Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017616.1 Corchorus olitorius cultivar O-4 contig17649, 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: 51045
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:3557 original size:24 final size:24
Alignment explanation
Indices: 3525--3572 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
3515 TATATAGGGG
3525 GAGTGTAGTTAAAGGGTTTGTGTT
1 GAGTGTAGTTAAAGGGTTTGTGTT
3549 GAGTGTAGTTAAAGGGTTTGTGTT
1 GAGTGTAGTTAAAGGGTTTGTGTT
3573 AACTCAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.42
Consensus pattern (24 bp):
GAGTGTAGTTAAAGGGTTTGTGTT
Found at i:10429 original size:27 final size:27
Alignment explanation
Indices: 10399--10451 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
10389 GATGTATTTT
10399 ACCCCCTAACCCAAGAAGACAAAGCCA
1 ACCCCCTAACCCAAGAAGACAAAGCCA
10426 ACCCCCTAACCCAAGAAGACAAAGCC
1 ACCCCCTAACCCAAGAAGACAAAGCC
10452 TGATCATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.42, G:0.11, T:0.04
Consensus pattern (27 bp):
ACCCCCTAACCCAAGAAGACAAAGCCA
Found at i:11537 original size:31 final size:31
Alignment explanation
Indices: 11469--11549 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 31
11459 TGGGCCTTAG
11469 TAATTAATTATTGGTTTATTA-TACACATAA
1 TAATTAATTATTGGTTTATTATTACACATAA
* * *
11499 -AA-AAATTATTGGTTTATTATTATTA-GTAA
1 TAATTAATTATTGGTTTATTATTA-CACATAA
*
11528 TAATTAATTATTGGTGTATTAT
1 TAATTAATTATTGGTTTATTAT
11550 CATTTGATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
28 16 0.38
29 7 0.17
30 3 0.07
31 16 0.38
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.49
Consensus pattern (31 bp):
TAATTAATTATTGGTTTATTATTACACATAA
Found at i:11867 original size:17 final size:17
Alignment explanation
Indices: 11845--11880 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11835 TAATTCCATT
*
11845 TTCAACTTTAATATATG
1 TTCAACCTTAATATATG
11862 TTCAACCTTAATATATG
1 TTCAACCTTAATATATG
11879 TT
1 TT
11881 ATATATTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (17 bp):
TTCAACCTTAATATATG
Found at i:14172 original size:26 final size:26
Alignment explanation
Indices: 14123--14186 Score: 85
Period size: 27 Copynumber: 2.5 Consensus size: 26
14113 GATTCTGAAT
* *
14123 TTTGAGTTTCGAACATGACATGCAAA
1 TTTGAGTTTTGAACATGAAATGCAAA
14149 CTTTGAGTTTTGAA-ATGAAATGCAAA
1 -TTTGAGTTTTGAACATGAAATGCAAA
*
14175 TTTGAATTTTGA
1 TTTGAGTTTTGA
14187 CTTTTGACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 11 0.32
26 11 0.32
27 12 0.35
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (26 bp):
TTTGAGTTTTGAACATGAAATGCAAA
Found at i:14258 original size:7 final size:7
Alignment explanation
Indices: 14252--14370 Score: 166
Period size: 7 Copynumber: 17.0 Consensus size: 7
14242 GAGACATGAA
*
14252 TTTTGAA
1 TTTTGAG
* *
14259 TTTTAAA
1 TTTTGAG
*
14266 TTTTGAT
1 TTTTGAG
14273 TTTTGAG
1 TTTTGAG
*
14280 TTTTGAA
1 TTTTGAG
*
14287 TTTTGAA
1 TTTTGAG
14294 TTTTGAG
1 TTTTGAG
14301 TTTTGAG
1 TTTTGAG
14308 TTTTGAG
1 TTTTGAG
14315 TTTTGAG
1 TTTTGAG
14322 TTTTGAG
1 TTTTGAG
14329 TTTTGAG
1 TTTTGAG
*
14336 TTTTGTG
1 TTTTGAG
14343 TTTTGAG
1 TTTTGAG
14350 TTTTGAG
1 TTTTGAG
*
14357 TTTTGAA
1 TTTTGAG
14364 TTTTGAG
1 TTTTGAG
14371 CAATGAAATG
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 102 1.00
ACGTcount: A:0.18, C:0.00, G:0.23, T:0.59
Consensus pattern (7 bp):
TTTTGAG
Found at i:14269 original size:28 final size:28
Alignment explanation
Indices: 14224--14328 Score: 84
Period size: 28 Copynumber: 3.8 Consensus size: 28
14214 GAGATGCAGG
* *
14224 TTTTGAAATTTGATTTTTGAGACATGAA
1 TTTTGAATTTTGAATTTTGAGACATGAA
* **** *
14252 TTTTGAATTTTAAATTTTGATTTTTGAG
1 TTTTGAATTTTGAATTTTGAGACATGAA
*** *
14280 TTTTGAATTTTGAATTTTGAGTTTTGAG
1 TTTTGAATTTTGAATTTTGAGACATGAA
* *
14308 TTTTGAGTTTTGAGTTTTGAG
1 TTTTGAATTTTGAATTTTGAG
14329 TTTTGAGTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.24, C:0.01, G:0.20, T:0.55
Consensus pattern (28 bp):
TTTTGAATTTTGAATTTTGAGACATGAA
Found at i:14550 original size:33 final size:33
Alignment explanation
Indices: 14508--14573 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
14498 AAAGAACTGT
* * * *
14508 GGATTTTGAACTTTGAGTTTTGATATGATATGC
1 GGATTTTGAACTTTAAATTTTGAAATGAAATGC
14541 GGATTTTGAACTTTAAATTTTGAAATGAAATGC
1 GGATTTTGAACTTTAAATTTTGAAATGAAATGC
14574 AAATTTCGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.42
Consensus pattern (33 bp):
GGATTTTGAACTTTAAATTTTGAAATGAAATGC
Found at i:14585 original size:33 final size:33
Alignment explanation
Indices: 14510--14586 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
14500 AGAACTGTGG
* * * * **
14510 ATTTTGAACTTTGAGTTTTGATATGATATGCGG
1 ATTTTGAACTTTAAATTTTGAAATGAAATGCAA
14543 ATTTTGAACTTTAAATTTTGAAATGAAATGCAA
1 ATTTTGAACTTTAAATTTTGAAATGAAATGCAA
*
14576 ATTTCGAACTT
1 ATTTTGAACTT
14587 CTTAATTAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (33 bp):
ATTTTGAACTTTAAATTTTGAAATGAAATGCAA
Found at i:14719 original size:55 final size:53
Alignment explanation
Indices: 14624--14793 Score: 148
Period size: 55 Copynumber: 3.1 Consensus size: 53
14614 AATTCAATTT
* * * * * *
14624 TGATCATGGAAAACTCTCTTGGAACGACCCATTGGGTCAATTTATAGATAAACTC
1 TGATCATCGTAAACT-TTTTGGAATGACCCAATGGATCAATTTA-AGATAAACTC
* *
14679 TGATCATCGTAAACTTTTTGGAATGACCACAATGGATCAATTTGAGATCAACTC
1 TGATCATCGTAAACTTTTTGGAATGACC-CAATGGATCAATTTAAGATAAACTC
* * *
14733 TGATC-TC-TAAAAACTTCTTTGGAATGACCGCACTGGATC-ATCTAAGAATTAACTC
1 TGATCATCGT--AAACTT-TTTGGAATGACC-CAATGGATCAATTTAAG-ATAAACTC
14788 TGATCA
1 TGATCA
14794 CTAAAATTTC
Statistics
Matches: 96, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
52 1 0.01
53 2 0.02
54 36 0.38
55 57 0.59
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (53 bp):
TGATCATCGTAAACTTTTTGGAATGACCCAATGGATCAATTTAAGATAAACTC
Found at i:14867 original size:54 final size:53
Alignment explanation
Indices: 14723--15419 Score: 689
Period size: 54 Copynumber: 13.2 Consensus size: 53
14713 GATCAATTTG
* * * * *
14723 AGATCAACTCT-GATCTCTAAAAACTTCTTTGGAATGACCGCACTGGATCATC-TA
1 AGATCAACT-TAGATCTCTGAAAACTTCTAT-GAAAGACCACAC-GGGTCATCTTA
* * * * * * * * *
14777 AGAATTAACTCT-GATCACT-AAAATTTCTGTAAAAGATCGCACGAGATCATCCTA
1 AG-ATCAACT-TAGATCTCTGAAAACTTCTATGAAAGACCACACG-GGTCATCTTA
* *
14831 AGATAAACTTAGATCTCTGAAAACTTCTATGAAAGATCACACAGGGTCAT-TTGA
1 AGATCAACTTAGATCTCTGAAAACTTCTATGAAAGACCACAC-GGGTCATCTT-A
* *
14885 AGATCAACTTAGATCTCT-AAAAGCTTCTGTGAAAGACCGCACGGGGTCATCTTA
1 AGATCAACTTAGATCTCTGAAAA-CTTCTATGAAAGACCACAC-GGGTCATCTTA
* *
14939 AGATCAACTTAGATCTTTGAAAACTTCTATGAAAGACCACACTGGCTCATCTTA
1 AGATCAACTTAGATCTCTGAAAACTTCTATGAAAGACCACAC-GGGTCATCTTA
* * *
14993 AGATCAACTTAGATCTCTGAAAACTTCTATGGAAGTCCGCACTGGGTCATCTTA
1 AGATCAACTTAGATCTCTGAAAACTTCTATGAAAGACCACAC-GGGTCATCTTA
* * * * *
15047 AGATCAACTTAGATTTTTGAAAACTTCTATGGAAGACCATACAGGGTCATCTGA
1 AGATCAACTTAGATCTCTGAAAACTTCTATGAAAGACCACAC-GGGTCATCTTA
* *
15101 AGATCAACTTAGACCTCT-AAAAGCTTCTATGAAAAACCACACTGGGTCATCTTA
1 AGATCAACTTAGATCTCTGAAAA-CTTCTATGAAAGACCACAC-GGGTCATCTTA
* *
15155 AGATCAACTTAGATTTCTGAAAACTTCTAAGAAAGACCACACAGGGTCATCTTA
1 AGATCAACTTAGATCTCTGAAAACTTCTATGAAAGACCACAC-GGGTCATCTTA
15209 AGATCAACTTAGATCTCTGAAAACTTCTATGAAAGA-C-CA-----CA--TT-
1 AGATCAACTTAGATCTCTGAAAACTTCTATGAAAGACCACACGGGTCATCTTA
* * * *
15252 GGATCAACATAGATCTCTGAAAACTTCTAT----GACCACACTGGATCAACTTA
1 AGATCAACTTAGATCTCTGAAAACTTCTATGAAAGACCACAC-GGGTCATCTTA
* * *
15302 AGATCAACTTAGACCTCTGAAAACTTCTATGAAAGACCACACTCGGTTATCTTA
1 AGATCAACTTAGATCTCTGAAAACTTCTATGAAAGACCACAC-GGGTCATCTTA
* * * *
15356 AGATCAACTTAGATCTCTGAAAACCTCTATGAAAGACCACACTGGATTAACTTA
1 AGATCAACTTAGATCTCTGAAAACTTCTATGAAAGACCACAC-GGGTCATCTTA
15410 AGATCAACTT
1 AGATCAACTT
15420 TCTAGAGAGA
Statistics
Matches: 550, Mismatches: 66, Indels: 54
0.82 0.10 0.08
Matches are distributed among these distances:
39 2 0.00
40 1 0.00
41 2 0.00
43 28 0.05
44 2 0.00
46 2 0.00
47 2 0.00
49 2 0.00
50 27 0.05
52 4 0.01
53 38 0.07
54 415 0.75
55 25 0.05
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.28
Consensus pattern (53 bp):
AGATCAACTTAGATCTCTGAAAACTTCTATGAAAGACCACACGGGTCATCTTA
Found at i:15297 original size:39 final size:40
Alignment explanation
Indices: 15210--15298 Score: 126
Period size: 43 Copynumber: 2.2 Consensus size: 40
15200 GTCATCTTAA
* *
15210 GATCAACTTAGATCTCTGAAAACTTCTATGAAAGACCACATTG
1 GATCAACATAGATCTCTGAAAACTTCTAT---AGACCACACTG
15253 GATCAACATAGATCTCTGAAAACTTCTAT-GACCACACTG
1 GATCAACATAGATCTCTGAAAACTTCTATAGACCACACTG
15292 GATCAAC
1 GATCAAC
15299 TTAAGATCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
39 16 0.36
43 28 0.64
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (40 bp):
GATCAACATAGATCTCTGAAAACTTCTATAGACCACACTG
Found at i:15320 original size:93 final size:94
Alignment explanation
Indices: 15156--15342 Score: 277
Period size: 93 Copynumber: 2.0 Consensus size: 94
15146 GTCATCTTAA
* * * *
15156 GATCAACTTAGATTTCTGAAAACTTCTAAGAAAGACCACACAGGGTCATCTTAAGATCAACTTAG
1 GATCAACATAGATCTCTGAAAACTTCT---AAAGACCACACAGGATCAACTTAAGATCAACTTAG
*
15221 ATCTCTGAAAACTTCTATGAAAGACCACATTG
63 ACCTCTGAAAACTTCTATGAAAGACCACATTG
* *
15253 GATCAACATAGATCTCTGAAAACTTCT-ATGACCACACTGGATCAACTTAAGATCAACTTAGACC
1 GATCAACATAGATCTCTGAAAACTTCTAAAGACCACACAGGATCAACTTAAGATCAACTTAGACC
15317 TCTGAAAACTTCTATGAAAGACCACA
66 TCTGAAAACTTCTATGAAAGACCACA
15343 CTCGGTTATC
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
93 58 0.70
97 25 0.30
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (94 bp):
GATCAACATAGATCTCTGAAAACTTCTAAAGACCACACAGGATCAACTTAAGATCAACTTAGACC
TCTGAAAACTTCTATGAAAGACCACATTG
Found at i:15572 original size:37 final size:37
Alignment explanation
Indices: 15494--15846 Score: 264
Period size: 37 Copynumber: 9.6 Consensus size: 37
15484 TGAACAAAAT
* * * * * * * *
15494 TTTGATAAGAAACCTAAAAATGGATCTTGAACAAGGT
1 TTTGATGAGACACCTAAACAGGGACCTTAAATAAGGA
* *
15531 TTTGATGAGACACTTAAATAGGGACCTTAAATAAGGA
1 TTTGATGAGACACCTAAACAGGGACCTTAAATAAGGA
** * * * *
15568 TTTGACAAGAAACCTAAAAAGGGATCTTAAATAAGGT
1 TTTGATGAGACACCTAAACAGGGACCTTAAATAAGGA
* *
15605 TTTGATGAGACACCTAAATAGGAACCTTAAATAAGGA
1 TTTGATGAGACACCTAAACAGGGACCTTAAATAAGGA
* * * * * * *
15642 TTTTATAAGAAACCTAAACAGGAATCTTGAATAAGGT
1 TTTGATGAGACACCTAAACAGGGACCTTAAATAAGGA
* * * *
15679 TTTGATGAGACACCTAAACATGGACTTTAAACAAGAA
1 TTTGATGAGACACCTAAACAGGGACCTTAAATAAGGA
* * * * * *
15716 TTTTGATAAG-CAACCTAAACAAGAATCTTGAATAAGGT
1 -TTTGATGAGAC-ACCTAAACAGGGACCTTAAATAAGGA
* *
15754 TTTGATGAGACACCTAAATAGGGACCTTAAATAAAGA
1 TTTGATGAGACACCTAAACAGGGACCTTAAATAAGGA
* * * ** *
15791 TTTGATAAGAAATCTAAACAGGGTTCTTAAA-CA--A
1 TTTGATGAGACACCTAAACAGGGACCTTAAATAAGGA
*
15825 TTTGATAAGACACCTAAACAGG
1 TTTGATGAGACACCTAAACAGG
15847 AATTTTGAAC
Statistics
Matches: 246, Mismatches: 67, Indels: 9
0.76 0.21 0.03
Matches are distributed among these distances:
34 21 0.09
36 1 0.00
37 197 0.80
38 27 0.11
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (37 bp):
TTTGATGAGACACCTAAACAGGGACCTTAAATAAGGA
Found at i:15615 original size:74 final size:74
Alignment explanation
Indices: 15494--15842 Score: 445
Period size: 74 Copynumber: 4.7 Consensus size: 74
15484 TGAACAAAAT
* * *
15494 TTTGATAAGAAACCTAAAAATGGATCTTGAACAAGGTTTTGATGAGACACTTAAATAGGGACCTT
1 TTTGATAAGAAACCTAAAAAGGGATCTTGAATAAGGTTTTGATGAGACACCTAAATAGGGACCTT
15559 AAATAAGGA
66 AAATAAGGA
* * *
15568 TTTGACAAGAAACCTAAAAAGGGATCTTAAATAAGGTTTTGATGAGACACCTAAATAGGAACCTT
1 TTTGATAAGAAACCTAAAAAGGGATCTTGAATAAGGTTTTGATGAGACACCTAAATAGGGACCTT
15633 AAATAAGGA
66 AAATAAGGA
* * * * * *
15642 TTTTATAAGAAACCTAAACAGGAATCTTGAATAAGGTTTTGATGAGACACCTAAACATGGACTTT
1 TTTGATAAGAAACCTAAAAAGGGATCTTGAATAAGGTTTTGATGAGACACCTAAATAGGGACCTT
* *
15707 AAACAAGAA
66 AAATAAGGA
* *
15716 TTTTGATAAGCAACCTAAACAA-GAATCTTGAATAAGGTTTTGATGAGACACCTAAATAGGGACC
1 -TTTGATAAGAAACCTAAA-AAGGGATCTTGAATAAGGTTTTGATGAGACACCTAAATAGGGACC
*
15780 TTAAATAAAGA
64 TTAAATAAGGA
* * * * * *
15791 TTTGATAAGAAATCTAAACAGGGTTCTTAAACAA---TTTGATAAGACACCTAAA
1 TTTGATAAGAAACCTAAAAAGGGATCTTGAATAAGGTTTTGATGAGACACCTAAA
15843 CAGGAATTTT
Statistics
Matches: 238, Mismatches: 34, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
71 17 0.07
73 1 0.00
74 156 0.66
75 63 0.26
76 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (74 bp):
TTTGATAAGAAACCTAAAAAGGGATCTTGAATAAGGTTTTGATGAGACACCTAAATAGGGACCTT
AAATAAGGA
Found at i:15767 original size:149 final size:147
Alignment explanation
Indices: 15492--15846 Score: 457
Period size: 149 Copynumber: 2.4 Consensus size: 147
15482 TTTGAACAAA
* * *
15492 ATTTTGATAAGAAACCTAAAAATGGATCTTGAACAAGGTTTTGATGAGACACTTAAATAGGGACC
1 ATTTT-ATAAGAAACCTAAACA-GGATCTTGAACAAGGTTTTGATGAGACACCTAAACAGGGACC
* * *
15557 TTAAATAAGGATTTGACAAGAAACCTAAAAAGGGATCTTAAATAAGGTTTTGATGAGACACCTAA
64 TTAAACAAGAATTTGACAAGAAACCTAAAAAGGAATCTTAAATAAGGTTTTGATGAGACACCTAA
*
15622 ATAGGAACCTTAAATAAGG
129 ATAGGAACCTTAAATAAAG
* * *
15641 ATTTTATAAGAAACCTAAACAGGAATCTTGAATAAGGTTTTGATGAGACACCTAAACATGGACTT
1 ATTTTATAAGAAACCTAAACAGG-ATCTTGAACAAGGTTTTGATGAGACACCTAAACAGGGACCT
* * *
15706 TAAACAAGAATTTTGATAAGCAACCTAAACAA-GAATCTTGAATAAGGTTTTGATGAGACACCTA
65 TAAACAAGAA-TTTGACAAGAAACCTAAA-AAGGAATCTTAAATAAGGTTTTGATGAGACACCTA
*
15770 AATAGGGACCTTAAATAAAG
128 AATAGGAACCTTAAATAAAG
* * * * *
15790 ATTTGATAAGAAATCTAAACAGGGTTCTTAAACAA---TTTGATAAGACACCTAAACAGG
1 ATTTTATAAGAAACCTAAACA-GGATCTTGAACAAGGTTTTGATGAGACACCTAAACAGG
15847 AATTTTGAAC
Statistics
Matches: 181, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
146 20 0.11
147 2 0.01
148 59 0.33
149 96 0.53
150 4 0.02
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (147 bp):
ATTTTATAAGAAACCTAAACAGGATCTTGAACAAGGTTTTGATGAGACACCTAAACAGGGACCTT
AAACAAGAATTTGACAAGAAACCTAAAAAGGAATCTTAAATAAGGTTTTGATGAGACACCTAAAT
AGGAACCTTAAATAAAG
Found at i:16845 original size:21 final size:22
Alignment explanation
Indices: 16815--16907 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 22
16805 CAATTTGAAC
*
16815 CTTTTCCTTTTGATTTTTCTTT
1 CTTTTCCTTTTCATTTTTCTTT
* *
16837 CTTTT-CTTTTCTTTTTTCTTCC
1 CTTTTCCTTTTCATTTTTCTT-T
* * *
16859 CTTTTTC-TTCCCTTTTTCTTT
1 CTTTTCCTTTTCATTTTTCTTT
* *
16880 GCTTTTTCCTTTTCCTTTTTTTTT
1 -C-TTTTCCTTTTCATTTTTCTTT
16904 CTTT
1 CTTT
16908 AGATTGCTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
21 13 0.23
22 25 0.44
23 7 0.12
24 12 0.21
ACGTcount: A:0.01, C:0.24, G:0.02, T:0.73
Consensus pattern (22 bp):
CTTTTCCTTTTCATTTTTCTTT
Found at i:16884 original size:11 final size:11
Alignment explanation
Indices: 16828--16904 Score: 68
Period size: 11 Copynumber: 6.9 Consensus size: 11
16818 TTCCTTTTGA
16828 TTTTTCTTT-C
1 TTTTTCTTTCC
*
16838 -TTTTCTTTTCT
1 TTTTTC-TTTCC
*
16849 TTTTTCTTCCC
1 TTTTTCTTTCC
*
16860 TTTTTCTTCCC
1 TTTTTCTTTCC
*
16871 TTTTTCTTTGC
1 TTTTTCTTTCC
16882 TTTTTCCTTTTCC
1 TTTTT-C-TTTCC
*
16895 TTTTTTTTTC
1 TTTTTCTTTC
16905 TTTAGATTGC
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
9 5 0.09
10 3 0.05
11 32 0.58
12 6 0.11
13 9 0.16
ACGTcount: A:0.00, C:0.25, G:0.01, T:0.74
Consensus pattern (11 bp):
TTTTTCTTTCC
Found at i:17292 original size:13 final size:13
Alignment explanation
Indices: 17274--17298 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17264 GAACAATCTT
17274 CTTTTTCTTTTTC
1 CTTTTTCTTTTTC
17287 CTTTTTCTTTTT
1 CTTTTTCTTTTT
17299 ATTCACATCG
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
CTTTTTCTTTTTC
Found at i:17586 original size:14 final size:13
Alignment explanation
Indices: 17522--17585 Score: 67
Period size: 14 Copynumber: 4.7 Consensus size: 13
17512 AAAGGCGATC
*
17522 TTTTGAAAGCTCAT
1 TTTTGAAA-ATCAT
*
17536 TTTTGAAAACCAT
1 TTTTGAAAATCAT
17549 TTCTTGAAAA-CAGT
1 TT-TTGAAAATCA-T
17563 TTCTTGAAAATCAT
1 TT-TTGAAAATCAT
17577 TTTTGAAAA
1 TTTTGAAAA
17586 ACGTCCTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
13 14 0.31
14 29 0.64
15 2 0.04
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (13 bp):
TTTTGAAAATCAT
Found at i:20647 original size:21 final size:19
Alignment explanation
Indices: 20622--20679 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
20612 GCTGCTCTAA
20622 TAATCTCATCTGTACAGTACC
1 TAATCTCATCTGTACAGT--C
* * * *
20643 TAATCTAATATGTATAGTG
1 TAATCTCATCTGTACAGTC
20662 TAATCTCATCTGTACAGT
1 TAATCTCATCTGTACAGT
20680 TGCTAAACAG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 15 0.50
21 15 0.50
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (19 bp):
TAATCTCATCTGTACAGTC
Found at i:21221 original size:12 final size:12
Alignment explanation
Indices: 21195--21267 Score: 92
Period size: 12 Copynumber: 5.9 Consensus size: 12
21185 CGATATCCAT
21195 GGATATATCGAAC
1 GGATATATCG-AC
21208 GGATATATCGAC
1 GGATATATCGAC
*
21220 GGCTATATCGAAC
1 GGATATATCG-AC
*
21233 GGATGTATCGAC
1 GGATATATCGAC
* *
21245 GAATATATCGAT
1 GGATATATCGAC
21257 GGATATATCGA
1 GGATATATCGA
21268 GGTATCGATG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
12 32 0.62
13 20 0.38
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (12 bp):
GGATATATCGAC
Found at i:21226 original size:25 final size:25
Alignment explanation
Indices: 21197--21267 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 25
21187 ATATCCATGG
*
21197 ATATATCGAACGGATATATCGACGG
1 ATATATCGAACGGATATATCGACGA
* *
21222 CTATATCGAACGGATGTATCGACGA
1 ATATATCGAACGGATATATCGACGA
*
21247 ATATATCG-ATGGATATATCGA
1 ATATATCGAACGGATATATCGA
21268 GGTATCGATG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 11 0.28
25 29 0.73
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (25 bp):
ATATATCGAACGGATATATCGACGA
Found at i:22093 original size:10 final size:10
Alignment explanation
Indices: 22078--22123 Score: 74
Period size: 10 Copynumber: 4.6 Consensus size: 10
22068 AATTTAATAT
22078 GGATATTTAC
1 GGATATTTAC
22088 GGATATTTAC
1 GGATATTTAC
*
22098 AGATATTTAC
1 GGATATTTAC
*
22108 AGATATTTAC
1 GGATATTTAC
22118 GGATAT
1 GGATAT
22124 ATCGAGATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (10 bp):
GGATATTTAC
Found at i:22828 original size:22 final size:22
Alignment explanation
Indices: 22803--22844 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22793 GCTGCATCGA
* *
22803 CACGTGGGTCTTGCTGTGCTGG
1 CACGTGGGTCGTGCCGTGCTGG
22825 CACGTGGGTCGTGCCGTGCT
1 CACGTGGGTCGTGCCGTGCT
22845 AGCCCATGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.05, C:0.26, G:0.40, T:0.29
Consensus pattern (22 bp):
CACGTGGGTCGTGCCGTGCTGG
Found at i:25290 original size:18 final size:18
Alignment explanation
Indices: 25267--25331 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 18
25257 TCTTAAAACG
25267 ATTTTTCAAAAGAGTTGA
1 ATTTTTCAAAAGAGTTGA
* *
25285 ATTTTT-AAACGTATGTACGAAA
1 ATTTTTCAAAAG-A-GT-TG--A
25307 GATTTTTCAAAAGAGTTGA
1 -ATTTTTCAAAAGAGTTGA
25326 ATTTTT
1 ATTTTT
25332 AAACGTATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
17 4 0.11
18 13 0.36
19 3 0.08
20 1 0.03
21 1 0.03
22 3 0.08
23 7 0.19
24 4 0.11
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.42
Consensus pattern (18 bp):
ATTTTTCAAAAGAGTTGA
Found at i:25323 original size:41 final size:41
Alignment explanation
Indices: 25266--25346 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
25256 TTCTTAAAAC
25266 GATTTTTCAAAAGAGTTGAATTTTTAAACGTATGTACGAAA
1 GATTTTTCAAAAGAGTTGAATTTTTAAACGTATGTACGAAA
25307 GATTTTTCAAAAGAGTTGAATTTTTAAACGTATGTACGAA
1 GATTTTTCAAAAGAGTTGAATTTTTAAACGTATGTACGAA
25347 TTTTGATGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.37
Consensus pattern (41 bp):
GATTTTTCAAAAGAGTTGAATTTTTAAACGTATGTACGAAA
Found at i:25349 original size:20 final size:20
Alignment explanation
Indices: 25283--25350 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
25273 CAAAAGAGTT
25283 GAATTTTTAAACGTATGTAC
1 GAATTTTTAAACGTATGTAC
* *
25303 GAAAGATTTTTCAAAAG-A-GT-T
1 G--A-ATTTTT-AAACGTATGTAC
25324 GAATTTTTAAACGTATGTAC
1 GAATTTTTAAACGTATGTAC
25344 GAATTTT
1 GAATTTT
25351 GATGATTGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
17 4 0.11
18 7 0.19
19 3 0.08
20 8 0.22
21 1 0.03
22 3 0.08
23 7 0.19
24 4 0.11
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (20 bp):
GAATTTTTAAACGTATGTAC
Found at i:25509 original size:22 final size:20
Alignment explanation
Indices: 25462--25531 Score: 70
Period size: 22 Copynumber: 3.4 Consensus size: 20
25452 CTATAATATC
*
25462 AAAAAATT-ATAGGGAGATT
1 AAAAAATTCATAGGGAGGTT
25481 AACAAAATCTCATAGGGAGGTT
1 AA-AAAAT-TCATAGGGAGGTT
* *
25503 ATAAAAAATCATAGGAAGGTT
1 A-AAAAATTCATAGGGAGGTT
*
25524 ACAAAATT
1 AAAAAATT
25532 TTATATGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
19 2 0.05
20 10 0.24
21 14 0.33
22 15 0.36
23 1 0.02
ACGTcount: A:0.50, C:0.07, G:0.19, T:0.24
Consensus pattern (20 bp):
AAAAAATTCATAGGGAGGTT
Found at i:25514 original size:21 final size:20
Alignment explanation
Indices: 25462--25529 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
25452 CTATAATATC
* *
25462 AAAAAATTATAGGGAGATTA
1 AAAAAATCATAGGGAGGTTA
*
25482 ACAAAATCTCATAGGGAGGTTA
1 A-AAAA-ATCATAGGGAGGTTA
*
25504 TAAAAAATCATAGGAAGGTTA
1 -AAAAAATCATAGGGAGGTTA
25525 CAAAA
1 -AAAA
25530 TTTTATATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.03
21 21 0.54
22 16 0.41
23 1 0.03
ACGTcount: A:0.51, C:0.07, G:0.19, T:0.22
Consensus pattern (20 bp):
AAAAAATCATAGGGAGGTTA
Found at i:25545 original size:22 final size:23
Alignment explanation
Indices: 25518--25584 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 23
25508 AAATCATAGG
25518 AAGGTTA-CAAAATTTTATATGA
1 AAGGTTATCAAAATTTTATATGA
* *
25540 AAGGTTTATTAAAATTTTATA-GT
1 AAGG-TTATCAAAATTTTATATGA
* *
25563 TAGGTTATCAAAATTTCATATG
1 AAGGTTATCAAAATTTTATATG
25585 GAGTTTATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 18 0.49
23 8 0.22
24 11 0.30
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (23 bp):
AAGGTTATCAAAATTTTATATGA
Found at i:25592 original size:22 final size:20
Alignment explanation
Indices: 25567--25669 Score: 98
Period size: 22 Copynumber: 4.8 Consensus size: 20
25557 TATAGTTAGG
*
25567 TTATCAAAATTTCATATGGAGT
1 TTATCAAAATTTCATA-GGA-A
*
25589 TTATCACAATTTCATAGGTAA
1 TTATCAAAATTTCATAGG-AA
*
25610 TTATCAAAATTTCATAGCGTGA
1 TTATCAAAATTTCATAG-G-AA
*
25632 TTATCAAAATTTAATAGGATA
1 TTATCAAAATTTCATAGGA-A
*
25653 GTAATCAAAATTTCATA
1 -TTATCAAAATTTCATA
25670 AAAATATTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
21 20 0.29
22 49 0.71
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (20 bp):
TTATCAAAATTTCATAGGAA
Found at i:25622 original size:43 final size:44
Alignment explanation
Indices: 25567--25669 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 44
25557 TATAGTTAGG
* * *
25567 TTATCAAAATTTCATATG-GAGTTTATCACAATTTCATAGG-TAA
1 TTATCAAAATTTCATA-GCGAGATTATCAAAATTTAATAGGATAA
* *
25610 TTATCAAAATTTCATAGCGTGATTATCAAAATTTAATAGGATAG
1 TTATCAAAATTTCATAGCGAGATTATCAAAATTTAATAGGATAA
*
25654 TAATCAAAATTTCATA
1 TTATCAAAATTTCATA
25670 AAAATATTCA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.02
43 34 0.65
44 17 0.33
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (44 bp):
TTATCAAAATTTCATAGCGAGATTATCAAAATTTAATAGGATAA
Found at i:32941 original size:37 final size:37
Alignment explanation
Indices: 32893--32968 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
32883 AACCGACTTA
*
32893 ATCGATTAAATTTGAGTAAATCAGGTCGATTAAGTCG
1 ATCGATCAAATTTGAGTAAATCAGGTCGATTAAGTCG
* *
32930 ATCGATCAAATTTGAGTAAATCGGGTTGATTAAGTCG
1 ATCGATCAAATTTGAGTAAATCAGGTCGATTAAGTCG
32967 AT
1 AT
32969 TAATTTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (37 bp):
ATCGATCAAATTTGAGTAAATCAGGTCGATTAAGTCG
Found at i:35021 original size:428 final size:422
Alignment explanation
Indices: 34183--34985 Score: 1020
Period size: 429 Copynumber: 1.9 Consensus size: 422
34173 GTGGGGCCAT
* * * *
34183 TCTCCATAAAGAAATATTTTTTTGTTGGATTATTTATCGAATGATTCTTAGACTTTTATGCTTTA
1 TCTCCATAAAGAAATATTTTTTTGCTGGATTATTTATCAAATGATCCTCAGACTTTTATGCTTTA
*
34248 TACTATTTAATCCTTTACAATTATGGGTTTGACAATTTAACGCGTCGGCTTTTATTTTTGTATTT
66 TACTATTTAATCCTTTACAATTATGGGTTTGACAATTTAACGCATCGGCTTTTATTTTTGTATTT
* *
34313 TTGTTCTATTTGTCCGATTAAGGTGATTCAAGTGTCTATTAAAAGGTAATTTTATGATATACAAC
131 TTGTTCTATTTGTCCGATTAAGGTAATTCAAGTGTCTATTAAAAGGTAATTTCATGATATACAAC
* * * **
34378 TTTCATGCAGAACTCAAAATCCAATTTTAATGTTTTGATTCTAAAAAATGCTTATGAAATTTTGT
196 CTTCATGAAGAACTCAAAAGCCAATTTTAATGTTTTGATTCTAAAAAATGCTTACCAAATTTTGT
* * *
34443 GATCTCGATTGCCGATATTATATAATTTTCGGTCCAATTATCTGATTGAGGTTGTTCAAGTATAG
261 GATCTCGATTGCCGATATTATATAATTTTCGATCCAATTATCCGATTGAGGTTATTCAAGTATAG
** * * *
34508 GTTAAAAGGTTATTGTGTGATCTACGACTTTCGTCAAGGGCCTGAAAGTTGAACTTGATTAATGA
326 GTTAAAAGGTTATTGCATGATCTACGACTTTCATCAAGGACCTAAAAGTT--ACTTGATTAATGA
34573 GTTTCTTGAAGAGTTCAAGAGGGAATTTTTATGTTTGC
389 G--T-TT-AAGAGTTCAAGAGGGAATTTTTATGTTTGC
* * *
34611 TCTCCATAAATAAATATTTTTTTGCTGGATTATTTATCAAATGATCCTCATATTTTTATGCTTTA
1 TCTCCATAAAGAAATATTTTTTTGCTGGATTATTTATCAAATGATCCTCAGACTTTTATGCTTTA
* * *
34676 TGCTATTTAATCCTTTATAATTAT-GGTTTGGACGATTTAACGCATCGGCTTTTATTTTTGTATT
66 TACTATTTAATCCTTTACAATTATGGGTTT-GACAATTTAACGCATCGGCTTTTATTTTTGTA-T
* * *
34740 TTTTGTTCTATTTGTCCGATTAAGGTAATTCAAGTGTCTATTAAAATGTGATTTCATGATCTACA
129 TTTTGTTCTATTTGTCCGATTAAGGTAATTCAAGTGTCTATTAAAAGGTAATTTCATGATATACA
* *
34805 ACCTTCATGAAGAACTCAGAAGCCAATTTTAATGTTTTGATTCTAAAAAATGGTT-CCACAATTT
194 ACCTTCATGAAGAACTCAAAAGCCAATTTTAATGTTTTGATTCTAAAAAATGCTTACCA-AATTT
* * * * * * *
34869 TGTGGTTTCGATTGATGGTCTATTTAATATCGTATAATTTTCGATCCACA-TGTCCGATTGATGT
258 TGTGATCTCGA-T--T-GCCGA--T-AT-T-ATATAATTTTCGATCCA-ATTATCCGATTGAGGT
* * * * *
34933 TATTCAAGTGTTGGTTAAAA-GTTATTGCATGATCTGCGACTTTTATGAAGGAC
313 TATTCAAGTATAGGTTAAAAGGTTATTGCATGATCTACGACTTTCATCAAGGAC
34986 TCAAAAGCTT
Statistics
Matches: 320, Mismatches: 42, Indels: 17
0.84 0.11 0.04
Matches are distributed among these distances:
427 5 0.02
428 111 0.35
429 125 0.39
430 1 0.00
432 1 0.00
433 3 0.01
435 1 0.00
436 2 0.01
437 27 0.08
438 43 0.13
439 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (422 bp):
TCTCCATAAAGAAATATTTTTTTGCTGGATTATTTATCAAATGATCCTCAGACTTTTATGCTTTA
TACTATTTAATCCTTTACAATTATGGGTTTGACAATTTAACGCATCGGCTTTTATTTTTGTATTT
TTGTTCTATTTGTCCGATTAAGGTAATTCAAGTGTCTATTAAAAGGTAATTTCATGATATACAAC
CTTCATGAAGAACTCAAAAGCCAATTTTAATGTTTTGATTCTAAAAAATGCTTACCAAATTTTGT
GATCTCGATTGCCGATATTATATAATTTTCGATCCAATTATCCGATTGAGGTTATTCAAGTATAG
GTTAAAAGGTTATTGCATGATCTACGACTTTCATCAAGGACCTAAAAGTTACTTGATTAATGAGT
TTAAGAGTTCAAGAGGGAATTTTTATGTTTGC
Found at i:40930 original size:145 final size:145
Alignment explanation
Indices: 40667--40958 Score: 539
Period size: 145 Copynumber: 2.0 Consensus size: 145
40657 CAAAGGATTA
* * *
40667 TTACCTCGGTAGACTTTTTCTCACAGAAATTGCTAAGGTGAAGAATCTGACTGATGTCTTTGGCA
1 TTACCTCGGTACACTTTTTCTCACAGAAATGGCTAAGGTGAAGAATCTGACTGATCTCTTTGGCA
* *
40732 AAAACTCGCCAAAGGATATTCGTTGCAAAACACTAAAAGGTCACGCTAGTTTTCATATGGACATA
66 AAAACTCGCCAAAGGATATTCGTTGCAAAACACAAAAAGGCCACGCTAGTTTTCATATGGACATA
40797 CCTTGAGATTATATT
131 CCTTGAGATTATATT
40812 TTACCTCGGTACACTTTTTCTCACAGAAATGGCTAAGGTGAAGAATCTGACTGATCTCTTTGGCA
1 TTACCTCGGTACACTTTTTCTCACAGAAATGGCTAAGGTGAAGAATCTGACTGATCTCTTTGGCA
40877 AAAACTCGCCAAAGGATATTCGTTGCAAAACACAAAAAGGCCACGCTAGTTTTCATATGGACATA
66 AAAACTCGCCAAAGGATATTCGTTGCAAAACACAAAAAGGCCACGCTAGTTTTCATATGGACATA
40942 CCTTGAGATTATATT
131 CCTTGAGATTATATT
40957 TT
1 TT
40959 TTCTGTAAGG
Statistics
Matches: 142, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 142 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (145 bp):
TTACCTCGGTACACTTTTTCTCACAGAAATGGCTAAGGTGAAGAATCTGACTGATCTCTTTGGCA
AAAACTCGCCAAAGGATATTCGTTGCAAAACACAAAAAGGCCACGCTAGTTTTCATATGGACATA
CCTTGAGATTATATT
Found at i:43144 original size:934 final size:911
Alignment explanation
Indices: 41695--43719 Score: 2921
Period size: 934 Copynumber: 2.2 Consensus size: 911
41685 AATTAATTGG
* * *** *
41695 ATTAGGATTATAGACCCAAAGGATTATCACCTCGGCAAACTTCTTCTCACAGATTCGGTTAAGCT
1 ATTAGGATTATAAACCCAAAGGATTATCACCTCGGC-AACTTCTTCTCATAGAAAAGGTTAAGGT
** * ** * *
41760 GAAGAATGTGAACTAATGCCTTTAACAAAAACTCACCAAAGGATATTCGTTACAAAACACTAAAA
65 TTAGAATCTG-ACTAATGCCTTTGGCAAAAACTCACCAAAGGATAATCGTT-------GC-AAAA
* * * *
41825 CACTAATAGTTTACACTAGTTTTCATATGGATGTATCTTAAGATTATATTTTTTCTGTAAGGAAT
121 CACTAATAGGTTACACTAGTTTTTATATGGATGTACCTTAAGATTACATTTTTTCTGTAAGGAAT
* * *
41890 ACCGAAATGAGCTTATGTACATGTACAAAACACCCAAGCTAATGCGAAAGCTATACACAACAGAA
186 ACCGAAATAAGCTTATATACATGTACAAAACACCCAAGCTAATGCGAAAGCTATACACAACAAAA
*
41955 ATGCTACAACAGGCTCCTTACAAGAAAGACCAAGAGTTGCATCTAGAATCACCATTCTTGTATCT
251 ATGCTACAACAGGCTCCTTACAAGAAAGACCAAGAGTTGCATCTAAAATCACCATTCTTGTATCT
* * * *
42020 ATACTAAGATAATGATAGCAATAAGCATCCTCCTATTCGGTAAAGCTGCAACGTTGTCTGTAAAC
316 ATACTAAGACAATGACAACAATAAGCATCCTCCTATTCGGTAAAGCTGCAACGTTGTCTCTAAAC
* * * *
42085 AATATGCAGGGATAAAATAAACCTTTTAAAATTGAAACAATATTATATATATATATATTAATAAA
381 AATACGCAGGGACAAAATAAACCTTTTAAAACTAAAACAATATTATATATATATATATTAATAAA
* * *
42150 GAATTGTAATAATGATAAATTCTCAACGCAACAAATTGCAATAATAAAACTATTCATAGCTACAA
446 AAATTGTAATAATGATAAATTCTCAACACAACAAAATGCAATAATAAAACTATTCATAGCTACAA
* *
42215 GAAAAATACTGAACGAACAAAACTAGTTGGTAAAAACAAATGTCTTTTTTTTGTTAGTTATTATC
511 GAAAAATACTGAACGAACAAAACTAGTTGGTAAAAACAAATGTCTTTTTTTTGGTAGCTATTATC
42280 TTTATGTTTCTCTAATTGTTTTTTCTTTGTTCTTAACAAGTTACTTTGTTAAAACAAAACAATGA
576 TTTATGTTTCTCTAATT-TTTTTT-TTTGTTCTTAACAAGTTACTTTGTTAAAACAAAACAATGA
* *
42345 TTGTTATGTCTGTTATTGTTCAGTGTATTGGTTTGATTCAGAGCTTTTGGAGGAGCTTAAAGAAT
639 TTGTTAAGTCTGTTATTGTTCAGTGTATTGGTTTGATTCAGAGCTTTGGGAGGAGCTTAAAGAAT
* * * * *
42410 AGAAACTGAAGTTTTAAAAAATAAAAATTTTAGCTCTGATATTTTGCCTTGTGAATTTTTTATTA
704 AAAAACTGAAGCTCT----AAT----ATATTAGCTATGATATTTTGCCTTGTGAATTTTTTATTA
42475 TATTTACAGGTAAAAAGATCATAAAAATATATCTATGACTCTTTTAAGGACAATGTATTCGACTG
761 TA-TTACAGGT-AAAAGATCATAAAAATATATCTATGACTCTTTTAAGGACAATGTATTCGACTG
* * * *
42540 AGGAATGCTGAAAATTATAATTGGTAGTTTTAA-GGTTTGTTGGAGTTTAAGTGATTTTAAATTT
824 AGGAATGCTAAAAATTATAATTGGTAG-TGTAAGGGTCTGTTGGAGTTTAAGTGATCTTAAATTT
*
42604 TTGGATTTAAAGTAATATTAACTAA
888 TTGGATCTAAAGTAATATTAACT-A
*
42629 ATTAGGATTATAAACCCAAAGGATTATAACCTCGGCAGACTTCTTCTCATAGAAAAGGTTAAGGT
1 ATTAGGATTATAAACCCAAAGGATTATCACCTCGGCA-ACTTCTTCTCATAGAAAAGGTTAAGGT
*
42694 TTAGAATCTGACTAATGCCTTTGGCAAAAACTCGCCAAAGGATAATCGTTGCAAAACACTAATAG
65 TTAGAATCTGACTAATGCCTTTGGCAAAAACTCACCAAAGGATAATCGTTGCAAAACACTAATAG
42759 GTTACACTAGTTTTTATATGGATGTACCTTAAGATTACATTTTTTCTGTAAGGAATACCGAAATA
130 GTTACACTAGTTTTTATATGGATGTACCTTAAGATTACATTTTTTCTGTAAGGAATACCGAAATA
*
42824 AGCTTATATACATGTTACAAAAC-CCCTAAGCTAATGCGAAAGCTGTACACAACAAAAATGCTAC
195 AGCTTATATACATG-TACAAAACACCC-AAGCTAATGCGAAAGCTATACACAACAAAAATGCTAC
*
42888 AACAGGCTCCTTACAAGAAAGACCAAGAGTTGCATCTAAAATCACCATTCTTGTATTTATACTAA
258 AACAGGCTCCTTACAAGAAAGACCAAGAGTTGCATCTAAAATCACCATTCTTGTATCTATACTAA
* *
42953 GACAATGACAACACTAAGCATTCTCCCATGTACTATCGTTTGGTAAAGCTGCAACGTTGTCTCTA
323 GACAATGACAACAATAAGCATCCT-CC---TA-T-TC----GGTAAAGCTGCAACGTTGTCTCTA
* *
43018 AACAATACGCAGGGACAAACA-AAA-CTTTTACAACTAAAACAATA-TATATATATATATATTTA
378 AACAATACGCAGGGACAAA-ATAAACCTTTTAAAACTAAAACAATATTATATATATATATATTAA
43080 TAAAAAATTGTAATAATGATAAATTCTCAACACAACAAAATGCAATAATAAAACTATTCATAGCT
442 TAAAAAATTGTAATAATGATAAATTCTCAACACAACAAAATGCAATAATAAAACTATTCATAGCT
43145 ACAAGAAAAATACTGAACGAACAAAACTAGTTGGTAAAAACAAATGTCTTTTTTTTGGTAGCTAT
507 ACAAGAAAAATACTGAACGAACAAAACTAGTTGGTAAAAACAAATGTCTTTTTTTTGGTAGCTAT
*
43210 TATCTTTATGTTTCTCTAGTTTTTTTTTTTGTTCTTAACAAGTTACTTTGTTAAAACAAAACAAT
572 TATCTTTATGTTTCTCTAATTTTTTTTTTTGTTCTTAACAAGTTACTTTGTTAAAACAAAACAAT
* * * * *
43275 GATTGTTAAGTTTGTTCTTGTTCGGTGTATTGGTTTGATTCAGGGCTTTGGGAGGAGCTTAAAGT
637 GATTGTTAAGTCTGTTATTGTTCAGTGTATTGGTTTGATTCAGAGCTTTGGGAGGAGCTTAAAGA
* ** * *
43340 ATAAAAATTGTGGCTCTGATATATTGGCTATGATATTTTGCCTTGTGAATTTTTTATTATATTAC
702 ATAAAAACTGAAGCTCTAATATATTAGCTATGATATTTTGCCTTGTGAATTTTTTATTATATTAC
* *
43405 AGGTAAAAGATCATAAAAATTTATCTATGACTCTTTTAAGGACAATGTATTCGATTGAGGAATGC
767 AGGTAAAAGATCATAAAAATATATCTATGACTCTTTTAAGGACAATGTATTCGACTGAGGAATGC
* * *
43470 TAAAAATTGTAATTTGTAGTGTAAGGGTCTGTTGGAGTTTAAGTGATCTTAAATTTTTTGATCTA
832 TAAAAATTATAATTGGTAGTGTAAGGGTCTGTTGGAGTTTAAGTGATCTTAAATTTTTGGATCTA
*
43535 AATTAATATTAACTA
897 AAGTAATATTAACTA
*
43550 ATTAAGGATTATAAACCCAAAGGATTATCACCTCGACAACTTCTTCTCATA-AAAAGGGTTAAGG
1 ATT-AGGATTATAAACCCAAAGGATTATCACCTCGGCAACTTCTTCTCATAGAAAA-GGTTAAGG
*
43614 TTTAGAATCTGGCTAATGCCTTTGGCAAAAACTCACCAAAGGATAATCGTTGCAAAACACTTAA-
64 TTTAGAATCTGACTAATGCCTTTGGCAAAAACTCACCAAAGGATAATCGTTGCAAAACAC-TAAT
* * * ** *
43678 AGGTCACGCTAGTTTTTATATAGACATACCTTGAGATTACAT
128 AGGTTACACTAGTTTTTATATGGATGTACCTTAAGATTACAT
43720 AACAGAAATG
Statistics
Matches: 992, Mismatches: 81, Indels: 49
0.88 0.07 0.04
Matches are distributed among these distances:
920 4 0.00
921 123 0.12
922 159 0.16
923 8 0.01
924 38 0.04
925 89 0.09
926 126 0.13
927 2 0.00
928 2 0.00
930 2 0.00
931 1 0.00
932 109 0.11
933 43 0.04
934 225 0.23
935 17 0.02
936 43 0.04
937 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (911 bp):
ATTAGGATTATAAACCCAAAGGATTATCACCTCGGCAACTTCTTCTCATAGAAAAGGTTAAGGTT
TAGAATCTGACTAATGCCTTTGGCAAAAACTCACCAAAGGATAATCGTTGCAAAACACTAATAGG
TTACACTAGTTTTTATATGGATGTACCTTAAGATTACATTTTTTCTGTAAGGAATACCGAAATAA
GCTTATATACATGTACAAAACACCCAAGCTAATGCGAAAGCTATACACAACAAAAATGCTACAAC
AGGCTCCTTACAAGAAAGACCAAGAGTTGCATCTAAAATCACCATTCTTGTATCTATACTAAGAC
AATGACAACAATAAGCATCCTCCTATTCGGTAAAGCTGCAACGTTGTCTCTAAACAATACGCAGG
GACAAAATAAACCTTTTAAAACTAAAACAATATTATATATATATATATTAATAAAAAATTGTAAT
AATGATAAATTCTCAACACAACAAAATGCAATAATAAAACTATTCATAGCTACAAGAAAAATACT
GAACGAACAAAACTAGTTGGTAAAAACAAATGTCTTTTTTTTGGTAGCTATTATCTTTATGTTTC
TCTAATTTTTTTTTTTGTTCTTAACAAGTTACTTTGTTAAAACAAAACAATGATTGTTAAGTCTG
TTATTGTTCAGTGTATTGGTTTGATTCAGAGCTTTGGGAGGAGCTTAAAGAATAAAAACTGAAGC
TCTAATATATTAGCTATGATATTTTGCCTTGTGAATTTTTTATTATATTACAGGTAAAAGATCAT
AAAAATATATCTATGACTCTTTTAAGGACAATGTATTCGACTGAGGAATGCTAAAAATTATAATT
GGTAGTGTAAGGGTCTGTTGGAGTTTAAGTGATCTTAAATTTTTGGATCTAAAGTAATATTAACT
A
Done.