Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01009838.1 Corchorus capsularis cultivar CVL-1 contig09859, 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: 69842
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:835 original size:48 final size:48
Alignment explanation
Indices: 764--1273 Score: 300
Period size: 48 Copynumber: 11.0 Consensus size: 48
754 CTCAAGACCA
* *
764 TAAATTCTATTTGTCAATATAATAAATTGGACAATTGTAATTTTTCCG
1 TAAATTCTATTTGTCAATATAATAAATTGGACAACTGTAATTCTTCCG
* * *
812 TAAATTCTATTTGTCAATATAATAAATTGAACACCTGTAATTCTTCTG
1 TAAATTCTATTTGTCAATATAATAAATTGGACAACTGTAATTCTTCCG
* * *
860 TAAATTATATTTGTCAATATAATAAACTGGACAACTGTAATTCTTCTG
1 TAAATTCTATTTGTCAATATAATAAATTGGACAACTGTAATTCTTCCG
** ** * ** *
908 TTGACACAAGTTTGTC-AT-TCGTTAAATT----AACTGTAATTCTTTCG
1 TAAATTCTA-TTTGTCAATAT-AATAAATTGGACAACTGTAATTCTTCCG
* * * * *
952 TAAATTCTATTTGTCAATATAGTGAATTGGACAATTGTAATTCGTCTG
1 TAAATTCTATTTGTCAATATAATAAATTGGACAACTGTAATTCTTCCG
** ** * *
1000 TTGACACAAATTTGTC-AT-TCATTAAA-T-G--AACTGTAATTCTTCCG
1 TAAATTC-TATTTGTCAATAT-AATAAATTGGACAACTGTAATTCTTCCG
* * *
1044 TAAATTAC-ATTTGTCAATATAATAAATTTGACAATTGTAATTCTTCTG
1 TAAATT-CTATTTGTCAATATAATAAATTGGACAACTGTAATTCTTCCG
* ** * **
1092 TTGACA-TAAATTTGTC-GT-TCGTTAAATT----AACTGTAATTCTTCCG
1 -T-AAATTCTATTTGTCAATAT-AATAAATTGGACAACTGTAATTCTTCCG
* * *
1136 TAAATTCTATTTATCAATATAATAAATTGGACAACTGTAATTCGTCAG
1 TAAATTCTATTTGTCAATATAATAAATTGGACAACTGTAATTCTTCCG
** ** * ** *
1184 TTGACACAAATTTGTC-AT-TCGTTAAATT----AACTGTAATTCTTTCG
1 TAAATTC-TATTTGTCAATAT-AATAAATTGGACAACTGTAATTCTTCCG
*
1228 TAAATT-TCATTTGTCAATATAATAAATTTGACAACTGTAATTCTTC
1 TAAATTCT-ATTTGTCAATATAATAAATTGGACAACTGTAATTCTTC
1274 GGTTGACACA
Statistics
Matches: 341, Mismatches: 84, Indels: 74
0.68 0.17 0.15
Matches are distributed among these distances:
42 2 0.01
43 28 0.08
44 91 0.27
45 6 0.02
46 2 0.01
47 5 0.01
48 177 0.52
49 28 0.08
50 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.42
Consensus pattern (48 bp):
TAAATTCTATTTGTCAATATAATAAATTGGACAACTGTAATTCTTCCG
Found at i:983 original size:92 final size:92
Alignment explanation
Indices: 764--1346 Score: 735
Period size: 92 Copynumber: 6.3 Consensus size: 92
754 CTCAAGACCA
* * * ** ** *
764 TAAATTCTATTTGTCAATATAATAAATTGGACAATTGTAATTTTTCCGTAAATTC-TATTTGTCA
1 TAAATTCTATTTGTCAATATAATAAATTGGACAACTGTAATTCTTCTGTTGACACAAATTTGTC-
** *
828 ATAT-AATAAATTGAACACCTGTAATTCTTCTG
65 AT-TCGTTAAATT--A-A-CTGTAATTCTTCCG
* * *
860 TAAATTATATTTGTCAATATAATAAACTGGACAACTGTAATTCTTCTGTTGACACAAGTTTGTCA
1 TAAATTCTATTTGTCAATATAATAAATTGGACAACTGTAATTCTTCTGTTGACACAAATTTGTCA
*
925 TTCGTTAAATTAACTGTAATTCTTTCG
66 TTCGTTAAATTAACTGTAATTCTTCCG
* * * *
952 TAAATTCTATTTGTCAATATAGTGAATTGGACAATTGTAATTCGTCTGTTGACACAAATTTGTCA
1 TAAATTCTATTTGTCAATATAATAAATTGGACAACTGTAATTCTTCTGTTGACACAAATTTGTCA
* *
1017 TTCATTAAATGAACTGTAATTCTTCCG
66 TTCGTTAAATTAACTGTAATTCTTCCG
* * *
1044 TAAATTAC-ATTTGTCAATATAATAAATTTGACAATTGTAATTCTTCTGTTGACATAAATTTGTC
1 TAAATT-CTATTTGTCAATATAATAAATTGGACAACTGTAATTCTTCTGTTGACACAAATTTGTC
*
1108 GTTCGTTAAATTAACTGTAATTCTTCCG
65 ATTCGTTAAATTAACTGTAATTCTTCCG
* * *
1136 TAAATTCTATTTATCAATATAATAAATTGGACAACTGTAATTCGTCAGTTGACACAAATTTGTCA
1 TAAATTCTATTTGTCAATATAATAAATTGGACAACTGTAATTCTTCTGTTGACACAAATTTGTCA
*
1201 TTCGTTAAATTAACTGTAATTCTTTCG
66 TTCGTTAAATTAACTGTAATTCTTCCG
* * *
1228 TAAATT-TCATTTGTCAATATAATAAATTTGACAACTGTAATTCTTCGGTTGACACAAGTTTG-C
1 TAAATTCT-ATTTGTCAATATAATAAATTGGACAACTGTAATTCTTCTGTTGACACAAATTTGTC
*
1291 TGTTCGTTAAATTAACTGTAATTCTTCCG
65 -ATTCGTTAAATTAACTGTAATTCTTCCG
* *
1320 TAAATTTTATTTTTCAATATAATAAAT
1 TAAATTCTATTTGTCAATATAATAAAT
1347 AATAAATTTG
Statistics
Matches: 431, Mismatches: 49, Indels: 18
0.87 0.10 0.04
Matches are distributed among these distances:
91 3 0.01
92 363 0.84
93 3 0.01
94 1 0.00
95 1 0.00
96 54 0.13
97 6 0.01
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.42
Consensus pattern (92 bp):
TAAATTCTATTTGTCAATATAATAAATTGGACAACTGTAATTCTTCTGTTGACACAAATTTGTCA
TTCGTTAAATTAACTGTAATTCTTCCG
Found at i:1035 original size:44 final size:44
Alignment explanation
Indices: 892--1224 Score: 122
Period size: 44 Copynumber: 7.3 Consensus size: 44
882 TAAACTGGAC
* * * *
892 AACTGTAATTCTTCTGTTGACACAAGTTTGTCATTCGTTAAATT
1 AACTGTAATTCTTCCGTTGACACAAATTTGTCATTCATTAAATG
* ** ** * * *
936 AACTGTAATTCTTTCGTAAATTC-TATTTGTCAATAT-AGTGAATTGG
1 AACTGTAATTCTTCCGTTGACACAAATTTGTC-AT-TCA-TTAAAT-G
* * *
982 ACAATTGTAATTCGTCTGTTGACACAAATTTGTCATTCATTAAATG
1 --AACTGTAATTCTTCCGTTGACACAAATTTGTCATTCATTAAATG
* * * *
1028 AACTGTAATTCTTCCG-T-AAATTACATTTGTCAATAT-AATAAATTTG
1 AACTGTAATTCTTCCGTTGACA-CAAATTTGTC-AT-TCATTAAA--TG
* * * * * *
1074 ACAATTGTAATTCTTCTGTTGACATAAATTTGTCGTTCGTTAAATT
1 --AACTGTAATTCTTCCGTTGACACAAATTTGTCATTCATTAAATG
** ** * * *
1120 AACTGTAATTCTTCCGTAAATTC-TATTTATCAATAT-AATAAATTGG
1 AACTGTAATTCTTCCGTTGACACAAATTTGTC-AT-TCATTAAA-T-G
* * * *
1166 ACAACTGTAATTCGTCAGTTGACACAAATTTGTCATTCGTTAAATT
1 --AACTGTAATTCTTCCGTTGACACAAATTTGTCATTCATTAAATG
1212 AACTGTAATTCTT
1 AACTGTAATTCTT
1225 TCGTAAATTT
Statistics
Matches: 200, Mismatches: 63, Indels: 52
0.63 0.20 0.17
Matches are distributed among these distances:
42 2 0.01
43 21 0.10
44 72 0.36
45 8 0.04
46 4 0.02
47 8 0.04
48 60 0.30
49 23 0.12
50 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (44 bp):
AACTGTAATTCTTCCGTTGACACAAATTTGTCATTCATTAAATG
Found at i:1419 original size:2 final size:2
Alignment explanation
Indices: 1412--1444 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1402 AAGTGGAAGA
*
1412 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1445 CAATGGGTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:8662 original size:24 final size:24
Alignment explanation
Indices: 8617--8662 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
8607 AATAGAAAAG
8617 ATTGAACAACAAGAAACAGAGTAA
1 ATTGAACAACAAGAAACAGAGTAA
*
8641 ATTGAACAAGAAGAAACAGAGT
1 ATTGAACAACAAGAAACAGAGT
8663 GAAGAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.57, C:0.11, G:0.20, T:0.13
Consensus pattern (24 bp):
ATTGAACAACAAGAAACAGAGTAA
Found at i:15300 original size:4 final size:4
Alignment explanation
Indices: 15291--15317 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
15281 CCTAACATCT
15291 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
15318 TTTTTTTGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:22579 original size:36 final size:36
Alignment explanation
Indices: 22539--22685 Score: 141
Period size: 36 Copynumber: 3.9 Consensus size: 36
22529 TTAGTTTCCT
* * *
22539 TGGAACTATTTATATTGGGATTAATTACCATGGCTC
1 TGGAACTATGTCTATTGGGATTAATTTCCATGGCTC
* * *
22575 TGGAACTCTGTCTGTTGGGATTAATTTCCATGTGTCACGGGC
1 TGGAACTATGTCTATTGGGATTAATTTCCATG-G---C--TC
* *
22617 TTGGAACTATTTCTATTGGGATTAATTCCCATGGCTC
1 -TGGAACTATGTCTATTGGGATTAATTTCCATGGCTC
* *
22654 TGGAACTCTGTCTGTTGGGATTAATTTCCATG
1 TGGAACTATGTCTATTGGGATTAATTTCCATG
22686 TGTCACGGGC
Statistics
Matches: 89, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
36 55 0.62
37 2 0.02
39 1 0.01
40 1 0.01
42 2 0.02
43 28 0.31
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (36 bp):
TGGAACTATGTCTATTGGGATTAATTTCCATGGCTC
Found at i:22634 original size:79 final size:79
Alignment explanation
Indices: 22537--22697 Score: 304
Period size: 79 Copynumber: 2.0 Consensus size: 79
22527 AATTAGTTTC
22537 CTTGGAACTATTTATATTGGGATTAATTACCATGGCTCTGGAACTCTGTCTGTTGGGATTAATTT
1 CTTGGAACTATTTATATTGGGATTAATTACCATGGCTCTGGAACTCTGTCTGTTGGGATTAATTT
22602 CCATGTGTCACGGG
66 CCATGTGTCACGGG
* *
22616 CTTGGAACTATTTCTATTGGGATTAATTCCCATGGCTCTGGAACTCTGTCTGTTGGGATTAATTT
1 CTTGGAACTATTTATATTGGGATTAATTACCATGGCTCTGGAACTCTGTCTGTTGGGATTAATTT
22681 CCATGTGTCACGGG
66 CCATGTGTCACGGG
22695 CTT
1 CTT
22698 ACAAATCAAG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.39
Consensus pattern (79 bp):
CTTGGAACTATTTATATTGGGATTAATTACCATGGCTCTGGAACTCTGTCTGTTGGGATTAATTT
CCATGTGTCACGGG
Found at i:22636 original size:43 final size:43
Alignment explanation
Indices: 22570--22697 Score: 153
Period size: 43 Copynumber: 3.1 Consensus size: 43
22560 TAATTACCAT
22570 GGCTCTGGAACTCTGTCTGTTGGGATTAATTTCCATGTGTCACG
1 GGCT-TGGAACTCTGTCTGTTGGGATTAATTTCCATGTGTCACG
* * * *
22614 GGCTTGGAACTATTTCTATTGGGATTAATTCCCATG-G---C-
1 GGCTTGGAACTCTGTCTGTTGGGATTAATTTCCATGTGTCACG
*
22652 -TC-TGGAACTCTGTCTGTTGGGATTAATTTCCATGTGTCACG
1 GGCTTGGAACTCTGTCTGTTGGGATTAATTTCCATGTGTCACG
22693 GGCTT
1 GGCTT
22698 ACAAATCAAG
Statistics
Matches: 67, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
36 28 0.42
37 2 0.03
39 1 0.01
40 1 0.01
42 2 0.03
43 29 0.43
44 4 0.06
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.38
Consensus pattern (43 bp):
GGCTTGGAACTCTGTCTGTTGGGATTAATTTCCATGTGTCACG
Found at i:41985 original size:27 final size:27
Alignment explanation
Indices: 41955--42010 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
41945 CATTGTCGGA
* *
41955 GGAGAAGTAGTCGGTGTCAATGCAGGG
1 GGAGAACTAGTCGGTGTCAACGCAGGG
* * *
41982 GGAGAACTTGTGGGTGTCAACGCCGGG
1 GGAGAACTAGTCGGTGTCAACGCAGGG
42009 GG
1 GG
42011 TGCAGCCATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.14, G:0.46, T:0.18
Consensus pattern (27 bp):
GGAGAACTAGTCGGTGTCAACGCAGGG
Found at i:46094 original size:18 final size:18
Alignment explanation
Indices: 46056--46095 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
46046 TCTCGAGATC
* * *
46056 GGGACCGTGATCGTGATA
1 GGGAACGTGATCGGGACA
46074 GGGAACGTGATCGGGACA
1 GGGAACGTGATCGGGACA
46092 GGGA
1 GGGA
46096 TAGGGACCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.45, T:0.15
Consensus pattern (18 bp):
GGGAACGTGATCGGGACA
Found at i:55547 original size:18 final size:17
Alignment explanation
Indices: 55514--55547 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
55504 AACTAGCAGA
*
55514 ATAGTAAACCACAAACT
1 ATAGTAAACAACAAACT
55531 ATAGTAAATCAACAAAC
1 ATAGTAAA-CAACAAAC
55548 CTTCCTCGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.21, G:0.06, T:0.18
Consensus pattern (17 bp):
ATAGTAAACAACAAACT
Found at i:56490 original size:16 final size:16
Alignment explanation
Indices: 56469--56503 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
56459 TGTCTGTATA
* *
56469 AAGAATAGAGGACTTC
1 AAGAATAAACGACTTC
56485 AAGAATAAACGACTTC
1 AAGAATAAACGACTTC
56501 AAG
1 AAG
56504 CAAATAATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.17
Consensus pattern (16 bp):
AAGAATAAACGACTTC
Found at i:56919 original size:3 final size:3
Alignment explanation
Indices: 56911--56980 Score: 79
Period size: 3 Copynumber: 23.3 Consensus size: 3
56901 AGCTTTCTCC
* *
56911 TCT TCT TCT TCT T-T CTCT TCT TCT TCT TTT TCT TCA TCT TCT TCT
1 TCT TCT TCT TCT TCT -TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * *
56956 TCC TCC TCT TCC TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
56981 TTAACGCATC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
2 1 0.02
3 55 0.96
4 1 0.02
ACGTcount: A:0.01, C:0.36, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:59484 original size:25 final size:25
Alignment explanation
Indices: 59438--59485 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
59428 ATAGTTTCGG
* * *
59438 GTGCAAATTGTCCATTTGTTTATAA
1 GTGCAAATTGTACAATTATTTATAA
*
59463 GTGCAACTTGTACAATTATTTAT
1 GTGCAAATTGTACAATTATTTAT
59486 TTATTTATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (25 bp):
GTGCAAATTGTACAATTATTTATAA
Found at i:59487 original size:4 final size:4
Alignment explanation
Indices: 59478--59503 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
59468 ACTTGTACAA
59478 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
59504 TTGCACAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:59872 original size:101 final size:102
Alignment explanation
Indices: 59605--59977 Score: 730
Period size: 102 Copynumber: 3.7 Consensus size: 102
59595 TACATTGTCT
59605 GTCTCAAGTTCATAGTTGTTGAAATTTTCCTTACTAAATATGTATTGGATATTTAAACCC-AAAA
1 GTCTCAAGTTCATAGTTGTTGAAATTTTCCTTACTAAATATGTATTGGATATTTAAACCCAAAAA
*
59669 AAAAATGGATTGGGTAGTAAATTATTAATAATAAATA
66 AAAAATGGATTGGGTAGTAAATTATTAATCATAAATA
59706 GTCTCAAGTTCATAGTTGTTGAAATTTTCCTTACTAAATATGTATTGGATATTTAAACCCAAAAA
1 GTCTCAAGTTCATAGTTGTTGAAATTTTCCTTACTAAATATGTATTGGATATTTAAACCCAAAAA
59771 AAAAATGGATTGGGTAGTAAATTATTAATCATAAATA
66 AAAAATGGATTGGGTAGTAAATTATTAATCATAAATA
59808 GTCTCAAGTTCATAGTTGTTGAAATTTTCCTTACTAAATATGTATTGGATATTTAAACCCAAAAA
1 GTCTCAAGTTCATAGTTGTTGAAATTTTCCTTACTAAATATGTATTGGATATTTAAACCCAAAAA
59873 AAAAATGGATTGGGTAGTAAATTATTAATCATAAATA
66 AAAAATGGATTGGGTAGTAAATTATTAATCATAAATA
59910 GTCTCAAGTTCATAGTTGTTGAAATTTTCCTTACTAAATATGTATTGGATATTTAAACCCAAAAA
1 GTCTCAAGTTCATAGTTGTTGAAATTTTCCTTACTAAATATGTATTGGATATTTAAACCCAAAAA
59975 AAA
66 AAA
59978 TATATTGGAT
Statistics
Matches: 270, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
101 60 0.22
102 210 0.78
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.36
Consensus pattern (102 bp):
GTCTCAAGTTCATAGTTGTTGAAATTTTCCTTACTAAATATGTATTGGATATTTAAACCCAAAAA
AAAAATGGATTGGGTAGTAAATTATTAATCATAAATA
Found at i:65396 original size:16 final size:16
Alignment explanation
Indices: 65375--65409 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
65365 TGTCTGTACA
* *
65375 AAGAATAGAGGACTTC
1 AAGAATAAACGACTTC
65391 AAGAATAAACGACTTC
1 AAGAATAAACGACTTC
65407 AAG
1 AAG
65410 CAAATGATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.17
Consensus pattern (16 bp):
AAGAATAAACGACTTC
Found at i:65825 original size:3 final size:3
Alignment explanation
Indices: 65817--65871 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
65807 AGCCTTCTCC
* * * * * *
65817 TCT TCT TCT TCT TTT TCT CCG TCT TCT TCT TCC TCC TCT TCC TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
65865 TCT TCT T
1 TCT TCT T
65872 TTAACTCATC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.38, G:0.02, T:0.60
Consensus pattern (3 bp):
TCT
Found at i:69253 original size:2 final size:2
Alignment explanation
Indices: 69246--69273 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
69236 GCACTAACAC
69246 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
69274 TAAACCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.