Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013241.1 Kokia drynarioides strain JFW-HI SEQ_128260, 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: 126907
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 19 characters in sequence are not A, C, G, or T
Found at i:346 original size:23 final size:23
Alignment explanation
Indices: 319--436 Score: 175
Period size: 23 Copynumber: 5.1 Consensus size: 23
309 ACAAAGTATT
*
319 GAGCACACAAAGTGCTAATTAGA
1 GAGCACACAAAGTGCTAATCAGA
*
342 GAGCACACGAAGTGCTAATCAGA
1 GAGCACACAAAGTGCTAATCAGA
*
365 GAGCACACATAGTGCTAATCAGA
1 GAGCACACAAAGTGCTAATCAGA
*
388 GAGCACACACAA-TGCTAATCAGC
1 GAGCACACA-AAGTGCTAATCAGA
*
411 GAGCACACACAGTGCTAATCAGA
1 GAGCACACAAAGTGCTAATCAGA
434 GAG
1 GAG
437 TGCGCTAGTG
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
22 1 0.01
23 83 0.98
24 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (23 bp):
GAGCACACAAAGTGCTAATCAGA
Found at i:3486 original size:60 final size:61
Alignment explanation
Indices: 3381--3497 Score: 157
Period size: 60 Copynumber: 1.9 Consensus size: 61
3371 AAATAAAAAA
* * * *
3381 AAATAGTATCTAAATATTAATTTGATAAAAATAAAGTTTAATAATTGTAATATCTAATCAT
1 AAATAGTATCTAAATATTAATTAGATAAAAATAAACTTAAATAATTATAATATCTAATCAT
* *
3442 AAATAGTATCTAAA-A-TAATTAGGTATTAAATAAACTTAAATAATTATAATATCTAA
1 AAATAGTATCTAAATATTAATTAGATA-AAAATAAACTTAAATAATTATAATATCTAA
3498 AACGAATTAG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 8 0.16
60 27 0.55
61 14 0.29
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (61 bp):
AAATAGTATCTAAATATTAATTAGATAAAAATAAACTTAAATAATTATAATATCTAATCAT
Found at i:7557 original size:16 final size:15
Alignment explanation
Indices: 7519--7560 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
7509 ATTGAATGAG
7519 AATAAATCTTTAATTA
1 AATAAAT-TTTAATTA
7535 AATAAATTTTAATTA
1 AATAAATTTTAATTA
*
7550 ATTAAAATTTT
1 AAT-AAATTTT
7561 TAAACATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATAAATTTTAATTA
Found at i:15630 original size:5 final size:5
Alignment explanation
Indices: 15619--15654 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
15609 TTCCAATTCA
*
15619 TATAT TAAAT TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT T
15655 TATGTAGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:29811 original size:6 final size:6
Alignment explanation
Indices: 29800--29834 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
29790 ACCAAAAATA
29800 TGGAGG TGGAGG TGGAGG TGGAGG TGGAGG TGGAG
1 TGGAGG TGGAGG TGGAGG TGGAGG TGGAGG TGGAG
29835 TATAGGCGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.66, T:0.17
Consensus pattern (6 bp):
TGGAGG
Found at i:31052 original size:5 final size:5
Alignment explanation
Indices: 31042--31067 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
31032 AGGTACAGTT
31042 AATTA AATTA AATTA AATTA AATTA A
1 AATTA AATTA AATTA AATTA AATTA A
31068 TAATACGTGT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:35654 original size:15 final size:15
Alignment explanation
Indices: 35603--35655 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
35593 TATATATTCC
35603 AAATAAATAATAAAA
1 AAATAAATAATAAAA
35618 TAAA-AAATAAAATTAGAAA
1 -AAATAAAT--AA-TA-AAA
35637 AAATAAATAATAAAA
1 AAATAAATAATAAAA
35652 AAAT
1 AAAT
35656 GACCGAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
15 11 0.34
16 5 0.16
17 4 0.12
18 5 0.16
19 7 0.22
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAATAAATAATAAAA
Found at i:40360 original size:23 final size:22
Alignment explanation
Indices: 40333--40378 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
40323 AAAAAAAATC
**
40333 AATTTAATTTATTTGATTTTACT
1 AATTTAATCAATTT-ATTTTACT
40356 AATTTAATCAATTTATTTTACT
1 AATTTAATCAATTTATTTTACT
40378 A
1 A
40379 TTAATGTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
AATTTAATCAATTTATTTTACT
Found at i:41692 original size:2 final size:2
Alignment explanation
Indices: 41685--41714 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
41675 TACTAGTAAA
41685 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
41715 AGTATAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:46055 original size:18 final size:18
Alignment explanation
Indices: 46034--46085 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 18
46024 TTTAAAAAAT
46034 ATTTATTTTAAATTTTAA
1 ATTTATTTTAAATTTTAA
*
46052 ATTTATTAATATAAAATTTTAT
1 ATTTATT--T-T-AAATTTTAA
46074 A-TTATTTTAAAT
1 ATTTATTTTAAAT
46086 AGTTTTAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
17 4 0.14
18 8 0.28
19 1 0.03
20 1 0.03
21 6 0.21
22 9 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTATTTTAAATTTTAA
Found at i:49502 original size:60 final size:59
Alignment explanation
Indices: 49410--49530 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 59
49400 TTACGTTAGC
* * * * *
49410 TAGTTGATGATCAAAAATGACAAAATTGAATAGTTAACTGACCATTCTGTAACTTTTCA
1 TAGTTGATGATAAAAAAAGACAAAATTAAATAGTTAAATAACCATTCTGTAACTTTTCA
* ** *
49469 TAGTTGATTGATAAAAAAAGATAAAATTAAATAGTTAAATAATTATTTTGTAACTTTTCA
1 TAGTTGA-TGATAAAAAAAGACAAAATTAAATAGTTAAATAACCATTCTGTAACTTTTCA
49529 TA
1 TA
49531 ATTTAATAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
59 7 0.13
60 45 0.87
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (59 bp):
TAGTTGATGATAAAAAAAGACAAAATTAAATAGTTAAATAACCATTCTGTAACTTTTCA
Found at i:50030 original size:31 final size:29
Alignment explanation
Indices: 49959--50030 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 29
49949 AATTATATAT
**
49959 AAATTATGATTTAATGTGTAATTTTATACATG
1 AAATT-TGATTT--TGTGTAATTTTATACACC
*
49991 AACTTTGATTTTGTGTAATTTTTATACACC
1 AAATTTGATTTTGTGTAA-TTTTATACACC
50021 AAATCTTGAT
1 AAAT-TTGAT
50031 ATGATCAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
29 7 0.21
30 12 0.35
31 11 0.32
32 4 0.12
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.47
Consensus pattern (29 bp):
AAATTTGATTTTGTGTAATTTTATACACC
Found at i:68086 original size:16 final size:16
Alignment explanation
Indices: 68065--68104 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
68055 TAATAAAAAT
*
68065 ATAATTTTTTATTTTA
1 ATAATTTTATATTTTA
*
68081 ATAA-TTTATATTTTT
1 ATAATTTTATATTTTA
68096 ATAATTTTA
1 ATAATTTTA
68105 AAAATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATAATTTTATATTTTA
Found at i:68153 original size:30 final size:29
Alignment explanation
Indices: 68064--68154 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 29
68054 ATAATAAAAA
* * *
68064 TATAATTTTTTATTTTAATAATTTATATTTT
1 TATAATTTTTAATATTAA-AATATA-ATTTT
* *
68095 TATAATTTTAAAAATATTAAATTA-AATTTT
1 TATAATTTT--TAATATTAAAATATAATTTT
68125 TATAATTTTTAATGATTAAAATATAATTTT
1 TATAATTTTTAAT-ATTAAAATATAATTTT
68155 ATTATTAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
28 3 0.06
29 8 0.16
30 20 0.41
31 10 0.20
32 2 0.04
33 6 0.12
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (29 bp):
TATAATTTTTAATATTAAAATATAATTTT
Found at i:71497 original size:12 final size:12
Alignment explanation
Indices: 71475--71570 Score: 60
Period size: 12 Copynumber: 8.3 Consensus size: 12
71465 ATAACATCCA
*
71475 AACAACCAAAAC
1 AACAACAAAAAC
* *
71487 AACAGCAAAAAT
1 AACAACAAAAAC
* *
71499 AATAGC-AAAAC
1 AACAACAAAAAC
71510 AAC-A-AAAAA-
1 AACAACAAAAAC
*
71519 AA-AACAAAAAT
1 AACAACAAAAAC
71530 AACAACAAAAA-
1 AACAACAAAAAC
*
71541 ATAGAAACAAAAAC
1 A-A-CAACAAAAAC
*
71555 AACAACAAAAAT
1 AACAACAAAAAC
71567 AACA
1 AACA
71571 GCATCAAAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
9 3 0.05
10 9 0.14
11 9 0.14
12 35 0.53
13 9 0.14
14 1 0.02
ACGTcount: A:0.74, C:0.18, G:0.03, T:0.05
Consensus pattern (12 bp):
AACAACAAAAAC
Found at i:71539 original size:31 final size:31
Alignment explanation
Indices: 71461--71556 Score: 95
Period size: 31 Copynumber: 3.1 Consensus size: 31
71451 AAAAACGAAT
* * * *
71461 AAAAATAACATCCAAACAACCAAAACAACAGC
1 AAAAATAACAACAAAACAA-CAAAACAAAAAC
* * *
71493 AAAAATAATAGCAAAACAACAAAAAAAAAAC
1 AAAAATAACAACAAAACAACAAAACAAAAAC
*
71524 AAAAATAACAACAAAA-AATAGAAACAAAAAC
1 AAAAATAACAACAAAACAACA-AAACAAAAAC
71555 AA
1 AA
71557 CAACAAAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 3 0.06
31 34 0.64
32 16 0.30
ACGTcount: A:0.73, C:0.18, G:0.03, T:0.06
Consensus pattern (31 bp):
AAAAATAACAACAAAACAACAAAACAAAAAC
Found at i:71541 original size:25 final size:25
Alignment explanation
Indices: 71507--71565 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
71497 ATAATAGCAA
*
71507 AACAACAAAAAAAAAACAAAAATAAC
1 AACAA-AAAAAAAAAACAAAAACAAC
* *
71533 AACAAAAAATAGAAACAAAAACAAC
1 AACAAAAAAAAAAAACAAAAACAAC
71558 AACAAAAA
1 AACAAAAA
71566 TAACAGCATC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 25 0.83
26 5 0.17
ACGTcount: A:0.80, C:0.15, G:0.02, T:0.03
Consensus pattern (25 bp):
AACAAAAAAAAAAAACAAAAACAAC
Found at i:71587 original size:23 final size:21
Alignment explanation
Indices: 71561--71632 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 21
71551 AAACAACAAC
71561 AAAAATAACAGCATCAAAACAGT
1 AAAAA-AACA-CATCAAAACAGT
71584 AAAAAAACAC-T-AAAACAGT
1 AAAAAAACACATCAAAACAGT
* * *
71603 AACTAAAACAACACCAAAACAGC
1 AA-AAAAAC-ACATCAAAACAGT
71626 AAAAAAA
1 AAAAAAA
71633 TCAACCAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
19 10 0.24
20 6 0.15
21 3 0.07
22 8 0.20
23 14 0.34
ACGTcount: A:0.67, C:0.19, G:0.06, T:0.08
Consensus pattern (21 bp):
AAAAAAACACATCAAAACAGT
Found at i:75359 original size:19 final size:20
Alignment explanation
Indices: 75337--75377 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
75327 GTTATTGTTG
*
75337 TTACTTGGACTTATG-TTAT
1 TTACTTGAACTTATGCTTAT
*
75356 TTACTTGAACTTTTGCTTAT
1 TTACTTGAACTTATGCTTAT
75376 TT
1 TT
75378 TTTTTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.56
Consensus pattern (20 bp):
TTACTTGAACTTATGCTTAT
Found at i:76018 original size:91 final size:92
Alignment explanation
Indices: 75863--76045 Score: 350
Period size: 91 Copynumber: 2.0 Consensus size: 92
75853 TGGGCCAATG
75863 GTAATAATGATGCTAACAAATCTTTTTACTTTAATTTTTCCTAATTTAACTTTTTATTTTTATAA
1 GTAATAATGATGCTAACAAATCTTTTTACTTTAATTTTTCCTAATTTAACTTTTTATTTTTATAA
75928 TG-TTTTTAGTTAATCCATGTTTATAA
66 TGTTTTTTAGTTAATCCATGTTTATAA
*
75954 GTAATAATGATGCTAACAAGTCTTTTTACTTTAATTTTTCCTAATTTAACTTTTTATTTTTATAA
1 GTAATAATGATGCTAACAAATCTTTTTACTTTAATTTTTCCTAATTTAACTTTTTATTTTTATAA
76019 TGTTTTTTAGTTAATCCATGTTTATAA
66 TGTTTTTTAGTTAATCCATGTTTATAA
76046 TACTATTAGT
Statistics
Matches: 90, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
91 66 0.73
92 24 0.27
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (92 bp):
GTAATAATGATGCTAACAAATCTTTTTACTTTAATTTTTCCTAATTTAACTTTTTATTTTTATAA
TGTTTTTTAGTTAATCCATGTTTATAA
Found at i:87649 original size:15 final size:16
Alignment explanation
Indices: 87629--87669 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
87619 CAGCTTTTGA
87629 ACTTAAAATA-AAATT
1 ACTTAAAATATAAATT
*
87644 ACTTAAAATATTAATT
1 ACTTAAAATATAAATT
87660 ACTTACAAAT
1 ACTTA-AAAT
87670 GTTTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.43
16 9 0.39
17 4 0.17
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.37
Consensus pattern (16 bp):
ACTTAAAATATAAATT
Found at i:90684 original size:4 final size:4
Alignment explanation
Indices: 90675--90726 Score: 95
Period size: 4 Copynumber: 13.0 Consensus size: 4
90665 ATCAAGACAT
*
90675 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG CATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
90723 GATG
1 GATG
90727 TTCTTGACTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.25, C:0.02, G:0.48, T:0.25
Consensus pattern (4 bp):
GATG
Found at i:100200 original size:24 final size:21
Alignment explanation
Indices: 100169--100214 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 21
100159 ATTCGAGTAC
100169 ATTTTAATTATTAATTTATTTAT
1 ATTTTAATTATT-ATTT-TTTAT
*
100192 ATTTGTAATTGTTATTTTTTAT
1 ATTT-TAATTATTATTTTTTAT
100214 A
1 A
100215 AATATCCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 8 0.38
24 7 0.33
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (21 bp):
ATTTTAATTATTATTTTTTAT
Found at i:104784 original size:19 final size:18
Alignment explanation
Indices: 104760--104795 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
104750 GGTGAGAAAA
104760 TGGGGTTTCTGGGATTTTT
1 TGGGGTTTCTGGG-TTTTT
104779 TGGGGTTTCTGGGTTTT
1 TGGGGTTTCTGGGTTTT
104796 GGTTTCGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.03, C:0.06, G:0.39, T:0.53
Consensus pattern (18 bp):
TGGGGTTTCTGGGTTTTT
Found at i:123241 original size:6 final size:6
Alignment explanation
Indices: 123230--123255 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
123220 TGATGTCGTG
123230 GGTGAT GGTGAT GGTGAT GGTGAT GG
1 GGTGAT GGTGAT GGTGAT GGTGAT GG
123256 ATGGAGCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.54, T:0.31
Consensus pattern (6 bp):
GGTGAT
Found at i:123644 original size:4 final size:4
Alignment explanation
Indices: 123635--123699 Score: 62
Period size: 4 Copynumber: 16.2 Consensus size: 4
123625 AAATAAACGG
* *
123635 GAAA GAAA GAAA TGAAA GAAA GAAA GAAA G-AA GAAT GAGAG GAAA GAAA
1 GAAA GAAA GAAA -GAAA GAAA GAAA GAAA GAAA GAAA GA-AA GAAA GAAA
* *
123684 G-AA TAAG GAAA GAAA G
1 GAAA GAAA GAAA GAAA G
123700 GTAATGTGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
3 5 0.10
4 38 0.76
5 7 0.14
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.05
Consensus pattern (4 bp):
GAAA
Found at i:123653 original size:13 final size:13
Alignment explanation
Indices: 123635--123683 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
123625 AAATAAACGG
123635 GAAAGAAAGAAAT
1 GAAAGAAAGAAAT
123648 GAAAGAAAGAAA-
1 GAAAGAAAGAAAT
123660 GAAAG-AAG-AAT
1 GAAAGAAAGAAAT
*
123671 GAGAGGAAAGAAA
1 GA-AAGAAAGAAA
123684 GAATAAGGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
10 2 0.06
11 5 0.16
12 7 0.23
13 15 0.48
14 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (13 bp):
GAAAGAAAGAAAT
Found at i:123696 original size:28 final size:29
Alignment explanation
Indices: 123634--123699 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
123624 CAAATAAACG
*
123634 GGAAAGAAAGAAATGAAAGAAAGAAAGAA
1 GGAAAGAAAGAAAGGAAAGAAAGAAAGAA
* * * *
123663 AG-AAGAATGAGAGGAAAGAAAG-AATAA
1 GGAAAGAAAGAAAGGAAAGAAAGAAAGAA
123690 GGAAAGAAAG
1 GGAAAGAAAG
123700 GTAATGTGTT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
27 5 0.17
28 23 0.79
29 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.05
Consensus pattern (29 bp):
GGAAAGAAAGAAAGGAAAGAAAGAAAGAA
Done.