Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01019551.1 Corchorus olitorius cultivar O-4 contig19584, 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: 55744
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Found at i:10551 original size:13 final size:13
Alignment explanation
Indices: 10533--10557 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10523 TTTCAGTGTA
10533 TTTTTCTGTCTAT
1 TTTTTCTGTCTAT
10546 TTTTTCTGTCTA
1 TTTTTCTGTCTA
10558 GGGATGGTTG
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:0.08, C:0.16, G:0.08, T:0.68
Consensus pattern (13 bp):
TTTTTCTGTCTAT
Found at i:14406 original size:25 final size:24
Alignment explanation
Indices: 14370--14416 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
14360 TCCTTCTATT
14370 CATCTATCATC-AAGTTTTTCATC
1 CATCTATCATCAAAGTTTTTCATC
14393 CATCTCATCCATCAAAGTTTTTCA
1 CATCT-AT-CATCAAAGTTTTTCA
14417 AATTTTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 2 0.10
25 4 0.19
26 10 0.48
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (24 bp):
CATCTATCATCAAAGTTTTTCATC
Found at i:21351 original size:41 final size:39
Alignment explanation
Indices: 21296--21429 Score: 137
Period size: 41 Copynumber: 3.4 Consensus size: 39
21286 GTGTGATTTC
** *
21296 ATTCAATTGGGTCCCTAATTTAGGCTGTTATTTATTCATTG
1 ATTCAATTTTGTCCCTAATTTAGG-TG-TATTTATTAATTG
* * *
21337 ATTCAATTTTGTCCCTGATCTTAGGTAATATTTGTTAATTG
1 ATTCAATTTTGTCCCTAAT-TTAGGT-GTATTTATTAATTG
* * *
21378 ATTCAATTTTGTCCCTAATTTA-GAGTA-ATATTTATTG
1 ATTCAATTTTGTCCCTAATTTAGGTGTATTTATTAATTG
21415 ATTCAATTTTGTCCC
1 ATTCAATTTTGTCCC
21430 GGATTTAGAA
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
37 22 0.28
38 2 0.03
39 1 0.01
40 3 0.04
41 46 0.58
42 5 0.06
ACGTcount: A:0.25, C:0.14, G:0.13, T:0.48
Consensus pattern (39 bp):
ATTCAATTTTGTCCCTAATTTAGGTGTATTTATTAATTG
Found at i:21424 original size:37 final size:37
Alignment explanation
Indices: 21328--21438 Score: 143
Period size: 37 Copynumber: 2.9 Consensus size: 37
21318 GGCTGTTATT
*
21328 TATTCATTGATTCAATTTTGTCCCTGATCTTAG-GTAA
1 TATTTATTGATTCAATTTTGTCCCTGAT-TTAGAGTAA
*
21365 TATTTGTTAATTGATTCAATTTTGTCCCTAATTTAGAGTAA
1 TA--T-TT-ATTGATTCAATTTTGTCCCTGATTTAGAGTAA
*
21406 TATTTATTGATTCAATTTTGTCCCGGATTTAGA
1 TATTTATTGATTCAATTTTGTCCCTGATTTAGA
21439 ATTTTATTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
37 28 0.43
38 2 0.03
39 2 0.03
40 5 0.08
41 28 0.43
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.48
Consensus pattern (37 bp):
TATTTATTGATTCAATTTTGTCCCTGATTTAGAGTAA
Found at i:21447 original size:37 final size:37
Alignment explanation
Indices: 21326--21453 Score: 141
Period size: 37 Copynumber: 3.4 Consensus size: 37
21316 TAGGCTGTTA
*
21326 TTTATTCATTGATTCAATTTTGTCCCTGATCTTAGGTAAT
1 TTTATTTATTGATTCAATTTTGTCCCTGAT-TTA-G-AAT
* * * *
21366 ATTTGTTAATTGATTCAATTTTGTCCCTAATTTAGAGT
1 -TTTATTTATTGATTCAATTTTGTCCCTGATTTAGAAT
** *
21404 AATATTTATTGATTCAATTTTGTCCCGGATTTAGAAT
1 TTTATTTATTGATTCAATTTTGTCCCTGATTTAGAAT
21441 TTTATTT-TTGATT
1 TTTATTTATTGATT
21454 TATGCGGCCT
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
36 6 0.08
37 35 0.47
38 2 0.03
39 1 0.01
40 3 0.04
41 27 0.36
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.52
Consensus pattern (37 bp):
TTTATTTATTGATTCAATTTTGTCCCTGATTTAGAAT
Found at i:22293 original size:30 final size:31
Alignment explanation
Indices: 22221--22306 Score: 129
Period size: 32 Copynumber: 2.8 Consensus size: 31
22211 TTTCTTAAGC
*
22221 AAATCCAAAAGAAGATTTTGGAAAATAAGGT
1 AAATCCAAAAGAAGATTTTGGAAAATAAAGT
*
22252 AATTCCCAAAAGAAGATTTTGGAAAATAAAG-
1 AAAT-CCAAAAGAAGATTTTGGAAAATAAAGT
*
22283 AAATCCAAAAGAAGATTTTTGAAA
1 AAATCCAAAAGAAGATTTTGGAAA
22307 TTAATAAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
30 19 0.38
31 6 0.12
32 25 0.50
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.23
Consensus pattern (31 bp):
AAATCCAAAAGAAGATTTTGGAAAATAAAGT
Found at i:24931 original size:14 final size:14
Alignment explanation
Indices: 24898--24957 Score: 61
Period size: 15 Copynumber: 4.3 Consensus size: 14
24888 CAATACATGT
*
24898 TTTTCAAGAAAATTG
1 TTTTCAAGAAAA-GG
24913 TTTTCAAGAAAAGG
1 TTTTCAAGAAAAGG
* *
24927 TTTTCAAAAAATACG
1 TTTTCAAGAAA-AGG
24942 TTTTC-A-AAAAGG
1 TTTTCAAGAAAAGG
24954 TTTT
1 TTTT
24958 GAGTCTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
12 6 0.15
13 3 0.08
14 12 0.30
15 19 0.47
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (14 bp):
TTTTCAAGAAAAGG
Found at i:25620 original size:16 final size:15
Alignment explanation
Indices: 25599--25631 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
25589 CATTCAACTC
25599 AAAGAAAAAAGAATAA
1 AAAGAAAAAAGAA-AA
25615 AAAGAAAAAAGAAAA
1 AAAGAAAAAAGAAAA
25630 AA
1 AA
25632 CTCAACCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAAGAAAA
Found at i:27011 original size:64 final size:64
Alignment explanation
Indices: 26932--27381 Score: 632
Period size: 64 Copynumber: 7.0 Consensus size: 64
26922 ATTCAATTCA
* * * * * *
26932 TTCTCAACAATTTTCAGAAGATGAGCGGAAGACAATCTTGTCAAGAAGTACACCAGAAGATGGT
1 TTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTTAAGAAGTACACCAGAAGATGGT
* * * * * *
26996 TTCTCAACAATTTTCAGAAGATGAGCGGAAGACAATCTTGTCAAGAAGTACACCAGAAGATGGT
1 TTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTTAAGAAGTACACCAGAAGATGGT
* * *
27060 TTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCATATCAAGAAGTACACCAGAAGATGGT
1 TTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTTAAGAAGTACACCAGAAGATGGT
* * * *
27124 TTCCCAAGAGTTTTCAGAAGTTGATCAGAAAACGATCTTGTTAAAAAGTACACCAGAAGATGGT
1 TTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTTAAGAAGTACACCAGAAGATGGT
*
27188 TTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTATTAAGAAGTACACCAGAAGATGGT
1 TTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTTAAGAAGTACACCAGAAGATGGT
* * *
27252 TTCCCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTTAAAAAGTACACCAGAAGATAGT
1 TTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTTAAGAAGTACACCAGAAGATGGT
* * * *
27316 TTCTCGAAAAGGTTTCAGAAGTTGATCGGAAGACGATCTTGTTAA-AAGATGCACCGGAAGATGG
1 TTCTC-AAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTTAAGAAG-TACACCAGAAGATGG
27380 T
64 T
27381 T
1 T
27382 ATTTTGAAAT
Statistics
Matches: 355, Mismatches: 29, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
64 304 0.86
65 51 0.14
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (64 bp):
TTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTTAAGAAGTACACCAGAAGATGGT
Found at i:27523 original size:50 final size:50
Alignment explanation
Indices: 27447--27566 Score: 204
Period size: 50 Copynumber: 2.4 Consensus size: 50
27437 TCCAGAAGCA
* *
27447 AATTGGAAGACAGTTCAAAGGGTAAGCGGAAGACGGTCCTTTTAAGATTG
1 AATTGGAAGACAGTTCAAAGGATAAGCGGAAGACAGTCCTTTTAAGATTG
*
27497 AATTGGCAGACAGTTCAAAGGATAAGCGGAAGACAGTCCTTTTAAGATTG
1 AATTGGAAGACAGTTCAAAGGATAAGCGGAAGACAGTCCTTTTAAGATTG
*
27547 AATTGGAAGACAATTCAAAG
1 AATTGGAAGACAGTTCAAAG
27567 AAGTTGATCG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (50 bp):
AATTGGAAGACAGTTCAAAGGATAAGCGGAAGACAGTCCTTTTAAGATTG
Found at i:29092 original size:15 final size:16
Alignment explanation
Indices: 29064--29093 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
29054 TTTCCCAAGA
29064 AGTTACAGAGAGAAAC
1 AGTTACAGAGAGAAAC
29080 AGTTACA-AGAGAAA
1 AGTTACAGAGAGAAA
29094 GAAAGGGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.10, G:0.23, T:0.13
Consensus pattern (16 bp):
AGTTACAGAGAGAAAC
Found at i:29314 original size:14 final size:14
Alignment explanation
Indices: 29295--29341 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
29285 CTTTTTCTCA
29295 ACACACTCATCTTC
1 ACACACTCATCTTC
* *
29309 ACACACTGCTTCATC
1 ACACACT-CATCTTC
29324 ACACACTCATCTTC
1 ACACACTCATCTTC
29338 ACAC
1 ACAC
29342 GACTTACACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.30, C:0.43, G:0.02, T:0.26
Consensus pattern (14 bp):
ACACACTCATCTTC
Found at i:29353 original size:27 final size:28
Alignment explanation
Indices: 29295--29353 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
29285 CTTTTTCTCA
*
29295 ACACACTCATCTTCACACACTGCTTCATC
1 ACACACTCATCTTCACACACT-CTACATC
29324 ACACACTCATCTTCACACGACT-TACA-C
1 ACACACTCATCTTCACAC-ACTCTACATC
29351 ACA
1 ACA
29354 GCTTCATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 4 0.14
28 3 0.11
29 18 0.64
30 3 0.11
ACGTcount: A:0.32, C:0.41, G:0.03, T:0.24
Consensus pattern (28 bp):
ACACACTCATCTTCACACACTCTACATC
Found at i:30504 original size:41 final size:38
Alignment explanation
Indices: 30459--30581 Score: 104
Period size: 41 Copynumber: 3.1 Consensus size: 38
30449 TTCAATTGGA
*
30459 TCCCTAATTTAGGTTGTTATTTATTCATTGATTCAATTTTG
1 TCCCTAATTTA-G-TG-TATTTATTAATTGATTCAATTTTG
* * * *
30500 TCCCTGATCTAAGCTAATATTTGTTAATTGATTCAATTTTG
1 TCCCTAAT-TTAG-T-GTATTTATTAATTGATTCAATTTTG
* * * *
30541 TCCCTATTTTAGAGTA-ATATTTATTGATTCAATTTTG
1 TCCCTAATTTAGTGTATTTATTAATTGATTCAATTTTG
30578 TCCC
1 TCCC
30582 GGATTTAGAA
Statistics
Matches: 66, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
37 22 0.33
38 2 0.03
40 3 0.05
41 37 0.56
42 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.50
Consensus pattern (38 bp):
TCCCTAATTTAGTGTATTTATTAATTGATTCAATTTTG
Found at i:30576 original size:37 final size:37
Alignment explanation
Indices: 30480--30581 Score: 118
Period size: 41 Copynumber: 2.6 Consensus size: 37
30470 GGTTGTTATT
*
30480 TATTCATTGATTCAATTTTGTCCCTGATCTAAGCTAA
1 TATTTATTGATTCAATTTTGTCCCTGATCTAAGCTAA
*
30517 TATTTGTTAATTGATTCAATTTTGTCCCT-ATTTTAGAG-TAA
1 TA--T-TT-ATTGATTCAATTTTGTCCCTGA-TCTA-AGCTAA
30558 TATTTATTGATTCAATTTTGTCCC
1 TATTTATTGATTCAATTTTGTCCC
30582 GGATTTAGAA
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
37 21 0.37
38 2 0.04
39 2 0.04
40 2 0.04
41 28 0.49
42 2 0.04
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (37 bp):
TATTTATTGATTCAATTTTGTCCCTGATCTAAGCTAA
Found at i:30589 original size:37 final size:37
Alignment explanation
Indices: 30480--30590 Score: 118
Period size: 37 Copynumber: 2.9 Consensus size: 37
30470 GGTTGTTATT
* *
30480 TATTCATTGATTCAATTTTGTCCCTGATCTA-AGCTAA
1 TATTTATTGATTCAATTTTGTCCC-GATTTAGAGCTAA
*
30517 TATTTGTTAATTGATTCAATTTTGTCCCTATTTTAGAG-TAA
1 TA--T-TT-ATTGATTCAATTTTGTCCCGA-TTTAGAGCTAA
30558 TATTTATTGATTCAATTTTGTCCCGGATTTAGA
1 TATTTATTGATTCAATTTTGTCCC-GATTTAGA
30591 ATTTTATTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
37 27 0.43
38 3 0.05
39 2 0.03
40 2 0.03
41 27 0.43
42 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.48
Consensus pattern (37 bp):
TATTTATTGATTCAATTTTGTCCCGATTTAGAGCTAA
Found at i:30599 original size:37 final size:36
Alignment explanation
Indices: 30478--30605 Score: 114
Period size: 37 Copynumber: 3.4 Consensus size: 36
30468 TAGGTTGTTA
* *
30478 TTTATTCATTGATTCAATTTTGTCCCTGATCTAAGCTAAT
1 TTTATTTATTGATTCAATTTTGTCCC-GAT-TTAG--AAT
* * * *
30518 ATTTGTTAATTGATTCAATTTTGTCCCTATTTTAGAGT
1 -TTTATTTATTGATTCAATTTTGTCCCGA-TTTAGAAT
**
30556 AATATTTATTGATTCAATTTTGTCCCGGATTTAGAAT
1 TTTATTTATTGATTCAATTTTGTCCC-GATTTAGAAT
30593 TTTATTT-TTGATT
1 TTTATTTATTGATT
30606 TATGCGGCCT
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
36 6 0.08
37 34 0.47
38 3 0.04
40 4 0.06
41 25 0.35
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.52
Consensus pattern (36 bp):
TTTATTTATTGATTCAATTTTGTCCCGATTTAGAAT
Found at i:31443 original size:30 final size:31
Alignment explanation
Indices: 31371--31456 Score: 129
Period size: 32 Copynumber: 2.8 Consensus size: 31
31361 TTTCTTAAGC
* *
31371 AAATCCAAAAGAAGATTTTTGAAAATAAGGT
1 AAATCCAAAAGAAGATTTTGGAAAATAAAGT
*
31402 AATTCCCAAAAGAAGATTTTGGAAAATAAAG-
1 AAAT-CCAAAAGAAGATTTTGGAAAATAAAGT
31433 AAATCCAAAAGAAGATTTTGGAAA
1 AAATCCAAAAGAAGATTTTGGAAA
31457 TTAATAAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
30 20 0.40
31 6 0.12
32 24 0.48
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.23
Consensus pattern (31 bp):
AAATCCAAAAGAAGATTTTGGAAAATAAAGT
Found at i:33241 original size:21 final size:20
Alignment explanation
Indices: 33212--33254 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
33202 ATTCACACAA
33212 AGAAGTTTCAAACTCATTGG
1 AGAAGTTTCAAACTCATTGG
*
33232 AGAAGGTTTCAAGCTCATTGG
1 AGAA-GTTTCAAACTCATTGG
33253 AG
1 AG
33255 TTGTCTAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (20 bp):
AGAAGTTTCAAACTCATTGG
Found at i:37018 original size:2 final size:2
Alignment explanation
Indices: 37011--37041 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
37001 AAAAATTATC
37011 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37042 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37046 original size:2 final size:2
Alignment explanation
Indices: 37041--37067 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37031 ATATATATAT
37041 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
37068 ATAATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:44999 original size:19 final size:20
Alignment explanation
Indices: 44971--45011 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
44961 TTGAAGAGTG
*
44971 TTTGTGATTTT-TATTTAAT
1 TTTGTAATTTTATATTTAAT
*
44990 TTTGTAATTTTATTTTTAAT
1 TTTGTAATTTTATATTTAAT
45010 TT
1 TT
45012 CAGAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (20 bp):
TTTGTAATTTTATATTTAAT
Found at i:46167 original size:12 final size:12
Alignment explanation
Indices: 46152--46179 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
46142 TCCTATGATT
46152 ATCCCTACGATG
1 ATCCCTACGATG
46164 ATCCCTACGATG
1 ATCCCTACGATG
46176 ATCC
1 ATCC
46180 ATGAATGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.36, G:0.14, T:0.25
Consensus pattern (12 bp):
ATCCCTACGATG
Found at i:54368 original size:16 final size:16
Alignment explanation
Indices: 54347--54379 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
54337 TTAATATATG
*
54347 TTATGTTGTTATATTA
1 TTATGTTATTATATTA
54363 TTATGTTATTATATTA
1 TTATGTTATTATATTA
54379 T
1 T
54380 GTTATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (16 bp):
TTATGTTATTATATTA
Found at i:54369 original size:13 final size:13
Alignment explanation
Indices: 54361--54389 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
54351 GTTGTTATAT
54361 TATTATGTTATTA
1 TATTATGTTATTA
54374 TATTATGTTATTA
1 TATTATGTTATTA
54387 TAT
1 TAT
54390 ACTTTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (13 bp):
TATTATGTTATTA
Done.