Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016277.1 Corchorus olitorius cultivar O-4 contig16310, 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: 44838
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Found at i:465 original size:24 final size:25
Alignment explanation
Indices: 433--489 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
423 ATCAGCCTTG
*
433 AATTT-TTTAATGT-TTAATTCTTA
1 AATTTATTTAATGTCTTAATTATTA
*
456 AATTTATTTAATGTCTTAATTATTC
1 AATTTATTTAATGTCTTAATTATTA
481 AATTTATTT
1 AATTTATTT
490 TACAATCCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 5 0.17
24 8 0.27
25 17 0.57
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (25 bp):
AATTTATTTAATGTCTTAATTATTA
Found at i:2936 original size:24 final size:24
Alignment explanation
Indices: 2875--3092 Score: 237
Period size: 24 Copynumber: 9.1 Consensus size: 24
2865 TCTAACAGCG
*
2875 GCTGTGATTGCAAGAAGTCTGAATGCT
1 GCTGTGATTGCAAGAAGTGTGAA---T
* *
2902 GCTGTGATTGCGAGAAGTCTGAAT
1 GCTGTGATTGCAAGAAGTGTGAAT
* *
2926 GCTGTGGTTGCAAGAAGTCT-AATT
1 GCTGTGATTGCAAGAAGTGTGAA-T
2950 GCTGTGATTGC---AAGTGTGAAT
1 GCTGTGATTGCAAGAAGTGTGAAT
* * **
2971 GCCGTGATTGCGAGAAGTGTGCTT
1 GCTGTGATTGCAAGAAGTGTGAAT
* * *
2995 GCTGTGAATGCAAGAAGTCTGATT
1 GCTGTGATTGCAAGAAGTGTGAAT
*
3019 GCTGTGATTGCAAGAAGTGTGATT
1 GCTGTGATTGCAAGAAGTGTGAAT
*
3043 GCTGTGATTGCAAGAAGTGTGATT
1 GCTGTGATTGCAAGAAGTGTGAAT
*
3067 GCTGTGATTGCAAGAATTGTGAAT
1 GCTGTGATTGCAAGAAGTGTGAAT
3091 GC
1 GC
3093 GGAAAGTGTA
Statistics
Matches: 169, Mismatches: 17, Indels: 13
0.85 0.09 0.07
Matches are distributed among these distances:
21 16 0.09
22 2 0.01
23 2 0.01
24 127 0.75
27 22 0.13
ACGTcount: A:0.25, C:0.12, G:0.32, T:0.31
Consensus pattern (24 bp):
GCTGTGATTGCAAGAAGTGTGAAT
Found at i:3041 original size:15 final size:15
Alignment explanation
Indices: 3021--3068 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
3011 GTCTGATTGC
3021 TGTGATTGCAAGAAG
1 TGTGATTGCAAGAAG
3036 TGTGATTGC------
1 TGTGATTGCAAGAAG
3045 TGTGATTGCAAGAAG
1 TGTGATTGCAAGAAG
3060 TGTGATTGC
1 TGTGATTGC
3069 TGTGATTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
9 9 0.33
15 18 0.67
ACGTcount: A:0.25, C:0.08, G:0.33, T:0.33
Consensus pattern (15 bp):
TGTGATTGCAAGAAG
Found at i:6316 original size:355 final size:353
Alignment explanation
Indices: 5664--6374 Score: 1121
Period size: 355 Copynumber: 2.0 Consensus size: 353
5654 TAAATTTTAA
*
5664 TTAGCTTTCTTTCTCCTGAATTTTTCGTTGGCCAAAAAATAAACTCTTTCTCCAATATCCGAATA
1 TTAGCTTTCTCTCTCCTGAATTTTTCGTTGGCCAAAAAATAAACTCTTTCTCCAATATCCGAATA
* *
5729 AAAGTTTGAGTACAAATATCTTTATAAATTTGTTCACATTTTTTTATTGGTTTACAGAAAGCATA
66 AAAG-TTGAGTACAAATATCTTTATAAATTTGTTCACATTTCTTTATTGGTCTACAGAAAGCATA
** *
5794 AAACTTCTTTTCATCATTTTTTTTTTTAATATCCAACATCTACTCAAATGAGATTTCATTAGATA
130 AAACTTCTTTTCA-CATCCTTTTTTTTAATATCCAACATCTACTCAAAAGAGATTTCATTAGATA
*
5859 GTTAAGCATGTTTTTCTTCTTCTTCTTCTCTTTTTTTTTTCAATTTTTAATCTAATCGGATTTGG
194 GTTAAGCATGTTTTTCTTCTTCTTCTTCTCTTTTTTTTTCCAATTTTTAATCTAATCGGATTTGG
* * * * *
5924 ATAGAGATTGTTTCTCCTCCTCCTTTAGCTTTTATTTCGTTGAAGTTTTGAAATTGGGAATGACA
259 ATAGAGATTGGTTCTCCTCCTCCTTTAGCTCTTATTTCGTTGAAGGTTTGAAATTGAGAACGACA
* *
5989 ATATTTTGTAGATGGTATGAAAGAAACCTG
324 ATATTTTGTAGATGGCATGAAACAAACCTG
6019 TTAGCTTTCTCTCTCCTGAATTTTTCGTTGGCCAAAAAATAAACTCTTTCTCCAATATCCGAATA
1 TTAGCTTTCTCTCTCCTGAATTTTTCGTTGGCCAAAAAATAAACTCTTTCTCCAATATCCGAATA
* *
6084 AAA-TTGAGTACAAATATCTTTATAAATTTGTTCTCA-TTCTTTGTTGGTCTACAGAAAGGCGAA
66 AAAGTTGAGTACAAATATCTTTATAAATTTGTTCACATTTCTTTATTGGTCTAC----A---GAA
6147 AGCATAAAACTTCTTTTC-C-TCCTTTTTTTTAATATCCAACATCTACTCAAAAGAGATTTCACA
124 AGCATAAAACTTCTTTTCACATCCTTTTTTTTAATATCCAACATCTACTCAAAAGAGATTT--CA
6210 TTAGATAGTTAAGCATGTTTTTCTTCTTCTTC-T-T-TTTTTTTTTCCAATTTTTAATCTAATCG
187 TTAGATAGTTAAGCATGTTTTTCTTCTTCTTCTTCTCTTTTTTTTTCCAATTTTTAATCTAATCG
*
6272 GATTTGGATAGAGTTTGGTTCTCCTCCTCCTTTAGCTCTTATTTCGTTGAAGGTTTGAAATTGAG
252 GATTTGGATAGAGATTGGTTCTCCTCCTCCTTTAGCTCTTATTTCGTTGAAGGTTTGAAATTGAG
6337 AACGACAATATTTTGTAGATGGCATGAAACAAACCTG
317 AACGACAATATTTTGTAGATGGCATGAAACAAACCTG
6374 T
1 T
6375 ACATGTGATA
Statistics
Matches: 330, Mismatches: 17, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
352 13 0.04
353 32 0.10
355 189 0.57
356 39 0.12
357 2 0.01
358 34 0.10
359 21 0.06
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.43
Consensus pattern (353 bp):
TTAGCTTTCTCTCTCCTGAATTTTTCGTTGGCCAAAAAATAAACTCTTTCTCCAATATCCGAATA
AAAGTTGAGTACAAATATCTTTATAAATTTGTTCACATTTCTTTATTGGTCTACAGAAAGCATAA
AACTTCTTTTCACATCCTTTTTTTTAATATCCAACATCTACTCAAAAGAGATTTCATTAGATAGT
TAAGCATGTTTTTCTTCTTCTTCTTCTCTTTTTTTTTCCAATTTTTAATCTAATCGGATTTGGAT
AGAGATTGGTTCTCCTCCTCCTTTAGCTCTTATTTCGTTGAAGGTTTGAAATTGAGAACGACAAT
ATTTTGTAGATGGCATGAAACAAACCTG
Found at i:11440 original size:30 final size:31
Alignment explanation
Indices: 11376--11443 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 31
11366 AAAAAAATAA
11376 TCAGGGACCCAATTGCTCAATTAACTTCACT
1 TCAGGGACCCAATTGCTCAATTAACTTCACT
* * *
11407 TCAGGGACTCAATTGCTC-ATTAAGTTCATT
1 TCAGGGACCCAATTGCTCAATTAACTTCACT
11437 TCAGGGA
1 TCAGGGA
11444 ACCTTTTGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 17 0.50
31 17 0.50
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (31 bp):
TCAGGGACCCAATTGCTCAATTAACTTCACT
Found at i:18498 original size:18 final size:17
Alignment explanation
Indices: 18473--18523 Score: 68
Period size: 18 Copynumber: 3.0 Consensus size: 17
18463 CCCTCACCTA
18473 ATTTTTTTAAAATATAT
1 ATTTTTTTAAAATATAT
18490 ATATTTTTTAAAATAT-T
1 AT-TTTTTTAAAATATAT
* *
18507 ATTTTTATAAAAAATAT
1 ATTTTTTTAAAATATAT
18524 GATGTGGCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 11 0.37
17 6 0.20
18 13 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTTTTAAAATATAT
Found at i:19693 original size:2 final size:2
Alignment explanation
Indices: 19686--19715 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19676 TGGGCCAATT
19686 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
19716 ATGTATTGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:20623 original size:14 final size:14
Alignment explanation
Indices: 20587--20629 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
20577 CTTTTTCTTA
* *
20587 TTTAAAAAATATTTT
1 TTTAAAAAA-AATTC
20602 TTTCAAAAAAAATTC
1 TTT-AAAAAAAATTC
20617 TTTAAAAAAAATT
1 TTTAAAAAAAATT
20630 TGAAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 10 0.40
15 9 0.36
16 6 0.24
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTAAAAAAAATTC
Found at i:22805 original size:24 final size:24
Alignment explanation
Indices: 22744--22961 Score: 228
Period size: 24 Copynumber: 9.1 Consensus size: 24
22734 TCTAACAGCG
*
22744 GCTGTGATTGCAAGAAGTCTGAATGCT
1 GCTGTGATTGCAAGAAGTGTGAA---T
* *
22771 GCTGTGATTGCGAGAAGTCTGAAT
1 GCTGTGATTGCAAGAAGTGTGAAT
* *
22795 GCTGTGGTTGCAAGAAGTCT-AATT
1 GCTGTGATTGCAAGAAGTGTGAA-T
22819 GCTGTGATTGC---AAGTGTGAAT
1 GCTGTGATTGCAAGAAGTGTGAAT
* * **
22840 GCCGTGATTGCGAGAAGTGTGCTT
1 GCTGTGATTGCAAGAAGTGTGAAT
* * *
22864 GCTGTGAATGCAAGAAGTCTGATT
1 GCTGTGATTGCAAGAAGTGTGAAT
* *
22888 GCTGTGACTGCAAGAAGTGTGATT
1 GCTGTGATTGCAAGAAGTGTGAAT
*
22912 GCTGTGATTGCAAGAAGTGTGATT
1 GCTGTGATTGCAAGAAGTGTGAAT
*
22936 GCTGTGATTGCAAGAATTGTGAAT
1 GCTGTGATTGCAAGAAGTGTGAAT
22960 GC
1 GC
22962 GGAAAGTGTA
Statistics
Matches: 168, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
21 16 0.10
22 2 0.01
23 2 0.01
24 126 0.75
27 22 0.13
ACGTcount: A:0.25, C:0.12, G:0.32, T:0.31
Consensus pattern (24 bp):
GCTGTGATTGCAAGAAGTGTGAAT
Found at i:22867 original size:69 final size:70
Alignment explanation
Indices: 22774--22951 Score: 241
Period size: 69 Copynumber: 2.5 Consensus size: 70
22764 GAATGCTGCT
* * * *
22774 GTGATTGCGAGAAGTCTGAATGCTGTGGTTGCAAGAAGTCTAATTGCTGTGATTGC-AAGTGTGA
1 GTGATTGCGAGAAGTGTGATTGCTGTGATTGCAAGAAGTCTAATTGCTGTGACTGCAAAGTGTGA
22838 ATGCC
66 ATGCC
* * *
22843 GTGATTGCGAGAAGTGTGCTTGCTGTGAATGCAAGAAGTCTGATTGCTGTGACTGCAAGAAGTGT
1 GTGATTGCGAGAAGTGTGATTGCTGTGATTGCAAGAAGTCTAATTGCTGTGACTGC-A-AAGTGT
* *
22908 GATTGCT
64 GAATGCC
*
22915 GTGATTGCAAGAAGTGTGATTGCTGTGATTGCAAGAA
1 GTGATTGCGAGAAGTGTGATTGCTGTGATTGCAAGAA
22952 TTGTGAATGC
Statistics
Matches: 94, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
69 49 0.52
72 45 0.48
ACGTcount: A:0.25, C:0.12, G:0.33, T:0.30
Consensus pattern (70 bp):
GTGATTGCGAGAAGTGTGATTGCTGTGATTGCAAGAAGTCTAATTGCTGTGACTGCAAAGTGTGA
ATGCC
Found at i:24059 original size:59 final size:59
Alignment explanation
Indices: 23995--24114 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 59
23985 TATATAAGGG
* *
23995 TTAGTCTTAAATTTTAATTCATTTCTGATAGGGTTTTAGAATGAAAATATAAAATTTAA
1 TTAGTCTTAAATTTTAATTAATTTCTCATAGGGTTTTAGAATGAAAATATAAAATTTAA
24054 TTAGTCTTAAATTTTAATTAATTTCTCATAGGGTTTTAGAATGAAAATATAAAATTTAA
1 TTAGTCTTAAATTTTAATTAATTTCTCATAGGGTTTTAGAATGAAAATATAAAATTTAA
24113 TT
1 TT
24115 TAATTAGGCA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (59 bp):
TTAGTCTTAAATTTTAATTAATTTCTCATAGGGTTTTAGAATGAAAATATAAAATTTAA
Found at i:26637 original size:3 final size:3
Alignment explanation
Indices: 26629--26663 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
26619 ATTTTTCAGC
* *
26629 AAT AAT AAT AAC AAT AAT AAT AAC AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
26664 CAACAAGTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:26644 original size:6 final size:6
Alignment explanation
Indices: 26628--26666 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
26618 CATTTTTCAG
* * *
26628 CAATAA TAATAA CAATAA TAATAA CAATAA TAATAA CAA
1 CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA CAA
26667 CAAGTGGATC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (6 bp):
CAATAA
Found at i:26645 original size:12 final size:12
Alignment explanation
Indices: 26628--26666 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
26618 CATTTTTCAG
26628 CAATAATAATAA
1 CAATAATAATAA
26640 CAATAATAATAA
1 CAATAATAATAA
26652 CAATAATAATAA
1 CAATAATAATAA
26664 CAA
1 CAA
26667 CAAGTGGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (12 bp):
CAATAATAATAA
Found at i:33294 original size:36 final size:36
Alignment explanation
Indices: 33254--33323 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
33244 AGATGGAGAT
33254 TTAGCCAATGTCTTGAGACATTGATGAAATAAATGA
1 TTAGCCAATGTCTTGAGACATTGATGAAATAAATGA
*
33290 TTAGCCAATGTCTTTAGACATTGATGAAATAAAT
1 TTAGCCAATGTCTTGAGACATTGATGAAATAAAT
33324 TGGAGAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (36 bp):
TTAGCCAATGTCTTGAGACATTGATGAAATAAATGA
Found at i:36913 original size:13 final size:13
Alignment explanation
Indices: 36895--36919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36885 ATTAATCAGG
36895 TATATATATATAT
1 TATATATATATAT
36908 TATATATATATA
1 TATATATATATA
36920 ATAAGATATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATATATATAT
Found at i:38833 original size:88 final size:88
Alignment explanation
Indices: 38684--38860 Score: 345
Period size: 88 Copynumber: 2.0 Consensus size: 88
38674 ACCCATCTTC
38684 TCTTGCATTTCAGAGCCATGGTCGTTCTGGGATTCGAAAAACATTCCCATGGGCATTCACAGAGT
1 TCTTGCATTTCAGAGCCATGGTCGTTCTGGGATTCGAAAAACATTCCCATGGGCATTCACAGAGT
38749 TGTTTCCGCTGCTTTTATTGTGT
66 TGTTTCCGCTGCTTTTATTGTGT
*
38772 TCTTGCATTTCAGAGCCATGGTCGTTCTGGGATTCGAAAAACATTCCCATGGGCATTCACAGGGT
1 TCTTGCATTTCAGAGCCATGGTCGTTCTGGGATTCGAAAAACATTCCCATGGGCATTCACAGAGT
38837 TGTTTCCGCTGCTTTTATTGTGT
66 TGTTTCCGCTGCTTTTATTGTGT
38860 T
1 T
38861 ATTAGGAGTA
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (88 bp):
TCTTGCATTTCAGAGCCATGGTCGTTCTGGGATTCGAAAAACATTCCCATGGGCATTCACAGAGT
TGTTTCCGCTGCTTTTATTGTGT
Found at i:39917 original size:18 final size:17
Alignment explanation
Indices: 39894--39971 Score: 58
Period size: 18 Copynumber: 4.6 Consensus size: 17
39884 GGTTGGAGGG
39894 TATGGAGCTGGTGGTGGC
1 TATGGAG-TGGTGGTGGC
39912 TATGGA--GGTGGT---
1 TATGGAGTGGTGGTGGC
* * *
39924 TACGGTAGTGGTGGAGGG
1 TATGG-AGTGGTGGTGGC
39942 TATGGAGCTGGTGGTGGC
1 TATGGAG-TGGTGGTGGC
39960 TATGGAGGTGGT
1 TATGGA-GTGGT
39972 CACGGTAGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
12 4 0.09
13 1 0.02
15 11 0.23
17 2 0.04
18 28 0.60
19 1 0.02
ACGTcount: A:0.14, C:0.06, G:0.51, T:0.28
Consensus pattern (17 bp):
TATGGAGTGGTGGTGGC
Found at i:39958 original size:48 final size:48
Alignment explanation
Indices: 39887--39982 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
39877 AAGTTTGGGT
*
39887 TGGAGGGTATGGAGCTGGTGGTGGCTATGGAGGTGGTTACGGTAGTGG
1 TGGAGGGTATGGAGCTGGTGGTGGCTATGGAGGTGGTCACGGTAGTGG
39935 TGGAGGGTATGGAGCTGGTGGTGGCTATGGAGGTGGTCACGGTAGTGG
1 TGGAGGGTATGGAGCTGGTGGTGGCTATGGAGGTGGTCACGGTAGTGG
39983 AGAAGGTGGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.15, C:0.07, G:0.52, T:0.26
Consensus pattern (48 bp):
TGGAGGGTATGGAGCTGGTGGTGGCTATGGAGGTGGTCACGGTAGTGG
Found at i:40046 original size:18 final size:18
Alignment explanation
Indices: 40025--40075 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
40015 GTGGATATGG
*
40025 TGGAAGTGGTGGTGGAGC
1 TGGAAGTGGTGGTGGAGA
* *
40043 TGGATA-TGCTGGTGGATA
1 TGGA-AGTGGTGGTGGAGA
40061 TGGAAGTGGTGGTGG
1 TGGAAGTGGTGGTGG
40076 TGAAGGTGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 1 0.04
18 25 0.93
19 1 0.04
ACGTcount: A:0.18, C:0.04, G:0.51, T:0.27
Consensus pattern (18 bp):
TGGAAGTGGTGGTGGAGA
Found at i:44801 original size:2 final size:2
Alignment explanation
Indices: 44794--44831 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
44784 GAGTAGCAAC
44794 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44832 TATCAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.