Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2217
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: 161951
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Found at i:3115 original size:12 final size:13
Alignment explanation
Indices: 3098--3128 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
3088 AACCAGGTAC
3098 ATTTTGGTA-CAG
1 ATTTTGGTATCAG
3110 ATTTTGGTATCAG
1 ATTTTGGTATCAG
3123 ATTTTG
1 ATTTTG
3129 CGCGTTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (13 bp):
ATTTTGGTATCAG
Found at i:8851 original size:22 final size:22
Alignment explanation
Indices: 8823--8866 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8813 TTTTGAACCA
8823 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
8845 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
8867 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:11405 original size:20 final size:20
Alignment explanation
Indices: 11380--11422 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11370 AAAAGAAAAG
11380 AAAGAAGAGAGATTGAGAGA
1 AAAGAAGAGAGATTGAGAGA
** *
11400 AAAGAATCGAGATTGTGAGA
1 AAAGAAGAGAGATTGAGAGA
11420 AAA
1 AAA
11423 ACAAGAGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.30, T:0.14
Consensus pattern (20 bp):
AAAGAAGAGAGATTGAGAGA
Found at i:13761 original size:22 final size:22
Alignment explanation
Indices: 13733--13776 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13723 TTTTGAACCA
13733 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
13755 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
13777 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:16925 original size:13 final size:12
Alignment explanation
Indices: 16909--16952 Score: 72
Period size: 11 Copynumber: 3.7 Consensus size: 12
16899 AAAAAAAAGG
16909 AAAAAAAATTCGA
1 AAAAAAAATTC-A
16922 AAAAAAAATTC-
1 AAAAAAAATTCA
16933 AAAAAAAATTCA
1 AAAAAAAATTCA
16945 AAAAAAAA
1 AAAAAAAA
16953 GTTTGTATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.37
12 8 0.27
13 11 0.37
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.14
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:17039 original size:28 final size:28
Alignment explanation
Indices: 16998--17063 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 28
16988 GTATTGAAGA
**
16998 AAAAAAATAAGAAAAAAAAATTCGGAATT-
1 AAAAAAA-AAGAAAAAAAAA-TCAAAATTG
17027 AAAAAAAAAGAAAAAAAAATCAAAATTG
1 AAAAAAAAAGAAAAAAAAATCAAAATTG
17055 AAAAAAAAA
1 AAAAAAAAA
17064 AGAGTGATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 6 0.18
28 21 0.62
29 7 0.21
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.12
Consensus pattern (28 bp):
AAAAAAAAAGAAAAAAAAATCAAAATTG
Found at i:17040 original size:27 final size:29
Alignment explanation
Indices: 16998--17063 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
16988 GTATTGAAGA
* **
16998 AAAAAAATAAGAAAAAAAAATTCGGAATT-
1 AAAAAAA-AAGAAAAAAAAAATCAAAATTG
17027 AAAAAAAAAG-AAAAAAAAATCAAAATTG
1 AAAAAAAAAGAAAAAAAAAATCAAAATTG
17055 AAAAAAAAA
1 AAAAAAAAA
17064 AGAGTGATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 14 0.42
28 12 0.36
29 7 0.21
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.12
Consensus pattern (29 bp):
AAAAAAAAAGAAAAAAAAAATCAAAATTG
Found at i:17059 original size:29 final size:30
Alignment explanation
Indices: 16996--17066 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 30
16986 TAGTATTGAA
**
16996 GAAAAAAAATAAGAAAAAAAAATTCGGAATT
1 GAAAAAAAA-AAGAAAAAAAAATTCAAAATT
17027 --AAAAAAAAAGAAAAAAAAA-TCAAAATT
1 GAAAAAAAAAAGAAAAAAAAATTCAAAATT
17054 GAAAAAAAAAAGA
1 GAAAAAAAAAAGA
17067 GTGATTGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 6 0.17
28 12 0.33
29 18 0.50
ACGTcount: A:0.76, C:0.03, G:0.10, T:0.11
Consensus pattern (30 bp):
GAAAAAAAAAAGAAAAAAAAATTCAAAATT
Found at i:25233 original size:30 final size:30
Alignment explanation
Indices: 25158--25234 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
25148 TCAGCTCACA
*
25158 AGCTAAACCTTAGCTCAACTTCAGCTTAGG
1 AGCTAAACCTTAGCTCAACTTCAGCTAAGG
* * * *
25188 AGTTTAACCTCAGCTCAACTTTAGCTCAAGG
1 AGCTAAACCTTAGCTCAACTTCAGCT-AAGG
*
25219 -GCTAAAGCTTAGCTCA
1 AGCTAAACCTTAGCTCA
25235 TTTTATCTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
30 34 0.92
31 3 0.08
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (30 bp):
AGCTAAACCTTAGCTCAACTTCAGCTAAGG
Found at i:33726 original size:22 final size:22
Alignment explanation
Indices: 33698--33741 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
33688 TTTTGAACCA
33698 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
33720 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
33742 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:41108 original size:20 final size:20
Alignment explanation
Indices: 41062--41109 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
41052 AGTAAGCTCG
41062 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** * *
41082 AACGAGCTTAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
41102 GTTGAGCT
1 GTTGAGCT
41110 GGACAAAGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:42241 original size:19 final size:19
Alignment explanation
Indices: 42217--42256 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
42207 AGCTCCCATG
42217 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
42236 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
42255 TA
1 TA
42257 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:43275 original size:15 final size:15
Alignment explanation
Indices: 43255--43302 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
43245 TCAAAGGAGG
43255 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
43270 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
43285 -TTTATGGATATAAA
1 GTTTATGGATATGAA
43299 GTTT
1 GTTT
43303 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:46476 original size:30 final size:28
Alignment explanation
Indices: 46423--46478 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
46413 TTCTTCCACG
* *
46423 CTTTCTTTTTGCTCACTCTCTTTTTCAA
1 CTTTCTTTTTGCACACACTCTTTTTCAA
46451 CTTTACTTTCTTGCACACACTCTTTTTC
1 CTTT-CTTT-TTGCACACACTCTTTTTC
46479 TTTTTCGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.12, C:0.30, G:0.04, T:0.54
Consensus pattern (28 bp):
CTTTCTTTTTGCACACACTCTTTTTCAA
Found at i:47536 original size:11 final size:11
Alignment explanation
Indices: 47520--47554 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
47510 TTCAGATTTT
47520 ATTTTTTTTGA
1 ATTTTTTTTGA
47531 ATTTTTTTTCGA
1 ATTTTTTTT-GA
*
47543 TTTTTTTTTGA
1 ATTTTTTTTGA
47554 A
1 A
47555 ACTTACTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.17, C:0.03, G:0.09, T:0.71
Consensus pattern (11 bp):
ATTTTTTTTGA
Found at i:47793 original size:15 final size:15
Alignment explanation
Indices: 47773--47820 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
47763 TCAAAGGTGG
47773 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
47788 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
47803 -TTTATGGATATAAA
1 GTTTATGGATATGAA
47817 GTTT
1 GTTT
47821 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:51462 original size:30 final size:30
Alignment explanation
Indices: 51391--51473 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
51381 CTTTTGTTTC
* *
51391 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
51422 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
51451 ATTTTCTTTTTCTTTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
51474 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.12, C:0.22, G:0.01, T:0.65
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:51491 original size:12 final size:12
Alignment explanation
Indices: 51476--51506 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
51466 TTCTTTTTGC
51476 TTTTCAAAGGCT
1 TTTTCAAAGGCT
*
51488 TTTTCAAAGGGT
1 TTTTCAAAGGCT
51500 TTTTCAA
1 TTTTCAA
51507 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:51564 original size:5 final size:5
Alignment explanation
Indices: 51554--51610 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
51544 CTCTTGCCTC
*
51554 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
51601 TCTTT TCTTT
1 TCTTT TCTTT
51611 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:51594 original size:15 final size:14
Alignment explanation
Indices: 51554--51610 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
51544 CTCTTGCCTC
*
51554 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
51569 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
51584 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
51601 TCTTTTCTTT
1 TCTTTTCTTT
51611 ATTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:51620 original size:21 final size:20
Alignment explanation
Indices: 51552--51621 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
51542 GCCTCTTGCC
51552 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
51575 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
51595 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
51615 TCTCTTT
1 TCTCTTT
51622 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:52548 original size:10 final size:10
Alignment explanation
Indices: 52535--52573 Score: 60
Period size: 11 Copynumber: 3.7 Consensus size: 10
52525 TTTTCAGATT
52535 TTTTTTTGAA
1 TTTTTTTGAA
52545 TTTTTTTGAA
1 TTTTTTTGAA
52555 TTTTTTTTCGAA
1 -TTTTTTT-GAA
52567 TTTTTTT
1 TTTTTTT
52574 TGACTTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.37
11 14 0.52
12 3 0.11
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:52557 original size:22 final size:23
Alignment explanation
Indices: 52522--52573 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
52512 ATTAAACATG
*
52522 TTTTTTTCAGATTTTTTTTTGAA
1 TTTTTTTCAGATTTTTTTTCGAA
*
52545 TTTTTTTGA-ATTTTTTTTCGAA
1 TTTTTTTCAGATTTTTTTTCGAA
52567 TTTTTTT
1 TTTTTTT
52574 TGACTTGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.15, C:0.04, G:0.08, T:0.73
Consensus pattern (23 bp):
TTTTTTTCAGATTTTTTTTCGAA
Found at i:54036 original size:21 final size:22
Alignment explanation
Indices: 53997--54040 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
53987 GTGCATACTC
53997 CTTCAAGCTCAAATCAGCTCAA
1 CTTCAAGCTCAAATCAGCTCAA
* *
54019 CTTCAA-CTCAACTTAGCTCAA
1 CTTCAAGCTCAAATCAGCTCAA
54040 C
1 C
54041 GAGCTCGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.34, C:0.34, G:0.07, T:0.25
Consensus pattern (22 bp):
CTTCAAGCTCAAATCAGCTCAA
Found at i:55860 original size:30 final size:30
Alignment explanation
Indices: 55826--55902 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 30
55816 TAAACTAAAA
*
55826 TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCATAAGCTAAAGT
* * * * *
55856 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCATAAGCTAAAGT
*
55886 TGAGCTAAGGTTTAGCT
1 TGAGCTAAGCTTTAGCT
55903 TGTGAGTTGA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
29 2 0.06
30 30 0.86
31 3 0.09
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCATAAGCTAAAGT
Found at i:60491 original size:15 final size:15
Alignment explanation
Indices: 60471--60518 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
60461 TCAAAGATGG
60471 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
60486 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
60500 GTTTATGGATATAAA
1 GTTTATGGATATGAA
60515 GTTT
1 GTTT
60519 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:60505 original size:14 final size:14
Alignment explanation
Indices: 60465--60508 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
60455 AAGGATTCAA
60465 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
60479 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
60494 AGATGGGTTTATGG
1 AGATGGGTTTATGG
60508 A
1 A
60509 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:60534 original size:29 final size:29
Alignment explanation
Indices: 60465--60524 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
60455 AAGGATTCAA
*
60465 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
60494 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
60523 AG
1 AG
60525 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:61548 original size:14 final size:14
Alignment explanation
Indices: 61506--61550 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
61496 TTAAAGAAGC
61506 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
61520 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
61533 AACTCATTTAATTA
1 AACTCATTAAATTA
61547 AACT
1 AACT
61551 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:63775 original size:21 final size:21
Alignment explanation
Indices: 63726--63792 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
63716 CCTCTTTGAA
* * *
63726 CCATAACCAATTCGTACCAAATA
1 CCAT-ACCATTTCATACC-AATT
*
63749 CCATACTATTTCATACCAATT
1 CCATACCATTTCATACCAATT
*
63770 CCATACCATTTCGTACCAATT
1 CCATACCATTTCATACCAATT
63791 CC
1 CC
63793 CAAATACCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 24 0.63
22 10 0.26
23 4 0.11
ACGTcount: A:0.34, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
CCATACCATTTCATACCAATT
Found at i:64122 original size:10 final size:10
Alignment explanation
Indices: 64109--64136 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
64099 AAGTTCGAAA
64109 AAAAAAAATT
1 AAAAAAAATT
64119 AAAAAAAATT
1 AAAAAAAATT
64129 AAAAAAAA
1 AAAAAAAA
64137 AAATTGCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (10 bp):
AAAAAAAATT
Found at i:64122 original size:13 final size:13
Alignment explanation
Indices: 64090--64141 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 13
64080 ATTAGGTGCG
*
64090 TAAAAAAAAAAGT
1 TAAAAAAAAAAAT
64103 TCGAAAAAAAAAAAT
1 T--AAAAAAAAAAAT
64118 T---AAAAAAAAT
1 TAAAAAAAAAAAT
64128 TAAAAAAAAAAAT
1 TAAAAAAAAAAAT
64141 T
1 T
64142 GCATACGGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
10 10 0.30
13 11 0.33
15 12 0.36
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (13 bp):
TAAAAAAAAAAAT
Found at i:66308 original size:20 final size:17
Alignment explanation
Indices: 66264--66316 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
66254 CAAATGAGAG
66264 AAAAAGAAAAGACGAAAAT
1 AAAAAGAAAAGA--AAAAT
66283 ACAAAAGAAAAGAAAAAT
1 A-AAAAGAAAAGAAAAAT
66301 GATAAAA-AAAAGAAAA
1 -A-AAAAGAAAAGAAAA
66317 TTCAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 14 0.45
19 6 0.19
20 11 0.35
ACGTcount: A:0.77, C:0.04, G:0.13, T:0.06
Consensus pattern (17 bp):
AAAAAGAAAAGAAAAAT
Found at i:66317 original size:17 final size:17
Alignment explanation
Indices: 66285--66334 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 17
66275 ACGAAAATAC
66285 AAAAGAAAAGAAAAATGAT
1 AAAA-AAAAG-AAAATGAT
66304 AAAAAAAAGAAAAT--T
1 AAAAAAAAGAAAATGAT
* *
66319 CAAAAAAAGAGAATGA
1 AAAAAAAAGAAAATGA
66335 AAAGAGAGCG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 13 0.48
17 5 0.19
18 5 0.19
19 4 0.15
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.10
Consensus pattern (17 bp):
AAAAAAAAGAAAATGAT
Found at i:70614 original size:21 final size:21
Alignment explanation
Indices: 70565--70631 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
70555 CCTCTTTGAA
* * *
70565 CCATAACCAATTCGTACCAAATA
1 CCAT-ACCATTTCATACC-AATT
*
70588 CCATACTATTTCATACCAATT
1 CCATACCATTTCATACCAATT
*
70609 CCATACCATTTCGTACCAATT
1 CCATACCATTTCATACCAATT
70630 CC
1 CC
70632 CAAATACCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 24 0.63
22 10 0.26
23 4 0.11
ACGTcount: A:0.34, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
CCATACCATTTCATACCAATT
Found at i:78211 original size:14 final size:15
Alignment explanation
Indices: 78192--78224 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
78182 TTAAACTAAG
*
78192 TAAATAAAA-ATAAA
1 TAAATAAAATAAAAA
78206 TAAATAAAATAAAAA
1 TAAATAAAATAAAAA
78221 TAAA
1 TAAA
78225 ACTTTACAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAATAAAATAAAAA
Found at i:83386 original size:12 final size:12
Alignment explanation
Indices: 83366--83415 Score: 64
Period size: 12 Copynumber: 4.1 Consensus size: 12
83356 GTATTACGAG
*
83366 ATTGTAAAAAAA
1 ATTGAAAAAAAA
83378 ATTGAAAAAAAA
1 ATTGAAAAAAAA
*
83390 TTTGAAAAAAAAA
1 ATTG-AAAAAAAA
*
83403 ATTCAAAAAAAA
1 ATTGAAAAAAAA
83415 A
1 A
83416 GTTTGTATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
12 23 0.70
13 10 0.30
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (12 bp):
ATTGAAAAAAAA
Found at i:91967 original size:15 final size:15
Alignment explanation
Indices: 91947--92001 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
91937 ACTCTCCTCA
*
91947 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
91962 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
*
91977 TTGTTTT-TCTCTTT
1 TTCTTTTCTCTCTTT
91991 TTCTTTT-TCTC
1 TTCTTTTCTCTC
92002 GCTCAATAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 16 0.46
15 19 0.54
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.75
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:101643 original size:20 final size:20
Alignment explanation
Indices: 101620--101673 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
101610 AGTTTTTCCC
*
101620 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
101640 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
101660 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
101674 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:101655 original size:30 final size:30
Alignment explanation
Indices: 101620--101693 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
101610 AGTTTTTCCC
101620 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
101650 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
101680 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
101694 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:101683 original size:20 final size:20
Alignment explanation
Indices: 101620--101684 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
101610 AGTTTTTCCC
* * * *
101620 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
101640 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
101659 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
101680 AGCTC
1 AGCTC
101685 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:103341 original size:20 final size:19
Alignment explanation
Indices: 103318--103375 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
103308 AGCTCAAACG
103318 AGCTAAAGTAAGCTAAATTA
1 AGCTAAAGT-AGCTAAATTA
103338 AGCTCAAACG-AGCTAAATTA
1 AGCT-AAA-GTAGCTAAATTA
* *
103358 AGCTCATGTGAGCTAAAT
1 AGCTAAAGT-AGCTAAAT
103376 CGAGCTGGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 26 0.81
21 3 0.09
22 1 0.03
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (19 bp):
AGCTAAAGTAGCTAAATTA
Found at i:106727 original size:13 final size:12
Alignment explanation
Indices: 106711--106848 Score: 56
Period size: 12 Copynumber: 11.5 Consensus size: 12
106701 TTTTTTTGCT
106711 TTTTCTTTTTCAA
1 TTTTCTTTTTC-A
106724 TTTTCTTTTCTTCA
1 TTTTC-TTT-TTCA
106738 TTTTCTTTTTC-
1 TTTTCTTTTTCA
** *
106749 TCTCACTTTTTTGA
1 T-TTTC-TTTTTCA
106763 -TTTCTTTTTC-
1 TTTTCTTTTTCA
** *
106773 TTTTGCAATTTCT
1 TTTT-CTTTTTCA
*
106786 TTTTCTTCTTT-G
1 TTTTCTT-TTTCA
*
106798 TTTTCTTTTT-G
1 TTTTCTTTTTCA
106809 TTTTC--TTTCA
1 TTTTCTTTTTCA
*
106819 ATTTCTTTTTCA
1 TTTTCTTTTTCA
* * *
106831 TTCTCTTTCTCC
1 TTTTCTTTTTCA
106843 TTTTCT
1 TTTTCT
106849 CGCTCAATGG
Statistics
Matches: 95, Mismatches: 18, Indels: 25
0.69 0.13 0.18
Matches are distributed among these distances:
9 3 0.03
10 4 0.04
11 18 0.19
12 38 0.40
13 20 0.21
14 9 0.09
15 3 0.03
ACGTcount: A:0.07, C:0.20, G:0.03, T:0.70
Consensus pattern (12 bp):
TTTTCTTTTTCA
Found at i:106740 original size:14 final size:13
Alignment explanation
Indices: 106691--106747 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
106681 TCAAGCTCTC
*
106691 TTTCAATTTCTTTT
1 TTTCATTTTC-TTT
*
106705 TTTGCTTTTTC-TT
1 TTT-CATTTTCTTT
106718 TTTCAATTTTCTTT
1 TTTC-ATTTTCTTT
106732 TCTTCATTTTCTTT
1 T-TTCATTTTCTTT
106746 TT
1 TT
106748 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
12 1 0.03
13 11 0.31
14 16 0.44
15 8 0.22
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTCATTTTCTTT
Found at i:106747 original size:15 final size:15
Alignment explanation
Indices: 106692--106749 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 15
106682 CAAGCTCTCT
*
106692 TTCAATTTCTTTTT-
1 TTCATTTTCTTTTTC
*
106706 TTGCTTTTTCTTTTTC
1 TT-CATTTTCTTTTTC
*
106722 --AATTTTC-TTTTC
1 TTCATTTTCTTTTTC
106734 TTCATTTTCTTTTTC
1 TTCATTTTCTTTTTC
106749 T
1 T
106750 CTCACTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
12 5 0.15
13 5 0.15
14 8 0.24
15 16 0.47
ACGTcount: A:0.09, C:0.17, G:0.02, T:0.72
Consensus pattern (15 bp):
TTCATTTTCTTTTTC
Found at i:106775 original size:18 final size:18
Alignment explanation
Indices: 106754--106812 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
106744 TTTTCTCTCA
106754 CTTTTTTGATTTCTTTTT
1 CTTTTTTGATTTCTTTTT
***
106772 CTTTTGCAATTTCTTTTT
1 CTTTTTTGATTTCTTTTT
* *
106790 CTTCTTTGTTTTCTTTTT
1 CTTTTTTGATTTCTTTTT
*
106808 GTTTT
1 CTTTT
106813 CTTTCAATTT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.05, C:0.14, G:0.07, T:0.75
Consensus pattern (18 bp):
CTTTTTTGATTTCTTTTT
Found at i:106810 original size:11 final size:11
Alignment explanation
Indices: 106786--106816 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
106776 TGCAATTTCT
106786 TTTTCTTCTTTG
1 TTTTCTT-TTTG
106798 TTTTCTTTTTG
1 TTTTCTTTTTG
106809 TTTTCTTT
1 TTTTCTTT
106817 CAATTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (11 bp):
TTTTCTTTTTG
Found at i:106829 original size:6 final size:6
Alignment explanation
Indices: 106703--106816 Score: 54
Period size: 6 Copynumber: 18.5 Consensus size: 6
106693 TCAATTTCTT
* * * **
106703 TTTTTGC TTTTTC TTTTTC AATTTTC TTTTCTTC ATTTTC TTTTTC TCTCAC
1 TTTTT-C TTTTTC TTTTTC -TTTTTC -TTT-TTC TTTTTC TTTTTC TTTTTC
* * ** *
106755 TTTTT- TGATTTC TTTTTC TTTTGC AATTTC TTTTTC TTCTTT- GTTTTC
1 TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC TTTTTC
*
106803 TTTTT- GTTTTC TTT
1 TTTTTC TTTTTC TTT
106817 CAATTTCTTT
Statistics
Matches: 77, Mismatches: 23, Indels: 15
0.67 0.20 0.13
Matches are distributed among these distances:
5 8 0.10
6 48 0.62
7 18 0.23
8 3 0.04
ACGTcount: A:0.06, C:0.17, G:0.04, T:0.73
Consensus pattern (6 bp):
TTTTTC
Found at i:109522 original size:20 final size:19
Alignment explanation
Indices: 109499--109563 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
109489 AAGCTCAAAC
109499 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
109519 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
109539 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
109559 GAGCT
1 GAGCT
109564 GAGAAAACTA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:110887 original size:15 final size:14
Alignment explanation
Indices: 110851--110905 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
110841 TCTATTGAGC
110851 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
110865 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
110879 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
110894 GAAAGAAAAGAA
1 GAGA-AAAAGAA
110906 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:130253 original size:31 final size:31
Alignment explanation
Indices: 130215--130275 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
130205 ATCATAGACA
130215 TCCTAATAATCATAAAATAATTGTTTCTACC
1 TCCTAATAATCATAAAATAATTGTTTCTACC
130246 TCCTAATAATCATAAAATAATTGTTTCTAC
1 TCCTAATAATCATAAAATAATTGTTTCTAC
130276 TTTGGATTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (31 bp):
TCCTAATAATCATAAAATAATTGTTTCTACC
Found at i:134967 original size:30 final size:30
Alignment explanation
Indices: 134933--135019 Score: 129
Period size: 30 Copynumber: 2.9 Consensus size: 30
134923 ATGAATTGGA
* *
134933 AGCTTTGGAAATAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAAACT
*
134963 AGCTTTGGCACTAAGTGTGCGATTTATACT
1 AGCTTTGGCACTAAGTGTGCGATTTAAACT
* *
134993 AACTTTGGCACTAAGTGTGTGATTTAA
1 AGCTTTGGCACTAAGTGTGCGATTTAA
135020 CTACCTTCGA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.36
Consensus pattern (30 bp):
AGCTTTGGCACTAAGTGTGCGATTTAAACT
Found at i:138211 original size:37 final size:37
Alignment explanation
Indices: 138153--138334 Score: 274
Period size: 37 Copynumber: 4.9 Consensus size: 37
138143 GCTCAGACGA
** * *
138153 AATCTCCACACAAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
138190 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
138227 ACTCTCCACGCGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* * *
138264 ACTCTCCACAAGTAGTCATCGGGTCTTACCCAGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
138301 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
138335 ATATATTTCC
Statistics
Matches: 132, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 132 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:138618 original size:47 final size:47
Alignment explanation
Indices: 138539--138826 Score: 425
Period size: 47 Copynumber: 6.1 Consensus size: 47
138529 TATATATATT
* * *
138539 TCACATTGACCATTCGGCTTTA-CTACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATC-ACATATATGCATGTTCACATTCA
* * *
138586 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
138633 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
138680 TCACATAGGCCATTCGGTCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
138727 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
138774 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
138821 TCACAT
1 TCACAT
138827 AAAATCCTAA
Statistics
Matches: 216, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 215 1.00
48 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:138713 original size:141 final size:141
Alignment explanation
Indices: 138563--138827 Score: 503
Period size: 141 Copynumber: 1.9 Consensus size: 141
138553 CGGCTTTACT
138563 ACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCAC
1 ACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCAC
* **
138628 ATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATAGGCCAT
66 ATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACATAGGCCAT
138693 TCGGTCTTATC
131 TCGGTCTTATC
138704 ACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCAC
1 ACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCAC
138769 ATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACATA
66 ATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACATA
138828 AAATCCTAAA
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
141 121 1.00
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (141 bp):
ACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCAC
ATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACATAGGCCAT
TCGGTCTTATC
Found at i:138727 original size:22 final size:22
Alignment explanation
Indices: 138655--138727 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
138645 TTCGGCCTTA
*
138655 TCACATATATGCATGTTCACAT
1 TCACATATATGCATGTTCATAT
* * * *
138677 TCATCACATAGGCCATTCGGTCTTA-
1 TCA-CATATATG-CA-T-GTTCATAT
138702 TCACATATATGCATGTTCATAT
1 TCACATATATGCATGTTCATAT
138724 TCAC
1 TCAC
138728 CACATTGGCC
Statistics
Matches: 37, Mismatches: 9, Indels: 10
0.66 0.16 0.18
Matches are distributed among these distances:
21 5 0.14
22 8 0.22
23 8 0.22
24 8 0.22
25 4 0.11
26 4 0.11
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.36
Consensus pattern (22 bp):
TCACATATATGCATGTTCATAT
Found at i:155245 original size:356 final size:359
Alignment explanation
Indices: 154553--155280 Score: 1178
Period size: 356 Copynumber: 2.0 Consensus size: 359
154543 CCATAGTACG
* *
154553 ATAAAAGTTAGTAATTAAATGTTTAAATAAAAAAATAAAAGCCAAATTTTGGTTATCTTCAACCC
1 ATAAAATTTAGTAATTAAATGTTTAAATAAAAAAATAAAAGCCAAATTTTGGTCATCTTCAACCC
* * *
154618 CTTGGCCGAAATTTTGAAGACCACCATGGCTACGGTTTTCTTTAAGCTTTCCAAGGTCCATAGTA
66 CTCGGCCGAAATTTTGAAGACCACCACGGCTACGGTTTTCTTTAAGCTTTCCAAGCTCCATAGT-
154683 AGTCCATTATTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACCT
130 A-TCCATTA-T-CCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACCT
* * * * *
154748 ATTTCTACCATTTAATTAATTTATGATGAAGGTCTAGGGTTTGAGCCATGTTATAAATTTGTGTA
192 ATTTCCACCATTTAATTAAGTTACGATAAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGTA
* * * *
154813 TTTTGATGTTTAATGGTATATTATGCATGTTTATGGTTGGAGCAACAACTTTTGCTAAGTGATTT
257 TTTTGATGTTTAATGGTAGATTATGCATGTTTAGGGTTGGAGAAACAACTTTTACTAAGTGATTT
154878 TCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTT
322 TCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTT
154916 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
1 ATAAAATTTAGTAATTAAATGTTTAAATAAA-AAAATAAAAGCCAAATTTTGGTCATCTTCAACC
* * *
154981 CCTCGGCCGAAATTTTGAAGACCACCACGGCTAGGGTTTTGTTTAAGCTTTTCAAGCTCCATAGT
65 CCTCGGCCGAAATTTTGAAGACCACCACGGCTACGGTTTTCTTTAAGCTTTCCAAGCTCCATAGT
155046 -T-C-TTA-CCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACCTATT
130 ATCCATTATCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACCTATT
* *
155107 TCCACCATTTATTTGAGTTACGATAAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGTATTT
195 TCCACCATTTAATTAAGTTACGATAAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGTATTT
*
155172 TGATGTTTAATGGTAGATTATGCTTGTTTAGGGTTGGAGAAACAACTTTTAC-AGAGTGATTTTC
260 TGATGTTTAATGGTAGATTATGCATGTTTAGGGTTGGAGAAACAACTTTTACTA-AGTGATTTTC
*
155236 AATGAAAATGCTAAAATGGACTAATTTGTAAAAGTT
324 AATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTT
155272 ATAAAATTT
1 ATAAAATTT
155281 GTCATAAAAG
Statistics
Matches: 342, Mismatches: 21, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
355 1 0.00
356 215 0.63
359 3 0.01
360 1 0.00
361 1 0.00
363 30 0.09
364 91 0.27
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (359 bp):
ATAAAATTTAGTAATTAAATGTTTAAATAAAAAAATAAAAGCCAAATTTTGGTCATCTTCAACCC
CTCGGCCGAAATTTTGAAGACCACCACGGCTACGGTTTTCTTTAAGCTTTCCAAGCTCCATAGTA
TCCATTATCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACCTATTT
CCACCATTTAATTAAGTTACGATAAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGTATTTT
GATGTTTAATGGTAGATTATGCATGTTTAGGGTTGGAGAAACAACTTTTACTAAGTGATTTTCAA
TGAAAATGCTAAAAAGGACTAATTTGTAAAAGTT
Found at i:156227 original size:541 final size:541
Alignment explanation
Indices: 154916--161488 Score: 10762
Period size: 541 Copynumber: 12.2 Consensus size: 541
154906 TGTAAAAGTT
154916 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
1 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
* *
154981 CCTCGGCCGAAATTTTGAAGACCACCACGGCTAGGGTTTTGTTTAAGCTTTTCAAGCTCC--A-T
66 CCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
*
155043 -A----GTTCTTACCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
131 AAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
* * *
155103 TATTTCCACCATTTATTTGAGTTACGATAAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
196 TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
* * *
155168 ATTTTGATGTTTAATGGTAGATTATGCTTGTTTAGGGTTGGAGAAACAACTTTTAC-AGAGTGAT
261 ATTTTGATGTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTGCTA-AGTGAT
*
155232 TTTCAATGAAAATGCTAAAATGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGAT
325 TTTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGAT
*
155297 TTAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTTGGCTAGGCTTAAGGTGAAAATAAA
390 TTAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTGAAAATAAA
* * * *
155362 TTGAATGAAAATTATTTTACAAACCTAGGGGGAAAAGTGTAAATATGATAAAATTTGGGGGCAAA
455 TTGAATGAAAATTATTTTACAAGCCTA-GGGTAAAAGTGTAAATATGATAAAATTTAGGGG-TAA
* *
155427 AATT-TAATTTTTTCCGTAGTATG
518 AATTGTAATTTTTGCCATAGTATG
* *
155450 ATAAAATTTAGTAATTAAATGTTGAAATAAACAAAATAAATGCCAAATTTTGGTCATCTTCAACC
1 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
* * *
155515 GCTCGGCTGAAAATTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
66 CCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
*
155580 AAGTCTGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
131 AAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
* * *
155645 TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTTAATCATGTTATAATTTTGTGT
196 TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
* *
155710 ATTTTGTTGTTTAATGGTAGATTATGCATATTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
261 ATTTTGATGTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
*
155775 TTCAATGAAAATGCTACAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGATT
326 TTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGATT
*
155840 TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAAGTGAAAATAAAT
391 TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTGAAAATAAAT
*
155905 TGAATGAAAATTATTTTACAAGCCTAGGGTAAAAGTGTAAATATGATAAAATTTATGGGTAAAAT
456 TGAATGAAAATTATTTTACAAGCCTAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGTAAAAT
155970 TGTAATTTTTGCCATAGTATG
521 TGTAATTTTTGCCATAGTATG
* *
155991 ATAAAATTTAGTAATTAACTGTTAAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
1 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
* * * * *
156056 CCTTGGTCGAAATTTTGAAGGCAACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTTCATAGT
66 CCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
* * * * *
156121 AAATCCGTTCTTGCCCCGTTTTTAATGAATTTCACGTTTTTAAAATCCTTGTAACACGATCTGCC
131 AAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
* *
156186 TATTTCTACCATTTATTTGTGTTATGATGAAGGTTTAGGGTTTGAACCATGTTATAAATTTGTGT
196 TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
*
156251 ATTTTGATGTTTAATGGTAGATTATGCATTTTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
261 ATTTTGATGTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
*
156316 TTCAATGAAAATGCTAAAAAGGACTAATTTATAAAAGTTATAAAATTTGTCATAAAAGTGTGATT
326 TTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGATT
*
156381 TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTCTGCTAGGCTTAAGGTGAAAATAAAT
391 TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTGAAAATAAAT
* * * *
156446 TGGATGAAAATTATTTTACAAGCTTAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGAAAAAA
456 TGAATGAAAATTATTTTACAAGCCTAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGTAAAAT
**
156511 TGTAATTTTTTTCATAGTATG
521 TGTAATTTTTGCCATAGTATG
* * *
156532 ATAAATTTTAGAAATTAAATGTTTAAATAAA-AAAATAAAAGCCAAATTTTGGTCATCTTCAATC
1 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
* *
156596 CCTCGGCCGAAAATTTGAAGACCACCTTGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
66 CCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
*
156661 AAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATTATCTACC
131 AAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
* * * *
156726 CATTTCTACCATTTGTTTGAGTGATGATGAAGGTTTAGGGTTTGAACCATGTTATAAATTTGTGT
196 TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
* * * *
156791 ATGTTGATGTTTAATGGTAGATTATGCATGTTTAGGGTTGTAGAAACAACTTTTGCAAAGTGATT
261 ATTTTGATGTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
* * *
156856 TTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAATTATAAAATTTGTCATACATGTGTGATT
326 TTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGATT
*
156921 TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAAGTGAAAATAAAT
391 TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTGAAAATAAAT
*
156986 TGAATGAAAATTATTTTACAAGCCTAGGGTAAAAGTGTAAATATGATAAAATTTAAGGGTAAAAT
456 TGAATGAAAATTATTTTACAAGCCTAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGTAAAAT
157051 TGTAATTTTTGCCATAGTATG
521 TGTAATTTTTGCCATAGTATG
157072 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
1 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
* * * *
157137 CCACAGCCGAAATTTTGAAGACCACCACGGCTAGGGTTTTGTTTAAGCTTTTCAAGCTCC--A-T
66 CCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
157199 -A----GTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
131 AAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
157259 TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
196 TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
*
157324 ATTTTGATGTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTACTAAGTGATT
261 ATTTTGATGTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
* *
157389 TTCAATGAAAATGCTAAAAAGGAGTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGATG
326 TTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGATT
* * * * *
157454 TAGTGAAAATTGTGGGTTTTTTTGGTTATGAAAGTGGTTTGGCTAGGCTTAAGGTTAAAATAAAT
391 TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTGAAAATAAAT
* *
157519 TGAATG-AAATTATTTTACAAGCCTAGGGGTAAAAGTGTAAATATGATGAAATTTAGGGGCAAAA
456 TGAATGAAAATTATTTTACAAGCCTA-GGGTAAAAGTGTAAATATGATAAAATTTAGGGGTAAAA
*
157583 ATGTAATTTTCT-CCATAGTATG
520 TTGTAATTTT-TGCCATAGTATG
* * * *
157605 ACAAATTTTAGTAATTAAATGTTTAAATAAACAAGATAAAATCCAAATTTTGGTCATCTTCAACC
1 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
* * *
157670 CCTCGGCCGAAAGTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCTAAGCTCCATAGG
66 CCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
* *
157735 AAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCATGTTTTTGAAATCCTTGTAACATGATATACC
131 AAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
157800 TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
196 TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
* * *
157865 ATTTTGATGTTTAATGGTAGATTATGCATGTTTACGGCTGGAGAAACAACTTTTACTAAGTGATT
261 ATTTTGATGTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
* * *
157930 TTCAATTAAAGTGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTTTCATAAAAGTGTGATT
326 TTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGATT
*
157995 TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTTGGCTAGGCTTAAGGTGAAAATAAAT
391 TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTGAAAATAAAT
* * * *
158060 TGAATGAAAATTATTTTACAATCCTAGGGGCAAAAGTGTAAATATGATAAAATTTGGGGGCAAAA
456 TGAATGAAAATTATTTTACAAGCCTA-GGGTAAAAGTGTAAATATGATAAAATTTAGGGGTAAAA
* *
158125 TTTTAATTTTTGACATAGTATG
520 TTGTAATTTTTGCCATAGTATG
* *
158147 ATAAAATTTAGTAATTAAATATTTAAATAAACAAAATAAAAGCCAAATTTTGATCATCTTCAACC
1 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
* * * * * *
158212 CTTTGGACGAAATTTTGAAAACCACCACGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCTATAGT
66 CCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
* * *
158277 AAGTCCGTTCTTG-CTCGTTTTTAAAGATTTTCACGTTTTAGAAATCCTTGTAACATGATCTACC
131 AAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
*
158341 TATTTCTACCATTTATTTGAGTTATGATGAAGGTATAGGGTTTGAACCATGTTATAAATTTGTGT
196 TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
* * * *
158406 ATTTTGATGTTTAATGTTAGATTATGCATGTTTAGGGTTTGAGAAATAACTTTTGC-AGAGTGAT
261 ATTTTGATGTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTGCTA-AGTGAT
*
158470 TTTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATACAAGTGTGAT
325 TTTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGAT
* *
158535 TTAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTCTGCTAGGCTTAAAGTGAAAATAAA
390 TTAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTGAAAATAAA
*
158600 TTGAATGAAAATTATTTTACAAGCCTAGGGTAAAAGTGTAAATATGATAAAATTTAAGGGTAAAA
455 TTGAATGAAAATTATTTTACAAGCCTAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGTAAAA
158665 TTGTAATTTTTGCCATAGTATG
520 TTGTAATTTTTGCCATAGTATG
158687 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
1 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
*
158752 CCTCGGCTGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
66 CCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
*
158817 AAGTCTGTTCTTGCCCCG-TTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
131 AAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
158881 TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
196 TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
*
158946 ATTTTGATTTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
261 ATTTTGATGTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
*
159011 TTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTTTCATAAAAGTGTGATT
326 TTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGATT
* *
159076 TAGTGGAAATTGTGAGTTTTTATAGTTATGAAAGTGGTTTC-GCTAGGCTTAAGGTGAATATAAA
391 TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGG-TTCGGCTAGGCTTAAGGTGAAAATAAA
* * * *
159140 TTGAATGAAAATTATTTTACAATCCTAGGGGTAAAAGTTTAAATATGATAAAATTTGGGGGCAAA
455 TTGAATGAAAATTATTTTACAAGCCTA-GGGTAAAAGTGTAAATATGATAAAATTTAGGGG-TAA
*
159205 AATT-TAATTTTTTCCATAGTATG
518 AATTGTAATTTTTGCCATAGTATG
159228 ATAAAATTTAGTAATTAAATGTTT--A-AAA-AAAATAAAAGCCAAATTTTGGTCATCTTCAACC
1 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
* * * *
159289 CCTTGCCCGAAATTTTGAAGACAACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTTCATAGT
66 CCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
* *
159354 AAGTCCGTTCTTGCACCGTTTTTAATGATTTTCATGTTTTTGAAATCCTTGTAACATGATCTACC
131 AAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
* *
159419 CATTTCTACCATTTATTTGAGTGATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
196 TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
* * * * *
159484 ATTTTGATGTTTAATGGTAGATTATGCATGTTCAGGGTTGTAGAAACAACTTTTGCAAAATGATT
261 ATTTTGATGTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
* *
159549 TTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTTTCATACAAGTGTGATT
326 TTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGATT
* * * *
159614 TAGTGGAAATTGTGGATTTGTATAGTTATGAAAGTGGTTCGGCTACGCTTAAAGTGAAAATAAAT
391 TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTGAAAATAAAT
*
159679 TGAATGAAAATTATTTTACAAGCCTAGGGTAAAAGTGTAAATATGATAAAATTTAAGGGTAAAAT
456 TGAATGAAAATTATTTTACAAGCCTAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGTAAAAT
159744 TGTAATTTTTGCCATAGTATG
521 TGTAATTTTTGCCATAGTATG
* *
159765 AGAAAATTTAGTAATTAAATGTTTAAACAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
1 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
* * *
159830 CCTTGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTATGCTTTCCAAGCTTCATAGT
66 CCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
** *
159895 AAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGGGATCCTTGTAACATGATCTGCC
131 AAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
* *
159960 TATGTCTACCATTTATTTGAGTTATGATGAAGTTCTAGGGTTTGAACCATGTTATAAATTTGTGT
196 TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
*
160025 ATTTTGATGTTTAATGGTAGATTATGCGTGTTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
261 ATTTTGATGTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
160090 TTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGATT
326 TTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGATT
* * * * *
160155 TAGGGGAAATTGTGGGTTTTTATAGTTATGAAAGTTGTTTGGCTAGGCTTAAAGCGAAAATAAAT
391 TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTGAAAATAAAT
* * *
160220 TGAATGAAAATTATTTTACAAGCTTAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGAAAAAA
456 TGAATGAAAATTATTTTACAAGCCTAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGTAAAAT
* *
160285 TGTAATTTTTTCTATAGTATG
521 TGTAATTTTTGCCATAGTATG
* * * **
160306 ATAAATTTTAGTAATTAAATGTTTAAATAAACAAAATAAAATCCAAATTTTTGTCATCTTCAGTC
1 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
* * * *
160371 CCTCGGCCGAAAGTTTGAAGACAACCTTGGCTAGGGTTTTGTATAAGCTTTCCAAGCTCCATAGT
66 CCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
* *
160436 AAGTCCGCTGTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
131 AAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
* * * * *
160501 TATTTCTACCATTTATTTGAGTGATGATGAAGGTCTAAGGTTTAAACCGTGTTATAATTTTGTGT
196 TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
*
160566 ATTTTGATGTTTAATGGTAGATTATGCAAGTTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
261 ATTTTGATGTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
* *
160631 TTCAATGAAAATGCTAAAAAGGACTGATTTGTAAAGGTTATAAAATTTGTCATAAAAGTGTGATT
326 TTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGATT
160696 TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTGAAAATAAAT
391 TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTGAAAATAAAT
* *
160761 TGAATGAAAATTATTTTACAAGCCTAGGGTTAAAGTGTAAATATGATAAAATTTAAGGGTAAAAT
456 TGAATGAAAATTATTTTACAAGCCTAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGTAAAAT
160826 TGTAATTTTTGCCATAGTATG
521 TGTAATTTTTGCCATAGTATG
*
160847 ATAAAATTTAGTAATTAAATGTTTAAACAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
1 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
*
160912 CCTCGGCCGAAATTTTGAAGACCACCATGGCTAAGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
66 CCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
** *
160977 AAGTTTGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTTCC
131 AAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
* * *
161042 TATTTCTACCGTTTATTTGAGTTATGATGATGGTCTAAGGTTTGAACCATGTTATAAATTTGT-T
196 TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
161106 -TTTTGATGTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
261 ATTTTGATGTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
*
161170 TTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTTTCATAAAAGTGTGATT
326 TTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGATT
161235 TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTTC-GCTAGGCTTAAGGTG-AAATAAA
391 TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGG-TTCGGCTAGGCTTAAGGTGAAAATAAA
* * *
161298 TTGAATG-AAATTATTTTTTCACA-CGCTAGGGGTAAAAGTGTAAATATGATAAAATTTAAGGGC
455 TTGAATGAAAATTA-TTTTACA-AGC-CTA-GGGTAAAAGTGTAAATATGATAAAATTTAGGGGT
*
161361 AAAAATGTAATTTTTGCCATAGTATG
516 AAAATTGTAATTTTTGCCATAGTATG
161387 ATAAAATTTAGTAATTAAATGTTT--A-AAA-AAAATAAAAGCCAAATTTTGGTCATCTTCAACC
1 ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
* *
161448 CCT-TGCCGAAATTTTGGAGACCACCATGGCTAGGGTTTTGT
66 CCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGT
161489 AGAGGAGATA
Statistics
Matches: 5619, Mismatches: 379, Indels: 81
0.92 0.06 0.01
Matches are distributed among these distances:
532 19 0.00
533 473 0.08
534 119 0.02
535 36 0.01
536 43 0.01
537 195 0.03
538 338 0.06
539 184 0.03
540 1096 0.20
541 2584 0.46
542 531 0.09
543 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.37
Consensus pattern (541 bp):
ATAAAATTTAGTAATTAAATGTTTAAATAAACAAAATAAAAGCCAAATTTTGGTCATCTTCAACC
CCTCGGCCGAAATTTTGAAGACCACCATGGCTAGGGTTTTGTTTAAGCTTTCCAAGCTCCATAGT
AAGTCCGTTCTTGCCCCGTTTTTAATGATTTTCACGTTTTTGAAATCCTTGTAACATGATCTACC
TATTTCTACCATTTATTTGAGTTATGATGAAGGTCTAGGGTTTGAACCATGTTATAAATTTGTGT
ATTTTGATGTTTAATGGTAGATTATGCATGTTTATGGTTGGAGAAACAACTTTTGCTAAGTGATT
TTCAATGAAAATGCTAAAAAGGACTAATTTGTAAAAGTTATAAAATTTGTCATAAAAGTGTGATT
TAGTGGAAATTGTGGGTTTTTATAGTTATGAAAGTGGTTCGGCTAGGCTTAAGGTGAAAATAAAT
TGAATGAAAATTATTTTACAAGCCTAGGGTAAAAGTGTAAATATGATAAAATTTAGGGGTAAAAT
TGTAATTTTTGCCATAGTATG
Done.