Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01004635.1 Kokia drynarioides strain JFW-HI SEQ_118159, 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: 146954
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:455 original size:29 final size:29
Alignment explanation
Indices: 420--513 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
410 TGTGCGAGCT
*
420 TATTGTACGTGAACTGTTTACATGTGAAC
1 TATTGTACGCGAACTGTTTACATGTGAAC
* * *
449 TATTGTATGCGAACTGTTTATATGTGAGC
1 TATTGTACGCGAACTGTTTACATGTGAAC
* * **
478 TATTGTATGC-AACTTGTTTATATGCAAAC
1 TATTGTACGCGAAC-TGTTTACATGTGAAC
507 TATTGTA
1 TATTGTA
514 TGCAAATTGT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
28 3 0.05
29 54 0.95
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (29 bp):
TATTGTACGCGAACTGTTTACATGTGAAC
Found at i:514 original size:29 final size:29
Alignment explanation
Indices: 434--535 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 29
424 GTACGTGAAC
* *
434 TGTTTACATGTGAACTATTGTATGCGAAC-
1 TGTTTATATGCGAACTATTGTATGC-AACT
* *
463 TGTTTATATGTGAGCTATTGTATGCAACT
1 TGTTTATATGCGAACTATTGTATGCAACT
* *
492 TGTTTATATGCAAACTATTGTATGCAAAT
1 TGTTTATATGCGAACTATTGTATGCAACT
521 TG-TTATATGCGAACT
1 TGTTTATATGCGAACT
536 TTTCGTAAGC
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
28 15 0.23
29 50 0.77
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (29 bp):
TGTTTATATGCGAACTATTGTATGCAACT
Found at i:529 original size:14 final size:14
Alignment explanation
Indices: 483--530 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
473 TGAGCTATTG
*
483 TATGCAACTTGTTTA
1 TATGCAAATTG-TTA
* * *
498 TATGCAAACTATTG
1 TATGCAAATTGTTA
512 TATGCAAATTGTTA
1 TATGCAAATTGTTA
526 TATGC
1 TATGC
531 GAACTTTTCG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (14 bp):
TATGCAAATTGTTA
Found at i:6839 original size:40 final size:40
Alignment explanation
Indices: 6789--6885 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
6779 CTTCATAGGT
*
6789 TCATGAGTCTTCCTTTTAATCAATCTTATGCTCTACCGAG
1 TCATAAGTCTTCCTTTTAATCAATCTTATGCTCTACCGAG
* * *
6829 TCATAAGTCTTCCTTTTATTCACTTTTATGCTCTACCGAG
1 TCATAAGTCTTCCTTTTAATCAATCTTATGCTCTACCGAG
*
6869 TCATAAGTATTCCTTTT
1 TCATAAGTCTTCCTTTT
6886 TAAAAGCAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.44
Consensus pattern (40 bp):
TCATAAGTCTTCCTTTTAATCAATCTTATGCTCTACCGAG
Found at i:7007 original size:43 final size:43
Alignment explanation
Indices: 6911--7058 Score: 169
Period size: 43 Copynumber: 3.5 Consensus size: 43
6901 CGCTTATTTT
* * * * *
6911 GAGACATGAGTCTT-CTTTTA-ATATAA-TCTCATTCTTATCCC
1 GAGACATGAGTCTTCCATTTATATA-AATTATCATGCTCAACCC
* *
6952 GAGACATAAGTCTCCCATTTATATAAATTATCATGCTCAACCC
1 GAGACATGAGTCTTCCATTTATATAAATTATCATGCTCAACCC
*
6995 GAGACATGAGTCTTCC-TTTAATATAAATTCTCATGCTCAACCC
1 GAGACATGAGTCTTCCATTT-ATATAAATTATCATGCTCAACCC
*
7038 AAGACATGAGTCTTCCATTTA
1 GAGACATGAGTCTTCCATTTA
7059 AATATCGAGT
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
41 12 0.13
42 10 0.11
43 66 0.73
44 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (43 bp):
GAGACATGAGTCTTCCATTTATATAAATTATCATGCTCAACCC
Found at i:22345 original size:26 final size:26
Alignment explanation
Indices: 22306--22402 Score: 140
Period size: 26 Copynumber: 3.7 Consensus size: 26
22296 TATGGTCTGT
* *
22306 ATCACCGGCTCAAAGCCTGATAGATA
1 ATCACCGGCACAAAGCCTGATATATA
* *
22332 ATCACTGGCACAAAGCCTAATATATA
1 ATCACCGGCACAAAGCCTGATATATA
* *
22358 ATCATCGACACAAAGCCTGATATATA
1 ATCACCGGCACAAAGCCTGATATATA
22384 ATCACCGGCACAAAGCCTG
1 ATCACCGGCACAAAGCCTG
22403 CTAGGCAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 61 1.00
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.20
Consensus pattern (26 bp):
ATCACCGGCACAAAGCCTGATATATA
Found at i:22467 original size:41 final size:41
Alignment explanation
Indices: 22386--22497 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
22376 GATATATAAT
* *
22386 CACCGGCACAAAGCCTGCTAGGCAAAAAACTTGAAACAATA
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCTTGAAACAATA
* * * * *
22427 CACCAGCACTAAGCCTGTTAGGCACAAAGCTTTAATCAATA
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCTTGAAACAATA
* * *
22468 CAACGGCACAAAGCTTACTAGGCACAAAGC
1 CACCGGCACAAAGCCTGCTAGGCACAAAGC
22498 CTCAATCGTT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.40, C:0.28, G:0.17, T:0.15
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGGCACAAAGCTTGAAACAATA
Found at i:33214 original size:43 final size:43
Alignment explanation
Indices: 33167--33285 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 43
33157 AATTTATTAA
*
33167 TTTTAGCGGGGTTTTTGGAAAAAATGTCGTTAAAGACCAAATT
1 TTTTAGCGGGGTTTTTGGAAAAAATGTCGTTAAAGAACAAATT
* * * * ** **
33210 TTTTAGCGGGGTTTGTAGTAGAAGCGTCGTTAAAGAACATGTT
1 TTTTAGCGGGGTTTTTGGAAAAAATGTCGTTAAAGAACAAATT
*
33253 TTTTAGC--GGTATTTGTGAAAAAATGTCGTTAAA
1 TTTTAGCGGGGTTTTTG-GAAAAAATGTCGTTAAA
33286 CTCGTGTTTT
Statistics
Matches: 59, Mismatches: 16, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
41 5 0.08
42 13 0.22
43 41 0.69
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.36
Consensus pattern (43 bp):
TTTTAGCGGGGTTTTTGGAAAAAATGTCGTTAAAGAACAAATT
Found at i:35483 original size:18 final size:17
Alignment explanation
Indices: 35446--35501 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
35436 CTTGCCCTCA
35446 AACTCGAACTCGCATGT
1 AACTCGAACTCGCATGT
35463 AACTCGAACATC-CATTGT
1 AACTCGAAC-TCGCA-TGT
* *
35481 AACTCGAATTCACATGT
1 AACTCGAACTCGCATGT
35498 AACT
1 AACT
35502 ACCCTACACT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
17 20 0.57
18 15 0.43
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (17 bp):
AACTCGAACTCGCATGT
Found at i:36137 original size:9 final size:9
Alignment explanation
Indices: 36115--36144 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
36105 CCGTTGTAAA
36115 GAAAACAA-
1 GAAAACAAG
36123 GAAAACAAG
1 GAAAACAAG
36132 GAAAACAAG
1 GAAAACAAG
36141 GAAA
1 GAAA
36145 GAAAATAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.70, C:0.10, G:0.20, T:0.00
Consensus pattern (9 bp):
GAAAACAAG
Found at i:37679 original size:21 final size:20
Alignment explanation
Indices: 37654--37696 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
37644 AAAATCTTGA
37654 AAATATAATTTTTAAAAGCCC
1 AAATA-AATTTTTAAAAGCCC
* * *
37675 AAATAATTTTTTTAAATCCC
1 AAATAAATTTTTAAAAGCCC
37695 AA
1 AA
37697 GTTTTCCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (20 bp):
AAATAAATTTTTAAAAGCCC
Found at i:46707 original size:34 final size:34
Alignment explanation
Indices: 46578--46746 Score: 132
Period size: 34 Copynumber: 5.0 Consensus size: 34
46568 GAAAAAGCTT
* * * *
46578 TAGGTTGAGTCTTTCAACTAA-GAAATAAGATTGA
1 TAGGTTGAGTTTTTCAA-TAAGGAAAGAAGCTTTA
* * * * * *
46612 TAGGTTAAGTGTCTT-AACAAAGAAAAAAGATTTA
1 TAGGTTGAGT-TTTTCAATAAGGAAAGAAGCTTTA
* *
46646 TCA-GTTGAGTTTTTCAAGAAGGAAAGAAGCTTTG
1 T-AGGTTGAGTTTTTCAATAAGGAAAGAAGCTTTA
* *
46680 TAGGTTGAGTTTTTCAATAAGGGAAGAAGTTTTA
1 TAGGTTGAGTTTTTCAATAAGGAAAGAAGCTTTA
* *
46714 TAGGTTGA--TTATCAATAAAGAAAGAAGCTTTA
1 TAGGTTGAGTTTTTCAATAAGGAAAGAAGCTTTA
46746 T
1 T
46747 TGATTTGAGT
Statistics
Matches: 109, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
32 21 0.19
33 6 0.06
34 79 0.72
35 3 0.03
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (34 bp):
TAGGTTGAGTTTTTCAATAAGGAAAGAAGCTTTA
Found at i:64482 original size:17 final size:17
Alignment explanation
Indices: 64456--64492 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
64446 TGAATAGATA
*
64456 AAAATAAATAAATAATG
1 AAAATAAATAAATAAAG
*
64473 AAAATGAATAAATAAAG
1 AAAATAAATAAATAAAG
64490 AAA
1 AAA
64493 CAATAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (17 bp):
AAAATAAATAAATAAAG
Found at i:66697 original size:2 final size:2
Alignment explanation
Indices: 66690--66718 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
66680 AAAAATTAAA
66690 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
66719 TATACTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:71514 original size:18 final size:18
Alignment explanation
Indices: 71488--71549 Score: 99
Period size: 18 Copynumber: 3.5 Consensus size: 18
71478 ATGCATAGCA
*
71488 TTTAGTTGTCATTGTATT
1 TTTATTTGTCATTGTATT
71506 TTTATTTGTCATTGTATT
1 TTTATTTGTCATTGTATT
*
71524 TTTATTTGTCATTGCA-T
1 TTTATTTGTCATTGTATT
71541 TTTATTTGT
1 TTTATTTGT
71550 TAGTACATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
17 10 0.24
18 32 0.76
ACGTcount: A:0.16, C:0.06, G:0.13, T:0.65
Consensus pattern (18 bp):
TTTATTTGTCATTGTATT
Found at i:73023 original size:23 final size:22
Alignment explanation
Indices: 72991--73034 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
72981 TTATAAATAG
72991 AGGAGAGAAGGAGATGAATTTCA
1 AGGAGAGAAGGAG-TGAATTTCA
* *
73014 AGGAGTGAAGGAGTTAATTTC
1 AGGAGAGAAGGAGTGAATTTC
73035 TTCAAATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.39, C:0.05, G:0.34, T:0.23
Consensus pattern (22 bp):
AGGAGAGAAGGAGTGAATTTCA
Found at i:81957 original size:21 final size:21
Alignment explanation
Indices: 81897--81959 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
81887 GTGTAGACTT
*
81897 CTACCGATACAAGTGAAAGT-T-
1 CTACCGATACAA--GAAACTCTA
*
81918 CTACCGATACAAGAGACTCTA
1 CTACCGATACAAGAAACTCTA
81939 CTACCGATACTAA-AAACTCTA
1 CTACCGATAC-AAGAAACTCTA
81960 GAGAGCTAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 29 0.81
22 2 0.06
ACGTcount: A:0.40, C:0.25, G:0.13, T:0.22
Consensus pattern (21 bp):
CTACCGATACAAGAAACTCTA
Found at i:90675 original size:6 final size:6
Alignment explanation
Indices: 90666--90692 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
90656 AAACATAAAC
90666 AAATTA AAATTA AAATTA AAATTA AAA
1 AAATTA AAATTA AAATTA AAATTA AAA
90693 ACAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTA
Found at i:90705 original size:25 final size:24
Alignment explanation
Indices: 90671--90717 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
90661 TAAACAAATT
* *
90671 AAAATTAAAATTAAAATTAAAAACA
1 AAAATAAAAATGAAAA-TAAAAACA
90696 AAAATAAAAATGAAAATAAAAA
1 AAAATAAAAATGAAAATAAAAA
90718 TTTCAAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (24 bp):
AAAATAAAAATGAAAATAAAAACA
Found at i:90706 original size:6 final size:6
Alignment explanation
Indices: 90670--90718 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
90660 ATAAACAAAT
* * * * *
90670 TAAAAT TAAAAT TAAAAT TAAAAA CAAAAA TAAAAA TGAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
90718 T
1 T
90719 TTCAAAGTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (6 bp):
TAAAAA
Found at i:90711 original size:12 final size:12
Alignment explanation
Indices: 90666--90719 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
90656 AAACATAAAC
*
90666 AAATTAAAATTA
1 AAATTAAAATAA
90678 AAATTAAAATTAA
1 AAATTAAAA-TAA
**
90691 AAACAAAAATAA
1 AAATTAAAATAA
*
90703 AAATGAAAATAA
1 AAATTAAAATAA
90715 AAATT
1 AAATT
90720 TCAAAGTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 26 0.74
13 9 0.26
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (12 bp):
AAATTAAAATAA
Found at i:101805 original size:2 final size:2
Alignment explanation
Indices: 101798--101833 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
101788 ATTGCCATGG
101798 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
101834 GAAATTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117601 original size:18 final size:17
Alignment explanation
Indices: 117574--117620 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
117564 AAAGGTGAAT
* *
117574 GAAGAAGAAGAAGGACCA
1 GAAGAGGAAGAA-GAACA
117592 GAAGAGGAAGAA-AACA
1 GAAGAGGAAGAAGAACA
117608 -AAGAGGAAGAAGA
1 GAAGAGGAAGAAGA
117621 TGATGCCTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 11 0.42
16 4 0.15
18 11 0.42
ACGTcount: A:0.60, C:0.06, G:0.34, T:0.00
Consensus pattern (17 bp):
GAAGAGGAAGAAGAACA
Found at i:118039 original size:17 final size:17
Alignment explanation
Indices: 118014--118056 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
118004 ATGCATCTCA
118014 TTTAATTGTCATTGCAT
1 TTTAATTGTCATTGCAT
* *
118031 TTTAGTTGTCGTTGCAT
1 TTTAATTGTCATTGCAT
*
118048 TTTACTTGT
1 TTTAATTGT
118057 TAGTTCATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.56
Consensus pattern (17 bp):
TTTAATTGTCATTGCAT
Found at i:128772 original size:14 final size:14
Alignment explanation
Indices: 128749--128786 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
128739 GTATTTTGCA
128749 TTTCCTTTTATCT-
1 TTTCCTTTTATCTG
*
128762 TTTCACTTTTATTTG
1 TTTC-CTTTTATCTG
128777 TTTCCTTTTA
1 TTTCCTTTTA
128787 AATTCTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.11, C:0.18, G:0.03, T:0.68
Consensus pattern (14 bp):
TTTCCTTTTATCTG
Found at i:131092 original size:18 final size:18
Alignment explanation
Indices: 131069--131139 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 18
131059 TATTATTTAG
131069 TTGTCATTGCATTTTCAT
1 TTGTCATTGCATTTTCAT
*
131087 TTGTCACTGCA-TTTCAT
1 TTGTCATTGCATTTTCAT
* * * *
131104 TTGTTAGTACATTTGCA-
1 TTGTCATTGCATTTTCAT
131121 TTGT-AGTTGCATTTTCAT
1 TTGTCA-TTGCATTTTCAT
131139 T
1 T
131140 CTTATCTGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
16 1 0.02
17 26 0.62
18 15 0.36
ACGTcount: A:0.18, C:0.15, G:0.14, T:0.52
Consensus pattern (18 bp):
TTGTCATTGCATTTTCAT
Found at i:131730 original size:15 final size:14
Alignment explanation
Indices: 131704--131748 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 14
131694 AAATTCACAA
131704 AAAGAAAGGAAAAG
1 AAAGAAAGGAAAAG
131718 AAAGAAGAGGAAAAG
1 AAAGAA-AGGAAAAG
**
131733 AAA-AAAAAAAAAG
1 AAAGAAAGGAAAAG
131746 AAA
1 AAA
131749 TATATTGCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 9 0.32
14 8 0.29
15 11 0.39
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AAAGAAAGGAAAAG
Found at i:136863 original size:17 final size:16
Alignment explanation
Indices: 136833--136871 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 16
136823 ATATTTATAT
136833 TTTTCTTTTCTATTAA
1 TTTTCTTTTCTATTAA
136849 TTTTC-TTTCT-TT-A
1 TTTTCTTTTCTATTAA
136862 TTTT-TTTTCT
1 TTTTCTTTTCT
136872 TTTATGTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 10 0.45
14 2 0.09
15 5 0.23
16 5 0.23
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTCTTTTCTATTAA
Done.