Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold919
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: 274044
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
File 1 of 3
Found at i:7440 original size:19 final size:20
Alignment explanation
Indices: 7418--7456 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7408 TCTCTTCTTA
7418 TTTT-TCTTTTCCCTTTTTT
1 TTTTGTCTTTTCCCTTTTTT
*
7437 TTTTGTTTTTTCCCTTTTTT
1 TTTTGTCTTTTCCCTTTTTT
7457 CTTCCCTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (20 bp):
TTTTGTCTTTTCCCTTTTTT
Found at i:7495 original size:11 final size:10
Alignment explanation
Indices: 7479--7517 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
7469 TCCGTTCTTG
7479 CTTTTTCTTTT
1 CTTTTT-TTTT
7490 C--TTTTTTT
1 CTTTTTTTTT
7498 CTTTTTTTTT
1 CTTTTTTTTT
7508 CTTTTTTTTT
1 CTTTTTTTTT
7518 TCCTTTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 5 0.19
9 3 0.12
10 17 0.65
11 1 0.04
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:7498 original size:13 final size:12
Alignment explanation
Indices: 7480--7525 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
7470 CCGTTCTTGC
7480 TTTTTCTTTTCTT
1 TTTTTCTTTT-TT
7493 TTTTTC--TTTT
1 TTTTTCTTTTTT
7503 TTTTTCTTTTTT
1 TTTTTCTTTTTT
*
7515 TTTTCCTTTTT
1 TTTTTCTTTTT
7526 CTTCCTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 8 0.27
11 2 0.07
12 14 0.47
13 6 0.20
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:7507 original size:18 final size:18
Alignment explanation
Indices: 7479--7528 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
7469 TCCGTTCTTG
7479 CTTTTTCTTTTCTTTTTTT
1 CTTTTT-TTTTCTTTTTTT
7498 CTTTTTTTTTCTTTTTTT
1 CTTTTTTTTTCTTTTTTT
*
7516 -TTTCCTTTTTCTT
1 CTTT-TTTTTTCTT
7529 CCTTCTTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 3 0.10
18 20 0.69
19 6 0.21
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (18 bp):
CTTTTTTTTTCTTTTTTT
Found at i:7559 original size:22 final size:23
Alignment explanation
Indices: 7508--7561 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
7498 CTTTTTTTTT
* *
7508 CTTTTTTT-TTTCCTTTTTCTTC
1 CTTTTTTTCTTCCCTTTCTCTTC
*
7530 C-TTCTTTCTTCCCTTTCTC-TC
1 CTTTTTTTCTTCCCTTTCTCTTC
7551 CTTTTTTTCTT
1 CTTTTTTTCTT
7562 TCTCCATCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
CTTTTTTTCTTCCCTTTCTCTTC
Found at i:7673 original size:25 final size:26
Alignment explanation
Indices: 7635--7684 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
7625 AAAAATTAAA
* *
7635 AAAATATATAAAAATTTATATAAATT
1 AAAATATATAAAAAATAATATAAATT
7661 AAAA-ATATAAAAAATAATATAAAT
1 AAAATATATAAAAAATAATATAAAT
7685 ATTATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAATATATAAAAAATAATATAAATT
Found at i:7673 original size:36 final size:36
Alignment explanation
Indices: 7624--7695 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
7614 TCAAACTCAA
7624 TAAAAATTAAAAAAATATATAAAAAT-TTATATAAAT
1 TAAAAATTAAAAAAATA-ATAAAAATATTATATAAAT
*
7660 TAAAAA-TATAAAAAATAATATAAATATTATATAAAT
1 TAAAAATTA-AAAAAATAATAAAAATATTATATAAAT
7696 ATATATCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
35 9 0.27
36 24 0.73
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (36 bp):
TAAAAATTAAAAAAATAATAAAAATATTATATAAAT
Found at i:7681 original size:27 final size:27
Alignment explanation
Indices: 7634--7715 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
7624 TAAAAATTAA
*
7634 AAAAATATATAAAAATTTATATAA-ATT
1 AAAAATATATAAAAATATATA-AATATT
7661 AAAAATATA-AAAAATAATATAAATATT
1 AAAAATATATAAAAAT-ATATAAATATT
** *
7688 ATATAAATATATATCAATTTATAAATAT
1 A-A-AAATATATAAAAATATATAAATAT
7716 ACAAAAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
26 8 0.17
27 17 0.37
28 1 0.02
29 16 0.35
30 4 0.09
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (27 bp):
AAAAATATATAAAAATATATAAATATT
Found at i:8541 original size:24 final size:22
Alignment explanation
Indices: 8497--8539 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
8487 TTCTTTTCCT
8497 TCTCTTTTACTCTTTTTTTTTA
1 TCTCTTTTACTCTTTTTTTTTA
*
8519 TCTCTTTTTCTCTTTTTTTTT
1 TCTCTTTTACTCTTTTTTTTT
8540 TTTTTTCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.77
Consensus pattern (22 bp):
TCTCTTTTACTCTTTTTTTTTA
Found at i:8551 original size:23 final size:22
Alignment explanation
Indices: 8536--8592 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 22
8526 TTCTCTTTTT
*
8536 TTTTTTTTTTCCTTTCCTTCCAA
1 TTTTTTTTTTCCTTTCCTT-TAA
8559 TTTTTTTTTTCCTTTCCTTTCAA
1 TTTTTTTTTTCCTTTCCTTT-AA
8582 TTTTTTTTTTC
1 TTTTTTTTTTC
8593 TTTACTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTTTTTTTCCTTTCCTTTAA
Found at i:16835 original size:6 final size:6
Alignment explanation
Indices: 16819--16849 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
16809 TCAATTTGAT
16819 AAAAT- AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA
16850 TAAAATAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:16975 original size:2 final size:2
Alignment explanation
Indices: 16968--16992 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16958 TTTGTTTGTT
16968 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
16993 TACCTTCACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:21351 original size:135 final size:135
Alignment explanation
Indices: 21109--21377 Score: 430
Period size: 135 Copynumber: 2.0 Consensus size: 135
21099 GGGAGCCCTC
* * * *
21109 TACATGACAAAGTTTAAAGCCAAACCATAAAATACGAAAGCCCCAAATTTGATCTCGCAAATTTC
1 TACATGACAAAGTCTAAAACCAAACCATAAAATACGAAAGCCCCAAATCTGATCTCACAAATTTC
* *
21174 TCTCTTATCTCTTCTTCATTTCTAGATTTTTTCCTCTATTGTAATCTCTCCAATTTTTCCAGCTC
66 CCTCTTATCTCTTCTTCATTTCTAGATTTTTTCCTCTATTGTAATCTCCCCAATTTTTCCAGCTC
21239 CAGCT
131 CAGCT
* * * *
21244 TACATGCCAAAGTCTAAAACCAAATCATATAATACGAAAGCCCCAAATCTGATCTCACATATTTC
1 TACATGACAAAGTCTAAAACCAAACCATAAAATACGAAAGCCCCAAATCTGATCTCACAAATTTC
* *
21309 CCTCTTATCTCTTCTTCATTTCTAGATTTTTTCCTCTTTTGTAATCTCCCCATTTTTTCCAGCTC
66 CCTCTTATCTCTTCTTCATTTCTAGATTTTTTCCTCTATTGTAATCTCCCCAATTTTTCCAGCTC
21374 CAGC
131 CAGC
21378 CTCTTCCATT
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
135 122 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.37
Consensus pattern (135 bp):
TACATGACAAAGTCTAAAACCAAACCATAAAATACGAAAGCCCCAAATCTGATCTCACAAATTTC
CCTCTTATCTCTTCTTCATTTCTAGATTTTTTCCTCTATTGTAATCTCCCCAATTTTTCCAGCTC
CAGCT
Found at i:28900 original size:14 final size:15
Alignment explanation
Indices: 28881--28909 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
28871 TTATTTTTTA
28881 TTTTTAAAT-TTAAT
1 TTTTTAAATATTAAT
28895 TTTTTAAATATTAAT
1 TTTTTAAATATTAAT
28910 ATGATATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTTAAATATTAAT
Found at i:30048 original size:3 final size:3
Alignment explanation
Indices: 30040--30064 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
30030 ATATAAACTC
30040 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
30065 CTGTTATAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:30568 original size:25 final size:25
Alignment explanation
Indices: 30532--30585 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
30522 TTTTTCACAT
30532 AAATTGGTTTTTAAATTAAAAGGTA
1 AAATTGGTTTTTAAATTAAAAGGTA
30557 CAAATT-GTTTTTAAATTAAAAGGTA
1 -AAATTGGTTTTTAAATTAAAAGGTA
30582 AAAT
1 AAAT
30586 AAAAAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 4 0.14
25 19 0.68
26 5 0.18
ACGTcount: A:0.46, C:0.02, G:0.13, T:0.39
Consensus pattern (25 bp):
AAATTGGTTTTTAAATTAAAAGGTA
Found at i:31235 original size:11 final size:11
Alignment explanation
Indices: 31200--31238 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
31190 CTTAATCCTA
31200 AAATATAATAT
1 AAATATAATAT
*
31211 AAAAAATAATAT
1 -AAATATAATAT
*
31223 AAATATGATAT
1 AAATATAATAT
31234 AAATA
1 AAATA
31239 CATGACCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (11 bp):
AAATATAATAT
Found at i:31298 original size:20 final size:20
Alignment explanation
Indices: 31246--31299 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
31236 ATACATGACC
31246 TATTAAAATATATAAAATAAT
1 TATT-AAATATATAAAATAAT
*
31267 TATT-AATGTATAAAA-AAT
1 TATTAAATATATAAAATAAT
*
31285 TATATAAATTTATAA
1 TAT-TAAATATATAA
31300 TACTTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 6 0.21
19 11 0.38
20 8 0.28
21 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
TATTAAATATATAAAATAAT
Found at i:31424 original size:11 final size:11
Alignment explanation
Indices: 31380--31446 Score: 50
Period size: 11 Copynumber: 6.2 Consensus size: 11
31370 AATATGTCGC
31380 AAATTAAAATA
1 AAATTAAAATA
31391 TAAA--AAAATA
1 -AAATTAAAATA
**
31401 ATTTTAAAA-A
1 AAATTAAAATA
31411 AAATTAAAATA
1 AAATTAAAATA
* *
31422 AAACATAACATA
1 AAA-TTAAAATA
*
31434 AAAATAAAATA
1 AAATTAAAATA
31445 AA
1 AA
31447 CATAAATTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
9 1 0.02
10 14 0.32
11 17 0.39
12 12 0.27
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATTAAAATA
Found at i:31448 original size:17 final size:18
Alignment explanation
Indices: 31416--31452 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
31406 AAAAAAAATT
31416 AAAATAAAACATAACATA
1 AAAATAAAACATAACATA
*
31434 AAAATAAAATA-AACATA
1 AAAATAAAACATAACATA
31451 AA
1 AA
31453 TTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAATAAAACATAACATA
Found at i:31505 original size:29 final size:29
Alignment explanation
Indices: 31434--31506 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 29
31424 ACATAACATA
* *
31434 AAAATAAAATAAACATAAATTTTTATTTAT
1 AAAAT-AATTAAAAATAAATTTTTATTTAT
*
31464 AAAATAATAAAAAATAAATTTTAATATTT-T
1 AAAATAATTAAAAATAAATTTT--TATTTAT
*
31494 -AAATACTTAAAAA
1 AAAATAATTAAAAA
31507 ATTATAACTG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 25 0.69
30 6 0.17
31 5 0.14
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAATAATTAAAAATAAATTTTTATTTAT
Found at i:31891 original size:2 final size:2
Alignment explanation
Indices: 31878--31913 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
31868 AAGAATAAAA
* *
31878 AT AT AT AC AT AT AT AT GT 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
31914 GGATATTGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:34355 original size:21 final size:20
Alignment explanation
Indices: 34331--34371 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
34321 GTTTTTATAA
34331 TTTTAAATAAATTTAAATTAT
1 TTTTAAATAAATTT-AATTAT
**
34352 TTTTATTTAAATTTAATTAT
1 TTTTAAATAAATTTAATTAT
34372 AAATATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAAATAAATTTAATTAT
Found at i:37951 original size:43 final size:43
Alignment explanation
Indices: 37884--37968 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
37874 TTGCAATCAA
* * *
37884 GGTTTCAAATAGCAGTGGTATAGCTGTATTATCACATCTAAAC
1 GGTTTCAAATAGCAATGGTATAGCTGTAGTACCACATCTAAAC
*
37927 GGTTTCAAATAGCAATGGTGTAGCTGTAGTACCACATCTAAA
1 GGTTTCAAATAGCAATGGTATAGCTGTAGTACCACATCTAAA
37969 GGCCTGAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (43 bp):
GGTTTCAAATAGCAATGGTATAGCTGTAGTACCACATCTAAAC
Found at i:39293 original size:3 final size:3
Alignment explanation
Indices: 39285--39320 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
39275 TAGAAATAAC
39285 AGA AGA AG- AGA AGA AGA AGA AGA AGA AGA AG- AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
39321 CGCCTTGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:49499 original size:3 final size:3
Alignment explanation
Indices: 49491--49529 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
49481 AAATTTAAAC
49491 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
49530 GAAAGAGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:51045 original size:2 final size:2
Alignment explanation
Indices: 51040--51076 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
51030 CCACACACAC
51040 AT AT AT A- AT AT A- AT AT A- 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 AT AT
51077 GTTTTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.09
2 29 0.91
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:51076 original size:12 final size:11
Alignment explanation
Indices: 51040--51076 Score: 60
Period size: 10 Copynumber: 3.5 Consensus size: 11
51030 CCACACACAC
51040 ATATATAATAT
1 ATATATAATAT
51051 A-ATATAATAT
1 ATATATAATAT
51061 ATATAT-ATAT
1 ATATATAATAT
51071 ATATAT
1 ATATAT
51077 GTTTTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 20 0.80
11 5 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATATAATAT
Found at i:52958 original size:4 final size:4
Alignment explanation
Indices: 52951--53011 Score: 59
Period size: 4 Copynumber: 14.5 Consensus size: 4
52941 AAAACCAACC
* * * *
52951 TTTA TTTA TTTA TTTA TTTT TATTA TTTTAA TTAA TTAA TTAA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA T-TTA -TTT-A TTTA TTTA TTTA TTTA TTTA
53002 TTTA TTTA TT
1 TTTA TTTA TT
53012 ACCAGCAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
4 42 0.84
5 6 0.12
6 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:53279 original size:26 final size:28
Alignment explanation
Indices: 53250--53321 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 28
53240 GTTAATAATA
53250 TAAAAATTTAATATATTT-ATT-TATTT
1 TAAAAATTTAATATATTTAATTATATTT
*
53276 T-AAAATTTATTATAATTTAATTATATTT
1 TAAAAATTTAATAT-ATTTAATTATATTT
* *
53304 TAATATTTTATATATATT
1 TAAAAATTTA-ATATATT
53322 ATATAACCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
25 11 0.30
26 5 0.14
27 3 0.08
28 6 0.16
29 9 0.24
30 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TAAAAATTTAATATATTTAATTATATTT
Found at i:54043 original size:2 final size:2
Alignment explanation
Indices: 54036--54069 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
54026 TATTATGTCT
54036 TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
54070 ATTTTAACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:54894 original size:21 final size:19
Alignment explanation
Indices: 54861--54903 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
54851 TAATAATTTT
*
54861 TATTTAAATTTAATTGAAA
1 TATTTAAATTTAATTAAAA
54880 TATTTAAATATTTAATTAAAA
1 TATTT-AA-ATTTAATTAAAA
54901 TAT
1 TAT
54904 ATTTTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 2 0.10
21 14 0.67
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TATTTAAATTTAATTAAAA
Found at i:55946 original size:16 final size:18
Alignment explanation
Indices: 55915--55949 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
55905 ATTAAAGATA
55915 ATTTTGTAGTTAAAAAAT
1 ATTTTGTAGTTAAAAAAT
55933 ATTTTG-AG-TAAAAAAT
1 ATTTTGTAGTTAAAAAAT
55949 A
1 A
55950 AAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 2 0.12
18 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (18 bp):
ATTTTGTAGTTAAAAAAT
Found at i:57676 original size:197 final size:198
Alignment explanation
Indices: 57201--57703 Score: 819
Period size: 197 Copynumber: 2.5 Consensus size: 198
57191 TTTATAAATA
** * * *
57201 ATTAAAAAAAGTAATATAATAATATATTTAATTTTATTTAAAATTATTGAATCTATTATTTGAAC
1 ATTAAAAAAA-TAATATAATAATATATTTAACCTTATTTAAAACTATTGAATCTACTATTTGAAA
* * * * *
57266 GACATGCTTTTTTTTTTAAAAATGATCAAACAAGTTATGATCTTACAAGTACAAGAGATGCAATC
65 GAGATGC---TTCTTTTGAAAATGGTCAAACAAGATATGATCTTACAAGTACAAGAGATGCAATC
57331 CAACATGACATTTATGGGTTTTTATTTTTTCCTTTGTATTCTTAAAAATAATATTATTTTTATAT
127 CAACATGACATTTATGGGTTTTTATTTTTTCCTTTGTATTCTTAAAAATAATATTATTTTTATAT
57396 TATTATT
192 TATTATT
* * *
57403 ATTATTAAAAAATAATATAATAATATATTTAACCTTATTTAAAACTATTAAATTTAGTATTTGAA
1 ATTA--AAAAAATAATATAATAATATATTTAACCTTATTTAAAACTATTGAATCTACTATTTGAA
57468 AGAGATGCTTCTTTTGAAAATGGTCAAACAAGATATGATCTTACAAGTACAAGAGATGCAATCCA
64 AGAGATGCTTCTTTTGAAAATGGTCAAACAAGATATGATCTTACAAGTACAAGAGATGCAATCCA
57533 ACATGACATTTATGGGTTTTT-TTTTTTCCTTTGTATTCTTAAAAATAATATTATTTTTATATTA
129 ACATGACATTTATGGGTTTTTATTTTTTCCTTTGTATTCTTAAAAATAATATTATTTTTATATTA
57597 TTATT
194 TTATT
*
57602 ATTAAAAAAATAATATAATAATATATTTAACCTTATTTAAAACTATTGAATCTACTATTTGAAGG
1 ATTAAAAAAATAATATAATAATATATTTAACCTTATTTAAAACTATTGAATCTACTATTTGAAAG
57667 AGATGCTTCTTTTGAAAATGGTCAAACAAGATATGAT
66 AGATGCTTCTTTTGAAAATGGTCAAACAAGATATGAT
57704 ATGCAATCCA
Statistics
Matches: 283, Mismatches: 16, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
197 94 0.33
199 52 0.18
200 74 0.26
202 4 0.01
203 53 0.19
204 6 0.02
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (198 bp):
ATTAAAAAAATAATATAATAATATATTTAACCTTATTTAAAACTATTGAATCTACTATTTGAAAG
AGATGCTTCTTTTGAAAATGGTCAAACAAGATATGATCTTACAAGTACAAGAGATGCAATCCAAC
ATGACATTTATGGGTTTTTATTTTTTCCTTTGTATTCTTAAAAATAATATTATTTTTATATTATT
ATT
Found at i:63572 original size:5 final size:5
Alignment explanation
Indices: 63562--63600 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
63552 GCATACAATT
*
63562 AATAA AATAA AATAA AATAA AATAA AATAT AA-AA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
63601 GAAAGTTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 28 0.90
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:64473 original size:18 final size:18
Alignment explanation
Indices: 64446--64498 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
64436 ATCTGACTCG
*
64446 ATTTATAAATATTTTTAA
1 ATTTAAAAATATTTTTAA
64464 ATTTAAAAATTAATTTTTAA
1 ATTTAAAAA-T-ATTTTTAA
*
64484 A--TAAAAATAATTTTA
1 ATTTAAAAATATTTTTA
64499 TTATTCTCGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 6 0.19
17 1 0.03
18 14 0.45
19 1 0.03
20 9 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTAAAAATATTTTTAA
Found at i:64494 original size:17 final size:18
Alignment explanation
Indices: 64452--64497 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
64442 CTCGATTTAT
64452 AAAT-ATTTTTAAATTTAA
1 AAATAATTTTTAAA-TTAA
64470 AAATTAATTTTTAAA-TAA
1 AAA-TAATTTTTAAATTAA
64488 AAATAATTTT
1 AAATAATTTT
64498 ATTATTCTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 7 0.27
18 9 0.35
19 1 0.04
20 9 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AAATAATTTTTAAATTAA
Found at i:64495 original size:21 final size:20
Alignment explanation
Indices: 64456--64495 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
64446 ATTTATAAAT
**
64456 ATTTTTAAATTTAAAAATTA
1 ATTTTTAAATAAAAAAATTA
64476 ATTTTTAAATAAAAATAATT
1 ATTTTTAAATAAAAA-AATT
64496 TTATTATTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTTTAAATAAAAAAATTA
Found at i:65450 original size:18 final size:18
Alignment explanation
Indices: 65400--65451 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
65390 AATTTTATAT
*
65400 AATATATATATTTTAAAAA
1 AATACATAT-TTTTAAAAA
* *
65419 ATATCCACTCTTTTTAAAAA
1 A-ATACA-TATTTTTAAAAA
65439 AATACATATTTTT
1 AATACATATTTTT
65452 TCTACAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
18 6 0.23
19 5 0.19
20 13 0.50
21 2 0.08
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (18 bp):
AATACATATTTTTAAAAA
Found at i:66848 original size:20 final size:19
Alignment explanation
Indices: 66812--66860 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
66802 AATAATTTGG
* * **
66812 ATTTTATAAGAAATTATTT
1 ATTTTTTAAAAAATTATCC
66831 ATTTTTTAAAAAATTTATCC
1 ATTTTTTAAAAAA-TTATCC
66851 ATTTTTTAAA
1 ATTTTTTAAA
66861 GAAAATACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTTTTTAAAAAATTATCC
Found at i:67451 original size:22 final size:22
Alignment explanation
Indices: 67413--67456 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
67403 TTATTTAATT
*
67413 ATTATTTTTTTACAATTAAAAA
1 ATTATTTTTGTACAATTAAAAA
*
67435 ATTATTTTTAGTA-AATTCAAAA
1 ATTATTTTT-GTACAATTAAAAA
67457 GAGAAAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTATTTTTGTACAATTAAAAA
Found at i:67682 original size:19 final size:19
Alignment explanation
Indices: 67645--67691 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
67635 GTAAGATTAG
*
67645 TTTAATTTAAATATTTAAT
1 TTTAATTTAAATATATAAT
67664 TTTAATTATAAA-ATATAAT
1 TTTAATT-TAAATATATAAT
*
67683 ATT-ATTTAA
1 TTTAATTTAA
67692 TTAAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 3 0.12
18 3 0.12
19 15 0.60
20 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAATTTAAATATATAAT
Found at i:67702 original size:17 final size:17
Alignment explanation
Indices: 67680--67721 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
67670 TATAAAATAT
67680 AATATTATTTAATTAAA
1 AATATTATTTAATTAAA
*
67697 AATATT-TTTTATTAAA
1 AATATTATTTAATTAAA
*
67713 TAT-TTATTT
1 AATATTATTT
67722 TTATTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 14 0.64
17 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AATATTATTTAATTAAA
Found at i:67712 original size:16 final size:16
Alignment explanation
Indices: 67680--67729 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
67670 TATAAAATAT
*
67680 AATATTATTTAATTAAA
1 AATATT-TTTTATTAAA
67697 AATATTTTTTATTAAA
1 AATATTTTTTATTAAA
* *
67713 TATTTATTTTTATTAAA
1 AATAT-TTTTTATTAAA
67730 TATTAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AATATTTTTTATTAAA
Found at i:67726 original size:24 final size:24
Alignment explanation
Indices: 67699--67767 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
67689 TAATTAAAAA
67699 TATTTTTTATTAAA-TATTTATTTT
1 TATTTTTTATTAAATTATTTA-TTT
***
67723 TATTAAATATTAAATTATTTATTT
1 TATTTTTTATTAAATTATTTATTT
* *
67747 AATTTTTAATTAAATTATTTA
1 TATTTTTTATTAAATTATTTA
67768 ATTGAATTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
24 30 0.83
25 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTTTTTATTAAATTATTTATTT
Found at i:67745 original size:12 final size:12
Alignment explanation
Indices: 67730--67767 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
67720 TTTTATTAAA
67730 TATTAAATTATT
1 TATTAAATTATT
*
67742 TATTTAATT-TT
1 TATTAAATTATT
67753 TAATTAAATTATT
1 T-ATTAAATTATT
67766 TA
1 TA
67768 ATTGAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.14
12 16 0.73
13 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTAAATTATT
Found at i:68183 original size:7 final size:7
Alignment explanation
Indices: 68168--68201 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
68158 ACAAAATGCG
68168 GCAGCCA
1 GCAGCCA
*
68175 GCGGCCA
1 GCAGCCA
68182 GCAGCCA
1 GCAGCCA
68189 GCAGCCA
1 GCAGCCA
68196 GCAGCC
1 GCAGCC
68202 GGCATCAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.24, C:0.44, G:0.32, T:0.00
Consensus pattern (7 bp):
GCAGCCA
Found at i:68338 original size:8 final size:8
Alignment explanation
Indices: 68325--68391 Score: 57
Period size: 8 Copynumber: 7.9 Consensus size: 8
68315 CTTGGTGTTG
68325 TATATATT
1 TATATATT
68333 TATATATTT
1 TATATA-TT
68342 TATTATATT
1 TA-TATATT
68351 ATAATTATATT
1 -T-A-TATATT
*
68362 TAAAATATT
1 T-ATATATT
68371 TA-ATATT
1 TATATATT
68378 TATATATT
1 TATATATT
68386 TA-ATAT
1 TATATAT
68392 GTTGAGTTTA
Statistics
Matches: 53, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
7 11 0.21
8 14 0.26
9 12 0.23
10 8 0.15
11 8 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TATATATT
Found at i:68372 original size:29 final size:28
Alignment explanation
Indices: 68327--68381 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
68317 TGGTGTTGTA
* *
68327 TATATTTATATATTTTATTATATTATAAT
1 TATATTTAAATATTTTAATAT-TTATAAT
68356 TATATTTAAA-ATATTTAATATTTATA
1 TATATTTAAATAT-TTTAATATTTATA
68382 TATTTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TATATTTAAATATTTTAATATTTATAAT
Found at i:68391 original size:15 final size:14
Alignment explanation
Indices: 68327--68387 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
68317 TGGTGTTGTA
68327 TATATTTATATATT
1 TATATTTATATATT
*
68341 T-TATTATATTATAAT
1 TATATT-TA-TATATT
*
68356 TATATTTAAAATATT
1 TATATTT-ATATATT
68371 TAATATTTATATATT
1 T-ATATTTATATATT
68386 TA
1 TA
68388 ATATGTTGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
13 4 0.11
14 4 0.11
15 19 0.50
16 11 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATATTTATATATT
Found at i:68573 original size:30 final size:30
Alignment explanation
Indices: 68518--68614 Score: 95
Period size: 32 Copynumber: 3.0 Consensus size: 30
68508 GATTATTTTT
68518 ATTTTAAAATATATTAATAATTTATATTATATAA
1 ATTTTAAAATAT-TT-AT-A-TTATATTATATAA
*
68552 ATTTTAAAATATTTATATTATATTATATCAT
1 ATTTTAAAATATTTATATTATATTATAT-AA
* * *
68583 ATTTTAATTATTTTTTTATTATAATTATATAA
1 ATTTTAA-AATATTTATATTAT-ATTATATAA
68615 TGCATATTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
30 11 0.20
31 9 0.16
32 14 0.25
33 9 0.16
34 12 0.22
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (30 bp):
ATTTTAAAATATTTATATTATATTATATAA
Found at i:68918 original size:2 final size:2
Alignment explanation
Indices: 68911--68939 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
68901 ATAGGTTTAC
68911 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
68940 AAACAAAAGT
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:69117 original size:14 final size:14
Alignment explanation
Indices: 69090--69128 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
69080 AAATGTACTG
* *
69090 ATATCTTATTTATAT
1 ATAT-TTATATATAA
69105 ATATTTATATATAA
1 ATATTTATATATAA
69119 ATATTTATAT
1 ATATTTATAT
69129 CTTATACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATTTATATATAA
Found at i:69624 original size:23 final size:21
Alignment explanation
Indices: 69582--69624 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
69572 TTTAAATAAA
* *
69582 ATAAAAAATAATTGAAATTTG
1 ATAAAAAATAAATAAAATTTG
69603 ATAAAAAATAACATAAATATTT
1 ATAAAAAATAA-ATAAA-ATTT
69625 AATTATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
22 3 0.17
23 4 0.22
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (21 bp):
ATAAAAAATAAATAAAATTTG
Found at i:70821 original size:8 final size:8
Alignment explanation
Indices: 70808--70864 Score: 50
Period size: 8 Copynumber: 7.6 Consensus size: 8
70798 ATTACTATTT
70808 AATAATAA
1 AATAATAA
70816 AATAAT--
1 AATAATAA
70822 AAT-ATAA
1 AATAATAA
*
70829 AATAATAT
1 AATAATAA
**
70837 TTTAATAA
1 AATAATAA
70845 AATAAT-A
1 AATAATAA
*
70852 AATAGTAA
1 AATAATAA
70860 AATAA
1 AATAA
70865 GCTCTTGAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
5 2 0.05
6 3 0.08
7 9 0.24
8 23 0.62
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (8 bp):
AATAATAA
Found at i:70835 original size:16 final size:15
Alignment explanation
Indices: 70807--70864 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
70797 AATTACTATT
70807 TAATAATAAAAT-A-A
1 TAAT-ATAAAATAATA
70821 TAATATAAAATAATA
1 TAATATAAAATAATA
**
70836 TTTTAATAAAATAATA
1 TAAT-ATAAAATAATA
70852 -AATAGTAAAATAA
1 TAATA-TAAAATAA
70865 GCTCTTGAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
13 7 0.19
14 6 0.17
15 12 0.33
16 11 0.31
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
TAATATAAAATAATA
Found at i:71770 original size:23 final size:23
Alignment explanation
Indices: 71744--71790 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
71734 AATAAAATTT
*
71744 ATTTTTAT-ATTAATATTTATATA
1 ATTTTTATAACTAA-ATTTATATA
71767 ATTTTTATAACTAAATTTATATA
1 ATTTTTATAACTAAATTTATATA
71790 A
1 A
71791 AAATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTTATAACTAAATTTATATA
Found at i:73986 original size:14 final size:14
Alignment explanation
Indices: 73969--74001 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
73959 GAGATATATA
73969 TTATTTTATAAATT
1 TTATTTTATAAATT
73983 TTA-TTTATAAATT
1 TTATTTTATAAATT
73996 TT-TTTT
1 TTATTTT
74002 CATTTCAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 15 0.83
14 3 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTTTATAAATT
Found at i:77222 original size:2 final size:2
Alignment explanation
Indices: 77210--77251 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
77200 TGTGTATCTC
*
77210 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA 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
77252 GAGACACCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:78263 original size:3 final size:3
Alignment explanation
Indices: 78255--78291 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
78245 AAGAGTACAA
78255 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
78292 GAAACCACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:80547 original size:17 final size:16
Alignment explanation
Indices: 80527--80578 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
80517 ATAAAAATTA
80527 TAAATATTATATATATT
1 TAAATATT-TATATATT
80544 TAAA-ATTTTGATATATT
1 TAAATA-TTT-ATATATT
*
80561 TAATTATTTATAT-TT
1 TAAATATTTATATATT
80576 TAA
1 TAA
80579 CAATTACTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
15 5 0.16
16 6 0.19
17 19 0.61
18 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
TAAATATTTATATATT
Found at i:81545 original size:2 final size:2
Alignment explanation
Indices: 81538--81573 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
81528 AATTCATTTA
* *
81538 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
81574 GCTAAATATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:83218 original size:13 final size:13
Alignment explanation
Indices: 83185--83219 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
83175 AAATATATAT
83185 TTATAAATTTAAA
1 TTATAAATTTAAA
* *
83198 TAAAAAATTTAAA
1 TTATAAATTTAAA
83211 TTATAAATT
1 TTATAAATT
83220 GATCTTAGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TTATAAATTTAAA
Found at i:84435 original size:14 final size:14
Alignment explanation
Indices: 84410--84444 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
84400 AATTATAAAC
*
84410 TAATTGAATAAATT
1 TAATTAAATAAATT
*
84424 TATTTAAATAAATT
1 TAATTAAATAAATT
84438 TAATTAA
1 TAATTAA
84445 TCGAAATCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (14 bp):
TAATTAAATAAATT
Found at i:85117 original size:28 final size:27
Alignment explanation
Indices: 85072--85141 Score: 65
Period size: 29 Copynumber: 2.6 Consensus size: 27
85062 TAAATTTTGA
* *
85072 TATTTTTAAATATTTATT-CGTATTTATAT
1 TATTTTTATATA-ATATTACGT-TTTA-AT
*
85101 TATTTTTATATAATATTATGTTTTAAT
1 TATTTTTATATAATATTACGTTTTAAT
85128 TATTTTT-TA-AATAT
1 TATTTTTATATAATAT
85142 AATATTTATG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 5 0.14
26 2 0.05
27 9 0.24
28 8 0.22
29 13 0.35
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (27 bp):
TATTTTTATATAATATTACGTTTTAAT
Found at i:85129 original size:27 final size:31
Alignment explanation
Indices: 85080--85152 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 31
85070 GATATTTTTA
85080 AATATTTATTCGTATTTATATTA-TTTTT-ATAT
1 AATATTTA-T-GT-TTTATATTATTTTTTAATAT
85112 AATA-TTATGTTTTA-ATTATTTTTTAAATAT
1 AATATTTATGTTTTATATTATTTTTT-AATAT
85142 AATATTTATGT
1 AATATTTATGT
85153 CACATATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
27 4 0.11
28 9 0.24
29 2 0.05
30 9 0.24
31 9 0.24
32 4 0.11
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (31 bp):
AATATTTATGTTTTATATTATTTTTTAATAT
Found at i:85519 original size:2 final size:2
Alignment explanation
Indices: 85514--85545 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
85504 CCAAATTTCT
85514 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
85546 AAACTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87119 original size:34 final size:32
Alignment explanation
Indices: 87081--87164 Score: 75
Period size: 34 Copynumber: 2.6 Consensus size: 32
87071 AATTTAAAAG
*
87081 ATTATTTAAATAATAAAAATTTTATTTAAATATA
1 ATTATTTAAATAATAAAAA-TAT-TTTAAATATA
* *
87115 ATTA-TAAATATTAATATAAAATATTTTAAATATT
1 ATTATTTAA-A-TAATA-AAAATATTTTAAATATA
87149 A-T-TTTAAATAATAAAA
1 ATTATTTAAATAATAAAA
87165 TAAGCTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
30 3 0.07
31 5 0.12
32 1 0.02
33 7 0.17
34 15 0.36
35 7 0.17
36 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (32 bp):
ATTATTTAAATAATAAAAATATTTTAAATATA
Found at i:87156 original size:22 final size:23
Alignment explanation
Indices: 87081--87158 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
87071 AATTTAAAAG
*
87081 ATTATTT-AA-ATAA-TAAAAAT
1 ATTATTTAAATATAATTATAAAT
*
87101 TTTATTTAAATATAATTATAAAT
1 ATTATTTAAATATAATTATAAAT
* *
87124 ATTAATATAAA-AT-ATTTTAAAT
1 ATT-ATTTAAATATAATTATAAAT
87146 ATTATTTTAAATA
1 ATTA-TTTAAATA
87159 ATAAAATAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 6 0.13
21 3 0.07
22 20 0.43
23 11 0.24
24 6 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTATTTAAATATAATTATAAAT
Found at i:87899 original size:9 final size:9
Alignment explanation
Indices: 87881--87927 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
87871 ATATTTATTT
87881 TATA-TTTA
1 TATATTTTA
87889 TATATTTTA
1 TATATTTTA
*
87898 TATATTATA
1 TATATTTTA
*
87907 TAAATTTTA
1 TATATTTTA
87916 T-TATATTTA
1 TATAT-TTTA
87925 TAT
1 TAT
87928 TGTTTTTACC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 6 0.19
9 25 0.78
10 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TATATTTTA
Found at i:88121 original size:7 final size:7
Alignment explanation
Indices: 88111--88144 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
88101 AATATTTAAT
88111 AAATTTA
1 AAATTTA
88118 AAATTTA
1 AAATTTA
88125 AAATTTA
1 AAATTTA
*
88132 ATATTTA
1 AAATTTA
88139 AAATTT
1 AAATTT
88145 TTTCATCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
AAATTTA
Found at i:89005 original size:3 final size:3
Alignment explanation
Indices: 88999--89054 Score: 96
Period size: 3 Copynumber: 18.7 Consensus size: 3
88989 ATAAATACAA
88999 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
89048 AA- AAT AA
1 AAT AAT AA
89055 GCTAAAGCAC
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.90
4 3 0.06
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:90395 original size:14 final size:14
Alignment explanation
Indices: 90376--90408 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
90366 GAAACAAATG
90376 TAAATTAGGATAAA
1 TAAATTAGGATAAA
90390 TAAATTAGGATAAA
1 TAAATTAGGATAAA
90404 TAAAT
1 TAAAT
90409 ACAATGCACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (14 bp):
TAAATTAGGATAAA
Found at i:90657 original size:22 final size:22
Alignment explanation
Indices: 90632--90673 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
90622 TTAGTTTAGT
90632 AATGGAGTTACAAAATTTATAC
1 AATGGAGTTACAAAATTTATAC
90654 AATGGAGTTACAAAATTTAT
1 AATGGAGTTACAAAATTTAT
90674 TGTAACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.33
Consensus pattern (22 bp):
AATGGAGTTACAAAATTTATAC
Found at i:93688 original size:39 final size:38
Alignment explanation
Indices: 93638--93717 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 38
93628 AATTAAGAGT
*
93638 TTAATTTGTGTTACATTTTTATTTTTAATTAATTATTA
1 TTAATTTGTGTTACAGTTTTATTTTTAATTAATTATTA
** *
93676 TTAATTATGTGTTTTAGTTTTATTTTTAATTAATTTTTA
1 TTAATT-TGTGTTACAGTTTTATTTTTAATTAATTATTA
93715 TTA
1 TTA
93718 TATATAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 6 0.16
39 31 0.84
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (38 bp):
TTAATTTGTGTTACAGTTTTATTTTTAATTAATTATTA
Found at i:98408 original size:10 final size:10
Alignment explanation
Indices: 98393--98428 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
98383 AACGTACTAT
98393 AATATTAATA
1 AATATTAATA
98403 AATATTAATA
1 AATATTAATA
98413 AAT-TTAATTA
1 AATATTAA-TA
98423 AATATT
1 AATATT
98429 CATTAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 4 0.17
10 18 0.75
11 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AATATTAATA
Found at i:98442 original size:20 final size:19
Alignment explanation
Indices: 98391--98444 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
98381 TCAACGTACT
* *
98391 ATAATATTAATAAATATTA
1 ATAAAATTATTAAATATTA
*
98410 ATAAATTTAATTAAATATTCA
1 ATAAAATT-ATTAAATATT-A
*
98431 TTAAAATTATTAAA
1 ATAAAATTATTAAA
98445 AAAATTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 6 0.21
20 15 0.54
21 7 0.25
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAAAATTATTAAATATTA
Found at i:98470 original size:20 final size:20
Alignment explanation
Indices: 98447--98488 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
98437 TTATTAAAAA
98447 AATTTTAAACCATAAATTTT
1 AATTTTAAACCATAAATTTT
**
98467 AATTTTAAACTTTAAATTTT
1 AATTTTAAACCATAAATTTT
98487 AA
1 AA
98489 AATTTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (20 bp):
AATTTTAAACCATAAATTTT
Found at i:98720 original size:13 final size:14
Alignment explanation
Indices: 98691--98742 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
98681 ACTCAAATTA
98691 TTAATAATTAAAAT
1 TTAATAATTAAAAT
*
98705 TTAATAA-TATAAT
1 TTAATAATTAAAAT
*
98718 TTAATTAAATTAATAT
1 TTAA-T-AATTAAAAT
*
98734 TTTATAATT
1 TTAATAATT
98743 TATAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 9 0.29
14 12 0.39
15 3 0.10
16 7 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAATAATTAAAAT
Found at i:99836 original size:19 final size:21
Alignment explanation
Indices: 99799--99848 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
99789 AATATTTTTA
99799 AATATATTTATATATTAAAAT
1 AATATATTTATATATTAAAAT
* *
99820 AATATTTTTA-ATATAAAAATT
1 AATATATTTATATATTAAAA-T
99841 AA-ATATTT
1 AATATATTT
99849 TAAATTACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATATATTTATATATTAAAAT
Found at i:99845 original size:22 final size:23
Alignment explanation
Indices: 99796--99849 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
99786 TTAAATATTT
* *
99796 TTAAATATATTTATATATTAAAA
1 TTAAATATTTTTATATATAAAAA
99819 -T-AATATTTTTA-ATATAAAAA
1 TTAAATATTTTTATATATAAAAA
99839 TTAAATATTTT
1 TTAAATATTTT
99850 AAATTACATC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 8 0.30
21 10 0.37
22 9 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAAATATTTTTATATATAAAAA
Found at i:101679 original size:21 final size:20
Alignment explanation
Indices: 101624--101680 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
101614 TTTATATAAT
*
101624 TATAAAATAAAAAATATTAA
1 TATAAAATAAATAATATTAA
* *
101644 TATAAAATTAATAATTTTAA
1 TATAAAATAAATAATATTAA
*
101664 TAATATAATAAATAATA
1 T-ATAAAATAAATAATA
101681 AAATAAACTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TATAAAATAAATAATATTAA
Found at i:101825 original size:33 final size:32
Alignment explanation
Indices: 101790--101905 Score: 86
Period size: 33 Copynumber: 3.8 Consensus size: 32
101780 GTTTTGATTA
101790 AAATTTTTAAATATTAATA-ATTTGTATTATAT
1 AAATTTTTAAATATTAATACATTT-TATTATAT
* *
101822 AAAATATTAAAATATTAA-ACA---T-TTATAT
1 -AAATTTTTAAATATTAATACATTTTATTATAT
* *
101850 AATTTTTTAAATATTAATA-ATTTATATCATAT
1 AAATTTTTAAATATTAATACATTT-TATTATAT
* *
101882 AAA-TTTTAACATATTTATATATTT
1 AAATTTTTAA-ATATTAATACATTT
101906 AAAATATTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
27 15 0.23
28 7 0.11
29 1 0.02
31 7 0.11
32 16 0.24
33 20 0.30
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.50
Consensus pattern (32 bp):
AAATTTTTAAATATTAATACATTTTATTATAT
Found at i:101900 original size:18 final size:18
Alignment explanation
Indices: 101879--101923 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
101869 ATTTATATCA
* *
101879 TATAAATTTTAACATATT
1 TATATATTTTAAAATATT
101897 TATATA-TTTAAAATATT
1 TATATATTTTAAAATATT
101914 T-TATATTTTA
1 TATATATTTTA
101924 TATCGTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.17
17 15 0.62
18 5 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTTTAAAATATT
Found at i:102712 original size:32 final size:31
Alignment explanation
Indices: 102667--102733 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 31
102657 TGTTTTATAT
102667 TTATATAAATTTAATAAATTAATAATTAATA
1 TTATATAAATTTAATAAATTAATAATTAATA
* * * *
102698 TTATATAAATTTTAATATATTTATTATTCATA
1 TTATATAAA-TTTAATAAATTAATAATTAATA
102730 TTAT
1 TTAT
102734 GTGATTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 9 0.29
32 22 0.71
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (31 bp):
TTATATAAATTTAATAAATTAATAATTAATA
Found at i:103959 original size:19 final size:19
Alignment explanation
Indices: 103935--103973 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
103925 ATTTTATTTA
* *
103935 AAATATTATATATTTATAT
1 AAATATAATATATCTATAT
103954 AAATATAATATATCTATAT
1 AAATATAATATATCTATAT
103973 A
1 A
103974 TTTATATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATATAATATATCTATAT
Found at i:103965 original size:21 final size:20
Alignment explanation
Indices: 103927--103966 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
103917 TTATTATAAT
* *
103927 TTTATTTAAAATATTATATA
1 TTTATATAAAATAATATATA
103947 TTTATATAAATATAATATAT
1 TTTATATAAA-ATAATATAT
103967 CTATATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTATATAAAATAATATATA
Found at i:103979 original size:19 final size:18
Alignment explanation
Indices: 103942--103996 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
103932 TTAAAATATT
**
103942 ATATATTTATATAAATATA
1 ATATA-TTATATATTTATA
103961 ATATATCTATATATTTATA
1 ATATAT-TATATATTTATA
*
103980 TTATATTATAT-TTTATA
1 ATATATTATATATTTATA
103997 TTTTATTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 20 0.62
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATATTATATATTTATA
Found at i:104268 original size:18 final size:18
Alignment explanation
Indices: 104244--104301 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
104234 CTTGGTATAA
104244 ATAAAATAATAA-AAAAT
1 ATAAAATAATAATAAAAT
*
104261 ATTAAAAT-ATAATATAAT
1 A-TAAAATAATAATAAAAT
104279 ATAAAATAATAATATAAAT
1 ATAAAATAATAATA-AAAT
104298 ATAA
1 ATAA
104302 TTTAAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 11 0.31
18 17 0.49
19 7 0.20
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAAATAATAATAAAAT
Found at i:105003 original size:19 final size:18
Alignment explanation
Indices: 104961--105003 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
104951 TATTTATTGT
104961 AATTAATAATTTAATTAA
1 AATTAATAATTTAATTAA
** *
104979 TTTTAATAAATTTATTTAA
1 AATTAAT-AATTTAATTAA
104998 AATTAA
1 AATTAA
105004 AGAAACGTTT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTAATAATTTAATTAA
Found at i:105930 original size:18 final size:17
Alignment explanation
Indices: 105886--105932 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
105876 TAATTCAACT
*
105886 TAATTTAAAATTAAAAC
1 TAATTTCAAATTAAAAC
*
105903 TAA-ATCAAATTAAAAC
1 TAATTTCAAATTAAAAC
105919 TGAATTTCAAATTA
1 T-AATTTCAAATTA
105933 TAAATTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 12 0.48
17 5 0.20
18 8 0.32
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (17 bp):
TAATTTCAAATTAAAAC
Found at i:106351 original size:10 final size:10
Alignment explanation
Indices: 106334--106367 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
106324 ATTAATTATT
106334 TATTTAAATA
1 TATTTAAATA
*
106344 TTTTTAAATA
1 TATTTAAATA
*
106354 TATTTATATA
1 TATTTAAATA
106364 TATT
1 TATT
106368 AAAAATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TATTTAAATA
Found at i:106359 original size:20 final size:20
Alignment explanation
Indices: 106334--106403 Score: 60
Period size: 21 Copynumber: 3.7 Consensus size: 20
106324 ATTAATTATT
106334 TATTTAAATATTTTTAAATA
1 TATTTAAATATTTTTAAATA
* *
106354 TATTTATATA-TATTAAA-A
1 TATTTAAATATTTTTAAATA
106372 -A--TAAATATTTTTAATATA
1 TATTTAAATATTTTTAA-ATA
* *
106390 AAATTAAATATTTT
1 TATTTAAATATTTT
106404 ATATTACATT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
15 5 0.12
16 5 0.12
17 2 0.05
18 2 0.05
19 7 0.17
20 9 0.22
21 10 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTTAAATATTTTTAAATA
Found at i:106391 original size:21 final size:24
Alignment explanation
Indices: 106348--106407 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 24
106338 TAAATATTTT
106348 TAAATATATTTATATATATTAAAAA
1 TAAATAT-TTTATATATATTAAAAA
*
106373 TAAATATTTT-TA-ATA-TAAAAT
1 TAAATATTTTATATATATTAAAAA
106394 TAAATATTTTATAT
1 TAAATATTTTATAT
106408 TACATTTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 15 0.47
22 5 0.16
23 2 0.06
24 3 0.09
25 7 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAATATTTTATATATATTAAAAA
Found at i:107560 original size:22 final size:22
Alignment explanation
Indices: 107535--107587 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
107525 TTAATTTATA
*
107535 TAATTATTTTAAAAATAATATT
1 TAATTATTTTAAAAATAAAATT
* * *
107557 TAATAAATTTAAAATTAAAATT
1 TAATTATTTTAAAAATAAAATT
*
107579 TTATTATTT
1 TAATTATTT
107588 ATAATTCGTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TAATTATTTTAAAAATAAAATT
Found at i:108324 original size:20 final size:20
Alignment explanation
Indices: 108291--108330 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
108281 TTATTTTTAT
*
108291 ATATTATAATTTTATTTAAA
1 ATATTATAATTTTATATAAA
108311 ATATTAT-ATATTTATATAAA
1 ATATTATAAT-TTTATATAAA
108331 TTTTAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATTATAATTTTATATAAA
Found at i:108359 original size:5 final size:5
Alignment explanation
Indices: 108349--108428 Score: 64
Period size: 5 Copynumber: 16.8 Consensus size: 5
108339 TATAAATGAT
* * *
108349 TTATA TTATA TAAATA TAATA ATAT- TTATA -TAT- TTATA TTATA TTTATA
1 TTATA TTATA T-TATA TTATA TTATA TTATA TTATA TTATA TTATA -TTATA
*
108398 TT-T- TTATA TTATA TTATA TTTTA -TATA TTAT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTAT
108429 TTTAATTTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
3 2 0.03
4 14 0.23
5 36 0.59
6 9 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:108420 original size:25 final size:25
Alignment explanation
Indices: 108370--108428 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 25
108360 AAATATAATA
108370 ATATTTATATATTTATATTATATTT
1 ATATTTATATATTTATATTATATTT
*
108395 ATATTTTTATA-TTATATTATATTTT
1 ATATTTATATATTTATATTATA-TTT
108420 ATATATTAT
1 ATAT-TTAT
108429 TTTAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 10 0.33
25 17 0.57
26 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
ATATTTATATATTTATATTATATTT
Found at i:108682 original size:18 final size:18
Alignment explanation
Indices: 108658--108715 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
108648 CTTGTTATAA
108658 ATAAAATAATAA-AAAAT
1 ATAAAATAATAATAAAAT
*
108675 ATTAAAAT-ATAATATAAT
1 A-TAAAATAATAATAAAAT
108693 ATAAAATAATAATATAAAT
1 ATAAAATAATAATA-AAAT
108712 ATAA
1 ATAA
108716 TTTAAATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 11 0.31
18 17 0.49
19 7 0.20
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAAATAATAATAAAAT
Found at i:108692 original size:25 final size:25
Alignment explanation
Indices: 108658--108731 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
108648 CTTGTTATAA
*
108658 ATAAAATAATAAAAAATATTAAAAT
1 ATAATATAATAAAAAATATTAAAAT
* * *
108683 ATAATATAATATAAAATAATAATAT
1 ATAATATAATAAAAAATATTAAAAT
* *
108708 A-AATATAATTTAAATATATTAAAA
1 ATAATATAA-TAAAAAATATTAAAA
108732 AAATTATATA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 7 0.18
25 32 0.82
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
ATAATATAATAAAAAATATTAAAAT
Found at i:108724 original size:35 final size:36
Alignment explanation
Indices: 108653--108748 Score: 98
Period size: 35 Copynumber: 2.8 Consensus size: 36
108643 TAATTCTTGT
108653 TATAA-ATAAAATAATAA-A-AAATATTAAAATATAA
1 TATAATATAAAATAATAATATAAATA-TAAAATATAA
**
108687 TATAATATAAAATAATAATATAAATATAATTTA-AA
1 TATAATATAAAATAATAATATAAATATAAAATATAA
* *
108722 TAT-AT-TAAAAAAATTATATAAA-ATAAA
1 TATAATATAAAATAATAATATAAATATAAA
108749 TAATATTTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
32 4 0.07
33 15 0.28
34 7 0.13
35 17 0.31
36 6 0.11
37 5 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (36 bp):
TATAATATAAAATAATAATATAAATATAAAATATAA
Found at i:108757 original size:38 final size:38
Alignment explanation
Indices: 108656--108765 Score: 95
Period size: 38 Copynumber: 2.9 Consensus size: 38
108646 TTCTTGTTAT
* *
108656 AAATAA-AATAATAAAAAATATTAAAATATAATATAATATA
1 AAATAATAA-AATAAATAATATTTAAATAT-AT-TAATATA
*
108696 AAATAATAATATAAAT-ATAATTTAAATATATTAA-A-A
1 AAATAATAAAATAAATAAT-ATTTAAATATATTAATATA
*
108732 AAATTATATAAAATAAATAATATTTATATA-ATTA
1 AAA-TA-ATAAAATAAATAATATTTAAATATATTA
108766 TGTAAAAATT
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
36 4 0.07
37 7 0.12
38 21 0.35
39 6 0.10
40 20 0.33
41 2 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (38 bp):
AAATAATAAAATAAATAATATTTAAATATATTAATATA
Found at i:108764 original size:28 final size:26
Alignment explanation
Indices: 108732--108810 Score: 72
Period size: 30 Copynumber: 2.8 Consensus size: 26
108722 TATATTAAAA
108732 AAATTATATAAAATAAATAATATTTAT
1 AAATTAT-TAAAATAAATAATATTTAT
108759 ATAATTATGTAAAAATTTAAAT-ATATTTAT
1 A-AATTAT-T-AAAA--TAAATAATATTTAT
108789 AACA-TATTAAAATAAATTAATA
1 AA-ATTATTAAAATAAA-TAATA
108811 ACACATGAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
25 4 0.09
26 1 0.02
27 8 0.18
28 8 0.18
29 8 0.18
30 10 0.23
31 5 0.11
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (26 bp):
AAATTATTAAAATAAATAATATTTAT
Found at i:108811 original size:21 final size:21
Alignment explanation
Indices: 108777--108823 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
108767 GTAAAAATTT
* * * *
108777 AAATATATTTATAACATATTA
1 AAATAAATTAATAACACATGA
108798 AAATAAATTAATAACACATGA
1 AAATAAATTAATAACACATGA
108819 AAATA
1 AAATA
108824 CAAATTATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (21 bp):
AAATAAATTAATAACACATGA
Found at i:108951 original size:12 final size:13
Alignment explanation
Indices: 108923--108965 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
108913 TTATTATATC
*
108923 ATATTTTAATTAT
1 ATATTTAAATTAT
108936 ATATTTAAATTA-
1 ATATTTAAATTAT
*
108948 ATATTTATATTAT
1 ATATTTAAATTAT
108961 A-ATTT
1 ATATTT
108966 TATTAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 15 0.56
13 12 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATATTTAAATTAT
Found at i:111737 original size:18 final size:19
Alignment explanation
Indices: 111714--111752 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
111704 TGTTTAAAAA
111714 TATTATTTTGTATATT-TT
1 TATTATTTTGTATATTCTT
*
111732 TATTATTTTTTATATTCTT
1 TATTATTTTGTATATTCTT
111751 TA
1 TA
111753 AACGTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (19 bp):
TATTATTTTGTATATTCTT
Found at i:113275 original size:10 final size:11
Alignment explanation
Indices: 113244--113284 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
113234 TATATATTTA
113244 ATAAATAAAAT
1 ATAAATAAAAT
113255 ATAAATAAAAT
1 ATAAATAAAAT
*
113266 AT-ATTAAAAT
1 ATAAATAAAAT
113276 A-AAA-AAAAT
1 ATAAATAAAAT
113285 TATTTGTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 5 0.19
10 9 0.33
11 13 0.48
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAAATAAAAT
Found at i:113283 original size:19 final size:20
Alignment explanation
Indices: 113249--113288 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
113239 ATTTAATAAA
113249 TAAAATATAAATAAAATATAT
1 TAAAATATAAATAAAAT-TAT
113270 TAAAATA-AAA-AAAATTAT
1 TAAAATATAAATAAAATTAT
113288 T
1 T
113289 TGTGTATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 5 0.26
20 3 0.16
21 7 0.37
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAATATAAATAAAATTAT
Found at i:114016 original size:20 final size:20
Alignment explanation
Indices: 113978--114016 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
113968 TTTCTTCCAT
* * *
113978 GCAATATGTTTAAATCATTA
1 GCAATAAGTTAAAAACATTA
113998 GCAATAAGTTAAAAACATT
1 GCAATAAGTTAAAAACATT
114017 CATCAACATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (20 bp):
GCAATAAGTTAAAAACATTA
Found at i:114889 original size:12 final size:12
Alignment explanation
Indices: 114845--114890 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
114835 CAACATTAAC
*
114845 TTTTCTTTTTCT
1 TTTTCTTTTTTT
*
114857 TTTTCTTTCTTT
1 TTTTCTTTTTTT
*
114869 CTTTCTTTTTTT
1 TTTTCTTTTTTT
114881 TTTT-TTTTTT
1 TTTTCTTTTTT
114891 GTTGACTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 6 0.21
12 23 0.79
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:115073 original size:22 final size:22
Alignment explanation
Indices: 115048--115105 Score: 53
Period size: 24 Copynumber: 2.5 Consensus size: 22
115038 AATAAAAAAT
* *
115048 TTAAATATATTAATGTATTATA
1 TTAAATATATTAATATATCATA
*
115070 TTAATCATATTTTAATATATCATA
1 TTAA--ATATATTAATATATCATA
* *
115094 TTATATTTATTA
1 TTAAATATATTA
115106 TATTATTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
22 10 0.36
24 18 0.64
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAAATATATTAATATATCATA
Found at i:115110 original size:14 final size:14
Alignment explanation
Indices: 115063--115117 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
115053 TATATTAATG
*
115063 TATTATATTAATCA
1 TATTATATTTATCA
* *
115077 TATTTTAATATATCA
1 TATTAT-ATTTATCA
*
115092 TATTATATTTATTA
1 TATTATATTTATCA
*
115106 TATTATTTTTAT
1 TATTATATTTAT
115118 ATTTATTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
14 22 0.67
15 11 0.33
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTATATTTATCA
Found at i:115117 original size:20 final size:21
Alignment explanation
Indices: 115094--115136 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
115084 ATATATCATA
*
115094 TTATATTTATTATAT-TATTT
1 TTATATTTATTAAATATATTT
115114 TTATATTTATTAAATATATTT
1 TTATATTTATTAAATATATTT
115135 TT
1 TT
115137 TTCACTGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATATTTATTAAATATATTT
Found at i:116889 original size:16 final size:15
Alignment explanation
Indices: 116850--116890 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
116840 ATTAAATTTT
116850 AAAATTAATTTATTAA
1 AAAATT-ATTTATTAA
*
116866 AATATTATTTATATAA
1 AAAATTATTTAT-TAA
116882 AAAATTATT
1 AAAATTATT
116891 AAAATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AAAATTATTTATTAA
Found at i:119068 original size:17 final size:19
Alignment explanation
Indices: 119046--119082 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
119036 TTATATTTTT
119046 TAATATAAA-TA-TAAATA
1 TAATATAAATTATTAAATA
119063 TAATATAAATTATTAAATA
1 TAATATAAATTATTAAATA
119082 T
1 T
119083 GTCAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 2 0.11
19 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATATAAATTATTAAATA
Found at i:119841 original size:2 final size:2
Alignment explanation
Indices: 119834--119871 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
119824 TGATTCAAAC
119834 AT 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 AT
119872 GAATATGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120044 original size:20 final size:19
Alignment explanation
Indices: 120016--120073 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
120006 TAATTAATTT
120016 ATATATTATTTTTAAAATATA
1 ATAT-TTATTTTTAAAATA-A
*
120037 ATATTTATTTATAGTAAATAA
1 ATATTTATTTTTA--AAATAA
*
120058 A-ATTTAATTTTAAAAT
1 ATATTTATTTTTAAAAT
120074 TTTAAATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 4 0.12
20 17 0.53
21 6 0.19
22 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
ATATTTATTTTTAAAATAA
Found at i:120581 original size:19 final size:18
Alignment explanation
Indices: 120559--120601 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
120549 TTTAAATTAT
120559 TATTTATTAATTAAAAT-AA
1 TATTTATTAA--AAAATAAA
*
120578 TATTAATTAAAAAATAAA
1 TATTTATTAAAAAATAAA
120596 TATTTA
1 TATTTA
120602 ATATTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 7 0.33
19 9 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTTATTAAAAAATAAA
Found at i:120599 original size:18 final size:15
Alignment explanation
Indices: 120563--120593 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
120553 AATTATTATT
120563 TATTAATTAAAATAA
1 TATTAATTAAAATAA
120578 TATTAATTAAAA-AA
1 TATTAATTAAAATAA
120592 TA
1 TA
120594 AATATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TATTAATTAAAATAA
Found at i:123065 original size:2 final size:2
Alignment explanation
Indices: 123058--123086 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
123048 AATTTTCCCC
123058 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
123087 CACATACAAT
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.