Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01018829.1 Corchorus olitorius cultivar O-4 contig18862, 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: 31446
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Found at i:1106 original size:3 final size:3
Alignment explanation
Indices: 1100--1174 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
1090 ATAATTTTAC
1100 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1148 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1175 CATAAGAAGT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1259 original size:15 final size:15
Alignment explanation
Indices: 1239--1267 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1229 ATACATCAAA
1239 GTAAGTCTTGATTCG
1 GTAAGTCTTGATTCG
1254 GTAAGTCTTGATTC
1 GTAAGTCTTGATTC
1268 ATGAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (15 bp):
GTAAGTCTTGATTCG
Found at i:1443 original size:24 final size:24
Alignment explanation
Indices: 1411--1461 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
1401 CTACTACTAA
*
1411 TAATTATTATAATAATAAGAA-GTT
1 TAATAATTATAATAATAA-AAGGTT
*
1435 TAATAATTATAATGATAAAAGGTT
1 TAATAATTATAATAATAAAAGGTT
1459 TAA
1 TAA
1462 CGTAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (24 bp):
TAATAATTATAATAATAAAAGGTT
Found at i:4025 original size:97 final size:99
Alignment explanation
Indices: 3866--4049 Score: 273
Period size: 98 Copynumber: 1.9 Consensus size: 99
3856 CAAAACTATT
* * *
3866 ATTATATTTTAATAATGGCATAGTTAAATATAGATTAATAATGACAATTTAAAAATATATTTGAA
1 ATTATATTTTAATAATGACATAATTAAATATAGATTAATAATGACAATTTAAAAATACATTTGAA
3931 AAAAAT-AGTACAATCGGAAAAAAAATACATAAA
66 AAAAATGAGTACAATCGGAAAAAAAATACATAAA
** * *
3964 ATTATATTTTAATAATGACATAATTAAA-ATATTTTAATAATGGCAATTTAGAAATACATTTGAA
1 ATTATATTTTAATAATGACATAATTAAATATAGATTAATAATGACAATTTAAAAATACATTTGAA
* *
4028 AAAAATGGGTATAATCGGAAAA
66 AAAAATGAGTACAATCGGAAAA
4050 CATAAAGTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
97 37 0.49
98 39 0.51
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (99 bp):
ATTATATTTTAATAATGACATAATTAAATATAGATTAATAATGACAATTTAAAAATACATTTGAA
AAAAATGAGTACAATCGGAAAAAAAATACATAAA
Found at i:7035 original size:5 final size:5
Alignment explanation
Indices: 7008--7057 Score: 72
Period size: 5 Copynumber: 10.8 Consensus size: 5
6998 AGTCAAAGGT
7008 TTATC TTA-C -TATC TTA-C -TATC TTATC TTATC TTATC TTATC TTATC
1 TTATC TTATC TTATC TTATC TTATC TTATC TTATC TTATC TTATC TTATC
7054 TTAT
1 TTAT
7058 TACTATATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
3 4 0.10
4 4 0.10
5 33 0.80
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.58
Consensus pattern (5 bp):
TTATC
Found at i:7713 original size:118 final size:118
Alignment explanation
Indices: 7505--7737 Score: 403
Period size: 118 Copynumber: 2.0 Consensus size: 118
7495 TGGAAGAACA
* * ** *
7505 TCCACCACAACCATGAATATTGTTTTGAGGAAGTTCAAGTCTTTAAATTTTCCACTTCAAACCAA
1 TCCACCACAACCATGAATATTGTTTTGAAGAAGTTCAAGTCCTTAAATTTTCCACCCCAAACAAA
7570 CTCTTCCAATAAAAATAGTATAAATTACTCATTAATTCTTAGATCCCAAATGC
66 CTCTTCCAATAAAAATAGTATAAATTACTCATTAATTCTTAGATCCCAAATGC
* *
7623 TCCACCACAACCATGAATATTGTTTTGAAGAATTTCAAGTCCTTGAATTTTCCACCCCAAACAAA
1 TCCACCACAACCATGAATATTGTTTTGAAGAAGTTCAAGTCCTTAAATTTTCCACCCCAAACAAA
7688 CTCTTCCAATAAAAATAGTATAAATTACTCATTAATTCTTAGATCCCAAA
66 CTCTTCCAATAAAAATAGTATAAATTACTCATTAATTCTTAGATCCCAAA
7738 CACGTTAAAA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 108 1.00
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (118 bp):
TCCACCACAACCATGAATATTGTTTTGAAGAAGTTCAAGTCCTTAAATTTTCCACCCCAAACAAA
CTCTTCCAATAAAAATAGTATAAATTACTCATTAATTCTTAGATCCCAAATGC
Found at i:8446 original size:42 final size:43
Alignment explanation
Indices: 8395--8488 Score: 129
Period size: 45 Copynumber: 2.2 Consensus size: 43
8385 AATCAATTAC
*
8395 CTAA-ATTCTA-CTCCATCTCTAGGTAATTCATCAAAATAAAA
1 CTAATATTCTACCTCCATCTCTAGATAATTCATCAAAATAAAA
*
8436 CTAATATTCTACTCCTCCATCTCTAGATAATTCATCAAAATAAAG
1 CTAATATTCTA--CCTCCATCTCTAGATAATTCATCAAAATAAAA
*
8481 TTAATATT
1 CTAATATT
8489 AATTGTTGCT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
41 4 0.09
42 6 0.13
45 36 0.78
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.35
Consensus pattern (43 bp):
CTAATATTCTACCTCCATCTCTAGATAATTCATCAAAATAAAA
Found at i:11099 original size:36 final size:36
Alignment explanation
Indices: 10990--11099 Score: 140
Period size: 36 Copynumber: 3.2 Consensus size: 36
10980 GCTGACAAGA
10990 TTATATACGAGTTGTGATGTTTCAGTACTTTGTGAT
1 TTATATACGAGTTGTGATGTTTCAGTACTTTGTGAT
** * *
11026 TTATATTACG-GAAG-AATGTTTCA--AGTTTGT-AT
1 TTATA-TACGAGTTGTGATGTTTCAGTACTTTGTGAT
11058 TTATATACGAGTTGTGATGTTTCAGTACTTTGTGAT
1 TTATATACGAGTTGTGATGTTTCAGTACTTTGTGAT
11094 TTATAT
1 TTATAT
11100 TATATATGAG
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
31 4 0.07
32 9 0.15
33 14 0.23
35 14 0.23
36 15 0.25
37 4 0.07
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.47
Consensus pattern (36 bp):
TTATATACGAGTTGTGATGTTTCAGTACTTTGTGAT
Found at i:11800 original size:22 final size:22
Alignment explanation
Indices: 11775--11834 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
11765 TAATCCCTAA
* * * *
11775 GAAATTTCGATAACTTTTTTAT
1 GAAATTTTGATAACCTCTATAT
*
11797 GAAATTTTGGTAACCTCTATAT
1 GAAATTTTGATAACCTCTATAT
11819 GAAATTTTGATAACCT
1 GAAATTTTGATAACCT
11835 TCTCATTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (22 bp):
GAAATTTTGATAACCTCTATAT
Found at i:15421 original size:48 final size:48
Alignment explanation
Indices: 15324--15421 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 48
15314 GTGAGGAGGC
* * *
15324 GGTGACTTCGAGTAATATGGAGGAGGAGGCGATGGTGAAGGAGGTGGA
1 GGTGACTTAGAGTAATATGGAGGAGGAGGCGATGGGGAAGGAGGCGGA
* * *
15372 GGTGACTTATAGTAATATGGAGGTGGAGGTGATGGGGAA-GACGGCGGA
1 GGTGACTTAGAGTAATATGGAGGAGGAGGCGATGGGGAAGGA-GGCGGA
15420 GG
1 GG
15422 AGATTTGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 2 0.05
48 41 0.95
ACGTcount: A:0.27, C:0.06, G:0.48, T:0.19
Consensus pattern (48 bp):
GGTGACTTAGAGTAATATGGAGGAGGAGGCGATGGGGAAGGAGGCGGA
Found at i:16316 original size:23 final size:22
Alignment explanation
Indices: 16271--16317 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
16261 CTTTTTTATT
16271 TTATTTTATAAGTTCTGTGAAA
1 TTATTTTATAAGTTCTGTGAAA
*
16293 TTATGTTTAATAAGTT-TGTTAAA
1 TTAT-TTT-ATAAGTTCTGTGAAA
16316 TT
1 TT
16318 GTTCGTGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 11 0.50
24 7 0.32
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (22 bp):
TTATTTTATAAGTTCTGTGAAA
Found at i:18007 original size:28 final size:28
Alignment explanation
Indices: 17960--18015 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
17950 TTAACATGTG
17960 TTTCTCTTCCCACATATAATAGGGATAA
1 TTTCTCTTCCCACATATAATAGGGATAA
* * * *
17988 TTTCTCTTTCCATATTTAATAGTGATAA
1 TTTCTCTTCCCACATATAATAGGGATAA
18016 AAATTAGTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (28 bp):
TTTCTCTTCCCACATATAATAGGGATAA
Found at i:19557 original size:48 final size:48
Alignment explanation
Indices: 19505--19690 Score: 131
Period size: 48 Copynumber: 3.9 Consensus size: 48
19495 GGATCGGGTT
* * **
19505 GGTGGTGGAGGAGATTTGTAAACATAGGGAGGAGGAGGTTTTGGAGAC
1 GGTGGAGGAGGAGATTTGTAGACATAGGGAGGAGGAGGTGATGGAGAC
* * * * * *
19553 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGTA-GAGGTGATGGAGAT
1 GGTGGAGGAGGAGATTTGTAGACATAGGGAGG-AGGAGGTGATGGAGAC
* * * * * * * * *
19601 GGTGGGGGAGGTGATTTATAGACGTAGGGAGGTGGAGGGGATCGTGAG
1 GGTGGAGGAGGAGATTTGTAGACATAGGGAGGAGGAGGTGATGGAGAC
* * * * * *
19649 GGAGGAGGAGGGGACTTGTAAACATAAGGAGGCGGAGGTGAT
1 GGTGGAGGAGGAGATTTGTAGACATAGGGAGGAGGAGGTGAT
19691 TTTGATGGTG
Statistics
Matches: 103, Mismatches: 33, Indels: 4
0.74 0.24 0.03
Matches are distributed among these distances:
48 102 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.05, G:0.49, T:0.20
Consensus pattern (48 bp):
GGTGGAGGAGGAGATTTGTAGACATAGGGAGGAGGAGGTGATGGAGAC
Found at i:19617 original size:96 final size:96
Alignment explanation
Indices: 19504--19731 Score: 240
Period size: 96 Copynumber: 2.4 Consensus size: 96
19494 GGGATCGGGT
* *** * * *
19504 TGGTGGTGGAGGAGATTTGTAAACATAGGGAGGAGGAGGTTTTGGAGACGGTGGAGGTGGGGACT
1 TGGTGGTGGAGGAGATTTGTAAACGTAGGGAGGAGGAGGGGATCGAGACGGAGGAGGAGGGGACT
* * *
19569 TGTAGACATAAGGTGGTAGAGGTGATGGAGA
66 TGTAAACATAAGGAGGCAGAGGTGATGGAGA
* * * * * * *
19600 TGGTGGGGGAGGTGATTTATAGACGTAGGGAGGTGGAGGGGATCGTGAGGGAGGAGGAGGGGACT
1 TGGTGGTGGAGGAGATTTGTAAACGTAGGGAGGAGGAGGGGATCGAGACGGAGGAGGAGGGGACT
* ***
19665 TGTAAACATAAGGAGGCGGAGGTGATTTTGA
66 TGTAAACATAAGGAGGCAGAGGTGATGGAGA
* * *
19696 TGGTGGTGGTGGGGATTTGTAAACGTATGGAGGAGG
1 TGGTGGTGGAGGAGATTTGTAAACGTAGGGAGGAGG
19732 TGGTGAATGA
Statistics
Matches: 104, Mismatches: 28, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
96 104 1.00
ACGTcount: A:0.25, C:0.04, G:0.48, T:0.23
Consensus pattern (96 bp):
TGGTGGTGGAGGAGATTTGTAAACGTAGGGAGGAGGAGGGGATCGAGACGGAGGAGGAGGGGACT
TGTAAACATAAGGAGGCAGAGGTGATGGAGA
Found at i:19710 original size:48 final size:48
Alignment explanation
Indices: 19655--19788 Score: 142
Period size: 48 Copynumber: 2.8 Consensus size: 48
19645 TGAGGGAGGA
* * * * *
19655 GGAGGGGACTTGTAAACATAAGGAGGCGGAGGTGATTTTGATGGTGGT
1 GGAGGGGACTTGTAAACGTAAGGAGGAGGTGGTGATTTAGATGGCGGT
* * * * *
19703 GGTGGGGATTTGTAAACGTATGGAGGAGGTGGTGAATGAGATGGCGGT
1 GGAGGGGACTTGTAAACGTAAGGAGGAGGTGGTGATTTAGATGGCGGT
* * * *
19751 GGAGGTGACTTGTATACGTAAGTAGGTGGTGGTGATTT
1 GGAGGGGACTTGTAAACGTAAGGAGGAGGTGGTGATTT
19789 GTACTTATGT
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.23, C:0.05, G:0.44, T:0.28
Consensus pattern (48 bp):
GGAGGGGACTTGTAAACGTAAGGAGGAGGTGGTGATTTAGATGGCGGT
Found at i:19770 original size:144 final size:143
Alignment explanation
Indices: 19466--19779 Score: 312
Period size: 144 Copynumber: 2.2 Consensus size: 143
19456 AGGAGGAGGT
* ** * * *
19466 GGTGACTTGTAGTA-GTATGGAGGTGGAGGGGATCGGGTTGGTGGTGGAGGAGATTTGTAAACAT
1 GGTGACTTGTA-TACGTAAGGAGGTGGAGGGGATCGGGAGGGAGGAGGAGGAGACTTGTAAACAT
* * *
19530 AGGGAGGAGGAGGTTTTGGAGACGGTGGAGGTGGGGACTTGTAGACATAAGGTGGTAGAGGTGAT
65 AAGGAGGAGGAGGTTTT-GAGACGGTGGAGGTGGGGACTTGTAAACATAAGGAGGTAGAGGTGAT
*
19595 GGAGATGGTGGGGGA
129 GGAGATGGCGGGGGA
* * * * * *
19610 GGTGATTTATAGACGTAGGGAGGTGGAGGGGATCGTGAGGGAGGAGGAGGGGACTTGTAAACATA
1 GGTGACTTGTATACGTAAGGAGGTGGAGGGGATCGGGAGGGAGGAGGAGGAGACTTGTAAACATA
* * * * * * * *
19675 AGGAGGCGGAGGTGATTT-TGATGGTGGTGGTGGGGATTTGTAAACGTATGGAGG-AGGTGGTGA
66 AGGAGGAGGAGGT--TTTGAGACGGTGGAGGTGGGGACTTGTAAACATAAGGAGGTA-GAGGTG-
*
19738 AT-GAGATGGCGGTGGA
127 ATGGAGATGGCGGGGGA
*
19754 GGTGACTTGTATACGTAAGTAGGTGG
1 GGTGACTTGTATACGTAAGGAGGTGG
19780 TGGTGATTTG
Statistics
Matches: 136, Mismatches: 29, Indels: 10
0.78 0.17 0.06
Matches are distributed among these distances:
143 2 0.01
144 129 0.95
145 2 0.01
146 3 0.02
ACGTcount: A:0.24, C:0.05, G:0.48, T:0.24
Consensus pattern (143 bp):
GGTGACTTGTATACGTAAGGAGGTGGAGGGGATCGGGAGGGAGGAGGAGGAGACTTGTAAACATA
AGGAGGAGGAGGTTTTGAGACGGTGGAGGTGGGGACTTGTAAACATAAGGAGGTAGAGGTGATGG
AGATGGCGGGGGA
Found at i:25836 original size:22 final size:22
Alignment explanation
Indices: 25806--26047 Score: 102
Period size: 22 Copynumber: 11.0 Consensus size: 22
25796 TCCAACGTAG
*
25806 AAATATTGATAACCACACTGTGA
1 AAAT-TTGATAACCACACTATGA
* *
25829 AAATTTGATAACCTCATTATG-
1 AAATTTGATAACCACACTATGA
*** *
25850 AAATTTCGATAACCTTTCTATAA
1 AAATTT-GATAACCACACTATGA
*
25873 AAATTTGATAACCACACTGTG-
1 AAATTTGATAACCACACTATGA
* * *
25894 AAGTATTGATAACTATACTATGA
1 AAAT-TTGATAACCACACTATGA
* ** *
25917 AATTTTGATAACCTGGA-TGTG-
1 AAATTTGATAACC-ACACTATGA
* *** *
25938 AAATTTAAATAATTTTC-TTATGA
1 AAATTT-GATAA-CCACACTATGA
* *
25961 AATTTTGATAATCACACTAT-A
1 AAATTTGATAACCACACTATGA
* *
25982 AAA-TTGGTAACCACGCTATGA
1 AAATTTGATAACCACACTATGA
* *
26003 AAATTTTGATAACCACACCATGG
1 AAA-TTTGATAACCACACTATGA
* * * *
26026 AATTTTAATAACCTCCCTATGA
1 AAATTTGATAACCACACTATGA
26048 GAATGAAACT
Statistics
Matches: 159, Mismatches: 47, Indels: 27
0.68 0.20 0.12
Matches are distributed among these distances:
20 13 0.08
21 23 0.14
22 88 0.55
23 35 0.22
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.34
Consensus pattern (22 bp):
AAATTTGATAACCACACTATGA
Found at i:25917 original size:66 final size:67
Alignment explanation
Indices: 25806--25930 Score: 177
Period size: 66 Copynumber: 1.9 Consensus size: 67
25796 TCCAACGTAG
25806 AAATATTGATAACCACACTGTGAAAATTTGATAACCTCATTATGAAATTTCGATAACCTTTCTAT
1 AAATATTGATAACCACACTGTGAAAATTTGATAACCTCATTATGAAATTTCGATAACCTTTCTAT
25871 AA
66 AA
* *
25873 AAAT-TTGATAACCACACTGTG-AAGTATTGATAA-CT-ATACTATGAAATTTTGATAACCT
1 AAATATTGATAACCACACTGTGAAAAT-TTGATAACCTCAT--TATGAAATTTCGATAACCT
25931 GGATGTGAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
64 2 0.04
65 5 0.09
66 42 0.79
67 4 0.08
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.34
Consensus pattern (67 bp):
AAATATTGATAACCACACTGTGAAAATTTGATAACCTCATTATGAAATTTCGATAACCTTTCTAT
AA
Found at i:26189 original size:26 final size:22
Alignment explanation
Indices: 26160--26413 Score: 123
Period size: 22 Copynumber: 11.4 Consensus size: 22
26150 TGATAAACAT
26160 AAATTTTGATAACCTCTCTCCCTATG
1 AAATTTTGATAACCT-TCT---TATG
*
26186 AAATTTTGTTAACCTTCTTATG
1 AAATTTTGATAACCTTCTTATG
* * *
26208 AAATTTTGATAAACATAC-TATA
1 AAATTTTGAT-AACCTTCTTATG
*
26230 AAATTTCT-ATAACCTTCGTATG
1 AAATTT-TGATAACCTTCTTATG
* ** *
26252 AAATTTT-ATAAACCTCCAAAAG
1 AAATTTTGAT-AACCTTCTTATG
26274 AAATTTTGATAACCTT-TATATG
1 AAATTTTGATAACCTTCT-TATG
* * *
26296 AGATTTTGGTAACAACTGC--ATG
1 AAATTTTGATAAC--CTTCTTATG
* *
26318 AAATTTTGATAA-CTACACTATG
1 AAATTTTGATAACCTTC-TTATG
* * * *
26340 AAGTTTTGATAATCTCCATATG
1 AAATTTTGATAACCTTCTTATG
*
26362 AAATTTTGGTAATAA-C-GC-TATG
1 AAATTTT-G--ATAACCTTCTTATG
*
26384 AAATTTTGATAACCTTCCTATG
1 AAATTTTGATAACCTTCTTATG
*
26406 TAATTTTG
1 AAATTTTG
26414 GTTTGATTGT
Statistics
Matches: 180, Mismatches: 29, Indels: 42
0.72 0.12 0.17
Matches are distributed among these distances:
19 7 0.04
20 1 0.01
21 10 0.06
22 125 0.69
23 13 0.07
24 3 0.02
25 7 0.04
26 14 0.08
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (22 bp):
AAATTTTGATAACCTTCTTATG
Found at i:26319 original size:66 final size:67
Alignment explanation
Indices: 26248--26395 Score: 169
Period size: 66 Copynumber: 2.2 Consensus size: 67
26238 ATAACCTTCG
* ** *
26248 TATGAAATTTT-ATAAACCTCCA-AAAGAAATTTTGATAACCTTTATATGAGATTTTGGTAACAA
1 TATGAAATTTTGATAAA-CTACACAAAGAAATTTTGATAACCTCCATATGAAATTTTGGTAACAA
26311 CTGC
65 C-GC
* * * * *
26315 -ATGAAATTTTGAT-AACTACACTATGAAGTTTTGATAATCTCCATATGAAATTTTGGTAATAAC
1 TATGAAATTTTGATAAACTACACAAAGAAATTTTGATAACCTCCATATGAAATTTTGGTAACAAC
26378 GC
66 GC
26380 TATGAAATTTTGATAA
1 TATGAAATTTTGATAA
26396 CCTTCCTATG
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
65 6 0.09
66 59 0.87
67 3 0.04
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (67 bp):
TATGAAATTTTGATAAACTACACAAAGAAATTTTGATAACCTCCATATGAAATTTTGGTAACAAC
GC
Found at i:26405 original size:66 final size:66
Alignment explanation
Indices: 26275--26413 Score: 176
Period size: 66 Copynumber: 2.1 Consensus size: 66
26265 CTCCAAAAGA
** *
26275 AATTTTGATAACCTTTATATGAGATTTTGGTAACAACTGCATGAAATTTTGATAACTACACTATG
1 AATTTTGATAACCTCCATATGAAATTTTGGTAACAACTGCATGAAATTTTGATAACTACACTATG
26340 -
66 T
* * *
26340 AAGTTTTGATAATCTCCATATGAAATTTTGGTAATAAC-GCTATGAAATTTTGATAACCTTC-CT
1 AA-TTTTGATAACCTCCATATGAAATTTTGGTAACAACTGC-ATGAAATTTTGATAA-CTACACT
26403 ATGT
63 ATGT
26407 AATTTTG
1 AATTTTG
26414 GTTTGATTGT
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
65 4 0.06
66 55 0.86
67 5 0.08
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (66 bp):
AATTTTGATAACCTCCATATGAAATTTTGGTAACAACTGCATGAAATTTTGATAACTACACTATG
T
Found at i:27378 original size:22 final size:21
Alignment explanation
Indices: 27350--27391 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
27340 AAATAGATTT
*
27350 TATTATTCATCAAATATTTTCC
1 TATTATTAAT-AAATATTTTCC
*
27372 TATTATTAATATATATTTTC
1 TATTATTAATAAATATTTTC
27392 ATAATTGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATTAATAAATATTTTCC
Found at i:28672 original size:48 final size:48
Alignment explanation
Indices: 28599--28894 Score: 204
Period size: 48 Copynumber: 6.2 Consensus size: 48
28589 GTAAGAACGA
** * *
28599 GGAGGAGGAGGGGATTGG-GATGGTGGTGGAGGAGATTTGTAAACATAG
1 GGAGGAGGA-GGTTTTGGAGATGGTGGTGGAGGGGACTTGTAAACATAG
* * * * *
28647 GGAGGAGGAGGTTTTGGAGACGGTGGAGGTGGGGACTTGTACACATAA
1 GGAGGAGGAGGTTTTGGAGATGGTGGTGGAGGGGACTTGTAAACATAG
* * * * * * * *
28695 GGTGGTGGAGGTTATGGAGATGGTGGGGGAGGTGATTTATAGACATAG
1 GGAGGAGGAGGTTTTGGAGATGGTGGTGGAGGGGACTTGTAAACATAG
* ** * * * * * *
28743 GGAGGTGGAGTGGATCGCA-AGGGAGGTGGAGGGGACTTGTAAACACAA
1 GGAGGAGGAG-GTTTTGGAGATGGTGGTGGAGGGGACTTGTAAACATAG
* * ** *
28791 GGAGGCGTAGGTGATGGAGATGGTGGTGGAGGGGACTTGTAAACGTAG
1 GGAGGAGGAGGTTTTGGAGATGGTGGTGGAGGGGACTTGTAAACATAG
* * * * *
28839 GGAGGAGGAGGTGATTT--TGATGGTGGTGGTGGGGATTTGTAAACGTAT
1 GGAGGAGGAGGT--TTTGGAGATGGTGGTGGAGGGGACTTGTAAACATAG
28887 GGAGGAGG
1 GGAGGAGG
28895 TGATGAGTGA
Statistics
Matches: 188, Mismatches: 55, Indels: 10
0.74 0.22 0.04
Matches are distributed among these distances:
47 9 0.05
48 175 0.93
49 3 0.02
50 1 0.01
ACGTcount: A:0.25, C:0.05, G:0.48, T:0.22
Consensus pattern (48 bp):
GGAGGAGGAGGTTTTGGAGATGGTGGTGGAGGGGACTTGTAAACATAG
Found at i:28867 original size:96 final size:96
Alignment explanation
Indices: 28598--28927 Score: 267
Period size: 96 Copynumber: 3.4 Consensus size: 96
28588 AGTAAGAACG
* *
28598 AGGAGGAGGAGGGGATTGG-GATGGTGGTGGAGGAGATTTGTAAACATAGGGAGGAGGAGGT--T
1 AGGAGGCGGAGGTGA-TGGAGATGGTGGTGGAGGAGATTTGTAAACATAGGGAGGAGGAGGTGAT
* * *
28660 TTGGAGACGGTGGAGGTGGGGACTTGTACACATA
65 TT--AGACGGTGGTGGTGGGGACTTGTAAACACA
* * * * * * * *
28694 AGGTGGTGGAGGTTATGGAGATGGTGGGGGAGGTGATTTATAGACATAGGGAGGTGGA-GTGGAT
1 AGGAGGCGGAGGTGATGGAGATGGTGGTGGAGGAGATTTGTAAACATAGGGAGGAGGAGGT-GAT
** * * *
28758 CGCA-AGGGAGGTGGAGGGGACTTGTAAACACA
65 -TTAGACGGTGGTGGTGGGGACTTGTAAACACA
* * * *
28790 AGGAGGCGTAGGTGATGGAGATGGTGGTGGAGGGGACTTGTAAACGTAGGGAGGAGGAGGTGATT
1 AGGAGGCGGAGGTGATGGAGATGGTGGTGGAGGAGATTTGTAAACATAGGGAGGAGGAGGTGATT
* * * **
28855 TTGATGGTGGTGGTGGGGATTTGTAAACGTA
66 TAGACGGTGGTGGTGGGGACTTGTAAACACA
* * * * * *
28886 TGGAGGAGGTGATGA-GTGAGATGGCGGTGGAGGTGATTTGTA
1 AGGAGGCGGAGGTGATG-GAGATGGTGGTGGAGGAGATTTGTA
28928 CTTATGTGGC
Statistics
Matches: 181, Mismatches: 45, Indels: 16
0.75 0.19 0.07
Matches are distributed among these distances:
95 6 0.03
96 171 0.94
97 3 0.02
98 1 0.01
ACGTcount: A:0.25, C:0.05, G:0.48, T:0.23
Consensus pattern (96 bp):
AGGAGGCGGAGGTGATGGAGATGGTGGTGGAGGAGATTTGTAAACATAGGGAGGAGGAGGTGATT
TAGACGGTGGTGGTGGGGACTTGTAAACACA
Found at i:28909 original size:48 final size:48
Alignment explanation
Indices: 28599--28927 Score: 157
Period size: 48 Copynumber: 6.9 Consensus size: 48
28589 GTAAGAACGA
** * * * *
28599 GGAGGAGGAGGGGATTGGGATGGTGGTGGAGGAGATTTGTAAACATAG
1 GGAGGAGGAGATGAGTGAGATGGTGGTGGAGGGGATTTGTAAACGTAG
* ** * * * * * * *
28647 GGAGGAGGAGGT-TTTGGAGACGGTGGAGGTGGGGACTTGTACACATAA
1 GGAGGAGGAGATGAGT-GAGATGGTGGTGGAGGGGATTTGTAAACGTAG
* * * * * * * * *
28695 GGTGGTGGAGGTTA-TGGAGATGGTGGGGGAGGTGATTTATAGACATAG
1 GGAGGAGGAGATGAGT-GAGATGGTGGTGGAGGGGATTTGTAAACGTAG
* * * * ** *
28743 GGAGGTGGAG-TG-GATCGCA-AGGGAGGTGGAGGGGACTTGTAAACACAA
1 GGAGGAGGAGATGAG-T-G-AGATGGTGGTGGAGGGGATTTGTAAACGTAG
* * * *
28791 GGAGGCGTAGGTGA-TGGAGATGGTGGTGGAGGGGACTTGTAAACGTAG
1 GGAGGAGGAGATGAGT-GAGATGGTGGTGGAGGGGATTTGTAAACGTAG
* * ** * *
28839 GGAGGAGGAGGTGATTTTGATGGTGGTGGTGGGGATTTGTAAACGTAT
1 GGAGGAGGAGATGAGTGAGATGGTGGTGGAGGGGATTTGTAAACGTAG
* * *
28887 GGAGGAGGTGATGAGTGAGATGGCGGTGGAGGTGATTTGTA
1 GGAGGAGGAGATGAGTGAGATGGTGGTGGAGGGGATTTGTA
28928 CTTATGTGGC
Statistics
Matches: 216, Mismatches: 56, Indels: 18
0.74 0.19 0.06
Matches are distributed among these distances:
47 4 0.02
48 208 0.96
49 4 0.02
ACGTcount: A:0.24, C:0.05, G:0.48, T:0.23
Consensus pattern (48 bp):
GGAGGAGGAGATGAGTGAGATGGTGGTGGAGGGGATTTGTAAACGTAG
Found at i:30144 original size:19 final size:19
Alignment explanation
Indices: 30120--30159 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
30110 CCCAAGTCAA
30120 GATGG-ATTGCGCCACAGAT
1 GATGGAATTGCGCCA-AGAT
30139 GATGGAAATTGCGCCAAGAT
1 GATGG-AATTGCGCCAAGAT
30159 G
1 G
30160 GTCAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 5 0.26
21 9 0.47
ACGTcount: A:0.30, C:0.17, G:0.33, T:0.20
Consensus pattern (19 bp):
GATGGAATTGCGCCAAGAT
Found at i:31046 original size:40 final size:40
Alignment explanation
Indices: 30985--31432 Score: 266
Period size: 42 Copynumber: 10.8 Consensus size: 40
30975 TAAAATCTTG
*
30985 GATGGGATCTTTCCCCT-AATTGAAAGCTTGAAAAAGACTA
1 GATGGGATCTTT-CCCTAAATTGAAAACTTGAAAAAGACTA
* * *
31025 AATGAGATCTTTCCCTAAATTGAAAACTTG--AAA-ACTC
1 GATGGGATCTTTCCCTAAATTGAAAACTTGAAAAAGACTA
* * * *
31062 GACGGGATCTTTCCCTAAATTTAAAAATTTTGAAGAAGACTA
1 GATGGGATCTTTCCCTAAA-TTGAAAA-CTTGAAAAAGACTA
*
31104 GATGGGATCTTTCCCTAAATT-AAAACTTTGAGAAAGAC-A
1 GATGGGATCTTTCCCTAAATTGAAAAC-TTGAAAAAGACTA
** * *
31143 GGATGGGATCTTTCCCTAAATT-AAAACTTTTGAAAACTATTT
1 -GATGGGATCTTTCCCTAAATTGAAAAC--TTGAAAAAGACTA
* * *
31185 GAAGGGATCTTTCCCTAAATT-AAAATCTTTGAAAAATACTTTT
1 GATGGGATCTTTCCCTAAATTGAAAA-C-TTGAAAAAGAC--TA
* * * *
31228 G-TAGGATCCTTCCCTAATTTTGAAATCTTTGAAATAATGACTA
1 GATGGGATCTTTCCCTAA-ATTGAAAAC-TTGAAA-AA-GACTA
* * ** * *
31271 GATGGGATCTTTCCCTAAATTAAAAAACTTTTGAGAACTATTT
1 GATGGGATCTTTCCCTAAATT-GAAAAC--TTGAAAAAGACTA
* * * * *
31314 GAAGGGATCTTTCTCTAAATTAAAAACCTTGAAAAATACTTT
1 GATGGGATCTTTCCCTAAATTGAAAA-CTTGAAAAAGAC-TA
* * * * *
31356 GGTGGGATCTTTCCCTAAATTGAGATCTTTGAAAAAAATACTTT
1 GATGGGATCTTTCCCTAAATTGAAAAC-TTG--AAAAAGAC-TA
* *
31400 GGTGGAATCTTTCCCTAAATTGAAAAACTTGAA
1 GATGGGATCTTTCCCTAAATTG-AAAACTTGAA
31433 TTGAAAACTT
Statistics
Matches: 328, Mismatches: 54, Indels: 50
0.76 0.12 0.12
Matches are distributed among these distances:
37 19 0.06
38 9 0.03
39 8 0.02
40 61 0.19
41 55 0.17
42 67 0.20
43 39 0.12
44 59 0.18
45 11 0.03
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (40 bp):
GATGGGATCTTTCCCTAAATTGAAAACTTGAAAAAGACTA
Found at i:31112 original size:42 final size:41
Alignment explanation
Indices: 30985--31376 Score: 273
Period size: 42 Copynumber: 9.5 Consensus size: 41
30975 TAAAATCTTG
* **
30985 GATGGGATCTTTCCCCT-AATT-GAAAGCTTGAAAAAGACTA
1 GATGGGATCTTT-CCCTAAATTAAAAATTTTGAAAAAGACTA
* * * * *
31025 AATGAGATCTTTCCCTAAATTGAAAA-CTTG--AAA-ACTC
1 GATGGGATCTTTCCCTAAATTAAAAATTTTGAAAAAGACTA
* *
31062 GACGGGATCTTTCCCTAAATTTAAAAATTTTGAAGAAGACTA
1 GATGGGATCTTTCCCTAAA-TTAAAAATTTTGAAAAAGACTA
* *
31104 GATGGGATCTTTCCCTAAATT-AAAACTTTGAGAAAGAC-A
1 GATGGGATCTTTCCCTAAATTAAAAATTTTGAAAAAGACTA
* ** * *
31143 GGATGGGATCTTTCCCTAAATTAAAACTTTTGAAAACTATTT
1 -GATGGGATCTTTCCCTAAATTAAAAATTTTGAAAAAGACTA
* * *
31185 GAAGGGATCTTTCCCTAAATT-AAAATCTTTGAAAAATACTTTT
1 GATGGGATCTTTCCCTAAATTAAAAAT-TTTGAAAAAGAC--TA
* * * **
31228 G-TAGGATCCTTCCCTAATTTTGAAATCTTTGAAATAATGACTA
1 GATGGGATCTTTCCCTAAATTAAAAAT-TTTGAAA-AA-GACTA
* ** * *
31271 GATGGGATCTTTCCCTAAATTAAAAAACTTTTGAGAACTATTT
1 GATGGGATCTTTCCCTAAATT-AAAAA-TTTTGAAAAAGACTA
* * ** * *
31314 GAAGGGATCTTTCTCTAAATTAAAAACCTTGAAAAATACTTT
1 GATGGGATCTTTCCCTAAATTAAAAATTTTGAAAAAGAC-TA
*
31356 GGTGGGATCTTTCCCTAAATT
1 GATGGGATCTTTCCCTAAATT
31377 GAGATCTTTG
Statistics
Matches: 279, Mismatches: 53, Indels: 38
0.75 0.14 0.10
Matches are distributed among these distances:
37 19 0.07
38 9 0.03
39 8 0.03
40 57 0.20
41 56 0.20
42 61 0.22
43 38 0.14
44 19 0.07
45 11 0.04
46 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (41 bp):
GATGGGATCTTTCCCTAAATTAAAAATTTTGAAAAAGACTA
Found at i:31192 original size:81 final size:81
Alignment explanation
Indices: 31012--31295 Score: 242
Period size: 81 Copynumber: 3.5 Consensus size: 81
31002 AATTGAAAGC
* * *
31012 TTGAAAAAGACTA-AATGAGATCTTTCCCTAAATTGAAAAC-TT--GAAAACTCGACGGGATCTT
1 TTGAAGAAGACTAGAA-GGGATCTTTCCCTAAATT-AAAACTTTGAGAAAACACGACGGGATCTT
31073 TCCCTAAATTTAAAAATT
64 TCCCTAAATTTAAAAATT
* * *
31091 TTGAAGAAGACTAGATGGGATCTTTCCCTAAATTAAAACTTTGAGAAAGACAGGATGGGATCTTT
1 TTGAAGAAGACTAGAAGGGATCTTTCCCTAAATTAAAACTTTGAGAAA-ACACGACGGGATCTTT
*
31156 CCCTAAA-TTAAAACTT
65 CCCTAAATTTAAAAATT
* * * * ***
31172 TTGAA-AACTATTTGAAGGGATCTTTCCCTAAATTAAAATCTTTGA-AAAATACTTTTGTAGGAT
1 TTGAAGAA-GACTAGAAGGGATCTTTCCCTAAATTAAAA-CTTTGAGAAAACAC-GACG--GGAT
* **
31235 CCTTCCCT-AATTTTGAAATCT
61 CTTTCCCTAAATTTAAAAAT-T
* *
31256 TTGAAATAATGACTAGATGGGATCTTTCCCTAAATTAAAA
1 TTG-AAGAA-GACTAGAAGGGATCTTTCCCTAAATTAAAA
31296 AACTTTTGAG
Statistics
Matches: 167, Mismatches: 24, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
78 5 0.03
79 31 0.19
80 5 0.03
81 48 0.29
82 28 0.17
83 16 0.10
84 4 0.02
85 2 0.01
86 28 0.17
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.33
Consensus pattern (81 bp):
TTGAAGAAGACTAGAAGGGATCTTTCCCTAAATTAAAACTTTGAGAAAACACGACGGGATCTTTC
CCTAAATTTAAAAATT
Found at i:31325 original size:129 final size:128
Alignment explanation
Indices: 31030--31429 Score: 405
Period size: 129 Copynumber: 3.2 Consensus size: 128
31020 GACTAAATGA
* * * *
31030 GATCTTTCCCTAAATTGAAAAC--TTGAAAAC---TCGACGGGATCTTTCCCTAAATTTAAAAAT
1 GATCTTTCCCTAAATTAAAAACTTTTGAAAACTATTTGAAGGGATCTTTCCCTAAA-TTAAAAAC
* * * * * * * * * *
31090 TTTGAAGAAGAC-TAGATGGGATCTTTCCCTAAATT-AAAACTTTG--AGAAAGAC--AGGATGG
65 CTTGAAAAATACTTTGGTAGGATCCTTCCCTAAATTGAAATCTTTGAAAAAAATACTTA-GATGG
* *
31149 GATCTTTCCCTAAATT-AAAACTTTTGAAAACTATTTGAAGGGATCTTTCCCTAAATTAAAATCT
1 GATCTTTCCCTAAATTAAAAACTTTTGAAAACTATTTGAAGGGATCTTTCCCTAAATTAAAAACC
* * *
31213 TTGAAAAATACTTTTGTAGGATCCTTCCCTAATTTTGAAATCTTTG-AAATAATGAC-TAGATGG
66 TTGAAAAATACTTTGGTAGGATCCTTCCCTAA-ATTGAAATCTTTGAAAAAAAT-ACTTAGATGG
* *
31276 GATCTTTCCCTAAATTAAAAAACTTTTGAGAACTATTTGAAGGGATCTTTCTCTAAATTAAAAAC
1 GATCTTTCCCTAAATT-AAAAACTTTTGAAAACTATTTGAAGGGATCTTTCCCTAAATTAAAAAC
* * * * *
31341 CTTGAAAAATACTTTGGTGGGATCTTTCCCTAAATTGAGATCTTTGAAAAAAATACTTTGGTGG
65 CTTGAAAAATACTTTGGTAGGATCCTTCCCTAAATTGAAATCTTTGAAAAAAATACTTAGATGG
*
31405 AATCTTTCCCTAAATTGAAAAACTT
1 GATCTTTCCCTAAATT-AAAAACTT
31430 GAATTGAAAA
Statistics
Matches: 236, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
118 5 0.02
119 16 0.07
120 8 0.03
122 16 0.07
123 34 0.14
124 2 0.01
125 8 0.03
126 3 0.01
127 23 0.10
128 14 0.06
129 107 0.45
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.34
Consensus pattern (128 bp):
GATCTTTCCCTAAATTAAAAACTTTTGAAAACTATTTGAAGGGATCTTTCCCTAAATTAAAAACC
TTGAAAAATACTTTGGTAGGATCCTTCCCTAAATTGAAATCTTTGAAAAAAATACTTAGATGG
Found at i:31419 original size:86 final size:83
Alignment explanation
Indices: 31066--31432 Score: 295
Period size: 86 Copynumber: 4.3 Consensus size: 83
31056 AAACTCGACG
** * * *
31066 GGATCTTTCCCTAAATTTAAAAATTTTGAAGAAGAC-TAGATGGGATCTTTCCCTAAATTAAAA-
1 GGATCTTTCCCTAAA-TTAAAAACCTTGAAAAATACTTTGATGGGATCTTTCCCTAAATTAAAAT
* * *
31129 CTTTGAGAAAGAC--AGGAT
65 CTTTGAAAAATACTTTGG-T
* * *
31147 GGGATCTTTCCCTAAATT-AAAACTTTTGAAAACTA-TTTGAAGGGATCTTTCCCTAAATTAAAA
1 -GGATCTTTCCCTAAATTAAAAAC-CTTGAAAAATACTTTGATGGGATCTTTCCCTAAATTAAAA
*
31210 TCTTTGAAAAATACTTTTGT
64 TCTTTGAAAAATACTTTGGT
* * * * * *
31230 AGGATCCTTCCCTAATTTTGAAATCTTTGAAATAATGAC-TAGATGGGATCTTTCCCTAAATTAA
1 -GGATCTTTCCCTAA-ATTAAAAACCTTGAAA-AAT-ACTTTGATGGGATCTTTCCCTAAATT-A
* * *
31294 AAAACTTTTGAGAACTA-TTTGAAG-
61 AAATC-TTTGAAAAATACTTTG--GT
* * * *
31318 GGATCTTTCTCTAAATTAAAAACCTTGAAAAATACTTTGGTGGGATCTTTCCCTAAATTGAGATC
1 GGATCTTTCCCTAAATTAAAAACCTTGAAAAATACTTTGATGGGATCTTTCCCTAAATTAAAATC
31383 TTTGAAAAAAATACTTTGGT
66 TTTG--AAAAATACTTTGGT
31403 GGAATCTTTCCCTAAATTGAAAAA-CTTGAA
1 GG-ATCTTTCCCTAAATT-AAAAACCTTGAA
31433 TTGAAAACTT
Statistics
Matches: 229, Mismatches: 35, Indels: 38
0.76 0.12 0.13
Matches are distributed among these distances:
80 4 0.02
81 35 0.15
82 26 0.11
83 18 0.08
84 16 0.07
85 37 0.16
86 58 0.25
87 25 0.11
88 9 0.04
89 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (83 bp):
GGATCTTTCCCTAAATTAAAAACCTTGAAAAATACTTTGATGGGATCTTTCCCTAAATTAAAATC
TTTGAAAAATACTTTGGT
Found at i:31432 original size:44 final size:44
Alignment explanation
Indices: 31320--31432 Score: 144
Period size: 44 Copynumber: 2.6 Consensus size: 44
31310 ATTTGAAGGG
* *
31320 ATCTTTCTCTAAATT-AAAAACCTTG--AAAAATACTTTGGTGGG
1 ATCTTTCCCTAAATTGAAAAA-CTTGAAAAAAATACTTTGGTGGA
* *
31362 ATCTTTCCCTAAATTG-AGATCTTTGAAAAAAATACTTTGGTGGA
1 ATCTTTCCCTAAATTGAAAAAC-TTGAAAAAAATACTTTGGTGGA
31406 ATCTTTCCCTAAATTGAAAAACTTGAA
1 ATCTTTCCCTAAATTGAAAAACTTGAA
31433 TTGAAAACTT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 19 0.32
44 37 0.62
45 3 0.05
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (44 bp):
ATCTTTCCCTAAATTGAAAAACTTGAAAAAAATACTTTGGTGGA
Done.