Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014305.1 Kokia drynarioides strain JFW-HI SEQ_129341, 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: 113640
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 50 characters in sequence are not A, C, G, or T
Found at i:3595 original size:96 final size:95
Alignment explanation
Indices: 3427--3616 Score: 290
Period size: 96 Copynumber: 2.0 Consensus size: 95
3417 AAACGTGTCT
* *
3427 TTAGTCCAATAAAAAGAATGACCAAATCGATTGAAAAATTAATATGTTGTCTATCAAATCCAATT
1 TTAGTCCAATAAAAAGAATGACCAAATCGATTGAAAAATTAATATGTCGTCTATCAAATCCAATC
* * * *
3492 CGGAGAGATGTTTTGTCTTGGGCATCAGAC
66 CGAAGAGATGCTTTGCCTTGAGCATCAGAC
* * *
3522 TTAGTCTAATAAAAAGAATGAGCAAATTGATTGAAAAAATTAATATGTCGTCTATCAAATCCAAT
1 TTAGTCCAATAAAAAGAATGACCAAATCGATTG-AAAAATTAATATGTCGTCTATCAAATCCAAT
3587 CCGAAGAGATGCTTTGCCTTGAGCATCAGA
65 CCGAAGAGATGCTTTGCCTTGAGCATCAGA
3617 GTGGATGACT
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
95 30 0.35
96 55 0.65
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (95 bp):
TTAGTCCAATAAAAAGAATGACCAAATCGATTGAAAAATTAATATGTCGTCTATCAAATCCAATC
CGAAGAGATGCTTTGCCTTGAGCATCAGAC
Found at i:14358 original size:5 final size:5
Alignment explanation
Indices: 14348--14373 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14338 TGTAATGGAC
14348 GTGGT GTGGT GTGGT GTGGT GTGGT G
1 GTGGT GTGGT GTGGT GTGGT GTGGT G
14374 GTGGAGGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.62, T:0.38
Consensus pattern (5 bp):
GTGGT
Found at i:25516 original size:21 final size:20
Alignment explanation
Indices: 25488--25526 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
25478 ATTTTCTTCG
*
25488 AATTGAGTCAAGTGAAATGA
1 AATTGAGTAAAGTGAAATGA
*
25508 AATTCGAGTAAAGTTAAAT
1 AATT-GAGTAAAGTGAAAT
25527 TGAGTGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (20 bp):
AATTGAGTAAAGTGAAATGA
Found at i:26266 original size:14 final size:15
Alignment explanation
Indices: 26247--26277 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26237 TATACGTTTA
26247 ATTTTTAAATATTAT
1 ATTTTTAAATATTAT
*
26262 ATTTTTAATTATTAT
1 ATTTTTAAATATTAT
26277 A
1 A
26278 ATTAATGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTTAAATATTAT
Found at i:27376 original size:96 final size:96
Alignment explanation
Indices: 27205--27386 Score: 244
Period size: 96 Copynumber: 1.9 Consensus size: 96
27195 AAGGATGTTT
* ** *
27205 GATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGGGCATATTTTCAGAATCGAAGA
1 GATTATCTCGATTTGAAGAAAGATTGCACCTAGTAAGTTAAGGCACAAATTTTCAGAATCGAAGA
* *
27270 TAAGGAAACATTGTCTCGATTAAAGGTATTC
66 TAAAGAAACATTGCCTCGATTAAAGGTATTC
* *
27301 GATTATTTCGATTTGAAGAAAGATTGCACCTAGTAAGTTAAGGCACAAATTTTC-GAAACTTGAA
1 GATTATCTCGATTTGAAGAAAGATTGCACCTAGTAAGTTAAGGCACAAATTTTCAG-AA-TCGAA
27365 -ATAAA-AGAACATTGCCTCGATT
64 GATAAAGA-AACATTGCCTCGATT
27387 TTAAACTGTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
95 2 0.03
96 69 0.92
97 4 0.05
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.30
Consensus pattern (96 bp):
GATTATCTCGATTTGAAGAAAGATTGCACCTAGTAAGTTAAGGCACAAATTTTCAGAATCGAAGA
TAAAGAAACATTGCCTCGATTAAAGGTATTC
Found at i:27757 original size:58 final size:58
Alignment explanation
Indices: 27695--27827 Score: 146
Period size: 58 Copynumber: 2.3 Consensus size: 58
27685 TTCGAAGTTG
* * * * *
27695 AAAATGGAGTTTTTGGATATTCGGGGGTAAATGGT-AA-TTTTTGAAAGTTTTGCG-GTCA
1 AAAATGGAATTTTTGGAGATTCGAGGGTAAATAGTAAATTTTTTG-AAG-TTTGAGAGT-A
* * *
27753 AAAATGGAAATTTTGGAGGTTCGAGGGTAAATATTAAATTTTTTGAAGTTTGAGAGTA
1 AAAATGGAATTTTTGGAGATTCGAGGGTAAATAGTAAATTTTTTGAAGTTTGAGAGTA
27811 AAAATGGAATTTTTGGA
1 AAAATGGAATTTTTGGA
27828 AGTTTCGGGG
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
58 50 0.79
59 7 0.11
60 6 0.10
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (58 bp):
AAAATGGAATTTTTGGAGATTCGAGGGTAAATAGTAAATTTTTTGAAGTTTGAGAGTA
Found at i:27795 original size:87 final size:86
Alignment explanation
Indices: 27723--27948 Score: 204
Period size: 87 Copynumber: 2.6 Consensus size: 86
27713 ATTCGGGGGT
* *
27723 AAATGGTAATTTTTGAAAGTTTTGCGGTCAAAAATGGAAATTTTGGAGGTTCGAGGGTAAATATT
1 AAATGG-AATTTTTGAAAGTTTCGCGGTC-AAAATGGAAATTTTGGAAGTTCGAGGGTAAATATT
* *
27788 AAATTTTTTGAAGTTTGAGAGTAA
64 AAATTTTTGGAAGTTCGAGAGT-A
* * * * * **
27812 AAATGGAATTTTTGGAAGTTTCGGGGTCAAAATGGGATTTTTGGAAGTTCGGGGGTAAA-ATGGA
1 AAATGGAATTTTTGAAAGTTTCGCGGTCAAAATGGAAATTTTGGAAGTTCGAGGGTAAATATTAA
* *
27876 ATTTTTTGAAGTTTTGAG-GTCA
66 ATTTTTGGAAG-TTCGAGAGT-A
* * * * * *
27898 AATATGGGATTTTTGGAAGTTTTGAGGTCAAATATGGGATTTTTGGAAGTT
1 AA-ATGGAATTTTTGAAAGTTTCGCGGTCAAA-ATGGAAATTTTGGAAGTT
27949 TCGGGGTCAA
Statistics
Matches: 121, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
86 19 0.16
87 59 0.49
88 37 0.31
89 6 0.05
ACGTcount: A:0.31, C:0.04, G:0.28, T:0.38
Consensus pattern (86 bp):
AAATGGAATTTTTGAAAGTTTCGCGGTCAAAATGGAAATTTTGGAAGTTCGAGGGTAAATATTAA
ATTTTTGGAAGTTCGAGAGTA
Found at i:27917 original size:30 final size:30
Alignment explanation
Indices: 27723--28009 Score: 230
Period size: 30 Copynumber: 9.7 Consensus size: 30
27713 ATTCGGGGGT
* *
27723 AAATGGTAATTTTTGAAAGTTTTGCGGTCAA
1 AAATGG-AATTTTTGGAAGTTTTGAGGTCAA
* * *
27754 AAATGGAAATTTTGG-AGGTTCGAGGGT-AA
1 AAATGGAATTTTTGGAAGTTTTGA-GGTCAA
* ** *
27783 ATATTAAATTTTTTGAAG-TTTGAGAGT-AA
1 AAATGGAATTTTTGGAAGTTTTGAG-GTCAA
* *
27812 AAATGGAATTTTTGGAAGTTTCGGGGTC-A
1 AAATGGAATTTTTGGAAGTTTTGAGGTCAA
* ** *
27841 AAATGGGATTTTTGGAAGTTCGGGGGT--A
1 AAATGGAATTTTTGGAAGTTTTGAGGTCAA
*
27869 AAATGGAATTTTTTGAAGTTTTGAGGTCAA
1 AAATGGAATTTTTGGAAGTTTTGAGGTCAA
* *
27899 ATATGGGATTTTTGGAAGTTTTGAGGTCAA
1 AAATGGAATTTTTGGAAGTTTTGAGGTCAA
* * * *
27929 ATATGGGATTTTTGGAAGTTTCGGGGTCAA
1 AAATGGAATTTTTGGAAGTTTTGAGGTCAA
* * *
27959 AAATGGGATTTTTGGAAGCTTGGAGGT-AA
1 AAATGGAATTTTTGGAAGTTTTGAGGTCAA
** *
27988 AAATATAATTTTCGGACAGTTT
1 AAATGGAATTTTTGGA-AGTTT
28010 AGGGACCTCT
Statistics
Matches: 209, Mismatches: 39, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
28 24 0.11
29 80 0.38
30 99 0.47
31 6 0.03
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.37
Consensus pattern (30 bp):
AAATGGAATTTTTGGAAGTTTTGAGGTCAA
Found at i:29803 original size:5 final size:6
Alignment explanation
Indices: 29754--29839 Score: 58
Period size: 6 Copynumber: 15.0 Consensus size: 6
29744 AATGAGACTT
* * * **
29754 TTTAAA TTTAAA -ATAAT TTTAAT TTTAAA AGTAAA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
29800 TTTAAA TTTAAA -ATAAA -TTAAA TATTATAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA T-TTA-AA TTTAAA TTTAAA
29840 AATGATTTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
4 2 0.03
5 18 0.29
6 38 0.60
7 3 0.05
8 2 0.03
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:29818 original size:17 final size:17
Alignment explanation
Indices: 29754--29839 Score: 78
Period size: 17 Copynumber: 5.4 Consensus size: 17
29744 AATGAGACTT
*
29754 TTTAAATTTAAAATAAT
1 TTTAAATTTAAAATAAA
*
29771 TTTAATTTTAAAAGTAAA
1 TTTAAATTTAAAA-TAAA
29789 TTTAAA-TT----T-AA
1 TTTAAATTTAAAATAAA
29800 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
29817 -TTAAATATTATAATAAA
1 TTTAAAT-TTAAAATAAA
29834 TTTAAA
1 TTTAAA
29840 AATGATTTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
11 8 0.14
12 3 0.05
16 7 0.12
17 25 0.45
18 13 0.23
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:33382 original size:23 final size:23
Alignment explanation
Indices: 33356--33400 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
33346 AAAACAGAAG
33356 CGTGCCACAAGGCAAAAGAAAAA
1 CGTGCCACAAGGCAAAAGAAAAA
* * *
33379 CGTGTCACAAGGTAGAAGAAAA
1 CGTGCCACAAGGCAAAAGAAAA
33401 CATGCCATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.49, C:0.18, G:0.24, T:0.09
Consensus pattern (23 bp):
CGTGCCACAAGGCAAAAGAAAAA
Found at i:33455 original size:23 final size:23
Alignment explanation
Indices: 33429--33473 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
33419 AAAAACTAAA
33429 AAAAAAAAAATCAAATATAAAAG
1 AAAAAAAAAATCAAATATAAAAG
* * **
33452 AAAATAAGAATTGAATATAAAA
1 AAAAAAAAAATCAAATATAAAA
33474 AATTAAAAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (23 bp):
AAAAAAAAAATCAAATATAAAAG
Found at i:34881 original size:6 final size:6
Alignment explanation
Indices: 34870--34894 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
34860 GTTTATAAAT
34870 GGAGTG GGAGTG GGAGTG GGAGTG G
1 GGAGTG GGAGTG GGAGTG GGAGTG G
34895 AGAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.68, T:0.16
Consensus pattern (6 bp):
GGAGTG
Found at i:36412 original size:29 final size:30
Alignment explanation
Indices: 36379--36437 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
36369 TTCTCGAATA
36379 TAATTACATCA-A-ATCAAAATTCATATATC
1 TAATTACAT-ATATATCAAAATTCATATATC
*
36408 TAATTATATATTATATCAAAATTCATATAT
1 TAATTACATA-TATATCAAAATTCATATAT
36438 AAATTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 1 0.04
29 8 0.31
30 1 0.04
31 16 0.62
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (30 bp):
TAATTACATATATATCAAAATTCATATATC
Found at i:37435 original size:22 final size:22
Alignment explanation
Indices: 37401--37445 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
37391 AGAAGAATAT
*
37401 ATTATTTTCTCCTCTCTTGGTG
1 ATTACTTTCTCCTCTCTTGGTG
* * *
37423 ATTACTTTGTCCTTTGTTGGTG
1 ATTACTTTCTCCTCTCTTGGTG
37445 A
1 A
37446 GCAAAGAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.11, C:0.18, G:0.18, T:0.53
Consensus pattern (22 bp):
ATTACTTTCTCCTCTCTTGGTG
Found at i:37933 original size:22 final size:22
Alignment explanation
Indices: 37864--37933 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
37854 AATTAAATTA
** * *
37864 TATATTTTTATAATAGTAAAAA
1 TATATTTTTATAATTTTTAAAT
* * *
37886 TATAATTTTATTA-TTCTAATATT
1 TATATTTTTATAATTTTTAA-A-T
37909 TATATTTTTATAATTTTTAAAT
1 TATATTTTTATAATTTTTAAAT
37931 TAT
1 TAT
37934 TAAATTAAAT
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
21 2 0.06
22 16 0.46
23 12 0.34
24 5 0.14
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (22 bp):
TATATTTTTATAATTTTTAAAT
Found at i:56268 original size:1 final size:1
Alignment explanation
Indices: 56224--56249 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
56214 NNNNNNNNNN
56224 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
56250 GGTATTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:61202 original size:20 final size:20
Alignment explanation
Indices: 61179--61236 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
61169 ATTTATAATG
61179 TTTATGTTTAATTAAATGTC
1 TTTATGTTTAATTAAATGTC
*
61199 TTTA-ATTT-A-T-AATG--
1 TTTATGTTTAATTAAATGTC
61213 TTTATGTTTAATTAAATGTC
1 TTTATGTTTAATTAAATGTC
61233 TTTA
1 TTTA
61237 GAAAATGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
14 4 0.13
15 3 0.10
16 5 0.17
17 2 0.07
18 5 0.17
19 3 0.10
20 8 0.27
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (20 bp):
TTTATGTTTAATTAAATGTC
Found at i:61210 original size:34 final size:34
Alignment explanation
Indices: 61167--61236 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
61157 TAGAATAACC
61167 TAATTTATAATGTTTATGTTTAATTAAATGTCTT
1 TAATTTATAATGTTTATGTTTAATTAAATGTCTT
61201 TAATTTATAATGTTTATGTTTAATTAAATGTCTT
1 TAATTTATAATGTTTATGTTTAATTAAATGTCTT
61235 TA
1 TA
61237 GAAAATGTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.56
Consensus pattern (34 bp):
TAATTTATAATGTTTATGTTTAATTAAATGTCTT
Found at i:63654 original size:2 final size:2
Alignment explanation
Indices: 63649--63688 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
63639 CACACGTGTG
* * *
63649 TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA AA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
63689 CGGTATCAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (2 bp):
TA
Found at i:72435 original size:76 final size:76
Alignment explanation
Indices: 72309--72462 Score: 308
Period size: 76 Copynumber: 2.0 Consensus size: 76
72299 AAAAGTCAAA
72309 GGCGCTAATTTGACGAAGCTTATAGGGCAAGTGAGCAACCCGGGCTCCACACAGAAAAGTGTCAT
1 GGCGCTAATTTGACGAAGCTTATAGGGCAAGTGAGCAACCCGGGCTCCACACAGAAAAGTGTCAT
72374 ATGGGTGAGAG
66 ATGGGTGAGAG
72385 GGCGCTAATTTGACGAAGCTTATAGGGCAAGTGAGCAACCCGGGCTCCACACAGAAAAGTGTCAT
1 GGCGCTAATTTGACGAAGCTTATAGGGCAAGTGAGCAACCCGGGCTCCACACAGAAAAGTGTCAT
72450 ATGGGTGAGAG
66 ATGGGTGAGAG
72461 GG
1 GG
72463 AAGTGTGCAC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.30, C:0.19, G:0.32, T:0.18
Consensus pattern (76 bp):
GGCGCTAATTTGACGAAGCTTATAGGGCAAGTGAGCAACCCGGGCTCCACACAGAAAAGTGTCAT
ATGGGTGAGAG
Found at i:77446 original size:23 final size:23
Alignment explanation
Indices: 77400--77482 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 23
77390 GAACATTAGC
** * *
77400 GTGCTTACTGTTCAGCATTGTGT
1 GTGCTTACTGTTTTGCACTATGT
*
77423 GTGCTTACTGTTTTGCTCTATGT
1 GTGCTTACTGTTTTGCACTATGT
* *
77446 GTGGC-TACTGATTTGCACTGTGT
1 GT-GCTTACTGTTTTGCACTATGT
77469 GTGCTTACTGTTTT
1 GTGCTTACTGTTTT
77483 CCAGCACTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
22 2 0.04
23 45 0.92
24 2 0.04
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.47
Consensus pattern (23 bp):
GTGCTTACTGTTTTGCACTATGT
Found at i:77518 original size:21 final size:21
Alignment explanation
Indices: 77494--77550 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
77484 CAGCACTTAT
77494 GTGCTCACTGATAGTACTTTG
1 GTGCTCACTGATAGTACTTTG
77515 GTGCTCACTGATAGTACTTTG
1 GTGCTCACTGATAGTACTTTG
* *
77536 GTACTCACTGTTAGT
1 GTGCTCACTGATAGT
77551 TTCGTATATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (21 bp):
GTGCTCACTGATAGTACTTTG
Found at i:82915 original size:23 final size:23
Alignment explanation
Indices: 82869--82951 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 23
82859 GAACATTAGC
** * *
82869 GTGCTTACTGTTCAGCATTGTGT
1 GTGCTTACTGTTTTGCACTATGT
*
82892 GTGCTTACTGTTTTGCTCTATGT
1 GTGCTTACTGTTTTGCACTATGT
* *
82915 GTGGC-TACTGATTTGCACTGTGT
1 GT-GCTTACTGTTTTGCACTATGT
82938 GTGCTTACTGTTTT
1 GTGCTTACTGTTTT
82952 CCAGCACTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
22 2 0.04
23 45 0.92
24 2 0.04
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.47
Consensus pattern (23 bp):
GTGCTTACTGTTTTGCACTATGT
Found at i:82987 original size:21 final size:21
Alignment explanation
Indices: 82963--83019 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
82953 CAGCACTTAT
82963 GTGCTCACTGATAGTACTTTG
1 GTGCTCACTGATAGTACTTTG
82984 GTGCTCACTGATAGTACTTTG
1 GTGCTCACTGATAGTACTTTG
* *
83005 GTACTCACTGTTAGT
1 GTGCTCACTGATAGT
83020 TTCGTATATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (21 bp):
GTGCTCACTGATAGTACTTTG
Found at i:90449 original size:24 final size:24
Alignment explanation
Indices: 90422--90477 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
90412 TTAAAAACAA
90422 AGGAAATGGTGGAGATGCGCTATT
1 AGGAAATGGTGGAGATGCGCTATT
90446 AGGAAATGGTGGAGATGCGCTATT
1 AGGAAATGGTGGAGATGCGCTATT
90470 AGGAAATG
1 AGGAAATG
90478 ACCCATCATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.32, C:0.07, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGAAATGGTGGAGATGCGCTATT
Done.