Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold137
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: 675198
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 5 of 5
Found at i:648752 original size:18 final size:18
Alignment explanation
Indices: 648731--648765 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
648721 TAAATTATTT
648731 AATTAAATTAAAAATAAA
1 AATTAAATTAAAAATAAA
**
648749 AATTTTATTAAAAATAA
1 AATTAAATTAAAAATAA
648766 TATATTATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTAAATTAAAAATAAA
Found at i:649255 original size:6 final size:6
Alignment explanation
Indices: 649247--649291 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
649237 TACTATTATT
*
649247 TAAATT TAAATA TAAATA TAAA-A TAATATA TATAATA TAAATA TA
1 TAAATA TAAATA TAAATA TAAATA TAA-ATA TA-AATA TAAATA TA
649292 TTTAATGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
5 4 0.11
6 22 0.63
7 8 0.23
8 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TAAATA
Found at i:649352 original size:14 final size:14
Alignment explanation
Indices: 649312--649363 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
649302 AAAATTTTTA
*
649312 TATATTTAAAAATT
1 TATATTTAAATATT
**
649326 TATATTTTTATATT
1 TATATTTAAATATT
649340 TATATTTAAATA--
1 TATATTTAAATATT
649352 TATA-TTAAATAT
1 TATATTTAAATAT
649364 AAATATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 7 0.22
12 4 0.12
14 21 0.66
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TATATTTAAATATT
Found at i:650079 original size:21 final size:21
Alignment explanation
Indices: 650055--650101 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
650045 TTTTAAATTT
650055 TATAAATAAAAAATATAACTA
1 TATAAATAAAAAATATAACTA
* **
650076 TATAATTAAAATTTATAACTA
1 TATAAATAAAAAATATAACTA
650097 T-TAAA
1 TATAAA
650102 AGAGATTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (21 bp):
TATAAATAAAAAATATAACTA
Found at i:652538 original size:8 final size:7
Alignment explanation
Indices: 652504--652539 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
652494 TTTCAGAATC
652504 TAAA-TT
1 TAAATTT
652510 TAAATTT
1 TAAATTT
652517 TAAATTT
1 TAAATTT
652524 TAAATTT
1 TAAATTT
*
652531 TAAAATT
1 TAAATTT
652538 TA
1 TA
652540 GTGCAGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
TAAATTT
Found at i:654025 original size:2 final size:2
Alignment explanation
Indices: 654020--654089 Score: 86
Period size: 2 Copynumber: 35.0 Consensus size: 2
654010 TTTGTGTGCG
* * * * *
654020 TA TA TA TA TA TA TA TA CA TA TA CA TG CA TT TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
654062 TA TA TA TA TA TA TA TA TA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
654090 AACCTCCAAG
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:654644 original size:17 final size:17
Alignment explanation
Indices: 654607--654638 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
654597 TTATTTTATT
654607 ATTT-AATAAATATTAA
1 ATTTAAATAAATATTAA
654623 ATTTAAATAAA-ATTAA
1 ATTTAAATAAATATTAA
654639 TTTTTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTAAATAAATATTAA
Found at i:655364 original size:19 final size:17
Alignment explanation
Indices: 655327--655360 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
655317 TATTATATTT
655327 TTTAAATTTTTTTAAAA
1 TTTAAATTTTTTTAAAA
*
655344 TTTATATTTTTTTAAAA
1 TTTAAATTTTTTTAAAA
655361 AATTAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTAAATTTTTTTAAAA
Found at i:655436 original size:44 final size:46
Alignment explanation
Indices: 655331--655436 Score: 103
Period size: 44 Copynumber: 2.4 Consensus size: 46
655321 ATATTTTTTA
* ** *
655331 AATTTTTTTAAAATTTA-TATTTTTTTAAAAAATTAAATATCTAAT
1 AATTTTTTTAATATTTATTATAGTTTTAAAAAATTAAATAACTAAT
* * * * *
655376 AA-TTTTATATTTTTTATTA-AGTTTTAAAATA-TAAATAACTTAT
1 AATTTTTTTAATATTTATTATAGTTTTAAAAAATTAAATAACTAAT
655419 AATTTTTTTAATATTTAT
1 AATTTTTTTAATATTTAT
655437 CTTATAATAT
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
43 12 0.26
44 31 0.66
45 4 0.09
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.56
Consensus pattern (46 bp):
AATTTTTTTAATATTTATTATAGTTTTAAAAAATTAAATAACTAAT
Found at i:655528 original size:22 final size:22
Alignment explanation
Indices: 655462--655528 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
655452 ATTTATTTTT
* * *
655462 TATATAATATAAATAATATAATA
1 TATATTATATAATTAA-AAAATA
* * *
655485 TATGTTAAAT-ATAAAAATAATA
1 TATATTATATAATTAAAA-AATA
655507 TATATTATATAATTAAAAAATA
1 TATATTATATAATTAAAAAATA
655529 GATTAAATTC
Statistics
Matches: 33, Mismatches: 9, Indels: 5
0.70 0.19 0.11
Matches are distributed among these distances:
21 1 0.03
22 19 0.58
23 13 0.39
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (22 bp):
TATATTATATAATTAAAAAATA
Found at i:656071 original size:34 final size:36
Alignment explanation
Indices: 656031--656112 Score: 98
Period size: 34 Copynumber: 2.3 Consensus size: 36
656021 AAAAATATAT
* *
656031 TTTTATATTAATATTTATATATTTT-A-TAATTAA-A
1 TTTTATATTAATATATAT-TATTTTAATTAATAAATA
*
656065 TTTTATATTAAAATATATTATTTTAATTAATAAATA
1 TTTTATATTAATATATATTATTTTAATTAATAAATA
*
656101 TTTTAAATTAAT
1 TTTTATATTAAT
656113 TTAAAATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 6 0.15
34 17 0.43
35 6 0.15
36 11 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (36 bp):
TTTTATATTAATATATATTATTTTAATTAATAAATA
Found at i:656073 original size:20 final size:22
Alignment explanation
Indices: 656025--656073 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
656015 TTTATTAAAA
656025 ATATATTTTTATATTAATATTT
1 ATATATTTTTATATTAATATTT
656047 ATATA-TTTTATAATTAA-ATTT
1 ATATATTTTTAT-ATTAATATTT
656068 -TATATT
1 ATATATT
656074 AAAATATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.16
21 11 0.44
22 10 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATATATTTTTATATTAATATTT
Found at i:656076 original size:12 final size:11
Alignment explanation
Indices: 656031--656095 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 11
656021 AAAAATATAT
656031 TTTTATATTAA
1 TTTTATATTAA
656042 TATTTATA-T-A
1 T-TTTATATTAA
656052 TTTTATAATTAAA
1 TTTTAT-ATT-AA
656065 TTTTATATTAA
1 TTTTATATTAA
**
656076 -AATATATT-A
1 TTTTATATTAA
656085 TTTTA-ATTAA
1 TTTTATATTAA
656095 T
1 T
656096 AAATATTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 15
0.69 0.06 0.24
Matches are distributed among these distances:
9 9 0.21
10 13 0.30
11 5 0.12
12 9 0.21
13 7 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTATATTAA
Found at i:656084 original size:22 final size:22
Alignment explanation
Indices: 656034--656109 Score: 54
Period size: 21 Copynumber: 3.5 Consensus size: 22
656024 AATATATTTT
**
656034 TATATTAATATTTATATATT-TTA
1 TATATTAA-ATTT-TATATTAAAA
656057 TA-ATTAAATTTTATATTAAAA
1 TATATTAAATTTTATATTAAAA
656078 TATATT--ATTTTA-ATTAATAAA
1 TATATTAAATTTTATATT-A-AAA
*
656099 TATTTTAAATT
1 TATATTAAATT
656110 AATTTAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
19 3 0.07
20 13 0.30
21 15 0.34
22 8 0.18
23 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATATTAAATTTTATATTAAAA
Found at i:656102 original size:19 final size:20
Alignment explanation
Indices: 655998--656094 Score: 59
Period size: 18 Copynumber: 5.2 Consensus size: 20
655988 AGTTTATGAG
* *
655998 TTAAAATTTATTATTTATTTA
1 TTAAAATATATTATTT-TATA
656019 TTAAAA-ATA-TATTTTTATA
1 TTAAAATATATTA-TTTTATA
* *
656038 TT--AATAT-TTA-TATATT
1 TTAAAATATATTATTTTATA
* *
656054 TTATAAT-TA-AATTTTATA
1 TTAAAATATATTATTTTATA
656072 TTAAAATATATTATTTTA-A
1 TTAAAATATATTATTTTATA
656091 TTAA
1 TTAA
656095 TAAATATTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 20
0.67 0.10 0.23
Matches are distributed among these distances:
16 6 0.10
17 4 0.07
18 17 0.29
19 14 0.24
20 11 0.19
21 6 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTAAAATATATTATTTTATA
Found at i:657138 original size:25 final size:23
Alignment explanation
Indices: 657110--657170 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
657100 AACTAGTAAG
*
657110 TTTAAATAA-AAAATTTTAATTATTA
1 TTTAAATAATAAAA-ATT-ATT-TTA
*
657135 TTTATATAATAAAAATTATTTTA
1 TTTAAATAATAAAAATTATTTTA
*
657158 TTTAAATTATAAA
1 TTTAAATAATAAA
657171 TATAATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 14 0.45
24 3 0.10
25 10 0.32
26 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTAAATAATAAAAATTATTTTA
Found at i:658103 original size:20 final size:20
Alignment explanation
Indices: 658062--658103 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
658052 TTACACTCTC
* *
658062 AAAATATAAATACATAAGAA
1 AAAATATAAATACAAAAAAA
*
658082 AAAATATAAAT-TAAAAAAA
1 AAAATATAAATACAAAAAAA
658101 AAA
1 AAA
658104 CCTTAAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAATATAAATACAAAAAAA
Found at i:658195 original size:14 final size:14
Alignment explanation
Indices: 658178--658222 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
658168 AAAAGTTAAA
658178 TTAAATATTTATAT
1 TTAAATATTTATAT
* *
658192 TTAAATATTAATAA
1 TTAAATATTTATAT
*
658206 TAAAATTATTTATAT
1 TTAAA-TATTTATAT
658221 TT
1 TT
658223 TTATATATTA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAAATATTTATAT
Found at i:658309 original size:12 final size:12
Alignment explanation
Indices: 658292--658317 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
658282 TAAAACTTAT
658292 TTATAAATTAAA
1 TTATAAATTAAA
658304 TTATAAATTAAA
1 TTATAAATTAAA
658316 TT
1 TT
658318 TTTTAATTTC
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTATAAATTAAA
Found at i:658379 original size:23 final size:23
Alignment explanation
Indices: 658353--658417 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
658343 TTTATTTCAC
658353 TTATATAATTAAAAATATTATTT
1 TTATATAATTAAAAATATTATTT
*** *
658376 TTATATTAA-TATTTATATAATTT
1 TTATA-TAATTAAAAATATTATTT
* *
658399 TAATTTAATTAAAAATATT
1 TTATATAATTAAAAATATT
658418 TTTATTTTTA
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
22 3 0.10
23 24 0.80
24 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTATATAATTAAAAATATTATTT
Found at i:660356 original size:18 final size:18
Alignment explanation
Indices: 660335--660372 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
660325 AGTTTAAATA
*
660335 TAAT-TATTATATTTTATT
1 TAATATATT-TATTATATT
660353 TAATATATTTATTATATT
1 TAATATATTTATTATATT
660371 TA
1 TA
660373 TGATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TAATATATTTATTATATT
Found at i:660415 original size:6 final size:6
Alignment explanation
Indices: 660387--660424 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
660377 AAAATTTTAC
660387 ATATTT AATAATTT ATA-TT ATATTT ATATTT ATATTT A
1 ATATTT -AT-ATTT ATATTT ATATTT ATATTT ATATTT A
660425 AGGATCGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.17
6 16 0.55
7 4 0.14
8 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (6 bp):
ATATTT
Found at i:660417 original size:17 final size:19
Alignment explanation
Indices: 660341--660422 Score: 59
Period size: 17 Copynumber: 4.4 Consensus size: 19
660331 AATATAATTA
*
660341 TTATATTTTATTTAAT-AT
1 TTATATTATATTTAATAAT
660359 ATT-TATTATATTTATGATAAAAT
1 -TTATATTATATTTA--AT--AAT
*
660382 TT-TA-CATATTTAATAAT
1 TTATATTATATTTAATAAT
660399 TTATATTATATTT-AT-AT
1 TTATATTATATTTAATAAT
660416 TTATATT
1 TTATATT
660423 TAAGGATCGA
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
17 14 0.26
18 14 0.26
19 10 0.19
20 2 0.04
21 7 0.13
22 4 0.08
23 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (19 bp):
TTATATTATATTTAATAAT
Found at i:660574 original size:40 final size:40
Alignment explanation
Indices: 660499--660596 Score: 151
Period size: 40 Copynumber: 2.4 Consensus size: 40
660489 TAAATACATG
* * *
660499 TAATAAATATATTTTTTTGTAACATAGGGTTTTTCTTTACT
1 TAATAAATATA-TCTTTTATAACATAGGGTTTTTCTTTACC
*
660540 TAATAAATATATCTTTTATAACTTAGGGTTTTTCTTTACC
1 TAATAAATATATCTTTTATAACATAGGGTTTTTCTTTACC
660580 TAATAAATATATCTTTT
1 TAATAAATATATCTTTT
660597 GTGTTAGATG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 42 0.79
41 11 0.21
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (40 bp):
TAATAAATATATCTTTTATAACATAGGGTTTTTCTTTACC
Found at i:669585 original size:16 final size:15
Alignment explanation
Indices: 669559--669594 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
669549 ATTAAATTAT
669559 TTTTAAATTTAAAAA
1 TTTTAAATTTAAAAA
669574 TTTTAAACTTTAAAAA
1 TTTTAAA-TTTAAAAA
*
669590 GTTTA
1 TTTTA
669595 TTAGAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (15 bp):
TTTTAAATTTAAAAA
Found at i:670370 original size:17 final size:17
Alignment explanation
Indices: 670329--670376 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 17
670319 TATTTTAAAA
670329 ATATTAAAATATTATTTTT
1 ATATT-AAAT-TTATTTTT
670348 ATATTAAATTTATATTTT
1 ATATTAAATTTAT-TTTT
670366 A-ATTAAATTTA
1 ATATTAAATTTA
670377 AATAAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.50
18 9 0.32
19 5 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATTAAATTTATTTTT
Found at i:670993 original size:21 final size:19
Alignment explanation
Indices: 670969--671010 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
670959 ATATAATTTT
670969 AATACGATAAAATATATATTA
1 AATA-GATAAAA-ATATATTA
*
670990 AATATATAAAAATATATTA
1 AATAGATAAAAATATATTA
671009 AA
1 AA
671011 AAAATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 6 0.30
21 4 0.20
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AATAGATAAAAATATATTA
Found at i:671013 original size:13 final size:14
Alignment explanation
Indices: 670997--671029 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
670987 TTAAATATAT
670997 AAAAATAT-ATTAA
1 AAAAATATAATTAA
671010 AAAAATATAATTAA
1 AAAAATATAATTAA
*
671024 ATAAAT
1 AAAAAT
671030 TAAAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAATATAATTAA
Found at i:671017 original size:21 final size:21
Alignment explanation
Indices: 670975--671034 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
670965 TTTTAATACG
*
670975 ATAAAATATATATT-A-AATAT
1 ATAAAA-ATATATTAAAAAAAT
670995 ATAAAAATATATTAAAAAAAT
1 ATAAAAATATATTAAAAAAAT
*
671016 ATAATTAAATAAATTAAAA
1 ATAA--AAATATATTAAAA
671035 TATATATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 7 0.21
20 7 0.21
21 8 0.24
23 12 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAAATATATTAAAAAAAT
Found at i:672172 original size:3 final size:3
Alignment explanation
Indices: 672164--672196 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
672154 AATCACCATT
672164 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
672197 CATAGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:673329 original size:15 final size:14
Alignment explanation
Indices: 673305--673334 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
673295 ATAATAAAAA
673305 AATAATATAAATAC
1 AATAATATAAATAC
673319 AATATATATAAATAC
1 AATA-ATATAAATAC
673334 A
1 A
673335 TAAATTACGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATATAAATAC
Found at i:674046 original size:24 final size:24
Alignment explanation
Indices: 674019--674065 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
674009 CTTAATTATA
*
674019 ATATATAATTATA-TTAAATATATC
1 ATAT-TAATTATAGTTAAAAATATC
674043 ATATTAATTATAGTTAAAAATAT
1 ATATTAATTATAGTTAAAAATAT
674066 GGCATCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
ATATTAATTATAGTTAAAAATATC
Done.