Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008374.1 Hibiscus syriacus cultivar Beakdansim tig00111131_pilon, whole genome shotgun sequence
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: 1731758
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 10
Found at i:1356094 original size:21 final size:22
Alignment explanation
Indices: 1356062--1356121 Score: 95
Period size: 21 Copynumber: 2.8 Consensus size: 22
1356052 ACCAACAACC
1356062 ATAACAAACTAATAACAAACTA
1 ATAACAAACTAATAACAAACTA
*
1356084 ATAAC-AACTAATAACAAGCTA
1 ATAACAAACTAATAACAAACTA
*
1356105 ATAACAAACTATTAACA
1 ATAACAAACTAATAACA
1356122 CTCTAACATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 20 0.57
22 15 0.43
ACGTcount: A:0.60, C:0.18, G:0.02, T:0.20
Consensus pattern (22 bp):
ATAACAAACTAATAACAAACTA
Found at i:1358372 original size:21 final size:22
Alignment explanation
Indices: 1358346--1358435 Score: 125
Period size: 21 Copynumber: 4.3 Consensus size: 22
1358336 ACCAACAACC
1358346 ATAACAAACTAATAAC-AACTA
1 ATAACAAACTAATAACAAACTA
*
1358367 ATAACAAATTAATAAC-AACTA
1 ATAACAAACTAATAACAAACTA
1358388 ATAAC-AACTAATAACAAACTA
1 ATAACAAACTAATAACAAACTA
*
1358409 ATAACAAAC-CATAACAAACTA
1 ATAACAAACTAATAACAAACTA
*
1358430 TTAACA
1 ATAACA
1358436 CTCTAACAAC
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
20 9 0.14
21 51 0.81
22 3 0.05
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.20
Consensus pattern (22 bp):
ATAACAAACTAATAACAAACTA
Found at i:1358422 original size:10 final size:11
Alignment explanation
Indices: 1358346--1358435 Score: 125
Period size: 10 Copynumber: 8.5 Consensus size: 11
1358336 ACCAACAACC
1358346 ATAACAAACTA
1 ATAACAAACTA
1358357 ATAAC-AACTA
1 ATAACAAACTA
*
1358367 ATAACAAATTA
1 ATAACAAACTA
1358378 ATAAC-AACTA
1 ATAACAAACTA
1358388 ATAAC-AACTA
1 ATAACAAACTA
1358398 ATAACAAACTA
1 ATAACAAACTA
*
1358409 ATAACAAAC-C
1 ATAACAAACTA
1358419 ATAACAAACTA
1 ATAACAAACTA
*
1358430 TTAACA
1 ATAACA
1358436 CTCTAACAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
10 38 0.54
11 33 0.46
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.20
Consensus pattern (11 bp):
ATAACAAACTA
Found at i:1358423 original size:31 final size:32
Alignment explanation
Indices: 1358346--1358435 Score: 130
Period size: 31 Copynumber: 2.8 Consensus size: 32
1358336 ACCAACAACC
*
1358346 ATAACAAACTAATAACAACTAATAACAAATTA
1 ATAACAAACTAATAACAACTAATAACAAACTA
1358378 ATAAC-AACTAATAACAACTAATAACAAACTA
1 ATAACAAACTAATAACAACTAATAACAAACTA
* *
1358409 ATAACAAAC-CATAACAAACTATTAACA
1 ATAACAAACTAATAAC-AACTAATAACA
1358436 CTCTAACAAC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
31 35 0.66
32 18 0.34
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.20
Consensus pattern (32 bp):
ATAACAAACTAATAACAACTAATAACAAACTA
Found at i:1363224 original size:2 final size:2
Alignment explanation
Indices: 1363217--1363254 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1363207 TAAGAATTGA
1363217 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1363255 ACAAGACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1363371 original size:21 final size:19
Alignment explanation
Indices: 1363342--1363380 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
1363332 TACAAGTTCT
*
1363342 AAATTATATTATATTTTAAA
1 AAATTATATT-TAATTTAAA
1363362 AAATATATATTTAATTTAA
1 AAAT-TATATTTAATTTAA
1363381 GACTAGATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATTATATTTAATTTAAA
Found at i:1366818 original size:2 final size:2
Alignment explanation
Indices: 1366811--1366839 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1366801 CTTATCTATG
1366811 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1366840 CGTTCACTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1367167 original size:18 final size:18
Alignment explanation
Indices: 1367144--1367178 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1367134 ACTGCATATT
*
1367144 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
1367162 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
1367179 CCTTAAGAAC
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:0.26, C:0.34, G:0.20, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:1368166 original size:2 final size:2
Alignment explanation
Indices: 1368159--1368248 Score: 173
Period size: 2 Copynumber: 45.5 Consensus size: 2
1368149 TAAGAACTGA
1368159 AT 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 AT
1368201 AT 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 AT
1368243 AT -T AT A
1 AT AT AT A
1368249 ACAAGACATA
Statistics
Matches: 87, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 86 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1368365 original size:21 final size:19
Alignment explanation
Indices: 1368336--1368374 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
1368326 TACAAGTTCT
*
1368336 AAATTATATTATATTTTAAA
1 AAATTATATT-TAATTTAAA
1368356 AAATATATATTTAATTTAA
1 AAAT-TATATTTAATTTAA
1368375 GACTAGATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATTATATTTAATTTAAA
Found at i:1376478 original size:41 final size:40
Alignment explanation
Indices: 1376339--1376478 Score: 106
Period size: 42 Copynumber: 3.4 Consensus size: 40
1376329 AAAATACTAC
* *
1376339 TTTAGTGGCGTTTTTTCAACAAACGCCGTAATAGAGTGGTAA
1 TTTAGCGGCG-TTTTTCAACAAACGCCG-AATAGAGTAGTAA
* * * * *
1376381 TTTAGCAGCGTTTAT-AACTCAAACACCAGAATATAGTTGT--
1 TTTAGCGGCGTTTTTCAA--CAAACGCC-GAATAGAGTAGTAA
* *
1376421 TTATAGTGGCATTTTTTCAACAAACGCCGCAATAGAGTAGTAA
1 TT-TAGCGGC-GTTTTTCAACAAACGCCG-AATAGAGTAGTAA
1376464 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
1376479 ATACAAATAC
Statistics
Matches: 74, Mismatches: 15, Indels: 19
0.69 0.14 0.18
Matches are distributed among these distances:
40 5 0.07
41 30 0.41
42 34 0.46
43 5 0.07
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTCAACAAACGCCGAATAGAGTAGTAA
Found at i:1380660 original size:42 final size:43
Alignment explanation
Indices: 1380534--1380837 Score: 350
Period size: 42 Copynumber: 7.2 Consensus size: 43
1380524 GGTAATTAGT
* * * *
1380534 GGCGTTTGTATCCACAAACGCCGCTATAGATCT-AACCTTTTAC
1 GGCGTTTGT-TCCAAAAACGCCGCTATAGATATCGACCTTTTGC
* * *
1380577 GGTGTTTGTATCCAAAAACGCCGCTATAAATAT-GA-CATTTGC
1 GGCGTTTGT-TCCAAAAACGCCGCTATAGATATCGACCTTTTGC
* * * *
1380619 GGCATTTGTTTC-AAAATGCTGCTATAGATATCGACCTTTTGC
1 GGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCTTTTGC
* *
1380661 GGCGTTTGTTCCAAAAACGCTGCTATAGATCT-GACCTTTTGC
1 GGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCTTTTGC
* *
1380703 GGCGTTTGTTACAAAAACGCCGCAATAGATATCGACCTTTT-C
1 GGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCTTTTGC
* *
1380745 GGCGTTTATTCCAAAAACGCCGCTATTGATATCGACCTTTTGC
1 GGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCTTTTGC
* * * * *
1380788 GACGTTTGTTCCAAAAACGCCGCGATAGATCTTGACCTATTGC
1 GGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCTTTTGC
1380831 GGCGTTT
1 GGCGTTT
1380838 TTTGTTCTCA
Statistics
Matches: 222, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
40 16 0.07
41 4 0.02
42 104 0.47
43 98 0.44
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (43 bp):
GGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCTTTTGC
Found at i:1380794 original size:85 final size:85
Alignment explanation
Indices: 1380534--1380837 Score: 337
Period size: 85 Copynumber: 3.6 Consensus size: 85
1380524 GGTAATTAGT
* * * * *
1380534 GGCGTTTGTATCCACAAACGCCGCTATAGATCT-AACCTTTTACGGTGTTTGTATCCAAAAACGC
1 GGCGTTTGT-TACAAAAACGCCGCTATAGATATCGACCTTTTACGGCGTTTGT-TCCAAAAACGC
* *
1380598 CGCTATAAATATGA-CATTTGC
64 CGCTATAGATATGACCTTTTGC
* * * * * *
1380619 GGCATTTGTTTC-AAAATGCTGCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAACGCTG
1 GGCGTTTGTTACAAAAACGCCGCTATAGATATCGACCTTTTACGGCGTTTGTTCCAAAAACGCCG
*
1380683 CTATAGATCTGACCTTTTGC
66 CTATAGATATGACCTTTTGC
* *
1380703 GGCGTTTGTTACAAAAACGCCGCAATAGATATCGACCTTTT-CGGCGTTTATTCCAAAAACGCCG
1 GGCGTTTGTTACAAAAACGCCGCTATAGATATCGACCTTTTACGGCGTTTGTTCCAAAAACGCCG
*
1380767 CTATTGATATCGACCTTTTGC
66 CTATAGATAT-GACCTTTTGC
* * * * * * *
1380788 GACGTTTGTTCCAAAAACGCCGCGATAGATCTTGACCTATTGCGGCGTTT
1 GGCGTTTGTTACAAAAACGCCGCTATAGATATCGACCTTTTACGGCGTTT
1380838 TTTGTTCTCA
Statistics
Matches: 186, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
83 37 0.20
84 63 0.34
85 78 0.42
86 8 0.04
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (85 bp):
GGCGTTTGTTACAAAAACGCCGCTATAGATATCGACCTTTTACGGCGTTTGTTCCAAAAACGCCG
CTATAGATATGACCTTTTGC
Found at i:1386697 original size:11 final size:11
Alignment explanation
Indices: 1386681--1386707 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1386671 CTCTGTATAC
1386681 GCAATCCCATG
1 GCAATCCCATG
1386692 GCAATCCCATG
1 GCAATCCCATG
1386703 GCAAT
1 GCAAT
1386708 GCAAGTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.19
Consensus pattern (11 bp):
GCAATCCCATG
Found at i:1388849 original size:15 final size:16
Alignment explanation
Indices: 1388820--1388865 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
1388810 TTAATATATG
*
1388820 GTTTATAT-TAATATA
1 GTTTATATATACTATA
1388835 -TTTATATATACTATA
1 GTTTATATATACTATA
1388850 TGTTTATATATACTAT
1 -GTTTATATATACTAT
1388866 GAACTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 7 0.26
15 6 0.22
17 14 0.52
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (16 bp):
GTTTATATATACTATA
Found at i:1388850 original size:17 final size:17
Alignment explanation
Indices: 1388830--1388865 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1388820 GTTTATATTA
1388830 ATATATTTATATATACT
1 ATATATTTATATATACT
*
1388847 ATATGTTTATATATACT
1 ATATATTTATATATACT
1388864 AT
1 AT
1388866 GAACTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (17 bp):
ATATATTTATATATACT
Found at i:1388973 original size:57 final size:57
Alignment explanation
Indices: 1388840--1389004 Score: 252
Period size: 56 Copynumber: 3.0 Consensus size: 57
1388830 ATATATTTAT
*
1388840 ATATACTATAT--GTTTATATATACT-ATGAACTAT-ATATATAG-TTGTATATACC
1 ATATACTATATAGGTTTATATATACTAATGAACTATAATATATAGTTTGTATATACA
1388892 ATATACTATATAGG-TTATATATACTAATGAACTATAATATATAGTTTGTATATACA
1 ATATACTATATAGGTTTATATATACTAATGAACTATAATATATAGTTTGTATATACA
*
1388948 ATATACTATATAGGTTTATATATACTAATGAACTATATAGTATATAGTTTATATATA
1 ATATACTATATAGGTTTATATATACTAATGAACTATA-A-TATATAGTTTGTATATA
1389005 ATGACTATAT
Statistics
Matches: 103, Mismatches: 2, Indels: 9
0.90 0.02 0.08
Matches are distributed among these distances:
52 11 0.11
53 11 0.11
54 10 0.10
55 8 0.08
56 24 0.23
57 22 0.21
58 1 0.01
59 16 0.16
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.43
Consensus pattern (57 bp):
ATATACTATATAGGTTTATATATACTAATGAACTATAATATATAGTTTGTATATACA
Found at i:1389017 original size:15 final size:15
Alignment explanation
Indices: 1388964--1389019 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
1388954 TATATAGGTT
1388964 TATATATACTAATGAAC
1 TATATATA-TAATG-AC
*
1388981 TATATAGTAT-AT-AG
1 TATATA-TATAATGAC
*
1388995 TTTATATATAATGAC
1 TATATATATAATGAC
1389010 TATATATATA
1 TATATATATA
1389020 TAGTTTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 3 0.09
14 8 0.25
15 10 0.31
16 2 0.06
17 7 0.22
18 2 0.06
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (15 bp):
TATATATATAATGAC
Found at i:1389040 original size:18 final size:18
Alignment explanation
Indices: 1389017--1389066 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
1389007 GACTATATAT
1389017 ATATAGTTTATATATACC
1 ATATAGTTTATATATACC
* *
1389035 ATATAGTCTATATATATC
1 ATATAGTTTATATATACC
*
1389053 ATCTAGTTTATATA
1 ATATAGTTTATATA
1389067 CTAATAACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (18 bp):
ATATAGTTTATATATACC
Found at i:1389051 original size:13 final size:13
Alignment explanation
Indices: 1388983--1389032 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
1388973 TAATGAACTA
1388983 TATAGTATATAGTT
1 TATA-TATATAGTT
* *
1388997 TATATATAATGACTA
1 TATATAT-AT-AGTT
1389012 TATATATATAGTT
1 TATATATATAGTT
1389025 TATATATA
1 TATATATA
1389033 CCATATAGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 13 0.43
14 8 0.27
15 9 0.30
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (13 bp):
TATATATATAGTT
Found at i:1389140 original size:7 final size:7
Alignment explanation
Indices: 1389125--1389263 Score: 60
Period size: 7 Copynumber: 19.9 Consensus size: 7
1389115 ATATGTAAAT
*
1389125 TATACTA
1 TATAGTA
1389132 TATAGTA
1 TATAGTA
*
1389139 TATTAGTT
1 TA-TAGTA
*
1389147 TTTA-TA
1 TATAGTA
*
1389153 TATAATA
1 TATAGTA
1389160 TATAGTATA
1 TATAG--TA
*
1389169 TATAATA
1 TATAGTA
1389176 TATAGTA
1 TATAGTA
*
1389183 TATA-AA
1 TATAGTA
*
1389189 TATA-AA
1 TATAGTA
1389195 CTATAGTA
1 -TATAGTA
1389203 TATAGTA
1 TATAGTA
*
1389210 TATA-AA
1 TATAGTA
*
1389216 TATA-AA
1 TATAGTA
1389222 CTATAGT-
1 -TATAGTA
1389229 T-TA-TA
1 TATAGTA
1389234 TATAGTA
1 TATAGTA
*
1389241 TATACTA
1 TATAGTA
1389248 TACAATAGTA
1 T---ATAGTA
1389258 TATAGT
1 TATAGT
1389264 TCACTAATAA
Statistics
Matches: 104, Mismatches: 14, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
4 1 0.01
5 3 0.03
6 21 0.20
7 61 0.59
8 6 0.06
9 6 0.06
10 6 0.06
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (7 bp):
TATAGTA
Found at i:1389172 original size:18 final size:18
Alignment explanation
Indices: 1389149--1389460 Score: 103
Period size: 18 Copynumber: 17.4 Consensus size: 18
1389139 TATTAGTTTT
1389149 TATATATAATATATAG--
1 TATATATAATATATAGTA
1389165 TATATATAATATATAG--
1 TATATATAATATATAGTA
* *
1389181 TATATA-AATATAAACTA
1 TATATATAATATATAGTA
*
1389198 TAGTATATAGTATATA--A
1 TA-TATATAATATATAGTA
* *
1389215 -ATATA-AA-CTATAGTT
1 TATATATAATATATAGTA
* *
1389230 TATATATAGTATATACTA
1 TATATATAATATATAGTA
* *
1389248 TACA-ATAGTATATAGT-
1 TATATATAATATATAGTA
*
1389264 TCACTAATAAACTATATATAGT-
1 T-A-T-ATATA--ATATATAGTA
*
1389286 TCATATGTAA-ACTATAGTA
1 T-ATATATAATA-TATAGTA
* *
1389305 TGTTAATATCAA-ACTATAGTT
1 T-AT-ATAT-AATA-TATAGTA
*
1389326 TATATGTAA-ACTATAGTTCA
1 TATATATAATA-TATAG-T-A
**
1389346 TATAATATCAACCT-TAGTA
1 TAT-ATAT-AATATATAGTA
*
1389365 TATAT-TATATATATATTA
1 TATATATA-ATATATAGTA
1389383 TA-ATATATATATATA-TA
1 TATATATA-ATATATAGTA
*
1389400 TATATATATATATATATTA
1 TATATATA-ATATATAGTA
1389419 TATATATAATATATA-TA
1 TATATATAATATATAGTA
*
1389436 TATATA-ATATATATA-TT
1 TATATATA-ATATATAGTA
1389453 TATATATA
1 TATATATA
1389461 GTTCATATGT
Statistics
Matches: 234, Mismatches: 31, Indels: 60
0.72 0.10 0.18
Matches are distributed among these distances:
13 4 0.02
14 1 0.00
15 11 0.05
16 31 0.13
17 48 0.21
18 67 0.29
19 27 0.12
20 13 0.06
21 18 0.08
22 14 0.06
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
TATATATAATATATAGTA
Found at i:1389172 original size:20 final size:20
Alignment explanation
Indices: 1389125--1389897 Score: 150
Period size: 20 Copynumber: 39.5 Consensus size: 20
1389115 ATATGTAAAT
* *
1389125 TATACTATATAGTATATTAGTT
1 TATA-TATATAATATA-TAGTA
*
1389147 TTTATATATAATATATAG--
1 TATATATATAATATATAGTA
1389165 --TATATATAATATATAGTA
1 TATATATATAATATATAGTA
*
1389183 TATAAATATAA-ACTATAGTA
1 TATATATATAATA-TATAGTA
* *
1389203 TATAGTATATAAATATAAACTA
1 TATA-TATAT-AATATATAGTA
*
1389225 TAGTTTATAT-ATAGTATA-TA
1 TA-TATATATAATA-TATAGTA
* *
1389245 CTATACA-ATAGTATATAGT-
1 -TATATATATAATATATAGTA
1389264 TCACTA-ATA-AACTATATA-TA
1 T-A-TATATATAA-TATATAGTA
*
1389284 GT-TCATATGTAA-ACTATAGTA
1 -TAT-ATATATAATA-TATAGTA
*
1389305 TGT-TAATATCAA-ACTATAGT-
1 TATAT-ATAT-AATA-TATAGTA
*
1389325 T-TATATGTAA-ACTATAGT-
1 TATATATATAATA-TATAGTA
**
1389343 TCATATAATATCAACCT-TAGTA
1 T-ATAT-ATAT-AATATATAGTA
1389365 TATAT-TAT-ATATATA-T-
1 TATATATATAATATATAGTA
1389381 TATA-ATAT-ATATATA-TA
1 TATATATATAATATATAGTA
1389398 TATATATAT-ATATATA-TA
1 TATATATATAATATATAGTA
1389416 T-TATATAT-ATA-ATA-TA
1 TATATATATAATATATAGTA
1389432 TATATATATAATATATA-TA
1 TATATATATAATATATAGTA
* *
1389451 TTTATATATAGT-TCATATGTA
1 TATATATATAATAT-ATA-GTA
* *
1389472 AACTATAGT-TCATATATAGTA
1 TA-TATA-TATAATATATAGTA
* *
1389493 AATAAATATAA-ACCTATAGTTTA
1 TATATATATAATA--TATAG--TA
1389516 TATAAATAGTATAA-ATATAGTA
1 TAT--ATA-TATAATATATAGTA
1389538 TA-ATATA-AAT-TATAGTA
1 TATATATATAATATATAGTA
* * ***
1389555 TGTAGTTATATAA-ATAAACCC
1 TATA--TATATAATATATAGTA
* * *
1389576 TAAACCATATACTATATA-TA
1 TATA-TATATAATATATAGTA
* *
1389596 TATATATA-AACTATATAATT
1 TATATATATAA-TATATAGTA
1389616 TAT-TA-ATAA-ACTATA-TA
1 TATATATATAATA-TATAGTA
* * *
1389633 -ATTTATACAATATATATTA
1 TATATATATAATATATAGTA
1389652 TATA-ATTATACATA-ATA-TA
1 TATATA-TATA-ATATATAGTA
*
1389671 TA-ATATA-AATATATAGTT
1 TATATATATAATATATAGTA
* *
1389689 TATATATAATTAATATATAATT
1 TATATAT-A-TAATATATAGTA
*
1389711 TATATATA-AACTATGTAGT-
1 TATATATATAA-TATATAGTA
* *
1389730 T-TCTATATAGT-TCATA-TA
1 TATATATATAATAT-ATAGTA
* * *
1389748 TAAACTATATAGTATTATAGTT
1 TATA-TATATAATA-TATAGTA
* * *
1389770 TATACATGGT-ATATATAGTT
1 TATATAT-ATAATATATAGTA
* *
1389790 TATACTTTCTACATA-ATA-TA
1 TATA-TATATA-ATATATAGTA
*
1389810 TATATATATACTATATAGTA
1 TATATATATAATATATAGTA
*
1389830 TATATATATAATACATA-TA
1 TATATATATAATATATAGTA
* *
1389849 CTTTATATATAAACTATATAGTT
1 -TATATATAT-AA-TATATAGTA
1389872 TATAT-TAT-ATATATA-TA
1 TATATATATAATATATAGTA
*
1389889 TATCTATAT
1 TATATATAT
1389898 TAGTTGTTTT
Statistics
Matches: 572, Mismatches: 79, Indels: 204
0.67 0.09 0.24
Matches are distributed among these distances:
16 42 0.07
17 49 0.09
18 75 0.13
19 84 0.15
20 142 0.25
21 89 0.16
22 69 0.12
23 9 0.02
24 5 0.01
25 2 0.00
26 6 0.01
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.44
Consensus pattern (20 bp):
TATATATATAATATATAGTA
Found at i:1389199 original size:27 final size:27
Alignment explanation
Indices: 1389169--1389244 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
1389159 ATATAGTATA
1389169 TATAATATATAGTATATAAATATAAAC
1 TATAATATATAGTATATAAATATAAAC
*
1389196 TATAGTATATAGTATATAAATATAAAC
1 TATAATATATAGTATATAAATATAAAC
1389223 TATAGTTTATATATAGTATATA
1 TATA----ATATATAGTATATA
1389245 CTATACAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 30 0.70
31 13 0.30
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.41
Consensus pattern (27 bp):
TATAATATATAGTATATAAATATAAAC
Found at i:1389261 original size:2 final size:2
Alignment explanation
Indices: 1389149--1389249 Score: 62
Period size: 2 Copynumber: 47.0 Consensus size: 2
1389139 TATTAGTTTT
*
1389149 TA TA TA TA -A TA TA TA GTA TA TA TA -A TA TA TA GTA TA TA AA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * *
1389191 TA AA CTA TA GTA TA TA GTA TA TA AA TA TA AA CTA TA GTT TA TA TA
1 TA TA -TA TA -TA TA TA -TA TA TA TA TA TA TA -TA TA -TA TA TA TA
1389236 TA GTA TA TA CTA TA
1 TA -TA TA TA -TA TA
1389250 CAATAGTATA
Statistics
Matches: 78, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
1 2 0.03
2 61 0.78
3 15 0.19
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.42
Consensus pattern (2 bp):
TA
Found at i:1389269 original size:22 final size:22
Alignment explanation
Indices: 1389256--1389301 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1389246 TATACAATAG
1389256 TATATAGTTCACTAATAAACTA
1 TATATAGTTCACTAATAAACTA
*
1389278 TATATAGTTCA-TATGTAAACTA
1 TATATAGTTCACTA-ATAAACTA
1389300 TA
1 TA
1389302 GTATGTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (22 bp):
TATATAGTTCACTAATAAACTA
Found at i:1389313 original size:22 final size:21
Alignment explanation
Indices: 1389271--1389342 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 21
1389261 AGTTCACTAA
1389271 TAAACTATA-TATAGTTCATATG
1 TAAACTATAGTAT-GTT-ATATG
1389293 TAAACTATAGTATGTTAATAT-
1 TAAACTATAGTATGTT-ATATG
*
1389314 CAAACTATAG--T-TTATATG
1 TAAACTATAGTATGTTATATG
1389332 TAAACTATAGT
1 TAAACTATAGT
1389343 TCATATAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
17 4 0.09
18 11 0.25
19 1 0.02
21 9 0.20
22 16 0.36
23 3 0.07
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (21 bp):
TAAACTATAGTATGTTATATG
Found at i:1389369 original size:39 final size:39
Alignment explanation
Indices: 1389280--1389369 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 39
1389270 ATAAACTATA
*
1389280 TATAGT-TCATATGTAAACTATAGTATGTTAATATCAAAC
1 TATAGTAT-ATATGTAAACTATAGTATGATAATATCAAAC
* *
1389319 TATAGTTTATATGTAAACTATAGTTCAT-ATAATATCAACC
1 TATAGTATATATGTAAACTATAG-T-ATGATAATATCAAAC
1389359 T-TAGTATATAT
1 TATAGTATATAT
1389370 TATATATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
39 30 0.67
40 13 0.29
41 2 0.04
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (39 bp):
TATAGTATATATGTAAACTATAGTATGATAATATCAAAC
Found at i:1389375 original size:2 final size:2
Alignment explanation
Indices: 1389363--1389897 Score: 167
Period size: 2 Copynumber: 266.5 Consensus size: 2
1389353 TCAACCTTAG
1389363 TA TA TA T- TA TA TA TA TA T- TA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1389402 TA TA TA TA TA TA TA T- TA TA TA TA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1389442 -A TA TA TA TA TT TA TA TA TA GT- TCA TA TG TA AA CTA TA GT- TCA
1 TA TA TA TA TA TA TA TA TA TA -TA T-A TA TA TA TA -TA TA -TA T-A
* * * ** * *
1389484 TA TA TA GTA AA TA AA TA TA AA CC TA TA GTT TA TA TA AA TA GTA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA
* * *
1389527 TA AA TA TA GTA TA -A TA TA AA T- TA TA GTA TG TA GT- TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * ** * * *
1389567 AA TA AA CCC TA AA CCA TA TA CTA TA TA TA TA TA TA TA AA CTA TA
1 TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA
* * * *
1389611 TA -A TT TA T- TA -A TA AA CTA TA TA -A TT TA TA CA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* *
1389649 T- TA TA TA -A T- TA TA CA TA -A TA TA TA -A TA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1389686 GTT TA TA TA TA -A T- TA -A TA TA TA -A TT TA TA TA TA AA CTA TG
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
1389726 TA GTT TC TA TA TA GT- TCA TA TA TA AA CTA TA TA GTA T- TA TA GTT
1 TA -TA TA TA TA TA -TA T-A TA TA TA TA -TA TA TA -TA TA TA TA -TA
* * * * * *
1389770 TA TA CA TGG TA TA TA TA GTT TA TA CTT TC TA CA TA -A TA TA TA
1 TA TA TA T-A TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA
* *
1389812 TA TA TA TA CTA TA TA GTA TA TA TA TA TA -A TA CA TA TA CTT TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * *
1389854 TA TA TA AA CTA TA TA GTT TA TA T- TA TA TA TA TA TA TA TC TA TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1389897 T
1 T
1389898 TAGTTGTTTT
Statistics
Matches: 387, Mismatches: 84, Indels: 124
0.65 0.14 0.21
Matches are distributed among these distances:
1 30 0.08
2 318 0.82
3 39 0.10
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1389646 original size:7 final size:7
Alignment explanation
Indices: 1389636--1389718 Score: 55
Period size: 7 Copynumber: 11.6 Consensus size: 7
1389626 CTATATAATT
*
1389636 TATACAA
1 TATATAA
*
1389643 TATATAT
1 TATATAA
1389650 TATATAA
1 TATATAA
1389657 TTATACATAA
1 -TAT--ATAA
1389667 TATATAA
1 TATATAA
1389674 TATA-AA
1 TATATAA
*
1389680 TATATAG
1 TATATAA
*
1389687 TTTAT-A
1 TATATAA
1389693 TATAATTAA
1 TAT-A-TAA
1389702 TATATAA
1 TATATAA
*
1389709 TTTAT-A
1 TATATAA
1389715 TATA
1 TATA
1389719 AACTATGTAG
Statistics
Matches: 60, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
6 12 0.20
7 32 0.53
8 5 0.08
9 7 0.12
10 4 0.07
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (7 bp):
TATATAA
Found at i:1389667 original size:53 final size:53
Alignment explanation
Indices: 1389583--1389692 Score: 127
Period size: 53 Copynumber: 2.1 Consensus size: 53
1389573 CCCTAAACCA
* * * *
1389583 TATACTATATATATATATATAAACTATATAATTTATTAATA-AACTATATAATT
1 TATACAATATATATATATATAAACTACATAATATA-TAATATAAATATATAATT
*
1389636 TATACAATATATAT-TATATAATTA-TACATAATATATAATATAAATATATAGTT
1 TATACAATATATATATATATAA--ACTACATAATATATAATATAAATATATAATT
1389689 TATA
1 TATA
1389693 TATAATTAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
52 12 0.24
53 36 0.73
54 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.45
Consensus pattern (53 bp):
TATACAATATATATATATATAAACTACATAATATATAATATAAATATATAATT
Found at i:1389802 original size:27 final size:27
Alignment explanation
Indices: 1389753--1389891 Score: 92
Period size: 27 Copynumber: 5.2 Consensus size: 27
1389743 ATATATAAAC
* **
1389753 TATATAGTATTATAGTTTATACATGGTA
1 TATATAGT-TTATACTTTATACATAATA
*
1389781 TATATAGTTTATACTTTCTACATAATA
1 TATATAGTTTATACTTTATACATAATA
* * *
1389808 TATATA-TATATACTATATAGTATATATA
1 TATATAGTTTATACTTTATA-CATA-ATA
** *
1389836 TATAATA-CATATACTTTATATATAA-A
1 TAT-ATAGTTTATACTTTATACATAATA
*
1389862 CTATATAGTTTATA--TTATATAT-ATA
1 -TATATAGTTTATACTTTATACATAATA
1389887 TATAT
1 TATAT
1389892 CTATATTAGT
Statistics
Matches: 93, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
24 6 0.06
25 9 0.10
26 14 0.15
27 32 0.34
28 18 0.19
29 14 0.15
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (27 bp):
TATATAGTTTATACTTTATACATAATA
Found at i:1390320 original size:215 final size:214
Alignment explanation
Indices: 1389917--1390735 Score: 1234
Period size: 216 Copynumber: 3.9 Consensus size: 214
1389907 TAATTTTTTT
* *
1389917 CTCA-ACTTATTACTTATTTCTATTTATT-AAGTGGCCCATAACTTTTTAAATGAGTATAATTTA
1 CTCATACTTATTACTTATTTCTATTT-TTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTA
* * *
1389980 GTACATTTTATATTAATTCAAC-TCAAAATTTAAAATTA-TTCGATTTGAT-CC-C-T---T-TG
65 GTACTTTTTGTATTAATTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTG
1390036 TGTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATT
130 TGTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATT
1390101 TTATTTGCACATGAAATTGA
195 TTATTTGCACATGAAATTGA
1390121 CTCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAG
1 CTCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAG
*
1390186 TACTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCTCTCATCAATGTG
66 TACTTTTTGTATTAA-TTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTG
* *
1390251 TGTTGTTTAATATATTTAAATTTTTATTTGTAATTTTATATTTATTCAATTTAGTCCTCCAAATT
130 TGTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATT
1390316 TTATTTGCATC-TGAAATTGA
195 TTATTTGCA-CATGAAATTGA
* * *
1390336 CCCATAGTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAA
1 CTCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAG
1390401 TACTATTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGT
66 TACT-TTTTGTATTAA-TTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGT
* * * * *
1390466 GTGTTGTTTAATTTATTTAAATTTTTATTTTTAATTTCATATATGTTCAATTTAGTTCTACAAAT
129 GTGTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAAT
*
1390531 TTTATTTGCATATGAAATTGA
194 TTTATTTGCACATGAAATTGA
* *
1390552 -TCCATACTTATTACTTAATTCTATTTTTTTAATTGGCCCATAAC-TTTTAAATGGGTATAATTT
1 CT-CATACTTATTACTTATTTCTA-TTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTT
* * *
1390615 AGTATTTTTTTGTATTAATTCAACCTCACAATTTAAAAATTATTTCAATTTGATCCCTCATCAAT
64 AGTA-CTTTTTGTATTAATTCAACATCACAATTT-AAAATTATTTCGATTTGATCCCTCATCAAT
* * *
1390680 ATGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATAATTGTTCAATTTA
127 GTGTGTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
1390736 ATTCCTAAAT
Statistics
Matches: 564, Mismatches: 32, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
204 6 0.01
205 68 0.12
206 6 0.01
207 15 0.03
208 11 0.02
209 1 0.00
210 1 0.00
211 1 0.00
214 1 0.00
215 164 0.29
216 270 0.48
217 20 0.04
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (214 bp):
CTCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAG
TACTTTTTGTATTAATTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGT
GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
TATTTGCACATGAAATTGA
Found at i:1390766 original size:431 final size:418
Alignment explanation
Indices: 1389923--1390771 Score: 1233
Period size: 431 Copynumber: 2.0 Consensus size: 418
1389913 TTTTCTCAAC
*
1389923 TTATTACTTATTTCTATTTATTAAGTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACATTT
1 TTATTACTTATTTCTATTTATTAAGTGGCCCATAACTTTTTAAATGAGTATAATTTAATACATTT
1389988 TATATTAATTCAACTCAAAATTTAAAATTATTCGATTTGATCCCTTTGTGTTGTTTAATATATTT
66 TATATTAATTCAACTCAAAATTTAAAATTATTCGATTTGATCCCTTTGTGTTGTTTAATATATTT
* *
1390053 AAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCACATGAAAT
131 AAATTTTTATTTGTAATTTCATATATGTTCAATTTAGTCCTACAAATTTTATTTGCACATGAAAT
*
1390118 TGACTCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATT
196 TGACTCATACTTATTACTTAATTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATT
* *
1390183 TAGTACTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCTCTCATCAAT
261 TAGTACTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCAATTTGATCCCTCATCAAT
* * *
1390248 GTGTGTTGTTTAATATATTTAAATTTTTATTTGTAATTTTATATTTATTCAATTTAGTCCTCCAA
326 ATGTGTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATAATTATTCAATTTAGTCCT-CAA
* *
1390313 ATTTTATTTGCATCTGAAATTGACCCATAG
390 ATTTTATTTGCA-CTAAAATTGAACCATAG
* *
1390343 TTATTACTTATTTCTATTT-TTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAATACTAT
1 TTATTACTTATTTCTATTTATT-AAGTGGCCCATAACTTTTTAAATGAGTATAATTTAATAC-AT
* *
1390407 TTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTG
64 TTTATATTAA-TTCAAC-TCAAAATTTAAAATTA-TTCGATTTGAT-CC-C-T---T-TGTGTTG
* * *
1390472 TTTAATTTATTTAAATTTTTATTTTTAATTTCATATATGTTCAATTTAGTTCTACAAATTTTATT
119 TTTAATATATTTAAATTTTTATTTGTAATTTCATATATGTTCAATTTAGTCCTACAAATTTTATT
* *
1390537 TGCATATGAAATTGA-TCCATACTTATTACTTAATTCTATTTTTTTAATTGGCCCATAAC-TTTT
184 TGCACATGAAATTGACT-CATACTTATTACTTAATTCTA-TTTTTAAATTGGCCCATAACTTTTT
* *
1390600 AAATGGGTATAATTTAGTATTTTTTTGTATTAA-TTCAACCTCACAATTTAAAAATTATTTCAAT
247 AAATGGGTATAATTTAGTA-CTTTTTGTATTAATTTCAACATCACAATTT-AAAATTATTTCAAT
* *
1390664 TTGATCCCTCATCAATATGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATAATTGTT
310 TTGATCCCTCATCAATATGTGTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATAATTATT
* *
1390729 CAATTTAATTCCT-AAATTTGTATTTTTCA-TAAAATTGAACCAT
375 CAATTT-AGTCCTCAAATTT-TA-TTTGCACTAAAATTGAACCAT
1390772 GATTATTTAT
Statistics
Matches: 384, Mismatches: 26, Indels: 27
0.88 0.06 0.06
Matches are distributed among these distances:
419 2 0.01
420 55 0.14
421 11 0.03
422 6 0.02
423 15 0.04
424 11 0.03
425 2 0.01
426 1 0.00
427 1 0.00
430 2 0.01
431 157 0.41
432 111 0.29
433 10 0.03
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (418 bp):
TTATTACTTATTTCTATTTATTAAGTGGCCCATAACTTTTTAAATGAGTATAATTTAATACATTT
TATATTAATTCAACTCAAAATTTAAAATTATTCGATTTGATCCCTTTGTGTTGTTTAATATATTT
AAATTTTTATTTGTAATTTCATATATGTTCAATTTAGTCCTACAAATTTTATTTGCACATGAAAT
TGACTCATACTTATTACTTAATTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATT
TAGTACTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCAATTTGATCCCTCATCAAT
ATGTGTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATAATTATTCAATTTAGTCCTCAAA
TTTTATTTGCACTAAAATTGAACCATAG
Found at i:1391047 original size:16 final size:16
Alignment explanation
Indices: 1391009--1391047 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1390999 AACTGCTTCA
*
1391009 GACCTGAACTGACAAC
1 GACCTGAACTGAAAAC
* *
1391025 GATCTGAACTGAAAAT
1 GACCTGAACTGAAAAC
1391041 GACCTGA
1 GACCTGA
1391048 CCAGAACCTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (16 bp):
GACCTGAACTGAAAAC
Found at i:1393416 original size:15 final size:15
Alignment explanation
Indices: 1393380--1393423 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
1393370 GGTGTGCAAA
1393380 TCCGGGTACCCGGATT
1 TCCGGGTACCC-GATT
*
1393396 TTCGGGTACCCGATT
1 TCCGGGTACCCGATT
1393411 TCCGGGTACCCGA
1 TCCGGGTACCCGA
1393424 AACTTCCGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.14, C:0.32, G:0.30, T:0.25
Consensus pattern (15 bp):
TCCGGGTACCCGATT
Found at i:1393692 original size:12 final size:12
Alignment explanation
Indices: 1393677--1393702 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1393667 AATTATATAT
1393677 AAATAAAATAAA
1 AAATAAAATAAA
1393689 AAATAAAATAAA
1 AAATAAAATAAA
1393701 AA
1 AA
1393703 CTAACCGGGT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:1395810 original size:14 final size:14
Alignment explanation
Indices: 1395781--1395824 Score: 70
Period size: 14 Copynumber: 3.0 Consensus size: 14
1395771 CGTTCGTGAA
1395781 CGTTCAATTATATGTT
1 CGTTC-ATT-TATGTT
1395797 CGTTCATTTATGTT
1 CGTTCATTTATGTT
1395811 CGTTCATTTATGTT
1 CGTTCATTTATGTT
1395825 TGAACAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 20 0.71
15 3 0.11
16 5 0.18
ACGTcount: A:0.18, C:0.14, G:0.14, T:0.55
Consensus pattern (14 bp):
CGTTCATTTATGTT
Found at i:1396159 original size:20 final size:20
Alignment explanation
Indices: 1396126--1396165 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1396116 CGTTTACATT
*
1396126 CGTTCGTTTGTGTTCGTTTA
1 CGTTCGTTTATGTTCGTTTA
* *
1396146 CGTTCTTTTATGTTCTTTTA
1 CGTTCGTTTATGTTCGTTTA
1396166 TCATTTAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.07, C:0.15, G:0.17, T:0.60
Consensus pattern (20 bp):
CGTTCGTTTATGTTCGTTTA
Found at i:1401132 original size:21 final size:21
Alignment explanation
Indices: 1401106--1401199 Score: 136
Period size: 21 Copynumber: 4.5 Consensus size: 21
1401096 TATGCCATCT
1401106 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
1401127 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
* *
1401148 CCGCATGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCGAGC
* *
1401169 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCGAGC
1401190 CCGCAGGGTT
1 CCGCAGGGTT
1401200 TTATACCATA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
20 2 0.03
21 64 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCGAGC
Found at i:1401743 original size:28 final size:28
Alignment explanation
Indices: 1401711--1401781 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
1401701 GATAAATGTT
* *
1401711 TTTAAAATACAAATTATATTATTCAAAA
1 TTTAAAATAAAAATAATATTATTCAAAA
*
1401739 TTTAAAATAAAAATAATATTATTCGAAA
1 TTTAAAATAAAAATAATATTATTCAAAA
*
1401767 TTTAAAATTAAAATA
1 TTTAAAATAAAAATA
1401782 TAAATTACAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (28 bp):
TTTAAAATAAAAATAATATTATTCAAAA
Found at i:1401778 original size:34 final size:34
Alignment explanation
Indices: 1401735--1401812 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
1401725 TATATTATTC
* *
1401735 AAAATTTAAAATAAAAATAATATTATTCGAAATTT
1 AAAA-TTAAAATAAAAATAACAGTATTCGAAATTT
* *
1401770 AAAATTAAAATATAAATTACAGTATTCGAAATTT
1 AAAATTAAAATAAAAATAACAGTATTCGAAATTT
*
1401804 AACATTAAA
1 AAAATTAAA
1401813 TTTCGACTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
34 34 0.89
35 4 0.11
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (34 bp):
AAAATTAAAATAAAAATAACAGTATTCGAAATTT
Found at i:1402474 original size:128 final size:127
Alignment explanation
Indices: 1402206--1402683 Score: 836
Period size: 128 Copynumber: 3.7 Consensus size: 127
1402196 ACAATCCATC
* *
1402206 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGAAATCAT-ACAATATTCTCTGACAAAATAA
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAAC-ATATTCTCTGACAAAATAA
*
1402270 TGGAAGGCGC-CCCCCGGGAGCGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
65 TGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGT-CCCTGAGAAATAATAGGTACTGATATGAA
1402333 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
1402398 GGAAGGCGCGACCCCGGGAACGCGCCTTCAAGTCCTCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCC-CTGAGAAATAATAGGTACTGATATGAA
*
1402461 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTATCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1402526 GGAAGGCGC-CTCCCCGGGAACGCGCCTTCAAGTCCCTTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGC-CCCCGGGAACGCGCCTTCAAGTCCC-TGAGAAATAATAGGTACTGATATGAA
*
1402589 TAATGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1402654 GGAAGGCGCGCCCCCGGGAACGCGCCTTCA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCA
1402684 TGTGAATAGT
Statistics
Matches: 337, Mismatches: 8, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
127 72 0.21
128 264 0.78
129 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.21
Consensus pattern (127 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCTGAGAAATAATAGGTACTGATATGAA
Found at i:1402777 original size:8 final size:8
Alignment explanation
Indices: 1402764--1402804 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1402754 TCACAAGCTT
1402764 TCAAATTC
1 TCAAATTC
1402772 TCAAATTC
1 TCAAATTC
* *
1402780 CCAAACTC
1 TCAAATTC
1402788 T-AAATTC
1 TCAAATTC
1402795 TCAAATTC
1 TCAAATTC
1402803 TC
1 TC
1402805 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:1428073 original size:24 final size:24
Alignment explanation
Indices: 1428045--1428105 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
1428035 GCGGTAGAAA
*
1428045 GTTCGATTATGTTCGTTTATGTTC
1 GTTCGATTATGTTCGTTTATGTGC
* *
1428069 GTTCGGTTATATTCGTTTATGTGC
1 GTTCGATTATGTTCGTTTATGTGC
1428093 GTTC-ATTTATGTT
1 GTTCGA-TTATGTT
1428106 TAACCCAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.13, C:0.11, G:0.21, T:0.54
Consensus pattern (24 bp):
GTTCGATTATGTTCGTTTATGTGC
Found at i:1429660 original size:16 final size:16
Alignment explanation
Indices: 1429639--1429706 Score: 86
Period size: 16 Copynumber: 4.3 Consensus size: 16
1429629 GTCTCCAACG
1429639 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
1429655 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
* * *
1429671 TTTATTTTTCGTATTCG
1 TTTA-TGTTCGTGTTCA
1429688 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
1429702 TTTAT
1 TTTAT
1429707 TAAATGAACG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
14 5 0.11
15 2 0.04
16 26 0.57
17 13 0.28
ACGTcount: A:0.13, C:0.10, G:0.15, T:0.62
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:1429682 original size:33 final size:31
Alignment explanation
Indices: 1429645--1429707 Score: 90
Period size: 33 Copynumber: 2.0 Consensus size: 31
1429635 AACGTTTATG
*
1429645 TTCGTGTTCATTTATGTTCGTGTTCATTTATTT
1 TTCGTATTCATTTATGTTCGT-TT-ATTTATTT
*
1429678 TTCGTATTCGTTTATGTTCGTTTATTTATT
1 TTCGTATTCATTTATGTTCGTTTATTTATT
1429708 AAATGAACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 7 0.25
32 2 0.07
33 19 0.68
ACGTcount: A:0.13, C:0.11, G:0.14, T:0.62
Consensus pattern (31 bp):
TTCGTATTCATTTATGTTCGTTTATTTATTT
Found at i:1433604 original size:18 final size:17
Alignment explanation
Indices: 1433581--1433614 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1433571 AAAATGATAC
1433581 AACTAAAACAATAAAAAG
1 AACT-AAACAATAAAAAG
*
1433599 AACTAAATAATAAAAA
1 AACTAAACAATAAAAA
1433615 CAATTTGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.74, C:0.09, G:0.03, T:0.15
Consensus pattern (17 bp):
AACTAAACAATAAAAAG
Found at i:1435762 original size:24 final size:25
Alignment explanation
Indices: 1435700--1435773 Score: 62
Period size: 27 Copynumber: 2.8 Consensus size: 25
1435690 CTAATTTAAT
*
1435700 AAATATTATAGAAATTAAAATATAAA
1 AAATATTA-ACAAATTAAAATATAAA
*
1435726 ATAATACTAAACAAA-TAAAATA-AATA
1 A-AATA-TTAACAAATTAAAATATAA-A
1435752 AAATATTAACAATAATTAAAAT
1 AAATATTAAC-A-AATTAAAAT
1435774 TACAATAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
24 4 0.10
25 7 0.18
26 12 0.31
27 14 0.36
28 2 0.05
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.28
Consensus pattern (25 bp):
AAATATTAACAAATTAAAATATAAA
Found at i:1438189 original size:15 final size:15
Alignment explanation
Indices: 1438166--1438218 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
1438156 CTACGTAATT
1438166 TATATATATAA-ATA
1 TATATATATAAGATA
*
1438180 TATAATATATAAGATT
1 TAT-ATATATAAGATA
* **
1438196 TATATATATTATTTA
1 TATATATATAAGATA
1438211 TATATATA
1 TATATATA
1438219 GGATATTAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
14 3 0.09
15 24 0.75
16 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TATATATATAAGATA
Found at i:1438217 original size:13 final size:13
Alignment explanation
Indices: 1438193--1438217 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1438183 AATATATAAG
1438193 ATTTATATATATT
1 ATTTATATATATT
1438206 ATTTATATATAT
1 ATTTATATATAT
1438218 AGGATATTAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTATATATATT
Found at i:1438335 original size:9 final size:9
Alignment explanation
Indices: 1438321--1438353 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
1438311 GTGTAAACAA
*
1438321 TATATAAAC
1 TATATAAAG
1438330 TATATAAAG
1 TATATAAAG
1438339 TAT-TAAAG
1 TATATAAAG
1438347 TATATAA
1 TATATAA
1438354 TTTATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (9 bp):
TATATAAAG
Found at i:1438361 original size:19 final size:19
Alignment explanation
Indices: 1438339--1438393 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
1438329 CTATATAAAG
1438339 TATTAAAGTATATAA-TTTA
1 TATTAAA-TATATAAGTTTA
1438358 TATTAATATAATATAAGTTTA
1 TATTAA-AT-ATATAAGTTTA
1438379 TATATAAACTATATA
1 TAT-TAAA-TATATA
1438394 TATATAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 7 0.23
20 7 0.23
21 13 0.42
22 4 0.13
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (19 bp):
TATTAAATATATAAGTTTA
Found at i:1438383 original size:32 final size:31
Alignment explanation
Indices: 1438347--1438454 Score: 114
Period size: 32 Copynumber: 3.4 Consensus size: 31
1438337 AGTATTAAAG
**
1438347 TATATAATTTATATTAATATAATATAAGTTTA
1 TATATAAACTATA-TAATATAATATAAGTTTA
1438379 TATATAAACTATATATATATAA-ACTATA-TTTA
1 TATATAAACTATATA-ATATAATA-TA-AGTTTA
*
1438411 TATTATAAACTATATAAT-TATTATAAGTTATA
1 TA-TATAAACTATATAATATAATATAAGTT-TA
1438443 TATATAAACTAT
1 TATATAAACTAT
1438455 GTTTATATGA
Statistics
Matches: 66, Mismatches: 3, Indels: 15
0.79 0.04 0.18
Matches are distributed among these distances:
30 1 0.02
31 19 0.29
32 32 0.48
33 14 0.21
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (31 bp):
TATATAAACTATATAATATAATATAAGTTTA
Found at i:1438393 original size:13 final size:13
Alignment explanation
Indices: 1438377--1438511 Score: 91
Period size: 13 Copynumber: 10.2 Consensus size: 13
1438367 AATATAAGTT
1438377 TATATATAAACTATA
1 TATATATAAAC--TA
1438392 TATATATAAACTA
1 TATATATAAACTA
* *
1438405 TAT-T-TATATTA
1 TATATATAAACTA
*
1438416 TAAACTATATAA-T-
1 TATA-TATA-AACTA
**
1438429 TAT-TATAAGTTA
1 TATATATAAACTA
1438441 TATATATAAACTA
1 TATATATAAACTA
* *
1438454 TGTTTATATGAACTA
1 --TATATATAAACTA
1438469 TATATATAAACTA
1 TATATATAAACTA
*
1438482 TGTATATAAACTA
1 TATATATAAACTA
1438495 TATATGTATAAACTA
1 TATA--TATAAACTA
1438510 TA
1 TA
1438512 AAAAATATGT
Statistics
Matches: 95, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
10 1 0.01
11 12 0.13
12 4 0.04
13 41 0.43
14 3 0.03
15 34 0.36
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:1438395 original size:15 final size:15
Alignment explanation
Indices: 1438377--1438511 Score: 120
Period size: 15 Copynumber: 9.0 Consensus size: 15
1438367 AATATAAGTT
1438377 TATATATAAACTATA
1 TATATATAAACTATA
1438392 TATATATAAACTATA
1 TATATATAAACTATA
1438407 TTTATATTATAAACTATA
1 --TATA-TATAAACTATA
*
1438425 TA-ATTATTATAAGT-TA
1 TATA-TA-TA-AACTATA
*
1438441 TATATATAAACTATG
1 TATATATAAACTATA
* *
1438456 TTTATATGAAC--TA
1 TATATATAAACTATA
1438469 TATATATAAAC--TA
1 TATATATAAACTATA
*
1438482 TGTATATAAACTATA
1 TATATATAAACTATA
*
1438497 TATGTATAAACTATA
1 TATATATAAACTATA
1438512 AAAAATATGT
Statistics
Matches: 100, Mismatches: 11, Indels: 18
0.78 0.09 0.14
Matches are distributed among these distances:
13 22 0.22
14 3 0.03
15 46 0.46
16 10 0.10
17 8 0.08
18 11 0.11
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (15 bp):
TATATATAAACTATA
Found at i:1438558 original size:20 final size:20
Alignment explanation
Indices: 1438533--1438576 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
1438523 GTTTATAAAC
1438533 TATAATTTATATTAATATTG
1 TATAATTTATATTAATATTG
1438553 TATAATTTATATTAATATTG
1 TATAATTTATATTAATATTG
1438573 TATA
1 TATA
1438577 TATATGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TATAATTTATATTAATATTG
Found at i:1438642 original size:2 final size:2
Alignment explanation
Indices: 1438573--1438633 Score: 81
Period size: 2 Copynumber: 31.0 Consensus size: 2
1438563 ATTAATATTG
* *
1438573 TA TA TA TA TG TA TG TA TA -A CTA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
1438614 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
1438634 AAGTATATAG
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
1 2 0.04
2 49 0.94
3 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1438862 original size:52 final size:54
Alignment explanation
Indices: 1438805--1439013 Score: 183
Period size: 57 Copynumber: 3.7 Consensus size: 54
1438795 ACCTATAATA
* * * *
1438805 TATGTATACATGTAAACTATATATGTAACTTATAGTAGATGTATGTATA-AA-C
1 TATGTATATATGTAAACTATATATGTAACCTATAGTATATGTATATATACAATC
* *
1438857 TATGTATAGTATATATAAACTATATATATATAACCTATAGTATATGTATATATACAATC
1 TATG--TA-TATATGTAAAC--TATATATGTAACCTATAGTATATGTATATATACAATC
1438916 TAT-T-TATATGTAAACTATATATGTAACCTATAGTATATGTATTATGTATATATACAATC
1 TATGTATATATGTAAACTATATATGTAACC-----TATA-GTA-TATGTATATATACAATC
* *
1438975 TATATATAGTTTATATAAACTATATATGTAACCTATAGT
1 TATGTATA---TATGTAAACTATATATGTAACCTATAGT
1439014 CTATAAACAA
Statistics
Matches: 129, Mismatches: 9, Indels: 32
0.76 0.05 0.19
Matches are distributed among these distances:
52 16 0.12
54 12 0.09
55 9 0.07
56 1 0.01
57 32 0.25
58 7 0.05
59 28 0.22
60 1 0.01
61 2 0.02
64 21 0.16
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (54 bp):
TATGTATATATGTAAACTATATATGTAACCTATAGTATATGTATATATACAATC
Found at i:1438868 original size:20 final size:20
Alignment explanation
Indices: 1438845--1439001 Score: 68
Period size: 20 Copynumber: 8.0 Consensus size: 20
1438835 TATAGTAGAT
* *
1438845 GTATGTATAAACTATGTATA
1 GTATATATAAACTATATATA
1438865 GTATATATAAAC----TATA
1 GTATATATAAACTATATATA
*
1438881 -TATATATAACCTATAGTATA
1 GTATATATAAACTATA-TATA
*
1438901 TGTATATATACAA-TCTAT-T-
1 -GTATATATA-AACTATATATA
*
1438920 -TATATGTAAACTATATAT-
1 GTATATATAAACTATATATA
* *
1438938 GTA-ACCTATAGTA-TATGTATTA
1 GTATA--TATA-AACTATATA-TA
1438960 TGTATATATACAATCTATATATA
1 -GTATATATA-AA-CTATATATA
*
1438983 GTTTATATAAACTATATAT
1 GTATATATAAACTATATAT
1439002 GTAACCTATA
Statistics
Matches: 104, Mismatches: 13, Indels: 40
0.66 0.08 0.25
Matches are distributed among these distances:
15 10 0.10
16 6 0.06
17 11 0.11
18 2 0.02
19 2 0.02
20 32 0.31
21 5 0.05
22 24 0.23
23 6 0.06
24 6 0.06
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (20 bp):
GTATATATAAACTATATATA
Found at i:1438884 original size:13 final size:13
Alignment explanation
Indices: 1438866--1439021 Score: 52
Period size: 13 Copynumber: 11.8 Consensus size: 13
1438856 CTATGTATAG
1438866 TATATATAAACTA
1 TATATATAAACTA
1438879 TATATATATAACCTA
1 TATATATA-AA-CTA
*
1438894 TAGTATAT---GTA
1 TA-TATATAAACTA
* *
1438905 TATATACAATCTA
1 TATATATAAACTA
*
1438918 TTTATATGTAAACTA
1 --TATATATAAACTA
* *
1438933 TATATGTAACCTA
1 TATATATAAACTA
** *
1438946 TAGTATATGTATTA
1 TA-TATATAAACTA
* * *
1438960 TGTATATATACAA
1 TATATATAAACTA
* * *
1438973 TCTATATATAGT-
1 TATATATAAACTA
1438985 T-TATATAAACTA
1 TATATATAAACTA
* *
1438997 TATATGTAACCTA
1 TATATATAAACTA
*
1439010 TAGTCTATAAAC
1 TA-TATATAAAC
1439022 AATAGTTTAT
Statistics
Matches: 105, Mismatches: 26, Indels: 23
0.68 0.17 0.15
Matches are distributed among these distances:
10 4 0.04
11 12 0.11
12 2 0.02
13 52 0.50
14 15 0.14
15 15 0.14
16 5 0.05
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:1438886 original size:15 final size:16
Alignment explanation
Indices: 1438861--1438901 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
1438851 ATAAACTATG
1438861 TATAGTATATATAAAC
1 TATAGTATATATAAAC
*
1438877 TATA-TATATATAACC
1 TATAGTATATATAAAC
1438892 TATAGTATAT
1 TATAGTATAT
1438902 GTATATATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (16 bp):
TATAGTATATATAAAC
Found at i:1439060 original size:50 final size:51
Alignment explanation
Indices: 1439003--1439111 Score: 130
Period size: 57 Copynumber: 2.0 Consensus size: 51
1438993 ACTATATATG
*
1439003 TAACCTATAG-TCTATAAACAATAGTTTATATTAGTGTACTATATAGTTTA
1 TAACCTATAGATCTATAAACAATAGTTTATATTAATGTACTATATAGTTTA
* *
1439053 TAACCTATAGTATATAATTTATAAACTATAGTTTATATTAATGTACTATATAGTTTA
1 TAACCTATAG------ATCTATAAACAATAGTTTATATTAATGTACTATATAGTTTA
1439110 TA
1 TA
1439112 TTAATGTTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
50 10 0.20
57 39 0.80
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (51 bp):
TAACCTATAGATCTATAAACAATAGTTTATATTAATGTACTATATAGTTTA
Found at i:1439068 original size:21 final size:21
Alignment explanation
Indices: 1439042--1439089 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
1439032 ATTAGTGTAC
* *
1439042 TATATAGTTTATAACCTATAG
1 TATATAATTTATAAACTATAG
1439063 TATATAATTTATAAACTATAG
1 TATATAATTTATAAACTATAG
*
1439084 TTTATA
1 TATATA
1439090 TTAATGTACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (21 bp):
TATATAATTTATAAACTATAG
Found at i:1439126 original size:22 final size:22
Alignment explanation
Indices: 1439079--1439127 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 22
1439069 ATTTATAAAC
*
1439079 TATAGTTTATATTAATGTACTA
1 TATAGTTTATATTAATGTAATA
1439101 TATAGTTTATATTAATGTTAATTA
1 TATAGTTTATATTAATG-TAA-TA
1439125 TAT
1 TAT
1439128 TAACTATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 17 0.71
23 2 0.08
24 5 0.21
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (22 bp):
TATAGTTTATATTAATGTAATA
Found at i:1439137 original size:15 final size:15
Alignment explanation
Indices: 1439100--1439150 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
1439090 TTAATGTACT
*
1439100 ATATAGTTTATATTA
1 ATATAATTTATATTA
*
1439115 ATGTTAA-TTATATTA
1 AT-ATAATTTATATTA
1439130 ACTATAATTTATATTA
1 A-TATAATTTATATTA
1439146 ATATA
1 ATATA
1439151 GCATAGAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (15 bp):
ATATAATTTATATTA
Found at i:1439169 original size:36 final size:36
Alignment explanation
Indices: 1439129--1439221 Score: 123
Period size: 36 Copynumber: 2.6 Consensus size: 36
1439119 TAATTATATT
*
1439129 AACTATAATTTATATTAATATAGCATAGAGTTTATA
1 AACTATAATTTATATTAATATAGCAGAGAGTTTATA
* * * *
1439165 AACTATAATTTGTATTAATGTAGTAGATAGTTTATA
1 AACTATAATTTATATTAATATAGCAGAGAGTTTATA
* *
1439201 AACTATAGTTTACATTAATAT
1 AACTATAATTTATATTAATAT
1439222 TAATATATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (36 bp):
AACTATAATTTATATTAATATAGCAGAGAGTTTATA
Found at i:1439436 original size:6 final size:6
Alignment explanation
Indices: 1439409--1439472 Score: 59
Period size: 6 Copynumber: 11.3 Consensus size: 6
1439399 ATTATAAACT
*
1439409 ATATT- ATATTA ATA-TA A-GTTA ATATTA ATATTA AT-TATA ATATATA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATAT-TA ATAT-TA
1439455 AT-TT- ATATTA ATATTA AT
1 ATATTA ATATTA ATATTA AT
1439473 TATAAATGAT
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
4 2 0.04
5 15 0.30
6 27 0.54
7 6 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (6 bp):
ATATTA
Found at i:1439436 original size:50 final size:52
Alignment explanation
Indices: 1439380--1439477 Score: 139
Period size: 50 Copynumber: 1.9 Consensus size: 52
1439370 ACTATACTTT
1439380 ATATTAATATTAATTACAAAT-TATAAACTATATT-ATATTAA-TATAAGTTA
1 ATATTAATATTAATTA-AAATATATAAACTATATTAATATTAATTATAAGTTA
* **
1439430 ATATTAATATTAATTATAATATATAATTTATATTAATATTAATTATAA
1 ATATTAATATTAATTAAAATATATAAACTATATTAATATTAATTATAA
1439478 ATGATAGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
49 3 0.07
50 27 0.64
51 7 0.17
52 5 0.12
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (52 bp):
ATATTAATATTAATTAAAATATATAAACTATATTAATATTAATTATAAGTTA
Found at i:1439462 original size:23 final size:23
Alignment explanation
Indices: 1439412--1439466 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
1439402 ATAAACTATA
1439412 TTATATTAA-TATAAGTTAATAT
1 TTATATTAATTATAAGTTAATAT
*
1439434 TAATATTAATTATAA--TATATAAT
1 TTATATTAATTATAAGTTA-AT-AT
1439457 TTATATTAAT
1 TTATATTAAT
1439467 ATTAATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 2 0.07
22 10 0.36
23 16 0.57
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTATATTAATTATAAGTTAATAT
Found at i:1439515 original size:79 final size:82
Alignment explanation
Indices: 1439372--1439531 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 82
1439362 TTTTATAGAC
* *
1439372 TATACTTTATATTAATATTAATTACAAATTATAAACTATATTATATTAATATAAGTTAATATTAA
1 TATAATTTATATTAATATTAATTACAAATGATAAACTATATTATATTAATATAAGTTAATATTAA
1439437 T-AT-T-AATTATAATA
66 TAATATAAATTATAATA
* ***
1439451 TATAATTTATATTAATATTAATTATAAATGATAGTTTATATTA-ACTCT-AT-TAA-TTAAATAA
1 TATAATTTATATTAATATTAATTACAAATGATAAACTATATTATA-T-TAATATAAGTT-AAT-A
1439512 TTAATAATATAAATTATAAT
62 TTAATAATATAAATTATAAT
1439532 TTGTTAATAT
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
77 2 0.03
78 7 0.10
79 46 0.68
80 3 0.04
81 1 0.01
82 9 0.13
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (82 bp):
TATAATTTATATTAATATTAATTACAAATGATAAACTATATTATATTAATATAAGTTAATATTAA
TAATATAAATTATAATA
Found at i:1443421 original size:20 final size:21
Alignment explanation
Indices: 1443390--1443429 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1443380 CAAAATTTTC
1443390 TCCCATGTTCATCTGTATTCA
1 TCCCATGTTCATCTGTATTCA
*
1443411 TCCCA-GTTCATCTTTATTC
1 TCCCATGTTCATCTGTATTC
1443430 TTCATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (21 bp):
TCCCATGTTCATCTGTATTCA
Found at i:1446548 original size:6 final size:6
Alignment explanation
Indices: 1446539--1446571 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
1446529 AGAAAATTAA
*
1446539 AAATTT AAATTT AAATTT AAATTG AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAA
1446572 AATTGGGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (6 bp):
AAATTT
Found at i:1446755 original size:4 final size:4
Alignment explanation
Indices: 1446748--1446812 Score: 53
Period size: 4 Copynumber: 15.5 Consensus size: 4
1446738 AGTGAAATAA
* *
1446748 AAAT AAAT AAAT AAAT AAAT AATAC AAAA AAAT -AAT -AAT AACAT ATACCAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AA-AT A-A--AT
1446799 AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AA
1446813 GAACAAGAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
3 6 0.11
4 35 0.66
5 6 0.11
6 2 0.04
7 4 0.08
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:1446841 original size:47 final size:43
Alignment explanation
Indices: 1446754--1446841 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
1446744 ATAAAAATAA
* *
1446754 ATAAATAAATAAATAATACAAAAAAATAATAATAACATATACC
1 ATAAATAAATAAATAAAACAAAAAAATAAAAATAACATATACC
1446797 ATAAATAAATAAATAAGAACAAGAATATAGATAAAAATAA-ATATA
1 ATAAATAAATAAATAA-AACAA-AA-A-A-ATAAAAATAACATATA
1446842 AAAGCAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
43 16 0.42
44 4 0.11
45 2 0.05
46 1 0.03
47 6 0.16
48 9 0.24
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.23
Consensus pattern (43 bp):
ATAAATAAATAAATAAAACAAAAAAATAAAAATAACATATACC
Found at i:1448394 original size:36 final size:36
Alignment explanation
Indices: 1448254--1448581 Score: 243
Period size: 36 Copynumber: 9.0 Consensus size: 36
1448244 TTTCCAAAAC
* *
1448254 TATATAGTTTTCAAAAATGATTTT-AAAA--A-ATAT
1 TATATAATTTTCAAAAA-GGTTTTCAAAACTATATAT
* * *
1448287 TATATAAGTTTTCAAAAAATGTTTTTAAAATTATATAT
1 TATATAA-TTTTC-AAAAAGGTTTTCAAAACTATATAT
*
1448325 TATATAATTTTTCTAAAAAAATGTTTTTC-AAACTATATAT
1 TATATAA-TTTTC---AAAAA-GGTTTTCAAAACTATATAT
1448365 TATATAATTTTCAAAAAGGTTTTCAAAACTATATAT
1 TATATAATTTTCAAAAAGGTTTTCAAAACTATATAT
* *
1448401 TATATAAGTTTTCAAAAAAATGTTTTAAAAACTATATAT
1 TATATAA-TTTTC--AAAAAGGTTTTCAAAACTATATAT
* *
1448440 TATATATTATTTTC-AAAATGATTTCAAAACTATATAT
1 TATATA--ATTTTCAAAAAGGTTTTCAAAACTATATAT
* * *
1448477 TATAT-A-TTTCCAAAAGAATTTTCAAAAACCATATAT
1 TATATAATTTTCAAAAAG-GTTTTC-AAAACTATATAT
***
1448513 TATAT-ATGTTT-AAAAA--AAATCAAAACTATA-AT
1 TATATAAT-TTTCAAAAAGGTTTTCAAAACTATATAT
*
1448545 ATATATATATTTTC-AAAAGGTTTTCGAAACTATATAT
1 -TATATA-ATTTTCAAAAAGGTTTTCAAAACTATATAT
1448582 ATAATATACA
Statistics
Matches: 242, Mismatches: 26, Indels: 50
0.76 0.08 0.16
Matches are distributed among these distances:
32 2 0.01
33 23 0.10
34 23 0.10
35 21 0.09
36 50 0.21
37 38 0.16
38 19 0.08
39 33 0.14
40 28 0.12
41 5 0.02
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (36 bp):
TATATAATTTTCAAAAAGGTTTTCAAAACTATATAT
Found at i:1448398 original size:76 final size:75
Alignment explanation
Indices: 1448254--1448518 Score: 300
Period size: 76 Copynumber: 3.6 Consensus size: 75
1448244 TTTCCAAAAC
1448254 TATAT-AGTTTTC--AAAAATGATTTT-AAAA--A-ATATTATATAAGTTTTCAAAAAATGTTTT
1 TATATAAGTTTTCAAAAAAATG-TTTTAAAAACTATATATTATATAA-TTTTC-AAAAATGTTTT
* *
1448312 TAAAATTATATAT
63 CAAAACTATATAT
* ** *
1448325 TATATAATTTTTCTAAAAAAATGTTTTTCAAACTATATATTATATAATTTTCAAAAAGGTTTTCA
1 TATATAAGTTTTC-AAAAAAATGTTTTAAAAACTATATATTATATAATTTTCAAAAATGTTTTCA
1448390 AAACTATATAT
65 AAACTATATAT
*
1448401 TATATAAGTTTTCAAAAAAATGTTTTAAAAACTATATATTATATATTATTTTC-AAAATGATTTC
1 TATATAAGTTTTCAAAAAAATGTTTTAAAAACTATATATTATATA--ATTTTCAAAAATGTTTTC
1448465 AAAACTATATAT
64 AAAACTATATAT
* * * *
1448477 TATAT-A-TTTCCAAAAGAAT-TTTCAAAAACCATATATTATATA
1 TATATAAGTTTTCAAAAAAATGTTTTAAAAACTATATATTATATA
1448519 TGTTTAAAAA
Statistics
Matches: 170, Mismatches: 14, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
71 5 0.03
72 6 0.04
73 21 0.12
74 15 0.09
75 41 0.24
76 59 0.35
77 12 0.07
78 11 0.06
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (75 bp):
TATATAAGTTTTCAAAAAAATGTTTTAAAAACTATATATTATATAATTTTCAAAAATGTTTTCAA
AACTATATAT
Found at i:1449316 original size:84 final size:84
Alignment explanation
Indices: 1449215--1450004 Score: 928
Period size: 84 Copynumber: 9.4 Consensus size: 84
1449205 ATTTCATTGA
* * *
1449215 CAGATAGCCCTTCTCGACTTAAGCTATGATGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1449280 CTCGAAGGTCTTTGGTTGG
66 CTCGAAGGTCTTTGGTTGG
*
1449299 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTTGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
* *
1449364 CTCGAAGTTCTTTTGG-TGA
66 CTCGAAGGTC-TTTGGTTGG
* * * * * * * * * * *
1449383 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGTTGAGTGTAATCAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGA
*
1449448 ACTCGAGGGTC--T--TTGG
65 ACTCGAAGGTCTTTGGTTGG
* * * * *
1449464 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGTTGTGCCTTGGAGCTGAGCGTAGTCAAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
* *
1449529 CTTGAGGGTCTTTGGTTGG
66 CTCGAAGGTCTTTGGTTGG
* *
1449548 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTCGAGCTGAGCATAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1449613 CTCGAAGGTCTTTGGTTGG
66 CTCGAAGGTCTTTGGTTGG
* * * * * *
1449632 TAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTTCCTTGGAGTTGAGCGTAGTCAAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
*
1449697 CTCGAAGGTCTTTTGG-TGA
66 CTCGAAGGTC-TTTGGTTGG
* * * * * * * *
1449716 CAGATAACCCTTTTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTGGATCTAAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
* **
1449781 CTTGAAGGTCTTTTATTGG
66 CTCGAAGGTCTTTGGTTGG
* * * * * *
1449800 CAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATACTTTCGAAGTTGAGCGTAATCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT-GGAGCTGAGCGTAGTCGA
*
1449865 ACTTGAAGGTCTTTGGTTGG
65 ACTCGAAGGTCTTTGGTTGG
* * * * * *
1449885 CAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATATGCCTTTGAGTTGAGCGTAGTCAAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1449950 CTCGAAGGTCTTT-GTTGG
66 CTCGAAGGTCTTTGGTTGG
* * * * *
1449968 CAGATAATCCTTCTAGCCTTGAGTTATGCTACAAATG
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
1450005 TTGTCTTTAA
Statistics
Matches: 593, Mismatches: 103, Indels: 21
0.83 0.14 0.03
Matches are distributed among these distances:
80 27 0.05
81 37 0.06
82 2 0.00
83 37 0.06
84 385 0.65
85 105 0.18
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (84 bp):
CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTGGTTGG
Found at i:1449645 original size:333 final size:335
Alignment explanation
Indices: 1449215--1450004 Score: 1122
Period size: 333 Copynumber: 2.4 Consensus size: 335
1449205 ATTTCATTGA
*
1449215 CAGATAGCCCTTCTCGACTTAAGCTATGATGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGATGCAAATGATATGCCTTCGAGCTGAGCGTAGTCGAA
1449280 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
66 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
* * *
1449345 TGAGCTGAGCGTAGTCGAACTCGAAGTTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTAT
131 GGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTAT
* * * *
1449410 GCTGTAAATGATGTGCCCTCGAAGT-TGAGTGTAATCAAACTCGAGGGTC-T-TTGGCAGATAGC
196 GCTGTAAATGATGTG-CCTCGAA-TCTAAGCGTAATCAAACTCGAAGGTCTTATTGGCAGATAAC
* * * * * * *
1449472 CCTTCTCGACTTAAGCTATGCTGCAAATGTTGTGCCTT-GGAGCTGAGCGTAGTCAAACTTGAGG
259 CCTTCTCGACTTAAGCTATGCTACAAATGATATACCTTCGAAGCTGAGCGTAATCAAACTTGAAG
1449536 GTCTTTGGTTGG
324 GTCTTTGGTTGG
* * * *
1449548 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTCGAGCTGAGCATAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGATGCAAATGATATGCCTTCGAGCTGAGCGTAGTCGAA
* * * *
1449613 CTCGAAGGTCTTTGGTTGGTAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTTCCTT
66 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
* *
1449678 GGAGTTGAGCGTAGTCAAACTCGAAGGTCTTTTGGTGACAGATAACCCTTTTAGCCTTGAGTTAT
131 GGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTAT
* * * * *
1449743 GCTGTAAATGATGTGCCTTGGATCTAAGCGTAGTCGAACTTGAAGGTCTTTTATTGGCAGATAAC
196 GCTGTAAATGATGTGCCTCGAATCTAAGCGTAATCAAACTCGAAGGTC--TTATTGGCAGATAAC
* * * *
1449808 CCTTCTCGACTTAAGTTATGCTACAAATGATATACTTTCGAAGTTGAGCGTAATCGAACTTGAAG
259 CCTTCTCGACTTAAGCTATGCTACAAATGATATACCTTCGAAGCTGAGCGTAATCAAACTTGAAG
1449873 GTCTTTGGTTGG
324 GTCTTTGGTTGG
* * * *
1449885 CAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATATGCCTTTGAGTTGAGCGTAGTCAAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGATGCAAATGATATGCCTTCGAGCTGAGCGTAGTCGAA
* * * * *
1449950 CTCGAAGGTCTTT-GTTGGCAGATAATCCTTCTAGCCTTGAGTTATGCTACAAATG
66 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
1450005 TTGTCTTTAA
Statistics
Matches: 403, Mismatches: 48, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
331 1 0.00
332 23 0.06
333 196 0.49
335 1 0.00
336 78 0.19
337 104 0.26
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (335 bp):
CAGATAGCCCTTCTCGACTTAAGCTATGATGCAAATGATATGCCTTCGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
GGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTAT
GCTGTAAATGATGTGCCTCGAATCTAAGCGTAATCAAACTCGAAGGTCTTATTGGCAGATAACCC
TTCTCGACTTAAGCTATGCTACAAATGATATACCTTCGAAGCTGAGCGTAATCAAACTTGAAGGT
CTTTGGTTGG
Found at i:1450663 original size:2 final size:2
Alignment explanation
Indices: 1450658--1450716 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
1450648 AGGGGGGAAA
1450658 AT 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 AT
1450700 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
1450717 ATGTAAGAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1451303 original size:84 final size:88
Alignment explanation
Indices: 1451202--1451429 Score: 232
Period size: 95 Copynumber: 2.6 Consensus size: 88
1451192 GGCTAGTTGA
* * *
1451202 ATCCATAAAGCCAGGGCATTTAACCAATTGCTCTAGAGGGACAACTCAA-TA-TG-TA-AACCTC
1 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAGCTCAATTATTGATATAACCAC
* *
1451263 TTTTATCAGGTTAACTGAATCAT
66 CTTTATCAGGCTAACTGAATCAT
* *
1451286 ATCCATAAAGCCGGGGCATTTAAGCAATTGC-CTTAGAGGGGCAGCTCAAGCTTTATTGTATACT
1 ATCCATAAAGCCGGGGCATTTAACCAATTGCTC-TAGAGGGACAGCTCAA---TTATTG---A-T
* * * *
1451350 ATAATCACCTTTATTAGGCTAGCTGAATCTT
58 ATAACCACCTTTATCAGGCTAACTGAATCAT
* *
1451381 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACAGCTCAA
1 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAGCTCAA
1451430 GCTTTATTGT
Statistics
Matches: 116, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
83 1 0.01
84 43 0.37
88 2 0.02
89 2 0.02
94 2 0.02
95 66 0.57
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (88 bp):
ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAGCTCAATTATTGATATAACCAC
CTTTATCAGGCTAACTGAATCAT
Found at i:1454038 original size:19 final size:19
Alignment explanation
Indices: 1454002--1454045 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1453992 AATGTTAGAT
*
1454002 AAAAATGAAAAAATTAAAA
1 AAAAATGAAAAAAGTAAAA
1454021 AAAAAT-AAAAAAGGTAAAA
1 AAAAATGAAAAAA-GTAAAA
1454040 AGAAAA
1 A-AAAA
1454046 AGTAAAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 12 0.55
20 4 0.18
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (19 bp):
AAAAATGAAAAAAGTAAAA
Found at i:1454109 original size:4 final size:4
Alignment explanation
Indices: 1454102--1454170 Score: 61
Period size: 4 Copynumber: 16.5 Consensus size: 4
1454092 AGTGAAATAA
* *
1454102 AAAT AAAT AAAT AAAT AATAC AAAA AAAT -AAT -AAT AACAT ATACCAT
1 AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AA-AT A-A--AT
1454149 AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AA
1454171 GAACAAGAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
3 6 0.11
4 39 0.68
5 6 0.11
6 2 0.04
7 4 0.07
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:1454261 original size:16 final size:18
Alignment explanation
Indices: 1454230--1454270 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
1454220 ATATATATAT
1454230 AAATAGAAATAAAGGAA-A
1 AAATA-AAATAAAGGAATA
1454248 AAATAAAA-AAAGGAATA
1 AAATAAAATAAAGGAATA
1454265 AAATAA
1 AAATAA
1454271 TAGTAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 10 0.45
18 5 0.23
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (18 bp):
AAATAAAATAAAGGAATA
Found at i:1454419 original size:2 final size:2
Alignment explanation
Indices: 1454414--1454443 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1454404 ATTAACTCTA
1454414 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
1454444 GCATAAGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1455735 original size:41 final size:38
Alignment explanation
Indices: 1455643--1455859 Score: 196
Period size: 41 Copynumber: 5.8 Consensus size: 38
1455633 ATATTTTTCC
* * *
1455643 AAAATGATTTTAAAA--A-ATATTATATAAGTTTTCAA
1 AAAATGTTTTTAAAACTATATATTATATAATTTTTAAA
*
1455678 AAAATGTTTTTAAAATTATATATTATATAATTTTAATAAAA
1 AAAATGTTTTTAAAACTATATATTATATAATTTT--T-AAA
* *
1455719 AAAATGTTTTTCAAATTATATATTATATAATTTTT--A
1 AAAATGTTTTTAAAACTATATATTATATAATTTTTAAA
* * *
1455755 AAAAGGTTTTCAAAACTATATATTATATAAGTTTTCAAA
1 AAAATGTTTTTAAAACTATATATTATATAA-TTTTTAAA
* * **
1455794 AAAATATTTTAAAAACTATATATTATAT-ATTATTT-TC
1 AAAATGTTTTTAAAACTATATATTATATAATT-TTTAAA
* * *
1455831 AAACTGATTTCAAAACTATATATTATATA
1 AAAATGTTTTTAAAACTATATATTATATA
1455860 TTTCCAAAAG
Statistics
Matches: 152, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
35 14 0.09
36 27 0.18
37 31 0.20
38 17 0.11
39 27 0.18
40 1 0.01
41 35 0.23
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (38 bp):
AAAATGTTTTTAAAACTATATATTATATAATTTTTAAA
Found at i:1455775 original size:77 final size:75
Alignment explanation
Indices: 1455659--1455859 Score: 231
Period size: 77 Copynumber: 2.6 Consensus size: 75
1455649 ATTTTAAAAA
* * * *
1455659 ATATTATATAAGTTTTCAAAAAATGTTTTTAAAATTATATATTATATAATTTTAATAAAAAAAAT
1 ATATTATATAA-TTTT-TAAAAATGTTTTCAAAACTATATATTATATAAGTTT--TAAAAAAAAT
* ** *
1455724 GTTTTTCAAATTAT
62 ATTTTAAAAACTAT
* *
1455738 ATATTATATAATTTTTAAAAAGGTTTTCAAAACTATATATTATATAAGTTTTCAAAAAAATATTT
1 ATATTATATAATTTTTAAAAATGTTTTCAAAACTATATATTATATAAGTTTTAAAAAAAATATTT
1455803 TAAAAACTAT
66 TAAAAACTAT
* * * *
1455813 ATATTATATATTATTTTCAAACTGATTTCAAAACTATATATTATATA
1 ATATTATATAAT-TTTTAAAAATGTTTTCAAAACTATATATTATATA
1455860 TTTCCAAAAG
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
75 30 0.28
76 30 0.28
77 31 0.29
78 4 0.04
79 11 0.10
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.45
Consensus pattern (75 bp):
ATATTATATAATTTTTAAAAATGTTTTCAAAACTATATATTATATAAGTTTTAAAAAAAATATTT
TAAAAACTAT
Found at i:1455846 original size:37 final size:37
Alignment explanation
Indices: 1455727--1455861 Score: 127
Period size: 37 Copynumber: 3.6 Consensus size: 37
1455717 AAAAAATGTT
* * * * *
1455727 TTTC-AAATTATATATTATATAAT-TTTTAAAAAGGT
1 TTTCAAAACTATATATTATATATTATTTTCAAAATGA
1455762 TTTCAAAACTATATATTATATA--AGTTTTCAAAAAAAT-A
1 TTTCAAAACTATATATTATATATTA-TTTTC---AAAATGA
* *
1455800 TTTTAAAAACTATATATTATATATTATTTTCAAACTGA
1 -TTTCAAAACTATATATTATATATTATTTTCAAAATGA
1455838 TTTCAAAACTATATATTATATATT
1 TTTCAAAACTATATATTATATATT
1455862 TCCAAAAGCA
Statistics
Matches: 83, Mismatches: 7, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
35 4 0.05
36 20 0.24
37 27 0.33
38 1 0.01
39 25 0.30
40 5 0.06
41 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (37 bp):
TTTCAAAACTATATATTATATATTATTTTCAAAATGA
Found at i:1456260 original size:18 final size:20
Alignment explanation
Indices: 1456237--1456278 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
1456227 CTGAAACCAA
1456237 TTTTTAT-T-GATGCTTCTG
1 TTTTTATGTAGATGCTTCTG
1456255 TTTTTATGTAGGATGCTTCTG
1 TTTTTATGTA-GATGCTTCTG
1456276 TTT
1 TTT
1456279 AAAGTAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.33
19 1 0.05
21 13 0.62
ACGTcount: A:0.12, C:0.10, G:0.19, T:0.60
Consensus pattern (20 bp):
TTTTTATGTAGATGCTTCTG
Found at i:1456752 original size:23 final size:23
Alignment explanation
Indices: 1456723--1456778 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
1456713 GTAATAACTC
1456723 AAATGTTATTCAAATTTTAGATT
1 AAATGTTATTCAAATTTTAGATT
1456746 AAATGTTATTCAAATTTTAGATT
1 AAATGTTATTCAAATTTTAGATT
1456769 AAATGTTATT
1 AAATGTTATT
1456779 TACATTATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (23 bp):
AAATGTTATTCAAATTTTAGATT
Found at i:1457348 original size:32 final size:32
Alignment explanation
Indices: 1457312--1457377 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
1457302 TCATGTCAAT
* *
1457312 AACAAG-TCGGATCATTTACAGGTCAGGTTAAA
1 AACAAGTTAGGATCA-TCACAGGTCAGGTTAAA
* *
1457344 AACAAGTTAGGTTCATCACAGGTCAGGTTGAA
1 AACAAGTTAGGATCATCACAGGTCAGGTTAAA
1457376 AA
1 AA
1457378 TAGGTCGGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 23 0.79
33 6 0.21
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (32 bp):
AACAAGTTAGGATCATCACAGGTCAGGTTAAA
Found at i:1458679 original size:2 final size:2
Alignment explanation
Indices: 1458672--1458708 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1458662 ATATGTTATT
1458672 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1458709 TATTTACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1459668 original size:4 final size:4
Alignment explanation
Indices: 1459659--1459725 Score: 59
Period size: 4 Copynumber: 17.2 Consensus size: 4
1459649 ATTTAGCTAT
* * * * *
1459659 TATA TATA TATA TATA TATA TATA TATT TATT TATT TATA TTTA TATT
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
1459707 TAGTA T-TA T-TA T-TA TATA T
1 TA-TA TATA TATA TATA TATA T
1459726 GCATATGCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
3 9 0.16
4 44 0.80
5 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (4 bp):
TATA
Found at i:1459670 original size:6 final size:6
Alignment explanation
Indices: 1459659--1459725 Score: 59
Period size: 6 Copynumber: 11.5 Consensus size: 6
1459649 ATTTAGCTAT
* * * * *
1459659 TATATA TATATA TATATA TATATA TATTTA TTTATT TATATT TATATT
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
1459707 TAGTAT- TAT-TA T-TATA TAT
1 TA-TATA TATATA TATATA TAT
1459726 GCATATGCTT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
4 2 0.04
5 5 0.10
6 42 0.81
7 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (6 bp):
TATATA
Found at i:1459674 original size:10 final size:10
Alignment explanation
Indices: 1459659--1459725 Score: 59
Period size: 10 Copynumber: 6.9 Consensus size: 10
1459649 ATTTAGCTAT
1459659 TATATATATA
1 TATATATATA
1459669 TATATATATA
1 TATATATATA
*
1459679 TATATATTTA
1 TATATATATA
* *
1459689 TTTATTTATA
1 TATATATATA
* *
1459699 TTTATATTTA
1 TATATATATA
1459709 GTAT-TAT-TA
1 -TATATATATA
1459718 T-TATATAT
1 TATATATAT
1459726 GCATATGCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
7 1 0.02
8 4 0.09
9 3 0.06
10 37 0.79
11 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (10 bp):
TATATATATA
Found at i:1459751 original size:17 final size:17
Alignment explanation
Indices: 1459729--1459765 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
1459719 TATATATGCA
1459729 TATGCTTTTCTTAATTT
1 TATGCTTTTCTTAATTT
1459746 TATGCTTTTCTTAATTT
1 TATGCTTTTCTTAATTT
1459763 TAT
1 TAT
1459766 TTATTTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.11, G:0.05, T:0.65
Consensus pattern (17 bp):
TATGCTTTTCTTAATTT
Found at i:1459831 original size:2 final size:2
Alignment explanation
Indices: 1459826--1459858 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1459816 TTAACATTTG
1459826 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1459859 TTATTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1471578 original size:110 final size:110
Alignment explanation
Indices: 1471385--1471583 Score: 317
Period size: 110 Copynumber: 1.8 Consensus size: 110
1471375 ATTTCAAAGC
* * *
1471385 CAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAATAAAG
1 CAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAACAAAG
*
1471450 AGGCGACTGATTGTCAACAAATAACTTTTCAGCTTCATTCAGAGT
66 AGGCGACTGACTGTCAACAAATAACTTTTCAGCTTCATTCAGAGT
* *
1471495 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAACAAAG
* * *
1471560 GGGCGGCTGGCTGTCAACAAATAA
66 AGGCGACTGACTGTCAACAAATAA
1471584 TTTCCTAGTT
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 80 1.00
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.22
Consensus pattern (110 bp):
CAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAACAAAG
AGGCGACTGACTGTCAACAAATAACTTTTCAGCTTCATTCAGAGT
Found at i:1472401 original size:23 final size:23
Alignment explanation
Indices: 1472358--1472402 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1472348 ACATAAATAA
*
1472358 TTATATATTACATAATTTATATG
1 TTATATATTACATAATATATATG
*
1472381 TTATATA-TATATATATATATAT
1 TTATATATTACATA-ATATATAT
1472403 TATTTACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TTATATATTACATAATATATATG
Found at i:1473614 original size:7 final size:7
Alignment explanation
Indices: 1473602--1473628 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1473592 CATGTATGTA
1473602 TATATTT
1 TATATTT
1473609 TATATTT
1 TATATTT
1473616 TATATTT
1 TATATTT
1473623 TATATT
1 TATATT
1473629 CTATCTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TATATTT
Found at i:1473672 original size:9 final size:9
Alignment explanation
Indices: 1473658--1473812 Score: 57
Period size: 9 Copynumber: 17.1 Consensus size: 9
1473648 TTTTTACTCT
1473658 TTATTTTTA
1 TTATTTTTA
1473667 TTATTTTTTA
1 TTA-TTTTTA
*
1473677 TTA-TTATA
1 TTATTTTTA
*
1473685 TTTATTTTCA
1 -TTATTTTTA
*
1473695 TTA-TTTTG
1 TTATTTTTA
* *
1473703 TT-TCTCTA
1 TTATTTTTA
*
1473711 TTATTATTA
1 TTATTTTTA
* *
1473720 AT-TTTTTC
1 TTATTTTTA
* *
1473728 TCATATTTA
1 TTATTTTTA
*
1473737 GTTATTATATA
1 -TTATT-TTTA
* *
1473748 TATATATATA
1 T-TATTTTTA
* *
1473758 GTATTATTA
1 TTATTTTTA
*
1473767 TTATTATTA
1 TTATTTTTA
*
1473776 TTATTATTA
1 TTATTTTTA
*
1473785 TTATTATTA
1 TTATTTTTA
*
1473794 TTATTATTA
1 TTATTTTTA
*
1473803 TTATTATTA
1 TTATTTTTA
1473812 T
1 T
1473813 ATATATGCAT
Statistics
Matches: 110, Mismatches: 27, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
8 17 0.15
9 67 0.61
10 20 0.18
11 6 0.05
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (9 bp):
TTATTTTTA
Found at i:1473726 original size:52 final size:52
Alignment explanation
Indices: 1473620--1473726 Score: 114
Period size: 53 Copynumber: 2.1 Consensus size: 52
1473610 ATATTTTATA
* * * *
1473620 TTTTATATTCTATCTTATTTTCTTTTCTTTTTTACTCTTTATTTTTATTATT
1 TTTTATATTATATCTTATTTTCTTTTCTTGTTTACTCTTTATTATTAATATT
1473672 TTTTATTATTATAT-TTATTTTCATTATT-TTGTTT-CTCTATTATTATTAAT-TT
1 TTTTA-TATTATATCTTATTTTC-TT-TTCTTGTTTACTCT-TTATTATTAATATT
1473724 TTT
1 TTT
1473727 CTCATATTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
52 22 0.47
53 23 0.49
54 2 0.04
ACGTcount: A:0.19, C:0.08, G:0.01, T:0.72
Consensus pattern (52 bp):
TTTTATATTATATCTTATTTTCTTTTCTTGTTTACTCTTTATTATTAATATT
Found at i:1473767 original size:3 final size:3
Alignment explanation
Indices: 1473759--1473812 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
1473749 ATATATATAG
1473759 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1473807 TAT TAT
1 TAT TAT
1473813 ATATATGCAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1474044 original size:40 final size:39
Alignment explanation
Indices: 1473976--1474058 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 39
1473966 TATTATATAT
* * * *
1473976 TTTTATTTTGTTTTATTTATTTTTTTCTTTATTTTTTCG
1 TTTTATTGTGTTTTATTTATTTATTTCTTTATTTCTTCA
1474015 TTTTATTGTGTTTCTATTT-TCTTATTTCTTTATTTCTTCA
1 TTTTATTGTGTTT-TATTTAT-TTATTTCTTTATTTCTTCA
1474055 TTTT
1 TTTT
1474059 TTTTTTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 13 0.34
40 25 0.66
ACGTcount: A:0.11, C:0.08, G:0.05, T:0.76
Consensus pattern (39 bp):
TTTTATTGTGTTTTATTTATTTATTTCTTTATTTCTTCA
Found at i:1474072 original size:11 final size:11
Alignment explanation
Indices: 1473975--1474073 Score: 63
Period size: 12 Copynumber: 8.3 Consensus size: 11
1473965 TTATTATATA
1473975 TTTTTATTTTGTT
1 TTTTTA-TTT-TT
1473988 TTATTTATTTTT
1 TT-TTTATTTTT
1474000 TTCTTTATTTTT
1 TT-TTTATTTTT
* *
1474012 TCGTTTTATTGTG
1 T--TTTTATTTTT
*
1474025 TTTCTATTTTCT
1 TTTTTATTTT-T
* *
1474037 TATTTCTTTATT
1 TTTTTATTT-TT
* *
1474049 TCTTCATTTTT
1 TTTTTATTTTT
1474060 TTTTTATTTTT
1 TTTTTATTTTT
1474071 TTT
1 TTT
1474074 CTGTTTTATC
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
11 21 0.31
12 27 0.40
13 14 0.21
14 5 0.07
ACGTcount: A:0.10, C:0.07, G:0.04, T:0.79
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:1476254 original size:2 final size:2
Alignment explanation
Indices: 1476189--1476239 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1476179 TTTTTTATCC
1476189 AT 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 AT
1476231 AT AT AT AT A
1 AT AT AT AT A
1476240 ATTGTGATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1479079 original size:2 final size:2
Alignment explanation
Indices: 1479072--1479137 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
1479062 AGAAACCAAC
1479072 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1479113 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1479138 CACACATTAA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1481441 original size:116 final size:116
Alignment explanation
Indices: 1481283--1481522 Score: 277
Period size: 116 Copynumber: 2.1 Consensus size: 116
1481273 AAAAAAAGAG
* * *
1481283 AAAAACATGATTAAATTTAATTCAAAATTGAATGAATAAATAAGAGGA-ATAGAAAAAGAATGTC
1 AAAAAAATGATTAAATTTAATTCAAAATTAAATGAATAAATAAGA-GACATAGAAAAAGAAGGTC
* * *
1481347 AAAAACTAAACATTTTATGAAATTTTAAAAATTA-AGGGCCTTAATTATAAAT
65 AAAAACTAAAAAATTTATGAAATTATAAAAATTAGAGGGCC-TAATTATAAAT
* * * * * * * * *
1481399 AAAAAAATGGTTAAATTTAATTTAAAATTAAATTATTTAATAAGAGACATGGACAAAGAGGGTTA
1 AAAAAAATGATTAAATTTAATTCAAAATTAAATGAATAAATAAGAGACATAGAAAAAGAAGGTCA
* * *
1481464 GAACCTAAAAAATTTATGAAATTATAAAAATTAGAGGTCCTAATTATAAAT
66 AAAACTAAAAAATTTATGAAATTATAAAAATTAGAGGGCCTAATTATAAAT
*
1481515 ATAAAAAT
1 AAAAAAAT
1481523 TTGATGACCC
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
115 2 0.02
116 96 0.93
117 5 0.05
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (116 bp):
AAAAAAATGATTAAATTTAATTCAAAATTAAATGAATAAATAAGAGACATAGAAAAAGAAGGTCA
AAAACTAAAAAATTTATGAAATTATAAAAATTAGAGGGCCTAATTATAAAT
Found at i:1481523 original size:28 final size:29
Alignment explanation
Indices: 1481477--1481550 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
1481467 CCTAAAAAAT
**
1481477 TTATGAAATTATAAAAATTAGA-GGTCCTAA
1 TTAT-AAA-TATAAAAATTAGATGACCCTAA
*
1481507 TTATAAATATAAAAATTTGATGACCCTAA
1 TTATAAATATAAAAATTAGATGACCCTAA
*
1481536 TTATAAATACAAAAA
1 TTATAAATATAAAAA
1481551 AATTGAGGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 12 0.31
29 23 0.59
30 4 0.10
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.32
Consensus pattern (29 bp):
TTATAAATATAAAAATTAGATGACCCTAA
Found at i:1481721 original size:12 final size:11
Alignment explanation
Indices: 1481703--1481740 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
1481693 GAACCAAGGA
1481703 CCGACCACGAC
1 CCGACCACGAC
1481714 CACGACCACGATC
1 C-CGACCACGA-C
1481727 CCGACC-CGAC
1 CCGACCACGAC
1481737 CCGA
1 CCGA
1481741 GACGGACGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.20
11 4 0.16
12 14 0.56
13 2 0.08
ACGTcount: A:0.26, C:0.53, G:0.18, T:0.03
Consensus pattern (11 bp):
CCGACCACGAC
Found at i:1482298 original size:3 final size:3
Alignment explanation
Indices: 1482290--1482338 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
1482280 TCTTTTCAAG
1482290 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1482338 A
1 A
1482339 AACCGCTCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1488544 original size:107 final size:107
Alignment explanation
Indices: 1488358--1488571 Score: 367
Period size: 107 Copynumber: 2.0 Consensus size: 107
1488348 TATACAAAAA
* * *
1488358 TTAATTCTTAATCTAATAATTATGCATTAAATGAATCACTAATTATTACTAATAATTTAAATTAA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCACTAAATATTACTAATAATTTAAATTAA
*
1488423 ATTAAACGTTAAAATGTTACCGTATCAACAAAGTGTCGAGAT
66 ATTAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGAT
1488465 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATT-
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATC-ACTAAATATTACTAATAATTTAAATTA
*
1488529 AATTAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGAT
65 AATTAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGAT
1488572 ATATGATTTC
Statistics
Matches: 101, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
107 76 0.75
108 25 0.25
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (107 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCACTAAATATTACTAATAATTTAAATTAA
ATTAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGAT
Found at i:1488871 original size:50 final size:47
Alignment explanation
Indices: 1488817--1488965 Score: 138
Period size: 50 Copynumber: 3.0 Consensus size: 47
1488807 CCTGCACCGT
* *
1488817 GCTATACCCCACGTGTCAGAT-ACCCAGGTATAGCGCGGATCAGGGGGCGC
1 GCTATA-CCCACGTGCCAGATCA-CCA--TATAGCGCGGAGCAGGGGGCGC
* *
1488867 GCTATACCCACGTGGCGCCAGATCACCATATATCGCGGGGCAGGGGGCGC
1 GCTATACCCACGT---GCCAGATCACCATATAGCGCGGAGCAGGGGGCGC
* * *
1488917 GCTATACCCACGTGGCGCCAAATCAGCATATAGCGCGGTGCAGGGGGCG
1 GCTATACCCACGT---GCCAGATCACCATATAGCGCGGAGCAGGGGGCG
1488966 TGCTTTCTGC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
49 7 0.08
50 70 0.80
52 9 0.10
53 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.34, T:0.15
Consensus pattern (47 bp):
GCTATACCCACGTGCCAGATCACCATATAGCGCGGAGCAGGGGGCGC
Found at i:1489141 original size:22 final size:23
Alignment explanation
Indices: 1489108--1489150 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
1489098 CTTCTAGTAT
1489108 TTTTAAATTTTTTAATAATTTAA
1 TTTTAAATTTTTTAATAATTTAA
1489131 TTTT-AATTTTTTAATAATTT
1 TTTTAAATTTTTTAATAATTT
1489151 TCAAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTAAATTTTTTAATAATTTAA
Found at i:1489165 original size:24 final size:24
Alignment explanation
Indices: 1489138--1489191 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
1489128 TAATTTTAAT
1489138 TTTTTAATAATTTTCAAAATTATA
1 TTTTTAATAATTTTCAAAATTATA
1489162 TTTTTAATAATTTTCAAAATTATA
1 TTTTTAATAATTTTCAAAATTATA
1489186 TTTTTA
1 TTTTTA
1489192 GAAAATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTTAATAATTTTCAAAATTATA
Found at i:1493001 original size:17 final size:17
Alignment explanation
Indices: 1492961--1492996 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1492951 ATTTCAATGT
1492961 ATTTTATCTATCTTGCA
1 ATTTTATCTATCTTGCA
1492978 ATTTTATCTA-CTTG-A
1 ATTTTATCTATCTTGCA
1492993 ATTT
1 ATTT
1492997 ATTATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 4 0.21
17 10 0.53
ACGTcount: A:0.25, C:0.14, G:0.06, T:0.56
Consensus pattern (17 bp):
ATTTTATCTATCTTGCA
Found at i:1493136 original size:29 final size:31
Alignment explanation
Indices: 1493079--1493144 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 31
1493069 GAAAATAATG
*
1493079 TAAC-AAAGAAAAGGAAAAGAAAAA-GAAAA
1 TAACAAAAGAAAAGGAAAAGAAAAACAAAAA
*
1493108 TAACAAAAG-AAAGTAAAA-AAATAACAAAAA
1 TAACAAAAGAAAAGGAAAAGAAA-AACAAAAA
1493138 TAA-AAAA
1 TAACAAAA
1493145 TCAGAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 3 0.09
29 18 0.56
30 11 0.34
ACGTcount: A:0.77, C:0.05, G:0.11, T:0.08
Consensus pattern (31 bp):
TAACAAAAGAAAAGGAAAAGAAAAACAAAAA
Found at i:1493144 original size:16 final size:16
Alignment explanation
Indices: 1493123--1493156 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1493113 AAAGAAAGTA
1493123 AAAAAATAACAAAAAT
1 AAAAAATAACAAAAAT
* *
1493139 AAAAAATCAGAAAAAT
1 AAAAAATAACAAAAAT
1493155 AA
1 AA
1493157 CAATATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAAATAACAAAAAT
Found at i:1493909 original size:21 final size:20
Alignment explanation
Indices: 1493883--1494001 Score: 114
Period size: 21 Copynumber: 5.8 Consensus size: 20
1493873 ATCAGTTTCC
1493883 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
1493904 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* **
1493925 AAAATCGCAATGCGATAGT-
1 AAAATCGCAACGCGATTTTG
** *
1493944 ACAAATTCGCATTGCGATTTTC
1 A-AAA-TCGCAACGCGATTTTG
* *
1493966 AAGAATCGCAACGCGAATATG
1 AA-AATCGCAACGCGATTTTG
1493987 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
1494002 ACACATAAAT
Statistics
Matches: 83, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
19 1 0.01
20 17 0.20
21 62 0.75
22 3 0.04
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:1493994 original size:20 final size:20
Alignment explanation
Indices: 1493883--1494020 Score: 84
Period size: 21 Copynumber: 6.7 Consensus size: 20
1493873 ATCAGTTTCC
* *
1493883 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGAAT-ATG
* *
1493904 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGAAT-ATG
*
1493925 AAAATCGCAATGCG-ATA-G
1 AAAATCGCAACGCGAATATG
** * * *
1493943 TACAAATTCGCATTGCGATTTTC
1 -A-AAA-TCGCAACGCGAATATG
1493966 AAGAATCGCAACGCGAATATG
1 AA-AATCGCAACGCGAATATG
* *
1493987 AAAATCGCAACGCGAACA-C
1 AAAATCGCAACGCGAATATG
1494006 ATAAATCGCAACGCG
1 A-AAATCGCAACGCG
1494021 TATCCGTAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 32 0.33
21 57 0.59
22 4 0.04
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (20 bp):
AAAATCGCAACGCGAATATG
Done.