Indices: 89657946--89658066 Score: 136
Period size: 38 Copynumber: 3.2 Consensus size: 37
89657936 AGAAGTATAT
* *
89657946 TGTTATTCGGGCTTTGTGCCTAGTAGACTTTGTGACG
1 TGTTATTCGGGCTTTGTGCCTAGCAGACTTTGTGCCG
* **
89657983 CTGTTATTCGGGCTTTGTGCCTAACAGGTTTTGTGCCAG
1 -TGTTATTCGGGCTTTGTGCCTAGCAGACTTTGTGCC-G
* *
89658022 TGTTATTCTGGCTTTATGCCTAGCA-AGCTTTGTGCCGG
1 TGTTATTCGGGCTTTGTGCCTAGCAGA-CTTTGTGCC-G
89658060 TGTTATT
1 TGTTATT
89658067 AAGTCTTTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
38 69 0.99
39 1 0.01
ACGTcount: A:0.13, C:0.18, G:0.27, T:0.41
Consensus pattern (37 bp):
TGTTATTCGGGCTTTGTGCCTAGCAGACTTTGTGCCG
Found at i:89658089 original size:21 final size:22
Alignment explanation
Indices: 89658049--89658089 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
89658039 GCCTAGCAAG
*
89658049 CTTTGTGCCGGTGTTATTAAGT
1 CTTTGTGCCAGTGTTATTAAGT
89658071 CTTTGTGCCAGTG-TATTAA
1 CTTTGTGCCAGTGTTATTAA
89658090 AAGTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.15, G:0.24, T:0.44
Consensus pattern (22 bp):
CTTTGTGCCAGTGTTATTAAGT
Found at i:89660420 original size:26 final size:29
Alignment explanation
Indices: 89660360--89660421 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 29
89660350 AAATTATAAA
*
89660360 AATTTTATGGTAAGAATATATATGAGTCT
1 AATTTTATGGTAAGAATATATAGGAGTCT
*
89660389 AGTTTTATGG-AA-AAT-TATAGGA-TCTT
1 AATTTTATGGTAAGAATATATAGGAGTC-T
89660415 AATTTTA
1 AATTTTA
89660422 AGTTCTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 2 0.07
26 13 0.45
27 3 0.10
28 2 0.07
29 9 0.31
ACGTcount: A:0.37, C:0.03, G:0.16, T:0.44
Consensus pattern (29 bp):
AATTTTATGGTAAGAATATATAGGAGTCT
Found at i:89668571 original size:11 final size:11
Alignment explanation
Indices: 89668555--89668581 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
89668545 CGTCCAAAGT
89668555 ATAATACTGAC
1 ATAATACTGAC
89668566 ATAATACTGAC
1 ATAATACTGAC
89668577 ATAAT
1 ATAAT
89668582 TACATTACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (11 bp):
ATAATACTGAC
Found at i:89693544 original size:24 final size:24
Alignment explanation
Indices: 89693517--89693567 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
89693507 TTTTTATTTC
89693517 AATATAATTAATTTTGAAATGTGT
1 AATATAATTAATTTTGAAATGTGT
89693541 AATATAATTAATTTTGAAATGTGT
1 AATATAATTAATTTTGAAATGTGT
89693565 AAT
1 AAT
89693568 GAATAAGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (24 bp):
AATATAATTAATTTTGAAATGTGT
Found at i:89694621 original size:31 final size:31
Alignment explanation
Indices: 89694575--89694651 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
89694565 ATAACATCGA
*
89694575 TTTC-AATAGTCCAATAACTTAAATAAAAAC
1 TTTCGAATAGTTCAATAACTTAAATAAAAAC
* ** *
89694605 TTTTGAATAGTTCAATAGTTTAAATGAAAAC
1 TTTCGAATAGTTCAATAACTTAAATAAAAAC
*
89694636 TTTCGAGTAGTTCAAT
1 TTTCGAATAGTTCAAT
89694652 GATCAAATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 3 0.08
31 36 0.92
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (31 bp):
TTTCGAATAGTTCAATAACTTAAATAAAAAC
Found at i:89695211 original size:25 final size:24
Alignment explanation
Indices: 89695177--89695225 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
89695167 AATTTAAAAT
89695177 TTATATTAATATTAAATAAATATAA
1 TTATATTAATATTAAATAAA-ATAA
*
89695202 TTATATTAATATTACATAAAATAA
1 TTATATTAATATTAAATAAAATAA
89695226 AAATCCCCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATATTAATATTAAATAAAATAA
Found at i:89695518 original size:6 final size:6
Alignment explanation
Indices: 89695509--89695535 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
89695499 GTGGGGAAGG
89695509 GGGAGA GGGAGA GGGAGA GGGAGA GGG
1 GGGAGA GGGAGA GGGAGA GGGAGA GGG
89695536 GTTTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.70, T:0.00
Consensus pattern (6 bp):
GGGAGA
Found at i:89695612 original size:12 final size:12
Alignment explanation
Indices: 89695581--89695606 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
89695571 ATATTTATTT
89695581 AATATTAATATA
1 AATATTAATATA
89695593 AATATTAATATA
1 AATATTAATATA
89695605 AA
1 AA
89695607 ATTTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATTAATATA
Found at i:89695748 original size:10 final size:10
Alignment explanation
Indices: 89695694--89695755 Score: 56
Period size: 10 Copynumber: 6.2 Consensus size: 10
89695684 TACTTTTTAG
89695694 TTTTATATAT
1 TTTTATATAT
89695704 TTTTA-A-AT
1 TTTTATATAT
89695712 TTATTATTATAT
1 TT-TTA-TATAT
* *
89695724 TTTTAAAAAT
1 TTTTATATAT
* *
89695734 ATTTATGTAT
1 TTTTATATAT
89695744 TTTTATATAT
1 TTTTATATAT
89695754 TT
1 TT
89695756 CTTTTAATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
8 4 0.10
9 4 0.10
10 24 0.60
11 4 0.10
12 4 0.10
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATATAT
Found at i:89695751 original size:48 final size:47
Alignment explanation
Indices: 89695608--89695751 Score: 116
Period size: 48 Copynumber: 3.0 Consensus size: 47
89695598 TAATATAAAA
* *
89695608 TTTAAATTTATTTATTATATTCTTTTGAAAATATTTATT-TTTATATA-T
1 TTTAAATTTA-TTATTATA-T-TTTTAAAAATATTTATTATTTTTATATT
* * * * * *
89695656 TTTATATATTATTATT-TCTTGTCAAGATTACTTT-TTAGTTTTATATATT
1 TTTAAAT-TTATTATTATATTTTTAAAAATA-TTTATTA-TTTT-TATATT
89695705 TTTAAATTTATTATTATATTTTTAAAAATATTTATGTATTTTTATAT
1 TTTAAATTTATTATTATATTTTTAAAAATATTTAT-TATTTTTATAT
89695752 ATTTCTTTTA
Statistics
Matches: 73, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
45 8 0.11
46 4 0.05
47 4 0.05
48 31 0.42
49 24 0.33
50 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (47 bp):
TTTAAATTTATTATTATATTTTTAAAAATATTTATTATTTTTATATT
Found at i:89702945 original size:105 final size:106
Alignment explanation
Indices: 89702772--89703021 Score: 265
Period size: 105 Copynumber: 2.4 Consensus size: 106
89702762 AGAATGAAAA
* * * * *
89702772 AATTGAATTGATAAACCATTGTTGTCGGGTAAT-CGGAGGTGGTAAGCCATCGTTGTGGGGTAAC
1 AATTGAATCGATAAACCATCGTTGTCGGGCAATCCAG-GGTGGTAAGCCATCGTTGTGGGGCAAC
* *
89702836 CTGGGG-GTG-GTTCATCATTGCTAGGAAACCCAACATGATAG
65 CTGGGGTG-GAGGTCATCATTACTAGGAAACCCAACATGATAG
* * *
89702877 AATTAAATCGATAAACCATCGTTGTCGGGCAATCCAGGGTGGTAAGCCATTGTTGCT-GGGCAAT
1 AATTGAATCGATAAACCATCGTTGTCGGGCAATCCAGGGTGGTAAGCCATCGTTG-TGGGGCAAC
* * * * ***
89702941 CTGGGGTGGCAGGTCATCGTTACTGGGCAGCCCGGGATGATAG
65 CTGGGGTGG-AGGTCATCATTACTAGGAAACCCAACATGATAG
* *
89702984 AATTGAATCGATAAACCATCATTGTCGAGCAATCCAGG
1 AATTGAATCGATAAACCATCGTTGTCGGGCAATCCAGG
89703022 ATGGCATGTC
Statistics
Matches: 120, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
105 58 0.48
106 4 0.03
107 58 0.48
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (106 bp):
AATTGAATCGATAAACCATCGTTGTCGGGCAATCCAGGGTGGTAAGCCATCGTTGTGGGGCAACC
TGGGGTGGAGGTCATCATTACTAGGAAACCCAACATGATAG
Found at i:89719071 original size:15 final size:15
Alignment explanation
Indices: 89719047--89719086 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
89719037 TGTAAATTGA
*
89719047 ATTTCCTTATCATGG
1 ATTTCTTTATCATGG
*
89719062 ATTTCTTTATCTTGG
1 ATTTCTTTATCATGG
89719077 ATTTCTTTAT
1 ATTTCTTTAT
89719087 TCTGGGCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.17, C:0.15, G:0.10, T:0.57
Consensus pattern (15 bp):
ATTTCTTTATCATGG
Found at i:89722332 original size:17 final size:17
Alignment explanation
Indices: 89722312--89722345 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
89722302 TATCCTATAC
89722312 TTGGAATGTATGACTAA
1 TTGGAATGTATGACTAA
89722329 TTGGAATGTATGACTAA
1 TTGGAATGTATGACTAA
89722346 GTGTGCCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (17 bp):
TTGGAATGTATGACTAA
Found at i:89725236 original size:15 final size:16
Alignment explanation
Indices: 89725218--89725251 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
89725208 AAATTAAATT
*
89725218 AATTAA-CTAGATGCA
1 AATTAACCTAAATGCA
89725233 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
89725249 AAT
1 AAT
89725252 GATATCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:89727827 original size:15 final size:15
Alignment explanation
Indices: 89727807--89727836 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
89727797 GTGAAGTGAT
89727807 AACATGGTGATTGAA
1 AACATGGTGATTGAA
89727822 AACATGGTGATTGAA
1 AACATGGTGATTGAA
89727837 GCATGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
AACATGGTGATTGAA
Found at i:89729230 original size:88 final size:88
Alignment explanation
Indices: 89729088--89729263 Score: 343
Period size: 88 Copynumber: 2.0 Consensus size: 88
89729078 AGGGCTTATG
*
89729088 CCTGGAAGAGATGAAAGAAAGATGAAAGGAATGTGAGTTGAAGGATGGGTGAATAATAAGTTAGG
1 CCTGGAAGAGATGAAAGAAAGATGAAAGGAATGTGAGTTGAAGGATGGGTGAATAATAAGTGAGG
89729153 GGTGGTATTTATAGTAGAGGGAT
66 GGTGGTATTTATAGTAGAGGGAT
89729176 CCTGGAAGAGATGAAAGAAAGATGAAAGGAATGTGAGTTGAAGGATGGGTGAATAATAAGTGAGG
1 CCTGGAAGAGATGAAAGAAAGATGAAAGGAATGTGAGTTGAAGGATGGGTGAATAATAAGTGAGG
89729241 GGTGGTATTTATAGTAGAGGGAT
66 GGTGGTATTTATAGTAGAGGGAT
89729264 GGCATATGAG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.38, C:0.02, G:0.37, T:0.23
Consensus pattern (88 bp):
CCTGGAAGAGATGAAAGAAAGATGAAAGGAATGTGAGTTGAAGGATGGGTGAATAATAAGTGAGG
GGTGGTATTTATAGTAGAGGGAT
Found at i:89731335 original size:16 final size:15
Alignment explanation
Indices: 89731304--89731344 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
89731294 TTATTTATTA
89731304 AATTAATTTT-AATT
1 AATTAATTTTCAATT
89731318 AATTAATTTTCCAATT
1 AATTAATTTT-CAATT
*
89731334 AAATAATTTTC
1 AATTAATTTTC
89731345 TCAACTCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 10 0.42
15 1 0.04
16 13 0.54
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:89743331 original size:23 final size:23
Alignment explanation
Indices: 89743305--89743349 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
89743295 TGGGTATGTG
*
89743305 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
89743328 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
89743350 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:89744042 original size:27 final size:26
Alignment explanation
Indices: 89744012--89744108 Score: 79
Period size: 27 Copynumber: 3.6 Consensus size: 26
89744002 CGTCTCTTTG
*
89744012 GACTATCTCGTGTTTAATATCCTATCA
1 GACTATC-CGTGTTTAACATCCTATCA
* * *
89744039 GACTATCCCATGTTTAGCATCCTGTCA
1 GACTAT-CCGTGTTTAACATCCTATCA
* **
89744066 AACTATCCTGTGTTTAACATCAC-ATTG
1 GACTATCC-GTGTTTAACATC-CTATCA
89744093 GACTATCCGGTGTTTA
1 GACTATCC-GTGTTTA
89744109 TTGTCCCATT
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
26 2 0.04
27 51 0.93
28 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (26 bp):
GACTATCCGTGTTTAACATCCTATCA
Found at i:89746977 original size:48 final size:47
Alignment explanation
Indices: 89746881--89747098 Score: 189
Period size: 48 Copynumber: 4.6 Consensus size: 47
89746871 TGTAAGCCAA
* * * * *
89746881 TGTAAGA-CATATTTGGGACAT-GCATCGGCTACG--AGATGTGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAC-ACGATAGAGGTGTCAG
*
89746925 TGTAAGACCATGTCTAGGACATGGCATCGACACGTATAGAGGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACACG-ATAGAGGTGTCAG
* * *
89746973 TGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAG-CTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACAC-GATA-GAG-GTGTC-AG
* ** * *
89747023 TGTAAGACCATGTCTGGGACATGGCATTGACTTGAT-GA-ATAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACACGATAGAGGT--GTCAG
89747070 TGTAAGACCATGTCTGGGACATGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
89747099 GTATTATACC
Statistics
Matches: 144, Mismatches: 18, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
44 7 0.05
45 14 0.10
46 7 0.05
47 32 0.22
48 44 0.31
49 7 0.05
50 33 0.23
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACACGATAGAGGTGTCAG
Found at i:89747090 original size:47 final size:50
Alignment explanation
Indices: 89746923--89747099 Score: 199
Period size: 48 Copynumber: 3.6 Consensus size: 50
89746913 GAGATGTGTT
* * * *
89746923 AGTGTAAGACCATGTCTAGGACATGGCATCGACAC-G-TATA-GAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATATGA-GAGCC
* *
89746971 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATATGAGAGCC
* *
89747021 AGTGTAAGACCATGTCTGGGACATGGCAT-TG-ACTTGATGA-AT-A-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGAT-ATATGAGAGCC
89747068 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
89747100 TATTATACCC
Statistics
Matches: 112, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
47 32 0.29
48 37 0.33
49 6 0.05
50 35 0.31
51 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATATGAGAGCC
Found at i:89747095 original size:97 final size:98
Alignment explanation
Indices: 89746736--89747099 Score: 266
Period size: 94 Copynumber: 3.8 Consensus size: 98
89746726 TTATTTGTGT
* * * *
89746736 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-CATATTAAGAGAT-CCAGTGTGAGACTA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGACACGTA-T-AGAGATGCCAGTGTAAGACCA
* * * ** * *
89746797 TGTTTAGGACATGGCATCAGCATTGAGA-CT-AGA
64 TGTCTGGGACATGGCATCGGCACGGATATGTGAGA
* * * * * *
89746830 GCAAGTGTAAGA-CATGTCTAAGACAT-GTATCGGC-C-T-TGAGATGTAAGCCAATGTAAGA-C
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGACACGTAT-AGA-G-ATGCCAGTGTAAGACC
* * *
89746889 ATATTTGGGACAT-GCATCGGCTAC-GAGATGT----
63 ATGTCTGGGACATGGCATCGGC-ACGGATATGTGAGA
* * *
89746920 GTTAGTGTAAGACCATGTCTAGGACATGGCATCGACACGTATAGAGGTGTCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGACACGTATAGAGATGCCAGTGTAAGACCATG
89746985 TCTGGGACATGGCATCGGCACGGATATGTGAGA
66 TCTGGGACATGGCATCGGCACGGATATGTGAGA
* * **
89747018 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGACTTG-AT-GA-ATAAGCCAGTGTAAGACCA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGACACGTATAGAGAT--GCCAGTGTAAGACCA
89747080 TGTCTGGGACATGGCATCGG
64 TGTCTGGGACATGGCATCGG
89747100 TATTATACCC
Statistics
Matches: 219, Mismatches: 32, Indels: 35
0.77 0.11 0.12
Matches are distributed among these distances:
90 10 0.05
91 17 0.08
92 28 0.13
93 31 0.14
94 59 0.27
95 2 0.01
96 2 0.01
97 36 0.16
98 34 0.16
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (98 bp):
GCTAGTGTAAGACCATGTCTAGGACATGGCATCGACACGTATAGAGATGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGGCACGGATATGTGAGA
Found at i:89751668 original size:26 final size:27
Alignment explanation
Indices: 89751639--89751698 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
89751629 CCACATATAT
*
89751639 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
89751665 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
89751692 ATATCTG
1 ATATCTG
89751699 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:89751671 original size:71 final size:67
Alignment explanation
Indices: 89751530--89751671 Score: 158
Period size: 67 Copynumber: 2.1 Consensus size: 67
89751520 GAGGAAGCAT
* * * * * *
89751530 TCTGGCAGCCTCGATTCAATCTGGTGGCCTCGCCACATATATCTGTTTTGGTGACTTCGTCGCAA
1 TCTGGCAGCCTCGATGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACCTAGCCACAA
89751595 TA
66 TA
* * * *
89751597 TCTGGCAGTCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATCTGTTCTGGTGGCCTAGCC
1 TCTGGCAGCCTCGATGCAATCTGGTGGCCTCGCCAC----ATATATCTGTTCTGGTGACCTAGCC
89751662 ACAATA
62 ACAATA
89751668 TCTG
1 TCTG
89751672 TATCTGGTGA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
67 32 0.52
71 29 0.48
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (67 bp):
TCTGGCAGCCTCGATGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACCTAGCCACAA
TA
Found at i:89755965 original size:23 final size:23
Alignment explanation
Indices: 89755939--89755991 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
89755929 TCATTTCATA
89755939 ATGGATGATTTCATGAATTAAGT
1 ATGGATGATTTCATGAATTAAGT
89755962 ATGGATGATTTCATGAATTAAGT
1 ATGGATGATTTCATGAATTAAGT
89755985 ATGGATG
1 ATGGATG
89755992 TATGCTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.38
Consensus pattern (23 bp):
ATGGATGATTTCATGAATTAAGT
Found at i:89760665 original size:20 final size:20
Alignment explanation
Indices: 89760635--89760679 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
89760625 CTGTTTTATT
89760635 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
89760654 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
89760674 ATGGGC
1 ATGGGC
89760680 AAGACCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:89760745 original size:27 final size:27
Alignment explanation
Indices: 89760715--89760810 Score: 77
Period size: 28 Copynumber: 3.3 Consensus size: 27
89760705 ATAGGACTAC
89760715 GGCCCAGACTGATACTGATATGGGCTA
1 GGCCCAGACTGATACTGATATGGGCTA
*
89760742 GGCCCAGTATGCTTTGATATTG-TAATAGGGCTA
1 GGCCCAG-A--C--TGATACTGAT-AT-GGGCTA
* *
89760775 TGGCCCAGATTAATACTGATATGGGCTAA
1 -GGCCCAGACTGATACTGATATGGGCT-A
89760804 GGCCCAG
1 GGCCCAG
89760811 TTAACACTGA
Statistics
Matches: 55, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
27 7 0.13
28 13 0.24
29 9 0.16
30 2 0.04
31 1 0.02
32 9 0.16
33 7 0.13
34 7 0.13
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (27 bp):
GGCCCAGACTGATACTGATATGGGCTA
Found at i:89760809 original size:28 final size:27
Alignment explanation
Indices: 89760769--89760821 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
89760759 TATTGTAATA
* *
89760769 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAG-TTAACACTGATAT
89760797 GGGCTAAGGCCCAGTTAACACTGAT
1 GGGCTAAGGCCCAGTTAACACTGAT
89760822 TTCTGAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (27 bp):
GGGCTAAGGCCCAGTTAACACTGATAT
Found at i:89760842 original size:62 final size:61
Alignment explanation
Indices: 89760700--89760844 Score: 161
Period size: 61 Copynumber: 2.4 Consensus size: 61
89760690 ATATCTCGAC
* * * * **
89760700 TTGTAATAGGACTACGGCCCAGACTGATACTGATATGGGCTAGGCCCAGTATGCTTTGATA
1 TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
*
89760761 TTGTAATAGGGCTATGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGT-TAACACTGAT-
1 TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCT-AGGCCCAGTAT-ACACTGATA
*
89760822 TTCTGAATAGGGCT-TAGGCCCAG
1 TTGT-AATAGGGCTAT-GGCCCAG
89760845 TAAAGTTTGA
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
61 42 0.58
62 30 0.42
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (61 bp):
TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
Found at i:89762556 original size:18 final size:18
Alignment explanation
Indices: 89762511--89762558 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
89762501 GATGACTTTA
*
89762511 ATAACGATCCCCGAGTGC
1 ATAACGATCTCCGAGTGC
89762529 ATAACGATCTCCGAGTGC
1 ATAACGATCTCCGAGTGC
*
89762547 GTAACGATCTCC
1 ATAACGATCTCC
89762559 AAAATCTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (18 bp):
ATAACGATCTCCGAGTGC
Found at i:89768831 original size:46 final size:48
Alignment explanation
Indices: 89768659--89768930 Score: 215
Period size: 46 Copynumber: 5.8 Consensus size: 48
89768649 TTATTTGTCT
* * *
89768659 GCTAGTGTAAGA-CATGTCTGGGACATACATCGGCCAC-ATTATG-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGA-GATGTAGA
* * * * *
89768705 TCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-AGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGA
** * *
89768753 GCTAGTGTAAGA-CATGTCTAAGATATGTATCGGCCTCGAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAGA
*
89768799 GCAAGTGTAAGA-CATGTCTGGGACATGCATCGG-CTACGAGATGT-G-
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGTAGA
* * * *** * *
89768844 TC-AGTGTAAGACCATATCTAGGACATTGCATCGATATGGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACA-TGCATCGGCCTCGAGATGT-AGA
*
89768893 GGTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCT
89768931 TGGTTTCGAT
Statistics
Matches: 176, Mismatches: 36, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
44 9 0.05
45 14 0.08
46 73 0.41
47 27 0.15
48 23 0.13
49 2 0.01
50 28 0.16
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAGA
Found at i:89768958 original size:49 final size:48
Alignment explanation
Indices: 89768662--89769024 Score: 195
Period size: 46 Copynumber: 7.7 Consensus size: 48
89768652 TTTGTCTGCT
* *
89768662 AGTGTAAGA-CATGTCTGGGACAT-ACATCGGCCACATT-AT-GA-GATCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-C-C-TTGATCGATGAGCC
* * *
89768708 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGA-TCGATGAGCC
** * * * *
89768756 AGTGTAAGA-CATGTCTAAGATAT-GTATCGGCCTCGA--GATGTAAGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATCGATG--AGCC
* * *
89768802 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGA--GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-TGATCGATGAGCC
* * * *** * * **
89768846 AGTGTAAGACCATATCTAGGACATTGCATCGATATGGATATG-TGAGAGGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAT-CGAT--GAGCC
* *
89768896 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGGTTTCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTT-G-ATCGATGAGCC
* * * *
89768945 AGTGTAAGACCATGTCTAGGACATGGCAT-TGACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATCGATGAGCC
** *
89768992 AGTGTAAGATAATGTCTGGGACATGGCACCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
89769025 ATTATACCCT
Statistics
Matches: 245, Mismatches: 50, Indels: 42
0.73 0.15 0.12
Matches are distributed among these distances:
43 2 0.01
44 11 0.04
45 16 0.07
46 68 0.28
47 56 0.23
48 26 0.11
49 31 0.13
50 31 0.13
51 2 0.01
52 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATCGATGAGCC
Found at i:89769011 original size:96 final size:98
Alignment explanation
Indices: 89768843--89769024 Score: 237
Period size: 96 Copynumber: 1.9 Consensus size: 98
89768833 TACGAGATGT
* ** *
89768843 GTCAGTGTAAGACCATATCTAGGACATTGCATCGATATGGATATGTGAGAGGTAGTGTAAGACCA
1 GTCAGTGTAAGACCATATCTAGGACATGGCATCGATATGGA-ATGTGAGAGCCAGTGTAAGACAA
*
89768908 TGTCTGGGACATGGCATCGGCCTTGGTTTCGATA
65 TGTCTGGGACATGGCACCGGCCTTGGTTTCGATA
* * *
89768942 GTCAGTGTAAGACCATGTCTAGGACATGGCATTGACT-T-G-ATG-GATGAGCCAGTGTAAGATA
1 GTCAGTGTAAGACCATATCTAGGACATGGCATCGA-TATGGAATGTGA-GAGCCAGTGTAAGACA
89769003 ATGTCTGGGACATGGCACCGGC
64 ATGTCTGGGACATGGCACCGGC
89769025 ATTATACCCT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
95 2 0.03
96 36 0.49
98 1 0.01
99 33 0.45
100 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (98 bp):
GTCAGTGTAAGACCATATCTAGGACATGGCATCGATATGGAATGTGAGAGCCAGTGTAAGACAAT
GTCTGGGACATGGCACCGGCCTTGGTTTCGATA
Found at i:89771218 original size:35 final size:35
Alignment explanation
Indices: 89771178--89771336 Score: 183
Period size: 35 Copynumber: 4.5 Consensus size: 35
89771168 GTCTGTACAT
89771178 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
89771213 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * ** * *
89771248 ATGTGATGTTATATTGAGCTTGTATATTCAGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * *
89771283 ATATGATGATATATTGTACTTGTATATTTGGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
*
89771318 ATGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
89771337 CTTGAGTATT
Statistics
Matches: 100, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 100 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:89784646 original size:17 final size:19
Alignment explanation
Indices: 89784612--89784646 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
89784602 AAATATTTTT
89784612 TTTATAATCTATTAAATAC
1 TTTATAATCTATTAAATAC
89784631 TTTAT-ATCTA-TAAATA
1 TTTATAATCTATTAAATA
89784647 TTAATTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTATAATCTATTAAATAC
Found at i:89784846 original size:17 final size:17
Alignment explanation
Indices: 89784824--89784867 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
89784814 TTCATTATAT
89784824 TTACATTTTATTACATA
1 TTACATTTTATTACATA
*
89784841 TTACATTTTATTATATA
1 TTACATTTTATTACATA
*
89784858 -TATATTTTAT
1 TTACATTTTAT
89784868 GTTACTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (17 bp):
TTACATTTTATTACATA
Found at i:89784887 original size:21 final size:19
Alignment explanation
Indices: 89784849--89784900 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
89784839 TATTACATTT
89784849 TATTATATATATAT--TTTA
1 TATTAT-TATATATGGTTTA
*
89784867 TGTTACTTATTATATGGTTTA
1 TATTA-TTA-TATATGGTTTA
89784888 TATTATTATATAT
1 TATTATTATATAT
89784901 TTTGGTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 6 0.21
19 11 0.39
20 3 0.11
21 8 0.29
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.60
Consensus pattern (19 bp):
TATTATTATATATGGTTTA
Found at i:89789542 original size:13 final size:13
Alignment explanation
Indices: 89789526--89789555 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
89789516 AGTGCTGCAA
89789526 AAAAATGCTTATG
1 AAAAATGCTTATG
*
89789539 AAAAATGCTTTTG
1 AAAAATGCTTATG
89789552 AAAA
1 AAAA
89789556 GCTTGGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (13 bp):
AAAAATGCTTATG
Found at i:89791152 original size:16 final size:18
Alignment explanation
Indices: 89791115--89791149 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
89791105 AATACTAAGA
89791115 ATTT-TATTAAATTATAT
1 ATTTATATTAAATTATAT
89791132 ATTTATATTAAATTATAT
1 ATTTATATTAAATTATAT
89791150 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATATTAAATTATAT
Found at i:89791161 original size:16 final size:17
Alignment explanation
Indices: 89791122--89791167 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
89791112 AGAATTTTAT
* *
89791122 TAAATTATATATTTATAT
1 TAAATTATAT-TTAATAA
89791140 TAAATTATATTTAATAA
1 TAAATTATATTTAATAA
89791157 T-AATTAT-TTTA
1 TAAATTATATTTA
89791168 GATTATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 4 0.15
16 6 0.23
17 6 0.23
18 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTATATTTAATAA
Found at i:89791163 original size:26 final size:25
Alignment explanation
Indices: 89791134--89791190 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
89791124 AATTATATAT
89791134 TTATATTAAATTATATTTAATAATAA
1 TTATATTAAATTATATTTAATAAT-A
* * * *
89791160 TTATTTTAGATTATATTTTATAGTA
1 TTATATTAAATTATATTTAATAATA
89791185 TTATAT
1 TTATAT
89791191 ATTATGATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (25 bp):
TTATATTAAATTATATTTAATAATA
Found at i:89791195 original size:120 final size:119
Alignment explanation
Indices: 89791038--89791343 Score: 517
Period size: 120 Copynumber: 2.6 Consensus size: 119
89791028 CCACAAAATC
*
89791038 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCGTATAAGAATAT
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
89791103 TTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
66 TTAATACTAAGAATTTTATTAAATTATAT-TTTATATTAAATTATATTTAATAAT
89791158 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATA-
* *
89791223 TTTAATATTAAGAATTTTATTAAATTATATTTTTTATTAAATTATATTTAATAAT
65 TTTAATACTAAGAATTTTATTAAATTATATTTTATATTAAATTATATTTAATAAT
* * * *
89791278 TATTATTTTAAATTATATTTTATACTATTATATATTATAATTTTAGTAAATT-ATATAAGAAT-T
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
89791341 TTA
66 TTA
89791344 TTAAATTATA
Statistics
Matches: 178, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
117 4 0.02
119 10 0.06
120 135 0.76
121 29 0.16
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (119 bp):
AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
TTAATACTAAGAATTTTATTAAATTATATTTTATATTAAATTATATTTAATAAT
Found at i:89791257 original size:17 final size:17
Alignment explanation
Indices: 89791237--89791271 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
89791227 ATATTAAGAA
89791237 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
89791254 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
89791271 T
1 T
89791272 AATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATTAAATTATATT
Found at i:89791280 original size:13 final size:13
Alignment explanation
Indices: 89791262--89791319 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 13
89791252 TTTTTTATTA
*
89791262 AATTATATTTAAT
1 AATTATATTTTAT
89791275 AATTATTATTTTA-
1 AATTA-TATTTTAT
89791288 AATTATATTTTAT
1 AATTATATTTTAT
*
89791301 ACTATTATATATTAT
1 A--ATTATATTTTAT
89791316 AATT
1 AATT
89791320 TTAGTAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 7 0.18
13 14 0.36
14 6 0.15
15 12 0.31
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
AATTATATTTTAT
Found at i:89791363 original size:16 final size:17
Alignment explanation
Indices: 89791344--89791381 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
89791334 AAGAATTTTA
89791344 TTAAATTATAA-TATAT
1 TTAAATTATAATTATAT
*
89791360 TT-AATTATAATTATGT
1 TTAAATTATAATTATAT
89791376 TTAAAT
1 TTAAAT
89791382 ATGATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 8 0.42
17 3 0.16
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTAAATTATAATTATAT
Found at i:89791610 original size:45 final size:44
Alignment explanation
Indices: 89791524--89791614 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
89791514 ACCTCTATTC
* *
89791524 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCATTA
*** *
89791568 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTAATCCATTA
89791613 CA
1 CA
89791615 CCTCTATTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCATTA
Found at i:89791614 original size:16 final size:16
Alignment explanation
Indices: 89791593--89791646 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
89791583 TTGATTTGCT
89791593 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
* *
89791609 ATTACACCTCTATTCT
1 ATTACACCTCTAATCC
*
89791625 ATTACGCCTCTAATCC
1 ATTACACCTCTAATCC
*
89791641 AATACA
1 ATTACA
89791647 GCGAACCAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.31, C:0.33, G:0.02, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:89792191 original size:28 final size:30
Alignment explanation
Indices: 89792160--89792223 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
89792150 ATTATAAAAA
89792160 ATAAAAATCAATAAAAGTTAA-AAAAAT-T
1 ATAAAAATCAATAAAAGTTAATAAAAATAT
* * **
89792188 ATAAAAATTATTAAATTTTAATAAAAATAT
1 ATAAAAATCAATAAAAGTTAATAAAAATAT
89792218 ATAAAA
1 ATAAAA
89792224 TTACAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 17 0.57
29 6 0.20
30 7 0.23
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (30 bp):
ATAAAAATCAATAAAAGTTAATAAAAATAT
Found at i:89792202 original size:10 final size:9
Alignment explanation
Indices: 89792149--89792233 Score: 59
Period size: 9 Copynumber: 9.3 Consensus size: 9
89792139 GTTGCAAAAG
89792149 AATTATAAA
1 AATTATAAA
89792158 AA--ATAAA
1 AATTATAAA
*
89792165 AATCAATAAA
1 AAT-TATAAA
* *
89792175 AGTTAAAAA
1 AATTATAAA
89792184 AATTATAAA
1 AATTATAAA
89792193 AATTATTAAA
1 AATTA-TAAA
**
89792203 TTTTAATAAA
1 AATT-ATAAA
89792213 AA-TATATAA
1 AATTATA-AA
*
89792222 AATTACAAA
1 AATTATAAA
89792231 AAT
1 AAT
89792234 CGTAAAAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
7 7 0.12
8 3 0.05
9 28 0.47
10 20 0.34
11 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (9 bp):
AATTATAAA
Found at i:89792328 original size:31 final size:32
Alignment explanation
Indices: 89792272--89792342 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 32
89792262 TTATAAAAAT
*
89792272 AAAAAATTTTATAAAATATATAG-AAA-TATA
1 AAAAAAATTTATAAAATATATAGAAAATTATA
*
89792302 GAAAAAAATTTATAAAATCGTA-AGAAAATTATA
1 -AAAAAAATTTATAAAAT-ATATAGAAAATTATA
89792335 AAAAAAAT
1 AAAAAAAT
89792343 AAAGAAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 18 0.51
32 13 0.37
33 4 0.11
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (32 bp):
AAAAAAATTTATAAAATATATAGAAAATTATA
Found at i:89792604 original size:19 final size:20
Alignment explanation
Indices: 89792569--89792611 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 20
89792559 ATTTATAAAA
89792569 TTTTACAATTTTTTTTATATT
1 TTTTACAA-TTTTTTTATATT
89792590 TTTTACAA-TTTTTTATATT
1 TTTTACAATTTTTTTATATT
89792609 TTT
1 TTT
89792612 CTAAGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.64
21 8 0.36
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTACAATTTTTTTATATT
Found at i:89792640 original size:8 final size:9
Alignment explanation
Indices: 89792579--89792637 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
89792569 TTTTACAATT
89792579 TTTTTTATA
1 TTTTTTATA
*
89792588 TTTTTTACAA
1 TTTTTTA-TA
89792598 TTTTTTATA
1 TTTTTTATA
89792607 TTTTTCTA-A
1 TTTTT-TATA
* *
89792616 GTTTTAATA
1 TTTTTTATA
89792625 -TTTTTATA
1 TTTTTTATA
89792633 TTTTT
1 TTTTT
89792638 ATAAAAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 8 0.20
9 23 0.56
10 10 0.24
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTTTATA
Found at i:89792656 original size:26 final size:26
Alignment explanation
Indices: 89792601--89792667 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
89792591 TTTACAATTT
* ** *
89792601 TTTATATTTTTCTAAGTTTTAATATT
1 TTTATATTTTTATAAAATTTAATATA
89792627 TTTATATTTTTATAAAAATTTAATA-A
1 TTTATATTTTTAT-AAAATTTAATATA
89792653 TTTAATAATTTTTAT
1 TTT-AT-ATTTTTAT
89792668 TTTTATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 15 0.44
27 11 0.32
28 8 0.24
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (26 bp):
TTTATATTTTTATAAAATTTAATATA
Found at i:89796780 original size:110 final size:110
Alignment explanation
Indices: 89796587--89796809 Score: 446
Period size: 110 Copynumber: 2.0 Consensus size: 110
89796577 CATTTCAAAT
89796587 AACAACTTATAAACATGTATAACCAAGTACTCTATTTGGTCAAAATAAACAACTAACTTCCAATT
1 AACAACTTATAAACATGTATAACCAAGTACTCTATTTGGTCAAAATAAACAACTAACTTCCAATT
89796652 TGATTTGGATCTATACATACCATAAATCTTTTTTACCAAAACACA
66 TGATTTGGATCTATACATACCATAAATCTTTTTTACCAAAACACA
89796697 AACAACTTATAAACATGTATAACCAAGTACTCTATTTGGTCAAAATAAACAACTAACTTCCAATT
1 AACAACTTATAAACATGTATAACCAAGTACTCTATTTGGTCAAAATAAACAACTAACTTCCAATT
89796762 TGATTTGGATCTATACATACCATAAATCTTTTTTACCAAAACACA
66 TGATTTGGATCTATACATACCATAAATCTTTTTTACCAAAACACA
89796807 AAC
1 AAC
89796810 CATTTGGTAC
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 113 1.00
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.31
Consensus pattern (110 bp):
AACAACTTATAAACATGTATAACCAAGTACTCTATTTGGTCAAAATAAACAACTAACTTCCAATT
TGATTTGGATCTATACATACCATAAATCTTTTTTACCAAAACACA
Found at i:89799797 original size:18 final size:18
Alignment explanation
Indices: 89799774--89799811 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
89799764 TAGGGTTCAT
*
89799774 AATGAAAAGGAAGTTGAG
1 AATGAAAAGGAAGCTGAG
*
89799792 AATGAAGAGGAAGCTGAG
1 AATGAAAAGGAAGCTGAG
89799810 AA
1 AA
89799812 CAAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.34, T:0.13
Consensus pattern (18 bp):
AATGAAAAGGAAGCTGAG
Found at i:89802312 original size:6 final size:6
Alignment explanation
Indices: 89802303--89802342 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
89802293 TCATATTCAT
* * *
89802303 CATCTC CATCGC TATCAC CATCGC CATCGC CATCGC CATC
1 CATCGC CATCGC CATCGC CATCGC CATCGC CATCGC CATC
89802343 ATTATCATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.20, C:0.47, G:0.10, T:0.23
Consensus pattern (6 bp):
CATCGC
Found at i:89802359 original size:6 final size:6
Alignment explanation
Indices: 89802350--89802428 Score: 56
Period size: 6 Copynumber: 13.2 Consensus size: 6
89802340 ATCATTATCA
* * *
89802350 TCATAT TCATCT TCATCT TCATCT ACATCT CCATC- TCTAT-T TCCATCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC-ATCT T-CATCT
* * *
89802398 TCATCT CCAACAT T-ATCT TCATTT TCATCT T
1 TCATCT TCATC-T TCATCT TCATCT TCATCT T
89802429 GTTCTTCAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
5 3 0.05
6 50 0.88
7 4 0.07
ACGTcount: A:0.22, C:0.32, G:0.00, T:0.47
Consensus pattern (6 bp):
TCATCT
Found at i:89815006 original size:26 final size:26
Alignment explanation
Indices: 89814968--89815025 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
89814958 CATGAAATTC
89814968 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
89814994 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
89815020 TTATCA
1 TTATCA
89815026 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:89820786 original size:26 final size:26
Alignment explanation
Indices: 89820748--89820831 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
89820738 CATGAAATTC
* *
89820748 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
89820774 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
89820800 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
89820826 TTATCA
1 TTATCA
89820832 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:89821379 original size:18 final size:18
Alignment explanation
Indices: 89821356--89821390 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
89821346 GAGTTAAACA
89821356 AATCGAGTTATCCGAGTT
1 AATCGAGTTATCCGAGTT
*
89821374 AATCGAGTTATTCGAGT
1 AATCGAGTTATCCGAGT
89821391 CAACTCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (18 bp):
AATCGAGTTATCCGAGTT
Found at i:89821696 original size:19 final size:20
Alignment explanation
Indices: 89821666--89821706 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
89821656 CCAAAAACCT
*
89821666 CAAAACTTTTTATTTTCCCC
1 CAAAACTTTTTACTTTCCCC
*
89821686 CAAAA-TTTTTACTTTCTCC
1 CAAAACTTTTTACTTTCCCC
89821705 CA
1 CA
89821707 CTTTCCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (20 bp):
CAAAACTTTTTACTTTCCCC
Found at i:89822882 original size:47 final size:49
Alignment explanation
Indices: 89822823--89822922 Score: 111
Period size: 50 Copynumber: 2.1 Consensus size: 49
89822813 AATTCATTTG
*
89822823 ATTTCATCAC-TTTCATAA-ACATAAGTATACTTCCTTT-AA-AGCTTACC
1 ATTTCATCACTTTTCATAATACATAA-TATACTTCATTTGAACA-CTTACC
*
89822870 ATTTCAAT-ACTTTTCATAATTACATAATATATTTCATTTGAACACTTACC
1 ATTTC-ATCACTTTTCATAA-TACATAATATACTTCATTTGAACACTTACC
89822920 ATT
1 ATT
89822923 CCTTTCCTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
47 7 0.16
48 10 0.22
49 10 0.22
50 17 0.38
51 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.03, T:0.42
Consensus pattern (49 bp):
ATTTCATCACTTTTCATAATACATAATATACTTCATTTGAACACTTACC
Found at i:89826448 original size:23 final size:22
Alignment explanation
Indices: 89826366--89826447 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 22
89826356 TAACACTCTA
89826366 CAGAATGTAA-TGCACTGAAATGC
1 CAGAATG-AATTGCACT-AAATGC
* *
89826389 CAGAATGAATTGCACTATAGTGT
1 CAGAATGAATTGCACTA-AATGC
89826412 C--AATGAATTGCACCTAAATGC
1 CAGAATGAATTGCA-CTAAATGC
89826433 CAGAATGAATTGCAC
1 CAGAATGAATTGCAC
89826448 CAAAGTATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
21 15 0.30
22 7 0.14
23 28 0.56
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (22 bp):
CAGAATGAATTGCACTAAATGC
Found at i:89835054 original size:31 final size:31
Alignment explanation
Indices: 89835016--89835079 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
89835006 AGAGGCCATG
89835016 TTGGATAAAAAGTCGCTAATGATAGAACTAC
1 TTGGATAAAAAGTCGCTAATGATAGAACTAC
* *
89835047 TTGGATAAAATGTTGCTAATGATAGAACTAC
1 TTGGATAAAAAGTCGCTAATGATAGAACTAC
89835078 TT
1 TT
89835080 CGACAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (31 bp):
TTGGATAAAAAGTCGCTAATGATAGAACTAC
Found at i:89835757 original size:18 final size:20
Alignment explanation
Indices: 89835731--89835771 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
89835721 TTTAAATTCG
*
89835731 TTTTGATTT-TAAATT-TTA
1 TTTTCATTTGTAAATTATTA
*
89835749 TTTTCATTTGTAATTTATTA
1 TTTTCATTTGTAAATTATTA
89835769 TTT
1 TTT
89835772 CTTTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.42
19 5 0.26
20 6 0.32
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTCATTTGTAAATTATTA
Found at i:89837408 original size:21 final size:21
Alignment explanation
Indices: 89837382--89837444 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
89837372 ACATAGAAAG
*
89837382 CCAGTGTCGCAACACT-AGGTT
1 CCAGTGTTGCAACACTGA-GTT
89837403 CCAGTGTTGCAACACTGAGTT
1 CCAGTGTTGCAACACTGAGTT
*
89837424 CCAGTGTTGCAACACCGAGTT
1 CCAGTGTTGCAACACTGAGTT
89837445 GGTGTCGTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
21 38 0.97
22 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (21 bp):
CCAGTGTTGCAACACTGAGTT
Found at i:89838776 original size:163 final size:163
Alignment explanation
Indices: 89838488--89838782 Score: 427
Period size: 163 Copynumber: 1.8 Consensus size: 163
89838478 ACTATAAAAC
* * *
89838488 ACCTTGGTATAAACCAGATTTTTATGAAAACTTATATAAAGAAGAGGTGAATTATGACGAGATCA
1 ACCTTGGTATAAACCAGATTTTTATGAAAAATTACATAAAGAAGAGGTGAATTATGAAGAGATCA
** * *
89838553 TCAATTTTTTAACTGAAGGTTGAGGAAATTAGGTTCGAAAAGTCATAACTGAAAAACCAATAAGA
66 TCAATTTTTTAACTGAAGGTCAAGGAAATTAGGTTCGAAAAGCCACAACTGAAAAACCAATAAGA
89838618 TTCTATGATTGCGATCGAAGCCGTCCATAAGAA
131 TTCTATGATTGCGATCGAAGCCGTCCATAAGAA
*
89838651 ACCTTGGTAT-AACCTGGATTTTTATGAAAAATTACATGAAA-AAGAGGTGAATTATGAAGAGAT
1 ACCTTGGTATAAACC-AGATTTTTATGAAAAATTACAT-AAAGAAGAGGTGAATTATGAAGAGAT
* * *
89838714 CATCAATTTTTTAACTGAGGGTCAAGGAACTTGGGTTC-AAAAGACCACAACT-AAAGAACCAAT
64 CATCAATTTTTTAACTGAAGGTCAAGGAAATTAGGTTCGAAAAG-CCACAACTGAAA-AACCAAT
89838777 AAGATT
127 AAGATT
89838783 TAAACAATCT
Statistics
Matches: 117, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
162 12 0.10
163 102 0.87
164 3 0.03
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (163 bp):
ACCTTGGTATAAACCAGATTTTTATGAAAAATTACATAAAGAAGAGGTGAATTATGAAGAGATCA
TCAATTTTTTAACTGAAGGTCAAGGAAATTAGGTTCGAAAAGCCACAACTGAAAAACCAATAAGA
TTCTATGATTGCGATCGAAGCCGTCCATAAGAA
Found at i:89840098 original size:6 final size:6
Alignment explanation
Indices: 89840079--89840141 Score: 81
Period size: 6 Copynumber: 10.3 Consensus size: 6
89840069 TCTAAATGAA
* * *
89840079 TTCATT TCTCATT TTCATT TTTATT TTCATT TTCGTT TTCGTT TTCATT
1 TTCATT T-TCATT TTCATT TTCATT TTCATT TTCATT TTCATT TTCATT
*
89840128 TACATT TTCATT TT
1 TTCATT TTCATT TT
89840142 GAGAAAACCA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
6 44 0.88
7 6 0.12
ACGTcount: A:0.14, C:0.16, G:0.03, T:0.67
Consensus pattern (6 bp):
TTCATT
Found at i:89842542 original size:48 final size:48
Alignment explanation
Indices: 89842429--89842998 Score: 593
Period size: 48 Copynumber: 11.8 Consensus size: 48
89842419 GTAAGATGCT
* * * *
89842429 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCG-GTGCC
1 GATGCCATGTTCCAAACATGGTCTTACACT-A-GCTCACATATCGAG-GCC
* *
89842479 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * * ** * *
89842527 GATTCCATGTCCCAAACATGATCTTACACAAGCTCTCCCATCAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * *
89842575 GATGCCATGTTCCAAACATGGTCTTATACTGGCTCACATATCGAGGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * * **
89842623 GATGCAATGTCCCAAGCATGGTCTTACACTAGCTCTCATATCAATACC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* *
89842671 GATGCCATGTTCCAAACATGGTTTTACACTGGCTCACATATCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
** * * * * * **
89842719 GATTTCATGTCCCAGACATGGCCTTACACTAGCTCTCATATCAATACC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * *
89842767 GATGCCATGTTCTAAACATGGTCTTACATTGGCTCACATATCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * *
89842815 AATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* *
89842863 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGTC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * **
89842911 GATGCCATGTTCCAGACATGGTCTTACACTAGTTCTCATATCAATACC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * *
89842959 GATGTCATGTTCCAAACATGGTATTATACTGGTTCACATA
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
89842999 ACCCTAGTAT
Statistics
Matches: 419, Mismatches: 100, Indels: 4
0.80 0.19 0.01
Matches are distributed among these distances:
48 389 0.93
49 2 0.00
50 28 0.07
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
Found at i:89842599 original size:96 final size:96
Alignment explanation
Indices: 89842429--89842998 Score: 800
Period size: 96 Copynumber: 5.9 Consensus size: 96
89842419 GTAAGATGCT
* ** *
89842429 GATGCCATGTCCCAGACATGGTCTTACACT-GACTCTCATATATCGGTGCCGATGCCATGTTCCA
1 GATGCCATGTCCCAAACATGGTCTTACACTAG-CTCTC--ATATCAATACCGATGCCATGTTCCA
* * *
89842493 AACATGGTCTTACACTAGCCCACATGTCGAGGCC
63 AACATGGTCTTACACTGGCTCACATATCGAGGCC
* * * ** *
89842527 GATTCCATGTCCCAAACATGATCTTACACAAGCTCTCCCATCAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
* *
89842592 ATGGTCTTATACTGGCTCACATATCGAGGCT
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
* *
89842623 GATGCAATGTCCCAAGCATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
*
89842688 ATGGTTTTACACTGGCTCACATATCGAGGCC
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
** * * *
89842719 GATTTCATGTCCCAGACATGGCCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCTAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
*
89842784 ATGGTCTTACATTGGCTCACATATCGAGGCC
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
* *
89842815 AATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
*
89842880 ATGGTCTTACACTGGCTCACATATCGAGGTC
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
* * * *
89842911 GATGCCATGTTCCAGACATGGTCTTACACTAGTTCTCATATCAATACCGATGTCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
* * *
89842976 ATGGTATTATACTGGTTCACATA
66 ATGGTCTTACACTGGCTCACATA
89842999 ACCCTAGTAT
Statistics
Matches: 420, Mismatches: 51, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
96 388 0.92
98 31 0.07
99 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAAC
ATGGTCTTACACTGGCTCACATATCGAGGCC
Found at i:89848980 original size:18 final size:18
Alignment explanation
Indices: 89848957--89849001 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
89848947 CTACAATTCC
*
89848957 CTCCATGGTCGTCAATAA
1 CTCCATAGTCGTCAATAA
*
89848975 CTCCATAGTTGTCAATAA
1 CTCCATAGTCGTCAATAA
89848993 CTCCATAGT
1 CTCCATAGT
89849002 AGGTTTCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (18 bp):
CTCCATAGTCGTCAATAA
Found at i:89852354 original size:56 final size:56
Alignment explanation
Indices: 89852267--89852379 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
89852257 AGGGAAAAAG
89852267 AATGTAAATTTCAAATATTGTATTCACAGTTCATATGACCATATCAGAGACAGGAC
1 AATGTAAATTTCAAATATTGTATTCACAGTTCATATGACCATATCAGAGACAGGAC
* *
89852323 AATGTAAATTTCAAATATTGTATTCATAGTTCATATGACCATATCAGAGACTGGAC
1 AATGTAAATTTCAAATATTGTATTCACAGTTCATATGACCATATCAGAGACAGGAC
89852379 A
1 A
89852380 GACACAAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (56 bp):
AATGTAAATTTCAAATATTGTATTCACAGTTCATATGACCATATCAGAGACAGGAC
Found at i:89855761 original size:14 final size:14
Alignment explanation
Indices: 89855728--89855755 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
89855718 ATAATTTTAA
89855728 AAAATATTTAAAAT
1 AAAATATTTAAAAT
89855742 AAAATATTTAAAAT
1 AAAATATTTAAAAT
89855756 TCAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAATATTTAAAAT
Found at i:89855780 original size:18 final size:19
Alignment explanation
Indices: 89855739--89855791 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
89855729 AAATATTTAA
*
89855739 AATAAAATATTTAAAATTC
1 AATAAAATATTAAAAATTC
89855758 AATAAAATA-TAAAAAGTTC
1 AATAAAATATTAAAAA-TTC
89855777 -ATAAAA-ATTCAAAAA
1 AATAAAATATT-AAAAA
89855792 AAAATTTAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 1 0.03
18 12 0.40
19 17 0.57
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (19 bp):
AATAAAATATTAAAAATTC
Found at i:89863013 original size:5 final size:5
Alignment explanation
Indices: 89863005--89863036 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
89862995 AACATAGTGG
89863005 TAAAA TAAAA TAAAA TAAAA TAAAA GTAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA -TAAAA T
89863037 TCATATGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:89865711 original size:79 final size:79
Alignment explanation
Indices: 89865623--89865778 Score: 285
Period size: 79 Copynumber: 2.0 Consensus size: 79
89865613 TAGAGTTGCT
** *
89865623 TCTTCACCACAGTTACCACCATAATATTTTATTTCCAAGAACAGACCTAAAAGAGAAATTAAAAC
1 TCTTCACCACAACTACCACCATAATATTTTATTGCCAAGAACAGACCTAAAAGAGAAATTAAAAC
89865688 TCCAAAAAGGTATG
66 TCCAAAAAGGTATG
89865702 TCTTCACCACAACTACCACCATAATATTTTATTGCCAAGAACAGACCTAAAAGAGAAATTAAAAC
1 TCTTCACCACAACTACCACCATAATATTTTATTGCCAAGAACAGACCTAAAAGAGAAATTAAAAC
89865767 TCCAAAAAGGTA
66 TCCAAAAAGGTA
89865779 CGTCAAGGCT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.24
Consensus pattern (79 bp):
TCTTCACCACAACTACCACCATAATATTTTATTGCCAAGAACAGACCTAAAAGAGAAATTAAAAC
TCCAAAAAGGTATG
Found at i:89868601 original size:39 final size:39
Alignment explanation
Indices: 89868557--89868688 Score: 210
Period size: 39 Copynumber: 3.4 Consensus size: 39
89868547 GGTCTTTAAC
* ** *
89868557 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
*
89868596 TCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
*
89868635 CCGGATATATTTCCAGCATATAGCCTGCGGACCTTATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
89868674 CCGGATATATTTCCA
1 CCGGATATATTTCCA
89868689 ATCTCATATA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 86 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:89882433 original size:3 final size:3
Alignment explanation
Indices: 89882425--89882465 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
89882415 GTATTCATCC
*
89882425 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT CCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
89882466 AAGGTTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:89883305 original size:20 final size:19
Alignment explanation
Indices: 89883258--89883305 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
89883248 TTTTAAAATT
89883258 TAAAATTACATTATATATA
1 TAAAATTACATTATATATA
* *
89883277 TATATATTACATTATATAGTC
1 TA-AAATTACATTATATA-TA
89883298 TAAAATTA
1 TAAAATTA
89883306 AAGTTCATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (19 bp):
TAAAATTACATTATATATA
Found at i:89883716 original size:60 final size:55
Alignment explanation
Indices: 89883608--89883747 Score: 140
Period size: 57 Copynumber: 2.4 Consensus size: 55
89883598 AGAAAATTTT
* * *
89883608 TAATTTTAATATATATA-TATAATTTATATATTATCTCTTAAATAAATTAAATTATAATG
1 TAATTTTAATATATATATTAAAATTAACATATTATCTCTT-AATAAATT--A-TATAA-G
*
89883667 ATAATTTTAATATATATATTAAAATTAACATATTATCTCTT-TTACAATTATATAAG
1 -TAATTTTAATATATATATTAAAATTAACATATTATCTCTTAATA-AATTATATAAG
*
89883723 TAATTAATTAATATATAAATTAAAA
1 TAATT--TTAATATATATATTAAAA
89883748 AATAATAAGT
Statistics
Matches: 71, Mismatches: 5, Indels: 11
0.82 0.06 0.13
Matches are distributed among these distances:
55 5 0.07
56 1 0.01
57 22 0.31
58 1 0.01
59 2 0.03
60 21 0.30
61 19 0.27
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (55 bp):
TAATTTTAATATATATATTAAAATTAACATATTATCTCTTAATAAATTATATAAG
Found at i:89883743 original size:12 final size:12
Alignment explanation
Indices: 89883728--89883797 Score: 63
Period size: 12 Copynumber: 5.8 Consensus size: 12
89883718 ATAAGTAATT
89883728 AATTAATATATA
1 AATTAATATATA
* *
89883740 AATTAAAAAAT-
1 AATTAATATATA
*
89883751 AA-TAAGTATTTA
1 AATTAA-TATATA
*
89883763 TTATTAATATATA
1 -AATTAATATATA
*
89883776 AATTAATATATT
1 AATTAATATATA
89883788 AATTAATATA
1 AATTAATATA
89883798 CCCAAGAAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
10 3 0.07
11 4 0.09
12 29 0.64
13 6 0.13
14 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (12 bp):
AATTAATATATA
Found at i:89887843 original size:31 final size:31
Alignment explanation
Indices: 89887805--89887899 Score: 190
Period size: 31 Copynumber: 3.1 Consensus size: 31
89887795 TGGCAGGTAG
89887805 ATAGTTGATAGTTGATACATGTCGTAATTAC
1 ATAGTTGATAGTTGATACATGTCGTAATTAC
89887836 ATAGTTGATAGTTGATACATGTCGTAATTAC
1 ATAGTTGATAGTTGATACATGTCGTAATTAC
89887867 ATAGTTGATAGTTGATACATGTCGTAATTAC
1 ATAGTTGATAGTTGATACATGTCGTAATTAC
89887898 AT
1 AT
89887900 TCTTCACAAG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (31 bp):
ATAGTTGATAGTTGATACATGTCGTAATTAC
Found at i:89888125 original size:36 final size:36
Alignment explanation
Indices: 89888076--89888153 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 36
89888066 TAGCACCGGC
*
89888076 TGTGTTTCAGGATTCTCTTTTGTATCAGGTTTAGGT
1 TGTGTTTCAGGATTCTCTTTTGTATCAAGTTTAGGT
**
89888112 TGTGTTTTGGGATTCTCTTTTGTATCAAGTTTAGGT
1 TGTGTTTCAGGATTCTCTTTTGTATCAAGTTTAGGT
*
89888148 AGTGTT
1 TGTGTT
89888154 GATTCCAGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.14, C:0.09, G:0.26, T:0.51
Consensus pattern (36 bp):
TGTGTTTCAGGATTCTCTTTTGTATCAAGTTTAGGT
Found at i:89889059 original size:17 final size:16
Alignment explanation
Indices: 89889037--89889079 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
89889027 GCTCTTTCTG
89889037 CAAGAGTACAATAATTC
1 CAAGAG-ACAATAATTC
*
89889054 CAAGAG-GAATAATTC
1 CAAGAGACAATAATTC
89889069 CAAGAGGACAA
1 CAAGA-GACAA
89889080 AGGGATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 13 0.59
16 1 0.05
17 8 0.36
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.16
Consensus pattern (16 bp):
CAAGAGACAATAATTC
Found at i:89889066 original size:15 final size:15
Alignment explanation
Indices: 89889046--89889076 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
89889036 GCAAGAGTAC
89889046 AATAATTCCAAGAGG
1 AATAATTCCAAGAGG
89889061 AATAATTCCAAGAGG
1 AATAATTCCAAGAGG
89889076 A
1 A
89889077 CAAAGGGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (15 bp):
AATAATTCCAAGAGG
Found at i:89895886 original size:17 final size:17
Alignment explanation
Indices: 89895864--89895897 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
89895854 AGCCACTGGT
* *
89895864 GTTGATTTCATGTCCTG
1 GTTGATATCAGGTCCTG
89895881 GTTGATATCAGGTCCTG
1 GTTGATATCAGGTCCTG
89895898 CCCTAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.18, G:0.26, T:0.41
Consensus pattern (17 bp):
GTTGATATCAGGTCCTG
Found at i:89902187 original size:15 final size:15
Alignment explanation
Indices: 89902148--89902187 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
89902138 AAATTCAGTT
89902148 CTTAAATTTTTAGCA
1 CTTAAATTTTTAGCA
** *
89902163 CTTATTTTTTTATCA
1 CTTAAATTTTTAGCA
89902178 CTTAAATTTT
1 CTTAAATTTT
89902188 CAGTTTATCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (15 bp):
CTTAAATTTTTAGCA
Found at i:89907386 original size:24 final size:24
Alignment explanation
Indices: 89907353--89907410 Score: 98
Period size: 24 Copynumber: 2.3 Consensus size: 24
89907343 TACATTTAAT
89907353 TTTAGTTTTCAGTTTTCTTTCGTTC
1 TTTA-TTTTCAGTTTTCTTTCGTTC
89907378 TTTATTTTCAGTTTTCTTTCGTTC
1 TTTATTTTCAGTTTTCTTTCGTTC
89907402 TTTCATTTT
1 TTT-ATTTT
89907411 TAATTTTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 23 0.72
25 9 0.28
ACGTcount: A:0.09, C:0.16, G:0.09, T:0.67
Consensus pattern (24 bp):
TTTATTTTCAGTTTTCTTTCGTTC
Found at i:89907422 original size:31 final size:31
Alignment explanation
Indices: 89907338--89907423 Score: 88
Period size: 32 Copynumber: 2.7 Consensus size: 31
89907328 GTCATACATA
*
89907338 TTTCATACATTTAATTTTAGTTTTCAGTTTTC
1 TTTCATTC-TTTAATTTTAGTTTTCAGTTTTC
* *
89907370 TTTCGTTCTTT-ATTTTCAGTTTTC-TTTCGTTC
1 TTTCATTCTTTAATTTT-AGTTTTCAGTT--TTC
89907402 TTTCATT-TTTAATTTTAGTTTT
1 TTTCATTCTTTAATTTTAGTTTT
89907424 TCTTAAGTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
30 7 0.15
31 19 0.41
32 20 0.43
ACGTcount: A:0.15, C:0.13, G:0.07, T:0.65
Consensus pattern (31 bp):
TTTCATTCTTTAATTTTAGTTTTCAGTTTTC
Found at i:89907554 original size:13 final size:14
Alignment explanation
Indices: 89907538--89907567 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
89907528 TTTTCCTTTA
89907538 TTATTT-TATTTTG
1 TTATTTATATTTTG
89907551 TTATTTATATTTTG
1 TTATTTATATTTTG
89907565 TTA
1 TTA
89907568 ACTTGATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (14 bp):
TTATTTATATTTTG
Found at i:89909072 original size:42 final size:42
Alignment explanation
Indices: 89909026--89909175 Score: 158
Period size: 42 Copynumber: 3.5 Consensus size: 42
89909016 TGAGATTACG
* * *
89909026 TGTAAAACCATATCTAGGATATGACATCGACATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGACTTCA
* **
89909068 TGTAAGACCATATCTGGGATATGGA-ATTGATATGAGACTTTG
1 TGTAAGACCATATCTGGGATAT-GACATCGATATGAGACTTCA
* * * * *
89909110 TGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATTTCA
1 TGTAAGACCATATCTGGGATA-TGACATCGATATGAGACTTCA
* *
89909153 TGTAAGACCATATTTGAGATATG
1 TGTAAGACCATATCTGGGATATG
89909176 GCATTGGTAC
Statistics
Matches: 87, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
42 55 0.63
43 32 0.37
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGACATCGATATGAGACTTCA
Found at i:89919498 original size:16 final size:16
Alignment explanation
Indices: 89919477--89919510 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
89919467 TGTTAGTTGG
89919477 GATCTTAGACCTGAAA
1 GATCTTAGACCTGAAA
*
89919493 GATCTTAGAGCTGAAA
1 GATCTTAGACCTGAAA
89919509 GA
1 GA
89919511 ATTTTTGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (16 bp):
GATCTTAGACCTGAAA
Found at i:89931671 original size:22 final size:21
Alignment explanation
Indices: 89931646--89931700 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
89931636 ATATAACGAG
89931646 TGTATATATCACATCATTCATT
1 TGTATATATCACATCATTCA-T
* *
89931668 TGTATAAATTCATATCATTCAT
1 TGTATATA-TCACATCATTCAT
89931690 TGTCATATATC
1 TGT-ATATATC
89931701 TCACATATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.45
Consensus pattern (21 bp):
TGTATATATCACATCATTCAT
Found at i:89931976 original size:42 final size:43
Alignment explanation
Indices: 89931864--89932024 Score: 136
Period size: 43 Copynumber: 3.8 Consensus size: 43
89931854 CATAAGCTCG
* ** *
89931864 TATA-ATGCCAATGTCCCAAATGTGGTCTTACATGTAATCAAA
1 TATAGATGCCATTGTCCCAAACATGGTCTTACATGAAATCAAA
* * *
89931906 TATAGATGCCACTT-TCCCAAACAGGGTCTTATATGAAATCATA
1 TATAGATGCCA-TTGTCCCAAACATGGTCTTACATGAAATCAAA
*
89931949 TAT-GATGCCATTGTCCCATACATGGTCTTACACAT-AAATCACAA
1 TATAGATGCCATTGTCCCAAACATGGTCTT--ACATGAAATCA-AA
* * *
89931993 -ATCGAAGCCAATGT-CCAAGACATGGTCTTACA
1 TATAGATGCCATTGTCCCAA-ACATGGTCTTACA
89932025 CGATAACATA
Statistics
Matches: 97, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
41 2 0.02
42 28 0.29
43 43 0.44
44 24 0.25
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (43 bp):
TATAGATGCCATTGTCCCAAACATGGTCTTACATGAAATCAAA
Found at i:89941322 original size:22 final size:19
Alignment explanation
Indices: 89941291--89941337 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
89941281 GAAGATGATA
89941291 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
89941314 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
89941333 ATTAT
1 ATTAT
89941338 CTATTTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:89941333 original size:16 final size:15
Alignment explanation
Indices: 89941293--89941334 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
89941283 AGATGATAAT
89941293 TATTAATATATAATTA
1 TATTAAT-TATAATTA
89941309 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
89941325 TATTAATTAT
1 TATTAATTAT
89941335 TATCTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:89947891 original size:27 final size:27
Alignment explanation
Indices: 89947853--89947966 Score: 158
Period size: 27 Copynumber: 4.2 Consensus size: 27
89947843 GTTGTTAAGA
89947853 CCCTCGATTTGTGAAATTATCGAAATAC
1 CCCT-GATTTGTGAAATTATCGAAATAC
** *
89947881 CCCTGGGTTGT-AAACTTACCGAAATAC
1 CCCTGATTTGTGAAA-TTATCGAAATAC
*
89947908 CCCTGATTTGTGAAATTATCGAAATAT
1 CCCTGATTTGTGAAATTATCGAAATAC
*
89947935 CCCTGATTTGTAAAATTATCGAAATAC
1 CCCTGATTTGTGAAATTATCGAAATAC
89947962 CCCTG
1 CCCTG
89947967 TAAGGTAGGA
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.04
27 65 0.87
28 7 0.09
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (27 bp):
CCCTGATTTGTGAAATTATCGAAATAC
Found at i:89947922 original size:54 final size:54
Alignment explanation
Indices: 89947853--89947966 Score: 174
Period size: 54 Copynumber: 2.1 Consensus size: 54
89947843 GTTGTTAAGA
* *
89947853 CCCTCGATTTGTGAAATTATCGAAATACCCCTGGGTTGTAAACTTACCGAAATAC
1 CCCT-GATTTGTGAAATTATCGAAATACCCCTGAGTTGTAAAATTACCGAAATAC
* * *
89947908 CCCTGATTTGTGAAATTATCGAAATATCCCTGATTTGTAAAATTATCGAAATAC
1 CCCTGATTTGTGAAATTATCGAAATACCCCTGAGTTGTAAAATTACCGAAATAC
89947962 CCCTG
1 CCCTG
89947967 TAAGGTAGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
54 50 0.93
55 4 0.07
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (54 bp):
CCCTGATTTGTGAAATTATCGAAATACCCCTGAGTTGTAAAATTACCGAAATAC
Found at i:89947986 original size:23 final size:23
Alignment explanation
Indices: 89947959--89948003 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
89947949 ATTATCGAAA
89947959 TACCCCTGTAAGGTAGGATTACC
1 TACCCCTGTAAGGTAGGATTACC
*
89947982 TACCCCTGTAGGGTAGGATTAC
1 TACCCCTGTAAGGTAGGATTAC
89948004 TGTAATCTAT
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:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (23 bp):
TACCCCTGTAAGGTAGGATTACC
Found at i:89951563 original size:15 final size:15
Alignment explanation
Indices: 89951543--89951574 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
89951533 TAATTATGTT
*
89951543 TTAAATGCTTTATTA
1 TTAAATGCTTCATTA
89951558 TTAAATGCTTCATTA
1 TTAAATGCTTCATTA
89951573 TT
1 TT
89951575 GTATGAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.53
Consensus pattern (15 bp):
TTAAATGCTTCATTA
Found at i:89951758 original size:42 final size:42
Alignment explanation
Indices: 89951695--89951845 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 42
89951685 CTGATATTAC
* *
89951695 GTGTAAGACCACATCTAGGATATGGCATCGATATGAGACTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTT
* * *
89951737 GTGTAAAACCATATCTGGGATATGGCATCGATATGAGACCTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTT
* * * *
89951779 GTATAAGACCATAGT-TGAGCTATTGGCATCGATACGAGA-TTT
1 GTGTAAGACCATA-TCTGGGATA-TGGCATCGATATGAGACTTT
* *
89951821 CATGTAAGACCATATTTGGGATATG
1 -GTGTAAGACCATATCTGGGATATG
89951846 ACATTAGTAC
Statistics
Matches: 89, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 57 0.64
43 32 0.36
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTT
Found at i:89957054 original size:42 final size:43
Alignment explanation
Indices: 89956939--89957110 Score: 122
Period size: 43 Copynumber: 4.0 Consensus size: 43
89956929 ACATAGGATC
* * * *
89956939 CGATATGTGTTTTTGTGTAAGACC-TCGTCTGGGA-TGTTGACAT
1 CGATATTTGATTTTGTGTAAGACCAT-GTCTGGGACAG-TGGCAT
* * * *
89956982 CGACT-TATGATTTACGTGTAATACCATGTCTGGGACA-TCGGTAT
1 CGA-TATTTGATTT-TGTGTAAGACCATGTCTGGGACAGT-GGCAT
*
89957026 CG-TATTTGATTTTGTGTAAGACCTTGTCTGGGACAGTGGCAT
1 CGATATTTGATTTTGTGTAAGACCATGTCTGGGACAGTGGCAT
*** * *
89957068 CGATATTTGATTACATGTAAGACTACGTCTGGGAC-GTTGGCAT
1 CGATATTTGATTTTGTGTAAGACCATGTCTGGGACAG-TGGCAT
89957111 TATATGAGCT
Statistics
Matches: 102, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 28 0.27
43 50 0.49
44 23 0.23
45 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (43 bp):
CGATATTTGATTTTGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:89957087 original size:43 final size:43
Alignment explanation
Indices: 89956953--89957090 Score: 122
Period size: 42 Copynumber: 3.2 Consensus size: 43
89956943 ATGTGTTTTT
* * * *
89956953 GTGTAAGACCTCGTCTGGGA-TGTTGACATCGACT-TATGATTTAC
1 GTGTAAGACCTTGTCTGGGACAG-TGGCATCGA-TATTTGA-TTAC
* * * **
89956997 GTGTAATACCATGTCTGGGACA-TCGGTATCG-TATTTGATTTT
1 GTGTAAGACCTTGTCTGGGACAGT-GGCATCGATATTTGATTAC
89957039 GTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTAC
*
89957082 ATGTAAGAC
1 GTGTAAGAC
89957091 TACGTCTGGG
Statistics
Matches: 74, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
42 29 0.39
43 23 0.31
44 22 0.30
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (43 bp):
GTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTAC
Found at i:89969250 original size:13 final size:13
Alignment explanation
Indices: 89969242--89969266 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89969232 TGAAATTAAT
89969242 AATAAAAATAAAA
1 AATAAAAATAAAA
89969255 AATAAAAATAAA
1 AATAAAAATAAA
89969267 CTTTCTAAAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:89978348 original size:63 final size:65
Alignment explanation
Indices: 89978230--89978363 Score: 193
Period size: 64 Copynumber: 2.1 Consensus size: 65
89978220 ATAAAAATGG
* * *
89978230 TGAAAATGGATAAATGAGAAATCATTTGAAAATTATTTTGGTTTCTCCAAAATGAAAAT-GAAAA
1 TGAAAATGGATAAATGAGAAATCATTTGAAAATGAATGTGGTTTCTCCAAAATGAAAATGGAAAA
* *
89978294 TGAAAATGGATAAAT-AG-AATTATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAATGGAAA
1 TGAAAATGGATAAATGAGAAATCATTTGAAAATGAATGTGG-TTTCTCCAAAATGAAAATGGAAA
89978357 A
65 A
89978358 TGAAAA
1 TGAAAA
89978364 ATGAAAATGA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
62 17 0.27
63 20 0.32
64 26 0.41
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.30
Consensus pattern (65 bp):
TGAAAATGGATAAATGAGAAATCATTTGAAAATGAATGTGGTTTCTCCAAAATGAAAATGGAAAA
Found at i:89979331 original size:134 final size:134
Alignment explanation
Indices: 89979091--89979360 Score: 531
Period size: 134 Copynumber: 2.0 Consensus size: 134
89979081 CACACAGTTA
89979091 TACAAATTTACATTCGATTACAATTATTTAATTATAAATTTCTCTAAGAAATACATAAGTGTGAA
1 TACAAATTTACATTCGATTACAATTATTTAATTATAAATTTCTCTAAGAAATACATAAGTGTGAA
89979156 TAAGACGAGAATTCAATTGGTATACACAAAGAATTTATTTACAACTATGATTGAATAGATGTCCT
66 TAAGACGAGAATTCAATTGGTATACACAAAGAATTTATTTACAACTATGATTGAATAGATGTCCT
89979221 AGTC
131 AGTC
89979225 TACAAATTTACATTCGATTACAATTATTTAATTATAAATTTCTCTAAGAAATACATAAGTGTGAA
1 TACAAATTTACATTCGATTACAATTATTTAATTATAAATTTCTCTAAGAAATACATAAGTGTGAA
89979290 TAAGACGAGAATTCAATTGGTATACACAAAGAATTTATTTACAACTATGATTGAATAGATGTCCT
66 TAAGACGAGAATTCAATTGGTATACACAAAGAATTTATTTACAACTATGATTGAATAGATGTCCT
*
89979355 GGTC
131 AGTC
89979359 TA
1 TA
89979361 TTATAATTAT
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 135 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (134 bp):
TACAAATTTACATTCGATTACAATTATTTAATTATAAATTTCTCTAAGAAATACATAAGTGTGAA
TAAGACGAGAATTCAATTGGTATACACAAAGAATTTATTTACAACTATGATTGAATAGATGTCCT
AGTC
Found at i:89981378 original size:48 final size:48
Alignment explanation
Indices: 89981304--89981491 Score: 252
Period size: 48 Copynumber: 3.9 Consensus size: 48
89981294 TAAAGTACCA
* * * *
89981304 ATGCCATGTCCCCGACATGGTCTTACATGAATC-CACATATCATCCCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-CAAGCACACATATCATCACCG
* * * *
89981352 ATGCCATGTCCTAGACATGGTTTTACACAGGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCACCG
*
89981400 ATACCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCACCG
* * *
89981448 ACGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATC
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATC
89981492 GCCAATGTCC
Statistics
Matches: 123, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
47 2 0.02
48 121 0.98
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.23
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCACCG
Found at i:89981474 original size:96 final size:96
Alignment explanation
Indices: 89981307--89981494 Score: 288
Period size: 96 Copynumber: 2.0 Consensus size: 96
89981297 AGTACCAATG
* * * * * *
89981307 CCATGTCCCCGACATGGTCTTACATGAATCCACATATCATCCCCGATGCCATGTCCTAGACATGG
1 CCATGTCCCAGACATGGTCTTACATCAAGCCACATATCATCACCGACGCCATGTCCCAGACATGG
*
89981372 TTTTACACAGGCACACATATCATCGCCGATA
66 TCTTACACAGGCACACATATCATCGCCGATA
89981403 CCATGTCCCAGACATGGTCTTACA-CAAGCACACATATCATCACCGACGCCATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACATCAAGC-CACATATCATCACCGACGCCATGTCCCAGACATG
*
89981467 GTCTTACACAGGCACATATATCATCGCC
65 GTCTTACACAGGCACACATATCATCGCC
89981495 AATGTCCTAG
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
95 3 0.04
96 80 0.96
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (96 bp):
CCATGTCCCAGACATGGTCTTACATCAAGCCACATATCATCACCGACGCCATGTCCCAGACATGG
TCTTACACAGGCACACATATCATCGCCGATA
Found at i:89983511 original size:27 final size:27
Alignment explanation
Indices: 89983481--89983570 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
89983471 TTCAAAGAAT
*
89983481 GCCACAAAGGCTTCCTTATCATAGATC
1 GCCACAAAGGCTTCCTTTTCATAGATC
* *
89983508 GCCACAAAGCCTTCCTTTTCATAGCTC
1 GCCACAAAGGCTTCCTTTTCATAGATC
* * *
89983535 GCCAGAAAGGATTCATTTTCATAGATC
1 GCCACAAAGGCTTCCTTTTCATAGATC
**
89983562 AACACAAAG
1 GCCACAAAG
89983571 ATCACCACAA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (27 bp):
GCCACAAAGGCTTCCTTTTCATAGATC
Found at i:89983610 original size:66 final size:67
Alignment explanation
Indices: 89983503--89983637 Score: 166
Period size: 66 Copynumber: 2.0 Consensus size: 67
89983493 TCCTTATCAT
* * * *
89983503 AGATCGCCACAAAGCCTTCCTTTTCATAGCTCGCCAGAAAGG-ATTCATTTTCATAGATCAACAC
1 AGATCACCACAAAGCCTCCCTTTTCATAGATCACCAGAAAGGCATTCATTTTCATAGATCAACAC
89983567 AA
66 AA
* * * **
89983569 AGATCACCACAAAAG-CTCCCTTTTCATAGATCACCATAAAGGCTTTTATTTTCATAGATCGTCA
1 AGATCACCAC-AAAGCCTCCCTTTTCATAGATCACCAGAAAGGCATTCATTTTCATAGATCAACA
89983633 CAA
65 CAA
89983636 AG
1 AG
89983638 GCTTTCTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
66 32 0.55
67 26 0.45
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (67 bp):
AGATCACCACAAAGCCTCCCTTTTCATAGATCACCAGAAAGGCATTCATTTTCATAGATCAACAC
AA
Found at i:89983655 original size:27 final size:28
Alignment explanation
Indices: 89983588--89983664 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
89983578 CAAAAGCTCC
**
89983588 CTTTTCATAGATCACCATAAAGGCTTTT
1 CTTTTCATAGATCGTCATAAAGGCTTTT
* *
89983616 ATTTTCATAGATCGTCACAAAGGC-TTT
1 CTTTTCATAGATCGTCATAAAGGCTTTT
*
89983643 CTTTTCAAAGATCGTCATAAAG
1 CTTTTCATAGATCGTCATAAAG
89983665 ACTTCCATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 22 0.52
28 20 0.48
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (28 bp):
CTTTTCATAGATCGTCATAAAGGCTTTT
Found at i:89983665 original size:94 final size:93
Alignment explanation
Indices: 89983482--89983655 Score: 206
Period size: 94 Copynumber: 1.9 Consensus size: 93
89983472 TCAAAGAATG
* * * * * *
89983482 CCACAAAGGCTTCCTTATCATAGATCGCCACAAAGCCTTCCTTTTCATAGCTCGCCAGAAAGGAT
1 CCACAAAAGCTCCCTTATCATAGATCACCACAAAGCCTTCATTTTCATAGATCGCCACAAAGGAT
*
89983547 TCATTTTCATAGATCAACACAAAGATCA
66 TCATTTTCAAAGATCAACACAAAGATCA
* * * * *
89983575 CCACAAAAGCTCCCTTTTCATAGATCACCATAAAGGCTTTTATTTTCATAGATCGTCACAAAGGC
1 CCACAAAAGCTCCCTTATCATAGATCACCACAAA-GCCTTCATTTTCATAGATCGCCACAAAGG-
*
89983640 TTTC-TTTTCAAAGATC
64 ATTCATTTTCAAAGATC
89983656 GTCATAAAGA
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
93 29 0.44
94 34 0.52
95 3 0.05
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (93 bp):
CCACAAAAGCTCCCTTATCATAGATCACCACAAAGCCTTCATTTTCATAGATCGCCACAAAGGAT
TCATTTTCAAAGATCAACACAAAGATCA
Found at i:89989773 original size:23 final size:25
Alignment explanation
Indices: 89989747--89989793 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
89989737 TATCATTCAT
*
89989747 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
89989770 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
89989794 TATATTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:89990114 original size:46 final size:46
Alignment explanation
Indices: 89990064--89990411 Score: 498
Period size: 46 Copynumber: 7.7 Consensus size: 46
89990054 TGCCATAGCG
* * * *
89990064 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
** * * * *
89990110 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
89990156 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
89990202 TCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
89990248 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGATA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
89990294 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
89990340 TCTTTCAACCATGGTCTT--ACA---C--A-CAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
89990378 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
89990412 AGAGCACACT
Statistics
Matches: 275, Mismatches: 18, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
38 32 0.12
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 5 0.02
46 229 0.83
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.38
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:89990381 original size:38 final size:38
Alignment explanation
Indices: 89990325--89990400 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
89990315 CATTTCATAT
*
89990325 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
89990363 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
89990401 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (38 bp):
CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
Done.