Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010494.1 Kokia drynarioides strain JFW-HI SEQ_125404, 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: 24962
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Warning! 41 characters in sequence are not A, C, G, or T
Found at i:7445 original size:96 final size:95
Alignment explanation
Indices: 7266--7452 Score: 218
Period size: 96 Copynumber: 1.9 Consensus size: 95
7256 GGGAAAAGAA
* * * **
7266 TATTTGATTATCTTGATTTGAAGAAAAGTTGCACCTAGTAACTTAAGGCGCGGTATTTCAGAATC
1 TATTCGATTATCTTGATTTGAAGAAAAATTGCACCTAGTAACTTAAGGCACAATATTTCAGAATC
7331 GAAGATAAGGAAACATTGCCTCGATTAAGGG
66 GAAGATAAGG-AACATTGCCTCGATTAAGGG
* * * *
7362 TATTCGATTATTTTGATTTGAGGAAAAATTGCACCTAGTAAGTTAAGGCACAA-ATTTTCGGAAC
1 TATTCGATTATCTTGATTTGAAGAAAAATTGCACCTAGTAACTTAAGGCACAATA-TTTCAGAA-
*
7426 TCGAA-ATAAAAGG-ATATTGCCTCGATT
64 TCGAAGAT--AAGGAACATTGCCTCGATT
7453 TTAAAGTTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
95 1 0.01
96 67 0.87
97 5 0.06
98 4 0.05
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (95 bp):
TATTCGATTATCTTGATTTGAAGAAAAATTGCACCTAGTAACTTAAGGCACAATATTTCAGAATC
GAAGATAAGGAACATTGCCTCGATTAAGGG
Found at i:7853 original size:29 final size:29
Alignment explanation
Indices: 7796--8286 Score: 374
Period size: 29 Copynumber: 16.5 Consensus size: 29
7786 ACATCCGAGC
7796 GTAAAAATGGTAATTTTTGGAAGTTTTGGG
1 GTAAAAATGG-AATTTTTGGAAGTTTTGGG
* *
7826 GTCAAAAATGGGATTTTTGGGAG-TTTGGG
1 GT-AAAAATGGAATTTTTGGAAGTTTTGGG
* *
7855 GTTAAAATGGTAATTTTTGGAAGTTTTAGG
1 GTAAAAATGG-AATTTTTGGAAGTTTTGGG
* *
7885 GTCAAAAATGGGATTTTTGGAAGTTTAGGG
1 GT-AAAAATGGAATTTTTGGAAGTTTTGGG
** *
7915 GT-AAAATGGAATTTTTCAAAAGTTTCGAGG
1 GTAAAAATGGAATTTTT-GGAAGTTTTG-GG
* * * *
7945 TTAAAAAT-GAGATTTTTAGAAGTTTAGGC
1 GTAAAAATGGA-ATTTTTGGAAGTTTTGGG
* *
7974 GT-AAAATGGTAATTTTAGGAAGTTTTAGG
1 GTAAAAATGG-AATTTTTGGAAGTTTTGGG
* *
8003 GTCAAAATGGTATTTTTGG-AGTTTTAGGG
1 GTAAAAATGGAATTTTTGGAAGTTTT-GGG
*
8032 TTAAAAATGGTAATTTTTGGAAGTTTTAGGG
1 GTAAAAATGG-AATTTTTGGAAGTTTT-GGG
* * *
8063 TTTAAAAATGTG-ATTTTTAGAAGTTTAGGG
1 -GTAAAAATG-GAATTTTTGGAAGTTTTGGG
* * *
8093 GT-AAAAGGGTAGTTTTTGAAAGTTTTAGGG
1 GTAAAAATGG-AATTTTTGGAAGTTTT-GGG
* * * *
8123 TTAAAAATGGGATTTTTGGAAG-TTCGATG
1 GTAAAAATGGAATTTTTGGAAGTTTTG-GG
*
8152 GT-AAAATGGTAATTTTTAGAAGTTTTGGG
1 GTAAAAATGG-AATTTTTGGAAGTTTTGGG
* * *
8181 GTTTAAAAATGGGATTTTTAGAAGTTTAGGG
1 G--TAAAAATGGAATTTTTGGAAGTTTTGGG
8212 GT-AAAATGGTAATTTTTGGAAGTTTTGGG
1 GTAAAAATGG-AATTTTTGGAAGTTTTGGG
* * **
8241 GTAAAAAAATGGAATATTTGGAAATTCAGGG
1 GT--AAAAATGGAATTTTTGGAAGTTTTGGG
8272 GT-AAAATGGTAATTT
1 GTAAAAATGG-AATTT
8287 CCAGACAATT
Statistics
Matches: 370, Mismatches: 60, Indels: 63
0.75 0.12 0.13
Matches are distributed among these distances:
27 1 0.00
28 58 0.16
29 111 0.30
30 85 0.23
31 91 0.25
32 23 0.06
33 1 0.00
ACGTcount: A:0.32, C:0.02, G:0.28, T:0.38
Consensus pattern (29 bp):
GTAAAAATGGAATTTTTGGAAGTTTTGGG
Found at i:8116 original size:119 final size:117
Alignment explanation
Indices: 7799--8286 Score: 592
Period size: 119 Copynumber: 4.1 Consensus size: 117
7789 TCCGAGCGTA
* * * * *
7799 AAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGGAGTTT-GGGGTTAAAAT
1 AAAATGGTAATTTTTAGAAGTTTTGGGTTTAAAAATGGGATTTTTAGAAGTTTAGGGG-TAAAAT
7863 GGTAATTTTTGGAAGTTTTAGGGTCAAAAATGGGATTTTTGGAAG-TTTAGGGGT
65 GGTAATTTTTGGAAGTTTTAGGGT-AAAAATGGGATTTTTGGAAGTTTTA-GGGT
* * * *
7917 AAAATGG-AATTTTTCAAAAGTTTCGAGG-TTAAAAATGAGATTTTTAGAAGTTTAGGCGTAAAA
1 AAAATGGTAATTTTT-AGAAGTTTTG-GGTTTAAAAATGGGATTTTTAGAAGTTTAGGGGTAAAA
* * *
7980 TGGTAATTTTAGGAAGTTTTAGGGTCAAAATGGTATTTTTGG-AGTTTTAGGGTT
64 TGGTAATTTTTGGAAGTTTTAGGGTAAAAATGGGATTTTTGGAAGTTTTAGGG-T
* *
8034 AAAAATGGTAATTTTTGGAAGTTTTAGGGTTTAAAAATGTGATTTTTAGAAGTTTAGGGGTAAAA
1 -AAAATGGTAATTTTTAGAAGTTTT-GGGTTTAAAAATGGGATTTTTAGAAGTTTAGGGGTAAAA
* * * ** *
8099 GGGTAGTTTTTGAAAGTTTTAGGGTTAAAAATGGGATTTTTGGAAGTTCGATGGT
64 TGGTAATTTTTGGAAGTTTTAGGG-TAAAAATGGGATTTTTGGAAGTTTTAGGGT
8154 AAAATGGTAATTTTTAGAAGTTTTGGGGTTTAAAAATGGGATTTTTAGAAGTTTAGGGGTAAAAT
1 AAAATGGTAATTTTTAGAAGTTTT-GGGTTTAAAAATGGGATTTTTAGAAGTTTAGGGGTAAAAT
* * * * *
8219 GGTAATTTTTGGAAGTTTTGGGGTAAAAAAATGGAATATTTGGAA-ATTCAGGGGT
65 GGTAATTTTTGGAAGTTTTAGGGT--AAAAATGGGATTTTTGGAAGTTTTA-GGGT
8274 AAAATGGTAATTT
1 AAAATGGTAATTT
8287 CCAGACAATT
Statistics
Matches: 318, Mismatches: 38, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
116 5 0.02
117 27 0.08
118 80 0.25
119 149 0.47
120 50 0.16
121 7 0.02
ACGTcount: A:0.32, C:0.02, G:0.28, T:0.38
Consensus pattern (117 bp):
AAAATGGTAATTTTTAGAAGTTTTGGGTTTAAAAATGGGATTTTTAGAAGTTTAGGGGTAAAATG
GTAATTTTTGGAAGTTTTAGGGTAAAAATGGGATTTTTGGAAGTTTTAGGGT
Found at i:8216 original size:60 final size:59
Alignment explanation
Indices: 7799--8286 Score: 583
Period size: 59 Copynumber: 8.2 Consensus size: 59
7789 TCCGAGCGTA
* * *
7799 AAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGGAGTTT-GGGGTT
1 AAAATGGTAATTTTTGGAAGTTTTAGGGTTAAAAATGGGATTTTTGGAAGTTTAGGGG-T
*
7858 AAAATGGTAATTTTTGGAAGTTTTAGGGTCAAAAATGGGATTTTTGGAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGAAGTTTTAGGGTTAAAAATGGGATTTTTGGAAGTTTAGGGGT
** * * * *
7917 AAAATGG-AATTTTTCAAAAG-TTTCGAGGTTAAAAATGAGATTTTTAGAAGTTTAGGCGT
1 AAAATGGTAATTTTT-GGAAGTTTTAG-GGTTAAAAATGGGATTTTTGGAAGTTTAGGGGT
* * * *
7976 AAAATGGTAATTTTAGGAAGTTTTAGGG-TCAAAATGGTATTTTTGG-AGTTTTAGGGTT
1 AAAATGGTAATTTTTGGAAGTTTTAGGGTTAAAAATGGGATTTTTGGAAG-TTTAGGGGT
* *
8034 AAAAATGGTAATTTTTGGAAGTTTTAGGGTTTAAAAATGTGATTTTTAGAAGTTTAGGGGT
1 -AAAATGGTAATTTTTGGAAGTTTTAGGG-TTAAAAATGGGATTTTTGGAAGTTTAGGGGT
* * * * *
8095 AAAAGGGTAGTTTTTGAAAGTTTTAGGGTTAAAAATGGGATTTTTGGAAG-TTCGATGGT
1 AAAATGGTAATTTTTGGAAGTTTTAGGGTTAAAAATGGGATTTTTGGAAGTTTAG-GGGT
* * *
8154 AAAATGGTAATTTTTAGAAGTTTTGGGGTTTAAAAATGGGATTTTTAGAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGAAGTTTTAGGG-TTAAAAATGGGATTTTTGGAAGTTTAGGGGT
* * * * * *
8214 AAAATGGTAATTTTTGGAAGTTTTGGGGTAAAAAAATGGAATATTTGGAAATTCAGGGGT
1 AAAATGGTAATTTTTGGAAGTTTTAGGGT-TAAAAATGGGATTTTTGGAAGTTTAGGGGT
8274 AAAATGGTAATTT
1 AAAATGGTAATTT
8287 CCAGACAATT
Statistics
Matches: 368, Mismatches: 47, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
57 2 0.01
58 35 0.10
59 177 0.48
60 127 0.35
61 25 0.07
62 2 0.01
ACGTcount: A:0.32, C:0.02, G:0.28, T:0.38
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGAAGTTTTAGGGTTAAAAATGGGATTTTTGGAAGTTTAGGGGT
Found at i:12254 original size:204 final size:204
Alignment explanation
Indices: 12003--12859 Score: 1351
Period size: 204 Copynumber: 4.2 Consensus size: 204
11993 NNNTCTGTAC
12003 CTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTAATTGCT
1 CTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTAATTGCT
* * *
12068 TCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTTGAAGATTTTTCTCGTTTTAAGTCTC
66 TCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTTGCTCGTTTTAAGTCTC
*
12133 GTTCGGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGATCACATCGCTGTTTGTTTCAATTCGCT
131 GTTCGGGTCTTCTTCTCAGTATCTCATCAGGAAGATGATCACATCGCTGTTTGTTTCAATTCGCT
12198 TCTCTATAT
196 TCTCTATAT
* * *
12207 CTCATCAGGACGACGAGTTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCT
1 CTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTAATTGCT
* * *
12272 TCAACCCGCTTCTCAGTGTCTCATCAGGGAGCTTGGGTTCGAAGATTTTGCTCGTTTT--GTGCT
66 TCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTTGCTCGTTTTAAGT-C-
* * * *
12335 TCATTTGGTTCTTCTTCTCAGTATCTCATCAGGAAGATGATCACGTCGCTGTTTGTTTCAATTCG
129 TCGTTCGGGTCTTCTTCTCAGTATCTCATCAGGAAGATGATCACATCGCTGTTTGTTTCAATTCG
* *
12400 CTCCTCTGTAT
194 CTTCTCTATAT
* *
12411 CTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAAGAAGCTAACCTTTTATTGCT
1 CTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTAATTGCT
* * * *
12476 TCAACTTGCTTTTCAGTGTCACATCAGGAAGGC-GGGGTTCGAAGATTTTGCTCGTTTTAAGCCT
66 TCAACCTGCTTCTCAGTGTCTCATCAGGAA-GCTGGGGTTCGAAGATTTTGCTCGTTTTAAGTCT
* * * *
12540 CGTTTGGGTCTTCTTCTCAGCATATCATCAGGAAGATGATAACATCGCTGTTTGTTTCAATTCGC
130 CGTTCGGGTCTTCTTCTCAGTATCTCATCAGGAAGATGATCACATCGCTGTTTGTTTCAATTCGC
* * *
12605 TGCTCTGTAC
195 TTCTCTATAT
12615 CTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTAATTGCT
1 CTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTAATTGCT
* * *
12680 TCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTTGAAGATTTTTCTCGTTTTAAGTCTC
66 TCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTTGCTCGTTTTAAGTCTC
*
12745 GTTCGGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGATCACATCGCTGTTTGTTTCAATTCGCT
131 GTTCGGGTCTTCTTCTCAGTATCTCATCAGGAAGATGATCACATCGCTGTTTGTTTCAATTCGCT
12810 TCTCTATAT
196 TCTCTATAT
* *
12819 CTCATCAGGACGACGAGTTTGGTTCACTTCTCAGTATCTCA
1 CTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCA
12860 CTTCTTCTAA
Statistics
Matches: 594, Mismatches: 53, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
202 2 0.00
203 3 0.01
204 585 0.98
205 3 0.01
206 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (204 bp):
CTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTAATTGCT
TCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTTGCTCGTTTTAAGTCTC
GTTCGGGTCTTCTTCTCAGTATCTCATCAGGAAGATGATCACATCGCTGTTTGTTTCAATTCGCT
TCTCTATAT
Found at i:18394 original size:21 final size:19
Alignment explanation
Indices: 18365--18403 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
18355 ATTGGATAAT
18365 TAGCCGGTTGCGACGTGCCCG
1 TAGCCGGTTGC--CGTGCCCG
*
18386 TAGCTGGTTGCCGTGCCC
1 TAGCCGGTTGCCGTGCCC
18404 TTACTGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
21 10 0.59
ACGTcount: A:0.08, C:0.33, G:0.36, T:0.23
Consensus pattern (19 bp):
TAGCCGGTTGCCGTGCCCG
Found at i:22648 original size:30 final size:30
Alignment explanation
Indices: 22614--22809 Score: 169
Period size: 30 Copynumber: 6.7 Consensus size: 30
22604 CAGACATCCG
22614 GGGGTAAAAATGGTAATTTTTGGAAGTTTT
1 GGGGTAAAAATGGTAATTTTTGGAAGTTTT
**
22644 GGGGTAAAAAAT-G-AGATTTTTGGAAGTTCG
1 GGGGT-AAAAATGGTA-ATTTTTGGAAGTTTT
22674 GGGGT--AAATGGTAATTTTTGGAAGTTTT
1 GGGGTAAAAATGGTAATTTTTGGAAGTTTT
* * *
22702 GGGGTTTAAAAATGG-GATTTTTAGAAG-TTC
1 GGGG--TAAAAATGGTAATTTTTGGAAGTTTT
*
22732 GGGGGAAAAATGGTAATTTTTGGAAG-TTT
1 GGGGTAAAAATGGTAATTTTTGGAAGTTTT
* * * * *
22761 CGGGTCAAAAATGG-GATTTTTTGAA-ATTC
1 GGGGT-AAAAATGGTAATTTTTGGAAGTTTT
22790 GAGGGT-AAAATGGTAATTTT
1 G-GGGTAAAAATGGTAATTTT
22810 CAGACAATTT
Statistics
Matches: 135, Mismatches: 18, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
27 4 0.03
28 33 0.24
29 33 0.24
30 43 0.32
31 16 0.12
32 6 0.04
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.36
Consensus pattern (30 bp):
GGGGTAAAAATGGTAATTTTTGGAAGTTTT
Found at i:22656 original size:60 final size:60
Alignment explanation
Indices: 22531--22809 Score: 265
Period size: 58 Copynumber: 4.8 Consensus size: 60
22521 AATTTGGAGT
* * * ** * *
22531 TAAAAAATGGA-A-TTTTA-AACATCCGGGGGTAAAAGGGTAACTTTAAG-AGTTTCGAGG
1 TAAAAAATGGAGATTTTTAGAA-GTCCGGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGG
* *
22588 TAAAAAATGGAG-TCTTCAGACA-TCCGGGGGTAAAAATGGTAATTTTTGGAAGTTTTGGGG
1 TAAAAAATGGAGATTTTTAGA-AGTCCGGGGGT-AAAATGGTAATTTTTGGAAGTTTTGGGG
* *
22648 TAAAAAAT-GAGATTTTTGGAAGTTCGGGGGT-AAATGGTAATTTTTGGAAGTTTTGGGG
1 TAAAAAATGGAGATTTTTAGAAGTCCGGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGG
* * * *
22706 TTTAAAAATGG-GATTTTTAGAAGTTCGGGGGAAAAATGGTAATTTTTGGAAG-TTTCGGG
1 -TAAAAAATGGAGATTTTTAGAAGTCCGGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGG
* * * * *
22765 TCAAAAATGG-GATTTTTTGAAATTCGAGGGTAAAATGGTAATTTT
1 TAAAAAATGGAGATTTTTAGAAGTCCGGGGGTAAAATGGTAATTTT
22810 CAGACAATTT
Statistics
Matches: 190, Mismatches: 21, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
57 11 0.06
58 79 0.42
59 50 0.26
60 50 0.26
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (60 bp):
TAAAAAATGGAGATTTTTAGAAGTCCGGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGG
Found at i:22702 original size:58 final size:59
Alignment explanation
Indices: 22612--22809 Score: 283
Period size: 58 Copynumber: 3.4 Consensus size: 59
22602 TTCAGACATC
* *
22612 CGGGGGTAAAAATGGTAATTTTTGGAAGTTTTGGGGTAAAAAATGAGATTTTTGGAAGTT
1 CGGGGGT-AAAATGGTAATTTTTGGAAGTTTTGGGGTAAAAAATGGGATTTTTAGAAGTT
*
22672 CGGGGGT-AAATGGTAATTTTTGGAAGTTTTGGGGTTTAAAAATGGGATTTTTAGAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGG-TAAAAAATGGGATTTTTAGAAGTT
* * * * *
22731 CGGGGGAAAAATGGTAATTTTTGGAAG-TTTCGGGTCAAAAATGGGATTTTTTGAAATT
1 CGGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTAAAAAATGGGATTTTTAGAAGTT
*
22789 CGAGGGTAAAATGGTAATTTT
1 CGGGGGTAAAATGGTAATTTT
22810 CAGACAATTT
Statistics
Matches: 126, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
58 67 0.53
59 33 0.26
60 26 0.21
ACGTcount: A:0.30, C:0.03, G:0.31, T:0.36
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTAAAAAATGGGATTTTTAGAAGTT
Found at i:24582 original size:6 final size:6
Alignment explanation
Indices: 24573--24634 Score: 78
Period size: 6 Copynumber: 10.8 Consensus size: 6
24563 AATTTTGAAC
24573 TTAAAT TTAAA- TTAAAT TTAAAT TTAAGA- TT-AAT TTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT
*
24619 TTAAA- TCAAAT TTAAA
1 TTAAAT TTAAAT TTAAA
24635 ATAAGTTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
4 1 0.02
5 12 0.24
6 35 0.71
7 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (6 bp):
TTAAAT
Found at i:24589 original size:11 final size:12
Alignment explanation
Indices: 24573--24634 Score: 78
Period size: 11 Copynumber: 5.4 Consensus size: 12
24563 AATTTTGAAC
24573 TTAAATTTAAA-
1 TTAAATTTAAAT
24584 TTAAATTTAAAT
1 TTAAATTTAAAT
24596 TTAAGA-TT-AAT
1 TTAA-ATTTAAAT
24607 TTAAATTTAAAT
1 TTAAATTTAAAT
*
24619 TTAAA-TCAAAT
1 TTAAATTTAAAT
24630 TTAAA
1 TTAAA
24635 ATAAGTTAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
10 1 0.02
11 30 0.65
12 14 0.30
13 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (12 bp):
TTAAATTTAAAT
Found at i:24595 original size:17 final size:17
Alignment explanation
Indices: 24573--24634 Score: 83
Period size: 17 Copynumber: 3.6 Consensus size: 17
24563 AATTTTGAAC
24573 TTAAATTTAAATTAAAT
1 TTAAATTTAAATTAAAT
24590 TTAAATTTAAGATT-AAT
1 TTAAATTTAA-ATTAAAT
24607 TTAAATTTAAATTTAAA-
1 TTAAATTTAAA-TTAAAT
*
24624 TCAAATTTAAA
1 TTAAATTTAAA
24635 ATAAGTTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
16 1 0.02
17 35 0.85
18 5 0.12
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
TTAAATTTAAATTAAAT
Found at i:24867 original size:12 final size:12
Alignment explanation
Indices: 24852--24877 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24842 TTTAATTTTA
24852 ATTTTAAAAAAT
1 ATTTTAAAAAAT
24864 ATTTTAAAAAAT
1 ATTTTAAAAAAT
24876 AT
1 AT
24878 AAATATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATTTTAAAAAAT
Done.