Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1959
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: 39625
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:1526 original size:22 final size:21
Alignment explanation
Indices: 1496--1537 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1486 ATATTTTTAT
1496 TAAAATTTAATTATAAAATATA
1 TAAAATTTAA-TATAAAATATA
*
1518 TAAATTTTAATATAAAATAT
1 TAAAATTTAATATAAAATAT
1538 TTTTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAAATTTAATATAAAATATA
Found at i:1805 original size:11 final size:12
Alignment explanation
Indices: 1707--1805 Score: 51
Period size: 13 Copynumber: 7.5 Consensus size: 12
1697 CACATTTAAG
1707 ATATTATATTTTT
1 ATATTATA-TTTT
*
1720 ATATAAATATTTT
1 ATAT-TATATTTT
1733 ATATTAATAATTTAT
1 ATATT-AT-ATTT-T
1748 ACTATATATATTTT
1 A-TAT-TATATTTT
1762 GATAATT-TATGTATCT
1 -AT-ATTATAT-T-T-T
*
1778 GTATTATATTTT
1 ATATTATATTTT
1790 A-ATTAT-TTTT
1 ATATTATATTTT
1800 ATATTA
1 ATATTA
1806 AATTATGTTC
Statistics
Matches: 69, Mismatches: 4, Indels: 28
0.68 0.04 0.28
Matches are distributed among these distances:
10 5 0.07
11 9 0.13
12 1 0.01
13 18 0.26
14 15 0.22
15 14 0.20
16 6 0.09
17 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (12 bp):
ATATTATATTTT
Found at i:2148 original size:8 final size:8
Alignment explanation
Indices: 2135--2160 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2125 TTTTATTTAA
2135 ATATAAAT
1 ATATAAAT
2143 ATATAAAT
1 ATATAAAT
2151 ATATAAAT
1 ATATAAAT
2159 AT
1 AT
2161 TAATATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:2408 original size:29 final size:28
Alignment explanation
Indices: 2374--2439 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
2364 TAAAAAGAAA
2374 TATATTTTAATAAATTTATATATTCATAT
1 TATATTTTAATAAATTTATATATT-ATAT
* * * *
2403 TATATTTTAATTATTTTTTATATTTTAT
1 TATATTTTAATAAATTTATATATTATAT
*
2431 AATATTTTA
1 TATATTTTA
2440 TCATGTAACC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (28 bp):
TATATTTTAATAAATTTATATATTATAT
Found at i:2438 original size:18 final size:18
Alignment explanation
Indices: 2402--2438 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
2392 TATATTCATA
*
2402 TTATATTTTAATTATTTT
1 TTATATTTTAAATATTTT
2420 TTATATTTTATAATATTTT
1 TTATATTTTA-AATATTTT
2439 ATCATGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATATTTTAAATATTTT
Found at i:2574 original size:30 final size:33
Alignment explanation
Indices: 2540--2604 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
2530 CACGATATAA
2540 ATATGATA-CAAAAAAT-TA-AAATATGATATG
1 ATATGATATCAAAAAATATATAAATATGATATG
*
2570 ATATGATATTAAAAAATAATATAAATATGATATG
1 ATATGATATCAAAAAAT-ATATAAATATGATATG
2604 A
1 A
2605 ATATTTGAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 8 0.27
31 7 0.23
33 2 0.07
34 13 0.43
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (33 bp):
ATATGATATCAAAAAATATATAAATATGATATG
Found at i:2686 original size:33 final size:32
Alignment explanation
Indices: 2620--2694 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 32
2610 TGAACGTATC
* *
2620 AAAATTAATATAATTTGAATTATCAATATATA
1 AAAATTAAAATAATTTGAAATATCAATATATA
2652 AAAATTTAAAATAATTT-AAATAT-AAT-TATA
1 AAAA-TTAAAATAATTTGAAATATCAATATATA
*
2682 ATAAAATAAAATA
1 A-AAATTAAAATA
2695 TATAAACATA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
30 12 0.32
31 6 0.16
32 9 0.24
33 11 0.29
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (32 bp):
AAAATTAAAATAATTTGAAATATCAATATATA
Found at i:3227 original size:2 final size:2
Alignment explanation
Indices: 3220--3252 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3210 TAGTGTAAGT
*
3220 TC TC TC TC TC TC TC TC TC TC TC TG TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3253 AGCATGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.03, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9994 original size:28 final size:27
Alignment explanation
Indices: 9935--10024 Score: 87
Period size: 28 Copynumber: 3.4 Consensus size: 27
9925 CACCAATTTG
* *
9935 TTTGTCAAAAATGGTGGTTATTTTGTG
1 TTTGTCAAAAATGGTGGTTATTTTATA
9962 TTTGTCAAAAATGGTGGTT-TCCTTTATA
1 TTTGTCAAAAATGGTGGTTAT--TTTATA
* * * *
9990 TTTGTCAAATATGGAGGCT-TGTT-TA
1 TTTGTCAAAAATGGTGGTTATTTTATA
10015 TTTGTCAAAA
1 TTTGTCAAAA
10025 TTTGTGGCTA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
25 11 0.20
26 3 0.06
27 19 0.35
28 21 0.39
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.46
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTATTTTATA
Found at i:14568 original size:28 final size:27
Alignment explanation
Indices: 14507--14598 Score: 91
Period size: 28 Copynumber: 3.4 Consensus size: 27
14497 GCCACCAATT
*
14507 TATTTGTCAAAAATGGTGGTTATTTTG
1 TATTTGTCAAAAATGGTGGTTATTTTA
*
14534 TGTTTGTCAAAAATGGTGGTT-TCCTTTA
1 TATTTGTCAAAAATGGTGGTTAT--TTTA
* * * *
14562 TATTTGTCAAATATGGAGGCT-TGTT-
1 TATTTGTCAAAAATGGTGGTTATTTTA
14587 TATTTGTCAAAA
1 TATTTGTCAAAA
14599 TTTGTGGCTA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
25 11 0.20
26 3 0.05
27 20 0.36
28 21 0.38
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.46
Consensus pattern (27 bp):
TATTTGTCAAAAATGGTGGTTATTTTA
Found at i:16372 original size:17 final size:18
Alignment explanation
Indices: 16342--16385 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
16332 CAATAATGTA
*
16342 ATTTATA-TTATTTAAAT
1 ATTTATATTTTTTTAAAT
*
16359 TTTTA-ATTTTTTTAAAT
1 ATTTATATTTTTTTAAAT
16376 ATTTATATTT
1 ATTTATATTT
16386 AATATATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 17 0.77
18 4 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTATATTTTTTTAAAT
Found at i:16395 original size:11 final size:12
Alignment explanation
Indices: 16369--16406 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
16359 TTTTAATTTT
16369 TTTAAATATTTATA
1 TTTAAATA--TATA
16383 TTT-AATATATA
1 TTTAAATATATA
16394 TTTAAATATATA
1 TTTAAATATATA
16406 T
1 T
16407 ACAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.30
12 9 0.39
13 4 0.17
14 3 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTAAATATATA
Found at i:16404 original size:14 final size:14
Alignment explanation
Indices: 16369--16433 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 14
16359 TTTTAATTTT
*
16369 TTTAAATATTTATA
1 TTTAAATATATATA
16383 TTT--A-ATATATA
1 TTTAAATATATATA
16394 TTTAAATATATATA
1 TTTAAATATATATA
***
16408 CAAAAATATAT-TCA
1 TTTAAATATATAT-A
16422 TTTAAATATATA
1 TTTAAATATATA
16434 AAAAAATTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
11 9 0.23
12 1 0.03
13 2 0.05
14 27 0.69
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTAAATATATATA
Found at i:17493 original size:2 final size:2
Alignment explanation
Indices: 17488--17521 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
17478 TTTTGCCGCC
17488 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
17522 CCAGAATGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17764 original size:29 final size:28
Alignment explanation
Indices: 17704--17761 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
17694 TATACCGATC
* *
17704 TATAAATGTAAATATATTAAAATTTTAAA
1 TATAAATATAAATATATTAAAATATT-AA
17733 TATAAATATAATATATATTAAATATATTA
1 TATAAATATAA-ATATATTAAA-ATATTA
17762 TATTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.40
30 11 0.44
31 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (28 bp):
TATAAATATAAATATATTAAAATATTAA
Found at i:17796 original size:21 final size:21
Alignment explanation
Indices: 17748--17809 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
17738 ATATAATATA
17748 TATTAAATATATTATATT-TTT
1 TATTAAATAT-TTATATTATTT
17769 TA-T--AT-TTT-T-TTATGTT
1 TATTAAATATTTATATTAT-TT
17785 TATTAAATATTTATATTATTT
1 TATTAAATATTTATATTATTT
17806 TATT
1 TATT
17810 TTTTATGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 16
0.67 0.00 0.33
Matches are distributed among these distances:
14 2 0.06
15 2 0.06
16 6 0.18
17 2 0.06
18 2 0.06
19 2 0.06
20 4 0.12
21 9 0.27
22 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TATTAAATATTTATATTATTT
Found at i:19433 original size:19 final size:19
Alignment explanation
Indices: 19409--19456 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
19399 TTAATATTTT
19409 TAAATATTAAATAAATA-AA
1 TAAATATTAAA-AAATATAA
*
19428 TAAATATTTAAAAATATAA
1 TAAATATTAAAAAATATAA
19447 TAAATTATTA
1 TAAA-TATTA
19457 TTAATTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.20
19 16 0.64
20 4 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATATTAAAAAATATAA
Found at i:19495 original size:4 final size:4
Alignment explanation
Indices: 19478--19522 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
19468 TAATAATTTA
* * * *
19478 ATAT ACAT ACAT ATAT ATAT ATAT ATAT ATAT ATGT ATGT ATAT A
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT A
19523 GTCTCTAGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (4 bp):
ATAT
Found at i:19501 original size:10 final size:10
Alignment explanation
Indices: 19478--19522 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
19468 TAATAATTTA
* *
19478 ATATACATAC
1 ATATATATAT
19488 ATATATATAT
1 ATATATATAT
19498 ATATATATAT
1 ATATATATAT
* *
19508 ATATGTATGT
1 ATATATATAT
19518 ATATA
1 ATATA
19523 GTCTCTAGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (10 bp):
ATATATATAT
Found at i:21900 original size:14 final size:15
Alignment explanation
Indices: 21866--21900 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
21856 TTTCACATAT
21866 TTTTCATTTCATGCA
1 TTTTCATTTCATGCA
21881 TTTTCATTTCATGC-
1 TTTTCATTTCATGCA
21895 TTTTCA
1 TTTTCA
21901 CGTAACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (15 bp):
TTTTCATTTCATGCA
Found at i:21938 original size:5 final size:5
Alignment explanation
Indices: 21928--21997 Score: 86
Period size: 5 Copynumber: 14.0 Consensus size: 5
21918 GCATAATTTT
* * * *
21928 CATTG CATTG CATTT CATTT CATTT CATTG CATTG CATTT CATTG CATTG
1 CATTG CATTG CATTG CATTG CATTG CATTG CATTG CATTG CATTG CATTG
* *
21978 CATTT CATTA CATTG CATTG
1 CATTG CATTG CATTG CATTG
21998 GTTTCATGCA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 58 1.00
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.47
Consensus pattern (5 bp):
CATTG
Found at i:21945 original size:15 final size:15
Alignment explanation
Indices: 21928--21996 Score: 102
Period size: 15 Copynumber: 4.6 Consensus size: 15
21918 GCATAATTTT
* *
21928 CATTGCATTGCATTT
1 CATTGCATTTCATTG
*
21943 CATTTCATTTCATTG
1 CATTGCATTTCATTG
21958 CATTGCATTTCATTG
1 CATTGCATTTCATTG
*
21973 CATTGCATTTCATTA
1 CATTGCATTTCATTG
21988 CATTGCATT
1 CATTGCATT
21997 GGTTTCATGC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 49 1.00
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.48
Consensus pattern (15 bp):
CATTGCATTTCATTG
Found at i:21950 original size:20 final size:20
Alignment explanation
Indices: 21925--21997 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
21915 CATGCATAAT
21925 TTTCATTGCATTGCATTTCA
1 TTTCATTGCATTGCATTTCA
* *
21945 TTTCATTTCATTGCATTGCA
1 TTTCATTGCATTGCATTTCA
21965 TTTCATTGCATTGCATTTCA
1 TTTCATTGCATTGCATTTCA
*
21985 TTACATTGCATTG
1 TTTCATTGCATTG
21998 GTTTCATGCA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (20 bp):
TTTCATTGCATTGCATTTCA
Found at i:23350 original size:16 final size:15
Alignment explanation
Indices: 23329--23359 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
23319 GATTTTCATA
23329 AAAATAATAACAAAAT
1 AAAATAATAA-AAAAT
23345 AAAATAATAAAAAAT
1 AAAATAATAAAAAAT
23360 TCTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAATAAAAAAT
Found at i:30371 original size:33 final size:33
Alignment explanation
Indices: 30334--30400 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
30324 TTCAACGATT
30334 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
30367 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
30400 T
1 T
30401 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:30372 original size:13 final size:13
Alignment explanation
Indices: 30354--30378 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30344 CATAAAATGT
30354 TGTATCGATACAA
1 TGTATCGATACAA
30367 TGTATCGATACA
1 TGTATCGATACA
30379 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:30459 original size:13 final size:13
Alignment explanation
Indices: 30441--30465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30431 ATTACTCAAA
30441 TGTATCGATACAT
1 TGTATCGATACAT
30454 TGTATCGATACA
1 TGTATCGATACA
30466 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:38742 original size:19 final size:19
Alignment explanation
Indices: 38718--38785 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
38708 AATTCAACAG
38718 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
38737 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
38752 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
38769 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
38786 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:38756 original size:32 final size:32
Alignment explanation
Indices: 38720--38782 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
38710 TTCAACAGTT
*
38720 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
38752 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
38783 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:38757 original size:13 final size:13
Alignment explanation
Indices: 38739--38763 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38729 ACATAAGTTT
38739 TGTATCGATACAA
1 TGTATCGATACAA
38752 TGTATCGATACA
1 TGTATCGATACA
38764 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:38830 original size:20 final size:19
Alignment explanation
Indices: 38805--38859 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
38795 GCCAAGGAAA
*
38805 TGTATCGATACATTTTTTT
1 TGTATCGATACATTTTCTT
**
38824 GTGTATCGATACATGGATCTT
1 -TGTATCGATACAT-TTTCTT
38845 TGTATCGATACATTT
1 TGTATCGATACATTT
38860 GGAAATTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 26 0.90
21 3 0.10
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (19 bp):
TGTATCGATACATTTTCTT
Done.