Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01006192.1 Corchorus capsularis cultivar CVL-1 contig06210, 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: 26845
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:4031 original size:12 final size:12
Alignment explanation
Indices: 4014--4056 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
4004 TTGCGTAGAC
4014 TAAAAAGAGAAA
1 TAAAAAGAGAAA
*
4026 TAAAAAGTAACAAA
1 TAAAAAG--AGAAA
*
4040 AAAAAAGAGAAA
1 TAAAAAGAGAAA
4052 TAAAA
1 TAAAA
4057 GGACTAGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 15 0.60
14 10 0.40
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.09
Consensus pattern (12 bp):
TAAAAAGAGAAA
Found at i:4536 original size:41 final size:42
Alignment explanation
Indices: 4479--4562 Score: 143
Period size: 41 Copynumber: 2.0 Consensus size: 42
4469 CGTGCGGCTG
* *
4479 TTTTATTTTATAAATTCTTTTCAG-AAAATTCAGTTAAGAAA
1 TTTTATTTTATAAATTCTTTTAAGAAAAATTCAATTAAGAAA
4520 TTTTATTTTATAAATTCTTTTAAGAAAAATTCAATTAAGAAA
1 TTTTATTTTATAAATTCTTTTAAGAAAAATTCAATTAAGAAA
4562 T
1 T
4563 GAAATTTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 23 0.57
42 17 0.43
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (42 bp):
TTTTATTTTATAAATTCTTTTAAGAAAAATTCAATTAAGAAA
Found at i:4570 original size:42 final size:41
Alignment explanation
Indices: 4483--4570 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 41
4473 CGGCTGTTTT
* * ***
4483 ATTTTATAAATTCTTTTCAGAAAATTCAGTTAAGAAATTTT
1 ATTTTATAAATTCTTTTAAGAAAATTCAATTAAGAAATGAA
4524 ATTTTATAAATTCTTTTAAGAAAAATTCAATTAAGAAATGAA
1 ATTTTATAAATTCTTTTAAG-AAAATTCAATTAAGAAATGAA
4566 ATTTT
1 ATTTT
4571 GTTGTGAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 19 0.46
42 22 0.54
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (41 bp):
ATTTTATAAATTCTTTTAAGAAAATTCAATTAAGAAATGAA
Found at i:4896 original size:11 final size:11
Alignment explanation
Indices: 4882--4919 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
4872 ATTCATAACA
4882 AATTTATAATT
1 AATTTATAATT
4893 AATTTATAATT
1 AATTTATAATT
4904 -ATTTGATAATT
1 AATTT-ATAATT
*
4915 TATTT
1 AATTT
4920 TATATAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.16
11 17 0.68
12 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (11 bp):
AATTTATAATT
Found at i:13250 original size:19 final size:20
Alignment explanation
Indices: 13223--13260 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13213 TACTATTATT
13223 TTTTGAATTT-AATATTTTAC
1 TTTTGAATTTCAAT-TTTTAC
13243 TTTT-AATTTCAATTTTTA
1 TTTTGAATTTCAATTTTTA
13261 AATGTCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTGAATTTCAATTTTTAC
Found at i:13464 original size:22 final size:22
Alignment explanation
Indices: 13436--13597 Score: 98
Period size: 22 Copynumber: 7.3 Consensus size: 22
13426 TGTCTCTATG
13436 TGGTTATCAAAATTTCATAAGA
1 TGGTTATCAAAATTTCATAAGA
* * *
13458 TGGTTATTATAATTTCATGAGGA
1 TGGTTATCAAAATTTCAT-AAGA
* *
13481 -GGTTATCAAAATTCCAT-AGTG
1 TGGTTATCAAAATTTCATAAG-A
* *
13502 TGGTTACCAAAATTTCAT-AGTG
1 TGGTTATCAAAATTTCATAAG-A
* * *
13524 TGGTTACCATAATTTCATAGGA
1 TGGTTATCAAAATTTCATAAGA
* *
13546 TCAGGTTATCAAAATCTC-TTAGA
1 T--GGTTATCAAAATTTCATAAGA
** * *
13569 TTGGTTATTGAAATTTCATAGGG
1 -TGGTTATCAAAATTTCATAAGA
13592 TGGTTA
1 TGGTTA
13598 ATTATCACAA
Statistics
Matches: 108, Mismatches: 24, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
20 1 0.01
22 85 0.79
23 9 0.08
24 13 0.12
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (22 bp):
TGGTTATCAAAATTTCATAAGA
Found at i:13529 original size:44 final size:44
Alignment explanation
Indices: 13434--13543 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 44
13424 CTTGTCTCTA
** *
13434 TGTGGTTATCAAAATTTCATAAGATGGTTATTATAATTTCATGAG
1 TGTGGTTATCAAAATTTCAT-AGATGGTTACCAAAATTTCATGAG
* * *
13479 -GAGGTTATCAAAATTCCATAGTGTGGTTACCAAAATTTCAT-AG
1 TGTGGTTATCAAAATTTCATAG-ATGGTTACCAAAATTTCATGAG
* *
13522 TGTGGTTACCATAATTTCATAG
1 TGTGGTTATCAAAATTTCATAG
13544 GATCAGGTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
43 4 0.08
44 49 0.92
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (44 bp):
TGTGGTTATCAAAATTTCATAGATGGTTACCAAAATTTCATGAG
Found at i:13540 original size:66 final size:66
Alignment explanation
Indices: 13434--13560 Score: 168
Period size: 66 Copynumber: 1.9 Consensus size: 66
13424 CTTGTCTCTA
* **
13434 TGTGGTTATCAAAATTTCATAAGATGGTTATTATAATTTCATGAGG-AGGTTATCAAAATTCCAT
1 TGTGGTTACCAAAATTTCATAAGATGGTTACCATAATTTCAT-AGGAAGGTTATCAAAATTCCAT
13498 AG
65 AG
*
13500 TGTGGTTACCAAAATTTCAT-AGTGTGGTTACCATAATTTCATAGGATCAGGTTATCAAAAT
1 TGTGGTTACCAAAATTTCATAAG-ATGGTTACCATAATTTCATAGGA--AGGTTATCAAAAT
13561 CTCTTAGATT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
65 5 0.09
66 35 0.66
68 13 0.25
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (66 bp):
TGTGGTTACCAAAATTTCATAAGATGGTTACCATAATTTCATAGGAAGGTTATCAAAATTCCATA
G
Found at i:13679 original size:56 final size:56
Alignment explanation
Indices: 13619--13747 Score: 129
Period size: 56 Copynumber: 2.3 Consensus size: 56
13609 TTTATAGAAA
13619 GGTTATCAAAGAGATT-ATCAAA-ATGTCATAACGAGGTTAT-AAGAATTTCATAGTGT
1 GGTTATCAAA-A-ATTCATCAAATATGTCATAACGAGGTTATCAA-AATTTCATAGTGT
* * * * *** *
13675 GGTTAACAAAATTTCATTAAATATTTCATGTTGAGGTTATCAAAATTTTATAGTGT
1 GGTTATCAAAAATTCATCAAATATGTCATAACGAGGTTATCAAAATTTCATAGTGT
*
13731 GGTTATCAAAATTTCAT
1 GGTTATCAAAAATTCAT
13748 ACGAAGGTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
54 2 0.03
55 6 0.10
56 51 0.84
57 2 0.03
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (56 bp):
GGTTATCAAAAATTCATCAAATATGTCATAACGAGGTTATCAAAATTTCATAGTGT
Found at i:13756 original size:22 final size:22
Alignment explanation
Indices: 13708--14014 Score: 98
Period size: 22 Copynumber: 13.8 Consensus size: 22
13698 TTTCATGTTG
* *
13708 AGGTTATCAAAATTTTATAGTG
1 AGGTTATCAAAATTTCATAGTA
*
13730 TGGTTATCAAAATTTCATACG-A
1 AGGTTATCAAAATTTCATA-GTA
*
13752 AGGTTAT-AAAAGTCTCAATTTCA-TA
1 AGGTTATCAAAA-TTTC-A--T-AGTA
* *
13777 AGGAGTA-CAAAAATTTGATAG-A
1 AGG-TTATC-AAAATTTCATAGTA
*
13799 AGGTTATC-AAATCTCATA-T-
1 AGGTTATCAAAATTTCATAGTA
*
13818 AGTGATTATCGAAATTTCATAG-A
1 AG-G-TTATCAAAATTTCATAGTA
* *
13841 GATCTGATTATCAAAATTT-ATAGAA
1 -A---GGTTATCAAAATTTCATAGTA
* *
13866 AGATTATCAAAATTTCATAGTG
1 AGGTTATCAAAATTTCATAGTA
** * **
13888 TTGTTATCAAAATTTCAAAGCG
1 AGGTTATCAAAATTTCATAGTA
* * *
13910 AGGTTATCAAAATTACATAATG
1 AGGTTATCAAAATTTCATAGTA
* * * *
13932 TGATTATTAGAATTTCATAG-A
1 AGGTTATCAAAATTTCATAGTA
* * * * *
13953 GGGGTCAACAAAATTTTATA-AA
1 -AGGTTATCAAAATTTCATAGTA
**
13975 GAGGTTATCAAAATTTCATAAAA
1 -AGGTTATCAAAATTTCATAGTA
*
13998 AGGTTATCAAATTTTCA
1 AGGTTATCAAAATTTCA
14015 AAATGTGATT
Statistics
Matches: 212, Mismatches: 46, Indels: 54
0.68 0.15 0.17
Matches are distributed among these distances:
19 2 0.01
20 9 0.04
21 25 0.12
22 137 0.65
23 5 0.02
24 6 0.03
25 18 0.08
26 5 0.02
27 5 0.02
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (22 bp):
AGGTTATCAAAATTTCATAGTA
Found at i:14014 original size:66 final size:65
Alignment explanation
Indices: 13848--14011 Score: 161
Period size: 66 Copynumber: 2.5 Consensus size: 65
13838 AGAGATCTGA
* * ** * * *
13848 TTATCAAAATTT-ATAGAAAGATTATCAAAATTTCATAGTGTTGTTATCAAAATTTCAAAGCGAG
1 TTATCAAAATTTCATAAAAAGATTATC-AAATTTCATAGAGGGGTCAACAAAATTTCAAAGAGAG
13912 G
65 G
* *** * *
13913 TTATCAAAATTACATAATGTGATTATTAGAATTTCATAGAGGGGTCAACAAAATTTTATAA-AGA
1 TTATCAAAATTTCATAAAAAGATTATCA-AATTTCATAGAGGGGTCAACAAAATTTCA-AAGAGA
13977 GG
64 GG
*
13979 TTATCAAAATTTCATAAAAAGGTTATCAAATTT
1 TTATCAAAATTTCATAAAAAGATTATCAAATTT
14012 TCAAAATGTG
Statistics
Matches: 77, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
65 17 0.22
66 58 0.75
67 2 0.03
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (65 bp):
TTATCAAAATTTCATAAAAAGATTATCAAATTTCATAGAGGGGTCAACAAAATTTCAAAGAGAGG
Found at i:14081 original size:22 final size:21
Alignment explanation
Indices: 14054--14657 Score: 159
Period size: 22 Copynumber: 27.9 Consensus size: 21
14044 ATTTCTGGAG
14054 AGGTTATCAAAATTTCATAGT
1 AGGTTATCAAAATTTCATAGT
* *
14075 ATGGTTA-CCAAA-TT-A-AGA
1 A-GGTTATCAAAATTTCATAGT
* * *
14093 AGGTTATTAAATTTTTATTA-T
1 AGGTTATCAAAATTTCA-TAGT
* * *
14114 GGAGTAATCAAAATTTCA-AGG
1 AG-GTTATCAAAATTTCATAGT
* *
14135 AGGATATCCAAAATTTCATATGA
1 AGGTTAT-CAAAATTTCATA-GT
14158 AGGTTATCAAAATTTCATAGT
1 AGGTTATCAAAATTTCATAGT
* *
14179 ---TTAGT-TAAATTTCACAAG-
1 AGGTTA-TCAAAATTTCA-TAGT
*
14197 AGGGTTATCAAAATTTCATGGT
1 A-GGTTATCAAAATTTCATAGT
* * *
14219 ATGTAGATCAAAATTTCATAGGG
1 AGGT-TATCAAAATTTCATA-GT
* * *
14242 AGGTTAACGAAATTTCATAAT
1 AGGTTATCAAAATTTCATAGT
** *
14263 GAGGTTATCAAAAAATCATAGGG
1 -AGGTTATCAAAATTTCATA-GT
* * *
14286 AGGTTATCCAAATTTTATAGGG
1 AGGTTATCAAAATTTCATA-GT
* *
14308 AGGTTTATCAAAATTTTATAGGA
1 AGG-TTATCAAAATTTCATA-GT
*
14331 AGATTTATCAAAATTTCATGACG-
1 AG-GTTATCAAAATTTCAT-A-GT
*
14354 AGGTTATCACAATTTCATAGT
1 AGGTTATCAAAATTTCATAGT
*
14375 -GTGATTATCAAAATTTCAGAGT
1 AG-G-TTATCAAAATTTCATAGT
*
14397 -GTGATTA-CTAACAA-TTCATATGG
1 AG-G-TTATC-AA-AATTTCATA-GT
* * *
14420 AGGTTTTTAAATTTTCATAACGT
1 AGGTTATCAAAATTTCAT-A-GT
* * *
14443 -GGTTATCAATATATCATATGG
1 AGGTTATCAAAATTTCATA-GT
* *
14464 AGGTTATCAACATCTCATAGTGT
1 AGGTTATCAAAATTTCATA--GT
* * *
14487 TGGTTATCAAAA-TTCATTGGG
1 AGGTTATCAAAATTTCA-TAGT
* *
14508 AAGTTATCAAAATTTCATATT
1 AGGTTATCAAAATTTCATAGT
* * * *
14529 GAGGTCT-TCGAAATTCCTTAGGG
1 -AGGT-TATCAAAATTTCATA-GT
* * * *
14552 AGATTAACCAAATTTCATAAGA
1 AGGTTATCAAAATTTCAT-AGT
* ** **
14574 AGGCTAAAAAAATTT-ATAAAA
1 AGGTTATCAAAATTTCAT-AGT
* * *
14595 AAGTTCTCAAAATTCCATAGT
1 AGGTTATCAAAATTTCATAGT
* * *
14616 ATCGTTATTAAAATTTCATAGGA
1 A-GGTTATCAAAATTTCATA-GT
14639 AGGTTATCAAAATTTCATA
1 AGGTTATCAAAATTTCATA
14658 ATGGGATCAT
Statistics
Matches: 424, Mismatches: 111, Indels: 95
0.67 0.18 0.15
Matches are distributed among these distances:
17 5 0.01
18 16 0.04
19 6 0.01
20 9 0.02
21 57 0.13
22 259 0.61
23 69 0.16
24 3 0.01
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (21 bp):
AGGTTATCAAAATTTCATAGT
Found at i:14273 original size:44 final size:44
Alignment explanation
Indices: 14120--14660 Score: 250
Period size: 44 Copynumber: 12.4 Consensus size: 44
14110 TTATGGAGTA
* * * *
14120 ATCAAAATTTC--AAGGAGGATATCCAAAATTTCATATGAAGGTT
1 ATCAAAATTTCATAATGAGGTTAT-CAAAATTTCATAGGGAGGTT
* * * *
14163 ATCAAAATTTC---AT-AGTTTAGT-TAAATTTCACA-AGAGGGTT
1 ATCAAAATTTCATAATGAGGTTA-TCAAAATTTCATAGGGA-GGTT
** * *
14203 ATCAAAATTTCATGGT-ATGTAGATCAAAATTTCATAGGGAGGTT
1 ATCAAAATTTCATAATGAGGT-TATCAAAATTTCATAGGGAGGTT
* * **
14247 AACGAAATTTCATAATGAGGTTATCAAAAAATCATAGGGAGGTT
1 ATCAAAATTTCATAATGAGGTTATCAAAATTTCATAGGGAGGTT
* * ** * * *
14291 ATCCAAATTTTATAGGGAGGTTTATCAAAATTTTATAGGAAGATTT
1 ATCAAAATTTCATAATGAGG-TTATCAAAATTTCATAGGGAG-GTT
* * * * * *
14337 ATCAAAATTTCATGACGAGGTTATCACAATTTCATAGTGTGATT
1 ATCAAAATTTCATAATGAGGTTATCAAAATTTCATAGGGAGGTT
* * * * *
14381 ATCAAAATTTCAGAGTGTGATTA-CTAACAA-TTCATATGGAGGTT
1 ATCAAAATTTCATAATGAGGTTATC-AA-AATTTCATAGGGAGGTT
* * * * * * * *
14425 TTTAAATTTTCATAACGTGGTTATCAATATATCATATGGAGGTT
1 ATCAAAATTTCATAATGAGGTTATCAAAATTTCATAGGGAGGTT
* * * * * *
14469 ATCAACATCTCATAGTGTTGGTTATCAAAA-TTCATTGGGAAGTT
1 ATCAAAATTTCATAATG-AGGTTATCAAAATTTCATAGGGAGGTT
* * * * *
14513 ATCAAAATTTCATATTGAGGTCT-TCGAAATTCCTTAGGGAGATT
1 ATCAAAATTTCATAATGAGGT-TATCAAAATTTCATAGGGAGGTT
* * * ** *** *
14557 AACCAAATTTCATAA-GAAGGCTAAAAAAATTT-ATAAAAAAGTT
1 ATCAAAATTTCATAATG-AGGTTATCAAAATTTCATAGGGAGGTT
* * * * * *
14600 CTCAAAATTCCATAGT-ATCGTTATTAAAATTTCATAGGAAGGTT
1 ATCAAAATTTCATAATGA-GGTTATCAAAATTTCATAGGGAGGTT
14644 ATCAAAATTTCATAATG
1 ATCAAAATTTCATAATG
14661 GGATCATAAA
Statistics
Matches: 360, Mismatches: 114, Indels: 46
0.69 0.22 0.09
Matches are distributed among these distances:
39 1 0.00
40 24 0.07
41 4 0.01
42 3 0.01
43 52 0.14
44 207 0.57
45 52 0.14
46 17 0.05
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (44 bp):
ATCAAAATTTCATAATGAGGTTATCAAAATTTCATAGGGAGGTT
Found at i:15204 original size:15 final size:15
Alignment explanation
Indices: 15165--15207 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
15155 TTTGACCTTT
15165 AATTATAAAAAA--A
1 AATTATAAAAAATTA
*
15178 AATTATATAAAATTA
1 AATTATAAAAAATTA
*
15193 AATTTTAAAAAATTA
1 AATTATAAAAAATTA
15208 TGTTTTGACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 11 0.44
15 14 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATTATAAAAAATTA
Found at i:15869 original size:17 final size:16
Alignment explanation
Indices: 15823--15865 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
15813 CCATATGACT
15823 AGTGATCTAAGATCACC
1 AGTGATC-AAGATCACC
15840 AGTGATGCAAGATCACC
1 AGTGAT-CAAGATCACC
*
15857 GGTGATCAA
1 AGTGATCAA
15866 AGATTACATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 3 0.12
17 20 0.83
18 1 0.04
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (16 bp):
AGTGATCAAGATCACC
Found at i:17182 original size:2 final size:2
Alignment explanation
Indices: 17175--17207 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17165 AGACTATCTT
17175 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17208 TCTTCTGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19762 original size:22 final size:23
Alignment explanation
Indices: 19716--19763 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
19706 GACAAGGACA
*
19716 AAAAAAGTTCAAATAAGGGGGCT
1 AAAAAAGTTCAAATAAGGGGCCT
19739 AAAAAAGTTCAAATAA-GGGCCT
1 AAAAAAGTTCAAATAAGGGGCCT
19761 AAA
1 AAA
19764 CTTTGTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.52, C:0.10, G:0.21, T:0.17
Consensus pattern (23 bp):
AAAAAAGTTCAAATAAGGGGCCT
Found at i:24804 original size:17 final size:16
Alignment explanation
Indices: 24782--24816 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
24772 TTATATACTG
24782 TATATATTATATATATA
1 TATATATTATAT-TATA
24799 TATATATTATATTATA
1 TATATATTATATTATA
24815 TA
1 TA
24817 AAATAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATATATTATATTATA
Found at i:25569 original size:61 final size:61
Alignment explanation
Indices: 25493--25613 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 61
25483 TCCTTTCGTC
*
25493 TCATATTATCTGTTCACTTCTATTAGGGTAAAAACGGATAGATAATATAGGACAGAGGGAG
1 TCATATTATCTGTTCACTTCTATTAGGGTAAAAACGGACAGATAATATAGGACAGAGGGAG
*
25554 TCATATTATCTGTTCACTTCTATTAGGGTAAAAGCGGACAGATAATATAGGACAGAGGGA
1 TCATATTATCTGTTCACTTCTATTAGGGTAAAAACGGACAGATAATATAGGACAGAGGGA
25614 CTATGTCATA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (61 bp):
TCATATTATCTGTTCACTTCTATTAGGGTAAAAACGGACAGATAATATAGGACAGAGGGAG
Done.