Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000250.1 Hibiscus syriacus cultivar Beakdansim tig00000452_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: 2850692
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 12
Found at i:148 original size:80 final size:82
Alignment explanation
Indices: 10--240 Score: 340
Period size: 80 Copynumber: 2.8 Consensus size: 82
1 AATTAAGAT
*
10 GACACACATTTGTACGTCATAAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAA
1 GACACACATTTGTGCGTCAT-AAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAA
75 GCCCCCGTCATAAAT-TA
65 GCCCCCGTCATAAATCTA
* *
92 GAGACACATTTGTGCGTCATAAATTTATGACACGCA-GTATGACTTACATTGTGCGTCATTGAAG
1 GACACACATTTGTGCGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAG
*
156 CCCCCGTCATAAATCGCTT
66 CCCCCGTCATAAAT--CTA
* * * * *
175 GACATACATTTGTGTGTCATAAATTTATGACATGCATATATGACTTACATTGCGTGTCATTGAAG
1 GACACACATTTGTGCGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAG
240 C
66 C
241 ACACATCATT
Statistics
Matches: 134, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
80 41 0.31
81 16 0.12
82 18 0.13
83 33 0.25
84 26 0.19
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (82 bp):
GACACACATTTGTGCGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAG
CCCCCGTCATAAATCTA
Found at i:12950 original size:19 final size:19
Alignment explanation
Indices: 12928--12966 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
12918 TTGGAATTGA
*
12928 ATGTTGGAATGTTAATTTG
1 ATGTTGGAAGGTTAATTTG
*
12947 ATGTTGGAAGGTTGATTTG
1 ATGTTGGAAGGTTAATTTG
12966 A
1 A
12967 ATTGTTTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (19 bp):
ATGTTGGAAGGTTAATTTG
Found at i:13640 original size:21 final size:22
Alignment explanation
Indices: 13616--13660 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
13606 AATCATATTA
*
13616 TGAAATATTTTAT-AATGATTT
1 TGAAATAGTTTATGAATGATTT
*
13637 TGAAATGGTTTATGAATGATTT
1 TGAAATAGTTTATGAATGATTT
13659 TG
1 TG
13661 GTATGAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (22 bp):
TGAAATAGTTTATGAATGATTT
Found at i:15433 original size:20 final size:20
Alignment explanation
Indices: 15408--15454 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
15398 CAATTGATAG
*
15408 ATAGCTGGTTGCTAATTCCA
1 ATAGCTGGTAGCTAATTCCA
*
15428 ATAGCTGGTAGCTAATTCTA
1 ATAGCTGGTAGCTAATTCCA
15448 ATAGCTG
1 ATAGCTG
15455 ATTTGACCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (20 bp):
ATAGCTGGTAGCTAATTCCA
Found at i:15718 original size:12 final size:12
Alignment explanation
Indices: 15689--15724 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
15679 AAAATTAGTG
15689 AATATTTTTG--
1 AATATTTTTGAA
15699 AA-ATTTTTGAA
1 AATATTTTTGAA
15710 AATATTTTTGAA
1 AATATTTTTGAA
15722 AAT
1 AAT
15725 TTAATATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 7 0.30
10 2 0.09
11 2 0.09
12 12 0.52
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
AATATTTTTGAA
Found at i:20421 original size:2 final size:2
Alignment explanation
Indices: 20416--20440 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20406 TGGAGTTAAT
20416 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 T
20441 TTCATATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43535 original size:46 final size:46
Alignment explanation
Indices: 43468--43568 Score: 184
Period size: 46 Copynumber: 2.2 Consensus size: 46
43458 CAGAGTATCG
* *
43468 ATACTCTCTAATTAATTTCCAATTAAAAATAAAAGGAGTGGCATTA
1 ATACTCTCTAATTAACTTCCAATTAAAAATAAAAGGAGTGACATTA
43514 ATACTCTCTAATTAACTTCCAATTAAAAATAAAAGGAGTGACATTA
1 ATACTCTCTAATTAACTTCCAATTAAAAATAAAAGGAGTGACATTA
43560 ATACTCTCT
1 ATACTCTCT
43569 TGAGTACCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.33
Consensus pattern (46 bp):
ATACTCTCTAATTAACTTCCAATTAAAAATAAAAGGAGTGACATTA
Found at i:61184 original size:30 final size:30
Alignment explanation
Indices: 61158--61230 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
61148 TTACTTTTGG
*
61158 AAATTACACTTTTGGTCCTTGAACTTTTAA
1 AAATTACACTTTTGGTCCTTCAACTTTTAA
** *
61188 AAATTTTATTTTTGGTCCTTCAACTTTCTAA
1 AAATTACACTTTTGGTCCTTCAACTTT-TAA
* *
61219 AATTTATACTTT
1 AAATTACACTTT
61231 GGATACGAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
30 23 0.66
31 12 0.34
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (30 bp):
AAATTACACTTTTGGTCCTTCAACTTTTAA
Found at i:61232 original size:30 final size:30
Alignment explanation
Indices: 61168--61268 Score: 84
Period size: 30 Copynumber: 3.4 Consensus size: 30
61158 AAATTACACT
* *
61168 TTTGGTCCTTGAACTTT-TAAAAATTT-TATT
1 TTTGGTCCTTAAACTTTCT-AAAATTTATA-A
* *
61198 TTTGGTCCTTCAACTTTCTAAAATTTATAC
1 TTTGGTCCTTAAACTTTCTAAAATTTATAA
* *
61228 TTTGGATAC-GAAACTTTC-AAAATTTATAA
1 TTTGG-TCCTTAAACTTTCTAAAATTTATAA
*
61257 TTTGGTCATTAA
1 TTTGGTCCTTAA
61269 CCAAAATTTG
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
28 1 0.02
29 17 0.29
30 35 0.60
31 5 0.09
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.47
Consensus pattern (30 bp):
TTTGGTCCTTAAACTTTCTAAAATTTATAA
Found at i:65421 original size:46 final size:46
Alignment explanation
Indices: 65347--65742 Score: 513
Period size: 46 Copynumber: 8.6 Consensus size: 46
65337 AAATGAATGA
* * * * *
65347 ATAAATGATAATGCACAACGGTTCATTATCGTCATGAAAGGATGCT
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * *
65393 ACAAATGAAAATGCATAACGGTGAATTATCGGCATGAAATGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * *
65439 ATAAATGAAAATGCATAACGGTGCATTATCGACATAAAAGGATACC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
** ** *
65485 ATAAATGAAAATGCATAACAATGCATTATCACCATGAAAGGATGTC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * *
65531 ATAAATGAAAATGCATAACGATGCATTATCTGCATGAAAGAATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * * * *
65577 ATAAATGAAAATGCATAACAGTGTATTACCGGAATAAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* *
65623 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGTC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* *
65669 ATAAATGAAAATGCATAACGGTGCATTATTGGCATGAAATGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * *
65715 ATAAATGAAAATACATAACCGTGTATTA
1 ATAAATGAAAATGCATAACGGTGCATTA
65743 ACAGCATAAT
Statistics
Matches: 302, Mismatches: 48, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 302 1.00
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (46 bp):
ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
Found at i:67720 original size:2 final size:2
Alignment explanation
Indices: 67713--67741 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
67703 TCAAAAAGAG
67713 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 A
67742 ACATTTCTGG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71276 original size:18 final size:18
Alignment explanation
Indices: 71239--71279 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
71229 CTATTAAGCC
* *
71239 TGAAATTGTAAGATATAT
1 TGAAATTGTAAGAGAAAT
*
71257 TGAAATTGTAATAGAAAT
1 TGAAATTGTAAGAGAAAT
71275 TGAAA
1 TGAAA
71280 ATAATAGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (18 bp):
TGAAATTGTAAGAGAAAT
Found at i:71694 original size:46 final size:46
Alignment explanation
Indices: 71623--71990 Score: 472
Period size: 46 Copynumber: 8.0 Consensus size: 46
71613 AAATGAATAA
* *
71623 ATAAATGAAAATGGATAACGATGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* *
71669 ACAAATGAAAATGCATAACGGTGCATTATCGGTATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
*
71715 ATAAATGAAAATGCATAACGGTTCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * * * * *
71761 ATAAATGAAAATGAAAAATGATGCATTATCAGCATGAAATGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * *
71807 ATAAATGAAAATGCATAACGGTACATTATCAGCATGAAAGGATACC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* *
71853 ATAAAT-ACAAATGCATAACGGTGCATTATCAGAATGAAAGGATGCC
1 ATAAATGA-AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * * *
71899 ATAAATGAAAATACATAACGGTGCATTATTGGTATGAAATGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * * * *
71945 ACAAATGAAAATACATAACAGTGTATTAAT-GGCATAAAAGG-TGCC
1 ATAAATGAAAATGCATAACGGTGCATT-ATCGGCATGAAAGGATGCC
71990 A
1 A
71991 CTCATGATAG
Statistics
Matches: 284, Mismatches: 35, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
45 6 0.02
46 275 0.97
47 3 0.01
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (46 bp):
ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
Found at i:77296 original size:2 final size:2
Alignment explanation
Indices: 77289--77323 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
77279 GGATAAAAGC
77289 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 A
77324 ACAAATAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:77402 original size:12 final size:12
Alignment explanation
Indices: 77385--77417 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
77375 CTAACAATAC
77385 TATAAAAATATA
1 TATAAAAATATA
*
77397 TATAAATATATA
1 TATAAAAATATA
77409 TA-AAAAATA
1 TATAAAAATA
77418 AAATAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TATAAAAATATA
Found at i:80720 original size:23 final size:23
Alignment explanation
Indices: 80706--80750 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
80696 TCGTGAACAT
*
80706 TAAACAAATATATTCGCAAACGA
1 TAAACAAATATATTCGCGAACGA
*
80729 TAAACAAATATGTTCGCGAACG
1 TAAACAAATATATTCGCGAACG
80751 CCAATAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.22
Consensus pattern (23 bp):
TAAACAAATATATTCGCGAACGA
Found at i:81922 original size:8 final size:7
Alignment explanation
Indices: 81891--81920 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
81881 TTACTAACTC
81891 TTGTTTT
1 TTGTTTT
81898 TTGTTTT
1 TTGTTTT
81905 TTGTTTT
1 TTGTTTT
81912 TTGTTTT
1 TTGTTTT
81919 TT
1 TT
81921 TGGAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (7 bp):
TTGTTTT
Found at i:82431 original size:3 final size:3
Alignment explanation
Indices: 82423--82505 Score: 159
Period size: 3 Copynumber: 28.0 Consensus size: 3
82413 ACGTGTGGTA
82423 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
82470 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
82506 GTATAAGATA
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.03
3 77 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:87478 original size:16 final size:16
Alignment explanation
Indices: 87457--87498 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
87447 TTTTGAAAAT
87457 TACTCCCCTTACTTTA
1 TACTCCCCTTACTTTA
87473 TACTCCCCTTACTTTA
1 TACTCCCCTTACTTTA
*
87489 TTCTCCCCTT
1 TACTCCCCTT
87499 TTTGTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.14, C:0.40, G:0.00, T:0.45
Consensus pattern (16 bp):
TACTCCCCTTACTTTA
Found at i:89219 original size:13 final size:13
Alignment explanation
Indices: 89203--89227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89193 CTAATGGGAA
89203 ATTTTTGAAAACT
1 ATTTTTGAAAACT
89216 ATTTTTGAAAAC
1 ATTTTTGAAAAC
89228 AATGTTTGGA
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:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTTGAAAACT
Found at i:89796 original size:14 final size:15
Alignment explanation
Indices: 89777--89805 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
89767 AGTGAGGATT
89777 TATCGATACA-TATG
1 TATCGATACACTATG
89791 TATCGATACACTATG
1 TATCGATACACTATG
89806 CGTAAAGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (15 bp):
TATCGATACACTATG
Found at i:100792 original size:30 final size:30
Alignment explanation
Indices: 100728--100805 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
100718 AACCCAACCC
* * * *
100728 ATAGGTTGCCATGCCCT-CTGGGCGACCTT
1 ATAGGTCGCCATGCACTCCGGGGCAACCTT
* *
100757 GTAGGTCGTCATGCACTCCGGGGCAACCTT
1 ATAGGTCGCCATGCACTCCGGGGCAACCTT
100787 ATAGGTCGCCATGCACTCC
1 ATAGGTCGCCATGCACTCC
100806 CAACCTTGTC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 13 0.32
30 27 0.68
ACGTcount: A:0.17, C:0.32, G:0.27, T:0.24
Consensus pattern (30 bp):
ATAGGTCGCCATGCACTCCGGGGCAACCTT
Found at i:100896 original size:27 final size:27
Alignment explanation
Indices: 100857--100917 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
100847 TCCCCCTCCT
*
100857 GCTGCATGCCGTCCCCTCCTGTTCCCC
1 GCTGCATGCCGTCCCCTCCTGCTCCCC
* *
100884 GCTGCATGGCGTCCTCTCCTGCTCCCC
1 GCTGCATGCCGTCCCCTCCTGCTCCCC
100911 GCTGCAT
1 GCTGCAT
100918 ACCGCTACAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.05, C:0.48, G:0.21, T:0.26
Consensus pattern (27 bp):
GCTGCATGCCGTCCCCTCCTGCTCCCC
Found at i:101147 original size:13 final size:13
Alignment explanation
Indices: 101124--101170 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
101114 CGAGAAAGAA
101124 AGAAA-GAAAGGG
1 AGAAAGGAAAGGG
*
101136 AGAAAGGAAAGGA
1 AGAAAGGAAAGGG
*
101149 AGAAGAAGAAAGGG
1 AGAA-AGGAAAGGG
101163 AGATAAGG
1 AGA-AAGG
101171 CTCTTGTGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 5 0.18
13 10 0.36
14 12 0.43
15 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.02
Consensus pattern (13 bp):
AGAAAGGAAAGGG
Found at i:101316 original size:23 final size:23
Alignment explanation
Indices: 101259--101316 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
101249 TAAAACAAAA
* *
101259 TTAAGTTAATTA-GTTTGTTAGT
1 TTAAGTTAAATATGATTGTTAGT
101281 TTAACAGTT--ATATGATTGTTAGT
1 TT-A-AGTTAAATATGATTGTTAGT
101304 TTAAGTTAAATAT
1 TTAAGTTAAATAT
101317 ATCATACAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
21 4 0.14
22 5 0.17
23 16 0.55
24 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.50
Consensus pattern (23 bp):
TTAAGTTAAATATGATTGTTAGT
Found at i:103902 original size:26 final size:26
Alignment explanation
Indices: 103792--104159 Score: 410
Period size: 26 Copynumber: 14.8 Consensus size: 26
103782 TTATTCCATA
* * *
103792 ATTATTAGT-AATAATTATTA-AATC
1 ATTATTATTAAATCATTATTATAATG
* *
103816 ATTAGTATTAAATCATTATTATAA-A
1 ATTATTATTAAATCATTATTATAATG
* * *
103841 ATCATTACTAAATCATTATTA-AATC
1 ATTATTATTAAATCATTATTATAATG
*
103866 ATTACTATTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
*
103892 ATTATTATTAAATCATTATTAT--CG
1 ATTATTATTAAATCATTATTATAATG
103916 -TTATTATTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
*
103941 ATTATTATTAAATCATTA-T-T-ATC
1 ATTATTATTAAATCATTATTATAATG
* *
103964 ATTATTATGAAATCATTATTA-AATC
1 ATTATTATTAAATCATTATTATAATG
* *
103989 ATTACTATTAAATAATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
*
104015 ATTATTATTAAATCATTA-T-T-ATC
1 ATTATTATTAAATCATTATTATAATG
*
104038 ATTATTATTAAATCATTACTATAATG
1 ATTATTATTAAATCATTATTATAATG
*
104064 ATTATTATTAAATCATTA-T-T-ATC
1 ATTATTATTAAATCATTATTATAATG
*
104087 ATTATTATGAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
* *
104113 ATTATTACTAAATAATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
* *
104139 ATTAATATCAAATCATTATTA
1 ATTATTATTAAATCATTATTA
104160 AATCATCAAA
Statistics
Matches: 292, Mismatches: 35, Indels: 32
0.81 0.10 0.09
Matches are distributed among these distances:
23 79 0.27
24 16 0.05
25 73 0.25
26 124 0.42
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (26 bp):
ATTATTATTAAATCATTATTATAATG
Found at i:103909 original size:23 final size:23
Alignment explanation
Indices: 103808--104241 Score: 249
Period size: 26 Copynumber: 18.1 Consensus size: 23
103798 AGTAATAATT
* *
103808 ATTA-AATCATTAGTATTAAATC
1 ATTATAATGATTATTATTAAATC
** * *
103830 ATTATTATAAAATCATTACTAAATC
1 ATTA-TA-ATGATTATTATTAAATC
* *
103855 ATTATTAAATCATTACTATTAAATC
1 ATTA-T-AATGATTATTATTAAATC
103880 ATTATTATAATGATTATTATTAAATC
1 ---ATTATAATGATTATTATTAAATC
*
103906 ATTATTATCG-TTATTATTAAATC
1 ATTATAAT-GATTATTATTAAATC
103929 ATTATTATAATGATTATTATTAAATC
1 ---ATTATAATGATTATTATTAAATC
* * *
103955 ATTATTATCATTATTATGAAATC
1 ATTATAATGATTATTATTAAATC
* * *
103978 ATTATTAAATCATTACTATTAAATAATT
1 ATTA-T-AATGATTATTATT--A-AATC
104006 ATTATAATGATTATTATTAAATC
1 ATTATAATGATTATTATTAAATC
* *
104029 ATTATTATCATTATTATTAAATC
1 ATTATAATGATTATTATTAAATC
104052 ATTACTATAATGATTATTATTAAATC
1 A-T--TATAATGATTATTATTAAATC
* * *
104078 ATTATTATCATTATTATGAAATC
1 ATTATAATGATTATTATTAAATC
* *
104101 ATTATTATAATGATTATTACTAAATAATT
1 ---ATTATAATGATTATTA-T-TA-AATC
* *
104130 ATTATAATGATTAATATCAAATC
1 ATTATAATGATTATTATTAAATC
* * *
104153 ATTAT--T-A-AATCATCAAATC
1 ATTATAATGATTATTATTAAATC
* * * *
104172 ATTA-AAT-ATTA-AAAT-CATT
1 ATTATAATGATTATTATTAAATC
*
104191 ATTATAATGATTATTACTAAATC
1 ATTATAATGATTATTATTAAATC
*
104214 ATTATTATAATGATTATTATCAAATC
1 ---ATTATAATGATTATTATTAAATC
104240 AT
1 AT
104242 GAATAAATCA
Statistics
Matches: 323, Mismatches: 53, Indels: 71
0.72 0.12 0.16
Matches are distributed among these distances:
19 19 0.06
20 7 0.02
21 6 0.02
22 6 0.02
23 99 0.31
24 6 0.02
25 43 0.13
26 118 0.37
27 4 0.01
28 12 0.04
29 3 0.01
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (23 bp):
ATTATAATGATTATTATTAAATC
Found at i:103938 original size:49 final size:50
Alignment explanation
Indices: 103816--104159 Score: 361
Period size: 49 Copynumber: 6.9 Consensus size: 50
103806 TTATTAAATC
* * * *
103816 ATTAGTATTAAATCATTATTATAA-AATCATTACTAAATCATTATTAAATC-
1 ATTATTATTAAATCATTATTATAATCATTATTATTAAATCATTATT--ATCG
* *
103866 ATTACTATTAAATCATTATTATAATGATTATTATTAAATCATTATTATCG
1 ATTATTATTAAATCATTATTATAATCATTATTATTAAATCATTATTATCG
*
103916 -TTATTATTAAATCATTATTATAATGATTATTATTAAATCATTATTATC-
1 ATTATTATTAAATCATTATTATAATCATTATTATTAAATCATTATTATCG
* * * *
103964 ATTATTATGAAATCATTATTA-AATCATTACTATTAAATAATTATTATAATG
1 ATTATTATTAAATCATTATTATAATCATTATTATTAAATCATTATTAT--CG
104015 ATTATTATTAAATCATTA-T-T-ATCATTATTATTAAATCATTACTATAAT-G
1 ATTATTATTAAATCATTATTATAATCATTATTATTAAATCATTA-T-T-ATCG
* *
104064 ATTATTATTAAATCATTA-T-T-ATCATTATTATGAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATCATTATTATTAAATCATTATTAT--CG
* * * * *
104113 ATTATTACTAAATAATTATTATAATGATTAATATCAAATCATTATTA
1 ATTATTATTAAATCATTATTATAATCATTATTATTAAATCATTATTA
104160 AATCATCAAA
Statistics
Matches: 259, Mismatches: 19, Indels: 30
0.84 0.06 0.10
Matches are distributed among these distances:
46 2 0.01
47 1 0.00
48 24 0.09
49 146 0.56
50 26 0.10
51 37 0.14
52 23 0.09
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (50 bp):
ATTATTATTAAATCATTATTATAATCATTATTATTAAATCATTATTATCG
Found at i:103944 original size:20 final size:21
Alignment explanation
Indices: 103898--103944 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 21
103888 AATGATTATT
* *
103898 ATTAAATCATTATTATCGTTATT
1 ATTAAATCATTATTA-C-TAATG
103921 ATTAAATCATTATTA-TAATG
1 ATTAAATCATTATTACTAATG
103941 ATTA
1 ATTA
103945 TTATTAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 7 0.32
23 15 0.68
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.49
Consensus pattern (21 bp):
ATTAAATCATTATTACTAATG
Found at i:104187 original size:35 final size:35
Alignment explanation
Indices: 104148--104444 Score: 294
Period size: 35 Copynumber: 8.5 Consensus size: 35
104138 GATTAATATC
104148 AAATCATTATTAAATCATCAAATCATTAAATATTA
1 AAATCATTATTAAATCATCAAATCATTAAATATTA
* *
104183 AAATCATTATTATAATGATTATTACTAAATCATT-ATTA-TA
1 AAATCATTA-T-TAA--ATCA-T-C-AAATCATTAAATATTA
* * * *
104223 ATGATTATTATCAAATCATGAATAAATCATTAAATATT-
1 A-AATCATTATTAAATCAT---CAAATCATTAAATATTA
104261 AAA--ATTATT--AT--T-AAATCA-T-AATATTA
1 AAATCATTATTAAATCATCAAATCATTAAATATTA
* *
104287 AAATCATTACTAAATCTTCAAATCATTAAATATTA
1 AAATCATTATTAAATCATCAAATCATTAAATATTA
* *
104322 AAATCATGACTAAATCATCAAATCATTAAATATTA
1 AAATCATTATTAAATCATCAAATCATTAAATATTA
104357 AAATCATTATTAAATCATCAAATCATTAAATATTA
1 AAATCATTATTAAATCATCAAATCATTAAATATTA
* * *
104392 AAATCGTGACTAAATCATCAAATCATTAAATATTA
1 AAATCATTATTAAATCATCAAATCATTAAATATTA
104427 AAATCATTATTAAATCAT
1 AAATCATTATTAAATCAT
104445 TTTTATGGTT
Statistics
Matches: 219, Mismatches: 21, Indels: 44
0.77 0.07 0.15
Matches are distributed among these distances:
25 6 0.03
26 4 0.02
27 6 0.03
28 5 0.02
30 2 0.01
31 1 0.00
32 1 0.00
33 8 0.04
34 1 0.00
35 134 0.61
36 2 0.01
37 15 0.07
38 5 0.02
39 6 0.03
40 5 0.02
41 10 0.05
42 8 0.04
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (35 bp):
AAATCATTATTAAATCATCAAATCATTAAATATTA
Found at i:104286 original size:19 final size:19
Alignment explanation
Indices: 104220--104286 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
104210 AATCATTATT
*
104220 ATAATGATTATTATCAAATC
1 ATAAT-ATTATTATTAAATC
* *
104240 ATGAATA-AATCATTAAAT-
1 AT-AATATTATTATTAAATC
*
104258 ATTAAAATTATTATTAAATC
1 A-TAATATTATTATTAAATC
104278 ATAATATTA
1 ATAATATTA
104287 AAATCATTAC
Statistics
Matches: 36, Mismatches: 7, Indels: 9
0.69 0.13 0.17
Matches are distributed among these distances:
18 4 0.11
19 25 0.69
20 4 0.11
21 3 0.08
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (19 bp):
ATAATATTATTATTAAATC
Found at i:104310 original size:139 final size:136
Alignment explanation
Indices: 104035--104333 Score: 365
Period size: 139 Copynumber: 2.2 Consensus size: 136
104025 AATCATTATT
* * *
104035 ATCATT-ATTATT-AAATCATTACTATAATGATTATTATTAAATCATTATTATCATTATTATGAA
1 ATCATTAAATATTAAAATCATTACTATAATGATTATTACTAAATCATTATTATCATTATTATCAA
* * * * * * *
104098 ATCATTATTATAATGATTATTACTAAATAATTATTATAATGATTAATATCAAATCATTATTAAAT
66 ATCATGAATATAATCATTAATACTAAATAATTATTATAATCATTAATATAAAATCATTACTAAAT
104163 CATCAA
131 CATCAA
* *
104169 ATCATTAAATATTAAAATCATTATTATAATGATTATTACTAAATCATTATTATAATGATTATTAT
1 ATCATTAAATATTAAAATCATTACTATAATGATTATTACTAAATCATTA-T-T-ATCATTATTAT
* *
104234 CAAATCATGAATA-AATCATTAAATATTAAAATTATTATTA-AATCA-TAATATTAAAATCATTA
63 CAAATCATGAATATAATCATT-AATACT-AAATAATTATTATAATCATTAATA-TAAAATCATTA
*
104296 CTAAATCTTCAA
125 CTAAATCATCAA
*
104308 ATCATTAAATATTAAAATCATGACTA
1 ATCATTAAATATTAAAATCATTACTA
104334 AATCATCAAA
Statistics
Matches: 140, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
134 6 0.04
135 5 0.04
136 33 0.24
137 1 0.01
138 12 0.09
139 72 0.51
140 11 0.08
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (136 bp):
ATCATTAAATATTAAAATCATTACTATAATGATTATTACTAAATCATTATTATCATTATTATCAA
ATCATGAATATAATCATTAATACTAAATAATTATTATAATCATTAATATAAAATCATTACTAAAT
CATCAA
Found at i:104428 original size:7 final size:8
Alignment explanation
Indices: 104245--104435 Score: 84
Period size: 8 Copynumber: 23.2 Consensus size: 8
104235 AAATCATGAA
104245 TAAATCAT
1 TAAATCAT
104253 TAAAT-AT
1 TAAATCAT
104260 TAAA--AT
1 TAAATCAT
*
104266 T--ATTAT
1 TAAATCAT
104272 TAAATCA-
1 TAAATCAT
104279 T-AAT-AT
1 TAAATCAT
104285 TAAAATCATT
1 T-AAATCA-T
104295 ACTAAATC-T
1 --TAAATCAT
104304 TCAAATCAT
1 T-AAATCAT
104313 TAAAT-AT
1 TAAATCAT
104320 TAAAATCAT
1 T-AAATCAT
104329 GACTAAATCAT
1 ---TAAATCAT
*
104340 CAAATCAT
1 TAAATCAT
104348 TAAAT-AT
1 TAAATCAT
104355 TAAAATCATTAT
1 T-AAATC---AT
104367 TAAATCAT
1 TAAATCAT
*
104375 CAAATCAT
1 TAAATCAT
104383 TAAAT-AT
1 TAAATCAT
*
104390 TAAAATCGTGAC
1 T-AAATC---AT
104402 TAAATCAT
1 TAAATCAT
*
104410 CAAATCAT
1 TAAATCAT
104418 TAAAT-AT
1 TAAATCAT
104425 TAAAATCAT
1 T-AAATCAT
104434 TA
1 TA
104436 TTAAATCATT
Statistics
Matches: 144, Mismatches: 9, Indels: 60
0.68 0.04 0.28
Matches are distributed among these distances:
4 1 0.01
5 1 0.01
6 10 0.07
7 20 0.14
8 73 0.51
9 9 0.06
10 1 0.01
11 22 0.15
12 7 0.05
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.36
Consensus pattern (8 bp):
TAAATCAT
Found at i:104714 original size:49 final size:49
Alignment explanation
Indices: 104651--104863 Score: 354
Period size: 49 Copynumber: 4.3 Consensus size: 49
104641 ATCACTAATA
* *
104651 ATTACTAAATCATTACTATCAAGTCATTAAATATTAATAATAATTTCATT
1 ATTACT-AATCATTACTACCAAATCATTAAATATTAATAATAATTTCATT
*
104701 ATTACTAATCATTACTACCAAATCATTAAATCTTAATAATAATTTCATT
1 ATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATT
*
104750 ATTACTAATCATTACTACCAAATCATTAAATATTATTAATAATTTCATT
1 ATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATT
*
104799 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATT
* *
104848 AGTAATAATCATTACT
1 ATTACTAATCATTACT
104864 TAATCAAATC
Statistics
Matches: 154, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 148 0.96
50 6 0.04
ACGTcount: A:0.44, C:0.14, G:0.01, T:0.42
Consensus pattern (49 bp):
ATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATT
Found at i:108686 original size:28 final size:30
Alignment explanation
Indices: 108646--108708 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
108636 ATTTTTTATA
108646 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
*
108676 TAATAT-A-ATATAACTTAAATTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
108704 TAATA
1 TAATA
108709 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:108715 original size:28 final size:28
Alignment explanation
Indices: 108650--108715 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
108640 TTTATATAAT
108650 ATAATATATAACTTAAACTAACAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
*
108678 AT-ATAATATAACTTAAATTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
108706 ATAATTTATA
1 ATAATATATA
108716 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:108992 original size:22 final size:23
Alignment explanation
Indices: 108967--109017 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
108957 AAATTTGACT
108967 GTTGAAGCAAATAA-TATTGAGC
1 GTTGAAGCAAATAACTATTGAGC
* ***
108989 GTTGAATCGTGTAACTATTGAGC
1 GTTGAAGCAAATAACTATTGAGC
109012 GTTGAA
1 GTTGAA
109018 AGGCTGCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.31
Consensus pattern (23 bp):
GTTGAAGCAAATAACTATTGAGC
Found at i:109325 original size:29 final size:29
Alignment explanation
Indices: 109266--109343 Score: 138
Period size: 29 Copynumber: 2.6 Consensus size: 29
109256 AGCTCGACCT
109266 GAGTGCATGGCGACCTTTCCTTGGTCGCCCG
1 GAGTGCATGGCGACC--TCCTTGGTCGCCCG
109297 GAGTGCATGGCGACCTCCTTGGTCGCCCG
1 GAGTGCATGGCGACCTCCTTGGTCGCCCG
109326 GAGTGCATGGCGACCTCC
1 GAGTGCATGGCGACCTCC
109344 GTCTTTACTG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
29 32 0.68
31 15 0.32
ACGTcount: A:0.12, C:0.33, G:0.33, T:0.22
Consensus pattern (29 bp):
GAGTGCATGGCGACCTCCTTGGTCGCCCG
Found at i:110029 original size:19 final size:19
Alignment explanation
Indices: 110002--110042 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
109992 TATAATGTAA
*
110002 TTTTCTTTAAAATATTATT
1 TTTTATTTAAAATATTATT
* *
110021 TTTTATTTAAATTCTTATT
1 TTTTATTTAAAATATTATT
110040 TTT
1 TTT
110043 ATCGGGTCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTATTTAAAATATTATT
Found at i:110635 original size:15 final size:18
Alignment explanation
Indices: 110583--110636 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
110573 TCTAACAATA
*
110583 ATATATA-TATAT-ATAT
1 ATATATATTATTTCATAT
110599 ATATATATTATTTCATAT
1 ATATATATTATTTCATAT
*
110617 -TATAATATTATTTAATAT
1 ATAT-ATATTATTTCATAT
110635 AT
1 AT
110637 CAAATACAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 7 0.22
17 7 0.22
18 17 0.53
19 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATATATTATTTCATAT
Found at i:111134 original size:159 final size:152
Alignment explanation
Indices: 110881--111215 Score: 408
Period size: 159 Copynumber: 2.2 Consensus size: 152
110871 AATGATATAT
* * * * * *
110881 GAGCATGTGGTTCAAATCTGGTAAAAAAATGATTTAAAATAAATCACAAATTGAAGGAAATAGGA
1 GAGCATGTGG-TCAAATTTGGTAAAAAAAGGACTTAAAATAAATCACAAATTAAAGAAAAAAGGA
* *
110946 GATTATGAAAAATTGAATGACTAAATTG-AAAAATAATAAAATTATTATCAAAAAGAGGAATTGA
65 GATTATAAAAAATTGAAGGACTAAATTGAAAAAATAA-AAAA--A--AT-AAAAAGAGGAATTGA
* *
111010 AAGTGCAC-TGTATTCTACTATGGTTTAG
124 AAGTACACATGTATTCTACTATAGTTTAG
* * **
111038 GAGCATGTGGCTCAAATTTGGTTAAAAAAGGGACTTAAAATAAATTATGAATTAAAGAAAAGAAG
1 GAGCATGTGG-TCAAATTTGG-TAAAAAAAGGACTTAAAATAAATCACAAATTAAAGAAAA-AAG
*
111103 GAGATTATAAAAAATTGAAGGACTAAATTGAAAAAATAAAAAAAATAAAAAGTGGAATTGAAAGT
63 GAGATTATAAAAAATTGAAGGACTAAATTGAAAAAATAAAAAAAATAAAAAGAGGAATTGAAAGT
111168 ACACATGTATTCTACTATAGTTTAG
128 ACACATGTATTCTACTATAGTTTAG
*
111193 GAACATGT--TCAAATTTGGTAAAA
1 GAGCATGTGGTCAAATTTGGTAAAA
111216 TTTGACTTAT
Statistics
Matches: 157, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
151 5 0.03
152 10 0.06
154 21 0.13
155 28 0.18
157 20 0.13
158 31 0.20
159 34 0.22
160 8 0.05
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (152 bp):
GAGCATGTGGTCAAATTTGGTAAAAAAAGGACTTAAAATAAATCACAAATTAAAGAAAAAAGGAG
ATTATAAAAAATTGAAGGACTAAATTGAAAAAATAAAAAAAATAAAAAGAGGAATTGAAAGTACA
CATGTATTCTACTATAGTTTAG
Found at i:113405 original size:17 final size:17
Alignment explanation
Indices: 113379--113413 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
113369 ATTGTAATAA
113379 TTTAATAATTTTA-CAT
1 TTTAATAATTTTATCAT
113395 TTTATATAATTTTATCAT
1 TTTA-ATAATTTTATCAT
113413 T
1 T
113414 ACTAATGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 9 0.53
18 4 0.24
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTAATAATTTTATCAT
Found at i:113837 original size:24 final size:25
Alignment explanation
Indices: 113792--113839 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
113782 TATACTTTTG
*
113792 TACAACACTTTTAAAAATTCATTTC
1 TACAACACTTTTAAAAAGTCATTTC
113817 TACAACACTTTT-AAAAGTCATTT
1 TACAACACTTTTAAAAAGTCATTT
113840 TTCAAAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.40
Consensus pattern (25 bp):
TACAACACTTTTAAAAAGTCATTTC
Found at i:115369 original size:26 final size:28
Alignment explanation
Indices: 115315--115374 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
115305 TGTAATGAAT
*
115315 TTTTAATAATTATATTTTAATTTTGTTA
1 TTTTAATAATTATATTATAATTTTGTTA
115343 TTTTAATAATTAT-TTAATAA-TTT-TTA
1 TTTTAATAATTATATT-ATAATTTTGTTA
115369 TTTTAA
1 TTTTAA
115375 AAGTTAGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 9 0.30
27 5 0.17
28 16 0.53
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTTAATAATTATATTATAATTTTGTTA
Found at i:118209 original size:39 final size:39
Alignment explanation
Indices: 118166--118249 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 39
118156 AACGGTGAAG
*
118166 TAGGGAGTG-AGATGCGA-AGGAGAAATGAAAAAGGGGAAT
1 TAGGGAGTGAAG-GGCGAGAGGA-AAATGAAAAAGGGGAAT
* * **
118205 TAGGGATTGAAGGGCGAGAGGAAAATGAGATTGGGGAAT
1 TAGGGAGTGAAGGGCGAGAGGAAAATGAAAAAGGGGAAT
118244 TAGGGA
1 TAGGGA
118250 TTATGGCAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
39 32 0.84
40 6 0.16
ACGTcount: A:0.39, C:0.02, G:0.43, T:0.15
Consensus pattern (39 bp):
TAGGGAGTGAAGGGCGAGAGGAAAATGAAAAAGGGGAAT
Found at i:123432 original size:39 final size:39
Alignment explanation
Indices: 123389--123472 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 39
123379 AACGGTGAAG
*
123389 TAGGGAGTG-AGATGCGA-AGGAGAAATGAAAAAGGGGAAT
1 TAGGGAGTGAAG-GGCGAGAGGA-AAATGAAAAAGGGGAAT
* * **
123428 TAGGGATTGAAGGGCGAGAGGAAAATGAGATTGGGGAAT
1 TAGGGAGTGAAGGGCGAGAGGAAAATGAAAAAGGGGAAT
123467 TAGGGA
1 TAGGGA
123473 TTATGGCAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
39 32 0.84
40 6 0.16
ACGTcount: A:0.39, C:0.02, G:0.43, T:0.15
Consensus pattern (39 bp):
TAGGGAGTGAAGGGCGAGAGGAAAATGAAAAAGGGGAAT
Found at i:124048 original size:27 final size:27
Alignment explanation
Indices: 124018--124080 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
124008 GTACCTGTAT
124018 ATTTACAGGGCACCTAT-GGTGCAATTG
1 ATTTACAGGGCA-CTATAGGTGCAATTG
** * * *
124045 ATTTATTGGGCACTATATGTTCAATTT
1 ATTTACAGGGCACTATAGGTGCAATTG
124072 ATTTACAGG
1 ATTTACAGG
124081 TGTTCTACTA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (27 bp):
ATTTACAGGGCACTATAGGTGCAATTG
Found at i:127066 original size:20 final size:19
Alignment explanation
Indices: 127012--127066 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
127002 CATTAGGTTG
* *
127012 TGAATTTGAAAATGAGTTA
1 TGAATCTGAAAATGAGCTA
127031 TGAATCTGGAAAATGAGCTA
1 TGAATCT-GAAAATGAGCTA
127051 TGAATCTGAAACATGA
1 TGAATCTGAAA-ATGA
127067 ATCTAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 10 0.31
20 22 0.69
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (19 bp):
TGAATCTGAAAATGAGCTA
Found at i:127068 original size:13 final size:13
Alignment explanation
Indices: 127050--127086 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
127040 AAAATGAGCT
127050 ATGAATCTGAAAC
1 ATGAATCTGAAAC
*
127063 ATGAATCT-AAAT
1 ATGAATCTGAAAC
127075 ATGAATCTGAAA
1 ATGAATCTGAAA
127087 TGTGAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.27
Consensus pattern (13 bp):
ATGAATCTGAAAC
Found at i:127087 original size:13 final size:13
Alignment explanation
Indices: 127049--127092 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
127039 GAAAATGAGC
127049 TATGAATCTGAAA
1 TATGAATCTGAAA
*
127062 CATGAATCT-AAA
1 TATGAATCTGAAA
127074 TATGAATCTGAAA
1 TATGAATCTGAAA
*
127087 TGTGAA
1 TATGAA
127093 ATTATTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (13 bp):
TATGAATCTGAAA
Found at i:133506 original size:13 final size:13
Alignment explanation
Indices: 133462--133506 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
133452 GAAAATGAGC
*
133462 TATGAATCTGAAT
1 TATGAATCTGAAA
*
133475 TATGAATCTGAGA
1 TATGAATCTGAAA
133488 TATGAATCTGAAA
1 TATGAATCTGAAA
*
133501 TGTGAA
1 TATGAA
133507 ATTATTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (13 bp):
TATGAATCTGAAA
Found at i:133506 original size:26 final size:26
Alignment explanation
Indices: 133447--133506 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
133437 TCGGGTTATG
** *
133447 AATATGAAAATGAGCTATGAATCTGA
1 AATATGAATCTGAGATATGAATCTGA
*
133473 ATTATGAATCTGAGATATGAATCTGA
1 AATATGAATCTGAGATATGAATCTGA
*
133499 AATGTGAA
1 AATATGAA
133507 ATTATTAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (26 bp):
AATATGAATCTGAGATATGAATCTGA
Found at i:137082 original size:31 final size:31
Alignment explanation
Indices: 137044--137110 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
137034 ATCGATCATA
* *
137044 ACCCGACCCGACCCGTTTACCCAACCCGTTG
1 ACCCGACCCGACCCGTTAACCCAACCCATTG
* * *
137075 ACCCGACCTGATCCGTTAACCCGACCCATTG
1 ACCCGACCCGACCCGTTAACCCAACCCATTG
137106 ACCCG
1 ACCCG
137111 TTGACCGTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.21, C:0.46, G:0.16, T:0.16
Consensus pattern (31 bp):
ACCCGACCCGACCCGTTAACCCAACCCATTG
Found at i:137376 original size:17 final size:17
Alignment explanation
Indices: 137354--137386 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
137344 TATACTTTCG
137354 ACGTCCTGAATCCGAAC
1 ACGTCCTGAATCCGAAC
*
137371 ACGTCCTGAATTCGAA
1 ACGTCCTGAATCCGAA
137387 TCCGAAGTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (17 bp):
ACGTCCTGAATCCGAAC
Found at i:139637 original size:24 final size:24
Alignment explanation
Indices: 139610--139725 Score: 128
Period size: 24 Copynumber: 4.8 Consensus size: 24
139600 TTCGATTTGA
*
139610 ATTCTGATCTGATACTTGACATAG
1 ATTCTGATCTGATACTTGACATGG
* *
139634 ATTCTGATATGATA-TCTGATATGG
1 ATTCTGATCTGATACT-TGACATGG
*
139658 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
139682 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACATGG
* *
139705 ATTTCTTATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
139726 CTGATTTATG
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
23 3 0.04
24 74 0.95
25 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:141846 original size:13 final size:13
Alignment explanation
Indices: 141813--141875 Score: 63
Period size: 13 Copynumber: 4.5 Consensus size: 13
141803 GTCATAACCA
141813 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
141826 TACTCGACCCGTT
1 GACCCGACCCGTT
141839 GACCCGACCTGACCCGTT
1 GA--C--CC-GACCCGTT
141857 GACCCGACCCGTT
1 GACCCGACCCGTT
141870 GACCCG
1 GACCCG
141876 CCGGGCATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 26 0.63
14 2 0.05
15 1 0.02
16 1 0.02
17 1 0.02
18 10 0.24
ACGTcount: A:0.16, C:0.44, G:0.22, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:141852 original size:18 final size:18
Alignment explanation
Indices: 141831--141865 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
141821 CCGTTTACTC
141831 GACCCGTTGACCCGACCT
1 GACCCGTTGACCCGACCT
141849 GACCCGTTGACCCGACC
1 GACCCGTTGACCCGACC
141866 CGTTGACCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.46, G:0.23, T:0.14
Consensus pattern (18 bp):
GACCCGTTGACCCGACCT
Found at i:141856 original size:31 final size:31
Alignment explanation
Indices: 141813--141875 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
141803 GTCATAACCA
* *
141813 GACCCGACCCGTTTACTCGACCCGTTGACCC
1 GACCCGACCCGTTGACCCGACCCGTTGACCC
*
141844 GACCTGACCCGTTGACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCCGACCCGTTGACCC
141875 G
1 G
141876 CCGGGCATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.16, C:0.44, G:0.22, T:0.17
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGTTGACCC
Found at i:144428 original size:24 final size:24
Alignment explanation
Indices: 144307--144421 Score: 128
Period size: 24 Copynumber: 4.8 Consensus size: 24
144297 TCGATTTGAT
*
144307 TTCTGATCTGATACTTGACATAGA
1 TTCTGATCTGATACTTGACATGGA
*
144331 TTCTGATATGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
144355 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
144379 TTCTGATCT-ATTACTTTACCT-GA
1 TTCTGATCTGA-TACTTGACATGGA
*
144402 TTTCTGATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
144422 CTGATTTATG
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
23 4 0.05
24 72 0.92
25 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:144438 original size:24 final size:24
Alignment explanation
Indices: 144303--144431 Score: 70
Period size: 24 Copynumber: 5.4 Consensus size: 24
144293 ATTTTCGATT
* * *
144303 TGATTTCTGATCTGATACTTGACA
1 TGATTTATGATATGATACTTGACC
* *
144327 TAGA-TTCTGATATGATA-TCTGACA
1 T-GATTTATGATATGATACT-TGACC
* * *
144351 TGGA-TTCTGATCTGATACTTGACT
1 T-GATTTATGATATGATACTTGACC
* * *
144375 TGGA-TTCTGATCT-ATTACTTTACC
1 T-GATTTATGATATGA-TACTTGACC
*
144399 TGATTTCTGATATGATACTTGACC
1 TGATTTATGATATGATACTTGACC
144423 TGATTTATG
1 TGATTTATG
144432 TTTTGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.04
24 82 0.91
25 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.43
Consensus pattern (24 bp):
TGATTTATGATATGATACTTGACC
Found at i:145461 original size:45 final size:45
Alignment explanation
Indices: 145408--145687 Score: 380
Period size: 45 Copynumber: 6.2 Consensus size: 45
145398 TATTCATTAT
* * * *
145408 TTTCATTTATGGTATCCTTTCATGCCTTTAATGTACCATTATGCA
1 TTTCATTTATGGCATCATTTCATGCCTTTAATGCACCGTTATGCA
* * * *
145453 TTTTATTTATGGCATCCTTTCATACCTTTAATGCACCGTTATTCA
1 TTTCATTTATGGCATCATTTCATGCCTTTAATGCACCGTTATGCA
* * * *
145498 TTTCATTTATGGCATCCTTTCATGCCTATAATGCACTGTTATGAA
1 TTTCATTTATGGCATCATTTCATGCCTTTAATGCACCGTTATGCA
*
145543 TTTCATTTATGGTATCATTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCATTTCATGCCTTTAATGCACCGTTATGCA
* * * *
145588 TTTTATTTATGGAATAATTTCATGCCTTTAATGCACTGTTATGCA
1 TTTCATTTATGGCATCATTTCATGCCTTTAATGCACCGTTATGCA
* * *
145633 TTTCATTTATGGCATCATTTCGTGCCTATAATGCACCGCTATGCA
1 TTTCATTTATGGCATCATTTCATGCCTTTAATGCACCGTTATGCA
145678 TTTCATTTAT
1 TTTCATTTAT
145688 TCATCCATTT
Statistics
Matches: 207, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 207 1.00
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (45 bp):
TTTCATTTATGGCATCATTTCATGCCTTTAATGCACCGTTATGCA
Found at i:145659 original size:135 final size:135
Alignment explanation
Indices: 145408--145687 Score: 434
Period size: 135 Copynumber: 2.1 Consensus size: 135
145398 TATTCATTAT
* * * **
145408 TTTCATTTATGGTATCCTTTCATGCCTTTAATGTACCATTATGCATTTTATTTATGGCATCCTTT
1 TTTCATTTATGGTATCATTTCATGCCTTTAATGCACCATTATGCATTTTATTTATGGAATAATTT
* * * *
145473 CATACCTTTAATGCACCGTTATTCATTTCATTTATGGCATCCTTTCATGCCTATAATGCACTGTT
66 CATACCTTTAATGCACCGTTATGCATTTCATTTATGGCATCATTTCATGCCTATAATGCACCGCT
145538 ATGAA
131 ATGAA
*
145543 TTTCATTTATGGTATCATTTCATGCCTTTAATGCACCGTTATGCATTTTATTTATGGAATAATTT
1 TTTCATTTATGGTATCATTTCATGCCTTTAATGCACCATTATGCATTTTATTTATGGAATAATTT
* * *
145608 CATGCCTTTAATGCACTGTTATGCATTTCATTTATGGCATCATTTCGTGCCTATAATGCACCGCT
66 CATACCTTTAATGCACCGTTATGCATTTCATTTATGGCATCATTTCATGCCTATAATGCACCGCT
*
145673 ATGCA
131 ATGAA
145678 TTTCATTTAT
1 TTTCATTTAT
145688 TCATCCATTT
Statistics
Matches: 131, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
135 131 1.00
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (135 bp):
TTTCATTTATGGTATCATTTCATGCCTTTAATGCACCATTATGCATTTTATTTATGGAATAATTT
CATACCTTTAATGCACCGTTATGCATTTCATTTATGGCATCATTTCATGCCTATAATGCACCGCT
ATGAA
Found at i:146599 original size:26 final size:27
Alignment explanation
Indices: 146570--146625 Score: 105
Period size: 26 Copynumber: 2.1 Consensus size: 27
146560 CTAAAGAACA
146570 TCTCAACCCAAGAATCGTACCA-TTTT
1 TCTCAACCCAAGAATCGTACCACTTTT
146596 TCTCAACCCAAGAATCGTACCACTTTT
1 TCTCAACCCAAGAATCGTACCACTTTT
146623 TCT
1 TCT
146626 AACATGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.29, C:0.32, G:0.07, T:0.32
Consensus pattern (27 bp):
TCTCAACCCAAGAATCGTACCACTTTT
Found at i:154369 original size:18 final size:19
Alignment explanation
Indices: 154346--154395 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
154336 GCAAATTTTG
154346 GTATCGATACTCC-CGTGA
1 GTATCGATACTCCACGTGA
154364 GTATCGATAC-CCAATGCGTGA
1 GTATCGATACTCC-A--CGTGA
154385 GTATCGATACT
1 GTATCGATACT
154396 GCGGGCCCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.07
18 10 0.37
21 15 0.56
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (19 bp):
GTATCGATACTCCACGTGA
Found at i:162496 original size:6 final size:6
Alignment explanation
Indices: 162485--162515 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
162475 ACAAAAGAAA
162485 CTCAAG CTCAAG CTCAAG CTCAAG CTCAAG C
1 CTCAAG CTCAAG CTCAAG CTCAAG CTCAAG C
162516 ATGTTCAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.35, G:0.16, T:0.16
Consensus pattern (6 bp):
CTCAAG
Found at i:165553 original size:16 final size:15
Alignment explanation
Indices: 165532--165561 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
165522 TATACAGAGA
*
165532 TTTTTTCGCAGGGAT
1 TTTTTTTGCAGGGAT
165547 TTTTTTTGCAGGGAT
1 TTTTTTTGCAGGGAT
165562 ATCTACCCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.27, T:0.50
Consensus pattern (15 bp):
TTTTTTTGCAGGGAT
Found at i:171895 original size:21 final size:20
Alignment explanation
Indices: 171828--171896 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 20
171818 TTTAAATGTT
171828 ATAATAA-AATATTAATTATG
1 ATAATAATAA-ATTAATTATG
*
171848 ATAAT--TAAATTAATAAAT-
1 ATAATAATAAATTAAT-TATG
*
171866 ATATTTAATAAATTAATTATG
1 ATA-ATAATAAATTAATTATG
171887 ATAACTAATA
1 ATAA-TAATA
171897 TACTTTATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
18 9 0.24
19 5 0.13
20 7 0.18
21 17 0.45
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (20 bp):
ATAATAATAAATTAATTATG
Found at i:171927 original size:14 final size:14
Alignment explanation
Indices: 171910--172030 Score: 74
Period size: 14 Copynumber: 8.4 Consensus size: 14
171900 TTTATAATTC
171910 ATACTTATATTTAT
1 ATACTTATATTTAT
171924 ATACTTTAATATTT-T
1 ATAC-TT-ATATTTAT
* *
171939 ATATTTAATACTTAT
1 ATACTT-ATATTTAT
171954 AT--TATATAGTTTA-
1 ATACT-TATA-TTTAT
171967 ATACTT-TATATTAT
1 ATACTTATAT-TTAT
* *
171981 ATACTTTTGTACTTAT
1 ATAC--TTATATTTAT
*
171997 ATACTTTATATTGA-
1 ATAC-TTATATTTAT
172011 ATACTTATATTTAT
1 ATACTTATATTTAT
172025 ATACTT
1 ATACTT
172031 TAATACTTAT
Statistics
Matches: 86, Mismatches: 8, Indels: 26
0.72 0.07 0.22
Matches are distributed among these distances:
12 1 0.01
13 19 0.22
14 31 0.36
15 17 0.20
16 16 0.19
17 2 0.02
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.55
Consensus pattern (14 bp):
ATACTTATATTTAT
Found at i:171967 original size:35 final size:35
Alignment explanation
Indices: 171896--172043 Score: 159
Period size: 35 Copynumber: 4.3 Consensus size: 35
171886 GATAACTAAT
*
171896 ATACTTTATAATTCATACTTATATTTATATACTTTA
1 ATACTTTAT-ATTAATACTTATATTTATATACTTTA
* *
171932 ATATTTTATATTTAATACTTATA-TTATATAGTTTA
1 ATACTTTATA-TTAATACTTATATTTATATACTTTA
* *
171967 ATACTTTATATT-ATA--TA-CTTT-TGTAC-TTA
1 ATACTTTATATTAATACTTATATTTATATACTTTA
171996 TATACTTTATATTGAATACTTATATTTATATACTTTA
1 -ATACTTTATATT-AATACTTATATTTATATACTTTA
172033 ATAC-TTATATT
1 ATACTTTATATT
172044 CAAACACTTT
Statistics
Matches: 93, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
29 3 0.03
30 15 0.16
31 4 0.04
32 3 0.03
33 3 0.03
34 4 0.04
35 31 0.33
36 27 0.29
37 3 0.03
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.55
Consensus pattern (35 bp):
ATACTTTATATTAATACTTATATTTATATACTTTA
Found at i:171978 original size:22 final size:21
Alignment explanation
Indices: 171915--172086 Score: 154
Period size: 22 Copynumber: 7.9 Consensus size: 21
171905 AATTCATACT
*
171915 TATATTTATATACTTTAATATTT
1 TATATTTA-ATACTTT-ATATTA
171938 TATATTTAATAC-TTATATTA
1 TATATTTAATACTTTATATTA
171958 TATAGTTTAATACTTTATATTA
1 TATA-TTTAATACTTTATATTA
**
171980 TATACTTTTGTACTTATATACTT-
1 TATA-TTTAATACTT-TATA-TTA
*
172003 TATATTGAATAC-TTATATTTA
1 TATATTTAATACTTTATA-TTA
172024 TATACTTTAATAC-TTATATTCA
1 TATA-TTTAATACTTTATATT-A
* * *
172046 AACACTTTATTACTTTATATTA
1 TATA-TTTAATACTTTATATTA
*
172068 TATATTTTATACTTTATAT
1 TATATTTAATACTTTATAT
172087 ATAAAGTACC
Statistics
Matches: 125, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
20 15 0.12
21 30 0.24
22 55 0.44
23 23 0.18
24 2 0.02
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.55
Consensus pattern (21 bp):
TATATTTAATACTTTATATTA
Found at i:172005 original size:65 final size:63
Alignment explanation
Indices: 171919--172089 Score: 188
Period size: 65 Copynumber: 2.6 Consensus size: 63
171909 CATACTTATA
* * *
171919 TTTATATACTTTAATATTTTATATTTAATACTTATATTATATAGTTTAATACTTTATATT-ATAT
1 TTTAT-TACTTT-ATA-TTTATATTTAATACTTATATTATATACTTTAATAC-TTATATTCAAAC
171983 AC
62 AC
*
171985 TTT-TGTACTTATATACTTTATATTGAATACTTATATTTATATACTTTAATACTTATATTCAAAC
1 TTTAT-TACTT-TATA-TTTATATTTAATACTTATA-TTATATACTTTAATACTTATATTCAAAC
172049 AC
62 AC
*
172051 TTTATTACTTTATATTATATATTTTATACTT-TA-TATATA
1 TTTATTACTTTATATT-TATATTTAATACTTATATTATATA
172090 AAGTACCAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
62 6 0.07
64 4 0.04
65 50 0.54
66 31 0.34
67 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.55
Consensus pattern (63 bp):
TTTATTACTTTATATTTATATTTAATACTTATATTATATACTTTAATACTTATATTCAAACAC
Found at i:172186 original size:17 final size:17
Alignment explanation
Indices: 172138--172187 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
172128 AATTGAATAA
172138 ATTAAACAACACTTTAT
1 ATTAAACAACACTTTAT
** * *
172155 A-TACTCTATACTTTAT
1 ATTAAACAACACTTTAT
172171 ATTAAACAACACTTTAT
1 ATTAAACAACACTTTAT
172188 TAATTTATAT
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTAAACAACACTTTAT
Found at i:176626 original size:63 final size:63
Alignment explanation
Indices: 176553--176703 Score: 284
Period size: 63 Copynumber: 2.4 Consensus size: 63
176543 AACTACTCCT
176553 TCGTGTGGTTTTCACCTCCGTATGGGATAATGGACTATTATTTGAGCTCACACCTTATGTTCC
1 TCGTGTGGTTTTCACCTCCGTATGGGATAATGGACTATTATTTGAGCTCACACCTTATGTTCC
*
176616 TCGTGTGGTTTTCACCTCCGTATGGGATAATGGACTATTATTTGTGCTCACACCTTATGTTCC
1 TCGTGTGGTTTTCACCTCCGTATGGGATAATGGACTATTATTTGAGCTCACACCTTATGTTCC
*
176679 TCGTATGGTTTTCACCTCCGTATGG
1 TCGTGTGGTTTTCACCTCCGTATGG
176704 ACATAAGGAG
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 86 1.00
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (63 bp):
TCGTGTGGTTTTCACCTCCGTATGGGATAATGGACTATTATTTGAGCTCACACCTTATGTTCC
Found at i:188374 original size:62 final size:67
Alignment explanation
Indices: 188305--188460 Score: 189
Period size: 66 Copynumber: 2.4 Consensus size: 67
188295 GGATTAACCC
* * * * * *
188305 TTGACTTCCTTGTGAAAAGAAGTTAACCA-TTATTA-TT-C-A-TGACTCCCCAGCAGAGTCGAT
1 TTGACTTCCTCGTGAAGAGAAGTCAACCATTTATTATTTCCGACTCACTCCCCAACAGAGTCAAT
188365 CT
66 CT
* * *
188367 TTGACTTCCTCGTGAAGAGAAATCAA-CATTTTTTATTTCCGACTCTCTCCCCAACAGAGTCAAT
1 TTGACTTCCTCGTGAAGAGAAGTCAACCATTTATTATTTCCGACTCACTCCCCAACAGAGTCAAT
188431 CT
66 CT
188433 TTGACTTCCTCGTGAAGAGAAGTCAACC
1 TTGACTTCCTCGTGAAGAGAAGTCAACC
188461 CATCTTTTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
61 2 0.03
62 27 0.35
63 2 0.03
64 1 0.01
65 1 0.01
66 44 0.56
67 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (67 bp):
TTGACTTCCTCGTGAAGAGAAGTCAACCATTTATTATTTCCGACTCACTCCCCAACAGAGTCAAT
CT
Found at i:188512 original size:63 final size:63
Alignment explanation
Indices: 188424--188584 Score: 306
Period size: 63 Copynumber: 2.6 Consensus size: 63
188414 TCCCCAACAG
188424 AGTCAA-TCTTTGACTTCCTCGTGAAGAGAAGTCAACCCATCTTTTTTTTTGACTCCCTAGTAT
1 AGTCAATTC-TTGACTTCCTCGTGAAGAGAAGTCAACCCATCTTTTTTTTTGACTCCCTAGTAT
188487 AGTCAATTCTTGACTTCCTCGTGAAGAGAAGTCAACCCATCTTTTTTTTTGACTCCCTAGTAT
1 AGTCAATTCTTGACTTCCTCGTGAAGAGAAGTCAACCCATCTTTTTTTTTGACTCCCTAGTAT
188550 AGTCAATTCTTGACTTCCTCGTGAAGAGAAGTCAA
1 AGTCAATTCTTGACTTCCTCGTGAAGAGAAGTCAA
188585 TATTCCAGAT
Statistics
Matches: 97, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
63 95 0.98
64 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (63 bp):
AGTCAATTCTTGACTTCCTCGTGAAGAGAAGTCAACCCATCTTTTTTTTTGACTCCCTAGTAT
Found at i:189018 original size:14 final size:15
Alignment explanation
Indices: 188994--189025 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
188984 CGAGTTTACG
188994 TATATATAATAATAT
1 TATATATAATAATAT
189009 TATA-ATAATAATAT
1 TATATATAATAATAT
189023 TAT
1 TAT
189026 TATTATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATATATAATAATAT
Found at i:190109 original size:21 final size:20
Alignment explanation
Indices: 190067--190105 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
190057 ATTTCATGAT
* *
190067 ATTTTGATTTTTTACCATTA
1 ATTTTGATATTTTACAATTA
*
190087 ATTTTGATATTTTATAATT
1 ATTTTGATATTTTACAATT
190106 TAATCCCTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (20 bp):
ATTTTGATATTTTACAATTA
Found at i:196097 original size:62 final size:65
Alignment explanation
Indices: 196020--196149 Score: 212
Period size: 62 Copynumber: 2.0 Consensus size: 65
196010 TATCTCTCTC
* *
196020 ATTAGTTCATTCAACTTTGAATTAAACTTAATTA-TTTTTTTA-TTTTTCAAATCTC-TTCTTCA
1 ATTAATTCATCCAACTTTGAATTAAACTTAATTATTTTTTTTATTTTTTCAAATCTCATTCTTCA
*
196082 ATTAATTCATCCAACTTTGAATTAAACTTAATTATTTTTTTTATTTTTTTAAATCTCATTCTTCA
1 ATTAATTCATCCAACTTTGAATTAAACTTAATTATTTTTTTTATTTTTTCAAATCTCATTCTTCA
196147 ATT
1 ATT
196150 TATTAGATAT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
62 32 0.52
63 8 0.13
64 12 0.19
65 10 0.16
ACGTcount: A:0.30, C:0.14, G:0.02, T:0.54
Consensus pattern (65 bp):
ATTAATTCATCCAACTTTGAATTAAACTTAATTATTTTTTTTATTTTTTCAAATCTCATTCTTCA
Found at i:204200 original size:40 final size:40
Alignment explanation
Indices: 204140--204328 Score: 274
Period size: 40 Copynumber: 4.8 Consensus size: 40
204130 GCCGTAGTGC
*
204140 TACACATAAGGTCGTACCCACCATATACACTGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
204180 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
* *
204220 TACACATAAAGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
* * ** *
204260 CACACATAAGGTCGTTCCCACCATATACACCAAAATGTA-
1 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
* *
204299 T-CACATAAGGTCGTGTCCATCATATACACT
1 TACACATAAGGTCGTGCCCACCATATACACT
204329 TAGTGTCCTT
Statistics
Matches: 136, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 25 0.18
40 111 0.82
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
Found at i:207223 original size:34 final size:30
Alignment explanation
Indices: 207185--207253 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
207175 TTGATATAAC
207185 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
207219 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
207248 AATTTA
1 AATTTA
207254 TTTAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:207264 original size:29 final size:30
Alignment explanation
Indices: 207194--207253 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
207184 CAATTTAAGG
207194 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
207225 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
207254 TTTAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:207359 original size:21 final size:20
Alignment explanation
Indices: 207333--207452 Score: 143
Period size: 21 Copynumber: 5.8 Consensus size: 20
207323 AGGGTGTCAA
*
207333 AGTGCATCAATGCACCCCTGC
1 AGTGCATCCATGCA-CCCTGC
207354 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCA-CCCTGC
207375 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCA-CCCTGC
*
207396 AGTGCATCAATGCA-CCTGCAC
1 AGTGCATCCATGCACCCTG--C
* *
207417 TAGTGCATCGATGCACCATGC
1 -AGTGCATCCATGCACCCTGC
207438 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
207453 TCAAACACCG
Statistics
Matches: 89, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
19 4 0.04
20 14 0.16
21 55 0.62
22 13 0.15
23 3 0.03
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.22
Consensus pattern (20 bp):
AGTGCATCCATGCACCCTGC
Found at i:207424 original size:22 final size:23
Alignment explanation
Indices: 207396--207438 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
207386 GCATCCCTGC
207396 AGTGCATCAATGCACC-TGCACT
1 AGTGCATCAATGCACCATGCACT
*
207418 AGTGCATCGATGCACCATGCA
1 AGTGCATCAATGCACCATGCA
207439 GTGCATCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (23 bp):
AGTGCATCAATGCACCATGCACT
Found at i:207439 original size:63 final size:62
Alignment explanation
Indices: 207333--207451 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 62
207323 AGGGTGTCAA
*
207333 AGTGCATCAATGCACCCCTGCAGTGCATCCATGCATCCCTGCAGTGCATCCATGCATCCCTGC
1 AGTGCATCAATGCACCCCT-CAGTGCATCCATGCATCCATGCAGTGCATCCATGCATCCCTGC
*
207396 AGTGCATCAATGCACCTGCACT-AGTGCATCGATGCA-CCATGCAGTGCATCCATGCA
1 AGTGCATCAATGCACC--C-CTCAGTGCATCCATGCATCCATGCAGTGCATCCATGCA
207452 CTCAAACACC
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
63 35 0.69
64 13 0.25
65 1 0.02
66 2 0.04
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (62 bp):
AGTGCATCAATGCACCCCTCAGTGCATCCATGCATCCATGCAGTGCATCCATGCATCCCTGC
Found at i:208228 original size:29 final size:30
Alignment explanation
Indices: 208158--208217 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
208148 CAATTTAAGG
208158 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
208189 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
208218 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:208323 original size:21 final size:21
Alignment explanation
Indices: 208297--208395 Score: 85
Period size: 21 Copynumber: 4.7 Consensus size: 21
208287 AGGGTGTCAA
*
208297 AGTGCATCAATGCACCCCTAT
1 AGTGCATCCATGCACCCCTAT
* **
208318 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCACCCCTAT
*
208339 AGTGCATCCATGCACCTGC-ACT
1 AGTGCATCCATGCACC-CCTA-T
* * **
208361 AGTGCATCGATGCA-CCATGC
1 AGTGCATCCATGCACCCCTAT
208381 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
208396 TCAAACACCG
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
20 13 0.22
21 33 0.55
22 14 0.23
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.22
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTAT
Found at i:209021 original size:943 final size:950
Alignment explanation
Indices: 207160--209053 Score: 3253
Period size: 943 Copynumber: 2.0 Consensus size: 950
207150 CAAGTTGTCT
* *
207160 TTGTTGAACTATGTTTTGATATAACAATTTAAGGCAAAATGGTTTTTGGACTTGAATTGAATTTA
1 TTGTTCAACTATGTTTTAATATAACAATTTAAGGCAAAATGGTTTTTGGACTTGAATTGAATTTA
*
207225 CAAAATGTTTTTGGACTTAATTGAATTTATTTAAAGTTTTAAAAGGTTTCAAAAATAATTCAAAG
66 CAAAATGTTTTTGGACTTAATTGAATTTATTCAAAGTTTTAAAAGGTTTCAAAAATAATTCAAAG
* *
207290 TCCATTAAATTCGGATTTGAGCCAAAATGCTAAAGGGTGTCAAAGTGCATCAATGCACCCCTGCA
131 TCCATTAAATTCGGATATGAGCCAAAATGATAAAGGGTGTCAAAGTGCATCAATGCA---C--C-
207355 GTGCATCCATGCATCCCTGCAGTGCATCCATGCATCCCTGCAGTGCATCAATGCACCTGCACTAG
190 --GCA-CCAT-CA---CT-CAGTGCATCCATGCATCCCTGCAGTGCATCAATGCACCTGCACTAG
*
207420 TGCATCGATGCACCATGCAGTGCATCCATGCACTCAAACACCGAATGCAATTAGTGCATCGATGC
247 TGCATCGATGCACCATGCAGTGCATCCATGCACTCAAACACCGAATGCAATTAGTGCATCGATCC
* ** * *
207485 ATCAAGGTTGTGCATCGATGCATCCTGTTGTGTATCCATGCACGAAGGCTGCAACAACTAGTAAC
312 ATCAAGGTTGTGCATCGATGCATCATACTGTGCATCCATGAACGAAGGCTGCAACAACTAGTAAC
*
207550 GACTAGTTTATTTGAATTTAATGAAGGGGTATCGATGCACCATGATAGTGCACCGATGCACCATG
377 GACTAATTTATTTGAATTTAATGAAGGGGTATCGATGCACCATGATAGTGCACCGATGCACCATG
*
207615 TTATGGGCAGACTTTTTGAGTAGAAAATTCATCCCCAAACGGCTCCAAAACATCCCCAACGGTTA
442 TTATGGGCAGACTTTTTGAGTAGAAAAATCATCCCCAAACGGCTCCAAAACATCCCCAACGGTTA
* * *
207680 TATACTACATCAAACAAATTTCAAGCTATAAATACAAGCTAAGGACACTTGAAGAAGTAAGAGAA
507 TATACGACATCAAACAAATTCCAAGCTATAAATACAAGATAAGGACACTTGAAGAAGTAAGAGAA
* *
207745 CAACCATCCAAGCAATCAAACATAAGAGAAGAGTTTTTCATTCTTATTTCATCTTTCTCTTGGAA
572 CAACCATCCAAGCAATCAAACACAAGAGAAGAGTTTTTCATTCTTATTTCATCTTCCTCTTGGAA
207810 ATATTTTGTTCTTGTGAGCTTAATTCTTGTAAACACCTACCTTAGAGAGGTTTTCTTGTTTACAT
637 ATATTTTGTTCTTGTGAGCTTAATTCTTGTAAACACCTACCTTAGAGAGGTTTTCTTGTTTACAT
* * *
207875 TTCTTATCCTTTTGTAAAGGGGAAAGGTTCTAGCTAATCCTATGTAAAAGCTAGGGAAATGTTCT
702 TTCTTATCCTTTTGTAAAGGGGAAAGGTTCTAGCTAATCCCATGTAAAAGCTAGAGAAAGGTTCT
207940 AGTTTAGCCCGGAAAAACTAGGGAGTTTGTAAGGTTACTCTTTATCCTCAAAAGAAAGAACAAAT
767 AGTTTAGCCCGGAAAAACTAGGGAGTTTGTAAGGTTACTCTTTATCCTCAAAAGAAAGAACAAAT
* *
208005 TAGTGAATTTGTTGGAAAATCCTTGGTGAGGAGCTAAGGTAGTGGACGTAGACTTTGGTTGAGAA
832 TAGTGAATTTGTTGGAAAATCCTTGGTGAAGAGCTAAGGTAATGGACGTAGACTTTGGTTGAGAA
*
208070 AGTCGAACCACTATAAATCATTTTGCAATTCTCTATCTTTCGAACCACTATAAA
897 AGTCGAACCACTATAAATCATTGTGCAATTCTCTATCTTTCGAACCACTATAAA
*
208124 TTGTTCAATTATGTTTTAATATAACAATTTAAGGCAAAATGGTTTTTGGACTTGAATTGAATTTA
1 TTGTTCAACTATGTTTTAATATAACAATTTAAGGCAAAATGGTTTTTGGACTTGAATTGAATTTA
208189 CAAAATGTTTTTGGACTTAATTGAATTTATTCAAAGTTTTAAAAGGTTTCAAAAATAATTCAAAG
66 CAAAATGTTTTTGGACTTAATTGAATTTATTCAAAGTTTTAAAAGGTTTCAAAAATAATTCAAAG
208254 TCCATTAAATTCGGATATGAGCCAAAATGATAAAGGGTGTCAAAGTGCATCAATGCA-C-C-CC-
131 TCCATTAAATTCGGATATGAGCCAAAATGATAAAGGGTGTCAAAGTGCATCAATGCACCGCACCA
*
208315 T-A-T-AGTGCATCCATGCATCCCTGCAGTGCATCCATGCACCTGCACTAGTGCATCGATGCACC
196 TCACTCAGTGCATCCATGCATCCCTGCAGTGCATCAATGCACCTGCACTAGTGCATCGATGCACC
208377 ATGCAGTGCATCCATGCACTCAAACACCGAATGCAATTAGTGCATCGATCCATCAAGGTTGTGCA
261 ATGCAGTGCATCCATGCACTCAAACACCGAATGCAATTAGTGCATCGATCCATCAAGGTTGTGCA
** *
208442 TCGATGCATCATACTGTGCATCCATGAACGAAGGCTGCAACGGCTAGTAACGGCTAATTTATTTG
326 TCGATGCATCATACTGTGCATCCATGAACGAAGGCTGCAACAACTAGTAACGACTAATTTATTTG
* *
208507 GATTTAATGAAGGGGTATCGATGCACCATGATAGTGCACCGATGCACCATGTTATGGGCATACTT
391 AATTTAATGAAGGGGTATCGATGCACCATGATAGTGCACCGATGCACCATGTTATGGGCAGACTT
*
208572 TTTGAGTAGAAAAATCATCCCCAAACGGCTCCAAAACATCCCCAATGGTTATATACGACATCAAA
456 TTTGAGTAGAAAAATCATCCCCAAACGGCTCCAAAACATCCCCAACGGTTATATACGACATCAAA
*
208637 CAAATTCCAAGCTATAAATACAAGATAAGGACACTTGAAGAAGTAAGAGAACAACTATCCAAGCA
521 CAAATTCCAAGCTATAAATACAAGATAAGGACACTTGAAGAAGTAAGAGAACAACCATCCAAGCA
*
208702 ATCAAACACAAGAGAAGAGTTTTTCATTCTTATTTCATCTTCCTCTTGTAAATATTTTGTTCTTG
586 ATCAAACACAAGAGAAGAGTTTTTCATTCTTATTTCATCTTCCTCTTGGAAATATTTTGTTCTTG
208767 TGAGCTTAATTCTTGTAAACACCTACCTTAGAGAGGTTTTCTTGTTTACATTTCTTATCCTTTTG
651 TGAGCTTAATTCTTGTAAACACCTACCTTAGAGAGGTTTTCTTGTTTACATTTCTTATCCTTTTG
* *
208832 TAAAGGGGAAAGGTTCTAGCTAATCCCGTGTAAAAGCTAGATAAAGGTTCTAGTTTAGCCCGGAA
716 TAAAGGGGAAAGGTTCTAGCTAATCCCATGTAAAAGCTAGAGAAAGGTTCTAGTTTAGCCCGGAA
*
208897 AAACTAGGGAGTTTGTAAGGTTACTCTTTATCCTCAAAAGAAAGAATAAATTAGTGAATTTGTTG
781 AAACTAGGGAGTTTGTAAGGTTACTCTTTATCCTCAAAAGAAAGAACAAATTAGTGAATTTGTTG
*
208962 GAAAATCCTTGGTGAAGAGCTAAGGTAATGGACGTAGACTTTGGTTGAGAAATTCGAACCACTAT
846 GAAAATCCTTGGTGAAGAGCTAAGGTAATGGACGTAGACTTTGGTTGAGAAAGTCGAACCACTAT
* *
209027 AAATCGTTGTGCAGTTCTCTATCTTTC
911 AAATCATTGTGCAATTCTCTATCTTTC
209054 AATCTCTTTA
Statistics
Matches: 890, Mismatches: 40, Indels: 21
0.94 0.04 0.02
Matches are distributed among these distances:
943 702 0.79
945 1 0.00
949 1 0.00
951 1 0.00
952 2 0.00
954 1 0.00
958 1 0.00
964 181 0.20
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (950 bp):
TTGTTCAACTATGTTTTAATATAACAATTTAAGGCAAAATGGTTTTTGGACTTGAATTGAATTTA
CAAAATGTTTTTGGACTTAATTGAATTTATTCAAAGTTTTAAAAGGTTTCAAAAATAATTCAAAG
TCCATTAAATTCGGATATGAGCCAAAATGATAAAGGGTGTCAAAGTGCATCAATGCACCGCACCA
TCACTCAGTGCATCCATGCATCCCTGCAGTGCATCAATGCACCTGCACTAGTGCATCGATGCACC
ATGCAGTGCATCCATGCACTCAAACACCGAATGCAATTAGTGCATCGATCCATCAAGGTTGTGCA
TCGATGCATCATACTGTGCATCCATGAACGAAGGCTGCAACAACTAGTAACGACTAATTTATTTG
AATTTAATGAAGGGGTATCGATGCACCATGATAGTGCACCGATGCACCATGTTATGGGCAGACTT
TTTGAGTAGAAAAATCATCCCCAAACGGCTCCAAAACATCCCCAACGGTTATATACGACATCAAA
CAAATTCCAAGCTATAAATACAAGATAAGGACACTTGAAGAAGTAAGAGAACAACCATCCAAGCA
ATCAAACACAAGAGAAGAGTTTTTCATTCTTATTTCATCTTCCTCTTGGAAATATTTTGTTCTTG
TGAGCTTAATTCTTGTAAACACCTACCTTAGAGAGGTTTTCTTGTTTACATTTCTTATCCTTTTG
TAAAGGGGAAAGGTTCTAGCTAATCCCATGTAAAAGCTAGAGAAAGGTTCTAGTTTAGCCCGGAA
AAACTAGGGAGTTTGTAAGGTTACTCTTTATCCTCAAAAGAAAGAACAAATTAGTGAATTTGTTG
GAAAATCCTTGGTGAAGAGCTAAGGTAATGGACGTAGACTTTGGTTGAGAAAGTCGAACCACTAT
AAATCATTGTGCAATTCTCTATCTTTCGAACCACTATAAA
Found at i:209800 original size:20 final size:19
Alignment explanation
Indices: 209759--209805 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
209749 AACTATTTTC
*
209759 TTTTGAAAACAAAAATATA
1 TTTTGAAAACAAAAATAAA
* *
209778 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAAT-AAA
209798 TTTT-AAAA
1 TTTTGAAAA
209806 AAAGATTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (19 bp):
TTTTGAAAACAAAAATAAA
Found at i:211110 original size:34 final size:30
Alignment explanation
Indices: 211072--211140 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
211062 TTGATATAAC
*
211072 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTGTTTGGACTT-AATTG
211106 AATTT-ACAAAATGTGTTTGGACTTAATTG
1 AATTTAACAAAATGTGTTTGGACTTAATTG
211135 AATTTA
1 AATTTA
211141 TTCAAAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 10 0.30
30 11 0.33
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (30 bp):
AATTTAACAAAATGTGTTTGGACTTAATTG
Found at i:211138 original size:29 final size:31
Alignment explanation
Indices: 211081--211140 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
211071 CAATTTAAGG
*
211081 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTGTTTGGACTTGAATTGAATTTA
211112 CAAAAT-GTGTTTGGACTT-AATTGAATTTA
1 CAAAATGGTGTTTGGACTTGAATTGAATTTA
211141 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (31 bp):
CAAAATGGTGTTTGGACTTGAATTGAATTTA
Found at i:211246 original size:21 final size:21
Alignment explanation
Indices: 211220--211339 Score: 156
Period size: 21 Copynumber: 5.7 Consensus size: 21
211210 AGGGTGTCAA
211220 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
211241 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
* *
211262 AGTGCATCCATGCATCCCTGT
1 AGTGCATCCATGCACCCCTGC
211283 AGTGCATCCATGCA--CCTGAAC
1 AGTGCATCCATGCACCCCTG--C
* *
211304 TAGTGCATCGATGCA-CCATGC
1 -AGTGCATCCATGCACCCCTGC
211325 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
211340 TCAAACACCG
Statistics
Matches: 88, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
19 4 0.05
20 13 0.15
21 55 0.62
22 13 0.15
23 3 0.03
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.22
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:212723 original size:27 final size:27
Alignment explanation
Indices: 212693--212748 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
212683 AACATCAAAA
212693 TAAACATTCTAACATTCAATTCCAACT
1 TAAACATTCTAACATTCAATTCCAACT
212720 TAAACATTCTAACATTCAATTCCAACT
1 TAAACATTCTAACATTCAATTCCAACT
212747 TA
1 TA
212749 GTACATCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (27 bp):
TAAACATTCTAACATTCAATTCCAACT
Found at i:214547 original size:4 final size:4
Alignment explanation
Indices: 214534--214596 Score: 51
Period size: 4 Copynumber: 16.0 Consensus size: 4
214524 GTTAAATAAG
* * *
214534 AAAT -AAT AAAT AAAT -ATT AAAT AAAT CAA- AAAT AAAAT AAAAT AAAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT -AAAT AAAT
*
214581 AAAT AAAA AAAT AAAT
1 AAAT AAAT AAAT AAAT
214597 CAAAGGAAGA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
3 7 0.15
4 31 0.66
5 9 0.19
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:214573 original size:16 final size:15
Alignment explanation
Indices: 214526--214595 Score: 56
Period size: 16 Copynumber: 4.5 Consensus size: 15
214516 TCGACAATGT
214526 TAAATAAGAAAT--AA
1 TAAATAA-AAATAAAA
* *
214540 TAAATAAATATTAAA
1 TAAATAAAAATAAAA
214555 TAAATCAAAAATAAAA
1 TAAAT-AAAAATAAAA
214571 TAAAATAAAAAAATAAAA
1 T-AAAT--AAAAATAAAA
214589 -AAATAAA
1 TAAATAAA
214596 TCAAAGGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
13 3 0.06
14 10 0.21
15 7 0.15
16 13 0.28
17 4 0.09
18 10 0.21
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (15 bp):
TAAATAAAAATAAAA
Found at i:214578 original size:21 final size:21
Alignment explanation
Indices: 214541--214600 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
214531 AAGAAATAAT
*
214541 AAATAAATATTAAATAAATCAA
1 AAATAAA-ATAAAATAAATCAA
214563 AAATAAAATAAAAT-AA--AA
1 AAATAAAATAAAATAAATCAA
214581 AAAT-AAA-AAAATAAATCAA
1 AAATAAAATAAAATAAATCAA
214600 A
1 A
214601 GGAAGAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
16 5 0.15
17 5 0.15
18 6 0.18
19 3 0.09
20 2 0.06
21 6 0.18
22 7 0.21
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (21 bp):
AAATAAAATAAAATAAATCAA
Found at i:214735 original size:4 final size:4
Alignment explanation
Indices: 214705--214755 Score: 61
Period size: 4 Copynumber: 12.8 Consensus size: 4
214695 AAATAAGAAG
*
214705 TAAA -AAA T-AA TAAAA TAAAA CAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA T-AAA T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
214753 TAA
1 TAA
214756 CATACTAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
3 6 0.14
4 29 0.69
5 7 0.17
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:214750 original size:37 final size:36
Alignment explanation
Indices: 214541--214800 Score: 115
Period size: 37 Copynumber: 7.1 Consensus size: 36
214531 AAGAAATAAT
*
214541 AAATAAAT-ATTAAATAAATCAAA-AATAAAATAAAA
1 AAATAAATAAATAAATAAAT-AAATAATAAAATAAAA
* * * *
214576 TAAAAAAATAAAAAAATAAATCAAAGGAAGAAAA-AGAAA
1 -AAATAAATAAATAAATAAAT-AAA-TAATAAAATA-AAA
* *
214615 AAAT-ATTAAATAAATCAAAGGGGAAA-AATAAAATAAAA
1 AAATAAATAAATAAAT-AAA---TAAATAATAAAATAAAA
* ** ** *
214653 AATAAAAATAAA-AAAT-GTTAAATTTTAAAAGTAACA
1 AA-ATAAATAAATAAATAAATAAATAATAAAA-TAAAA
* * *
214689 AAATAAAAATAAGAAGTAAA-AAATAATAAAATAAAA
1 AAATAAATA-AATAAATAAATAAATAATAAAATAAAA
* **
214725 CAAATAAATAAATAAATAAATAAATAAATAACATACTA
1 -AAATAAATAAATAAATAAATAAAT-AATAAAATAAAA
* * * *
214763 AAATTAA-AAAGAAAAAAATGAATAACTAAAATAAAA
1 AAATAAATAAATAAATAAATAAATAA-TAAAATAAAA
214799 AA
1 AA
214801 TGCTAAAATT
Statistics
Matches: 166, Mismatches: 38, Indels: 40
0.68 0.16 0.16
Matches are distributed among these distances:
34 3 0.02
35 12 0.07
36 49 0.30
37 52 0.31
38 27 0.16
39 15 0.09
40 8 0.05
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.19
Consensus pattern (36 bp):
AAATAAATAAATAAATAAATAAATAATAAAATAAAA
Found at i:214823 original size:44 final size:44
Alignment explanation
Indices: 214644--214837 Score: 146
Period size: 44 Copynumber: 4.4 Consensus size: 44
214634 GGGGAAAAAT
* ** * * * *
214644 AAAAT-AAAAAATAAAAATAAAAAATGTTAAATTTTAAAAGTAAC
1 AAAATGAATAAAT-AAAATAAAAAATACTAAAATTAAAAAGGAAA
* * **
214688 AAAAT-AA-AAATAAGAAGTAAAAAATAATAAAATAAAACAAATAAA
1 AAAATGAATAAATAA-AA-TAAAAAATACTAAAATTAAA-AAGGAAA
* *
214733 TAAATAAATAAAT-AAATAAATAACATACTAAAATTAAAAA-GAAA
1 AAAATGAATAAATAAAATAAA-AA-ATACTAAAATTAAAAAGGAAA
* *
214777 AAAATGAATAACTAAAATAAAAAATGCTAAAATTAAAAAGGAAA
1 AAAATGAATAAATAAAATAAAAAATACTAAAATTAAAAAGGAAA
* *
214821 AAATTGAATAACTAAAA
1 AAAATGAATAAATAAAA
214838 ATTTAAAGGA
Statistics
Matches: 125, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
42 2 0.02
43 21 0.17
44 61 0.49
45 22 0.18
46 15 0.12
47 4 0.03
ACGTcount: A:0.71, C:0.04, G:0.05, T:0.21
Consensus pattern (44 bp):
AAAATGAATAAATAAAATAAAAAATACTAAAATTAAAAAGGAAA
Found at i:214837 original size:22 final size:20
Alignment explanation
Indices: 214769--214837 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 20
214759 ACTAAAATTA
214769 AAAAGAAAAAAATGAATAACT
1 AAAAG-AAAAAATGAATAACT
* *
214790 AAAATAAAAAATGCTAA-AATT
1 AAAAGAAAAAATG--AATAACT
214811 AAAAAGGAAAAAATTGAATAACT
1 -AAAA-GAAAAAA-TGAATAACT
214834 AAAA
1 AAAA
214838 ATTTAAAGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
20 8 0.21
21 7 0.18
22 12 0.32
23 9 0.24
24 2 0.05
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.17
Consensus pattern (20 bp):
AAAAGAAAAAATGAATAACT
Found at i:216124 original size:28 final size:28
Alignment explanation
Indices: 216086--216143 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
216076 ATAAAATAAG
*
216086 AAAAATAAATATTAATAAAATAATAAAT
1 AAAAATAAATAATAATAAAATAATAAAT
* * *
216114 AAAAATAAATAATATTAATATAATATAT
1 AAAAATAAATAATAATAAAATAATAAAT
216142 AA
1 AA
216144 TAAAAGTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAAATAAATAATAATAAAATAATAAAT
Found at i:216128 original size:31 final size:32
Alignment explanation
Indices: 216071--216153 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 32
216061 ACTTTGGACC
*
216071 AAAA-AATAAAATAAGAA-AAATAAATATTAAT
1 AAAATAAT-AAATAAAAATAAATAAATATTAAT
216102 AAAATAATAAATAAAAATAAAT-AATATTAAT
1 AAAATAATAAATAAAAATAAATAAATATTAAT
* *
216133 ATAAT-ATATAATAAAAGTAAA
1 AAAATAATA-AATAAAAATAAA
216154 AATCATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
30 3 0.07
31 36 0.78
32 7 0.15
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (32 bp):
AAAATAATAAATAAAAATAAATAAATATTAAT
Found at i:216138 original size:18 final size:17
Alignment explanation
Indices: 216088--216145 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 17
216078 AAAATAAGAA
216088 AAATAAATATTAATAAA-
1 AAAT-AATATTAATAAAT
216105 ATAATAA-A-TAA-AAAT
1 A-AATAATATTAATAAAT
216120 AAATAATATTAATATAAT
1 AAATAATATTAATA-AAT
*
216138 ATATAATA
1 AAATAATA
216146 AAAGTAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
14 8 0.24
15 5 0.15
16 4 0.12
17 4 0.12
18 13 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATAATATTAATAAAT
Found at i:216227 original size:37 final size:37
Alignment explanation
Indices: 216186--216262 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
216176 TACGTTTTTG
216186 AAAATT-GTTTTCAAAACCATATAATAATATATTTTCA
1 AAAATTAGTTTTCAAAACCATATAAT-ATATATTTTCA
* * *
216223 AAAATTATTTTTTAAAACTATATAATATATATTTTCA
1 AAAATTAGTTTTCAAAACCATATAATATATATTTTCA
216260 AAA
1 AAA
216263 CTATATATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 20 0.56
38 16 0.44
ACGTcount: A:0.48, C:0.08, G:0.01, T:0.43
Consensus pattern (37 bp):
AAAATTAGTTTTCAAAACCATATAATATATATTTTCA
Found at i:216262 original size:23 final size:24
Alignment explanation
Indices: 216231--216282 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
216221 CAAAAATTAT
*
216231 TTTTTAAAACTATATA-ATATATA
1 TTTTCAAAACTATATATATATATA
216254 TTTTCAAAACTATATATTATATATA
1 TTTTCAAAACTATATA-TATATATA
216279 TTTT
1 TTTT
216283 TTAAAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 15 0.58
25 11 0.42
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTTCAAAACTATATATATATATA
Found at i:216263 original size:61 final size:62
Alignment explanation
Indices: 216193--216325 Score: 173
Period size: 61 Copynumber: 2.1 Consensus size: 62
216183 TTGAAAATTG
*
216193 TTTTCAAAACCATATAATA-ATATA-TTTTCAAAAATTATTTTTTAAAACTATATA-ATATATA
1 TTTTCAAAACCATATAATATATATATTTTTCAAAAA-TA-TTTTCAAAACTATATATATATATA
* * *
216254 TTTTCAAAACTATATATTATATATATTTTTTAAAAATATTTTCAAAACTATATATTATATATA
1 TTTTCAAAACCATATAATATATATATTTTTCAAAAATATTTTCAAAACTATATA-TATATATA
*
216317 CTTTCAAAA
1 TTTTCAAAA
216326 TATTTTTAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
61 32 0.51
62 7 0.11
63 24 0.38
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (62 bp):
TTTTCAAAACCATATAATATATATATTTTTCAAAAATATTTTCAAAACTATATATATATATA
Found at i:216283 original size:99 final size:100
Alignment explanation
Indices: 216169--216358 Score: 251
Period size: 99 Copynumber: 1.9 Consensus size: 100
216159 TTTTTAAAAC
* * * *
216169 TATTATATACGTTTTTGAAAATTGTTTTCAAAACCATATAATA-ATATATTTTCAAAAATTATTT
1 TATTATATACATTTTTGAAAAATATTTTCAAAACCATATAATATATATACTTTC-AAAA-TATTT
*
216233 TT-TAAAACTATATA-ATATATATTTTCAAAACTATA
64 TTAAAAAACTATATATATATATATTTTCAAAACTATA
* * * *
216268 TATTATATATATTTTTTAAAAATATTTTCAAAACTATATATTATATATACTTTCAAAATATTTTT
1 TATTATATACATTTTTGAAAAATATTTTCAAAACCATATAATATATATACTTTCAAAATATTTTT
216333 AAAAAACTATATATTATATATATTTT
66 AAAAAACTATATA-TATATATATTTT
216359 TTCAAAATGT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
98 7 0.09
99 51 0.65
100 9 0.12
101 11 0.14
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.48
Consensus pattern (100 bp):
TATTATATACATTTTTGAAAAATATTTTCAAAACCATATAATATATATACTTTCAAAATATTTTT
AAAAAACTATATATATATATATTTTCAAAACTATA
Found at i:216299 original size:38 final size:38
Alignment explanation
Indices: 216251--216541 Score: 249
Period size: 38 Copynumber: 7.7 Consensus size: 38
216241 TATATAATAT
216251 ATATTTTCAAAACTATATATTATATATATTTTTTAAAA
1 ATATTTTCAAAACTATATATTATATATATTTTTTAAAA
* *
216289 ATATTTTCAAAACTATATATTATATATA--CTTTCAAA
1 ATATTTTCAAAACTATATATTATATATATTTTTTAAAA
* *
216325 ATATTTTTAAAAAACTATATATTATATATATTTTTTCAAA
1 ATA-TTTT-CAAAACTATATATTATATATATTTTTTAAAA
* * *
216365 ATGTTTTCAAAAGCTATACATTATATATA-TTTTCAAAA
1 ATATTTTCAAAA-CTATATATTATATATATTTTTTAAAA
* ** * * *
216403 ATGTTTTCAAAAACTATGCACTATATATATGTTTTCAAA
1 ATATTTTC-AAAACTATATATTATATATATTTTTTAAAA
* *
216442 AT-TTTTC-AAA-TATATATAATAAATATATTTTTAGAAA
1 ATATTTTCAAAACTATATATTATATATAT-TTTTTA-AAA
** * * *
216479 ACCGTTTTTAAAACTATATATAATATATA-TTTTCAAAA
1 A-TATTTTCAAAACTATATATTATATATATTTTTTAAAA
*
216517 ATCGATTTT-AAAGC-ATATATTATAT
1 AT--ATTTTCAAAACTATATATTATAT
216542 GTTTTCAAAA
Statistics
Matches: 209, Mismatches: 29, Indels: 31
0.78 0.11 0.12
Matches are distributed among these distances:
35 11 0.05
36 16 0.08
37 18 0.09
38 94 0.45
39 44 0.21
40 12 0.06
41 14 0.07
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (38 bp):
ATATTTTCAAAACTATATATTATATATATTTTTTAAAA
Found at i:216346 original size:76 final size:74
Alignment explanation
Indices: 216254--216541 Score: 282
Period size: 76 Copynumber: 3.8 Consensus size: 74
216244 ATAATATATA
* *
216254 TTTTCAAAACTATATATTATATATATTTTTTAAAAATATTTTCAAAACTATATATTATATATACT
1 TTTTAAAAACTATATATTATATATATTTTTTAAAAATATTTTCAAAACTATATATTATATATATT
216319 TTCAAAATAT
66 TTCAAAA-AT
* * *
216329 TTTTAAAAAACTATATATTATATATATTTTTTCAAAATGTTTTCAAAAGCTATACATTATATATA
1 TTTT-AAAAACTATATATTATATATATTTTTTAAAAATATTTTCAAAA-CTATATATTATATATA
216394 TTTTCAAAAAT
64 TTTTCAAAAAT
** * * * * *
216405 GTTTTCAAAAACTATGCACTATATATATGTTTTCAAAAT-TTTTCAAATA-TATATAATAAATAT
1 -TTTT-AAAAACTATATATTATATATATTTTTTAAAAATATTTTCAAA-ACTATATATTATATAT
*
216468 ATTTTTAGAAAACCGT
63 ATTTTCA-AAAA---T
* * *
216484 TTTT-AAAACTATATATAATATATA-TTTTCAAAAATCGATTTT-AAAGC-ATATATTATAT
1 TTTTAAAAACTATATATTATATATATTTTTTAAAAAT--ATTTTCAAAACTATATATTATAT
216542 GTTTTCAAAA
Statistics
Matches: 177, Mismatches: 24, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
75 29 0.16
76 79 0.45
77 60 0.34
78 8 0.05
79 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.45
Consensus pattern (74 bp):
TTTTAAAAACTATATATTATATATATTTTTTAAAAATATTTTCAAAACTATATATTATATATATT
TTCAAAAAT
Found at i:216415 original size:77 final size:75
Alignment explanation
Indices: 216254--216511 Score: 299
Period size: 76 Copynumber: 3.4 Consensus size: 75
216244 ATAATATATA
* *
216254 TTTTC-AAAACTATATATTATATATATTTTTTAAAAATATTTTCAAAACTATATATTATATATAC
1 TTTTCAAAAACTATATATTATATATATTTTTTCAAAAT-TTTTCAAAACTATATATTATATATAT
216318 TTTCAAAATAT-
65 TTTCAAAA-ATG
* *
216329 TTTTAAAAAACTATATATTATATATATTTTTTCAAAATGTTTTCAAAAGCTATACATTATATATA
1 TTTTCAAAAACTATATATTATATATATTTTTTCAAAAT-TTTTCAAAA-CTATATATTATATATA
216394 TTTTCAAAAATG
64 TTTTCAAAAATG
** * * * *
216406 TTTTCAAAAACTATGCACTATATATATGTTTTCAAAATTTTTCAAATA-TATATAATAAATATAT
1 TTTTCAAAAACTATATATTATATATATTTTTTCAAAATTTTTCAAA-ACTATATATTATATATAT
* *
216470 TTTTAGAAAACCG
65 TTTCA-AAAA-TG
* *
216483 TTTT-TAAAACTATATATAATATATATTTT
1 TTTTCAAAAACTATATATTATATATATTTT
216512 CAAAAATCGA
Statistics
Matches: 156, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
75 21 0.13
76 73 0.47
77 62 0.40
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (75 bp):
TTTTCAAAAACTATATATTATATATATTTTTTCAAAATTTTTCAAAACTATATATTATATATATT
TTCAAAAATG
Found at i:216775 original size:20 final size:20
Alignment explanation
Indices: 216746--216783 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
216736 TTTTGTTCAC
*
216746 GGAATGTAAGATTACCAGTG
1 GGAATATAAGATTACCAGTG
216766 GGAATATAAGATTACCAG
1 GGAATATAAGATTACCAG
216784 AGAATAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (20 bp):
GGAATATAAGATTACCAGTG
Found at i:216987 original size:2 final size:2
Alignment explanation
Indices: 216980--217016 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
216970 TCATAAAATT
216980 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
217017 TACAAAATTA
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:217323 original size:25 final size:25
Alignment explanation
Indices: 217293--217343 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
217283 AGATTTCTGA
*
217293 CCAACCAAACAT-GAGAATGTGGATT
1 CCAACCAAACATAGA-AATGTAGATT
*
217318 CCAACCAAGCATAGAAATGTAGATT
1 CCAACCAAACATAGAAATGTAGATT
217343 C
1 C
217344 TATTCCCATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.20
Consensus pattern (25 bp):
CCAACCAAACATAGAAATGTAGATT
Found at i:217804 original size:35 final size:35
Alignment explanation
Indices: 217702--217804 Score: 161
Period size: 35 Copynumber: 2.9 Consensus size: 35
217692 CCCACTATTA
*
217702 AAAAACTTAATACATTTAATATTTATACTATCATT
1 AAAAACTTAATACATTTAATACTTATACTATCATT
* *
217737 AAAAACTTAAAACATTTAATACCTATACTATCATT
1 AAAAACTTAATACATTTAATACTTATACTATCATT
* *
217772 AAAAACTTAATACATTTAATACTTCTATTATCA
1 AAAAACTTAATACATTTAATACTTATACTATCA
217805 ATTTAATTTG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 61 1.00
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (35 bp):
AAAAACTTAATACATTTAATACTTATACTATCATT
Found at i:235781 original size:23 final size:23
Alignment explanation
Indices: 235753--235822 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
235743 AGGATTTAAC
* *
235753 GCGGTCCTTCAGGATAATTTTAT
1 GCGGTCCTTCAGGACAATTCTAT
* *
235776 GTGGTCCTTCGGGACAATTCTAT
1 GCGGTCCTTCAGGACAATTCTAT
* *
235799 GCGGT-CTATCGGGACAAATCTAT
1 GCGGTCCT-TCAGGACAATTCTAT
235822 G
1 G
235823 TGGCAATTCG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
22 2 0.05
23 38 0.95
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (23 bp):
GCGGTCCTTCAGGACAATTCTAT
Found at i:235849 original size:24 final size:24
Alignment explanation
Indices: 235813--235873 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
235803 TCTATCGGGA
*
235813 CAAA-TCTATGTGGCAATTCGATG
1 CAAATTCTACGTGGCAATTCGATG
* * *
235836 CATATTCTACGTGGCACTTCGGTG
1 CAAATTCTACGTGGCAATTCGATG
235860 CAAATTCTACGTGG
1 CAAATTCTACGTGG
235874 TAGTTTCGAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 3 0.09
24 29 0.91
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (24 bp):
CAAATTCTACGTGGCAATTCGATG
Found at i:236413 original size:23 final size:23
Alignment explanation
Indices: 236385--236454 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
236375 AGGATTTAAC
* *
236385 GCGGTCCTTCAGGATAATTTTAT
1 GCGGTCCTTCAGGACAATTCTAT
* *
236408 GTGGTCCTTCGGGACAATTCTAT
1 GCGGTCCTTCAGGACAATTCTAT
* *
236431 GCGGT-CTATCGGGACAAATCTAT
1 GCGGTCCT-TCAGGACAATTCTAT
236454 G
1 G
236455 TGGCAATTCG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
22 2 0.05
23 38 0.95
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (23 bp):
GCGGTCCTTCAGGACAATTCTAT
Found at i:236481 original size:24 final size:24
Alignment explanation
Indices: 236445--236505 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
236435 TCTATCGGGA
*
236445 CAAA-TCTATGTGGCAATTCGATG
1 CAAATTCTACGTGGCAATTCGATG
* * * *
236468 CATATTCTACGTGGCACTTTGGTG
1 CAAATTCTACGTGGCAATTCGATG
236492 CAAATTCTACGTGG
1 CAAATTCTACGTGG
236506 TAGTTTCGAC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 3 0.10
24 28 0.90
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (24 bp):
CAAATTCTACGTGGCAATTCGATG
Found at i:236761 original size:632 final size:632
Alignment explanation
Indices: 235556--236820 Score: 2503
Period size: 632 Copynumber: 2.0 Consensus size: 632
235546 GGTATGAACT
*
235556 ACCCAATACTGGTTTTTATGAGATTTTTATTTATATTTGATTATATGAATGATTTATATGTAGAA
1 ACCCAATACTGGTTTTTATGAGATTTTTATTTATATTTGATTATATGAATGATTTATATGGAGAA
235621 CAATATATGATTTTTAATTACGCCTATTGTATGAGTATATGTTATATGTGAAATATTTATATGGT
66 CAATATATGATTTTTAATTACGCCTATTGTATGAGTATATGTTATATGTGAAATATTTATATGGT
235686 TAAAGCCTAAAGAATGTGTTATGAGAATTAGAGGTATAATTGGTATGCCAAAAGTCGAGGATTTA
131 TAAAGCCTAAAGAATGTGTTATGAGAATTAGAGGTATAATTGGTATGCCAAAAGTCGAGGATTTA
235751 ACGCGGTCCTTCAGGATAATTTTATGTGGTCCTTCGGGACAATTCTATGCGGTCTATCGGGACAA
196 ACGCGGTCCTTCAGGATAATTTTATGTGGTCCTTCGGGACAATTCTATGCGGTCTATCGGGACAA
235816 ATCTATGTGGCAATTCGATGCATATTCTACGTGGCACTTCGGTGCAAATTCTACGTGGTAGTTTC
261 ATCTATGTGGCAATTCGATGCATATTCTACGTGGCACTTCGGTGCAAATTCTACGTGGTAGTTTC
235881 GACTGCAATTATAGTGCACAATCTCAAAGTACTCACATACCTTGAGTTCTCAATGATATGCGTTG
326 GACTGCAATTATAGTGCACAATCTCAAAGTACTCACATACCTTGAGTTCTCAATGATATGCGTTG
235946 GGCTATTTAAACAAGTTAATATTAATTGAACAGTGAATAATAATTTATGTACATTTTTATGAAAT
391 GGCTATTTAAACAAGTTAATATTAATTGAACAGTGAATAATAATTTATGTACATTTTTATGAAAT
236011 GTATATTGTTTTTCGTATTAAATGTTCTCCTAAAATGTTAAGAAAATGTTTAATGTTTTATTATA
456 GTATATTGTTTTTCGTATTAAATGTTCTCCTAAAATGTTAAGAAAATGTTTAATGTTTTATTATA
236076 CACATTTATGCCTCACTAAGTCAAAGACTTAGCGTGTGAGTGTTTTCATATGTAGGTTCAGAGAA
521 CACATTTATGCCTCACTAAGTCAAAGACTTAGCGTGTGAGTGTTTTCATATGTAGGTTCAGAGAA
236141 GTTAGCAGAGTAAGCTAGAGTGGAACATCATATCTTTGAAGAATATC
586 GTTAGCAGAGTAAGCTAGAGTGGAACATCATATCTTTGAAGAATATC
236188 ACCCAATACTGGTTTTTATGAGATTTTTATTTATATTTGATTATATGAATGATTTATATGGAGAA
1 ACCCAATACTGGTTTTTATGAGATTTTTATTTATATTTGATTATATGAATGATTTATATGGAGAA
236253 CAATATATGATTTTTAATTACGCCTATTGTATGAGTATATGTTATATGTGAAATATTTATATGGT
66 CAATATATGATTTTTAATTACGCCTATTGTATGAGTATATGTTATATGTGAAATATTTATATGGT
236318 TAAAGCCTAAAGAATGTGTTATGAGAATTAGAGGTATAATTGGTATGCCAAAAGTCGAGGATTTA
131 TAAAGCCTAAAGAATGTGTTATGAGAATTAGAGGTATAATTGGTATGCCAAAAGTCGAGGATTTA
236383 ACGCGGTCCTTCAGGATAATTTTATGTGGTCCTTCGGGACAATTCTATGCGGTCTATCGGGACAA
196 ACGCGGTCCTTCAGGATAATTTTATGTGGTCCTTCGGGACAATTCTATGCGGTCTATCGGGACAA
*
236448 ATCTATGTGGCAATTCGATGCATATTCTACGTGGCACTTTGGTGCAAATTCTACGTGGTAGTTTC
261 ATCTATGTGGCAATTCGATGCATATTCTACGTGGCACTTCGGTGCAAATTCTACGTGGTAGTTTC
236513 GACTGCAATTATAGTGCACAATCTCAAAGTACTCACATACCTTGAGTTCTCAATGATATGCGTTG
326 GACTGCAATTATAGTGCACAATCTCAAAGTACTCACATACCTTGAGTTCTCAATGATATGCGTTG
236578 GGCTATTTAAACAAGTTAATATTAATTGAACAGTGAATAATAATTTATGTACATTTTTATGAAAT
391 GGCTATTTAAACAAGTTAATATTAATTGAACAGTGAATAATAATTTATGTACATTTTTATGAAAT
236643 GTATATTGTTTTTCGTATTAAATGTTCTCCTAAAATGTTAAGAAAATGTTTAATGTTTTATTATA
456 GTATATTGTTTTTCGTATTAAATGTTCTCCTAAAATGTTAAGAAAATGTTTAATGTTTTATTATA
*
236708 CACATTTATGCCTCACTAAGTCAAAGACTTAGTGTGTGAGTGTTTTCATATGTAGGTTCAGAGAA
521 CACATTTATGCCTCACTAAGTCAAAGACTTAGCGTGTGAGTGTTTTCATATGTAGGTTCAGAGAA
236773 GTTAGCAGAGTAAGCTAGAGTGGAACATCATATCTTTGAAGAATATC
586 GTTAGCAGAGTAAGCTAGAGTGGAACATCATATCTTTGAAGAATATC
236820 A
1 A
236821 TATCAGACTG
Statistics
Matches: 630, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
632 630 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (632 bp):
ACCCAATACTGGTTTTTATGAGATTTTTATTTATATTTGATTATATGAATGATTTATATGGAGAA
CAATATATGATTTTTAATTACGCCTATTGTATGAGTATATGTTATATGTGAAATATTTATATGGT
TAAAGCCTAAAGAATGTGTTATGAGAATTAGAGGTATAATTGGTATGCCAAAAGTCGAGGATTTA
ACGCGGTCCTTCAGGATAATTTTATGTGGTCCTTCGGGACAATTCTATGCGGTCTATCGGGACAA
ATCTATGTGGCAATTCGATGCATATTCTACGTGGCACTTCGGTGCAAATTCTACGTGGTAGTTTC
GACTGCAATTATAGTGCACAATCTCAAAGTACTCACATACCTTGAGTTCTCAATGATATGCGTTG
GGCTATTTAAACAAGTTAATATTAATTGAACAGTGAATAATAATTTATGTACATTTTTATGAAAT
GTATATTGTTTTTCGTATTAAATGTTCTCCTAAAATGTTAAGAAAATGTTTAATGTTTTATTATA
CACATTTATGCCTCACTAAGTCAAAGACTTAGCGTGTGAGTGTTTTCATATGTAGGTTCAGAGAA
GTTAGCAGAGTAAGCTAGAGTGGAACATCATATCTTTGAAGAATATC
Found at i:239554 original size:25 final size:26
Alignment explanation
Indices: 239527--239577 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
239517 TACATGTACA
* *
239527 TTTTATATGGCATTATATGTGAAAATT
1 TTTTATATGGCACTAAATGTGAAAA-T
239554 TTTTATATGGCACTAAATGTGAAA
1 TTTTATATGGCACTAAATGTGAAA
239578 CAATGTATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (26 bp):
TTTTATATGGCACTAAATGTGAAAAT
Found at i:258187 original size:21 final size:21
Alignment explanation
Indices: 258158--258202 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
258148 ACATGCCAAG
*
258158 AAATTAAAATAAATAGAACAA
1 AAATGAAAATAAATAGAACAA
258179 AAATGAAAATAAATAGAACAA
1 AAATGAAAATAAATAGAACAA
258200 AAA
1 AAA
258203 CAAATCACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.73, C:0.04, G:0.07, T:0.16
Consensus pattern (21 bp):
AAATGAAAATAAATAGAACAA
Done.