Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold168
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: 2098754
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
File 1 of 16
Found at i:145 original size:16 final size:18
Alignment explanation
Indices: 110--148 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
100 AGTAATTTTT
*
110 TTTTTTTTATTCATTTTC
1 TTTTTTTTATTCATTCTC
128 TTTTTTTT-TTC-TTCTC
1 TTTTTTTTATTCATTCTC
144 TTTTT
1 TTTTT
149 CGTTTTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 3 0.15
18 8 0.40
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTTTTATTCATTCTC
Found at i:148 original size:22 final size:23
Alignment explanation
Indices: 105--155 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
95 AAAAAAGTAA
* *
105 TTTTTTTTTTTTTATTCATTTTC
1 TTTTTTTTTTCTTACTCATTTTC
*
128 TTTTTTTTTTCTT-CTCTTTTTC
1 TTTTTTTTTTCTTACTCATTTTC
*
150 GTTTTT
1 TTTTTT
156 CATGTTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTTTTTTTTCTTACTCATTTTC
Found at i:268 original size:15 final size:14
Alignment explanation
Indices: 248--313 Score: 73
Period size: 15 Copynumber: 4.7 Consensus size: 14
238 TTTCTCTTCA
248 TTCATTTTATTTTTT
1 TTCATTTT-TTTTTT
* *
263 TTCATTTCTTTCTT
1 TTCATTTTTTTTTT
277 TT--TTTTTTTTTT
1 TTCATTTTTTTTTT
*
289 TTCATTTTTTTCATT
1 TTCATTTTTTT-TTT
304 TTCATTTTTT
1 TTCATTTTTT
314 CTTCTCTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
12 10 0.23
14 14 0.33
15 19 0.44
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (14 bp):
TTCATTTTTTTTTT
Found at i:274 original size:9 final size:9
Alignment explanation
Indices: 258--305 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
248 TTCATTTTAT
258 TTTTTTTCA
1 TTTTTTTCA
*
267 TTTCTTTC-
1 TTTTTTTCA
**
275 TTTTTTTTT
1 TTTTTTTCA
284 TTTTTTTCA
1 TTTTTTTCA
293 TTTTTTTCA
1 TTTTTTTCA
302 TTTT
1 TTTT
306 CATTTTTTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
8 6 0.18
9 27 0.82
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:288 original size:26 final size:26
Alignment explanation
Indices: 238--313 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 26
228 TCTCTTTCTC
238 TTTCTCTTCATTCATTTTATTTTTTTTCA
1 TTTCT-TTCATT--TTTTATTTTTTTTCA
* *
267 TTTCTTTCTTTTTTTTTTTTTTTTCA
1 TTTCTTTCATTTTTTATTTTTTTTCA
* *
293 TTTTTTTCA-TTTTCATTTTTT
1 TTTCTTTCATTTTTTATTTTTT
314 CTTCTCTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 10 0.24
26 21 0.51
28 5 0.12
29 5 0.12
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (26 bp):
TTTCTTTCATTTTTTATTTTTTTTCA
Found at i:494 original size:19 final size:19
Alignment explanation
Indices: 472--508 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
462 TCCTTCCTTT
472 TTTCTCTCTAT-CAATTGTC
1 TTTCTCTC-ATCCAATTGTC
491 TTTCTCTCATCCAATTGT
1 TTTCTCTCATCCAATTGT
509 GTGTGGTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.16, C:0.27, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTCTCTCATCCAATTGTC
Found at i:835 original size:27 final size:27
Alignment explanation
Indices: 774--844 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
764 AAACAAGCCT
* *
774 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
*
802 CTATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGA-AACCA
829 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
845 AATGGTGGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.53
28 17 0.45
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.24
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:2765 original size:21 final size:22
Alignment explanation
Indices: 2727--2772 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2717 ATCTGTTGAA
* **
2727 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTACGGAGTACT
2748 ACTCCACCTGCTACGGAGTACT
1 ACTCCACCTGCTACGGAGTACT
2770 ACT
1 ACT
2773 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTACGGAGTACT
Found at i:5407 original size:27 final size:28
Alignment explanation
Indices: 5351--5416 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 28
5341 AGCCTCTATA
*
5351 TTTGACAAATACAAAAGAAACCACCATT
1 TTTGACAAACACAAAAGAAACCACCATT
*
5379 TTTGACAAACACAAAA-TAACCACCATT
1 TTTGACAAACACAAAAGAAACCACCATT
5406 TTTGACAAACA
1 TTTGACAAACA
5417 AATGGATAGC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 21 0.58
28 15 0.42
ACGTcount: A:0.48, C:0.23, G:0.06, T:0.23
Consensus pattern (28 bp):
TTTGACAAACACAAAAGAAACCACCATT
Found at i:6091 original size:17 final size:17
Alignment explanation
Indices: 6071--6124 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
6061 AATATTTTTT
6071 TATTTTAAATTTAATAA
1 TATTTTAAATTTAATAA
* * * *
6088 TATTTGAGA-TAAATAT
1 TATTTTAAATTTAATAA
*
6104 TATTTTTAATTTAATAA
1 TATTTTAAATTTAATAA
6121 TATT
1 TATT
6125 AAAAATAAAT
Statistics
Matches: 27, Mismatches: 9, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (17 bp):
TATTTTAAATTTAATAA
Found at i:6115 original size:33 final size:33
Alignment explanation
Indices: 6070--6139 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
6060 AAATATTTTT
** *
6070 TTATTTTAAATTTAATAATATTTGAGATAAATA
1 TTATTTTAAATTTAATAATATTAAAAATAAATA
*
6103 TTATTTTTAATTTAATAATATTAAAAATAAATA
1 TTATTTTAAATTTAATAATATTAAAAATAAATA
6136 TTAT
1 TTAT
6140 CGTCAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (33 bp):
TTATTTTAAATTTAATAATATTAAAAATAAATA
Found at i:10554 original size:45 final size:44
Alignment explanation
Indices: 10467--10554 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
10457 TATTTAAATA
*
10467 ATAAAATATAATTTTTTTATTTTTATTTAATTATAAATATTAAT
1 ATAAAATATAATTTTTTTATTTTTATTTAATTACAAATATTAAT
10511 ATAAAA-ATAATTTTTATT-TTTTTAATATTAA-TACAAATAATTAA
1 ATAAAATATAATTTTT-TTATTTTT-AT-TTAATTACAAAT-ATTAA
10555 ACAAACTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
43 14 0.36
44 16 0.41
45 9 0.23
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (44 bp):
ATAAAATATAATTTTTTTATTTTTATTTAATTACAAATATTAAT
Found at i:13447 original size:38 final size:38
Alignment explanation
Indices: 13362--13450 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 38
13352 TAATTGTATT
* *
13362 ATAACTATTTAT--TTAATATAATTGTTGATATTATGAA
1 ATAATTATTTATAATTAATATAATTGTT-ATATAATGAA
*
13399 ATAATTATTTATAATTAATATAATTG-TATTATAATTAA
1 ATAATTATTTATAATTAATATAATTGTTA-TATAATGAA
13437 ATAATTATTTATAA
1 ATAATTATTTATAA
13451 AATTTATCAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
37 12 0.26
38 22 0.48
39 12 0.26
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (38 bp):
ATAATTATTTATAATTAATATAATTGTTATATAATGAA
Found at i:13454 original size:20 final size:18
Alignment explanation
Indices: 13397--13450 Score: 81
Period size: 19 Copynumber: 2.9 Consensus size: 18
13387 TGATATTATG
13397 AAATAATTATTTATAATT
1 AAATAATTATTTATAATT
*
13415 AATATAATTGTATTATAATT
1 AA-ATAATTAT-TTATAATT
13435 AAATAATTATTTATAA
1 AAATAATTATTTATAA
13451 AATTTATCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.25
19 14 0.44
20 10 0.31
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AAATAATTATTTATAATT
Found at i:13467 original size:27 final size:27
Alignment explanation
Indices: 13437--13503 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
13427 TTATAATTAA
*
13437 ATAATTATTTATAAAATTTATCAT-TTT
1 ATAATTATTTATAAAA-TAATCATGTTT
* *
13464 ATAATTATTTTTAAAATAATTATGTTT
1 ATAATTATTTATAAAATAATCATGTTT
13491 ATAATTAATTTAT
1 ATAATT-ATTTAT
13504 TATTTCTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.15
27 24 0.71
28 5 0.15
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (27 bp):
ATAATTATTTATAAAATAATCATGTTT
Found at i:13748 original size:15 final size:17
Alignment explanation
Indices: 13730--13764 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
13720 ATTATTTTTT
13730 ATATTTTT-ATT-TAAA
1 ATATTTTTAATTATAAA
13745 ATATTTTTAATTATAAA
1 ATATTTTTAATTATAAA
13762 ATA
1 ATA
13765 ATAAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 3 0.17
17 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATTTTTAATTATAAA
Found at i:13989 original size:7 final size:7
Alignment explanation
Indices: 13979--14009 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
13969 TTAAAAAATG
13979 AAAAA-A
1 AAAAAGA
13985 AAAAAGA
1 AAAAAGA
13992 AAAAAGA
1 AAAAAGA
13999 AAAAAGA
1 AAAAAGA
14006 AAAA
1 AAAA
14010 TAAAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:13989 original size:13 final size:13
Alignment explanation
Indices: 13971--14017 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
13961 AGAACTAGTT
13971 AAAAAATGAAAAA
1 AAAAAATGAAAAA
13984 AAAAAA-GAAAAA
1 AAAAAATGAAAAA
*
13996 AGAAAAAAGAAAAA
1 A-AAAAATGAAAAA
14010 TAAAAAAT
1 -AAAAAAT
14018 ATATAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 7 0.23
13 11 0.37
14 11 0.37
15 1 0.03
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAAAATGAAAAA
Found at i:13996 original size:14 final size:14
Alignment explanation
Indices: 13979--14016 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
13969 TTAAAAAATG
13979 AAAAAAAAAAAGAA
1 AAAAAAAAAAAGAA
*
13993 AAAAGAAAAAAGAA
1 AAAAAAAAAAAGAA
14007 AAATAAAAAA
1 AAA-AAAAAA
14017 TATATAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:14458 original size:18 final size:17
Alignment explanation
Indices: 14435--14478 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
14425 TTGATAGTAA
*
14435 TTAAAAATAATTTTATAG
1 TTAAAAATAATTTT-GAG
14453 TTAAAAAT-ATTTTGAG
1 TTAAAAATAATTTTGAG
*
14469 TAAAAAATAA
1 TTAAAAATAA
14479 AAGAAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 9 0.39
17 6 0.26
18 8 0.35
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (17 bp):
TTAAAAATAATTTTGAG
Found at i:20207 original size:11 final size:11
Alignment explanation
Indices: 20142--20207 Score: 51
Period size: 11 Copynumber: 5.7 Consensus size: 11
20132 CACGTATATT
20142 TATATTTAATA
1 TATATTTAATA
*
20153 TTTATTTAATA
1 TATATTTAATA
**
20164 TATAAATAATA
1 TATATTTAATA
**
20175 TAATATAAAATA
1 T-ATATTTAATA
*
20187 TTTTTATTTAATA
1 --TATATTTAATA
20200 TATATTTA
1 TATATTTA
20208 TACATATAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
11 26 0.62
12 8 0.19
13 7 0.17
14 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TATATTTAATA
Found at i:20673 original size:25 final size:24
Alignment explanation
Indices: 20645--20707 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 24
20635 TTTAAATTCA
20645 ATAAT-TTTAAATATAATATAAAATT
1 ATAATATTT-AATA-AATATAAAATT
20670 ATAATATTTAATAAATATAAAA--
1 ATAATATTTAATAAATATAAAATT
*
20692 ATAATATATAATAAAT
1 ATAATATTTAATAAAT
20708 TTAATTTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 15 0.42
24 9 0.25
25 9 0.25
26 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATAATATTTAATAAATATAAAATT
Found at i:21857 original size:21 final size:21
Alignment explanation
Indices: 21831--21873 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
21821 ATATCTTTCA
21831 AATATATAAATAT-TTTAATAT
1 AATATATAAATATATTT-ATAT
*
21852 AATATATATATATATTTATAT
1 AATATATAAATATATTTATAT
21873 A
1 A
21874 GAATACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATATAAATATATTTATAT
Found at i:21878 original size:23 final size:21
Alignment explanation
Indices: 21831--21878 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
21821 ATATCTTTCA
*
21831 AATATATAAATATTTTAATAT
1 AATATATAAATATTTTAATAG
*
21852 AATATATATATATATTTATATAG
1 AATATATAAATAT-TTTA-ATAG
21875 AATA
1 AATA
21879 CATTTTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 4 0.17
23 7 0.30
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
AATATATAAATATTTTAATAG
Found at i:22590 original size:16 final size:16
Alignment explanation
Indices: 22544--22590 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
22534 TTTATATTTA
*
22544 AAAT-TAAATATATATT
1 AAATATAAATAT-TTTT
22560 AAATATAAA-ATTTTT
1 AAATATAAATATTTTT
22575 AAATATAAATATTTTT
1 AAATATAAATATTTTT
22591 TTTAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 12 0.43
16 12 0.43
17 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATATAAATATTTTT
Found at i:23671 original size:2 final size:2
Alignment explanation
Indices: 23666--23704 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
23656 GAGAGAAAAT
23666 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23705 GATTACAGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26069 original size:22 final size:22
Alignment explanation
Indices: 26034--26075 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
26024 ATATTTTATT
26034 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATATA
26056 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
26076 CTTTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:30171 original size:2 final size:2
Alignment explanation
Indices: 30164--30201 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
30154 GGTAGCGGAT
30164 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
30202 TATATATATA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:31081 original size:27 final size:26
Alignment explanation
Indices: 31041--31158 Score: 96
Period size: 27 Copynumber: 4.4 Consensus size: 26
31031 TCGATAGAAA
* *
31041 AAATAATACTAAAACATTATAAATACAT
1 AAAT-ATATTAAAA-ATTATAAATATAT
* * *
31069 AAATATTTTAAAATTTATAAAATATAA
1 AAATATATTAAAAATTAT-AAATATAT
* *
31096 AAATAATATTAAAACATTATGAATATAC
1 AAAT-ATATTAAAA-ATTATAAATATAT
* *
31124 AAATATCTTAAAATTTATAAA-ATAT
1 AAATATATTAAAAATTATAAATATAT
31149 AAAT-TATTAA
1 AAATATATTAA
31159 CGTATCAAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 10
0.75 0.14 0.10
Matches are distributed among these distances:
24 5 0.07
25 7 0.10
26 10 0.14
27 25 0.34
28 22 0.30
29 4 0.05
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (26 bp):
AAATATATTAAAAATTATAAATATAT
Found at i:31128 original size:55 final size:55
Alignment explanation
Indices: 31039--31151 Score: 181
Period size: 55 Copynumber: 2.1 Consensus size: 55
31029 AGTCGATAGA
* *
31039 AAAAATAATACTAAAACATTATAAATACATAAATATTTTAAAATTTATAAAATAT
1 AAAAATAATACTAAAACATTATAAATACACAAATATCTTAAAATTTATAAAATAT
* * *
31094 AAAAATAATATTAAAACATTATGAATATACAAATATCTTAAAATTTATAAAATAT
1 AAAAATAATACTAAAACATTATAAATACACAAATATCTTAAAATTTATAAAATAT
31149 AAA
1 AAA
31152 TTATTAACGT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (55 bp):
AAAAATAATACTAAAACATTATAAATACACAAATATCTTAAAATTTATAAAATAT
Found at i:31223 original size:17 final size:16
Alignment explanation
Indices: 31192--31225 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
31182 AAATACTTTA
*
31192 AATATAATTATAATAT
1 AATAAAATTATAATAT
31208 AATAAAATTCATAATAT
1 AATAAAATT-ATAATAT
31225 A
1 A
31226 CATGTATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAAAATTATAATAT
Found at i:34518 original size:15 final size:16
Alignment explanation
Indices: 34479--34537 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
34469 TAAAGCTTCA
*
34479 TAAAAAAATTATTAAAT
1 TAAAAAAATTATT-ATT
*
34496 TATTAAAAATTA-TATT
1 TA-AAAAAATTATTATT
* *
34512 TAAAAAAACTATTTTT
1 TAAAAAAATTATTATT
34528 TAAAAAAATT
1 TAAAAAAATT
34538 TAAAAAAATG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
15 7 0.21
16 16 0.47
17 3 0.09
18 8 0.24
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAAAAAATTATTATT
Found at i:36066 original size:19 final size:18
Alignment explanation
Indices: 36024--36068 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
36014 TTTATAATTA
*
36024 AATTTAAATAAAAATATT
1 AATTTAAATAAAAATAAT
* *
36042 ATTTTAATTAATAAATAAT
1 AATTTAAATAA-AAATAAT
36061 AATTTAAA
1 AATTTAAA
36069 ATTGATCTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AATTTAAATAAAAATAAT
Found at i:37263 original size:2 final size:2
Alignment explanation
Indices: 37256--37290 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
37246 GTTGAAATCT
37256 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
37291 TTCTATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:38254 original size:3 final size:3
Alignment explanation
Indices: 38246--38288 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
38236 ATCACTGCTA
38246 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
38289 TAAAAAAAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:38858 original size:19 final size:22
Alignment explanation
Indices: 38813--38863 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 22
38803 AAAATAAATA
38813 ATTAAAATTTAATAATATTATATT
1 ATTAAAA--TAATAATATTATATT
*
38837 ATTTAAATAATAA-ATT-TA-T
1 ATTAAAATAATAATATTATATT
38856 ATTAAAAT
1 ATTAAAAT
38864 TAATTTGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 8 0.32
20 2 0.08
21 3 0.12
22 6 0.24
24 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTAAAATAATAATATTATATT
Found at i:41188 original size:16 final size:17
Alignment explanation
Indices: 41158--41190 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
41148 AAACTATTTT
*
41158 TAAATTATAATATTTAA
1 TAAATTATAAAATTTAA
41175 TAAATT-TAAAATTTAA
1 TAAATTATAAAATTTAA
41191 ATCTTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATTATAAAATTTAA
Found at i:41251 original size:2 final size:2
Alignment explanation
Indices: 41240--41273 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
41230 TAATCATTTT
41240 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
41274 GTGTGTCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:42792 original size:5 final size:5
Alignment explanation
Indices: 42782--42806 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
42772 TTAAATACTA
42782 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
42807 TCAGAATGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:47733 original size:2 final size:2
Alignment explanation
Indices: 47726--47790 Score: 112
Period size: 2 Copynumber: 32.5 Consensus size: 2
47716 TCGTTTGTGC
*
47726 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC 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 AT
*
47768 AT AT AT AC AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
47791 CCCCTTTGTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:49744 original size:11 final size:11
Alignment explanation
Indices: 49720--49753 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
49710 AATTCCTCTC
*
49720 TTTTC-TTTTC
1 TTTTCTTTTTT
49730 TTTTCTTTTTT
1 TTTTCTTTTTT
49741 TTTTCTTTTTT
1 TTTTCTTTTTT
49752 TT
1 TT
49754 CCTTCTAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:54945 original size:31 final size:31
Alignment explanation
Indices: 54910--54972 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
54900 GGCCAAAGAA
*
54910 AGCCATCAATGAAAACCATTTCTATAGAAGC
1 AGCCATCAATGAAAACCATTTCTATAAAAGC
** *
54941 AGCCATCCGTGAAAACCATTTCTTTAAAAGC
1 AGCCATCAATGAAAACCATTTCTATAAAAGC
54972 A
1 A
54973 ATGTGTACGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.24
Consensus pattern (31 bp):
AGCCATCAATGAAAACCATTTCTATAAAAGC
Found at i:57246 original size:163 final size:163
Alignment explanation
Indices: 56936--57263 Score: 401
Period size: 163 Copynumber: 2.0 Consensus size: 163
56926 TTTGTTTTTC
* * *
56936 ATGGATGGAATTTAAAAATATCTACTCACCCTAAGAATTTCCAAGATAATTTTCATTTACAATTT
1 ATGGATGAAATTAAAAAATATATACTCACCCTAAGAATTTCCAAGATAATTTTCATTTACAATTT
* * * * * * *
57001 TTTAGATAGTAAATTAGATTGGTAAAATTGTTAAGATTTACGGCTATTAACATGCATTTAACTTT
66 TTTAGATAATAAATTA-ATTGGTAAAATTATCAAGATATACAGCAATTAACATGCACTTAACTTT
* *
57066 TCTTAGAACTATTTACAGATTAAATAATTCATTT
130 TATTAGAACTATTTACAGATTAAACAATTCATTT
* * *
57100 ATGGATGAAATTAAAAAATATATATTCACCTTAAGAATTT-CAAGATATTTTTCATTTACAATTT
1 ATGGATGAAATTAAAAAATATATACTCACCCTAAGAATTTCCAAGATAATTTTCATTTACAATTT
* * *
57164 TCTTAGATAATAAATT-ATTGGTAAAATTATCAAGATAATATAGCAATTAACATGTACTTAATTT
66 T-TTAGATAATAAATTAATTGGTAAAATTATCAAGAT-ATACAGCAATTAACATGCACTTAACTT
* * * *
57228 TTATTA-ATTCTGTTTACAGGTTAAACAGTTCATTT
129 TTATTAGA-ACTATTTACAGATTAAACAATTCATTT
57263 A
1 A
57264 ACCTAATATA
Statistics
Matches: 139, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
162 19 0.14
163 72 0.52
164 48 0.35
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (163 bp):
ATGGATGAAATTAAAAAATATATACTCACCCTAAGAATTTCCAAGATAATTTTCATTTACAATTT
TTTAGATAATAAATTAATTGGTAAAATTATCAAGATATACAGCAATTAACATGCACTTAACTTTT
ATTAGAACTATTTACAGATTAAACAATTCATTT
Found at i:60974 original size:30 final size:30
Alignment explanation
Indices: 60914--60970 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
60904 TTATATAAAT
*
60914 ATAAAATATTTTAAATATGATTATTATATG
1 ATAAAATATTATAAATATGATTATTATATG
*
60944 ATAAAATA-TATAAATAT-ATTATGATAT
1 ATAAAATATTATAAATATGATTATTATAT
60971 ATGAATGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.36
29 8 0.32
30 8 0.32
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (30 bp):
ATAAAATATTATAAATATGATTATTATATG
Found at i:61423 original size:2 final size:2
Alignment explanation
Indices: 61416--61453 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
61406 TCATTTGGTC
61416 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
61454 TTTCATTGGT
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:63985 original size:3 final size:3
Alignment explanation
Indices: 63977--64010 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
63967 ACTAGTAACT
*
63977 GAA GAA GAA GGA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
64011 CTATATAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:65155 original size:18 final size:18
Alignment explanation
Indices: 65132--65169 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
65122 CATTTGATAT
*
65132 AAATTTATTTA-ATTTTTA
1 AAATTT-TTTATATATTTA
65150 AAATTTTTTATATATTTA
1 AAATTTTTTATATATTTA
65168 AA
1 AA
65170 GATGTATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
AAATTTTTTATATATTTA
Found at i:65671 original size:13 final size:13
Alignment explanation
Indices: 65653--65678 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65643 CTCAAATATT
65653 TTAAAAATAAATA
1 TTAAAAATAAATA
65666 TTAAAAATAAATA
1 TTAAAAATAAATA
65679 ATTTTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAAAATAAATA
Found at i:65710 original size:31 final size:29
Alignment explanation
Indices: 65646--65706 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
65636 ACTTATACTC
*
65646 AAAT-ATTTTAAAAATAAATATTAAAAAT
1 AAATAATTTTAAAAATAAATATGAAAAAT
*
65674 AAATAATTTTAAAAA-AAATCATGATAAGAT
1 AAATAATTTTAAAAATAAAT-ATGA-AAAAT
65704 AAA
1 AAA
65707 ATAAAGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 8 0.29
29 13 0.46
30 7 0.25
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (29 bp):
AAATAATTTTAAAAATAAATATGAAAAAT
Found at i:67980 original size:20 final size:21
Alignment explanation
Indices: 67950--67995 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
67940 ATATACTAAT
*
67950 AATTT-TTTAATAT-AATTTA
1 AATTTATTTAATATAAAATTA
67969 AATTTATTTAATATAAAATTA
1 AATTTATTTAATATAAAATTA
67990 AATTTA
1 AATTTA
67996 ATGATATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 5 0.21
20 8 0.33
21 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTTATTTAATATAAAATTA
Found at i:68951 original size:23 final size:22
Alignment explanation
Indices: 68912--68957 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
68902 TAGGCACTTG
*
68912 AAAATTAGTTTTGAATTGAATTT
1 AAAATTAATTTTGAATT-AATTT
68935 AAAATTTAATTTT-AATTAATTT
1 AAAA-TTAATTTTGAATTAATTT
68957 A
1 A
68958 TATAAGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 8 0.38
24 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (22 bp):
AAAATTAATTTTGAATTAATTT
Found at i:69330 original size:16 final size:17
Alignment explanation
Indices: 69309--69341 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
69299 TGTCATAATC
*
69309 ATATTTA-ATATATTTT
1 ATATTTATATAGATTTT
69325 ATATTTATATAGATTTT
1 ATATTTATATAGATTTT
69342 TGTATATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATATTTATATAGATTTT
Found at i:70719 original size:16 final size:16
Alignment explanation
Indices: 70681--70724 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
70671 TTATAATTTG
*
70681 TATTATATATTATATTA
1 TATTATAT-TTAAATTA
70698 TATTATATTTAAATTA
1 TATTATATTTAAATTA
* *
70714 TTTTATTTTTA
1 TATTATATTTA
70725 TATAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTATATTTAAATTA
Found at i:70842 original size:38 final size:41
Alignment explanation
Indices: 70772--70855 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 41
70762 AATTAAAAAA
*
70772 ATTATATGTTTATATTATATTTATAATATTTTTCATATCAT
1 ATTATATGTTTATATTATATTTATAATATTTTTAATATCAT
* *
70813 ATTATAT-TTTATATTAT-TTTTTAAT-TTTTTAATATTAT
1 ATTATATGTTTATATTATATTTATAATATTTTTAATATCAT
70851 ATTAT
1 ATTAT
70856 GTAATTTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
38 16 0.40
39 7 0.17
40 10 0.25
41 7 0.17
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (41 bp):
ATTATATGTTTATATTATATTTATAATATTTTTAATATCAT
Found at i:71526 original size:16 final size:16
Alignment explanation
Indices: 71507--71540 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
71497 CTTTCTTTCT
* *
71507 AATTTTCTCTCTTTAA
1 AATTATCTCTCTTGAA
71523 AATTATCTCTCTTGAA
1 AATTATCTCTCTTGAA
71539 AA
1 AA
71541 ATTTGAATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (16 bp):
AATTATCTCTCTTGAA
Found at i:74833 original size:18 final size:19
Alignment explanation
Indices: 74796--74837 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
74786 CCAACTCTTT
* *
74796 TAAATATAATATTTTAAAA
1 TAAAAATAATATTATAAAA
74815 TAAAAATAATA-TATAAAA
1 TAAAAATAATATTATAAAA
74833 TAAAA
1 TAAAA
74838 TTTTTAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAATAATATTATAAAA
Found at i:77882 original size:14 final size:13
Alignment explanation
Indices: 77850--77896 Score: 67
Period size: 14 Copynumber: 3.5 Consensus size: 13
77840 GATTAAAAAT
77850 TATTTAATTATTA
1 TATTTAATTATTA
*
77863 TTTTTAATTATTTA
1 TATTTAATTA-TTA
77877 TATTTAATTCATTA
1 TATTTAATT-ATTA
77891 TATTTA
1 TATTTA
77897 TTGAATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 9 0.30
14 20 0.67
15 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTAATTATTA
Found at i:78388 original size:14 final size:14
Alignment explanation
Indices: 78370--78414 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
78360 TAAATATATG
78370 AATATATTAAAATT
1 AATATATTAAAATT
*
78384 --TATA-TAATATT
1 AATATATTAAAATT
78395 AATATATTAAAATT
1 AATATATTAAAATT
78409 AATATA
1 AATATA
78415 AATATATAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 6 0.23
12 4 0.15
13 4 0.15
14 12 0.46
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATATATTAAAATT
Found at i:78399 original size:25 final size:26
Alignment explanation
Indices: 78365--78476 Score: 88
Period size: 25 Copynumber: 4.2 Consensus size: 26
78355 TGATATAAAT
*
78365 ATATGAATATATTAAA-ATTTATATA
1 ATATTAATATATTAAATATTTATATA
*
78390 ATATTAATATATTAAA-ATTAATATAA
1 ATATTAATATATTAAATATTTATAT-A
*
78416 ATATATAAGT-TTTTAAATATAATTATAATA
1 ATAT-TAA-TATATTAAATAT--TTAT-ATA
*
78446 TATATAAATATA-TAAATATTTATATTA
1 -ATATTAATATATTAAATATTTATA-TA
78473 ATAT
1 ATAT
78477 ATTTATTTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
25 22 0.31
26 10 0.14
27 15 0.21
28 3 0.04
29 8 0.11
30 7 0.10
31 6 0.08
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
ATATTAATATATTAAATATTTATATA
Found at i:78444 original size:6 final size:7
Alignment explanation
Indices: 78384--78478 Score: 57
Period size: 6 Copynumber: 14.7 Consensus size: 7
78374 TATTAAAATT
78384 TATATAA
1 TATATAA
78391 TAT-TAA
1 TATATAA
78397 TATATTAA
1 TATA-TAA
*
78405 AAT-TAA
1 TATATAA
78411 TATA-AA
1 TATATAA
78417 TATATAA
1 TATATAA
* *
78424 GTTTTTAA
1 -TATATAA
78432 -ATATAA
1 TATATAA
78438 T-TATAA
1 TATATAA
78444 TATAT-A
1 TATATAA
*
78450 TAAAT-A
1 TATATAA
78456 TATA-AA
1 TATATAA
*
78462 TAT-TTA
1 TATATAA
78468 TAT-TAA
1 TATATAA
78474 TATAT
1 TATAT
78479 TTATTTTTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 20
0.69 0.10 0.20
Matches are distributed among these distances:
6 49 0.72
7 9 0.13
8 10 0.15
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (7 bp):
TATATAA
Found at i:78475 original size:20 final size:20
Alignment explanation
Indices: 78390--78515 Score: 73
Period size: 20 Copynumber: 6.3 Consensus size: 20
78380 AATTTATATA
*
78390 ATATTAATATATTAAA-ATTA
1 ATATTAATATA-TAAATATTT
* * *
78410 ATATAAATATATAAGTTTTT
1 ATATTAATATATAAATATTT
*
78430 AAATATAAT-TAT-AATA--T
1 ATAT-TAATATATAAATATTT
*
78447 ATATAAATATATAAATATTT
1 ATATTAATATATAAATATTT
** *
78467 ATATTAATATATTTATTTTT
1 ATATTAATATATAAATATTT
* *
78487 ATATTATATTTATCATATATTT
1 ATATTA-ATATAT-AAATATTT
78509 GATATTA
1 -ATATTA
78516 TCGGATACAA
Statistics
Matches: 80, Mismatches: 17, Indels: 15
0.71 0.15 0.13
Matches are distributed among these distances:
16 3 0.04
17 7 0.09
18 4 0.05
19 5 0.06
20 41 0.51
21 8 0.10
22 6 0.08
23 6 0.08
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.51
Consensus pattern (20 bp):
ATATTAATATATAAATATTT
Found at i:78477 original size:8 final size:8
Alignment explanation
Indices: 78357--78479 Score: 60
Period size: 8 Copynumber: 16.6 Consensus size: 8
78347 TTTAAATATG
*
78357 ATATAAAT
1 ATATTAAT
*
78365 ATATGAAT
1 ATATTAAT
*
78373 ATATTAAA
1 ATATTAAT
78381 AT-TTATAT
1 ATATTA-AT
78389 AATATTAAT
1 -ATATTAAT
78398 ATATTAA-
1 ATATTAAT
78405 A-ATTAAT
1 ATATTAAT
78412 ATA--AAT
1 ATATTAAT
78418 ATA-TAAGT
1 ATATTAA-T
*
78426 -TTTTAA-
1 ATATTAAT
78432 ATA-TAAT
1 ATATTAAT
78439 -TA-TAAT
1 ATATTAAT
78445 ATATATAA-
1 ATAT-TAAT
78453 ATATATAA-
1 ATAT-TAAT
78461 ATATT--T
1 ATATTAAT
78467 ATATTAAT
1 ATATTAAT
78475 ATATT
1 ATATT
78480 TATTTTTATA
Statistics
Matches: 93, Mismatches: 6, Indels: 32
0.71 0.05 0.24
Matches are distributed among these distances:
6 25 0.27
7 12 0.13
8 46 0.49
9 7 0.08
10 3 0.03
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (8 bp):
ATATTAAT
Found at i:78765 original size:27 final size:27
Alignment explanation
Indices: 78705--78770 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
78695 ATATCATCTT
78705 TATTAATATAAAAAATTATTGAAAACTAA
1 TATTAATAT-AAAAATTATTGAAAAC-AA
*
78734 T-TTAATTATAAAAATTATTTAAAA-AA
1 TATTAA-TATAAAAATTATTGAAAACAA
78760 TATTAAATATA
1 TATT-AATATA
78771 GATTTAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
26 3 0.09
27 6 0.18
28 20 0.61
29 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (27 bp):
TATTAATATAAAAATTATTGAAAACAA
Found at i:82331 original size:2 final size:2
Alignment explanation
Indices: 82324--82349 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
82314 TAGCTTCTAC
82324 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
82350 TTACAGGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83765 original size:35 final size:35
Alignment explanation
Indices: 83719--83788 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
83709 CATCAAGATA
83719 CTAGCCAAACGTGTTTTGTTTTCCCAAAATCGGAT
1 CTAGCCAAACGTGTTTTGTTTTCCCAAAATCGGAT
*
83754 CTAGCCAAACGTGTTTTGTTTTTCCAAAATCGGAT
1 CTAGCCAAACGTGTTTTGTTTTCCCAAAATCGGAT
83789 TAACCAGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (35 bp):
CTAGCCAAACGTGTTTTGTTTTCCCAAAATCGGAT
Found at i:87416 original size:2 final size:2
Alignment explanation
Indices: 87411--87438 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
87401 ATTATGTATT
87411 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
87439 AATCAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87863 original size:16 final size:17
Alignment explanation
Indices: 87842--87882 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
87832 ATATAACTAG
87842 AAAATATAATTTT-TTA
1 AAAATATAATTTTATTA
87858 AAAATAT-ATTTTATTA
1 AAAATATAATTTTATTA
87874 AAAA-ATAAT
1 AAAATATAAT
87883 AAATAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATATAATTTTATTA
Found at i:87901 original size:11 final size:11
Alignment explanation
Indices: 87872--87904 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
87862 TATATTTTAT
87872 TAAAAAATA-A
1 TAAAAAATATA
87882 TAAATAAATATA
1 TAAA-AAATATA
87894 TAAAAAATATA
1 TAAAAAATATA
87905 AGTATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.19
11 12 0.57
12 5 0.24
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAAAAATATA
Found at i:88017 original size:14 final size:14
Alignment explanation
Indices: 88000--88037 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
87990 TATATAATAC
88000 TTTTAATATTATTA
1 TTTTAATATTATTA
*
88014 TTTTAAT-TATATTT
1 TTTTAATAT-TATTA
88028 TTTTAATATT
1 TTTTAATATT
88038 TTTAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTAATATTATTA
Found at i:88033 original size:28 final size:29
Alignment explanation
Indices: 88000--88056 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
87990 TATATAATAC
* *
88000 TTTTAATATTATTATTTTAATT-ATATTT
1 TTTTAATATTATTAATTAAATTAATATTT
*
88028 TTTTAATATTTTTAATTAAATTAATATTT
1 TTTTAATATTATTAATTAAATTAATATTT
88057 GATTAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTTAATATTATTAATTAAATTAATATTT
Found at i:90058 original size:27 final size:26
Alignment explanation
Indices: 89980--90058 Score: 61
Period size: 27 Copynumber: 3.0 Consensus size: 26
89970 AATTGAAAAA
*
89980 AAAAATTAAGTATTAGATTTAA-TATT
1 AAAAATTAAGTATTA-AATTAATTATT
** * * **
90006 AAATTTATAAGCATTGAATTTGTTATT
1 AAAAAT-TAAGTATTAAATTAATTATT
90033 AAAAATTAAGTATTAAATATAATTAT
1 AAAAATTAAGTATTAAAT-TAATTAT
90059 ATTATTTGAT
Statistics
Matches: 37, Mismatches: 13, Indels: 5
0.67 0.24 0.09
Matches are distributed among these distances:
26 17 0.46
27 20 0.54
ACGTcount: A:0.48, C:0.01, G:0.08, T:0.43
Consensus pattern (26 bp):
AAAAATTAAGTATTAAATTAATTATT
Found at i:90332 original size:21 final size:23
Alignment explanation
Indices: 90308--90352 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
90298 AAAATTAAAT
90308 TATTAAA-AT-TTTTTAATATAA
1 TATTAAATATATTTTTAATATAA
*
90329 TATTAAATATATTTTTAATCTAA
1 TATTAAATATATTTTTAATATAA
90352 T
1 T
90353 TAATTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 2 0.10
23 12 0.57
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAAATATATTTTTAATATAA
Found at i:91003 original size:18 final size:18
Alignment explanation
Indices: 90980--91020 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
90970 AATTTTACTT
* * *
90980 TATAAATATATTATAATA
1 TATAAATAAATTACAAAA
90998 TATAAATAAATTACAAAA
1 TATAAATAAATTACAAAA
91016 TATAA
1 TATAA
91021 TGTTTAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
TATAAATAAATTACAAAA
Found at i:91213 original size:14 final size:14
Alignment explanation
Indices: 91194--91243 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
91184 ATTATTGTGA
91194 ATTTATATATATAT
1 ATTTATATATATAT
*
91208 ATTTATATTTATAT
1 ATTTATATATATAT
91222 ATTTAT-TATATTAT
1 ATTTATATATA-TAT
*
91236 AATTATAT
1 ATTTATAT
91244 TTAAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 3 0.10
14 27 0.87
15 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTTATATATATAT
Found at i:91379 original size:12 final size:14
Alignment explanation
Indices: 91196--91372 Score: 59
Period size: 15 Copynumber: 12.6 Consensus size: 14
91186 TATTGTGAAT
* *
91196 TTATATATATATAT
1 TTATATTTATATAA
91210 TTATATTTATAT-A
1 TTATATTTATATAA
91223 TT-TATTATATTATAA
1 TTATATT-TA-TATAA
* *
91238 TTATATTTAAAAAAA
1 TTATATTT-ATATAA
91253 TTAT-TTTATATAA
1 TTATATTTATATAA
91266 --AT-TTTA-ATATA
1 TTATATTTATATA-A
91277 TTAATAATTTATATAA
1 TT-AT-ATTTATATAA
* *
91293 --ATATTTTTAAAA
1 TTATATTTATATAA
* * * *
91305 TATACACTTATGTTA
1 T-TATATTTATATAA
* *
91320 TGT-TATATATAAATA
1 T-TATATTTATATA-A
* * *
91335 TTTTATATATATATG
1 TTATATTTATATA-A
91350 TTATATTTATATAA
1 TTATATTTATATAA
91364 TTATATTTA
1 TTATATTTA
91373 AAATTATTAA
Statistics
Matches: 120, Mismatches: 26, Indels: 34
0.67 0.14 0.19
Matches are distributed among these distances:
10 3 0.03
11 7 0.06
12 12 0.10
13 10 0.08
14 33 0.28
15 42 0.35
16 10 0.08
17 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (14 bp):
TTATATTTATATAA
Found at i:92431 original size:21 final size:21
Alignment explanation
Indices: 92385--92445 Score: 52
Period size: 21 Copynumber: 2.8 Consensus size: 21
92375 ATGTAATTTT
*
92385 TTATT-TTTAATATTTTTTAA
1 TTATTATTTAATATTTATTAA
** *
92405 AAATTATTTTATATTTATTAA
1 TTATTATTTAATATTTATTAA
92426 TTATTAAATTTAAATATTTA
1 TTATT--ATTT-AATATTTA
92446 ATTTTTTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 3 0.10
21 16 0.53
23 4 0.13
24 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTATTTAATATTTATTAA
Found at i:92432 original size:28 final size:27
Alignment explanation
Indices: 92379--92433 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
92369 AATTTTATGT
* * *
92379 AATTTTTTATTTTTAATATTTTTTAAA
1 AATTTTTTATATTTAATAATTATTAAA
*
92406 AATTATTTTATATTTATTAATTATTAAA
1 AATT-TTTTATATTTAATAATTATTAAA
92434 TTTAAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
AATTTTTTATATTTAATAATTATTAAA
Found at i:92557 original size:14 final size:14
Alignment explanation
Indices: 92538--92567 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
92528 AAAATAAATA
92538 AAAATTCAAATTTT
1 AAAATTCAAATTTT
*
92552 AAAATTTAAATTTT
1 AAAATTCAAATTTT
92566 AA
1 AA
92568 TTAAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAATTCAAATTTT
Found at i:98728 original size:7 final size:7
Alignment explanation
Indices: 98716--98755 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
98706 ATATAACACG
98716 TATAAAA
1 TATAAAA
98723 TATAAAA
1 TATAAAA
98730 TATAAAA
1 TATAAAA
98737 TATAAAA
1 TATAAAA
*
98744 TATATAA
1 TATAAAA
98751 TATAA
1 TATAA
98756 TATAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (7 bp):
TATAAAA
Found at i:98780 original size:32 final size:31
Alignment explanation
Indices: 98732--98820 Score: 98
Period size: 32 Copynumber: 2.9 Consensus size: 31
98722 ATATAAAATA
98732 TAAAATA-TAAAA--TATATAATATAAT-A-
1 TAAAATATTAAAATCTATATAATATAATAAC
98758 TAAATATATCTCAAAATCTATATAATATGAATAAC
1 TAAA-ATAT-T-AAAATCTATATAATAT-AATAAC
98793 TAAAATATTAAAATCTATATAAATATAA
1 TAAAATATTAAAATCTATAT-AATATAA
98821 AAAAAAAATT
Statistics
Matches: 53, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
26 4 0.08
27 3 0.06
29 1 0.02
30 4 0.08
32 23 0.43
33 9 0.17
34 5 0.09
35 4 0.08
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (31 bp):
TAAAATATTAAAATCTATATAATATAATAAC
Found at i:102000 original size:20 final size:19
Alignment explanation
Indices: 101975--102069 Score: 90
Period size: 20 Copynumber: 4.9 Consensus size: 19
101965 TAAAATAAAA
* *
101975 AATTTAAATATAAATATGT
1 AATTTTAATATAAATATAT
101994 AATTTTAATAATAAATA-AT
1 AATTTTAAT-ATAAATATAT
*
102013 AAATATTTAATAAAAATATAT
1 -AAT-TTTAATATAAATATAT
102034 -A-TTTAAT-TAAATAATAT
1 AATTTTAATATAAAT-ATAT
102051 AATTTTTAATATAAATATA
1 AA-TTTTAATATAAATATA
102070 AAAAGTTCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
16 4 0.06
17 10 0.16
18 1 0.02
19 10 0.16
20 25 0.40
21 13 0.21
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (19 bp):
AATTTTAATATAAATATAT
Found at i:102035 original size:17 final size:18
Alignment explanation
Indices: 102002--102061 Score: 77
Period size: 17 Copynumber: 3.3 Consensus size: 18
101992 GTAATTTTAA
*
102002 TAATAAATAATAAATATT
1 TAATAAATAATATATATT
102020 TAATAAA-AATATATATT
1 TAATAAATAATATATATT
*
102037 TAATTAAATAATATAATTTT
1 TAA-TAAATAATAT-ATATT
102057 TAATA
1 TAATA
102062 TAAATATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
17 12 0.32
18 11 0.30
19 7 0.19
20 7 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAAATAATATATATT
Found at i:102854 original size:21 final size:21
Alignment explanation
Indices: 102822--102861 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
102812 TAATATACAA
*
102822 ATAAAATGTTAAATATAAATT
1 ATAAAATGTTAAACATAAATT
102843 ATAAATAT-TTAAACATAAA
1 ATAAA-ATGTTAAACATAAA
102862 AATTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
ATAAAATGTTAAACATAAATT
Found at i:104175 original size:19 final size:19
Alignment explanation
Indices: 104151--104197 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
104141 CGATTCGATC
*
104151 AAATTTTATTTAAAATAAT
1 AAATTTTAATTAAAATAAT
104170 AAATTTTAATTAAAATAAT
1 AAATTTTAATTAAAATAAT
*
104189 ATATTTTAA
1 AAATTTTAA
104198 ATTATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATTTTAATTAAAATAAT
Found at i:105288 original size:29 final size:29
Alignment explanation
Indices: 105174--105288 Score: 78
Period size: 27 Copynumber: 3.9 Consensus size: 29
105164 AAATATAATC
* **
105174 ATAATAATTTATTTTTAA-TATAAATTTA
1 ATAATAATATATTTTTAATTATTTATTTA
* * *
105202 A-ATTTAATA-CTTTTTAATTA-TTATTCA
1 ATA-ATAATATATTTTTAATTATTTATTTA
105229 AT-ATAAGTATAATTTATTTATATTATATTATTTA
1 ATAATAA-TAT-A-TT-TTTA-ATTAT-TTATTTA
105263 ATAATAATATATTTTTAATTATTTAT
1 ATAATAATATATTTTTAATTATTTAT
105289 CATATATACA
Statistics
Matches: 66, Mismatches: 9, Indels: 23
0.67 0.09 0.23
Matches are distributed among these distances:
26 3 0.05
27 15 0.23
28 7 0.11
29 4 0.06
30 7 0.11
31 8 0.12
32 6 0.09
33 1 0.02
34 11 0.17
35 4 0.06
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.56
Consensus pattern (29 bp):
ATAATAATATATTTTTAATTATTTATTTA
Found at i:105594 original size:24 final size:25
Alignment explanation
Indices: 105544--105594 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
105534 AAATAATTTA
*
105544 AAATTATTAAAATTATATTTATATT
1 AAATAATTAAAATTATATTTATATT
*
105569 AAATAATTAAAATT-TATTTATGTT
1 AAATAATTAAAATTATATTTATATT
105593 AA
1 AA
105595 GTAAAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
AAATAATTAAAATTATATTTATATT
Found at i:105663 original size:24 final size:24
Alignment explanation
Indices: 105636--105690 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
105626 TTATGTTAAA
105636 AAATAAATTCATAAAA-T-AAAAATT
1 AAATAAATT--TAAAATTAAAAAATT
105660 AAAT-AATTTAAAATTTAAAAAATT
1 AAATAAATTTAAAA-TTAAAAAATT
105684 AAATAAA
1 AAATAAA
105691 ATTTGCAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
21 5 0.19
23 5 0.19
24 15 0.56
25 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (24 bp):
AAATAAATTTAAAATTAAAAAATT
Found at i:108513 original size:14 final size:14
Alignment explanation
Indices: 108494--108528 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
108484 CATAATTCAA
108494 AATTATATT-TAATT
1 AATTATATTATAA-T
108508 AATTATATTATAAT
1 AATTATATTATAAT
108522 AATTATA
1 AATTATA
108529 AATAATATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 17 0.85
15 3 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
AATTATATTATAAT
Found at i:108745 original size:27 final size:29
Alignment explanation
Indices: 108680--108745 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 29
108670 AGTCATTTCC
* *
108680 TAAACGTTATTTTTTATGTTTATATTATTT
1 TAAAAGTTA-TTTTTATGTTTATATAATTT
*
108710 TAATA-TTATTTTTAT-TTTATA-AATTT
1 TAAAAGTTATTTTTATGTTTATATAATTT
108736 TAAAAGTTAT
1 TAAAAGTTAT
108746 ACAAAAACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
26 8 0.26
27 10 0.32
28 7 0.23
29 3 0.10
30 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.61
Consensus pattern (29 bp):
TAAAAGTTATTTTTATGTTTATATAATTT
Found at i:109864 original size:21 final size:21
Alignment explanation
Indices: 109838--109877 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
109828 TTTATTAAAA
109838 ATATTTTAT-ATTAATATTTTT
1 ATATTTTATAATTAA-ATTTTT
109859 ATATTTTATAATTAAATTT
1 ATATTTTATAATTAAATTT
109878 AAATAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATTTTATAATTAAATTTTT
Found at i:110103 original size:40 final size:40
Alignment explanation
Indices: 110062--110135 Score: 109
Period size: 38 Copynumber: 1.9 Consensus size: 40
110052 TGAATAATAA
110062 AAAATTAAATATT-TGAT-ATT-ATTTAAATTATTATTTAT
1 AAAATTAAATATTAT-ATAATTAATTTAAATTATTATTTAT
*
110100 AAAATTAAATATTATATAATTAATTTAAATTTTTAT
1 AAAATTAAATATTATATAATTAATTTAAATTATTAT
110136 ATTTATTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
38 15 0.47
39 4 0.12
40 13 0.41
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (40 bp):
AAAATTAAATATTATATAATTAATTTAAATTATTATTTAT
Found at i:110124 original size:19 final size:19
Alignment explanation
Indices: 110064--110129 Score: 50
Period size: 20 Copynumber: 3.4 Consensus size: 19
110054 AATAATAAAA
110064 AATTAAATATT-TGAT-ATT
1 AATTAAATATTAT-ATAATT
*
110082 ATTTAAATTATTATTTATAA--
1 AATTAAA-TATTA--TATAATT
110102 AATTAAATATTATATAATT
1 AATTAAATATTATATAATT
110121 AATTTAAAT
1 AA-TTAAAT
110130 TTTTATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
17 5 0.13
18 6 0.16
19 11 0.29
20 12 0.32
21 2 0.05
22 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
AATTAAATATTATATAATT
Found at i:110595 original size:16 final size:17
Alignment explanation
Indices: 110571--110603 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
110561 AACCAATTTT
110571 TTTAATATTTA-ATATA
1 TTTAATATTTAGATATA
*
110587 TTTATTATTTAGATATA
1 TTTAATATTTAGATATA
110604 CTAATAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTTAATATTTAGATATA
Found at i:110762 original size:22 final size:23
Alignment explanation
Indices: 110710--110763 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
110700 TAATCAAATC
*
110710 AATCATTTAATTATTATTATTAA
1 AATCAATTAATTATTATTATTAA
* *
110733 AGTCAATTAATTTTTA-TATTAA
1 AATCAATTAATTATTATTATTAA
*
110755 AATTAATTA
1 AATCAATTA
110764 TTTAATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (23 bp):
AATCAATTAATTATTATTATTAA
Found at i:111253 original size:13 final size:12
Alignment explanation
Indices: 111227--111261 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
111217 CATATTTTAT
111227 AAAAAA-TTAAA
1 AAAAAATTTAAA
*
111238 AAAATATTTAAA
1 AAAAAATTTAAA
111250 AAAAAATTTAAA
1 AAAAAATTTAAA
111262 TTGAATTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAAAATTTAAA
Found at i:115802 original size:20 final size:21
Alignment explanation
Indices: 115777--115830 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
115767 TTAAGCTTAA
115777 GTATTGATACATTCAATAA-G
1 GTATTGATACATTCAATAACG
** * *
115797 GTATTGATATTTTCATTAACT
1 GTATTGATACATTCAATAACG
115818 GTATTGATACATT
1 GTATTGATACATT
115831 TTGAATTTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.44
Consensus pattern (21 bp):
GTATTGATACATTCAATAACG
Found at i:115954 original size:18 final size:16
Alignment explanation
Indices: 115916--115946 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
115906 TTTTTTTACT
115916 TTAAAAATATCTTATA
1 TTAAAAATATCTTATA
*
115932 TTAAAAATATTTTAT
1 TTAAAAATATCTTAT
115947 GCATTAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAAAATATCTTATA
Found at i:116253 original size:111 final size:111
Alignment explanation
Indices: 116057--116260 Score: 318
Period size: 111 Copynumber: 1.8 Consensus size: 111
116047 AAATACTAAG
* *
116057 TTAAAAATATTTAATTATAATTTAATTAAACTTAAGTTTTCATTATATTAGAACCAAAATCAATT
1 TTAAAAATATTTAAATATAATTTAATTAAACTTAAGTTTTCATTATATTAAAACCAAAATCAATT
* *
116122 AAAATCTAAGATTACTAACAACCTAACTTGAACCTAATCCGACCTA
66 AAAATATAAGATTACGAACAACCTAACTTGAACCTAATCCGACCTA
* **
116168 TTAAAAATATTTAAATATAATTTAATTAAACTTAAGTTTTCGTTATATTAAAATTAAAATCAATT
1 TTAAAAATATTTAAATATAATTTAATTAAACTTAAGTTTTCATTATATTAAAACCAAAATCAATT
* * *
116233 GAAATATAATATTACGAACAACTTAACT
66 AAAATATAAGATTACGAACAACCTAACT
116261 CAAATCTAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
111 83 1.00
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (111 bp):
TTAAAAATATTTAAATATAATTTAATTAAACTTAAGTTTTCATTATATTAAAACCAAAATCAATT
AAAATATAAGATTACGAACAACCTAACTTGAACCTAATCCGACCTA
Found at i:116755 original size:20 final size:20
Alignment explanation
Indices: 116732--116779 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
116722 TATCAAATGT
116732 ATGTAAAATAAATTATTAAC
1 ATGTAAAATAAATTATTAAC
*
116752 ATGTAAAATGAATTATTAAC
1 ATGTAAAATAAATTATTAAC
*
116772 ACGTAAAA
1 ATGTAAAA
116780 ATTTATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.31
Consensus pattern (20 bp):
ATGTAAAATAAATTATTAAC
Found at i:116782 original size:17 final size:18
Alignment explanation
Indices: 116741--116785 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
116731 TATGTAAAAT
*
116741 AAATTATTAACATGTAAA
1 AAATTATTAACACGTAAA
116759 ATGAATTATTAACACGTAAA
1 A--AATTATTAACACGTAAA
*
116779 AATTTAT
1 AAATTAT
116786 ATTAACACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 6 0.26
20 17 0.74
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (18 bp):
AAATTATTAACACGTAAA
Found at i:117391 original size:2 final size:2
Alignment explanation
Indices: 117384--117418 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
117374 TGAGAGGTCA
117384 AT AT AT 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 AT AT AT A
117419 ATGTAACCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:117859 original size:2 final size:2
Alignment explanation
Indices: 117852--117876 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
117842 GTAGACTTTA
117852 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 A
117877 ATTATCACAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:118715 original size:20 final size:21
Alignment explanation
Indices: 118690--118734 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
118680 TGATATGTTA
118690 TATAATTAAAA-ATTAAAA-AT
1 TATAA-TAAAATATTAAAATAT
118710 TATAATAAAATATTAAAATAT
1 TATAATAAAATATTAAAATAT
118731 TATA
1 TATA
118735 TAATTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.22
20 12 0.52
21 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TATAATAAAATATTAAAATAT
Found at i:118761 original size:10 final size:9
Alignment explanation
Indices: 118710--118801 Score: 59
Period size: 10 Copynumber: 10.0 Consensus size: 9
118700 AATTAAAAAT
*
118710 TATAATAAA
1 TATATTAAA
118719 -ATATTAAA
1 TATATTAAA
*
118727 -ATATTATA
1 TATATTAAA
118735 TA-ATT--A
1 TATATTAAA
*
118741 TATAATAAA
1 TATATTAAA
118750 TATATTACAA
1 TATATTA-AA
118760 TATATTTAAA
1 TATA-TTAAA
118770 TATAATTAATA
1 TAT-ATTAA-A
118781 TATATTATAA
1 TATATTA-AA
118791 TCATATATAAA
1 T-ATAT-TAAA
118802 ATTTTAACTA
Statistics
Matches: 68, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
6 3 0.04
7 2 0.03
8 17 0.25
9 8 0.12
10 21 0.31
11 15 0.22
12 2 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.42
Consensus pattern (9 bp):
TATATTAAA
Found at i:118780 original size:19 final size:19
Alignment explanation
Indices: 118732--118785 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
118722 TTAAAATATT
118732 ATATAATT-ATATA-ATAA
1 ATATAATTAATATATATAA
*
118749 ATAT-ATTACAATATATTTAA
1 ATATAATT--AATATATATAA
118769 ATATAATTAATATATAT
1 ATATAATTAATATATAT
118786 TATAATCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
16 3 0.10
17 4 0.13
19 13 0.43
20 7 0.23
21 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATAATTAATATATATAA
Found at i:119071 original size:11 final size:12
Alignment explanation
Indices: 119057--119110 Score: 60
Period size: 11 Copynumber: 4.7 Consensus size: 12
119047 AATATAATTT
119057 ATTAT-TTTATA
1 ATTATATTTATA
119068 ATTATATTTA-A
1 ATTATATTTATA
*
119079 AATAT-TTTATA
1 ATTATATTTATA
*
119090 ATTATATTAATA
1 ATTATATTTATA
119102 ATTCATATT
1 ATT-ATATT
119111 ATATTTTAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 4 0.11
11 15 0.42
12 12 0.33
13 5 0.14
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTATATTTATA
Found at i:119481 original size:19 final size:19
Alignment explanation
Indices: 119451--119511 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
119441 AATAATTATT
119451 ATAATATTAATAAAATATAA
1 ATAAT-TTAATAAAATATAA
* *
119471 ATAATTTAAT-AATTTTAA
1 ATAATTTAATAAAATATAA
119489 ATATATTTAA-AAAATATAA
1 ATA-ATTTAATAAAATATAA
119508 ATAA
1 ATAA
119512 ATATAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 10 0.29
19 20 0.57
20 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATAATTTAATAAAATATAA
Found at i:119495 original size:37 final size:37
Alignment explanation
Indices: 119425--119511 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 37
119415 TTTTATGCTC
*
119425 AAAAAATA-ATAATAA--TAATAATTATTATAATA-TT
1 AAAAAATATA-AATAATTTAATAATTATTAAAATATTT
119459 AATAAAATATAAATAATTTAATAATT-TTAAATATATTT
1 AA-AAAATATAAATAATTTAATAATTATTAAA-ATATTT
119497 AAAAAATATAAATAA
1 AAAAAATATAAATAA
119512 ATATAATTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
34 2 0.04
35 11 0.24
36 5 0.11
37 24 0.52
38 4 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (37 bp):
AAAAAATATAAATAATTTAATAATTATTAAAATATTT
Found at i:119710 original size:35 final size:35
Alignment explanation
Indices: 119671--119741 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 35
119661 ATTCTATATG
*
119671 AATATTTTAATAT-ATTAAAATT-TATATAAAAATAA
1 AATATTTAAATATAATT-AAATTATA-ATAAAAATAA
*
119706 AATATTTAAATATAATTATATTATAATAAAAATAA
1 AATATTTAAATATAATTAAATTATAATAAAAATAA
119741 A
1 A
119742 TAAATAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 27 0.84
36 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (35 bp):
AATATTTAAATATAATTAAATTATAATAAAAATAA
Found at i:119752 original size:35 final size:34
Alignment explanation
Indices: 119692--119760 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
119682 ATATTAAAAT
* * *
119692 TTATATAAAAATAAAATATTTAAATATAATTATA
1 TTATATAAAAATAAAATAATAAAATATAAATATA
119726 TTATAATAAAAAT-AAATAAATAAAATATAAATATA
1 TTAT-ATAAAAATAAAAT-AATAAAATATAAATATA
119761 AGAATATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 8 0.27
35 22 0.73
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (34 bp):
TTATATAAAAATAAAATAATAAAATATAAATATA
Found at i:120031 original size:2 final size:2
Alignment explanation
Indices: 120024--120052 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
120014 ATCGTGTAAT
120024 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
120053 TCAGCCAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:121951 original size:20 final size:18
Alignment explanation
Indices: 121914--121956 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
121904 TTAATTTGAG
*
121914 TTTTAAAATTTTTAAATT
1 TTTTAAAATTTTGAAATT
*
121932 ATTTTTAAATTTTGATAATT
1 -TTTTAAAATTTTGA-AATT
121952 TTTTA
1 TTTTA
121957 TTTGAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTAAAATTTTGAAATT
Found at i:123442 original size:32 final size:32
Alignment explanation
Indices: 123402--123462 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
123392 AAGAAAATAT
*
123402 TAATAATATATTGATTTATACCAACATATCAC
1 TAATAATATATAGATTTATACCAACATATCAC
123434 TAATAATATATAGATTTATACCAACATAT
1 TAATAATATATAGATTTATACCAACATAT
123463 TTACTTGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (32 bp):
TAATAATATATAGATTTATACCAACATATCAC
Found at i:124041 original size:15 final size:17
Alignment explanation
Indices: 124011--124051 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
124001 AAATTATGAT
*
124011 ATTTGATTTATTATT-A
1 ATTTAATTTATTATTAA
*
124027 GTTTAATTT-TTATTAA
1 ATTTAATTTATTATTAA
124043 ATTTAATTT
1 ATTTAATTT
124052 GATTTTGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
ATTTAATTTATTATTAA
Found at i:125764 original size:24 final size:23
Alignment explanation
Indices: 125736--125784 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
125726 CATGATAGAA
*
125736 TATGTTTAATATATATATTATATT
1 TATGTTTAATAT-TATAATATATT
*
125760 TATGTTTAATATTTTAATATATT
1 TATGTTTAATATTATAATATATT
125783 TA
1 TA
125785 AAAATTTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (23 bp):
TATGTTTAATATTATAATATATT
Found at i:127819 original size:19 final size:18
Alignment explanation
Indices: 127795--127836 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 18
127785 TAAAATTAAG
127795 ATAATATAAA-TATATGAAT
1 ATAATA-AAACTATAT-AAT
127814 ATAATAAAATCTATATAAT
1 ATAATAAAA-CTATATAAT
127833 ATAA
1 ATAA
127837 ATTATTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 3 0.14
19 13 0.62
20 5 0.24
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
ATAATAAAACTATATAAT
Found at i:128767 original size:13 final size:14
Alignment explanation
Indices: 128746--128783 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
128736 TATCATAAAA
128746 ATATAAATATT-TT
1 ATATAAATATTGTT
*
128759 ATATTAATATTGTT
1 ATATAAATATTGTT
*
128773 AAATAAATATT
1 ATATAAATATT
128784 AACATTACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
ATATAAATATTGTT
Found at i:129756 original size:14 final size:13
Alignment explanation
Indices: 129715--129757 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
129705 AATTATAATT
* *
129715 AAATATATATTGA
1 AAATAAATATTAA
*
129728 ATATAAATATTAA
1 AAATAAATATTAA
129741 AAATAAATATTTAA
1 AAATAAATA-TTAA
129755 AAA
1 AAA
129758 CATTAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 18 0.72
14 7 0.28
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (13 bp):
AAATAAATATTAA
Found at i:130208 original size:20 final size:21
Alignment explanation
Indices: 130180--130222 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
130170 CATTAATTTT
130180 TTAAAAAAAATT-ATTTTTAA
1 TTAAAAAAAATTAATTTTTAA
* *
130200 TTAATAAAATTTAAATTTTTAA
1 TTAAAAAAAATT-AATTTTTAA
130222 T
1 T
130223 ATTTTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAAAAAAAATTAATTTTTAA
Found at i:130654 original size:25 final size:25
Alignment explanation
Indices: 130608--130655 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
130598 TAGATAAAGA
* *
130608 TTAAATTTAAATAATTATTTTATCT
1 TTAAATTTAAATAATAAATTTATCT
130633 TTAAA-TTAAATAATAAAATTTAT
1 TTAAATTTAAATAAT-AAATTTAT
130656 AAAATTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
TTAAATTTAAATAATAAATTTATCT
Done.