Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold282
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: 1446459
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 1 of 10
Found at i:1703 original size:13 final size:13
Alignment explanation
Indices: 1685--1710 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1675 CTAATTTTTG
1685 TGTATCGATACAT
1 TGTATCGATACAT
1698 TGTATCGATACAT
1 TGTATCGATACAT
1711 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4295 original size:22 final size:22
Alignment explanation
Indices: 4268--4323 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
4258 TTACAAGTTG
4268 AAATAAAGAACTTGGCTAATG-A
1 AAATAAAGAACTTGGCTAA-GAA
* *
4290 AAATAATGAA-TTAGCTAAGAA
1 AAATAAAGAACTTGGCTAAGAA
4311 AAATAAA-AACTTG
1 AAATAAAGAACTTG
4324 CATGATTCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 3 0.11
21 16 0.57
22 9 0.32
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
AAATAAAGAACTTGGCTAAGAA
Found at i:8230 original size:20 final size:20
Alignment explanation
Indices: 8205--8291 Score: 89
Period size: 20 Copynumber: 4.6 Consensus size: 20
8195 GGAAATTCAA
8205 TGTATCGATACATTTTTCTT
1 TGTATCGATACATTTTTCTT
8225 TGTATCGATACA-------T
1 TGTATCGATACATTTTTCTT
8238 TGTATCGATACATTTTTCTT
1 TGTATCGATACATTTTTCTT
* *
8258 TGTATCGATACATTGTATACAT
1 TGTATCGATACATT-T-TTCTT
8280 TGTATCGATACA
1 TGTATCGATACA
8292 GGGTGATTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
13 13 0.23
20 27 0.48
21 1 0.02
22 15 0.27
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (20 bp):
TGTATCGATACATTTTTCTT
Found at i:8242 original size:13 final size:13
Alignment explanation
Indices: 8224--8291 Score: 57
Period size: 13 Copynumber: 6.0 Consensus size: 13
8214 ACATTTTTCT
8224 TTGTATCGATACA
1 TTGTATCGATACA
8237 TTGTATCGATACA
1 TTGTATCGATACA
*
8250 TT-T-T---T-CT
1 TTGTATCGATACA
8257 TTGTATCGATACA
1 TTGTATCGATACA
8270 TTG--T--ATACA
1 TTGTATCGATACA
8279 TTGTATCGATACA
1 TTGTATCGATACA
8292 GGGTGATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 20
0.66 0.03 0.31
Matches are distributed among these distances:
7 3 0.07
8 2 0.05
9 9 0.21
11 3 0.07
12 2 0.05
13 24 0.56
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:8247 original size:33 final size:33
Alignment explanation
Indices: 8205--8275 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
8195 GGAAATTCAA
8205 TGTATCGATACATTTTTCTTTGTATCGATACAT
1 TGTATCGATACATTTTTCTTTGTATCGATACAT
8238 TGTATCGATACATTTTTCTTTGTATCGATACAT
1 TGTATCGATACATTTTTCTTTGTATCGATACAT
8271 TGTAT
1 TGTAT
8276 ACATTGTATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.24, C:0.14, G:0.13, T:0.49
Consensus pattern (33 bp):
TGTATCGATACATTTTTCTTTGTATCGATACAT
Found at i:10870 original size:13 final size:13
Alignment explanation
Indices: 10852--10877 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10842 TACACCAAGT
10852 ATGTATCGATACA
1 ATGTATCGATACA
10865 ATGTATCGATACA
1 ATGTATCGATACA
10878 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:10874 original size:32 final size:33
Alignment explanation
Indices: 10833--10897 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
10823 GTAGCCAAAC
* **
10833 ATGTATCGATACACCAAGTA-TGTATCGATACA
1 ATGTATCGATACACAAAAAATTGTATCGATACA
10865 ATGTATCGATACACAAAAAATTGTATCGATACA
1 ATGTATCGATACACAAAAAATTGTATCGATACA
10898 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACACAAAAAATTGTATCGATACA
Found at i:12542 original size:13 final size:13
Alignment explanation
Indices: 12504--12542 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
12494 CATCATTCTT
*
12504 TGTATCGATACAA
1 TGTATCGATACAG
12517 TGTATCGATACAG
1 TGTATCGATACAG
12530 TGTATCGATACAG
1 TGTATCGATACAG
12543 GGGGATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:14462 original size:21 final size:21
Alignment explanation
Indices: 14429--14469 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14419 CTAAGTAAAA
14429 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
14450 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
14470 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:14534 original size:20 final size:19
Alignment explanation
Indices: 14509--14599 Score: 101
Period size: 20 Copynumber: 4.6 Consensus size: 19
14499 ACCCTGAAAA
14509 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
14529 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
14549 GTATCGATACAGATTGCAT
1 GTATCGATACACATTAAAT
**
14568 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
14589 GTATCGATACA
1 GTATCGATACA
14600 GGACATTGGC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.07
20 55 0.90
21 2 0.03
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:14650 original size:53 final size:54
Alignment explanation
Indices: 14569--14693 Score: 216
Period size: 53 Copynumber: 2.3 Consensus size: 54
14559 AGATTGCATA
14569 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
* *
14623 GTATCGATACACA-TAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
14676 GTATCGATACACTACAAA
1 GTATCGATACAC-ACAAA
14694 GGTCAAAACC
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
53 50 0.76
54 14 0.21
55 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (54 bp):
GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:16305 original size:20 final size:20
Alignment explanation
Indices: 16280--16333 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
16270 AAAACCCTTA
16280 AAAGTATCGATACACAATTC
1 AAAGTATCGATACACAATTC
16300 AAAGTATCGATACACAATTC
1 AAAGTATCGATACACAATTC
16320 AAAGTATCGATACA
1 AAAGTATCGATACA
16334 TGTTGCAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (20 bp):
AAAGTATCGATACACAATTC
Found at i:16410 original size:19 final size:20
Alignment explanation
Indices: 16386--16436 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
16376 TAGCCAAACT
**
16386 TGTATCGATACA-CAAAGTA
1 TGTATCGATACACCAAAAAA
16405 TGTATCGATACACCAAAAAA
1 TGTATCGATACACCAAAAAA
16425 TGTATCGATACA
1 TGTATCGATACA
16437 TTGGCTTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (20 bp):
TGTATCGATACACCAAAAAA
Found at i:17406 original size:42 final size:39
Alignment explanation
Indices: 17280--17426 Score: 151
Period size: 42 Copynumber: 3.7 Consensus size: 39
17270 ATAGGCATCC
* *
17280 TACTCTTTGAGGAAAAAGGAAAATA-GAATGAAATGGGTCT
1 TACTCTTTGAGGACAAAGGAAAAAAGGAAT-AAAT-GGTCT
* *
17320 TACTCCTTGAGGACAAAGG-AAAAAGGAGTAAA---TCT
1 TACTCTTTGAGGACAAAGGAAAAAAGGAATAAATGGTCT
*
17355 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAATGCGTCT
1 TACTCTTTGAGGACAAAGGAAAAAAGG-AAT-AAATG-GTCT
*
17397 TACTCTTTGAGGGCAAAGGAAAAGAAGGAA
1 TACTCTTTGAGGACAAAGGAAAA-AAGGAA
17427 ATTAAGTGTG
Statistics
Matches: 89, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
35 20 0.22
36 7 0.08
37 2 0.02
38 3 0.03
39 7 0.08
40 20 0.22
42 26 0.29
43 4 0.04
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (39 bp):
TACTCTTTGAGGACAAAGGAAAAAAGGAATAAATGGTCT
Found at i:17425 original size:43 final size:42
Alignment explanation
Indices: 17280--17451 Score: 139
Period size: 42 Copynumber: 4.3 Consensus size: 42
17270 ATAGGCATCC
** * * *
17280 TACTCTTTGAGGAAAAAGGAAAATA-G-AATGAAATGGGTCT
1 TACTCTTTGAGGGCAAAGGAAAAAAGGAAATAAAATGCGTCT
* * *
17320 TACTCCTTGAGGACAAAGG-AAAAAGG-AGT-AAA----TCT
1 TACTCTTTGAGGGCAAAGGAAAAAAGGAAATAAAATGCGTCT
* *
17355 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAATGCGTCT
1 TACTCTTTGAGGGCAAAGGAAAAAAGGAAATAAAATGCGTCT
* * * *
17397 TACTCTTTGAGGGCAAAGGAAAAGAAGGAAATTAAGTGTGTCC
1 TACTCTTTGAGGGCAAAGGAAAA-AAGGAAATAAAATGCGTCT
17440 TACTCTTT-AGGG
1 TACTCTTTGAGGG
17452 ACTAGAAGGT
Statistics
Matches: 110, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
35 20 0.18
36 7 0.06
37 2 0.02
38 3 0.03
39 7 0.06
40 20 0.18
42 28 0.25
43 23 0.21
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.24
Consensus pattern (42 bp):
TACTCTTTGAGGGCAAAGGAAAAAAGGAAATAAAATGCGTCT
Found at i:17525 original size:61 final size:60
Alignment explanation
Indices: 17442--17734 Score: 322
Period size: 61 Copynumber: 4.8 Consensus size: 60
17432 GTGTGTCCTA
* **
17442 CTCTTT-AGGGACTAGAAGGTGCCACCAACTTGTATAGGCTTTGCAAGGAGAAAGCATCTTG
1 CTCTTTGA-GGACTAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGA-AAAGCATCTTG
* * * * *
17503 CTTTTTGAGGACTAGAAGGTGCCACCAATTTGTGTGGGCTTTGAAAGG-GAAGCATCTTG
1 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGCATCTTG
* * * * * *
17562 CCCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGAAAAGGCGTCCTG
1 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAA-GCATCTTG
* * * * *
17623 CTCTTTGAGGACT-GAAAAGTGTCACCAACTTGTATGGGCTTTAAAAGCAAAAGGAGTCATG
1 CTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGCA-TCTTG
* * *
17684 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGTCTTTGAAAGGAAA
1 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAA
17735 GTGTCCCGCT
Statistics
Matches: 196, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
59 52 0.27
60 4 0.02
61 138 0.70
62 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (60 bp):
CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGCATCTTG
Found at i:17663 original size:120 final size:120
Alignment explanation
Indices: 17450--17759 Score: 358
Period size: 120 Copynumber: 2.6 Consensus size: 120
17440 TACTCTTTAG
* * * * *
17450 GGACTAGAAGGTGCCACCAACTTGTATAGGCTTTGCAAGGAGAAAGCATCTTGCTTTTTGAGGAC
1 GGACTAGAAGGTGCCACCAACTTGTGT-GGCTTTGAAAGGA-AAAGCGTCCTGCTCTTTGAGGAC
* * * * ** *
17515 T-AGAAGGTGCCACCAATTTGTGTGGGCTTTGAAAG-GGAAGCA-TCTTGCCCTTTGA
64 TGA-AAAGTGCCACCAACTTGTATGGGCTTTAAAAGCAAAAGCAGTCATGCCCTTTGA
* *
17570 GGACTGGAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGAC
1 GGACTAGAAGGTGCCACCAACTTGTGTGG-CTTTGAAAGGAAAA-GCGTCCTGCTCTTTGAGGAC
* * *
17635 TGAAAAGTGTCACCAACTTGTATGGGCTTTAAAAGCAAAAGGAGTCATGCTCTTTGA
64 TGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGCAAAAGCAGTCATGCCCTTTGA
* * *
17692 GGACTAGAAGGTGCCACCAACTTGTGTGGTCTTTGAAAGG-AAAGTGTCCCGCTCTTTAAGGACT
1 GGACTAGAAGGTGCCACCAACTTGTGTGG-CTTTGAAAGGAAAAGCGTCCTGCTCTTTGAGGACT
17756 GAAA
65 GAAA
17760 GGATAAAAGG
Statistics
Matches: 162, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
119 5 0.03
120 101 0.62
121 8 0.05
122 48 0.30
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (120 bp):
GGACTAGAAGGTGCCACCAACTTGTGTGGCTTTGAAAGGAAAAGCGTCCTGCTCTTTGAGGACTG
AAAAGTGCCACCAACTTGTATGGGCTTTAAAAGCAAAAGCAGTCATGCCCTTTGA
Found at i:18756 original size:18 final size:18
Alignment explanation
Indices: 18735--18776 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
18725 CTATTTTTTC
*
18735 TTTTTTCTCTTTTTTTGT
1 TTTTTTCTCTTTTTTGGT
* *
18753 TTTTTTTTGTTTTTTGGT
1 TTTTTTCTCTTTTTTGGT
18771 TTTTTT
1 TTTTTT
18777 TAAGAAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.86
Consensus pattern (18 bp):
TTTTTTCTCTTTTTTGGT
Found at i:28327 original size:13 final size:11
Alignment explanation
Indices: 28301--28351 Score: 66
Period size: 12 Copynumber: 4.3 Consensus size: 11
28291 TTAAAAGTAC
28301 AAACACAAAAAA
1 AAACA-AAAAAA
28313 AAACAACATAAAA
1 AAACAA-A-AAAA
28326 AAACAAAAACAA
1 AAACAAAAA-AA
28338 AAACAAAAAAA
1 AAACAAAAAAA
28349 AAA
1 AAA
28352 AACACATGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
11 8 0.22
12 18 0.50
13 10 0.28
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (11 bp):
AAACAAAAAAA
Found at i:28333 original size:19 final size:18
Alignment explanation
Indices: 28301--28352 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
28291 TTAAAAGTAC
*
28301 AAACACAAAAAAAAACAA
1 AAACAAAAAAAAAAACAA
*
28319 CATAA-AAAAACAAAAACAA
1 -A-AACAAAAAAAAAAACAA
28338 AAACAAAAAAAAAAA
1 AAACAAAAAAAAAAA
28353 ACACATGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.07
18 11 0.39
19 13 0.46
20 2 0.07
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (18 bp):
AAACAAAAAAAAAAACAA
Found at i:28339 original size:25 final size:25
Alignment explanation
Indices: 28301--28357 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
28291 TTAAAAGTAC
* *
28301 AAACACAAAAAAAAACAACATAAAA
1 AAACACAAAAAAAAACAAAAAAAAA
28326 AAACA-AAAACAAAAACAAAAAAAAA
1 AAACACAAAA-AAAAACAAAAAAAAA
28351 AAACACA
1 AAACACA
28358 TGAAAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.14
25 23 0.82
26 1 0.04
ACGTcount: A:0.82, C:0.16, G:0.00, T:0.02
Consensus pattern (25 bp):
AAACACAAAAAAAAACAAAAAAAAA
Found at i:28352 original size:13 final size:13
Alignment explanation
Indices: 28307--28355 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
28297 GTACAAACAC
*
28307 AAAAAAAAACAAC
1 AAAAAAAAACAAA
*
28320 ATAAAAAAAC-AA
1 AAAAAAAAACAAA
*
28332 AAACAAAAACAAA
1 AAAAAAAAACAAA
28345 AAAAAAAAACA
1 AAAAAAAAACA
28356 CATGAAAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 9 0.30
13 21 0.70
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (13 bp):
AAAAAAAAACAAA
Found at i:28353 original size:19 final size:19
Alignment explanation
Indices: 28307--28355 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
28297 GTACAAACAC
*
28307 AAAAAAAAACAACATAAAA
1 AAAAAAAAACAACAAAAAA
*
28326 AAACAAAAACAA-AAACAAA
1 AAAAAAAAACAACAAA-AAA
28345 AAAAAAAAACA
1 AAAAAAAAACA
28356 CATGAAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 2 0.08
19 24 0.92
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (19 bp):
AAAAAAAAACAACAAAAAA
Found at i:28363 original size:13 final size:13
Alignment explanation
Indices: 28301--28363 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
28291 TTAAAAGTAC
28301 AAACACA-AAAAA
1 AAACACATAAAAA
28313 AAACAACAT-AAAA
1 AAAC-ACATAAAAA
28326 AAACA-A-AAACAA
1 AAACACATAAA-AA
* *
28338 AAACAAAAAAAAA
1 AAACACATAAAAA
28351 AAACACATGAAAA
1 AAACACAT-AAAA
28364 CAAAGAGTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
11 3 0.07
12 12 0.29
13 20 0.48
14 7 0.17
ACGTcount: A:0.81, C:0.14, G:0.02, T:0.03
Consensus pattern (13 bp):
AAACACATAAAAA
Found at i:28364 original size:35 final size:35
Alignment explanation
Indices: 28299--28367 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
28289 CCTTAAAAGT
* * *
28299 ACAAACACAAAAAAAAACAACATAAAAAAACAAAA
1 ACAAAAACAAAAAAAAAAAACACAAAAAAACAAAA
**
28334 ACAAAAACAAAAAAAAAAAACACATGAAAACAAA
1 ACAAAAACAAAAAAAAAAAACACAAAAAAACAAA
28368 GAGTGCAAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.80, C:0.16, G:0.01, T:0.03
Consensus pattern (35 bp):
ACAAAAACAAAAAAAAAAAACACAAAAAAACAAAA
Found at i:29563 original size:30 final size:30
Alignment explanation
Indices: 29516--29980 Score: 455
Period size: 31 Copynumber: 15.1 Consensus size: 30
29506 CAAATCTTTT
29516 TTTTCTTCAAAGTCCACGACTCAGTGGCATC
1 TTTTC-TCAAAGTCCACGACTCAGTGGCATC
* * *
29547 TTGTCCCAAAGCCCACGACTCAGTGGCATC
1 TTTTCTCAAAGTCCACGACTCAGTGGCATC
* *
29577 TTTTCTTCAAAGTCCACAACTCAGTGGCCTC
1 TTTTC-TCAAAGTCCACGACTCAGTGGCATC
*
29608 TTTTCT--AAGTCCACAACTCAGTGGCATCC
1 TTTTCTCAAAGTCCACGACTCAGTGGCAT-C
** * *
29637 TTTTCTTCCGAGTCCACAACTTAGTGGCAATC
1 TTTTC-TCAAAGTCCACGACTCAGTGGC-ATC
* *
29669 TCTTCTCAAAGTCCATGACTCAGTGGCATC
1 TTTTCTCAAAGTCCACGACTCAGTGGCATC
* **
29699 TTGTT-TCTAAGTCCACGACTTTGTGGCATC
1 TT-TTCTCAAAGTCCACGACTCAGTGGCATC
29729 TTTTCTTCAAAGTCCACGACTCAGTGGCATC
1 TTTTC-TCAAAGTCCACGACTCAGTGGCATC
29760 TCTTTC-CAAAGTCCACGACTCAGTGGCATC
1 T-TTTCTCAAAGTCCACGACTCAGTGGCATC
* *
29790 TTTTCTTCAAAGTCCATGACTCAGTGACATC
1 TTTTC-TCAAAGTCCACGACTCAGTGGCATC
* *
29821 TTTTTTCTTCAAAG-CTGATGAC-CTAGTGGCATC
1 --TTTTC-TCAAAGTC-CACGACTC-AGTGGCATC
*
29854 TCTTT-TCTAAGTCCACGACTCAGTGGCATC
1 T-TTTCTCAAAGTCCACGACTCAGTGGCATC
* *
29884 TCTTC-CTAAAGTCCACGACTAAGTGGCATC
1 TTTTCTC-AAAGTCCACGACTCAGTGGCATC
*
29914 TTTTCTTCAAAGTCCACAACTCAGTGGCAATC
1 TTTTC-TCAAAGTCCACGACTCAGTGGC-ATC
*
29946 TCTTT-TCAAAGTCCAC-AGCTCCGTGGCACTC
1 T-TTTCTCAAAGTCCACGA-CTCAGTGGCA-TC
29977 TTTT
1 TTTT
29981 TCCTTTTAAG
Statistics
Matches: 368, Mismatches: 39, Indels: 55
0.80 0.08 0.12
Matches are distributed among these distances:
28 20 0.05
29 15 0.04
30 130 0.35
31 137 0.37
32 36 0.10
33 30 0.08
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (30 bp):
TTTTCTCAAAGTCCACGACTCAGTGGCATC
Found at i:29742 original size:61 final size:61
Alignment explanation
Indices: 29516--29980 Score: 464
Period size: 61 Copynumber: 7.6 Consensus size: 61
29506 CAAATCTTTT
* * *
29516 TTTTCTTCAAAGTCCACGACTCAGTGGCATCTTGTC-CCAAAGCCCACGACTCAGTGGCATC
1 TTTT-TTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATC
* * *
29577 TTTTCTTCAAAGTCCACAACTCAGTGGCCTCTTTTC-T--AAGTCCACAACTCAGTGGCATCC
1 TTTT-TTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCAT-C
** * * * *
29637 TTTTCTTCCGAGTCCACAACTTAGTGGCAATCTCTTC-TCAAAGTCCATGACTCAGTGGCATC
1 TTTT-TTCAAAGTCCACGACTCAGTGGC-ATCTTTTCTTCAAAGTCCACGACTCAGTGGCATC
* * **
29699 TTGTTTCTAAGTCCACGACTTTGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATC
1 TTTTTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATC
* * * *
29760 TCTTTCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTCAGTGACATC
1 TTTTTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATC
* * * *
29821 TTTTTTCTTCAAAG-CTGATGAC-CTAGTGGCATCTCTT-TTCTAAGTCCACGACTCAGTGGCAT
1 --TTTT-TTCAAAGTC-CACGACTC-AGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCAT
29883 C
61 C
* * * *
29884 -TCTTCCTAAAGTCCACGACTAAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCAATC
1 TTTTTTC-AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGC-ATC
* *
29946 TCTTTTCAAAGTCCAC-AGCTCCGTGGCACTCTTTT
1 TTTTTTCAAAGTCCACGA-CTCAGTGGCA-TCTTTT
29981 TCCTTTTAAG
Statistics
Matches: 337, Mismatches: 49, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
59 21 0.06
60 55 0.16
61 159 0.47
62 24 0.07
63 56 0.17
64 22 0.07
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (61 bp):
TTTTTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATC
Found at i:30041 original size:34 final size:34
Alignment explanation
Indices: 29958--32518 Score: 2438
Period size: 34 Copynumber: 80.7 Consensus size: 34
29948 TTTTCAAAGT
*
29958 CCACAGCTCCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
29992 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
30026 TCACAACTCTC-TGGCA-------TCCTTTTAAGC
1 CCACAACTC-CGTGGCACTCTTTTTCCTTTTAAGC
30053 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
30087 CCACAACTCCATGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
30121 CCACAAGTCCGTAGCA-------TCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
30148 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
30182 CCACAACTCCGTGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
30209 CCACAACTCCCTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
30243 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
**
30277 CCACAACTATGTGGCA-TC----T--TTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
30304 CCACAACTTCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
30338 CCACAACTCCGTGGCA-------TCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
30365 CTACAACTCAGTGTCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* ** * *
30399 CCATAACTCTATGGCACTCTTTTTCTTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
30433 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
30467 CAACAACTCCGTGGCACTCTTCTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
30501 CTACAACTCCGTGGCA-------TCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
30528 CCACAACTCCATGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* ** *
30562 CCATAACTTTGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
**
30596 CCACAACTATGTGGCA-TC----T--TTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
30623 CCACAACTTCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
30657 CCACAACTCCGTGGCA-------TCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * * *
30684 CTACAACTCAGTGTCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
30718 TCACAACTCTC-TGGCA-------TCCTTTTAAGC
1 CCACAACTC-CGTGGCACTCTTTTTCCTTTTAAGC
*
30745 CCACAACTCCATGGCACTCTTTTT-CTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
30778 CCACAACTCCATGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
30812 CCACAACTCCGTAGCA-------TCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
30839 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
30873 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
30907 TCACAACTCTC-TGGCA-------TCCTTTTAAGC
1 CCACAACTC-CGTGGCACTCTTTTTCCTTTTAAGC
30934 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
30968 CCACAACTCCATGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
31002 CCACAACTTCGTAGCA-------TCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
31029 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
31063 CCACAACTCCGTGGTA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
31090 CCACAACTCCCTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
31124 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
**
31158 CCACAACTATGTGGCA-TC----T--TTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
31185 CCACAACTTCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
31219 CCACAACTCCGTGG-A------ATCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
31246 CTACAACTCAGTGTCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* ** * *
31280 CCATAACTCTATGGCACTCTTTTTCTTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
31314 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
31348 CAACAACTCCGTGGCACTCTTCTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
31382 CTACAACTCCGTGGCA-------TCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
31409 CCACAACTCCATGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* ** *
31443 CCATAACTTTGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
31477 CCACAACTCCATGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
31504 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
31538 GCACAACTCCGTGGCA-------TCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
31565 CCAAAACTCCGTGGCACTCTTTTTCCTTTTATGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * ** *
31599 CTATAACTTTGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
31633 CCACAACTCTGTGGCA-------TCCTTTTCAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
**
31660 CCACAACTCTATGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
** * *
31694 CCACAACTCAATGGCACTTTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
31728 CCACAACTCCATGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
31755 CCACAACTTCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * * *
31789 CCATAACTCCATGGCACTCTTCTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
31823 CCACAACTCCGTGGCA-------TCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * * *
31850 CCATAACTTCGTGGCATTTTTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCA-CTCTTTTTCCTTTTAAGC
* * * *
31885 TCGCAACTCCGTGGCACTTTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* **
31919 CGACAACTTTGTGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
31946 CCACAACTCCGTGGCACTCATTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
31980 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
32014 CCATAACTCCGT-G-ACAC-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
32041 CCATAACTCCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
32075 CCACCATTCCGTGGCATTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
32109 CCACAACTCCGTGGCACTCTTTTTCTTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
32143 CCATAACTCCGT-G-ACAC-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
** *
32170 CCATGACTCTGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
32204 CCACAACTCCGTGGCACTTTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
32238 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
32272 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
32306 CCACAACTCCGTGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * **
32333 TCACAACTCAGTGGCACTCTTTTTCCTTTTAATT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
32367 CCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTT-AAGC
* *
32401 CCACAACTCCATGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
32435 CCACAACTTCGTGGCA--C-----CCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
32462 CCACAACTCCATGGCA-TCTTTCTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
32495 CCACAAATCAGTGGCACCCTTTTT
1 CCACAACTCCGTGGCACTCTTTTT
32519 AAAAGCCCAT
Statistics
Matches: 2089, Mismatches: 246, Indels: 384
0.77 0.09 0.14
Matches are distributed among these distances:
26 3 0.00
27 591 0.28
28 10 0.00
29 15 0.01
32 14 0.01
33 75 0.04
34 1345 0.64
35 36 0.02
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.36
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
Found at i:30056 original size:61 final size:62
Alignment explanation
Indices: 29980--32510 Score: 1719
Period size: 61 Copynumber: 40.0 Consensus size: 62
29970 GGCACTCTTT
**
29980 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTTCACAACTCTC-TGGCA
1 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTC-CGTGGCA
*
30042 -TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCATGGCA
1 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
* * * *
30103 CTCTTTTTCCTTTTAAGTCCACAAGTCCGTAGCA-------TCCTTTTAAGCCCACAACTCTGTG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
30161 GCA
60 GCA
* *
30164 CTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA--C-----CCTTTTAAGCCCACAACTCCCTG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
30222 GCA
60 GCA
* * **
30225 CTCTTTTTCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTATGTG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
30290 GCA
60 GCA
* *
30293 -TCTTTTTAAGCCCACAACTTCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
1 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
* * * * * **
30354 -TCCTTTTAAGTCTACAACTCAGTGTCACTCTTTTTCCTTTTAAGCCCATAACTCTATGGCA
1 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
* * *
30415 CTCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCAACAACTCCGTG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
30480 GCA
60 GCA
* * *
30483 CTCTTCTTCCTTTTAAGTCTACAACTCCGTGGCA-------TCCTTTTAAGCCCACAACTCCATG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
30541 GCA
60 GCA
* ** * **
30544 CTCTTTTTCCTTTTAAGCCCATAACTTTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTATGTG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
30609 GCA
60 GCA
* *
30612 -TCTTTTTAAGCCCACAACTTCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
1 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
* * * * **
30673 -TCCTTTTAAGTCTACAACTCAGTGTCACTCTTTTTCCTTTTAAGTTCACAACTCTC-TGGCA
1 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTC-CGTGGCA
* *
30734 -TCCTTTTAAGCCCACAACTCCATGGCACTCTTTTT-CTTTTAAGCCCACAACTCCATGGCA
1 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
* * *
30794 CTCTTTTTCCTTTTAAGTCCACAACTCCGTAGCA-------TCCTTTTAAGCCCACAACTCTGTG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
30852 GCA
60 GCA
**
30855 CTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTTCACAACTCTC-T
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTC-CGT
30919 GGCA
59 GGCA
*
30923 -TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCATGGCA
1 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
* * * *
30984 CTCTTTTTCCTTTTAAGTCCACAACTTCGTAGCA-------TCCTTTTAAGCCCACAACTCTGTG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
31042 GCA
60 GCA
* * *
31045 CTCTTTTTCCTTTTAAGTCCACAACTCCGTGGTA--C-----CCTTTTAAGCCCACAACTCCCTG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
31103 GCA
60 GCA
* * **
31106 CTCTTTTTCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTATGTG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
31171 GCA
60 GCA
* *
31174 -TCTTTTTAAGCCCACAACTTCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGG-A
1 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
* * * * * * **
31234 ATCCTTTTAAGTCTACAACTCAGTGTCACTCTTTTTCCTTTTAAGCCCATAACTCTATGGCA
1 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
* * *
31296 CTCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCAACAACTCCGTG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
31361 GCA
60 GCA
* * *
31364 CTCTTCTTCCTTTTAAGTCTACAACTCCGTGGCA-------TCCTTTTAAGCCCACAACTCCATG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
31422 GCA
60 GCA
* ** * *
31425 CTCTTTTTCCTTTTAAGCCCATAACTTTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCATG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
31490 GCA
60 GCA
* * *
31493 -CCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCGCACAACTCCGTGGCA
1 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
* * * * **
31554 -TCCTTTTAAGCCCAAAACTCCGTGGCACTCTTTTTCCTTTTATGCCTATAACTTTGTGGCA
1 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
* * * **
31615 CTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA-------TCCTTTTCAGCCCACAACTCTATG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
31673 GCA
60 GCA
** * * *
31676 CTCTTTTTCCTTTTAAGCCCACAACTCAATGGCACTTTTTTTCCTTTTAAGTCCACAACTCCATG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
31741 GCA
60 GCA
* * * *
31744 -CCCTTTTAAGCCCACAACTTCGTGGCACTCTTTTTCCTTTTAAGCCCATAACTCCATGGCA
1 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
* * *
31805 CTCTTCTTCCTTTTAAGTCCACAACTCCGTGGCA-------TCCTTTTAAGCCCATAACTTCGTG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
31863 GCA
60 GCA
* * * * * **
31866 TTTTTTTTTCCTTTTAAGCTCGCAACTCCGTGGCACTTTTTTTCCTTTTAAGTCGACAACTTTGT
1 -------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGT
31931 GGCA
59 GGCA
* *
31935 -CCCTTTTAAGCCCACAACTCCGTGGCACTCATTTTCCTTTTAAGCCCACAACTCCGTGGCA
1 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
* * * *
31996 CTCTTTTTCCTTTTAAGTCCATAACTCCGT-G-ACAC-----CCTTTTAAGCCCATAACTCCGTG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
32054 GCA
60 GCA
* * *
32057 CTCTTTTTCCTTTTAAGCCCACCATTCCGTGGCATTCTTTTTCCTTTTAAGCCCACAACTCCGTG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
32122 GCA
60 GCA
* * * * ** *
32125 CTCTTTTTCTTTTTAAGTCCATAACTCCGT-G-ACAC-----CCTTTTAAGCCCATGACTCTGTG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
32183 GCA
60 GCA
*
32186 CTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTTCCTTTTAAGCCCACAACTCCGTG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
32251 GCA
60 GCA
*
32254 CTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTG
1 ------TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
32319 GCA
60 GCA
* * * **
32322 -CCCTTTTAAGCTCACAACTCAGTGGCACTCTTTTTCCTTTTAATTCCACAACTCCGTGGCA
1 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
* * * *
32383 CCTTTTTCTTTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTTCGTG
1 -----TTCCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTG
32448 GCA
60 GCA
* * * * * *
32451 -CCCTTTTAAGTCCACAACTCCATGGCA-TCTTTCTCCTTTTAAGCCCACAAATCAGTGGCA
1 TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
32511 CCCTTTTTAA
Statistics
Matches: 2080, Mismatches: 253, Indels: 274
0.80 0.10 0.11
Matches are distributed among these distances:
59 1 0.00
60 53 0.03
61 1312 0.63
62 37 0.02
63 6 0.00
66 5 0.00
67 31 0.01
68 612 0.29
69 23 0.01
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.36
Consensus pattern (62 bp):
TTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
Found at i:30066 original size:95 final size:95
Alignment explanation
Indices: 29927--32517 Score: 2235
Period size: 95 Copynumber: 27.2 Consensus size: 95
29917 TCTTCAAAGT
* * *
29927 CCACAACTCAGTGGCAATCTCTTTTCAAAGTCCACAGCTCCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGC-ATC-CTTTT--AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
29992 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
62 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
30026 TCACAACTCTC-TGGCATCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCA
1 CCACAACTC-CGTGGCATCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCA
* *
30090 CAACTCCATGGCACTCTTTTTCCTTTTAAGT
65 CAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * * *
30121 CCACAAGTCCGTAGCATCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCAC
1 CCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
30186 AACTCCGTGGCA--C-----CCTTTTAAGC
66 AACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
30209 CCACAACTCCCTGGCACTCTTTTTCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTA
1 CCACAACTCCGTGGCA-------TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTA
* **
30274 AGTCCACAACTATGTGGCA-TC----T--TTTTAAGC
59 AGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
30304 CCACAACTTCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA-------TCCTTTTA
1 CCACAACTCCGTGGCA-------TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTA
* * * *
30362 AGTCTACAACTCAGTGTCACTCTTTTTCCTTTTAAGC
59 AGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* ** *
30399 CCATAACTCTATGGCACTCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTA
1 CCACAACTCCGTGGCA-TC-----C-TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTA
* * *
30464 AGCCAACAACTCCGTGGCACTCTTCTTCCTTTTAAGT
59 AGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
30501 CTACAACTCCGTGGCATCCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGCCCAT
1 CCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
** *
30566 AACTTTGTGGCACTCTTTTTCCTTTTAAGT
66 AACTCCGTGGCACTCTTTTTCCTTTTAAGC
** * *
30596 CCACAACTATGTGGCATCTTTTTAAGCCCACAACTTCGTGGCACTCTTTTTCCTTTTAAGCCCAC
1 CCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
*
30661 AACTCCGTGGCA-------TCCTTTTAAGT
66 AACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * * **
30684 CTACAACTCAGTGTCACTCTTTTTCCTTTTAAGTTCACAACTCTC-TGGCA-------TCCTTTT
1 CCACAACTCCGTGGCA-------TCCTTTTAAGCCCACAACTC-CGTGGCACTCTTTTTCCTTTT
*
30741 AAGCCCACAACTCCATGGCACTCTTTTT-CTTTTAAGC
58 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
30778 CCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTAGCA-------TCCTTTTA
1 CCACAACTCCGTGGCA-------TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTA
*
30836 AGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
59 AGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
**
30873 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTTCACAACTCTC-TGGCA-------TCCTTTT
1 CCACAACTCCGTGGCA-------TCCTTTTAAGCCCACAACTC-CGTGGCACTCTTTTTCCTTTT
30930 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
58 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * * *
30968 CCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTTCGTAGCA-------TCCTTTTA
1 CCACAACTCCGTGGCA-------TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTA
* *
31026 AGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGT
59 AGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
31063 CCACAACTCCGTGGTACCCTTTTAAGCCCACAACTCCCTGGCACTCTTTTTCCTTTTAAGCCCAC
1 CCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
* *
31128 AACTCTGTGGCACTCTTTTTCCTTTTAAGT
66 AACTCCGTGGCACTCTTTTTCCTTTTAAGC
** * *
31158 CCACAACTATGTGGCATCTTTTTAAGCCCACAACTTCGTGGCACTCTTTTTCCTTTTAAGCCCAC
1 CCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
* *
31223 AACTCCGTGG-A------ATCCTTTTAAGT
66 AACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * * * ** *
31246 CTACAACTCAGTGTCACTCTTTTTCCTTTTAAGCCCATAACTCTATGGCACTCTTTTTCTTTTTA
1 CCACAACTCCGTGGCA-------TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTA
*
31311 AGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
59 AGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
31348 CAACAACTCCGTGGCACTCTTCTTCCTTTTAAGTCTACAACTCCGTGGCA-------TCCTTTTA
1 CCACAACTCCGTGGCA-------TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTA
*
31406 AGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGC
59 AGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* ** * *
31443 CCATAACTTTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCATGGCA--C-----CCTTTTA
1 CCACAACTCCGTGGCA-------TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTA
*
31501 AGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
59 AGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * * * *
31538 GCACAACTCCGTGGCATCCTTTTAAGCCCAAAACTCCGTGGCACTCTTTTTCCTTTTATGCCTAT
1 CCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
** *
31603 AACTTTGTGGCACTCTTTTTCCTTTTAAGT
66 AACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * **
31633 CCACAACTCTGTGGCATCCTTTTCAGCCCACAACTCTATGGCACTCTTTTTCCTTTTAAGCCCAC
1 CCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
** * *
31698 AACTCAATGGCACTTTTTTTCCTTTTAAGT
66 AACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * * *
31728 CCACAACTCCATGGCACCCTTTTAAGCCCACAACTTCGTGGCACTCTTTTTCCTTTTAAGCCCAT
1 CCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
* * *
31793 AACTCCATGGCACTCTTCTTCCTTTTAAGT
66 AACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * * * * *
31823 CCACAACTCCGTGGCATCCTTTTAAGCCCATAACTTCGTGGCATTTTTTTTTCCTTTTAAGCTCG
1 CCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCCGTGGCA-CTCTTTTTCCTTTTAAGCCCA
* *
31888 CAACTCCGTGGCACTTTTTTTCCTTTTAAGT
65 CAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* ** * *
31919 CGACAACTTTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCATTTTCCTTTTAAGCCCAC
1 CCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
*
31984 AACTCCGTGGCACTCTTTTTCCTTTTAAGT
66 AACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * * *
32014 CCATAACTCCGTGACACCCTTTTAAGCCCATAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
1 CCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
* * *
32079 CATTCCGTGGCATTCTTTTTCCTTTTAAGC
66 AACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
32109 CCACAACTCCGTGGCACTCTTTTTCTTTTTAAGTCCATAACTCCGT-G-ACAC-----CCTTTTA
1 CCACAACTCCGTGGCA-TC-----C-TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTA
** *
32167 AGCCCATGACTCTGTGGCACTCTTTTTCCTTTTAAGC
59 AGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
32204 CCACAACTCCGTGGCACTTTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTA
1 CCACAACTCCGTGGCA-------TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTA
*
32269 AGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
59 AGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * * **
32306 CCACAACTCCGTGGCACCCTTTTAAGCTCACAACTCAGTGGCACTCTTTTTCCTTTTAATTCCAC
1 CCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
*
32371 AACTCCGTGGCAC-CTTTTTCTTTTTAAAGC
66 AACTCCGTGGCACTCTTTTTCCTTTT-AAGC
* * *
32401 CCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTTCGTGGCA--C-----CCTTTTA
1 CCACAACTCCGTGGCA-------TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTA
* * *
32459 AGTCCACAACTCCATGGCA-TCTTTCTCCTTTTAAGC
59 AGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
32495 CCACAAATCAGTGGCACCCTTTT
1 CCACAACTCCGTGGCATCCTTTT
32518 TAAAAGCCCA
Statistics
Matches: 2140, Mismatches: 243, Indels: 230
0.82 0.09 0.09
Matches are distributed among these distances:
87 6 0.00
88 163 0.08
89 4 0.00
90 1 0.00
93 3 0.00
94 115 0.05
95 1527 0.71
96 89 0.04
97 8 0.00
98 3 0.00
99 12 0.01
100 4 0.00
101 6 0.00
102 199 0.09
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.36
Consensus pattern (95 bp):
CCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
AACTCCGTGGCACTCTTTTTCCTTTTAAGC
Found at i:32476 original size:27 final size:27
Alignment explanation
Indices: 32425--32477 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
32415 CACTCTTTTT
* *
32425 CCTTTTAAGTCCACAACTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCATGGCAC
32452 CCTTTTAAGTCCACAACTCCATGGCA
1 CCTTTTAAGTCCACAACTCCATGGCA
32478 TCTTTCTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.34, G:0.13, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCATGGCAC
Found at i:32560 original size:28 final size:29
Alignment explanation
Indices: 32491--32586 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 29
32481 TTCTCCTTTT
* * *
32491 AAGCCCACAAATCAGTGGCACCCTTTTTAA
1 AAGCCCACAAGTCAGTGGCAACC-TTTCAA
*
32521 AAGCCCATAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTCAA
* ** *
32549 AAGCACACAAGTTGGT-GCAGCCCTTTCAA
1 AAGCCCACAAGTCAGTGGCA-ACCTTTCAA
32578 AAGCCCACA
1 AAGCCCACA
32587 CAAATTGGTG
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
27 3 0.06
28 18 0.33
29 13 0.24
30 20 0.37
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCAACCTTTCAA
Found at i:32669 original size:49 final size:49
Alignment explanation
Indices: 32603--33077 Score: 412
Period size: 49 Copynumber: 9.9 Consensus size: 49
32593 GGTGGCGGCT
* *
32603 TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTA
1 TCTT-TAAGTCCGATATCGCTGGCCTTGAATCAACATATTGGCACCTTCA
* * *
32653 TCTTTAAGTCCGATATCGCTGCCCTTGAATCAACATATCGGCACCTTTA
1 TCTTTAAGTCCGATATCGCTGGCCTTGAATCAACATATTGGCACCTTCA
* * *
32702 TCTTTAAGTCTGATATCGCTGTCCTTGAATCAACATATTGGCACCTTTA
1 TCTTTAAGTCCGATATCGCTGGCCTTGAATCAACATATTGGCACCTTCA
* * * * * * ** *
32751 TCTTTAAGACCAATGTCACTGGTCTAGAATCAGTACATTGG------CA
1 TCTTTAAGTCCGATATCGCTGGCCTTGAATCAACATATTGGCACCTTCA
* * * *
32794 -C---AAGCCCAATATCGCTGACTTTGAATCAACATATTGGCACCTTCA
1 TCTTTAAGTCCGATATCGCTGGCCTTGAATCAACATATTGGCACCTTCA
* * * * *
32839 TCTTTAAGTCCGATATCGCTGCCCTTAAATCAGCATATCGACACCTTCA
1 TCTTTAAGTCCGATATCGCTGGCCTTGAATCAACATATTGGCACCTTCA
* * * *
32888 TCTTTAAGTTCGATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTTTAAGTCCGATATCGCTGGCCTTGAATCAACATATTGGCACCTTCA
* * * * * * *
32937 TCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCGCCTTCA
1 TCTTTAAGTCCGATATCGCTGGCCTTGAATCAACATATTGGCACCTTCA
** * ** ** * *
32986 TCTTTAAGAGCGATGTCATTGGCCTTGAATCAGTACATTGGCAGCTTCA
1 TCTTTAAGTCCGATATCGCTGGCCTTGAATCAACATATTGGCACCTTCA
* * * * *
33035 TTTTTAAGTCCGATATTGTTGGCTTTAAATCAACATATTGGCA
1 TCTTTAAGTCCGATATCGCTGGCCTTGAATCAACATATTGGCA
33078 TATTTAGCAT
Statistics
Matches: 348, Mismatches: 67, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
39 26 0.07
42 1 0.00
43 1 0.00
45 2 0.01
46 1 0.00
49 313 0.90
50 4 0.01
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (49 bp):
TCTTTAAGTCCGATATCGCTGGCCTTGAATCAACATATTGGCACCTTCA
Found at i:32918 original size:137 final size:137
Alignment explanation
Indices: 32665--32931 Score: 345
Period size: 137 Copynumber: 1.9 Consensus size: 137
32655 TTTAAGTCCG
* * * * *
32665 ATATCGCTGCCCTTGAATCAACATATCGGCACCTTTATCTTTAAGTCTGATATCGCTGTCCTTGA
1 ATATCGCTGACCTTGAATCAACATATCGGCACCTTCATCTTTAAGTCCGATATCGCTGCCCTTAA
* * * * * *
32730 ATCAACATATTGGCACCTTTATCTTTAAGACCAATGTCACTGGTCTAGAATCAGTACATTGGCAC
66 ATCAACATATCGACACCTTCATCTTTAAGACCAATATCACTGGCCTAGAATCAGCACATTGGCAC
32795 AAGCCCA
131 AAGCCCA
* *
32802 ATATCGCTGACTTTGAATCAACATATTGGCACCTTCATCTTTAAGTCCGATATCGCTGCCCTTAA
1 ATATCGCTGACCTTGAATCAACATATCGGCACCTTCATCTTTAAGTCCGATATCGCTGCCCTTAA
* ** * ** * *
32867 ATCAGCATATCGACACCTTCATCTTTAAGTTCGATATCGTTGGCCTTGAATCAGCATATTGGCAC
66 ATCAACATATCGACACCTTCATCTTTAAGACCAATATCACTGGCCTAGAATCAGCACATTGGCAC
32932 CTTTATCTTT
Statistics
Matches: 109, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
137 109 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (137 bp):
ATATCGCTGACCTTGAATCAACATATCGGCACCTTCATCTTTAAGTCCGATATCGCTGCCCTTAA
ATCAACATATCGACACCTTCATCTTTAAGACCAATATCACTGGCCTAGAATCAGCACATTGGCAC
AAGCCCA
Found at i:32927 original size:186 final size:186
Alignment explanation
Indices: 32613--32978 Score: 581
Period size: 186 Copynumber: 2.0 Consensus size: 186
32603 TCTTCTAAGT
* *
32613 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTATCTTTAAGTCCGATATCGCTGCCCT
1 CCAATATCGCTGACCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCCGATATCGCTGCCCT
* * * *
32678 TGAATCAACATATCGGCACCTTTATCTTTAAGTCTGATATCGCTGTCCTTGAATCAACATATTGG
66 TAAATCAACATATCGACACCTTCATCTTTAAGTCTGATATCGCTGGCCTTGAATCAACATATTGG
* *
32743 CACCTTTATCTTTAAGACCAATGTCACTGGTCTAGAATCAGTACATTGGCACAAGC
131 CACCTTTATCTTTAAGACCAATGTCACTGGCCTAGAATCAGCACATTGGCACAAGC
*
32799 CCAATATCGCTGACTTTGAATCAACATATTGGCACCTTCATCTTTAAGTCCGATATCGCTGCCCT
1 CCAATATCGCTGACCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCCGATATCGCTGCCCT
* * *
32864 TAAATCAGCATATCGACACCTTCATCTTTAAGT-TCGATATCGTTGGCCTTGAATCAGCATATTG
66 TAAATCAACATATCGACACCTTCATCTTTAAGTCT-GATATCGCTGGCCTTGAATCAACATATTG
** *
32928 GCACCTTTATCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGC
130 GCACCTTTATCTTTAAGACCAATGTCACTGGCCTAGAATCAGCACATTGGC
32979 GCCTTCATCT
Statistics
Matches: 164, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
185 1 0.01
186 163 0.99
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (186 bp):
CCAATATCGCTGACCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCCGATATCGCTGCCCT
TAAATCAACATATCGACACCTTCATCTTTAAGTCTGATATCGCTGGCCTTGAATCAACATATTGG
CACCTTTATCTTTAAGACCAATGTCACTGGCCTAGAATCAGCACATTGGCACAAGC
Found at i:34012 original size:20 final size:21
Alignment explanation
Indices: 33987--34041 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
33977 CTGCCAAGGA
33987 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGATTC
34007 AATGTATCGATACATTGA-TC
1 AATGTATCGATACATTGATTC
**
34027 TTTGTATCGATACAT
1 AATGTATCGATACAT
34042 CTGGGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACATTGATTC
Found at i:35521 original size:21 final size:20
Alignment explanation
Indices: 35483--35521 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
35473 ATTGCATGTT
35483 TAAAAATTATTTTAAAATAC
1 TAAAAATTATTTTAAAATAC
35503 TAAAAGATT-TTTATAAAAT
1 TAAAA-ATTATTT-TAAAAT
35522 TTTTTAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (20 bp):
TAAAAATTATTTTAAAATAC
Found at i:56008 original size:18 final size:19
Alignment explanation
Indices: 55987--56027 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
55977 TGAAAAAGTT
55987 AAAAGTAAAAACACCAAAAA
1 AAAAGTAAAAACA-CAAAAA
*
56007 AAAA-CAAAAACACAAAAA
1 AAAAGTAAAAACACAAAAA
56025 AAA
1 AAA
56028 GTGCAAAGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 7 0.35
20 4 0.20
ACGTcount: A:0.80, C:0.15, G:0.02, T:0.02
Consensus pattern (19 bp):
AAAAGTAAAAACACAAAAA
Found at i:56009 original size:19 final size:18
Alignment explanation
Indices: 55987--56029 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
55977 TGAAAAAGTT
55987 AAAAGTAAAAACACCAAAA
1 AAAAGTAAAAACA-CAAAA
**
56006 AAAAACAAAAACACAAAA
1 AAAAGTAAAAACACAAAA
56024 AAAAGT
1 AAAAGT
56030 GCAAAGGCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.77, C:0.14, G:0.05, T:0.05
Consensus pattern (18 bp):
AAAAGTAAAAACACAAAA
Found at i:57977 original size:79 final size:79
Alignment explanation
Indices: 57776--58327 Score: 684
Period size: 79 Copynumber: 7.0 Consensus size: 79
57766 ATATGTCCCG
* * * * *
57776 ATGAGAAATTTAATATTTTGGAGATAATAA-CGGGGTTGGAGTATCCCCTTGAAAATAACAGGGT
1 ATGAGAAA-TTAATATTTTAGAAATAA-AATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGT
*
57840 TGGAGTATCCCCGGTT
64 TGGAGTATCCCCGATT
* ** * *
57856 GTGA-AAATCGATGA--TTAGGAAATAAAATCGGGATTGGAGTATCCTCTCGGAAATAACGGGGT
1 ATGAGAAATTAAT-ATTTTA-GAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGT
*
57918 TGGAGTATCCCCAATT
64 TGGAGTATCCCCGATT
* * * *
57934 ATGAGAAATAAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCCCGGAAAGAACGAGGTTG
1 ATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
*
57999 GAGTATCCCCAATT
66 GAGTATCCCCGATT
* *
58013 ATGAGAAATTAATATTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
1 ATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
*
58078 GAGTATCCTCGATT
66 GAGTATCCCCGATT
* ** *
58092 GTGA-AGAATCGATGA-TTTAGAAATAAAATCGGGATTGGAGTATCCCCTCGGAAATAACGGGGT
1 ATGAGA-AATTAAT-ATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGT
*
58155 TGGAGTATCACCGATT
64 TGGAGTATCCCCGATT
* * * *
58171 ATGAGAAATTAATATTTTGGAAATAAGATCGGGGTTAGAGTATCCCCTCAGAAATAACGGGGTTG
1 ATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
58236 GAGTATCCCCGATT
66 GAGTATCCCCGATT
* * * * * *
58250 ATAAGAAATTAATATTTTAGAAATAAAATCGGGATTGGTGTATCCCCTTGAAAATAACGAGGTTG
1 ATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
*
58315 GAGTATTCCCGAT
66 GAGTATCCCCGAT
58328 GATTAACGGG
Statistics
Matches: 406, Mismatches: 56, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
77 4 0.01
78 58 0.14
79 336 0.83
80 8 0.02
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (79 bp):
ATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
GAGTATCCCCGATT
Found at i:58174 original size:237 final size:235
Alignment explanation
Indices: 57776--58327 Score: 829
Period size: 237 Copynumber: 2.3 Consensus size: 235
57766 ATATGTCCCG
* * *
57776 ATGAGAAATTTAATATTTTGGAGATAATAA-CGGGGTTGGAGTATCCCCTTGAAAATAACAGGGT
1 ATGAGAAA-TTAATATTTTAGAAATAA-AATC-GGGTTGGAGTATCCCCTTGAAAATAACGGGGT
* *
57840 TGGAGTATCCCCGGTTGTGAAAATCGATGATTAGGAAATAAAATCGGGATTGGAGTATCCTCTCG
63 TGGAGTATCCCCGATTGTGAAAATCGATGATTAGGAAATAAAATCGGGATTGGAGTATCCCCTCG
*
57905 GAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATAAATATTTTAGAAATAAAATCGGGGTT
128 GAAATAACGGGGTTGGAGTATCACCAATTATGAGAAATAAATATTTTAGAAATAAAATCGGGGTT
* *
57970 GGAGTATCCCCCCGGAAAGAACGAGGTTGGAGTATCCCCAATT
193 AGAGTATCCCCCCAGAAAGAACGAGGTTGGAGTATCCCCAATT
*
58013 ATGAGAAATTAATATTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
1 ATGAGAAATTAATATTTTAGAAATAAAATC-GGGTTGGAGTATCCCCTTGAAAATAACGGGGTTG
*
58078 GAGTATCCTCGATTGTGAAGAATCGATGATTTA-GAAATAAAATCGGGATTGGAGTATCCCCTCG
65 GAGTATCCCCGATTGTGAA-AATCGATGA-TTAGGAAATAAAATCGGGATTGGAGTATCCCCTCG
* * * *
58142 GAAATAACGGGGTTGGAGTATCACCGATTATGAGAAATTAATATTTTGGAAATAAGATCGGGGTT
128 GAAATAACGGGGTTGGAGTATCACCAATTATGAGAAATAAATATTTTAGAAATAAAATCGGGGTT
* * * *
58207 AGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATT
193 AGAGTATCCCCCCAGAAAGAACGAGGTTGGAGTATCCCCAATT
* * *
58250 ATAAGAAATTAATATTTTAGAAATAAAATCGGGATTGGTGTATCCCCTTGAAAATAACGAGGTTG
1 ATGAGAAATTAATATTTTAGAAATAAAATCGGG-TTGGAGTATCCCCTTGAAAATAACGGGGTTG
*
58315 GAGTATTCCCGAT
65 GAGTATCCCCGAT
58328 GATTAACGGG
Statistics
Matches: 286, Mismatches: 25, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
235 2 0.01
236 69 0.24
237 212 0.74
238 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (235 bp):
ATGAGAAATTAATATTTTAGAAATAAAATCGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGG
AGTATCCCCGATTGTGAAAATCGATGATTAGGAAATAAAATCGGGATTGGAGTATCCCCTCGGAA
ATAACGGGGTTGGAGTATCACCAATTATGAGAAATAAATATTTTAGAAATAAAATCGGGGTTAGA
GTATCCCCCCAGAAAGAACGAGGTTGGAGTATCCCCAATT
Found at i:58320 original size:28 final size:27
Alignment explanation
Indices: 58284--58354 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
58274 AAAATCGGGA
*
58284 TTGGTGTATCCCCTTGA-AAATAACGAGG
1 TTGGAGTATCCCC--GATAAATAACGAGG
* * * *
58312 TTGGAGTATTCCCGATGATTAACGGGG
1 TTGGAGTATCCCCGATAAATAACGAGG
58339 TTGGAGTATCCCCGAT
1 TTGGAGTATCCCCGAT
58355 TGTGGAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.06
27 23 0.64
28 11 0.31
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (27 bp):
TTGGAGTATCCCCGATAAATAACGAGG
Found at i:58400 original size:51 final size:51
Alignment explanation
Indices: 58342--58468 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 51
58332 AACGGGGTTG
*
58342 GAGTATCCCCGATTGTGGAAAATTGGTGTTTCGA-AAATAAAATCGGAGTTA
1 GAGTATCCCCGATTGTGGAAAATTGGTGTTT-GAGAAATAAAACCGGAGTTA
* * * *
58393 GAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGGGTTG
1 GAGTATCCCCGATTGTGGAAAATTGGTGTTTGAGAAATAAAACCGGAGTTA
* *
58444 GAGTA-CCCTCGATTATGAAAAATTG
1 GAGTATCCC-CGATTGTGGAAAATTG
58469 AGGAACTTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
50 4 0.06
51 62 0.94
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGGAAAATTGGTGTTTGAGAAATAAAACCGGAGTTA
Found at i:60838 original size:13 final size:13
Alignment explanation
Indices: 60820--60845 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60810 ACAAAGATCC
60820 ATGTATCGATACA
1 ATGTATCGATACA
60833 ATGTATCGATACA
1 ATGTATCGATACA
60846 TGGAATAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:60930 original size:32 final size:32
Alignment explanation
Indices: 60884--60959 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
60874 GCAGTAGCTT
*
60884 TGTAGCGATACATTGTATCGACACAACACTTA
1 TGTATCGATACATTGTATCGACACAACACTTA
*
60916 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGACACAACACTTA
*
60948 TGTATTGATACA
1 TGTATCGATACA
60960 AATCGCTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGACACAACACTTA
Found at i:60934 original size:13 final size:13
Alignment explanation
Indices: 60916--60940 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60906 ACAACACTTA
60916 TGTATCGATACAT
1 TGTATCGATACAT
60929 TGTATCGATACA
1 TGTATCGATACA
60941 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:61718 original size:31 final size:31
Alignment explanation
Indices: 61678--61994 Score: 174
Period size: 30 Copynumber: 10.1 Consensus size: 31
61668 TTTTTTTTTC
61678 TTCC-AAGTCCATGACTCAGTGGCATTTCTT
1 TTCCAAAGTCCATGACTCAGTGGCATTTCTT
*
61708 TTCCAAAGTCCATGACTCAGTGGCAATTCTT
1 TTCCAAAGTCCATGACTCAGTGGCATTTCTT
* * *
61739 CTCC-AAGTCCACT-ACTTAGTGGCA--TCTC
1 TTCCAAAGTCCA-TGACTCAGTGGCATTTCTT
* * * *
61767 TTCCAAAAGCCCACGACTCCGTGGCA---CCT
1 TTCC-AAAGTCCATGACTCAGTGGCATTTCTT
*
61796 TTCCTAAAAGTCCACT-ACTCAAG-GGCATCCTCATTTT
1 TTCC--AAAGTCCA-TGACTC-AGTGGCAT--T--TCTT
* *
61833 TTCTTCCAAGTCCATGACTCAATGGCATTTCTT
1 TTC--CAAAGTCCATGACTCAGTGGCATTTCTT
** *
61866 TTCCAAAGTCCACAACTCAGTGGCAATTCTT
1 TTCCAAAGTCCATGACTCAGTGGCATTTCTT
* ** * *
61897 CTCC-AAGTCCACAACTCAATGGCATCTTTTTT
1 TTCCAAAGTCCATGACTCAGTGGCA--TTTCTT
* *
61929 CTTCCAAAGTCTACT-ACTCAGTGGCATCTCTT
1 -TTCCAAAGTCCA-TGACTCAGTGGCATTTCTT
* *
61961 TT-CAAAGTCCACGACTCCGTGGCACCTTTCTT
1 TTCCAAAGTCCATGACTCAGTGGCA--TTTCTT
61993 TT
1 TT
61995 TTCAAAGCCC
Statistics
Matches: 222, Mismatches: 38, Indels: 52
0.71 0.12 0.17
Matches are distributed among these distances:
28 6 0.03
29 5 0.02
30 89 0.40
31 58 0.26
32 15 0.07
33 9 0.04
34 16 0.07
35 1 0.00
36 2 0.01
37 20 0.09
39 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (31 bp):
TTCCAAAGTCCATGACTCAGTGGCATTTCTT
Found at i:61897 original size:158 final size:158
Alignment explanation
Indices: 61609--61923 Score: 499
Period size: 158 Copynumber: 2.0 Consensus size: 158
61599 TCAAATCTTG
* * * **
61609 TTCCAAAAGCCCATGCCTCTCTGGCACCTTTCCTAAAAGTCCACTACTTAGTGGCATCCTTTTTT
1 TTCCAAAAGCCCACGACTCTCTGGCACCTTTCCTAAAAGTCCACTACTAAGTGGCATCCTCATTT
* **
61674 TTTCTTCCAAGTCCATGACTCAGTGGCATTTCTTTTCCAAAGTCCATGACTCAGTGGCAATTCTT
66 TTTCTTCCAAGTCCATGACTCAATGGCATTTCTTTTCCAAAGTCCACAACTCAGTGGCAATTCTT
* * *
61739 CTCCAAGTCCACTACTTAGTGGCATCTC
131 CTCCAAGTCCACAACTCAATGGCATCTC
61767 TTCCAAAAGCCCACGACTC-CGTGGCACCTTTCCTAAAAGTCCACTACTCAAG-GGCATCCTCAT
1 TTCCAAAAGCCCACGACTCTC-TGGCACCTTTCCTAAAAGTCCACTACT-AAGTGGCATCCTCAT
61830 TTTTTCTTCCAAGTCCATGACTCAATGGCATTTCTTTTCCAAAGTCCACAACTCAGTGGCAATTC
64 TTTTTCTTCCAAGTCCATGACTCAATGGCATTTCTTTTCCAAAGTCCACAACTCAGTGGCAATTC
61895 TTCTCCAAGTCCACAACTCAATGGCATCT
129 TTCTCCAAGTCCACAACTCAATGGCATCT
61924 TTTTTCTTCC
Statistics
Matches: 144, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
157 1 0.01
158 141 0.98
159 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.31
Consensus pattern (158 bp):
TTCCAAAAGCCCACGACTCTCTGGCACCTTTCCTAAAAGTCCACTACTAAGTGGCATCCTCATTT
TTTCTTCCAAGTCCATGACTCAATGGCATTTCTTTTCCAAAGTCCACAACTCAGTGGCAATTCTT
CTCCAAGTCCACAACTCAATGGCATCTC
Found at i:61929 original size:61 final size:63
Alignment explanation
Indices: 61837--62011 Score: 185
Period size: 64 Copynumber: 2.8 Consensus size: 63
61827 CATTTTTTCT
*
61837 TCCAAGTCCATGACTCAATGGCA-TTTCTT-TTCCAAAGTCCACAACTCAGTGGCAAT-TCTTC
1 TCCAAGTCCACGACTCAATGGCATTTTCTTCTTCCAAAGTCCACAACTCAGTGGC-ATCTCTTC
* * * * *
61898 TCCAAGTCCACAACTCAATGGCATCTTTTTTCTTCCAAAGTCTACTACTCAGTGGCATCTCTTT
1 TCCAAGTCCACGACTCAATGGCAT-TTTCTTCTTCCAAAGTCCACAACTCAGTGGCATCTCTTC
* ** * * * *
61962 TCAAAGTCCACGACTCCGTGGCACCTTTCTTTTTTCAAAGCCCACAACTC
1 TCCAAGTCCACGACTCAATGGCA-TTTTCTTCTTCCAAAGTCCACAACTC
62012 TATAGCACCC
Statistics
Matches: 92, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
61 21 0.23
63 7 0.08
64 64 0.70
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.32
Consensus pattern (63 bp):
TCCAAGTCCACGACTCAATGGCATTTTCTTCTTCCAAAGTCCACAACTCAGTGGCATCTCTTC
Found at i:62230 original size:43 final size:43
Alignment explanation
Indices: 62174--62345 Score: 146
Period size: 43 Copynumber: 3.8 Consensus size: 43
62164 AAGCCGAATG
* * *
62174 TCGCTAGCATTGAATTAGCACATTGGCAGCTTTAAGTCCAATA
1 TCGCTAGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATA
* * * * *
62217 TCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATTTTTAAGTCTAATG
1 TCGCTAGCCTTGAATCAGCACATTGGC-AC-----C---TTTAAGTCCAATA
* * * *
62269 TCGCTGGCCTTAAATTAGTACATTGGCACCTTTAAGTCCAATA
1 TCGCTAGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATA
*
62312 TCGCTAGCCTTGAATCAGCATATTGGCACCTTTA
1 TCGCTAGCCTTGAATCAGCACATTGGCACCTTTA
62346 CCATCTTAAG
Statistics
Matches: 100, Mismatches: 20, Indels: 18
0.72 0.14 0.13
Matches are distributed among these distances:
43 63 0.63
46 1 0.01
49 1 0.01
51 1 0.01
52 34 0.34
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (43 bp):
TCGCTAGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATA
Found at i:62273 original size:52 final size:51
Alignment explanation
Indices: 62204--62492 Score: 222
Period size: 51 Copynumber: 5.8 Consensus size: 51
62194 CATTGGCAGC
*
62204 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCA-T
* * * * * *
62256 TTTAAGTCTAATGTCGCTGGCCTTAAATTAGTACATTGGCA-C-----C--
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* **
62299 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTACCAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* * ** * * *
62350 CTTAAG-CCAAATACCATTGGCCTTGAATCAGCATATTTGCACTTTTTTCATCT
1 TTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCA--T
* ** * * *
62403 TTTAAGCCCAATGGCGCTAGCCTTGAATCAGTATATTGGCACTTTTGTC--
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* * * *
62452 TTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
62493 TAAGCCCAAT
Statistics
Matches: 187, Mismatches: 38, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
43 34 0.18
44 1 0.01
46 1 0.01
49 36 0.19
50 2 0.01
51 39 0.21
52 34 0.18
53 38 0.20
54 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (51 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
Found at i:62333 original size:95 final size:95
Alignment explanation
Indices: 62170--62619 Score: 287
Period size: 95 Copynumber: 4.7 Consensus size: 95
62160 TTCTAAGCCG
* * *
62170 AATGTCGCTAGCATTGAATTAGCACATTGGCAGCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
1 AATGTCGCTAGCATTAAATTAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCCTTGAATCAG
*
62235 CATATTGGCGCCTTTGTCATTTTTAAGTCT
66 CATATTGGCACCTTTGTCATTTTTAAGTCT
* * *
62265 AATGTCGCTGGCCTTAAATTAGTACATTGGCACCTTTAAGTCCAATATCGCTAGCCTTGAATCAG
1 AATGTCGCTAGCATTAAATTAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCCTTGAATCAG
** * *
62330 CATATTGGCACCTTTACCA-TCTTAAGCCAAAT
66 CATATTGGCACCTTTGTCATTTTTAAGTC---T
* * * * * * ** * * **
62362 ACCAT-TGGCCTTGAATCAGCATATTTGCACTTTTTTCATCTTTTAAGCCCAATGGCGCTAGCCT
1 A--ATGTCG-CTAGCATTA--A-ATTAGCAC-ATTGGCA-CCTTTAAGTCCAATATCGCTAGCCT
* * * *
62426 TGAATCAGTATATTGGCACTTTTGTC---TTTAAGACC
58 TGAATCAGCATATTGGCACCTTTGTCATTTTTAAGTCT
* * * * * * * *
62461 AATGTCACTGGCCTTGAATCAGCACATTGGCA----TAAGCCCAATATCACTAGCCTTTAATCAG
1 AATGTCGCTAGCATTAAATTAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCCTTGAATCAG
* * *
62522 CATAGTGGCACCTTTGTCATCTTTTAAGACC
66 CATATTGGCACCTTTGTCAT-TTTTAAGTCT
* * * * * * * *
62553 AATGTCGTTAGCTTTGAATCAGCACATTAGCA-C---AAGCCCAATATCGCTGGCCTTAAATCAG
1 AATGTCGCTAGCATTAAATTAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCCTTGAATCAG
62614 CATATT
66 CATATT
62620 AGCAGGCGCC
Statistics
Matches: 278, Mismatches: 60, Indels: 37
0.74 0.16 0.10
Matches are distributed among these distances:
88 40 0.14
92 66 0.24
93 4 0.01
94 13 0.05
95 76 0.27
97 8 0.03
98 3 0.01
99 8 0.03
101 1 0.00
102 12 0.04
103 4 0.01
104 43 0.15
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (95 bp):
AATGTCGCTAGCATTAAATTAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCCTTGAATCAG
CATATTGGCACCTTTGTCATTTTTAAGTCT
Found at i:62378 original size:51 final size:50
Alignment explanation
Indices: 62318--62492 Score: 174
Period size: 53 Copynumber: 3.4 Consensus size: 50
62308 AATATCGCTA
* * * *
62318 GCCTTGAATCAGCATATTGGCACCTTTACCATCTTAAGCCAAATACCATTG
1 GCCTTGAATCAGCATATTGGCACTTTTATCATCTTAAGCC-AATGCCACTG
* * * * *
62369 GCCTTGAATCAGCATATTTGCACTTTTTTCATCTTTTAAGCCCAATGGCGCTA
1 GCCTTGAATCAGCATATTGGCACTTTTATCATC--TTAAG-CCAATGCCACTG
* * *
62422 GCCTTGAATCAGTATATTGGCACTTTTGTC-T-TTAAGACCAATGTCACTG
1 GCCTTGAATCAGCATATTGGCACTTTTATCATCTTAAG-CCAATGCCACTG
*
62471 GCCTTGAATCAGCACATTGGCA
1 GCCTTGAATCAGCATATTGGCA
62493 TAAGCCCAAT
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 34 0.33
51 29 0.28
52 1 0.01
53 37 0.36
54 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (50 bp):
GCCTTGAATCAGCATATTGGCACTTTTATCATCTTAAGCCAATGCCACTG
Found at i:62531 original size:39 final size:39
Alignment explanation
Indices: 62454--62531 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
62444 CTTTTGTCTT
* * *
62454 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATATCACTAGCCTTGAATCAGCACAGTGGCA
* * *
62493 TAAGCCCAATATCACTAGCCTTTAATCAGCATAGTGGCA
1 TAAGACCAATATCACTAGCCTTGAATCAGCACAGTGGCA
62532 CCTTTGTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (39 bp):
TAAGACCAATATCACTAGCCTTGAATCAGCACAGTGGCA
Found at i:62590 original size:92 final size:90
Alignment explanation
Indices: 62419--62668 Score: 299
Period size: 92 Copynumber: 2.8 Consensus size: 90
62409 CCCAATGGCG
* * * * *
62419 CTAGCCTTGAATCAGTATATTGGCA-CTTTT-GTCTTTAAGACCAATGTCACTGGCCTTGAATCA
1 CTAGCCTTAAATCAGCATATTGGCACCTTTTCATCTTTAAGACCAATGTCGCTAGCCTTGAATCA
* *
62482 GCACATTGGCATAAGCCCAATATCA
66 GCACATTAGCACAAGCCCAATATCA
* * * *
62507 CTAGCCTTTAATCAGCATAGTGGCACCTTTGTCATCTTTTAAGACCAATGTCGTTAGCTTTGAAT
1 CTAGCCTTAAATCAGCATATTGGCACCTTT-TCATC-TTTAAGACCAATGTCGCTAGCCTTGAAT
*
62572 CAGCACATTAGCACAAGCCCAATATCG
64 CAGCACATTAGCACAAGCCCAATATCA
* * *
62599 CTGGCCTTAAATCAGCATATTAGCAGGCGC-CTTCATCTTTAAGACCAATGTCGCTAGCCTTGAA
1 CTAGCCTTAAATCAGCATATTGGCA--C-CTTTTCATCTTTAAGACCAATGTCGCTAGCCTTGAA
62663 TCAGCA
63 TCAGCA
62669 TATTGGTACC
Statistics
Matches: 137, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
88 22 0.16
89 4 0.03
90 1 0.01
91 2 0.01
92 100 0.73
93 5 0.04
94 2 0.01
95 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (90 bp):
CTAGCCTTAAATCAGCATATTGGCACCTTTTCATCTTTAAGACCAATGTCGCTAGCCTTGAATCA
GCACATTAGCACAAGCCCAATATCA
Found at i:70929 original size:20 final size:20
Alignment explanation
Indices: 70901--70977 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
70891 GTAAAAAGAC
*
70901 AGAACGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
70921 AGAATGTATCAATACATTCA
1 AGAATGTATCGATACATTGA
* * *
70941 TA-CATGTATCGGTATATTGA
1 -AGAATGTATCGATACATTGA
*
70961 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
70978 CTTTGGTAAA
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:71630 original size:57 final size:57
Alignment explanation
Indices: 71514--72566 Score: 1323
Period size: 57 Copynumber: 18.4 Consensus size: 57
71504 AAAAGAAATG
* * * * *
71514 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCAATTCATGTGGGCTTTGAAATGA
1 GTGCCACTGAC-T-TGTGGGCTTTG-AAAG-GGTGCCACTAA--CTTGTGGGCTTTGAAAAGA
* *
71577 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
* * * ** * *
71634 -TACCACTAACTTATGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
* * * *
71691 GTGCCACTGATTTGTGAGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
* *
71748 GTGCCACTGACTTGTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
* * * * *
71807 -TGCCACTAACTTATGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTT-AAAAGG
1 GTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
** * * * *
71863 GTGCCACTGACTTGTGGGCTTTGAAAATAGTGCCACTGATTTGTGGGCTTCG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
* * * * * *
71920 GTGCCACTGATTTGTGGGCTTTGAAAGGATGCCATTGACTTGTGGTCTTTGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
* *
71977 GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGT
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
* * *
72034 GTGCCACTGATTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
* * *
72091 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGCGAGTTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
* * *
72148 GGGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAACAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
* * * * *
72205 GTACCACTGATTTGTGGGCTTTGAAACGAGTGCCACTAACTTGTGAGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAA-GGGTGCCACTAACTTGTGGGCTTTGAAAAGA
* *
72262 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGCGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
* *
72319 GTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAATAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
* * * * * *
72376 GTACCATTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
*
72433 GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
* *
72490 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAA-A
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
72545 GTGCCACTGACTTGTGGGCTTT
1 GTGCCACTGACTTGTGGGCTTT
72567 CAAGAGATGA
Statistics
Matches: 873, Mismatches: 104, Indels: 34
0.86 0.10 0.03
Matches are distributed among these distances:
55 23 0.03
56 103 0.12
57 572 0.66
58 128 0.15
59 21 0.02
60 4 0.00
61 11 0.01
62 1 0.00
63 10 0.01
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (57 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
Found at i:73846 original size:9 final size:8
Alignment explanation
Indices: 73814--73844 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
73804 TTTCTTGGTT
73814 TTTTTTTG
1 TTTTTTTG
73822 TTTTTTTG
1 TTTTTTTG
73830 TTTTTTTG
1 TTTTTTTG
73838 TTTTTTT
1 TTTTTTT
73845 TGGGTGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (8 bp):
TTTTTTTG
Found at i:84668 original size:13 final size:13
Alignment explanation
Indices: 84650--84675 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84640 CAATTTTTTG
84650 TGTATCGATACAT
1 TGTATCGATACAT
84663 TGTATCGATACAT
1 TGTATCGATACAT
84676 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:89190 original size:15 final size:15
Alignment explanation
Indices: 89170--89200 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
89160 ATTTCGTTTG
*
89170 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
89185 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
89200 G
1 G
89201 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:93262 original size:13 final size:13
Alignment explanation
Indices: 93244--93269 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93234 CAATTTTTTG
93244 TGTATCGATACAT
1 TGTATCGATACAT
93257 TGTATCGATACAT
1 TGTATCGATACAT
93270 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:93353 original size:20 final size:21
Alignment explanation
Indices: 93308--93360 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
93298 CTGCCAAGAA
* **
93308 ATGTATCGATACATCTTCTTC
1 ATGTATCGATACATCTGCAAC
93329 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTGCAAC
93349 ATGTATCGATAC
1 ATGTATCGATAC
93361 TTTGAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (21 bp):
ATGTATCGATACATCTGCAAC
Found at i:98134 original size:19 final size:20
Alignment explanation
Indices: 98091--98141 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
98081 TACAAGCAAA
**
98091 TGTATCGATACATTTTATGG
1 TGTATCGATACATACTATGG
*
98111 TGTATCGATACATACTGT-G
1 TGTATCGATACATACTATGG
98130 TGTATCGATACA
1 TGTATCGATACA
98142 AGTTTAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATACTATGG
Found at i:100562 original size:20 final size:21
Alignment explanation
Indices: 100533--100573 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
100523 TGTTTTTGAT
100533 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
100552 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
100574 AAGAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:100725 original size:13 final size:13
Alignment explanation
Indices: 100707--100740 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
100697 AATCCCTTTG
*
100707 TATCGATACACTA
1 TATCGATACAATA
*
100720 TATCGATACAATG
1 TATCGATACAATA
100733 TATCGATA
1 TATCGATA
100741 TAGAGAATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:105303 original size:9 final size:9
Alignment explanation
Indices: 105289--105319 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
105279 TCTGAGTCAC
*
105289 CATCATCAT
1 CATCATCTT
105298 CATCATCTT
1 CATCATCTT
105307 CATCATCTT
1 CATCATCTT
105316 CATC
1 CATC
105320 GTCCTTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.39
Consensus pattern (9 bp):
CATCATCTT
Found at i:106952 original size:19 final size:20
Alignment explanation
Indices: 106909--106959 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
106899 TACAAGCAAA
**
106909 TGTATCGATACATTTTATGG
1 TGTATCGATACATACTATGG
*
106929 TGTATCGATACATACTGT-G
1 TGTATCGATACATACTATGG
106948 TGTATCGATACA
1 TGTATCGATACA
106960 AGTTTAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATACTATGG
Found at i:107049 original size:13 final size:13
Alignment explanation
Indices: 107031--107055 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107021 ACATTTGGTC
107031 ATGTATCGATACA
1 ATGTATCGATACA
107044 ATGTATCGATAC
1 ATGTATCGATAC
107056 TGTGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:107623 original size:20 final size:20
Alignment explanation
Indices: 107598--107675 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
107588 GTAAAAAGAC
107598 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
107618 AGAATGTATCAATACATTCA
1 AGAATGTATCGATACATTGA
* *
107638 TA-CATGTATCGATATATTGA
1 -AGAATGTATCGATACATTGA
*
107658 AAAATGTATCGATACATT
1 AGAATGTATCGATACATT
107676 TGGGTAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:111808 original size:13 final size:13
Alignment explanation
Indices: 111790--111814 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111780 ATTTTTCGAT
111790 GTATCGATACATG
1 GTATCGATACATG
111803 GTATCGATACAT
1 GTATCGATACAT
111815 TGATCTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
GTATCGATACATG
Found at i:111814 original size:33 final size:33
Alignment explanation
Indices: 111772--111834 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
111762 AAGGAAATGC
**
111772 ATCGATACATTTTTCGATGTATCGATACATGGT
1 ATCGATACATTGATCGATGTATCGATACATGGT
**
111805 ATCGATACATTGATCTTTGTATCGATACAT
1 ATCGATACATTGATCGATGTATCGATACAT
111835 CTGAGAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (33 bp):
ATCGATACATTGATCGATGTATCGATACATGGT
Found at i:115500 original size:31 final size:31
Alignment explanation
Indices: 115460--115766 Score: 211
Period size: 30 Copynumber: 9.8 Consensus size: 31
115450 TCCTTTTTTC
* *
115460 TTCC-AAGTCCATGACTTAGTGGCATTTCTT
1 TTCCAAAGTCCACGACTCAGTGGCATTTCTT
*
115490 TTCCAAAGTCCACGACGT-AGTGGCAATTCTT
1 TTCCAAAGTCCACGAC-TCAGTGGCATTTCTT
* * *
115521 CTCC-AAGTCCATGACTCAATGGCA--TCTT
1 TTCCAAAGTCCACGACTCAGTGGCATTTCTT
* * *
115549 TTCCAAAAGCCCACGACTCCGTGGCA---CCT
1 TTCC-AAAGTCCACGACTCAGTGGCATTTCTT
* * * *
115578 TTCCTAAAAGTCCACTACTCGGGGGCATCCTCTTTTT
1 TTCC--AAAGTCCACGACTCAGTGGCA---T-TTCTT
*
115615 TTCTTCCAAGTCCACGACTCAGTGGCATTTCTT
1 TTC--CAAAGTCCACGACTCAGTGGCATTTCTT
* *
115648 TTCCAAAGTCCATGACTCAGTGGCAATTCTT
1 TTCCAAAGTCCACGACTCAGTGGCATTTCTT
* * * *
115679 CT-CTAAGTCTACGACTCAGTGGCATCTTTTT
1 TTCCAAAGTCCACGACTCAGTGGCAT-TTCTT
* * *
115710 TCTCCCAAAGTCTATGACTCAGTGGCATCTCTT
1 T-T-CCAAAGTCCACGACTCAGTGGCATTTCTT
*
115743 TT-CAAAGTCCACGACTCCGTGGCA
1 TTCCAAAGTCCACGACTCAGTGGCA
115767 CCTTTTTCTT
Statistics
Matches: 219, Mismatches: 39, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
28 7 0.03
29 7 0.03
30 92 0.42
31 55 0.25
32 3 0.01
33 11 0.05
34 22 0.10
37 21 0.10
39 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.32
Consensus pattern (31 bp):
TTCCAAAGTCCACGACTCAGTGGCATTTCTT
Found at i:115679 original size:158 final size:158
Alignment explanation
Indices: 115385--115708 Score: 515
Period size: 158 Copynumber: 2.0 Consensus size: 158
115375 AATCTTTCAA
* * *
115385 ATCTTGTTCCAAAAGCCCATGACTCCGTGGCACTTTTCCTAAAAGTCCACTACTCAGTGGCATCC
1 ATCTT-TTCCAAAAGCCCACGACTCCGTGGCACCTTTCCTAAAAGTCCACTACTCAGGGGCATCC
* *
115450 TCCTTTTTTCTTCCAAGTCCATGACTTAGTGGCATTTCTTTTCCAAAGTCCACGACGTAGTGGCA
65 TCCTTTTTTCTTCCAAGTCCACGACTCAGTGGCATTTCTTTTCCAAAGTCCACGACGTAGTGGCA
*
115515 ATTCTTCTCCAAGTCCATGACTCAATGGC
130 ATTCTTCTCCAAGTCCACGACTCAATGGC
*
115544 ATCTTTTCCAAAAGCCCACGACTCCGTGGCACCTTTCCTAAAAGTCCACTACTCGGGGGCATCCT
1 ATCTTTTCCAAAAGCCCACGACTCCGTGGCACCTTTCCTAAAAGTCCACTACTCAGGGGCATCCT
* *
115609 CTTTTTTTCTTCCAAGTCCACGACTCAGTGGCATTTCTTTTCCAAAGTCCATGAC-TCAGTGGCA
66 CCTTTTTTCTTCCAAGTCCACGACTCAGTGGCATTTCTTTTCCAAAGTCCACGACGT-AGTGGCA
* * *
115673 ATTCTTCTCTAAGTCTACGACTCAGTGGC
130 ATTCTTCTCCAAGTCCACGACTCAATGGC
115702 ATCTTTT
1 ATCTTTT
115709 TTCTCCCAAA
Statistics
Matches: 152, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
157 1 0.01
158 146 0.96
159 5 0.03
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (158 bp):
ATCTTTTCCAAAAGCCCACGACTCCGTGGCACCTTTCCTAAAAGTCCACTACTCAGGGGCATCCT
CCTTTTTTCTTCCAAGTCCACGACTCAGTGGCATTTCTTTTCCAAAGTCCACGACGTAGTGGCAA
TTCTTCTCCAAGTCCACGACTCAATGGC
Found at i:115751 original size:64 final size:62
Alignment explanation
Indices: 115615--115773 Score: 200
Period size: 64 Copynumber: 2.6 Consensus size: 62
115605 TCCTCTTTTT
*
115615 TTCTTC-C-AAGTCCACGACTCAGTGGCAT-TTCTTTTCCAAAGTCCATGACTCAGTGGCAA
1 TTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTTTTCCAAAGTCCATGACTCAGTGGCAA
* * *
115674 TTCTTCTCTAAGTCTACGACTCAGTGGCATCTTTTTTCTCCCAAAGTCTATGACTCAGTGGC-A
1 TTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTTT-T-CCAAAGTCCATGACTCAGTGGCAA
* * *
115737 TCTCTTTTCAAAGTCCACGACTCCGTGGCACCTTTTT
1 T-TCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTT
115774 CTTTTCCAAG
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
59 6 0.07
60 1 0.01
61 20 0.23
62 5 0.06
63 3 0.03
64 51 0.59
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.35
Consensus pattern (62 bp):
TTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTTTTCCAAAGTCCATGACTCAGTGGCAA
Found at i:115773 original size:158 final size:154
Alignment explanation
Indices: 115385--115793 Score: 419
Period size: 158 Copynumber: 2.6 Consensus size: 154
115375 AATCTTTCAA
* * * * * *
115385 ATCTTGTTCCAAAAGCCCATGACTCCGTGGCACTTTTCCTAAAAGTCCACTACTCAGTGGCATCC
1 ATCTT-TTCCAAAAGCCCACGACTCAGTGGCACCTTT-CTAAAAGTCCACGACTCCGGGGCA--C
* *
115450 TCCTTTTTTCTTCCAAGTCCATGACTTAGTGGCATTTCTTTTCCAAAGTCCACGACGTAGTGGCA
62 -CCTTTTTTCTTCCAAGTCCACGACTCAGTGGCATTTCTTTTCCAAAGTCCACGACGTAGTGGCA
*
115515 ATTCTTCTCCAAGTCCATGACTCAATGGC
126 ATTCTTCTCCAAGTCCACGACTCAATGGC
* * *
115544 ATCTTTTCCAAAAGCCCACGACTCCGTGGCACCTTTCCTAAAAGTCCACTACTCGGGGGCATCCT
1 ATCTTTTCCAAAAGCCCACGACTCAGTGGCACCTTT-CTAAAAGTCCACGACTCCGGGGCA-CC-
*
115609 CTTTTTTTCTTCCAAGTCCACGACTCAGTGGCATTTCTTTTCCAAAGTCCATGAC-TCAGTGGCA
63 C-TTTTTTCTTCCAAGTCCACGACTCAGTGGCATTTCTTTTCCAAAGTCCACGACGT-AGTGGCA
* * *
115673 ATTCTTCTCTAAGTCTACGACTCAGTGGC
126 ATTCTTCTCCAAGTCCACGACTCAATGGC
* * * * * *
115702 ATCTTTTTTCTCCCAAAGTCTATGACTCAGTGGCATCTCTTT-TCAAAGTCCACGACTCCGTGGC
1 ATC---TTT-TCCAAAAGCCCACGACTCAGTGGCA-C-CTTTCTAAAAGTCCACGACTCCGGGGC
* * *
115766 A-CCTTTTTCTTTTCCAAGCCCACAACTC
60 ACCCTTTTT-TCTTCCAAGTCCACGACTC
115794 TGTGACACCT
Statistics
Matches: 216, Mismatches: 24, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
156 1 0.00
157 3 0.01
158 142 0.66
159 22 0.10
160 1 0.00
161 3 0.01
162 39 0.18
163 1 0.00
164 4 0.02
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.32
Consensus pattern (154 bp):
ATCTTTTCCAAAAGCCCACGACTCAGTGGCACCTTTCTAAAAGTCCACGACTCCGGGGCACCCTT
TTTTCTTCCAAGTCCACGACTCAGTGGCATTTCTTTTCCAAAGTCCACGACGTAGTGGCAATTCT
TCTCCAAGTCCACGACTCAATGGC
Found at i:115777 original size:34 final size:34
Alignment explanation
Indices: 115739--115947 Score: 129
Period size: 33 Copynumber: 6.3 Consensus size: 34
115729 CAGTGGCATC
*
115739 TCTTTTCAAAGTCCACGACTCCGTGGCACCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
* * * *
115773 TCTTTTCCAAGCCCACAACTCTGTGACACC-TTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
** * *
115806 T-TTCCCTAAAGTCCATAACTCCTTGGCACCTTGTT
1 TCTTTTC-AAAGTCCACAACTCCGTGGCACCTT-TT
* *
115841 CCTTTT-AAA-TCCACAACTCCATGGCACCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
* *
115873 CCTTTT--AAGCCCACAACACAACTCCGTGGCACC---T
1 TCTTTTCAAAG---TC--CACAACTCCGTGGCACCTTTT
*
115907 T-TTTT--AAGTCCATAACTCCGTGGCACC-TTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
115937 TCTTTTTCAAA
1 TC-TTTTCAAA
115948 AGCCCACACA
Statistics
Matches: 136, Mismatches: 23, Indels: 32
0.71 0.12 0.17
Matches are distributed among these distances:
28 16 0.12
30 3 0.02
31 2 0.01
32 15 0.11
33 47 0.35
34 32 0.24
35 3 0.02
36 2 0.01
37 16 0.12
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.34
Consensus pattern (34 bp):
TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
Found at i:116042 original size:43 final size:43
Alignment explanation
Indices: 115972--116159 Score: 169
Period size: 43 Copynumber: 4.1 Consensus size: 43
115962 GGTGGCATCT
* * * * *
115972 CCTTCTAAGCCCAATGTCACTGACCTTGAATCAGGACATTGGCA
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
116016 TCTTTAAGTCCAATATCGATGGCCTTGAATCAGCATAATGGTGCCTTTGTCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA-CAT--TG-----G-CA
* * *
116068 TCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
116111 CCTTTAAGTCCAATATCTCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
116154 CCTTTA
1 CCTTTA
116160 CCATCTTAAG
Statistics
Matches: 118, Mismatches: 17, Indels: 19
0.77 0.11 0.12
Matches are distributed among these distances:
43 71 0.60
44 6 0.05
46 2 0.02
49 2 0.02
51 3 0.03
52 34 0.29
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (43 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:116145 original size:95 final size:93
Alignment explanation
Indices: 115977--116209 Score: 286
Period size: 95 Copynumber: 2.5 Consensus size: 93
115967 CATCTCCTTC
* * * *
115977 TAAGCCCAATGTCACTGACCTTGAATCAGGACATTGGCATCTTTAAGTCCAATATCGATGGCCTT
1 TAAGTCCAATGTCGCTG-CCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGATGGCCTT
** **
116042 GAATCAGCATAATGGTGCCTTTGTCATCTT
65 GAATCAGCATAATGGCACCTTTACCATC-T
**
116072 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCTCTGGCCTT
1 TAAGTCCAATGTCGCT-GCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGATGGCCTT
*
116137 GAATCAGCATATTGGCACCTTTACCATCT
65 GAATCAGCATAATGGCACCTTTACCATCT
** * * *
116166 TAAGTCCAATACCGCGGGCCTTGAATCAGCATATTAGCACCTTT
1 TAAGTCCAATGTCGC-TGCCTTGAATCAGCACATTGGCACCTTT
116210 CTCATCTTCT
Statistics
Matches: 120, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
94 39 0.32
95 80 0.67
96 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (93 bp):
TAAGTCCAATGTCGCTGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGATGGCCTTG
AATCAGCATAATGGCACCTTTACCATCT
Found at i:116190 original size:51 final size:52
Alignment explanation
Indices: 116112--116257 Score: 197
Period size: 51 Copynumber: 2.8 Consensus size: 52
116102 ACATTGGCAC
*
116112 CTTTAAGTCCAATATCTCTGGCCTTGAATCAGCATATTGGCACCTTTAC-CAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-CTCAT
* * *
116164 C-TTAAGTCCAATACCGCGGGCCTTGAATCAGCATATTAGCACCTTTCTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCTCAT
* * *
116215 CTTCTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 CTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
116258 TAAGCCCAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
50 1 0.01
51 45 0.56
52 2 0.02
53 33 0.41
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCTCAT
Found at i:116449 original size:92 final size:91
Alignment explanation
Indices: 116166--116474 Score: 365
Period size: 92 Copynumber: 3.4 Consensus size: 91
116156 TTTACCATCT
* * * * * * *
116166 TAAGTCCAATACCGCGGGCCTTGAATCAGCATATTAGCACCTTTCTCATCTTCTAAGCCCAATGT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTCTCATCTTTTAAGACCAATGC
116231 CGCTGGCCTTGAATCAGCACATTGGCA
65 CGCTGGCCTTGAATCAGCACATTGGCA
*** * * * * *
116258 TAAGCCCAATATTATTAGCCTTGAATCAGCATATTGGCACCTT-T-GTC-TTCAAGAGCAATGCC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTCTCATCTTTTAAGACCAATGCC
* * *
116320 ACTGGCCTTGAATCAACACATTCGCA
66 GCTGGCCTTGAATCAGCACATTGGCA
**
116346 CT-AGCCCAATATCGCTGGCCTTGAATCAAAATATTGGCACTTTTCTCATCTTTTAAGACCAATG
1 -TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC-TTTCTCATCTTTTAAGACCAATG
*
116410 CCGTTGGCCTTGAATCAGCACATTGGCA
64 CCGCTGGCCTTGAATCAGCACATTGGCA
*
116438 TAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGG
116475 TAAGCACCTT
Statistics
Matches: 176, Mismatches: 35, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
88 65 0.37
89 5 0.03
90 2 0.01
91 6 0.03
92 98 0.56
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (91 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTCTCATCTTTTAAGACCAATGCC
GCTGGCCTTGAATCAGCACATTGGCA
Found at i:116493 original size:92 final size:90
Alignment explanation
Indices: 116166--116527 Score: 324
Period size: 92 Copynumber: 4.0 Consensus size: 90
116156 TTTACCATCT
* * * * *
116166 TAAGTCCAATACCGCGGGCCTTGAATCAGCATATT--AGCACCTTTCTCATCTTCTAAGCCCAAT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGAGCACC--T-TAATCTT-TAAGACCAAT
*
116229 GTCGCTGGCCTTGAATCAGCACATTGGCA
62 GCCGCTGGCCTTGAATCAGCACATTGGCA
*** * ** * * *
116258 TAAGCCCAATATTATTAGCCTTGAATCAGCATATT-G-GCACCTTTGTCTTCAAGAGCAATGCCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGAGCACCTTAATCTTTAAGACCAATGCCG
* *
116321 CTGGCCTTGAATCAACACATTCGCA
66 CTGGCCTTGAATCAGCACATTGGCA
** * *
116346 CT-AGCCCAATATCGCTGGCCTTGAATCAAAATATT-G-GCACTTTTCTCATCTTTTAAGACCAA
1 -TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGAGCAC--CT-TAATC-TTTAAGACCAA
*
116408 TGCCGTTGGCCTTGAATCAGCACATTGGCA
61 TGCCGCTGGCCTTGAATCAGCACATTGGCA
* * *
116438 TAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGGTAAGCACCTTAAACTTTAAGACCAATGT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGG--AGCACCTTAATCTTTAAGACCAATGC
** *
116503 CGCTACCCTTGAATCAGCATATTGG
64 CGCTGGCCTTGAATCAGCACATTGG
116528 TCCCTTTTAT
Statistics
Matches: 217, Mismatches: 42, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
88 64 0.29
89 6 0.03
90 2 0.01
91 4 0.02
92 132 0.61
93 4 0.02
94 1 0.00
96 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (90 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGAGCACCTTAATCTTTAAGACCAATGCCG
CTGGCCTTGAATCAGCACATTGGCA
Found at i:116624 original size:52 final size:53
Alignment explanation
Indices: 116488--116630 Score: 159
Period size: 53 Copynumber: 2.7 Consensus size: 53
116478 GCACCTTAAA
* * * *
116488 CTTTAAGACCAATGTCGCTACCCTTGAATCAGCATATTGGTCCCTTTTATCAT
1 CTTTAAGCCCAATGTCGCTAGCCTTGAATCAGCACATTGGTCCCTTCTATCAT
* * * *
116541 CTTTAAGTCTAATGTCACTGGCCTTGAATCAGCACATTGG-CACCTTCT-TC-T
1 CTTTAAGCCCAATGTCGCTAGCCTTGAATCAGCACATTGGTC-CCTTCTATCAT
116592 -TTCTCAAGCCCAATGTCGCTAGCCTTGAATCAGCACATT
1 CTT-T-AAGCCCAATGTCGCTAGCCTTGAATCAGCACATT
116631 AGCATCTTTA
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
50 2 0.03
51 2 0.03
52 33 0.43
53 39 0.51
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.34
Consensus pattern (53 bp):
CTTTAAGCCCAATGTCGCTAGCCTTGAATCAGCACATTGGTCCCTTCTATCAT
Found at i:116775 original size:61 final size:61
Alignment explanation
Indices: 116676--116812 Score: 168
Period size: 61 Copynumber: 2.2 Consensus size: 61
116666 AGCATATTAA
* * *
116676 CATTCTTCACATCTTTAAGCCCAATATCATTGGCCTTGAATCAGCATGTTGGCA-CTTTTAT
1 CATTCTTCTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCATC-TTTAT
* ** * * *
116737 TATTCTTCTCATCTTTAAGCCTGATATCGCTGGTCTTGAATTAGCATATTGGCATCTTTAT
1 CATTCTTCTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCATCTTTAT
*
116798 CACTCTTCTCATCTT
1 CATTCTTCTCATCTT
116813 CATTCTTTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 63 0.98
62 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (61 bp):
CATTCTTCTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCATCTTTAT
Found at i:119113 original size:16 final size:15
Alignment explanation
Indices: 119088--119118 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
119078 AAATATCTTT
119088 CCAACTATCTAGAAC
1 CCAACTATCTAGAAC
119103 CCAAGCTATCTAGAAC
1 CCAA-CTATCTAGAAC
119119 TCTTGGAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.39, C:0.32, G:0.10, T:0.19
Consensus pattern (15 bp):
CCAACTATCTAGAAC
Found at i:121965 original size:11 final size:11
Alignment explanation
Indices: 121941--121994 Score: 56
Period size: 12 Copynumber: 4.7 Consensus size: 11
121931 ACTAGCTTGG
*
121941 TTTTTCACTATT
1 TTTTTCTCT-TT
121953 TTTTT-TCTTT
1 TTTTTCTCTTT
121963 TTTTTCTCTCTT
1 TTTTTCTCT-TT
121975 TTCTTTCTCTTT
1 TT-TTTCTCTTT
*
121987 TTCTTCTC
1 TTTTTCTC
121995 ACTTGGCCAG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
10 7 0.19
11 10 0.27
12 13 0.35
13 7 0.19
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTCTCTTT
Found at i:121967 original size:22 final size:24
Alignment explanation
Indices: 121941--121997 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
121931 ACTAGCTTGG
121941 TTTTTCACTATTTT-TTT-TCTTT
1 TTTTTCACTATTTTCTTTCTCTTT
* *
121963 TTTTTCTCTCTTTTCTTTCTCTTT
1 TTTTTCACTATTTTCTTTCTCTTT
121987 TTCTTCTCACT
1 TT-TT-TCACT
121998 TGGCCAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 12 0.43
23 3 0.11
24 7 0.25
25 2 0.07
26 4 0.14
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTTCACTATTTTCTTTCTCTTT
Found at i:121974 original size:13 final size:13
Alignment explanation
Indices: 121958--121991 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
121948 CTATTTTTTT
*
121958 TCTTTTTTTTCTC
1 TCTTTTCTTTCTC
121971 TCTTTTCTTTCTC
1 TCTTTTCTTTCTC
121984 T-TTTTCTT
1 TCTTTTCTT
121992 CTCACTTGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TCTTTTCTTTCTC
Found at i:122737 original size:167 final size:165
Alignment explanation
Indices: 122455--122878 Score: 434
Period size: 167 Copynumber: 2.6 Consensus size: 165
122445 CGATTTCTTG
* *
122455 AAAAAAAAAGA-AATTTCAACAAAAAAATTC-AAAACTCATGAAAATGAATT-AATTTTTCAAAA
1 AAAAAAAAAGAGAATTTCAACAAAAAAAATCAAAAACTCATGAAAATG-ATTGAATTTTTGAAAA
* * * * * * *
122517 -TGGATTTAATATG-AATCAAATAATGATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAC
65 CT--AATTAATATGAAAT-AAATGATAAT-TTTTATGAATCTTAAAAACTGAAAACCAAGAAAAA
*
122580 TCC-CCTCAAAAAAATTTACGGAGCAGAAAATACCGTATTTT
126 TCCACCTCAAAAAAA-TTACGGAGCAGAAAACACCGTA-TTT
** *
122621 AAAAAAAAAGAGAATTTCAACAAAAAAAATCAAAAACTTGTGCAAATGATTGAATTTTTGAAAAC
1 AAAAAAAAAGAGAATTTCAACAAAAAAAATCAAAAACTCATGAAAATGATTGAATTTTTGAAAAC
* * *
122686 TAAATTAATATGAAATAAATGCTAAATTTTTATTAATCTT-AAAACTGAAAACCGAGAAAAATCC
66 T-AATTAATATGAAATAAATGAT-AATTTTTATGAATCTTAAAAACTGAAAACCAAGAAAAATCC
* ** * * *
122750 ACTTGGAAAAAATTATGGAGTAGAAAACATCGTATTT
129 ACCTCAAAAAAATTACGGAGCAGAAAACACCGTATTT
** ** * * * *
122787 CGAAAAAAA-AGAATTTCAA-GGAAAAAATAAAAAACACATGAAAATGAATGAATTTTTGGAAAC
1 AAAAAAAAAGAGAATTTCAACAAAAAAAATCAAAAACTCATGAAAATGATTGAATTTTTGAAAAC
122850 TAATTAATATGAAATAAATGATAATTTTT
66 TAATTAATATGAAATAAATGATAATTTTT
122879 GGAAAAAATT
Statistics
Matches: 216, Mismatches: 35, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
162 7 0.03
163 20 0.09
164 36 0.17
165 10 0.05
166 21 0.10
167 60 0.28
168 56 0.26
169 6 0.03
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (165 bp):
AAAAAAAAAGAGAATTTCAACAAAAAAAATCAAAAACTCATGAAAATGATTGAATTTTTGAAAAC
TAATTAATATGAAATAAATGATAATTTTTATGAATCTTAAAAACTGAAAACCAAGAAAAATCCAC
CTCAAAAAAATTACGGAGCAGAAAACACCGTATTT
Found at i:124793 original size:19 final size:19
Alignment explanation
Indices: 124765--124806 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
124755 AGGCCCTTGG
*
124765 GTATACCTTCGACATGAAA
1 GTATAACTTCGACATGAAA
*
124784 GTATAACTTCGACGTGAAA
1 GTATAACTTCGACATGAAA
124803 GTAT
1 GTAT
124807 CCCGGTAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (19 bp):
GTATAACTTCGACATGAAA
Found at i:124926 original size:173 final size:173
Alignment explanation
Indices: 124627--124961 Score: 422
Period size: 173 Copynumber: 1.9 Consensus size: 173
124617 CTTAGGCGTA
* * * *
124627 AAAGTATCTCGGTAACCCTAAAAGACATAAAAATGATGCTAGGAGAGTGAACCTCTCCTAAACAT
1 AAAGTATCCCGGTAACACTAAAAGACATAAAAATGATGCGAGGAGAGTGAACCTATCCTAAACAT
* * ** *
124692 ACATCTTTGGCATAACAGCAATTCGGTGGCTATGTAGGATTCAATTCTAGAGAAATTACCAAAAG
66 ACA-CTTTGGCATAAAAGCAATCCGGTGGCTACCTAAGATTCAATTCTAGAGAAATTACCAAAAG
* *
124757 GC-CCTTGGGTATACCTTCGACATGAAAGTATAACTTCGACGTG
130 GCTCCTAGGGTATACCTTCGACATAAAAGTATAACTTCGACGTG
* * * *
124800 AAAGTATCCCGGTAACACTAATAGACATGAAAATGATTCGAGGAGAGTGAACCTATCTTAAAAAC
1 AAAGTATCCCGGTAACACTAAAAGACATAAAAATGATGCGAGGAGAGTGAACCTATCCT--AAAC
* * * * *
124865 ATAC-CTTTGGCATAAAAGCGATCCGGTGGCTACCTAAGATTTAGTTCTAGGGAATTTACCAAAA
64 ATACACTTTGGCATAAAAGCAATCCGGTGGCTACCTAAGATTCAATTCTAGAGAAATTACCAAAA
* * *
124929 GGCTCCTAGTGTATACCTTTGACTTAAAAGTAT
129 GGCTCCTAGGGTATACCTTCGACATAAAAGTAT
124962 TTTGATAACC
Statistics
Matches: 136, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
173 104 0.76
174 24 0.18
175 8 0.06
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (173 bp):
AAAGTATCCCGGTAACACTAAAAGACATAAAAATGATGCGAGGAGAGTGAACCTATCCTAAACAT
ACACTTTGGCATAAAAGCAATCCGGTGGCTACCTAAGATTCAATTCTAGAGAAATTACCAAAAGG
CTCCTAGGGTATACCTTCGACATAAAAGTATAACTTCGACGTG
Found at i:128890 original size:28 final size:27
Alignment explanation
Indices: 128859--128913 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
128849 TATCCCTTCA
128859 GAAACAAC-GGGATTGGAGTATCCCCGAT
1 GAAACAACAGGG-TTGGAGTA-CCCCGAT
*
128887 GAAATAACAGGGTTGGAGTACCCCGAT
1 GAAACAACAGGGTTGGAGTACCCCGAT
128914 TTTGAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 7 0.28
28 15 0.60
29 3 0.12
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (27 bp):
GAAACAACAGGGTTGGAGTACCCCGAT
Found at i:128985 original size:28 final size:28
Alignment explanation
Indices: 128945--129015 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
128935 GATATAAAGC
128945 CGGGGTTAGAGTATCCCCTCA-GAAATAA
1 CGGGGTTAGAGTATCCCC-CATGAAATAA
*
128973 CGGGG-TAGGAGTATCCCCGATGAAATAA
1 CGGGGTTA-GAGTATCCCCCATGAAATAA
129001 CGGGGTTAGAGTATC
1 CGGGGTTAGAGTATC
129016 TCCAATTGTG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 3 0.08
28 34 0.87
29 2 0.05
ACGTcount: A:0.30, C:0.18, G:0.31, T:0.21
Consensus pattern (28 bp):
CGGGGTTAGAGTATCCCCCATGAAATAA
Found at i:129060 original size:107 final size:107
Alignment explanation
Indices: 128796--129067 Score: 339
Period size: 107 Copynumber: 2.5 Consensus size: 107
128786 TCGTGATTGT
* *
128796 AGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTAGTGTATCCCTTCAGA
1 AGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAGA
* *
128861 AACAACGGGATTGGAGTATCCCCGATGAAATAACAGGGTTGG
66 AACAACGGGATAGGAGTATCCCCGATGAAATAACAGGGTTAG
* *** * **
128903 AGTA-CCCCGATTTTGAAAAAATCAATATTTTAGATATAAAGCCGGGGTTAGAGTATCCCCTCAG
1 AGTATCCCCGATTGTG-AAAAATTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAG
* * *
128967 AAATAACGGGGTAGGAGTATCCCCGATGAAATAACGGGGTTAG
65 AAACAACGGGATAGGAGTATCCCCGATGAAATAACAGGGTTAG
* * * * ** *
129010 AGTATCTCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATTAGAGTTAGAGTATCC
1 AGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCC
129068 TCGATTGCGG
Statistics
Matches: 135, Mismatches: 28, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
106 10 0.07
107 117 0.87
108 8 0.06
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (107 bp):
AGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAGA
AACAACGGGATAGGAGTATCCCCGATGAAATAACAGGGTTAG
Found at i:129083 original size:51 final size:51
Alignment explanation
Indices: 129005--129154 Score: 165
Period size: 51 Copynumber: 2.9 Consensus size: 51
128995 AAATAACGGG
* * ** * *
129005 GTTAGAGTATCTCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATTAGA
1 GTTAGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAATCAGA
* ** ** * * *
129056 GTTAGAGTATCCTCGATTGCGGTAAATTGATGCTTTAGAAATAAAATCGGA
1 GTTAGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAATCAGA
*
129107 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAATC
1 GTTAGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAATC
129155 GGGATTGGAG
Statistics
Matches: 80, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 80 1.00
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (51 bp):
GTTAGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAATCAGA
Found at i:129155 original size:51 final size:51
Alignment explanation
Indices: 129025--129173 Score: 174
Period size: 51 Copynumber: 2.9 Consensus size: 51
129015 CTCCAATTGT
* ** * * **
129025 GAAAAATTGGTGTTTTGGAAATAAAATTAGAGTTAGAGTATCCTCGATTGC
1 GAAAAATTGATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAA
** * *
129076 GGTAAATTGATGCTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAA
1 GAAAAATTGATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAA
*
129127 GAAAAATTGATGTTTTGGAAATAAAATCGG-GATTGGAGCATCCCCGA
1 GAAAAATTGATGTTTTGGAAATAAAATCGGAG-TTGGAGTATCCCCGA
129174 GATGAAAAAT
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
50 1 0.01
51 80 0.99
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.30
Consensus pattern (51 bp):
GAAAAATTGATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAA
Found at i:131553 original size:13 final size:13
Alignment explanation
Indices: 131506--131535 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
131496 GTAAATCCAG
131506 AATGTATCGATAC
1 AATGTATCGATAC
131519 AATGTATCGATAC
1 AATGTATCGATAC
131532 AATG
1 AATG
131536 AACAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:132241 original size:41 final size:40
Alignment explanation
Indices: 132153--132418 Score: 122
Period size: 41 Copynumber: 6.5 Consensus size: 40
132143 ATCCCACTTT
* * * *
132153 TTGAGGATAAAGGAAAAGAGAATGAAATAGGTCTTGCTCC
1 TTGAGGACAAAGGAAAAAAGAAAGAAATAGGTCCTGCTCC
* *
132193 TTGAGGACAAAGGAAAAAAGAAAAGGAA-AGTGTCCTGCTTC
1 TTGAGGACAAAGGAAAAAAG-AAAGAAATAG-GTCCTGCTCC
* *
132234 TTGAGGACAAAGTG-AAAAAG--AG---TACGTCCTGCT-T
1 TTGAGGACAAAG-GAAAAAAGAAAGAAATAGGTCCTGCTCC
* * * *
132268 TTCAAGGACAAAGGAAAAAAGGAAAACGAAATACGCCCTGCTCT
1 TT-GAGGACAAAGGAAAAAA-G-AAA-GAAATAGGTCCTGCTCC
* * * *
132312 TTGAGGACAAA--AAAAAGAGGAAAACAAAGTACGTTCTGCTCT
1 TTGAGGACAAAGGAAAAA-A-G-AAAGAAA-TAGGTCCTGCTCC
* * *
132354 TTGAGGACAAAAGGGAAAAGAAGGGAATGAAGT-GTGTCCTGCTCT
1 TTGAGGAC-AAA-GGAAAA-AA--GAAAGAAATAG-GTCCTGCTCC
*
132399 TTGAGGACAAAGGAGAAAAG
1 TTGAGGACAAAGGAAAAAAG
132419 GAAAAGGCAT
Statistics
Matches: 182, Mismatches: 20, Indels: 48
0.73 0.08 0.19
Matches are distributed among these distances:
34 3 0.02
35 22 0.12
36 2 0.01
38 2 0.01
39 1 0.01
40 22 0.12
41 39 0.21
42 29 0.16
43 26 0.14
44 6 0.03
45 18 0.10
46 9 0.05
47 3 0.02
ACGTcount: A:0.42, C:0.13, G:0.27, T:0.18
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAAAGAAAGAAATAGGTCCTGCTCC
Found at i:132293 original size:42 final size:42
Alignment explanation
Indices: 132242--132423 Score: 158
Period size: 42 Copynumber: 4.2 Consensus size: 42
132232 TCTTGAGGAC
*
132242 AAAGTGAAAAAGAGTACGTCCTGCT-TTTCAAGGACAAAGGAAA
1 AAAG-GAAAAAGAGTACGTCCTGCTCTTT-GAGGACAAAGGAAA
* * *
132285 AAAGGAAAACGAAATACGCCCTGCTCTTTGAGGACAAA--AAA
1 AAAGGAAAAAG-AGTACGTCCTGCTCTTTGAGGACAAAGGAAA
* *
132326 AAGAGGAAAACAAAGTACGTTCTGCTCTTTGAGGACAAAAGGGAAA
1 AA-AGGAAAA-AGAGTACGTCCTGCTCTTTGAGGAC-AAA-GGAAA
* * *
132372 AGAAGGGAATGAAGTGT--GTCCTGCTCTTTGAGGACAAAGGAGA
1 A-AA-GGAA-AAAGAGTACGTCCTGCTCTTTGAGGACAAAGGAAA
132415 AAAGGAAAA
1 AAAGGAAAA
132424 GGCATCCTAC
Statistics
Matches: 113, Mismatches: 15, Indels: 25
0.74 0.10 0.16
Matches are distributed among these distances:
40 1 0.01
41 9 0.08
42 35 0.31
43 31 0.27
44 6 0.05
45 17 0.15
46 5 0.04
47 8 0.07
48 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.26, T:0.17
Consensus pattern (42 bp):
AAAGGAAAAAGAGTACGTCCTGCTCTTTGAGGACAAAGGAAA
Found at i:132493 original size:61 final size:61
Alignment explanation
Indices: 132414--132776 Score: 340
Period size: 61 Copynumber: 6.1 Consensus size: 61
132404 GACAAAGGAG
* * * **
132414 AAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTAAGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* ** * *
132475 GAAAA-GAAAAGGCGTCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTT
1 -AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * ** * * *
132536 GCAAA-GAGAAA-GCATCATGCTCTTTGAGGATTGGAAGGTGCCACCAATTTATGTGGGCTTT
1 -AAAAGGA-AAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * ***
132597 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
132658 ------AAAAGGCGTCTTGCTCTTTGAGGACCAAAAAAGTGCCACCAACTTGCGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGA-CTAAAAAGTGCCACCAACTTGTGTGGGCTTT
132714 AAAAGGAAAA-G-G--C-GCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT
132771 AAAAGG
1 AAAAGG
132777 CATCCTACAC
Statistics
Matches: 257, Mismatches: 33, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
55 22 0.09
56 27 0.11
57 45 0.18
60 6 0.02
61 146 0.57
62 11 0.04
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (61 bp):
AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:132709 original size:56 final size:55
Alignment explanation
Indices: 132632--132795 Score: 204
Period size: 57 Copynumber: 2.9 Consensus size: 55
132622 GAGGATTGGG
132632 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGAGGACCAAAA
1 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTC-TGCTCTTTGAGGACCAAAA
* * * * *
132688 AAGTGCCACCAACTTGCGTGGGCTTTAAAAGGAAAAGGC-GCTCTTTGAGGACTAGAA
1 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGG---CGTCTGCTCTTTGAGGACCAAAA
* * *
132745 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACACTTTGAGGAC
1 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGT-CTGCTCTTTGAGGAC
132796 TAAAGGGCGA
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
55 1 0.01
56 42 0.46
57 47 0.51
59 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (55 bp):
AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTGCTCTTTGAGGACCAAAA
Found at i:132963 original size:55 final size:55
Alignment explanation
Indices: 132816--133061 Score: 276
Period size: 55 Copynumber: 4.4 Consensus size: 55
132806 AAGGAGAGAG
* * * *
132816 CGTCCTACTCTTTGAGGACTGAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAA
1 CGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT-AAA--AG-A
*** *
132875 GGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGA
1 --CGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGA
* * * *
132932 CATCCTGCTCTTTAAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
1 CGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGA
* * * * *
132987 TGTCCTACTCTTTGAGGACTAAAAAATGTCACCAACTTGTGTGGGCTTTGAAAGC
1 CGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGA
*
133042 CGTCCTGCTTTTTGAGGACT
1 CGTCCTGCTCTTTGAGGACT
133062 GTAGACACCT
Statistics
Matches: 166, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
55 113 0.68
57 1 0.01
58 2 0.01
60 3 0.02
61 47 0.28
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (55 bp):
CGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGA
Found at i:133385 original size:13 final size:13
Alignment explanation
Indices: 133363--133419 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
133353 TTCAACAATT
133363 TGTATCGATACAA
1 TGTATCGATACAA
*
133376 TGTATGGATACATAA
1 TGTATCGATAC--AA
133391 GTGTTATATCGATACAA
1 -TG---TATCGATACAA
133408 TGTATCGATACA
1 TGTATCGATACA
133420 TAAGTTTCGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
15 2 0.06
16 4 0.11
17 2 0.06
19 8 0.22
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:133406 original size:32 final size:32
Alignment explanation
Indices: 133365--133445 Score: 128
Period size: 32 Copynumber: 2.5 Consensus size: 32
133355 CAACAATTTG
*
133365 TATCGATACAATGTATGGATACATAAGTGTT-A
1 TATCGATACAATGTATCGATACATAAGT-TTCA
*
133397 TATCGATACAATGTATCGATACATAAGTTTCG
1 TATCGATACAATGTATCGATACATAAGTTTCA
133429 TATCGATACAATGTATC
1 TATCGATACAATGTATC
133446 ACTACAAAGC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 2 0.04
32 44 0.96
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.35
Consensus pattern (32 bp):
TATCGATACAATGTATCGATACATAAGTTTCA
Found at i:147475 original size:33 final size:33
Alignment explanation
Indices: 147433--147505 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
147423 CATCCTCTGT
* *
147433 AAAAAAAAAAAGAGA-AAAAACAAAAAAAAAAC
1 AAAAAAAAAAACAAACAAAAACAAAAAAAAAAC
*
147465 AAAAAAAAAAACAAACAAAAAGAAAAAAAAAAC
1 AAAAAAAAAAACAAACAAAAACAAAAAAAAAAC
*
147498 AACAAAAA
1 AAAAAAAA
147506 GGGTCCGGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 13 0.36
33 23 0.64
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (33 bp):
AAAAAAAAAAACAAACAAAAACAAAAAAAAAAC
Found at i:147501 original size:20 final size:20
Alignment explanation
Indices: 147439--147506 Score: 77
Period size: 20 Copynumber: 3.3 Consensus size: 20
147429 CTGTAAAAAA
147439 AAAAAGAGAAAAAACAAA-AA-
1 AAAAAGA-AAAAAA-AAACAAC
*
147459 AAAAACAAAAAAAAAAACAAAC
1 AAAAA-GAAAAAAAAAAC-AAC
147481 AAAAAGAAAAAAAAAACAAC
1 AAAAAGAAAAAAAAAACAAC
147501 AAAAAG
1 AAAAAG
147507 GGTCCGGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
19 3 0.07
20 20 0.48
21 14 0.33
22 5 0.12
ACGTcount: A:0.85, C:0.09, G:0.06, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAAAAACAAC
Found at i:147504 original size:11 final size:11
Alignment explanation
Indices: 147433--147505 Score: 78
Period size: 11 Copynumber: 6.7 Consensus size: 11
147423 CATCCTCTGT
147433 AAAAAAAAAA-
1 AAAAAAAAAAC
* *
147443 AGAGAAAAAAC
1 AAAAAAAAAAC
147454 AAAAAAAAAAC
1 AAAAAAAAAAC
147465 AAAAAAAAAA-
1 AAAAAAAAAAC
* *
147475 ACAAACAAAAAG
1 A-AAAAAAAAAC
147487 AAAAAAAAAAC
1 AAAAAAAAAAC
*
147498 AACAAAAA
1 AAAAAAAA
147506 GGGTCCGGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
10 9 0.17
11 42 0.81
12 1 0.02
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:147505 original size:1 final size:1
Alignment explanation
Indices: 147433--147496 Score: 65
Period size: 1 Copynumber: 64.0 Consensus size: 1
147423 CATCCTCTGT
* * * * * * *
147433 AAAAAAAAAAAGAGAAAAAACAAAAAAAAAACAAAAAAAAAAACAAACAAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
147497 CAACAAAAAG
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.89, C:0.06, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:148949 original size:29 final size:29
Alignment explanation
Indices: 148912--149239 Score: 411
Period size: 29 Copynumber: 11.5 Consensus size: 29
148902 TTCCTCAATC
148912 TTCAAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTT
* *
148941 TTCTAAAGCCCACAAGTCAGCGGCATCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTT
* * * *
148970 TTCCAAAGCCCATAAGTCAGTGGCAAC-C
1 TTCAAAAGCCCACAAGTCAGTGGCATCTT
148998 TTCAAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTT
*
149027 TTCCAAAGCCCACAAGTCAGTGGCAATC--
1 TTCAAAAGCCCACAAGTCAGTGGC-ATCTT
*
149055 TTCAAAAGCCCACAAGTCAGTGGCATATT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTT
* *
149084 TTCCAAAGCCCACAAGTTAGTGGCATCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTT
*
149113 TTCCAAAGCCCACAAGTCAGTGGCAATC--
1 TTCAAAAGCCCACAAGTCAGTGGC-ATCTT
* *
149141 TTCAAAAGCCCACAAGTCAATGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-TCTT
*
149171 TTC--AAGCCCACAAGTCAGTGGTATCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTT
* * * *
149198 TTCAAAAGCCCACAAGTTAGTGGTAAC-C
1 TTCAAAAGCCCACAAGTCAGTGGCATCTT
149226 TTCAAAAGCCCACA
1 TTCAAAAGCCCACA
149240 CAAGTTGGTG
Statistics
Matches: 262, Mismatches: 27, Indels: 21
0.85 0.09 0.07
Matches are distributed among these distances:
27 9 0.03
28 102 0.39
29 142 0.54
30 9 0.03
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (29 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCTT
Found at i:149023 original size:57 final size:57
Alignment explanation
Indices: 148916--149239 Score: 418
Period size: 57 Copynumber: 5.7 Consensus size: 57
148906 TCAATCTTCA
* * * *
148916 AAAGCCCACAAGTCAGTGGCATCTTTTCTAAAGCCCACAAGTCAGCGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCC
*
148974 AAAGCCCATAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCC
* *
149031 AAAGCCCACAAGTCAGTGGCAATCTTCAAAAGCCCACAAGTCAGTGGCATATTTTCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCC
* * * * *
149088 AAAGCCCACAAGTTAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAATC--TTCA
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGC-ATCTTTTCC
* * *** * *
149145 AAAGCCCACAAGTCAATGGCACCCTTTTCAAGCCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCC
* *
149202 AAAGCCCACAAGTTAGTGGTAACCTTCAAAAGCCCACA
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACA
149240 CAAGTTGGTG
Statistics
Matches: 232, Mismatches: 30, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
55 3 0.01
56 20 0.09
57 163 0.70
58 44 0.19
59 2 0.01
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (57 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCC
Found at i:149024 original size:86 final size:85
Alignment explanation
Indices: 148911--149239 Score: 462
Period size: 86 Copynumber: 3.8 Consensus size: 85
148901 ATTCCTCAAT
* * *
148911 CTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCTAAAGCCCACAAGTCAGCGGC-ATCTTTTCCA
1 CTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAATC--TTCAA
*
148975 AAGCCCATAAGTCAGTGGCAAC
64 AAGCCCACAAGTCAGTGGCAAC
148997 CTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAATCTTCAAAA
1 CTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAATCTTCAAAA
*
149062 GCCCACAAGTCAGTGGCATAT
66 GCCCACAAGTCAGTGGCA-AC
* * *
149083 TTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAATCTTCAAAA
1 CTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAATCTTCAAAA
* *
149148 GCCCACAAGTCAATGGCACC
66 GCCCACAAGTCAGTGGCAAC
*** * * * * *
149168 CTTTTCAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTTAGTGGTAACCTTCAAAA
1 CTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAATCTTCAAAA
149233 GCCCACA
66 GCCCACA
149240 CAAGTTGGTG
Statistics
Matches: 220, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
85 85 0.39
86 132 0.60
87 3 0.01
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (85 bp):
CTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAATCTTCAAAA
GCCCACAAGTCAGTGGCAAC
Found at i:150381 original size:13 final size:13
Alignment explanation
Indices: 150363--150465 Score: 89
Period size: 13 Copynumber: 7.0 Consensus size: 13
150353 TTCAACAATT
150363 TGTATCGATACAA
1 TGTATCGATACAA
150376 TGTATCGATACATAA
1 TGTATCGATAC--AA
150391 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
150408 TGTATCGATACAA
1 TGTATCGATACAA
150421 TGTATCGATACATAA
1 TGTATCGATAC--AA
150436 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
*
150453 TGTATCGCTACAA
1 TGTATCGATACAA
150466 AGCTACTGCC
Statistics
Matches: 77, Mismatches: 1, Indels: 24
0.75 0.01 0.24
Matches are distributed among these distances:
13 47 0.61
15 4 0.05
17 4 0.05
19 22 0.29
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:150420 original size:45 final size:45
Alignment explanation
Indices: 150363--150465 Score: 188
Period size: 45 Copynumber: 2.3 Consensus size: 45
150353 TTCAACAATT
150363 TGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACAA
*
150408 TGTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACAA
*
150453 TGTATCGCTACAA
1 TGTATCGATACAA
150466 AGCTACTGCC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (45 bp):
TGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:150501 original size:13 final size:13
Alignment explanation
Indices: 150483--150508 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
150473 GCCAAGGAAA
150483 TGTATCGATACAT
1 TGTATCGATACAT
150496 TGTATCGATACAT
1 TGTATCGATACAT
150509 GGATTTTTTG
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:153851 original size:55 final size:56
Alignment explanation
Indices: 153704--153867 Score: 222
Period size: 55 Copynumber: 2.9 Consensus size: 56
153694 AAAGGAGAGA
* *
153704 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT----A-AAAAG
* *
153765 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAG
* *
153820 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCT
1 GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCT
153868 CTTTGAGGAC
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
55 49 0.52
61 46 0.48
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (56 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAG
Found at i:153878 original size:38 final size:38
Alignment explanation
Indices: 153827--153905 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 38
153817 AAGGCGTCCT
153827 GCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGG
1 GCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGG
* ** *
153865 GCTCTTTGAGGACTGAAAGGTTCCACCAACTTGTGTGG
1 GCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGG
153903 GCT
1 GCT
153906 TTGAAAGGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (38 bp):
GCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGG
Found at i:154007 original size:94 final size:94
Alignment explanation
Indices: 153752--154132 Score: 257
Period size: 93 Copynumber: 4.0 Consensus size: 94
153742 TGTGTGGGCT
* * * *
153752 TTAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTA
1 TTAAAAGGAGAAGACGTCCTACTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTA
*
153816 AAAGGCGTCCTGCTCTTTGAGGACTAA----
64 AAAGGCATCCTGCTCTTTGAGGACTAATGGG
* ** * * *
153843 --AAAATGCCACCA-ACTTGT-GTGGGCTCTTTGAGGACTGAAAGGTTCCACCAACTTGTGTGGG
1 TTAAAA-G-GAGAAGAC--GTCCT--ACTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGG
*
153904 CTTTGAAAGGCATCCTGCTCTTTGAGGACTAATGGG
59 CTTTAAAAGGCATCCTGCTCTTTGAGGACTAATGGG
* * *
153940 -TGAAAGGAG-AGAACGTCCTACTCTTTAAGGACTAGAAGGTGCCACCAGCTTGTGTGGGCTATA
1 TTAAAAGGAGAAG-ACGTCCTACTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCT-T-
* * * **
154003 AAAGGAGAAGGCCTCCTGCTCTTTGAAGA-TGTGTGGG
62 -TA--A-AAGGCATCCTGCTCTTTGAGGACT-AATGGG
*
154040 CTTTAAAAGGAGAAGGCGTCCTACTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTT
1 --TTAAAAGGAGAAGACGTCCTACTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTT
* * *
154104 TAAAAGGCGTCTTACTCTTTGAGGACTAA
62 TAAAAGGCATCCTGCTCTTTGAGGACTAA
154133 AAAATGCCAC
Statistics
Matches: 225, Mismatches: 35, Indels: 54
0.72 0.11 0.17
Matches are distributed among these distances:
89 4 0.02
90 1 0.00
91 4 0.02
92 4 0.02
93 63 0.28
94 35 0.16
95 5 0.02
96 2 0.01
97 21 0.09
98 5 0.02
99 2 0.01
100 25 0.11
102 1 0.00
103 48 0.21
104 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (94 bp):
TTAAAAGGAGAAGACGTCCTACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAA
AGGCATCCTGCTCTTTGAGGACTAATGGG
Found at i:154037 original size:42 final size:42
Alignment explanation
Indices: 153990--154070 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
153980 GCCACCAGCT
*
153990 TGTGTGGGCTATAAAAGGAGAAGGCCTCCTGCTCTTTGAAGA
1 TGTGTGGGCTATAAAAGGAGAAGGCCTCCTACTCTTTGAAGA
* *
154032 TGTGTGGGCTTTAAAAGGAGAAGGCGTCCTACTCTTTGA
1 TGTGTGGGCTATAAAAGGAGAAGGCCTCCTACTCTTTGA
154071 GGACTGGGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (42 bp):
TGTGTGGGCTATAAAAGGAGAAGGCCTCCTACTCTTTGAAGA
Found at i:154141 original size:55 final size:55
Alignment explanation
Indices: 154052--154242 Score: 276
Period size: 55 Copynumber: 3.5 Consensus size: 55
154042 TTAAAAGGAG
*** *
154052 AAGGCGTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGA
* *
154107 AAGGCGTCTTACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGA
1 AAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGA
* * *
154162 AAGGCGTCCTACTCTTTGAAGACTAAAAGGTGCCA-CAACTTATGTGGGCTTTGA
1 AAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGA
* *
154216 AAGACGTCCTCCTCTTTGAGGACTAAA
1 AAGGCGTCCTACTCTTTGAGGACTAAA
154243 GGGTGAAAGG
Statistics
Matches: 122, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 42 0.34
55 80 0.66
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (55 bp):
AAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGA
Found at i:155334 original size:7 final size:7
Alignment explanation
Indices: 155310--155356 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
155300 AAGCAAGTTC
155310 TTTTCTT
1 TTTTCTT
155317 TTCTCTCTT
1 TT-T-TCTT
155326 TTTTCTT
1 TTTTCTT
*
155333 TTTTGTT
1 TTTTCTT
155340 TTTT-TT
1 TTTTCTT
*
155346 TTTTGTT
1 TTTTCTT
155353 TTTT
1 TTTT
155357 TTAAAAAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
6 6 0.17
7 22 0.61
8 2 0.06
9 6 0.17
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.85
Consensus pattern (7 bp):
TTTTCTT
Found at i:155347 original size:13 final size:13
Alignment explanation
Indices: 155324--155358 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
155314 CTTTTCTCTC
155324 TTTTTTCTTTTTTG
1 TTTTTT-TTTTTTG
155338 TTTTTTTTTTTTG
1 TTTTTTTTTTTTG
155351 TTTTTTTT
1 TTTTTTTT
155359 AAAAAAAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.91
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Done.