Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 59 of 235
Found at i:20064677 original size:29 final size:30
Alignment explanation
Indices: 20064637--20064715 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
20064627 CTTAATAATC
20064637 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
**
20064667 AACTTGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
20064696 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
20064716 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 31 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:20069904 original size:15 final size:14
Alignment explanation
Indices: 20069884--20069930 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
20069874 GCAACCCAAT
20069884 TTTTATTTTTATTTA
1 TTTTATTTTTA-TTA
*
20069899 TTTTA-TCTTATTA
1 TTTTATTTTTATTA
20069912 TTTTATTATTTATTA
1 TTTTATT-TTTATTA
20069927 TTTT
1 TTTT
20069931 CAGATATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 8 0.29
14 5 0.18
15 15 0.54
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTTTATTA
Found at i:20071625 original size:27 final size:26
Alignment explanation
Indices: 20071565--20071626 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
20071555 ATAAGACTCC
20071565 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
20071591 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
20071619 ATTTTATT
1 ATTTTATT
20071627 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:20075597 original size:6 final size:6
Alignment explanation
Indices: 20075575--20075657 Score: 51
Period size: 6 Copynumber: 13.0 Consensus size: 6
20075565 CTAATTCTCC
* * * * *
20075575 TTCTTT TTGTTT CTCTTT TTCTTT CTTC-TT TTCTCCT TTCTAT TTCATCTG
1 TTCTTT TTCTTT TTCTTT TTCTTT -TTCTTT TTCT-TT TTCTTT TTC-T-TT
*
20075626 TTCTTT TTCTTT TTCTTT CTTTTATT TTCTTT
1 TTCTTT TTCTTT TTCTTT -TTCT-TT TTCTTT
20075658 GTTTATTCTT
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
5 3 0.05
6 35 0.59
7 16 0.27
8 5 0.08
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.73
Consensus pattern (6 bp):
TTCTTT
Found at i:20075620 original size:21 final size:20
Alignment explanation
Indices: 20075584--20075648 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 20
20075574 CTTCTTTTTG
* *
20075584 TTTCTCTTTTTCTTTCTTCT
1 TTTCTCTTTCTATTTCTTCT
*
20075604 TTTCTCCTTTCTATTTCATCT
1 TTTCT-CTTTCTATTTCTTCT
* * *
20075625 GTTCTTTTTCTTTTTCTTTCT
1 TTTCTCTTTCTATTTC-TTCT
20075646 TTT
1 TTT
20075649 ATTTTCTTTG
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 14 0.40
21 21 0.60
ACGTcount: A:0.03, C:0.23, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTCTCTTTCTATTTCTTCT
Found at i:20075666 original size:21 final size:20
Alignment explanation
Indices: 20075630--20075673 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
20075620 CATCTGTTCT
*
20075630 TTTTCTTTTTCTTTCTTTTA
1 TTTTCTTTTTCTTTCTTTAA
20075650 TTTTCTTTGTT-TATTCTTTAA
1 TTTTCTTT-TTCT-TTCTTTAA
20075671 TTT
1 TTT
20075674 ATTATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTCTTTTTCTTTCTTTAA
Found at i:20075749 original size:18 final size:19
Alignment explanation
Indices: 20075714--20075758 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
20075704 TTTAAACTTA
*
20075714 AATATTATGTATTATGTAT
1 AATATTATATATTATGTAT
*
20075733 ATTATTATATA-TATGTAT
1 AATATTATATATTATGTAT
20075751 AATATTAT
1 AATATTAT
20075759 TACACAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (19 bp):
AATATTATATATTATGTAT
Found at i:20077079 original size:11 final size:11
Alignment explanation
Indices: 20077063--20077117 Score: 76
Period size: 11 Copynumber: 5.0 Consensus size: 11
20077053 CACAATAGTC
20077063 CTCTCACAATT
1 CTCTCACAATT
20077074 CTCTCACAATT
1 CTCTCACAATT
*
20077085 CTCTTACAATT
1 CTCTCACAATT
20077096 CTCTC-CAAATT
1 CTCTCAC-AATT
*
20077107 CTCTCAAAATT
1 CTCTCACAATT
20077118 TTCAACTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
10 1 0.03
11 38 0.97
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCTCACAATT
Found at i:20078292 original size:7 final size:7
Alignment explanation
Indices: 20078282--20078327 Score: 83
Period size: 7 Copynumber: 6.6 Consensus size: 7
20078272 AATCATTTTT
20078282 TATTTAG
1 TATTTAG
20078289 TATTTAG
1 TATTTAG
*
20078296 TATTTAA
1 TATTTAG
20078303 TATTTAG
1 TATTTAG
20078310 TATTTAG
1 TATTTAG
20078317 TATTTAG
1 TATTTAG
20078324 TATT
1 TATT
20078328 ACCTATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:20079514 original size:38 final size:38
Alignment explanation
Indices: 20079437--20079523 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 38
20079427 TTTACTTTTT
* *
20079437 TAATTTTAATACAATAAATGTTCATTTAAATTAGCCAA
1 TAATTTTAATAAAATAAATGTTCATTTAAATTAGACAA
* *
20079475 TAATTTTATTAAAATAAATGTT-ATTTTGAA-TACGACAA
1 TAATTTTAATAAAATAAATGTTCA-TTTAAATTA-GACAA
*
20079513 TATTTTTAATA
1 TAATTTTAATA
20079524 TTTTTAATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
37 3 0.07
38 38 0.93
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.44
Consensus pattern (38 bp):
TAATTTTAATAAAATAAATGTTCATTTAAATTAGACAA
Found at i:20083496 original size:50 final size:50
Alignment explanation
Indices: 20083382--20084260 Score: 1672
Period size: 50 Copynumber: 17.6 Consensus size: 50
20083372 CTGATACGCA
* * * ** **
20083382 TAGTAGCCTACACTTAGTACTACACATGTGACC-AATAAT-TCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCT-AATACACG
20083431 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
20083481 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
20083531 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
20083581 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
20083631 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
20083681 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
20083731 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
20083781 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
20083831 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
20083881 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
20083931 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
20083981 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
20084031 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
20084081 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
20084131 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
20084181 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
20084231 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
20084261 TATTCACAAT
Statistics
Matches: 821, Mismatches: 7, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
49 31 0.04
50 789 0.96
51 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
Found at i:20086031 original size:126 final size:126
Alignment explanation
Indices: 20085806--20086106 Score: 478
Period size: 126 Copynumber: 2.4 Consensus size: 126
20085796 AGTCTAAGGC
** *
20085806 TTTTTT-AGATACTACTGTAGCAAAAGAGCGTCCACACAGGAGCTTTTTTCCATAATTTTGCTGA
1 TTTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTTCCATAATTTTACTGA
* * * *
20085870 CAGTGCATCCTTTTTGAAGCGTTTTGGACACTATTTGTTTAGAAACATCTTATCAAAATTA
66 CAGTGCATCATTCTTGAAACGTTTTGGACACTATTTATTTAGAAACATCTTATCAAAATTA
*
20085931 TTTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTAGGAGTTTTTTTCCATAATTTTACTGA
1 TTTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTTCCATAATTTTACTGA
* * *
20085996 CAGTGTATCATTCTTGAAACGTTTTTGACACTATTTATTTAGAAACATCTTCTCAAAATTA
66 CAGTGCATCATTCTTGAAACGTTTTGGACACTATTTATTTAGAAACATCTTATCAAAATTA
* *
20086057 TTTTTTCAGATACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTT
1 TTTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTT
20086107 GGTAATTAAT
Statistics
Matches: 161, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
125 6 0.04
126 155 0.96
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
TTTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTTCCATAATTTTACTGA
CAGTGCATCATTCTTGAAACGTTTTGGACACTATTTATTTAGAAACATCTTATCAAAATTA
Found at i:20088454 original size:31 final size:32
Alignment explanation
Indices: 20088409--20088602 Score: 205
Period size: 31 Copynumber: 5.6 Consensus size: 32
20088399 TAATTTATCT
20088409 ATTTTTAAATATAAAAATTAAAATATAATTTA
1 ATTTTTAAATATAAAAATTAAAATATAATTTA
20088441 ATTTTT-AATATAAAAATTTAACATACTCATAATTTA
1 ATTTTTAAATATAAAAA-TTAA-A-A-T-ATAATTTA
20088477 TCTATTTTTTAAATATAAAAATTAAAATATAATTTA
1 ---A-TTTTTAAATATAAAAATTAAAATATAATTTA
20088513 ATTTTT-AATATAAAAATTTAACATACTCATAATTTA
1 ATTTTTAAATATAAAAA-TTAA-A-A-T-ATAATTTA
20088549 TCTATTTTTTAAATATAAAAATTAAAATATAATTTA
1 ---A-TTTTTAAATATAAAAATTAAAATATAATTTA
20088585 ATTTTT-AATATAAAAATT
1 ATTTTTAAATATAAAAATT
20088603 TAACATACTC
Statistics
Matches: 142, Mismatches: 0, Indels: 41
0.78 0.00 0.22
Matches are distributed among these distances:
31 32 0.23
32 24 0.17
33 4 0.03
34 2 0.01
35 2 0.01
36 32 0.23
37 2 0.01
38 2 0.01
39 4 0.03
40 18 0.13
41 20 0.14
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (32 bp):
ATTTTTAAATATAAAAATTAAAATATAATTTA
Found at i:20088494 original size:41 final size:36
Alignment explanation
Indices: 20088409--20088615 Score: 210
Period size: 36 Copynumber: 5.9 Consensus size: 36
20088399 TAATTTATCT
20088409 ATTTTTAAATATAAAAA-TTAA-A-A-T-ATAATTTA
1 ATTTTT-AATATAAAAATTTAACATACTCATAATTTA
20088441 ATTTTTAATATAAAAATTTAACATACTCATAATTTA
1 ATTTTTAATATAAAAATTTAACATACTCATAATTTA
20088477 TCTATTTTTTAAATATAAAAA-TTAA-A-A-T-ATAATTTA
1 ---A-TTTTT-AATATAAAAATTTAACATACTCATAATTTA
20088513 ATTTTTAATATAAAAATTTAACATACTCATAATTTA
1 ATTTTTAATATAAAAATTTAACATACTCATAATTTA
20088549 TCTATTTTTTAAATATAAAAA-TTAA-A-A-T-ATAATTTA
1 ---A-TTTTT-AATATAAAAATTTAACATACTCATAATTTA
20088585 ATTTTTAATATAAAAATTTAACATACTCATA
1 ATTTTTAATATAAAAATTTAACATACTCATA
20088616 TTCAATACTC
Statistics
Matches: 150, Mismatches: 0, Indels: 46
0.77 0.00 0.23
Matches are distributed among these distances:
31 30 0.20
32 28 0.19
33 5 0.03
34 3 0.02
35 3 0.02
36 35 0.23
37 2 0.01
38 2 0.01
39 4 0.03
40 18 0.12
41 20 0.13
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (36 bp):
ATTTTTAATATAAAAATTTAACATACTCATAATTTA
Found at i:20088498 original size:72 final size:72
Alignment explanation
Indices: 20088399--20088615 Score: 427
Period size: 72 Copynumber: 3.0 Consensus size: 72
20088389 ATACAATGAG
20088399 TAATTTATCTA-TTTTTAAATATAAAAATTAAAATATAATTTAATTTTTAATATAAAAATTTAAC
1 TAATTTATCTATTTTTTAAATATAAAAATTAAAATATAATTTAATTTTTAATATAAAAATTTAAC
20088463 ATACTCA
66 ATACTCA
20088470 TAATTTATCTATTTTTTAAATATAAAAATTAAAATATAATTTAATTTTTAATATAAAAATTTAAC
1 TAATTTATCTATTTTTTAAATATAAAAATTAAAATATAATTTAATTTTTAATATAAAAATTTAAC
20088535 ATACTCA
66 ATACTCA
20088542 TAATTTATCTATTTTTTAAATATAAAAATTAAAATATAATTTAATTTTTAATATAAAAATTTAAC
1 TAATTTATCTATTTTTTAAATATAAAAATTAAAATATAATTTAATTTTTAATATAAAAATTTAAC
20088607 ATACTCA
66 ATACTCA
20088614 TA
1 TA
20088616 TTCAATACTC
Statistics
Matches: 145, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 11 0.08
72 134 0.92
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (72 bp):
TAATTTATCTATTTTTTAAATATAAAAATTAAAATATAATTTAATTTTTAATATAAAAATTTAAC
ATACTCA
Found at i:20092949 original size:42 final size:42
Alignment explanation
Indices: 20092824--20092950 Score: 173
Period size: 42 Copynumber: 3.0 Consensus size: 42
20092814 TTTCGCCTTC
* * *
20092824 TAAAAGGGATGAAAGGTTAAAAACACCTATACATACCCCTAG
1 TAAAAGGGATGAAAGGTTAAAAACACCTGTACATACACCAAG
* * *
20092866 TATAAGGGATGAAAGGTTAAAAACACCAGTAAATACACCAAG
1 TAAAAGGGATGAAAGGTTAAAAACACCTGTACATACACCAAG
* * *
20092908 TAAAAAGGATGAAAGGTTAAAAACACCTGTGCATACTCCAAG
1 TAAAAGGGATGAAAGGTTAAAAACACCTGTACATACACCAAG
20092950 T
1 T
20092951 GGGCGATTTT
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.19
Consensus pattern (42 bp):
TAAAAGGGATGAAAGGTTAAAAACACCTGTACATACACCAAG
Found at i:20102510 original size:19 final size:18
Alignment explanation
Indices: 20102469--20102512 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
20102459 TGATTTATTT
* *
20102469 ATTTTTATTTAATCAGTT
1 ATTTTTATTTAATCAATA
*
20102487 GTTTTTATTCTAATCAATA
1 ATTTTTATT-TAATCAATA
20102506 ATTTTTA
1 ATTTTTA
20102513 CTTGTATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTTATTTAATCAATA
Found at i:20104134 original size:17 final size:19
Alignment explanation
Indices: 20104101--20104143 Score: 72
Period size: 17 Copynumber: 2.4 Consensus size: 19
20104091 TATTTGTAAT
20104101 ATTATTAGTTATATTTTTC
1 ATTATTAGTTATATTTTTC
20104120 ATTATTA-TT-TATTTTTC
1 ATTATTAGTTATATTTTTC
20104137 ATTATTA
1 ATTATTA
20104144 CTTCTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 15 0.62
18 2 0.08
19 7 0.29
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTATTAGTTATATTTTTC
Found at i:20104516 original size:27 final size:27
Alignment explanation
Indices: 20104459--20104527 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 27
20104449 TCAGTACAAG
* * * **
20104459 TTATTTCATATATTGTTTATTTTGAGT
1 TTATTTTATATATTATTTATTTTAAAC
20104486 TTATTTTATATATTATTTATTTTAAAC
1 TTATTTTATATATTATTTATTTTAAAC
20104513 TTA---TATATATTATTT
1 TTATTTTATATATTATTT
20104528 TAAATTTTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 12 0.32
27 25 0.68
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (27 bp):
TTATTTTATATATTATTTATTTTAAAC
Found at i:20104517 original size:20 final size:20
Alignment explanation
Indices: 20104491--20104531 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 20
20104481 TGAGTTTATT
20104491 TTATATATTATTTATTTTAAAC
1 TTATATA-TA-TTATTTTAAAC
20104513 TTATATATATTATTTTAAA
1 TTATATATATTATTTTAAA
20104532 TTTTGTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATATATATTATTTTAAAC
Found at i:20109949 original size:42 final size:43
Alignment explanation
Indices: 20109885--20110015 Score: 128
Period size: 42 Copynumber: 3.1 Consensus size: 43
20109875 GGAATGTGAA
**
20109885 CATCGAT-CTGAGATGTA-GTGTAAGACCATGTCTGGGACATCGG
1 CATCGATACTGA-AT-TACGTGTAAGACCATGTCTGGGACAGAGG
* *
20109928 CATCG-TATCTG-ATTTCGTGTAAGACCCTGTCTGGGACAGAGG
1 CATCGATA-CTGAATTACGTGTAAGACCATGTCTGGGACAGAGG
* * *
20109970 CATCGATACTGAATTACATGTAAGACCACGTCTAGGAC-GTAGG
1 CATCGATACTGAATTACGTGTAAGACCATGTCTGGGACAG-AGG
20110013 CAT
1 CAT
20110016 TGTACTCGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
41 1 0.01
42 35 0.48
43 34 0.47
44 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (43 bp):
CATCGATACTGAATTACGTGTAAGACCATGTCTGGGACAGAGG
Found at i:20114607 original size:21 final size:22
Alignment explanation
Indices: 20114544--20114613 Score: 133
Period size: 22 Copynumber: 3.2 Consensus size: 22
20114534 TTTACGTCTC
20114544 ATTCTGAGCAAATATTTCTTTT
1 ATTCTGAGCAAATATTTCTTTT
20114566 ATTCTGAGCAAATATTTCTTTT
1 ATTCTGAGCAAATATTTCTTTT
20114588 ATTCTGAGCAAATA-TTCTTTT
1 ATTCTGAGCAAATATTTCTTTT
20114609 ATTCT
1 ATTCT
20114614 TGTTTTTAGT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
21 12 0.25
22 36 0.75
ACGTcount: A:0.27, C:0.14, G:0.09, T:0.50
Consensus pattern (22 bp):
ATTCTGAGCAAATATTTCTTTT
Found at i:20115587 original size:434 final size:433
Alignment explanation
Indices: 20114767--20115607 Score: 1297
Period size: 434 Copynumber: 1.9 Consensus size: 433
20114757 GAAACATGTG
* * * * **
20114767 AAGATGATGGAGATTGTAACTTATCTCTGGATTTGTTAAGGATGGTAGAACAGGAAGAGAAACAG
1 AAGATGATAGAAACTGTAACTTATCTCTGAATTTGTTAAGGATGAAAGAACAGGAAGAGAAACAG
* * * *
20114832 ATTCTACCTCACAAAGAGATGATAGAGAATGTGACCTTGGAAGAAGGGAAAGAGGTGAACATTGT
66 ATCCTACCTCACAAAGAAATGATAGAGAATGTAACCTTGGAAGAAGGGAAAGAGGTGAACATTGG
* * *
20114897 AACTTACATAACCGAGGAAACAAGATGGGACCTCATTGAATTATTGCAAGAGTTCAAGGATTTCT
131 AACTTACATAACCGAGGAAACAAGACGGGACCTCATTGAATTATTGCAAGAGTTCAAAGATATCT
* *
20114962 TTGCGTGGTCATATCAGGATATGCCTGGGTTTAGCGCTGAGATTGTGGTACACTGCGTCCCCATA
196 TCGCGTGGTCATATCAGGATATGCCTGGGTTGAGCGCTGAGATTGTGGTACACTGCGTCCCCATA
* * * *
20115027 AAAGAGGAGTGCAAGCCAGTTCAACAGAAGCTCCGAAGGATGAGACTCGATGTTGCAATAAAAAT
261 AAAGAAGAGTGCAAGCCAGTTCAACAGAAGCTCCGAAGGATGAGACCCGATGTTACAATAAAAAA
* * * * *
20115092 AAGGGAAGAGGTCAAGAAGCAATTTGATACTAGGTTCTTACAAGTAGTTAATTATTCAGAATGGG
326 AAGAGAAGAGGTCAAAAAGCAATTCGATACTAGGTTCTTACAAGTAGTTAAGTACTCAGAATGGG
20115157 TAGCCAACGTTGTTCCATGTGTATGGAGGGATCTCAGGATTTTA
391 TAGCCAACGTTG-TCCATGTGTATGGAGGGATCTCAGGATTTTA
*
20115201 AAGATGATAGAAACTGTAACTTATCTCTGAATTTGTTAAGGATGAAAGAGCAGGAAGAGAAACAG
1 AAGATGATAGAAACTGTAACTTATCTCTGAATTTGTTAAGGATGAAAGAACAGGAAGAGAAACAG
*
20115266 ATCCTACCTCACAAAGAAATGATAGAGAATGTAACCTTGGAAGAAGGGAAAGATGTGAACATTGG
66 ATCCTACCTCACAAAGAAATGATAGAGAATGTAACCTTGGAAGAAGGGAAAGAGGTGAACATTGG
* *
20115331 AACTTGCATAACCGAGGAAAGAAGACGGGACCTCATTGAATTATTGCAAGAGTTCAAAGATATCT
131 AACTTACATAACCGAGGAAACAAGACGGGACCTCATTGAATTATTGCAAGAGTTCAAAGATATCT
* * *
20115396 TCGCGTGGTCGTATCAGGATATGCCTGGGTTGAGCG-TCGATATTGTGGTACACTGCGTCCCTAT
196 TCGCGTGGTCATATCAGGATATGCCTGGGTTGAGCGCT-GAGATTGTGGTACACTGCGTCCCCAT
* * *
20115460 AAAAGAAGAGTGCAAGCCAGTTTAACAGAAGCTTCGAAGGATGAGACCCGATGTTACAGTAAAAA
260 AAAAGAAGAGTGCAAGCCAGTTCAACAGAAGCTCCGAAGGATGAGACCCGATGTTACAATAAAAA
* ** *
20115525 AAAGAGAGGAGGTCAAAAAGCAATTCGATGTTAGGTTCTTACAAGTGGTTAAGTACTCAGAATGG
325 AAAGAGAAGAGGTCAAAAAGCAATTCGATACTAGGTTCTTACAAGTAGTTAAGTACTCAGAATGG
* *
20115590 GTAGCTAATGTTGTCCAT
390 GTAGCCAACGTTGTCCAT
20115608 CCTTAAGAAG
Statistics
Matches: 366, Mismatches: 40, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
433 6 0.02
434 360 0.98
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.25
Consensus pattern (433 bp):
AAGATGATAGAAACTGTAACTTATCTCTGAATTTGTTAAGGATGAAAGAACAGGAAGAGAAACAG
ATCCTACCTCACAAAGAAATGATAGAGAATGTAACCTTGGAAGAAGGGAAAGAGGTGAACATTGG
AACTTACATAACCGAGGAAACAAGACGGGACCTCATTGAATTATTGCAAGAGTTCAAAGATATCT
TCGCGTGGTCATATCAGGATATGCCTGGGTTGAGCGCTGAGATTGTGGTACACTGCGTCCCCATA
AAAGAAGAGTGCAAGCCAGTTCAACAGAAGCTCCGAAGGATGAGACCCGATGTTACAATAAAAAA
AAGAGAAGAGGTCAAAAAGCAATTCGATACTAGGTTCTTACAAGTAGTTAAGTACTCAGAATGGG
TAGCCAACGTTGTCCATGTGTATGGAGGGATCTCAGGATTTTA
Found at i:20119873 original size:44 final size:44
Alignment explanation
Indices: 20119688--20119874 Score: 103
Period size: 44 Copynumber: 4.2 Consensus size: 44
20119678 GTAAATTCAT
* * * **
20119688 GAATCTTATCTCCCTAAGCAGTAGTGGAGAAAATCGAAGACGAC
1 GAATCTTATCTCCCTAAGTAGTAGTGAAGCAGTTCGAAGACGAC
* * * * * *
20119732 GAATCTTATCTTCTTAAGGTAGTAGAGAAGTAGATT-TAAG-CCAC
1 GAATCTTATCTCCCTAA-GTAGTAGTGAAGCAG-TTCGAAGACGAC
* ** * ** * * *
20119776 TAGCCTTATCTCCCTGAGTAACAGTGGAGCAG-GCTGAAGATTG-C
1 GAATCTTATCTCCCTAAGTAGTAGTGAAGCAGTTC-GAAGA-CGAC
* * *
20119820 GGATTTTATCTCCCTAAGTAGTAGTGAAGCAGTTCGAAGATGAC
1 GAATCTTATCTCCCTAAGTAGTAGTGAAGCAGTTCGAAGACGAC
20119864 GAATCTTATCT
1 GAATCTTATCT
20119875 TTCTGAGATA
Statistics
Matches: 98, Mismatches: 37, Indels: 16
0.65 0.25 0.11
Matches are distributed among these distances:
43 15 0.15
44 68 0.69
45 14 0.14
46 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
GAATCTTATCTCCCTAAGTAGTAGTGAAGCAGTTCGAAGACGAC
Found at i:20120049 original size:89 final size:89
Alignment explanation
Indices: 20119956--20120167 Score: 205
Period size: 89 Copynumber: 2.4 Consensus size: 89
20119946 AGATTGTAGA
** * *
20119956 TCTTATCTCCATGGGGTAGTAATAGAGTAGATTGAGGA-CAAAGAATCTTATCTCCATGAAGCAG
1 TCTTATCTCCATGAAGTAGCAATAGAGTAGATTGAAGATCAAAG-ATCTTATCTCCATGAAGCAG
20120020 CAATGGAGCAAATCTAAGCCACCAG
65 CAATGGAGCAAATCTAAGCCACCAG
* * * * ** * *
20120045 TCTTATCTCCCTGAAGTAGCAGTGGAGTATATTGAAGATCGTAGATCTTATCTCCATGAGGTAGC
1 TCTTATCTCCATGAAGTAGCAATAGAGTAGATTGAAGATCAAAGATCTTATCTCCATGAAGCAGC
* * *
20120110 AATGGAGCAGATC-AAG-GACAGAG
66 AATGGAGCAAATCTAAGCCAC-CAG
* * *
20120133 AATTTTATCTCCATGAAGTAGCAATGGAGCAGATT
1 --TCTTATCTCCATGAAGTAGCAATAGAGTAGATT
20120168 TAAGCCACCC
Statistics
Matches: 99, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
87 2 0.02
88 5 0.05
89 61 0.62
90 31 0.31
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (89 bp):
TCTTATCTCCATGAAGTAGCAATAGAGTAGATTGAAGATCAAAGATCTTATCTCCATGAAGCAGC
AATGGAGCAAATCTAAGCCACCAG
Found at i:20120053 original size:134 final size:134
Alignment explanation
Indices: 20119895--20120434 Score: 568
Period size: 134 Copynumber: 4.0 Consensus size: 134
20119885 GTAGAGAAGA
* * * * *
20119895 AGATTTAAGTCACAAGTCTTATCTCTCTGAAATAGCAGTGGAGCAGATTGAAGATTGTAGATCTT
1 AGATTTAAGCCACCAGCCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGATTGTAGATCTT
* * * ** *
20119960 ATCTCCATGGGGTAGTAATAGAGTAGATTGAGGACAAAGAATCTTATCTCCATGAAGCAGCAATG
66 ATCTCCATGAGGTAGCAATGGAGTAGATCAAGGACAAAGAATCTTATCTCCATGAAGTAGCAATG
20120025 GAGC
131 GAGC
* * * * * *
20120029 AAATCTAAGCCACCAGTCTTATCTCCCTGAAGTAGCAGTGGAGTATATTGAAGATCGTAGATCTT
1 AGATTTAAGCCACCAGCCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGATTGTAGATCTT
* * *
20120094 ATCTCCATGAGGTAGCAATGGAGCAGATCAAGGACAGAGAATTTTATCTCCATGAAGTAGCAATG
66 ATCTCCATGAGGTAGCAATGGAGTAGATCAAGGACAAAGAATCTTATCTCCATGAAGTAGCAATG
20120159 GAGC
131 GAGC
* * * * * * *
20120163 AGATTTAAGCCACCCGCCTTATCTCCTTGGAGTAGCAAG-GGAGAAAATTAAAGATTGTAGATTT
1 AGATTTAAGCCACCAGCCTTATCTCCCTGAAGTAGC-AGTGGAGCAGATTGAAGATTGTAGATCT
** * * ** * * * *
20120227 TATCTCCCCGAAGTAGCAGTGGAGTAGATCAAATACGATGAGTCTTATCTTCATGAAGTAGCAAT
65 TATCTCCATGAGGTAGCAATGGAGTAGATCAAGGACAAAGAATCTTATCTCCATGAAGTAGCAAT
20120292 GGAGC
130 GGAGC
* * **
20120297 AGATTTAGGCCACCAGCCTTATCCCCCT-AAGGTAGCAGTGGAGCAGATTGAAGATTACAGATCT
1 AGATTTAAGCCACCAGCCTTATCTCCCTGAA-GTAGCAGTGGAGCAGATTGAAGATTGTAGATCT
* * * ** *
20120361 TATCTCTC-TGAGGTAGCAGTGGAGCAGATTGAA-GACTGTAG-ATCTTATCTCCCTGAAGTAGC
65 TATCTC-CATGAGGTAGCAATGGAGTAGA-TCAAGGAC-AAAGAATCTTATCTCCATGAAGTAGC
*
20120423 AGTGGAGC
127 AATGGAGC
20120431 AGAT
1 AGAT
20120435 CGAAAACTGC
Statistics
Matches: 336, Mismatches: 64, Indels: 12
0.82 0.16 0.03
Matches are distributed among these distances:
133 3 0.01
134 325 0.97
135 8 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (134 bp):
AGATTTAAGCCACCAGCCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGATTGTAGATCTT
ATCTCCATGAGGTAGCAATGGAGTAGATCAAGGACAAAGAATCTTATCTCCATGAAGTAGCAATG
GAGC
Found at i:20120099 original size:45 final size:44
Alignment explanation
Indices: 20119780--20120480 Score: 297
Period size: 45 Copynumber: 15.7 Consensus size: 44
20119770 AGCCACTAGC
* ** * *
20119780 CTTATCTCCCTG-AGTAACAGTGGAGCAGGCTGAAGATTGCGGAT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGA-CGCAGAT
* * * *
20119824 TTTATCTCCCT-AAGTAGTAGTGAAGCAG-TTCGAAGATG-ACGAAT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATT-GAAGACGCA-G-AT
** * * * * * * *
20119868 CTTATCTTTCTG-AGATAGTAGAGAAGAAGATTTAAGTCACA-AGT
1 CTTATCTCCCTGAAG-TAGCAGTGGAGCAGATTGAAGACGCAGA-T
* * * *
20119912 CTTATCTCTCTGAAATAGCAGTGGAGCAGATTGAAGATTGTAGAT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGA-CGCAGAT
* ** * * * * * **
20119957 CTTATCTCCATGGGGTAGTAATAGAGTAGATTGAGGACAAAGAAT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGACGCAG-AT
* * * *
20120002 CTTATCTCCATGAAGCAGCAATGGAGCAAATCT-AAGCCAC-CAG-T
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGAT-TGAAG--ACGCAGAT
* * *
20120046 CTTATCTCCCTGAAGTAGCAGTGGAGTATATTGAAGATCGTAGAT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGA-CGCAGAT
* * * *
20120091 CTTATCTCCATGAGGTAGCAATGGAGCAGA-TCAAGGACAG-AGAAT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAA-GAC-GCAG-AT
* * * * * *
20120136 TTTATCTCCATGAAGTAGCAATGGAGCAGATTTAAGCCAC-CCG-C
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAG--ACGCAGAT
* * * * * * *
20120180 CTTATCTCCTTGGAGTAGCAAG-GGAGAAAATTAAAGATTGTAGAT
1 CTTATCTCCCTGAAGTAGC-AGTGGAGCAGATTGAAGA-CGCAGAT
* * * ** *
20120225 TTTATCTCCCCGAAGTAGCAGTGGAGTAGATCAAATACG-ATGAGT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGACGCA-GA-T
* * * * * *
20120270 CTTATCTTCATGAAGTAGCAATGGAGCAGATTTAGGCCAC-CAG-C
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAG--ACGCAGAT
* **
20120314 CTTATCCCCCT-AAGGTAGCAGTGGAGCAGATTGAAGATTACAGAT
1 CTTATCTCCCTGAA-GTAGCAGTGGAGCAGATTGAAGA-CGCAGAT
* * *
20120359 CTTATCTCTCTGAGGTAGCAGTGGAGCAGATTGAAGACTGTAGAT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGAC-GCAGAT
* * *
20120404 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATCGAAAACTGCAAAT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGAC-GCAGAT
* * *
20120449 CTTATCTTCATAAAGTTA-CAGTGGAGCAGATT
1 CTTATCTCCCTGAAG-TAGCAGTGGAGCAGATT
20120481 AAAGCCATCA
Statistics
Matches: 493, Mismatches: 120, Indels: 87
0.70 0.17 0.12
Matches are distributed among these distances:
42 3 0.01
43 10 0.02
44 171 0.35
45 287 0.58
46 15 0.03
47 7 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGACGCAGAT
Found at i:20120319 original size:89 final size:89
Alignment explanation
Indices: 20120226--20120435 Score: 214
Period size: 89 Copynumber: 2.3 Consensus size: 89
20120216 ATTGTAGATT
*
20120226 TTATCTCCCCGAAGTAGCAGTGGAGTAGATCAA-A-TACGATGAGTCTTATCT-TCATGAAGTAG
1 TTATCTCCCCGAAGTAGCAGTGGAGCAGATCAAGATTAC-A-GA-TCTTATCTCTC-TGAAGTAG
* * *
20120288 CAATGGAGCAGATTTAGGCCACCAG-CC
62 CAATGGAGCAGATTGAAGACACCAGACC
* * *
20120315 TTATC-CCCCTAAGGTAGCAGTGGAGCAGATTGAAGATTACAGATCTTATCTCTCTGAGGTAGCA
1 TTATCTCCCCGAA-GTAGCAGTGGAGCAGA-TCAAGATTACAGATCTTATCTCTCTGAAGTAGCA
* *** *
20120379 GTGGAGCAGATTGAAGACTGTAGATC
64 ATGGAGCAGATTGAAGACACCAGACC
*
20120405 TTATCTCCCTGAAGTAGCAGTGGAGCAGATC
1 TTATCTCCCCGAAGTAGCAGTGGAGCAGATC
20120436 GAAAACTGCA
Statistics
Matches: 99, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
88 6 0.06
89 54 0.55
90 29 0.29
91 7 0.07
92 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (89 bp):
TTATCTCCCCGAAGTAGCAGTGGAGCAGATCAAGATTACAGATCTTATCTCTCTGAAGTAGCAAT
GGAGCAGATTGAAGACACCAGACC
Found at i:20122747 original size:27 final size:27
Alignment explanation
Indices: 20122690--20122747 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
20122680 TCATTACAAA
* **
20122690 TTATTTCATATATTGTTTATTTTGAGT
1 TTATTTCATATATTGTTTATTTTAAAC
*
20122717 TTATTTTATATATTGTTTATTTTAAAC
1 TTATTTCATATATTGTTTATTTTAAAC
20122744 TTAT
1 TTAT
20122748 ATATATTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.03, G:0.07, T:0.64
Consensus pattern (27 bp):
TTATTTCATATATTGTTTATTTTAAAC
Found at i:20122757 original size:27 final size:27
Alignment explanation
Indices: 20122697--20122753 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
20122687 AAATTATTTC
* ** *
20122697 ATATATTGTTTATTTTGAGTTTATTTT
1 ATATATTGTTTATTTTAAACTTATTAT
20122724 ATATATTGTTTATTTTAAACTTA-TAT
1 ATATATTGTTTATTTTAAACTTATTAT
20122750 ATAT
1 ATAT
20122754 TATTTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (27 bp):
ATATATTGTTTATTTTAAACTTATTAT
Found at i:20127923 original size:14 final size:14
Alignment explanation
Indices: 20127891--20127921 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
20127881 TTTATTCATG
20127891 TTTTATTATTATAT
1 TTTTATTATTATAT
20127905 TTTTATTATTA-AT
1 TTTTATTATTATAT
20127918 TTTT
1 TTTT
20127922 TAATGTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATTATTATAT
Found at i:20129913 original size:17 final size:17
Alignment explanation
Indices: 20129887--20129921 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
20129877 ACAGATGTTT
20129887 ATATAATTTTTTAATAA
1 ATATAATTTTTTAATAA
* *
20129904 ATATATTTTTTTCATAA
1 ATATAATTTTTTAATAA
20129921 A
1 A
20129922 ATTTTCAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATAATTTTTTAATAA
Found at i:20135345 original size:20 final size:20
Alignment explanation
Indices: 20135315--20135356 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
20135305 TAGGTACAAG
20135315 AGGATAGGAATTA-GGATAC
1 AGGATAGGAATTAGGGATAC
20135334 AGGATAAGGAATTAGGGATAC
1 AGGAT-AGGAATTAGGGATAC
20135355 AG
1 AG
20135357 TTCGAGATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.24
20 8 0.38
21 8 0.38
ACGTcount: A:0.43, C:0.05, G:0.33, T:0.19
Consensus pattern (20 bp):
AGGATAGGAATTAGGGATAC
Found at i:20138021 original size:168 final size:166
Alignment explanation
Indices: 20137737--20138236 Score: 662
Period size: 168 Copynumber: 3.0 Consensus size: 166
20137727 ATCAGAGATT
* **
20137737 GAATATCCATGCAAGAGCCATATTGAAGATCAGAAGAGTGATGATCAAATGTGTCTAAAACTTGT
1 GAATATCCATGCAAGAGCCATATTGAAGATC-CAAGAGTGATGATCAAATGTGTCTAAAACCCGT
* * *
20137802 CAAGGAAGAACCTAAAGATGATGTTTGTGATAAACCCTTGTATGGGACTCCTTCATGCAAGGAAA
65 CAAGGAAGAAGCTAAAGATGATGTTTGTGATAAA-CCTTGTATGAGACTCCTCCATGCAAGGAAA
* * *
20137867 CTAAGAGGAAGAAATCACGACCACTATGTTCTAACA-CA
129 CTAGGAGGAAGAAATCACAACCACAATGTTCTAA-AGCA
* * *
20137905 GAATATCTATGCAAGAGCTATATTGAAGATCCTAAGAGTGATGATCAATTGTGTCTAAAACCCGT
1 GAATATCCATGCAAGAGCCATATTGAAGATCC-AAGAGTGATGATCAAATGTGTCTAAAACCCGT
* *
20137970 CAAGGAAGAAGCTAAAGATGGTGTTTATGATGAAACCTTGTATGAGACTCCTCCATGCAA-GAAA
65 CAAGGAAGAAGCTAAAGATGATGTTTGTGAT-AAACCTTGTATGAGACTCCTCCATGCAAGGAAA
* * **
20138034 GCTAGGAGGAATAAATCACAATCACAATGTTCTAAAGTT
129 -CTAGGAGGAAGAAATCACAACCACAATGTTCTAAAGCA
* * * * *
20138073 GAATATCCATGCAAGAACCATATTGAAGATAACAAGAGTGAAGATCAAGTGAGTCTAAAACCCGT
1 GAATATCCATGCAAGAGCCATATTGAAGAT-CCAAGAGTGATGATCAAATGTGTCTAAAACCCGT
*
20138138 CAAAGAAGAAGCTAAAGATGATGTTTGTGATAAAACCTTGTATGAGACTCCTCCATGCAAGGAAA
65 CAAGGAAGAAGCTAAAGATGATGTTTGTGAT-AAACCTTGTATGAGACTCCTCCATGCAAGGAAA
* * * *
20138203 CTAGGAAGAAGAAACCGCAATCACAATGTTCTAA
129 CTAGGAGGAAGAAATCACAACCACAATGTTCTAA
20138237 GCCTCGAAAG
Statistics
Matches: 293, Mismatches: 33, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
167 5 0.02
168 280 0.96
169 8 0.03
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.24
Consensus pattern (166 bp):
GAATATCCATGCAAGAGCCATATTGAAGATCCAAGAGTGATGATCAAATGTGTCTAAAACCCGTC
AAGGAAGAAGCTAAAGATGATGTTTGTGATAAACCTTGTATGAGACTCCTCCATGCAAGGAAACT
AGGAGGAAGAAATCACAACCACAATGTTCTAAAGCA
Found at i:20140642 original size:21 final size:21
Alignment explanation
Indices: 20140616--20140657 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20140606 TAAATTACAA
20140616 AATACCATCCTTCAATGCAAG
1 AATACCATCCTTCAATGCAAG
20140637 AATACCATCCTTCAATGCAAG
1 AATACCATCCTTCAATGCAAG
20140658 GGTATGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.24
Consensus pattern (21 bp):
AATACCATCCTTCAATGCAAG
Found at i:20141702 original size:22 final size:22
Alignment explanation
Indices: 20141668--20141710 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
20141658 GAGTTATGCA
20141668 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
20141690 ATAATAATGAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
20141711 AATAGTGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:20144027 original size:63 final size:63
Alignment explanation
Indices: 20143946--20144090 Score: 213
Period size: 63 Copynumber: 2.3 Consensus size: 63
20143936 CTCATACAGC
* * *
20143946 CTGGACACATGCCTGTGTCTTTGG-CTCGTTTGACTTTAATGCACAAACAGTGAGTTACAC-AGT
1 CTGGACACATGCCCGTGTCTTTGGAC-CGTATGACTCTAATGCACAAACAGTGAGTTACACGA-T
*
20144009 TTGGACACATGCCCGTGTCTTTGGACCGTATGACTCTAATGCACAAACAGTGAGTTACACGAT
1 CTGGACACATGCCCGTGTCTTTGGACCGTATGACTCTAATGCACAAACAGTGAGTTACACGAT
*
20144072 CTGGATACATGCCCGTGTC
1 CTGGACACATGCCCGTGTC
20144091 CTTAGCCCAT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
63 72 0.97
64 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (63 bp):
CTGGACACATGCCCGTGTCTTTGGACCGTATGACTCTAATGCACAAACAGTGAGTTACACGAT
Found at i:20149286 original size:42 final size:43
Alignment explanation
Indices: 20149174--20149326 Score: 170
Period size: 43 Copynumber: 3.6 Consensus size: 43
20149164 AGCTGGTACA
* *
20149174 ATGCCAACGTCCCAGACGTGGTCTTACA-TATAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGA-AATCAAATATCG
* * *
20149217 ATGCC-ACTGTCTCAGACAAGGTCTTACACGAAATCATATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
20149259 ATCCCAATGTCCTAGACATGGTCTTACACGTAAATCACAA-ATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-AATATCG
20149303 ATGCCAACGTCCCAGACATGGTCT
1 ATGCCAACGTCCCAGACATGGTCT
20149327 CACATGATAA
Statistics
Matches: 90, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
42 27 0.30
43 38 0.42
44 25 0.28
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:20172255 original size:23 final size:23
Alignment explanation
Indices: 20172229--20172290 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
20172219 TAGTTCGTAA
* *
20172229 GAGCTTACTGTTTTAGCTCATTG
1 GAGCTTACTGTTTCAGCCCATTG
*
20172252 GAGCTTATTGTTTCAGCCCATTG
1 GAGCTTACTGTTTCAGCCCATTG
20172275 GAGCTTACTG-TTCAGC
1 GAGCTTACTGTTTCAGC
20172291 TTGATAGAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 6 0.17
23 29 0.83
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.39
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCCCATTG
Found at i:20172314 original size:23 final size:22
Alignment explanation
Indices: 20172275--20172333 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 22
20172265 CAGCCCATTG
*
20172275 GAGCTTACTGTTCAGCTTGATA
1 GAGCTTACTGTTCAGCTTAATA
20172297 GAGCTTACTGGTTCAGCTTAATA
1 GAGCTTACT-GTTCAGCTTAATA
20172320 GAGCTTACTGTTCA
1 GAGCTTACTGTTCA
20172334 TCAGCTCAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 14 0.40
23 21 0.60
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.36
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTTAATA
Found at i:20177227 original size:20 final size:20
Alignment explanation
Indices: 20177202--20177253 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
20177192 CGAGTTAGGG
20177202 ACACGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
20177222 ACACGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
20177242 ACACGGGCGTGT
1 ACACGGGCGTGT
20177254 GCATTGTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.33, G:0.33, T:0.12
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAAGC
Found at i:20178056 original size:30 final size:30
Alignment explanation
Indices: 20178021--20178077 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
20178011 TAAGTTTGGC
20178021 AAGTAAGTGATAA-TTGA-AAAGTTTATATTA
1 AAGTAAGTGA-AAGTTGATAAA-TTTATATTA
20178051 AAGTAAGTGAAAGTTGATAAATTTATA
1 AAGTAAGTGAAAGTTGATAAATTTATA
20178078 CATGATACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 2 0.08
30 20 0.80
31 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (30 bp):
AAGTAAGTGAAAGTTGATAAATTTATATTA
Found at i:20179696 original size:25 final size:25
Alignment explanation
Indices: 20179644--20179697 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
20179634 GCACTCTCTC
* * **
20179644 GAGCCATGTAACAGGATGCTTATGT
1 GAGCCATGTAACAGAAAGCTTACCT
*
20179669 GAGCCATGTACCAGAAAGCTTACCT
1 GAGCCATGTAACAGAAAGCTTACCT
20179694 GAGC
1 GAGC
20179698 TAAACATGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (25 bp):
GAGCCATGTAACAGAAAGCTTACCT
Found at i:20182107 original size:13 final size:13
Alignment explanation
Indices: 20182085--20182117 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
20182075 AAGGGTTTGT
20182085 TTAT-TAAACTAA
1 TTATCTAAACTAA
20182097 TTATCTAAACTAA
1 TTATCTAAACTAA
*
20182110 TTAACTAA
1 TTATCTAA
20182118 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:20184586 original size:27 final size:26
Alignment explanation
Indices: 20184548--20184702 Score: 168
Period size: 27 Copynumber: 5.8 Consensus size: 26
20184538 GCGTACCTGA
* * *
20184548 ACCCTCATGTGATAAAATGAAAGTTTT
1 ACCCTTATATGATAAAATG-ACGTTTT
*
20184575 ACCCTTATGTGATAAAATGACGATTTT
1 ACCCTTATATGATAAAATGACG-TTTT
20184602 ACCCTTATATGATAAAATGACGATTTT
1 ACCCTTATATGATAAAATGACG-TTTT
* * * *
20184629 GCCCTCATATGATATAATGACGATTT
1 ACCCTTATATGATAAAATGACGTTTT
* *
20184655 ACCCTTATTTGATAAAATGACAATTTT
1 ACCCTTATATGATAAAATGAC-GTTTT
20184682 GA-CCTTATATGATAAAATGAC
1 -ACCCTTATATGATAAAATGAC
20184703 CAAAATACCC
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
26 22 0.20
27 88 0.79
28 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (26 bp):
ACCCTTATATGATAAAATGACGTTTT
Found at i:20184642 original size:54 final size:53
Alignment explanation
Indices: 20184548--20184756 Score: 199
Period size: 54 Copynumber: 3.9 Consensus size: 53
20184538 GCGTACCTGA
* * *
20184548 ACCCTCATGTGATAAAATGA-AAGTTTTACCCTTATGTGATAAAATGACGATTTT
1 ACCCTCATATGATAAAATGACAA-TTTTACCCTCATATGATAAAATGACGA-TTT
* * * *
20184602 ACCCTTATATGATAAAATGACGATTTTGCCCTCATATGATATAATGACGATTT
1 ACCCTCATATGATAAAATGACAATTTTACCCTCATATGATAAAATGACGATTT
* * * * **
20184655 ACCCTTATTTGATAAAATGACAATTTTGA-CCTTATATGATAAAATGACCAAAAT
1 ACCCTCATATGATAAAATGACAATTTT-ACCCTCATATGATAAAATGA-CGATTT
* ** *
20184709 ACCCTCATAGGATAAAATGACCAA-AATACCCTCATAGGATAAAATGAC
1 ACCCTCATATGATAAAATGA-CAATTTTACCCTCATATGATAAAATGAC
20184757 CGAAATACCC
Statistics
Matches: 128, Mismatches: 22, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
53 46 0.36
54 78 0.61
55 4 0.03
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (53 bp):
ACCCTCATATGATAAAATGACAATTTTACCCTCATATGATAAAATGACGATTT
Found at i:20184675 original size:53 final size:54
Alignment explanation
Indices: 20184548--20184729 Score: 206
Period size: 54 Copynumber: 3.4 Consensus size: 54
20184538 GCGTACCTGA
* * * *
20184548 ACCCTCATGTGATAAAATGA-AAGTTTTACCCTTATGTGATAAAATGACGATTTT
1 ACCCTTATATGATAAAATGACAA-TTTTGCCCTTATATGATAAAATGACGATTTT
* * *
20184602 ACCCTTATATGATAAAATGACGATTTTGCCCTCATATGATATAATGACGA-TTT
1 ACCCTTATATGATAAAATGACAATTTTGCCCTTATATGATAAAATGACGATTTT
* * * ***
20184655 ACCCTTATTTGATAAAATGACAATTTTGACCTTATATGATAAAATGACCAAAAT
1 ACCCTTATATGATAAAATGACAATTTTGCCCTTATATGATAAAATGACGATTTT
* *
20184709 ACCCTCATAGGATAAAATGAC
1 ACCCTTATATGATAAAATGAC
20184730 CAAAATACCC
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 47 0.44
54 60 0.56
55 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (54 bp):
ACCCTTATATGATAAAATGACAATTTTGCCCTTATATGATAAAATGACGATTTT
Found at i:20184714 original size:80 final size:80
Alignment explanation
Indices: 20184548--20184729 Score: 231
Period size: 80 Copynumber: 2.3 Consensus size: 80
20184538 GCGTACCTGA
* * * *
20184548 ACCCTCATGTGATAAAATGAAAGTTTTACCCTTATGTGATAAAATGACGATTTTACCCTTATATG
1 ACCCTCATATGATAAAATG-ACGATTTACCCTTATGTGATAAAATGACAATTTTACCCTTATATG
* ***
20184613 ATAAAATGACGATTTT
65 ATAAAATGACCAAAAT
* * *
20184629 GCCCTCATATGATATAATGACGATTTACCCTTATTTGATAAAATGACAATTTTGA-CCTTATATG
1 ACCCTCATATGATAAAATGACGATTTACCCTTATGTGATAAAATGACAATTTT-ACCCTTATATG
20184693 ATAAAATGACCAAAAT
65 ATAAAATGACCAAAAT
*
20184709 ACCCTCATAGGATAAAATGAC
1 ACCCTCATATGATAAAATGAC
20184730 CAAAATACCC
Statistics
Matches: 86, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
80 69 0.80
81 17 0.20
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (80 bp):
ACCCTCATATGATAAAATGACGATTTACCCTTATGTGATAAAATGACAATTTTACCCTTATATGA
TAAAATGACCAAAAT
Found at i:20184722 original size:27 final size:27
Alignment explanation
Indices: 20184692--20184846 Score: 202
Period size: 27 Copynumber: 5.7 Consensus size: 27
20184682 GACCTTATAT
* *
20184692 GATAAAATGACCAAAATACCCTCATAG
1 GATAAAATGACCGAAATACCCCCATAG
* *
20184719 GATAAAATGACCAAAATACCCTCATAG
1 GATAAAATGACCGAAATACCCCCATAG
20184746 GATAAAATGACCGAAATACCCCCATAG
1 GATAAAATGACCGAAATACCCCCATAG
* *
20184773 GGTAGAATGACCGAAATACCCCCATAG
1 GATAAAATGACCGAAATACCCCCATAG
* * *
20184800 GGTAGAATGACCGAAATACCCCTATAG
1 GATAAAATGACCGAAATACCCCCATAG
* * *
20184827 GGTAAAATGACTGTAATACC
1 GATAAAATGACCGAAATACC
20184847 TTGGTATGGT
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 120 1.00
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.18
Consensus pattern (27 bp):
GATAAAATGACCGAAATACCCCCATAG
Found at i:20184741 original size:107 final size:107
Alignment explanation
Indices: 20184548--20184756 Score: 242
Period size: 107 Copynumber: 2.0 Consensus size: 107
20184538 GCGTACCTGA
* * *** * *
20184548 ACCCTCATGTGATAAAATGAAAGTTTTACCCTTATGTGATAAAATGACGATTTTACCCTTATATG
1 ACCCTCATGTGATAAAATGAAAGTTTTACCCTTATATGATAAAATGACCAAAATACCCTCATAGG
* *** * * *
20184613 ATAAAATGACGATTTTGCCCTCATATGATATAATGACGATTT
66 ATAAAATGACCAAAATACCCTCATAGGATAAAATGACGATTT
* *
20184655 ACCCTTATTTGATAAAATGACAA-TTTTGA-CCTTATATGATAAAATGACCAAAATACCCTCATA
1 ACCCTCATGTGATAAAATGA-AAGTTTT-ACCCTTATATGATAAAATGACCAAAATACCCTCATA
20184718 GGATAAAATGACCAAAATACCCTCATAGGATAAAATGAC
64 GGATAAAATGACCAAAATACCCTCATAGGATAAAATGAC
20184757 CGAAATACCC
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
107 81 0.96
108 3 0.04
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (107 bp):
ACCCTCATGTGATAAAATGAAAGTTTTACCCTTATATGATAAAATGACCAAAATACCCTCATAGG
ATAAAATGACCAAAATACCCTCATAGGATAAAATGACGATTT
Found at i:20184863 original size:54 final size:54
Alignment explanation
Indices: 20184688--20184864 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
20184678 TTTTGACCTT
* * * *
20184688 ATATGATAAAATGACCAAAATA-CCCTCATAGGATAAAATGACCAAAATACCCTC
1 ATATGGTAAAATGACCGAAATACCCCT-ATAGGGTAAAATGACCGAAATACCCTC
* * *
20184742 ATA-GGATAAAATGACCGAAATACCCCCATAGGGTAGAATGACCGAAATACCCCC
1 ATATGG-TAAAATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCTC
* * * * * *
20184796 ATAGGGTAGAATGACCGAAATACCCCTATAGGGTAAAATGACTGTAATACCTTG
1 ATATGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCTC
*
20184850 GTATGGTAAAATGAC
1 ATATGGTAAAATGAC
20184865 AGATTTGTTC
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
53 1 0.01
54 96 0.94
55 5 0.05
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (54 bp):
ATATGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCTC
Found at i:20184863 original size:81 final size:81
Alignment explanation
Indices: 20184688--20184864 Score: 203
Period size: 81 Copynumber: 2.2 Consensus size: 81
20184678 TTTTGACCTT
* *
20184688 ATATGATAAAATGACCAAAATACCCTCATAGGATAAAATGACCAAAATACCCTCATAGGATAAAA
1 ATATGGTAAAATGACCAAAATACCCCCATAGGATAAAATGACCAAAATACCCTCATAGGATAAAA
20184753 TGACCGAAATACCCCC
66 TGACCGAAATACCCCC
* * * * * * *
20184769 ATAGGGTAGAATGACCGAAATACCCCCATAGGGTAGAATGACCGAAATACCC-CTATAGGGTAAA
1 ATATGGTAAAATGACCAAAATACCCCCATAGGATAAAATGACCAAAATACCCTC-ATAGGATAAA
* * ***
20184833 ATGACTGTAATACCTTG
65 ATGACCGAAATACCCCC
*
20184850 GTATGGTAAAATGAC
1 ATATGGTAAAATGAC
20184865 AGATTTGTTC
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 1 0.01
81 77 0.99
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (81 bp):
ATATGGTAAAATGACCAAAATACCCCCATAGGATAAAATGACCAAAATACCCTCATAGGATAAAA
TGACCGAAATACCCCC
Found at i:20191752 original size:43 final size:43
Alignment explanation
Indices: 20191592--20191750 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 43
20191582 GGTTATCGAG
* *
20191592 TTGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
1 TTGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTA
* ** * *
20191635 TTGAGATTATGTGTAAGACCATGTCTGGGACATTGGTATCGTA
1 TTGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTA
* * * * * *
20191678 TTATGATTTCGTGTAAGACCCTATCTGGGATAGTGGCATCG-A
1 TTGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTA
*
20191720 TATGTGATAACATGTAAGACCATATCTGGGA
1 T-TGTGATTACATGTAAGACCATATCTGGGA
20191751 TATGACATTG
Statistics
Matches: 96, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 2 0.02
43 94 0.98
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (43 bp):
TTGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTA
Found at i:20193404 original size:24 final size:24
Alignment explanation
Indices: 20193371--20193427 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
20193361 TCAAAATCTC
20193371 AAAATTAAATGAAAAA-AAGTAATAT
1 AAAA-TAAATGAAAAATAAGTAA-AT
* *
20193396 AAAATAAATTAAAAATAATTAAAT
1 AAAATAAATGAAAAATAAGTAAAT
20193420 AAAATAAA
1 AAAATAAA
20193428 ATAAGATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 20 0.69
25 9 0.31
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (24 bp):
AAAATAAATGAAAAATAAGTAAAT
Found at i:20196893 original size:15 final size:15
Alignment explanation
Indices: 20196842--20196909 Score: 50
Period size: 15 Copynumber: 4.4 Consensus size: 15
20196832 TACGGTATCG
20196842 CATCTTGGATTTCTT
1 CATCTTGGATTTCTT
* *
20196857 TATTTTGGAATTT-TT
1 CATCTTGG-ATTTCTT
20196872 CGA-CTTGGATTTCTT
1 C-ATCTTGGATTTCTT
* *
20196887 CCTCTTGGTTTTCATGT
1 CATCTTGGATTTC-T-T
20196904 CATCTT
1 CATCTT
20196910 TATTTCATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
14 4 0.10
15 24 0.60
16 6 0.15
17 6 0.15
ACGTcount: A:0.13, C:0.18, G:0.15, T:0.54
Consensus pattern (15 bp):
CATCTTGGATTTCTT
Found at i:20203775 original size:26 final size:26
Alignment explanation
Indices: 20203746--20203795 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
20203736 AGGTCGAAGC
20203746 TGTCAAACAGCAGAATAGGGTTAAGT
1 TGTCAAACAGCAGAATAGGGTTAAGT
20203772 TGTCAAACAGCAGAATAGGGTTAA
1 TGTCAAACAGCAGAATAGGGTTAA
20203796 CTTTAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (26 bp):
TGTCAAACAGCAGAATAGGGTTAAGT
Found at i:20204935 original size:40 final size:40
Alignment explanation
Indices: 20204857--20205065 Score: 208
Period size: 40 Copynumber: 5.2 Consensus size: 40
20204847 CAAGTTTTTC
* * *
20204857 GCGGCGTTTTTGGTAACAAACGCCGCTATAAATCGAGCATTA
1 GCGGCGTTTTTAG-AA-AAGCGCCGCTATAGATCGAGCATTA
* * * *
20204899 GCGGCATTTTTATAAAAGCGCCACTATAGATTGAGCATTA
1 GCGGCGTTTTTAGAAAAGCGCCGCTATAGATCGAGCATTA
* **
20204939 ACGGCGTTTTTAGAAAAGCGCCGCTATAGATCGATAATTA
1 GCGGCGTTTTTAGAAAAGCGCCGCTATAGATCGAGCATTA
* * *
20204979 GCGGCGCTTTTTGGAAAA-CGCCACTATAGATCGAGCTTTA
1 GCGGCG-TTTTTAGAAAAGCGCCGCTATAGATCGAGCATTA
** * *
20205019 GCTACGTTTTTTA-AAAAACGCCGCCATAGAT-GAGCATTA
1 GCGGCG-TTTTTAGAAAAGCGCCGCTATAGATCGAGCATTA
20205058 GCGGCGTT
1 GCGGCGTT
20205066 AAAAAATGCC
Statistics
Matches: 136, Mismatches: 29, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
38 2 0.01
39 15 0.11
40 97 0.71
41 12 0.09
42 10 0.07
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (40 bp):
GCGGCGTTTTTAGAAAAGCGCCGCTATAGATCGAGCATTA
Found at i:20205001 original size:80 final size:81
Alignment explanation
Indices: 20204858--20205063 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 81
20204848 AAGTTTTTCG
* * *
20204858 CGGCGTTTTTGGTAACAAACGCCGCTATAAATCGAGCATTAGCGGC-ATTTTTATAAAAGCGCCA
1 CGGCGTTTTTAG-AA-AAACGCCGCTATAGATCGAGCATTAGCGGCGATTTTTAGAAAAGCGCCA
*
20204922 CTATAGATTGAGCATTAA
64 CTATAGATCGAGCATTAA
* ** * *
20204940 CGGCGTTTTTAGAAAAGCGCCGCTATAGATCGATAATTAGCGGCGCTTTTTGGAAAA-CGCCACT
1 CGGCGTTTTTAGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGATTTTTAGAAAAGCGCCACT
* *
20205004 ATAGATCGAGCTTTAG
66 ATAGATCGAGCATTAA
** *
20205020 CTACGTTTTTTA-AAAAACGCCGCCATAGAT-GAGCATTAGCGGCG
1 CGGCG-TTTTTAGAAAAACGCCGCTATAGATCGAGCATTAGCGGCG
20205064 TTAAAAAATG
Statistics
Matches: 105, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
79 12 0.11
80 65 0.62
81 17 0.16
82 11 0.10
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (81 bp):
CGGCGTTTTTAGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGATTTTTAGAAAAGCGCCACT
ATAGATCGAGCATTAA
Found at i:20205196 original size:40 final size:40
Alignment explanation
Indices: 20205123--20205210 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
20205113 AGCCTTAGTG
* * * * * * *
20205123 GCATTAGCGGCGCTTTTTGGAAAACGCCGCTATATATTGA
1 GCATTAGCAGCACTTTTTGAAAAACGACACTATAGATCGA
*
20205163 GCTTTAGCAGCACTTTTTGAAAAACGACACTATAGATCGA
1 GCATTAGCAGCACTTTTTGAAAAACGACACTATAGATCGA
20205203 GCATTAGC
1 GCATTAGC
20205211 GACGTTTTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (40 bp):
GCATTAGCAGCACTTTTTGAAAAACGACACTATAGATCGA
Found at i:20205220 original size:40 final size:39
Alignment explanation
Indices: 20205123--20205225 Score: 100
Period size: 40 Copynumber: 2.6 Consensus size: 39
20205113 AGCCTTAGTG
* * * * * *
20205123 GCATTAGCGGCGCTTTTTGGAAAACGCCGCTATATATTGA
1 GCATTAGCGACG-TTTTTGAAAAACGACACTATAGATCGA
*
20205163 GCTTTAGCAGCAC-TTTTTGAAAAACGACACTATAGATCGA
1 GCATTAGC-G-ACGTTTTTGAAAAACGACACTATAGATCGA
*
20205203 GCATTAGCGACGTTTTTTAAAAA
1 GCATTAGCGACGTTTTTGAAAAA
20205226 ACGTCACAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
38 2 0.04
39 11 0.22
40 36 0.71
41 1 0.02
42 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (39 bp):
GCATTAGCGACGTTTTTGAAAAACGACACTATAGATCGA
Found at i:20205301 original size:154 final size:150
Alignment explanation
Indices: 20204975--20205342 Score: 445
Period size: 154 Copynumber: 2.4 Consensus size: 150
20204965 TAGATCGATA
* * *
20204975 ATTAGCGGCGCTTTTTGGAAAACGCCACTATAGATCGAGCTTTAGCTA-CGTTTTTTAAAAAACG
1 ATTAGCGGCGCTTTTTGGAAAACGCCGCTATAGATTGAGCTTTAGC-AGCGCTTTTTAAAAAACG
* * * * * * *
20205039 CCGCCATAGATGAGCATTAGCGGCGTTAAAAAATGCCGCAAATTATTTCATCAACACGCTGTCGT
65 ACACCATAGATGAGCATTAGCGACGTTAAAAAACGCCACAAATTAATTCATCAACACGCCGTCGT
20205104 TTTTTGTTGAGCCTTAGTGGC
130 TTTTTGTTGAGCCTTAGTGGC
* * *
20205125 ATTAGCGGCGCTTTTTGGAAAACGCCGCTATATATTGAGCTTTAGCAGCACTTTTTGAAAAACGA
1 ATTAGCGGCGCTTTTTGGAAAACGCCGCTATAGATTGAGCTTTAGCAGCGCTTTTTAAAAAACGA
* * *
20205190 CACTATAGATCGAGCATTAGCGACGTTTTTTAAAAAACGTCACAAATTAATTCATTAACACGCCG
66 CACCATAGAT-GAGCATTAGCGACG----TTAAAAAACGCCACAAATTAATTCATCAACACGCCG
*
20205255 TC-TTTTATT-TTTAGCCTTAGTGGC
126 TCGTTTT-TTGTTGAGCCTTAGTGGC
** * * * *
20205279 ATTAGCGGCGCTTTTTAAAAAACGCTGCTATAGATTGAGCTGTAGCGGCGCTTTTTCAAAAACG
1 ATTAGCGGCGCTTTTTGGAAAACGCCGCTATAGATTGAGCTTTAGCAGCGCTTTTTAAAAAACG
20205343 CCACAAAAAC
Statistics
Matches: 186, Mismatches: 25, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
149 1 0.01
150 64 0.34
151 13 0.07
154 74 0.40
155 34 0.18
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (150 bp):
ATTAGCGGCGCTTTTTGGAAAACGCCGCTATAGATTGAGCTTTAGCAGCGCTTTTTAAAAAACGA
CACCATAGATGAGCATTAGCGACGTTAAAAAACGCCACAAATTAATTCATCAACACGCCGTCGTT
TTTTGTTGAGCCTTAGTGGC
Found at i:20205727 original size:22 final size:22
Alignment explanation
Indices: 20205702--20205838 Score: 59
Period size: 22 Copynumber: 6.3 Consensus size: 22
20205692 GAGTTAATAT
20205702 TTTAAGGTTTATGAATTATGGG
1 TTTAAGGTTTATGAATTATGGG
* * ** *
20205724 TTTAGGGTTTAAGGGTT-GGGG
1 TTTAAGGTTTATGAATTATGGG
* **
20205745 TTTAAGATTTATGGGTTTAT-GG
1 TTTAAGGTTTAT-GAATTATGGG
* * * *
20205767 TTTATGAGTTAAT--ATTTTAAGG
1 TTTAAG-GTTTATGAATTAT-GGG
* *
20205789 TTTATGGATTATGAATTATGGG
1 TTTAAGGTTTATGAATTATGGG
* * *
20205811 TTTAGGGATTATGATTTAT-GG
1 TTTAAGGTTTATGAATTATGGG
20205832 TTTAAGG
1 TTTAAGG
20205839 GTTGAGTTTA
Statistics
Matches: 86, Mismatches: 22, Indels: 15
0.70 0.18 0.12
Matches are distributed among these distances:
20 3 0.03
21 24 0.28
22 51 0.59
23 8 0.09
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (22 bp):
TTTAAGGTTTATGAATTATGGG
Found at i:20205734 original size:29 final size:29
Alignment explanation
Indices: 20205702--20205817 Score: 74
Period size: 29 Copynumber: 4.0 Consensus size: 29
20205692 GAGTTAATAT
20205702 TTTAAGGTTTATGAATTATGGGTTTAGGG
1 TTTAAGGTTTATGAATTATGGGTTTAGGG
* ** ** * *
20205731 TTTAAGGGTTGGGGTTTA-AGATTTATGGG
1 TTTAAGGTTTATGAATTATGGGTTTA-GGG
* * ** *
20205760 TTTATGGTTTATGAGTTAAT-ATTTTAAGG
1 TTTAAGGTTTATGAATT-ATGGGTTTAGGG
* *
20205789 TTTATGGATTATGAATTATGGGTTTAGGG
1 TTTAAGGTTTATGAATTATGGGTTTAGGG
20205818 ATTATGATTT
Statistics
Matches: 62, Mismatches: 21, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
28 7 0.11
29 50 0.81
30 5 0.08
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
TTTAAGGTTTATGAATTATGGGTTTAGGG
Found at i:20205771 original size:7 final size:7
Alignment explanation
Indices: 20205646--20205835 Score: 58
Period size: 7 Copynumber: 26.4 Consensus size: 7
20205636 TTAATTATCA
*
20205646 TTATAGT
1 TTATGGT
*
20205653 TTAAGGT
1 TTATGGT
*
20205660 TTAGGGT
1 TTATGGT
*
20205667 ATATGGT
1 TTATGGT
* *
20205674 ATAGGGT
1 TTATGGT
20205681 TTATGAG-
1 TTATG-GT
20205688 TTATGAGT
1 TTATG-GT
* **
20205696 TAATATT
1 TTATGGT
*
20205703 TTAAGGT
1 TTATGGT
**
20205710 TTATGAA
1 TTATGGT
20205717 TTATGGGT
1 TTAT-GGT
*
20205725 TTAGGGT
1 TTATGGT
* *
20205732 TTAAGGG
1 TTATGGT
**
20205739 TTGGGGT
1 TTATGGT
* *
20205746 TTAAGAT
1 TTATGGT
20205753 TTATGGGT
1 TTAT-GGT
20205761 TTATGGT
1 TTATGGT
20205768 TTATGAGT
1 TTATG-GT
* **
20205776 TAATATT
1 TTATGGT
*
20205783 TTAAGGT
1 TTATGGT
*
20205790 TTATGGA
1 TTATGGT
**
20205797 TTATGAA
1 TTATGGT
20205804 TTATGGGT
1 TTAT-GGT
* *
20205812 TTAGGGA
1 TTATGGT
*
20205819 TTATGAT
1 TTATGGT
20205826 TTATGGT
1 TTATGGT
20205833 TTA
1 TTA
20205836 AGGGTTGAGT
Statistics
Matches: 128, Mismatches: 49, Indels: 12
0.68 0.26 0.06
Matches are distributed among these distances:
7 105 0.82
8 23 0.18
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (7 bp):
TTATGGT
Found at i:20205839 original size:22 final size:22
Alignment explanation
Indices: 20205787--20205835 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
20205777 AATATTTTAA
*
20205787 GGTTTATGGATTATGAATTATG
1 GGTTTAGGGATTATGAATTATG
*
20205809 GGTTTAGGGATTATGATTTAT-
1 GGTTTAGGGATTATGAATTATG
20205830 GGTTTA
1 GGTTTA
20205836 AGGGTTGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (22 bp):
GGTTTAGGGATTATGAATTATG
Found at i:20205989 original size:15 final size:15
Alignment explanation
Indices: 20205971--20206006 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
20205961 GGGCAGGGGC
20205971 TAAGGGTTAAGG-ATT
1 TAAGGGTTAAGGCA-T
20205986 TAAGGGTTAAGGCAT
1 TAAGGGTTAAGGCAT
20206001 TAAGGG
1 TAAGGG
20206007 GATAGAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.33, C:0.03, G:0.36, T:0.28
Consensus pattern (15 bp):
TAAGGGTTAAGGCAT
Found at i:20206367 original size:22 final size:22
Alignment explanation
Indices: 20206304--20206367 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
20206294 AACTGATTGT
*
20206304 TTTTTAATTTATATTGTTTTTAA
1 TTTTTAATTTATATT-ATTTTAA
* * *
20206327 TTTTTAAATTAAATAATTTTAA
1 TTTTTAATTTATATTATTTTAA
20206349 TTTTTAATTTATATTATTT
1 TTTTTAATTTATATTATTT
20206368 AATCATTTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
22 22 0.65
23 12 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTTAATTTATATTATTTTAA
Found at i:20206882 original size:6 final size:6
Alignment explanation
Indices: 20206873--20206902 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
20206863 CCATTCACAT
*
20206873 TCCCAC TCCCAC TCTCAC TCCCAC TCCCAC
1 TCCCAC TCCCAC TCCCAC TCCCAC TCCCAC
20206903 ATACTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.63, G:0.00, T:0.20
Consensus pattern (6 bp):
TCCCAC
Found at i:20210162 original size:19 final size:19
Alignment explanation
Indices: 20210108--20210162 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
20210098 ATTTAATCTA
20210108 ATTTTTATTATT--TATTTT
1 ATTTTTATT-TTAATATTTT
* *
20210126 AGTTTTGATTCTAA-ATTTT
1 A-TTTTTATTTTAATATTTT
20210145 ATTTTTATTTTAATATTT
1 ATTTTTATTTTAATATTT
20210163 AAGATAACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (19 bp):
ATTTTTATTTTAATATTTT
Found at i:20210466 original size:43 final size:43
Alignment explanation
Indices: 20210418--20210638 Score: 304
Period size: 43 Copynumber: 5.2 Consensus size: 43
20210408 GGTTATAATT
* *
20210418 TTTAGCGGCGTTTATGGGAAAAGCGTCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGTTC
* * *
20210461 TTTAGCGGCGTTTGTGGGAAAAGTGTCACTAAAGGTC-TATTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGTTC
*
20210503 TTTAGCGGCGTTTGTGGGAAAAGCG-CTGCTAAAGGCCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTC-GCTAAAGGTCATGTTC
*
20210546 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGTTC
* * *
20210589 TTTAGTGGCGTTTGTGGTAAAAG-GATCGCTAAAGGCCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCG-TCGCTAAAGGTCATGTTC
*
20210632 TATAGCG
1 TTTAGCG
20210639 AAATTTTTTT
Statistics
Matches: 158, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.01
42 37 0.23
43 119 0.75
44 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGTTC
Found at i:20210561 original size:85 final size:86
Alignment explanation
Indices: 20210404--20210638 Score: 316
Period size: 85 Copynumber: 2.7 Consensus size: 86
20210394 AATATTCTTT
* * **
20210404 TAAAGGTTATAATT-TTTAGCGGCGTTTATGGGAAAAGCGTCGCTAAAGATCATGTTCTTTAGCG
1 TAAAGGTCAT-ATTCTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGCCATGTTCTTTAGCG
* *
20210468 GCGTTTGTGGGAAAAGTGTCAC
65 GCGTTTGTGGGAAAAGCGCCAC
20210490 TAAAGGTC-TATTCTTTAGCGGCGTTTGTGGGAAAAGCG-CTGCTAAAGGCCATGTTCTTTAGCG
1 TAAAGGTCATATTCTTTAGCGGCGTTTGTGGGAAAAGCGTC-GCTAAAGGCCATGTTCTTTAGCG
*
20210553 GCGTTTGTGGGAAAAGCGCCGC
65 GCGTTTGTGGGAAAAGCGCCAC
* * * *
20210575 TAAAGGTCATGTTCTTTAGTGGCGTTTGTGGTAAAAG-GATCGCTAAAGGCCATGTTCTATAGCG
1 TAAAGGTCATATTCTTTAGCGGCGTTTGTGGGAAAAGCG-TCGCTAAAGGCCATGTTCTTTAGCG
20210639 AAATTTTTTT
Statistics
Matches: 133, Mismatches: 11, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
84 4 0.03
85 74 0.56
86 54 0.41
87 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.31
Consensus pattern (86 bp):
TAAAGGTCATATTCTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGCCATGTTCTTTAGCGG
CGTTTGTGGGAAAAGCGCCAC
Found at i:20210692 original size:15 final size:15
Alignment explanation
Indices: 20210668--20210720 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
20210658 TCGCAAAATG
*
20210668 TTAGCAGCGTTGTTT
1 TTAGCGGCGTTGTTT
**
20210683 TTAGCGGCGTTGCCT
1 TTAGCGGCGTTGTTT
*
20210698 TTAGCGGCATT-TTT
1 TTAGCGGCGTTGTTT
*
20210712 TTTGCGGCG
1 TTAGCGGCG
20210721 CCGCTATAGG
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
14 8 0.27
15 22 0.73
ACGTcount: A:0.09, C:0.19, G:0.30, T:0.42
Consensus pattern (15 bp):
TTAGCGGCGTTGTTT
Found at i:20210848 original size:22 final size:22
Alignment explanation
Indices: 20210806--20210848 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
20210796 TGTCGGAAAG
* *
20210806 ACACGGGCGTGTCCCTGTGTTC
1 ACACAGGCGTGTACCTGTGTTC
20210828 ACACAGGCGTGTGACCT-TGTT
1 ACACAGGCGTGT-ACCTGTGTT
20210849 TCATGAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.14, C:0.28, G:0.30, T:0.28
Consensus pattern (22 bp):
ACACAGGCGTGTACCTGTGTTC
Found at i:20217319 original size:19 final size:17
Alignment explanation
Indices: 20217303--20217375 Score: 64
Period size: 16 Copynumber: 4.4 Consensus size: 17
20217293 TTTATTTCAT
20217303 TTTTTCTCTTTTTTTTC
1 TTTTTCTCTTTTTTTTC
20217320 TTTTTCT-TTTTTTTT-
1 TTTTTCTCTTTTTTTTC
* *
20217335 TGTTTCT-TTGTTTTTTA
1 TTTTTCTCTT-TTTTTTC
* *
20217352 TTCTTCT-TTCTTTTTC
1 TTTTTCTCTTTTTTTTC
20217368 TATTTTCT
1 T-TTTTCT
20217376 TTCTTTTCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
15 8 0.17
16 20 0.43
17 19 0.40
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.81
Consensus pattern (17 bp):
TTTTTCTCTTTTTTTTC
Found at i:20217323 original size:18 final size:18
Alignment explanation
Indices: 20217283--20217377 Score: 59
Period size: 17 Copynumber: 5.0 Consensus size: 18
20217273 TTCTTCCCCC
20217283 TTTCTTCTTCTTTATTTCATTT
1 TTTC-TCTT-TTT-TTTC-TTT
20217305 TTTCTCTTTTTTTTC-TT
1 TTTCTCTTTTTTTTCTTT
* *
20217322 TTTCTTTTTTTTTTGTTT
1 TTTCTCTTTTTTTTCTTT
* * *
20217340 CTTTGT-TTTTTATTCTTC
1 -TTTCTCTTTTTTTTCTTT
*
20217358 TTTCTTTTTCTATTTTCTTT
1 TTTCTCTTT-T-TTTTCTTT
20217378 CTTTTCCTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
17 19 0.32
18 14 0.24
19 9 0.15
20 9 0.15
21 4 0.07
22 4 0.07
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (18 bp):
TTTCTCTTTTTTTTCTTT
Found at i:20217325 original size:17 final size:16
Alignment explanation
Indices: 20217303--20217387 Score: 82
Period size: 17 Copynumber: 5.2 Consensus size: 16
20217293 TTTATTTCAT
20217303 TTTTTCTCTTTTTTTTC
1 TTTTTCT-TTTTTTTTC
20217320 TTTTTCTTTTTTTTT-
1 TTTTTCTTTTTTTTTC
* *
20217335 TGTTTCTTTGTTTTTTA
1 TTTTTCTTT-TTTTTTC
* *
20217352 TTCTTCTTTCTTTTTC
1 TTTTTCTTTTTTTTTC
* *
20217368 TATTTTCTTTCTTTTCC
1 T-TTTTCTTTTTTTTTC
20217385 TTT
1 TTT
20217388 CCCTTCCTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
15 8 0.14
16 22 0.38
17 28 0.48
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTC
Found at i:20217340 original size:21 final size:20
Alignment explanation
Indices: 20217311--20217383 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
20217301 ATTTTTTCTC
20217311 TTTTTTTTCTTTTTCTTTTT
1 TTTTTTTTCTTTTTCTTTTT
20217331 TTTTTGTTTCTTTGTT-TTTTAT
1 TTTTT-TTTCTTT-TTCTTTT-T
* *
20217353 TCTTCTTTCTTTTTCTATTTT
1 TTTTTTTTCTTTTTCT-TTTT
*
20217374 CTTTCTTTTC
1 -TTTTTTTTC
20217384 CTTTCCCTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
20 7 0.17
21 20 0.48
22 15 0.36
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.81
Consensus pattern (20 bp):
TTTTTTTTCTTTTTCTTTTT
Found at i:20217349 original size:32 final size:31
Alignment explanation
Indices: 20217283--20217383 Score: 89
Period size: 32 Copynumber: 3.1 Consensus size: 31
20217273 TTCTTCCCCC
*
20217283 TTTCTTCTTCTTTATTTCATTTTTTCTCTTTTT
1 TTTCTTCTTCTTT-TTT-TTTTTTTCTCTTTTT
*
20217316 TTTCTTTTTCTTTTTTTTTTGTTTCT-TTGTTT
1 TTTCTTCTTCTTTTTTTTTT-TTTCTCTT-TTT
* * *
20217348 TTTATTCTTCTTTCTTTTTCTATTT-TCTTTCT
1 TTTCTTCTTCTTT-TTTTT-TTTTTCTCTTTTT
20217380 TTTC
1 TTTC
20217384 CTTTCCCTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
31 5 0.09
32 28 0.50
33 22 0.39
34 1 0.02
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (31 bp):
TTTCTTCTTCTTTTTTTTTTTTTCTCTTTTT
Found at i:20224489 original size:44 final size:44
Alignment explanation
Indices: 20224439--20224527 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
20224429 CAATAACATG
*
20224439 TGTCACATATATCATGAACTCATACCACAACTCATGAGTTCAGA
1 TGTCACATATATCATGAACTCAGACCACAACTCATGAGTTCAGA
* *
20224483 TGTCACATATATCATGAACTCAGACCATAAGTCATGAGTTCAGA
1 TGTCACATATATCATGAACTCAGACCACAACTCATGAGTTCAGA
20224527 T
1 T
20224528 CACATAGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.28
Consensus pattern (44 bp):
TGTCACATATATCATGAACTCAGACCACAACTCATGAGTTCAGA
Found at i:20224505 original size:24 final size:24
Alignment explanation
Indices: 20224439--20224506 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 24
20224429 CAATAACATG
20224439 TGTCACATATATCATGAACTC--A
1 TGTCACATATATCATGAACTCAGA
** * **
20224461 TACCACA-A-CTCATGAGTTCAGA
1 TGTCACATATATCATGAACTCAGA
20224483 TGTCACATATATCATGAACTCAGA
1 TGTCACATATATCATGAACTCAGA
20224507 CCATAAGTCA
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
20 8 0.25
21 1 0.03
22 11 0.34
23 1 0.03
24 11 0.34
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.28
Consensus pattern (24 bp):
TGTCACATATATCATGAACTCAGA
Found at i:20226790 original size:21 final size:20
Alignment explanation
Indices: 20226758--20226796 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
20226748 ATTTAGCTCA
20226758 ATTTAATACAATTCATATTC
1 ATTTAATACAATTCATATTC
*
20226778 ATTTCAATCCAATTCATAT
1 ATTT-AATACAATTCATAT
20226797 CTTAGGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTAATACAATTCATATTC
Found at i:20226978 original size:19 final size:20
Alignment explanation
Indices: 20226937--20226980 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
20226927 AGCTCATGTA
*
20226937 TTTCATAAAATTTAGAATTT
1 TTTCATAAAATTTAGAATCT
* *
20226957 TTTCATAAATTTTA-TATCT
1 TTTCATAAAATTTAGAATCT
20226976 TTTCA
1 TTTCA
20226981 ATTTAGTCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTCATAAAATTTAGAATCT
Found at i:20236579 original size:50 final size:50
Alignment explanation
Indices: 20236525--20236621 Score: 167
Period size: 50 Copynumber: 1.9 Consensus size: 50
20236515 GGACATTGAA
* *
20236525 TATCAGGTGGGAGATAAAGTGTTCCTTAAAGTTTCGCCTTGGAAAAAGAT
1 TATCAGGTGGGAGACAAAGTGTTCCTTAAAGTTTCACCTTGGAAAAAGAT
*
20236575 TATCAGGTGGGAGACAAAGTGTTTCTTAAAGTTTCACCTTGGAAAAA
1 TATCAGGTGGGAGACAAAGTGTTCCTTAAAGTTTCACCTTGGAAAAA
20236622 TATACTCAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (50 bp):
TATCAGGTGGGAGACAAAGTGTTCCTTAAAGTTTCACCTTGGAAAAAGAT
Found at i:20244501 original size:38 final size:40
Alignment explanation
Indices: 20244458--20244533 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
20244448 AACATATGAT
20244458 GTATTATATCCGGG-TTAAA-TCCCGCAGGCTTAATGCCG
1 GTATTATATCCGGGTTTAAAGTCCCGCAGGCTTAATGCCG
* *
20244496 GTATTATATCCGGGTTTAAAGTCCCGTAGGCTTTATGC
1 GTATTATATCCGGGTTTAAAGTCCCGCAGGCTTAATGC
20244534 TAGTGACTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 14 0.41
39 5 0.15
40 15 0.44
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (40 bp):
GTATTATATCCGGGTTTAAAGTCCCGCAGGCTTAATGCCG
Found at i:20251992 original size:38 final size:38
Alignment explanation
Indices: 20251949--20252101 Score: 225
Period size: 38 Copynumber: 4.0 Consensus size: 38
20251939 AACATATGAT
*
20251949 GTATTATATCCGGGTTAAATTCCGCAAGCTTAATGCTG
1 GTATTATATCCGGGTTAAATCCCGCAAGCTTAATGCTG
20251987 GTATTATATCCGGGTTAAATCCCGCAAGCTTAATGCTG
1 GTATTATATCCGGGTTAAATCCCGCAAGCTTAATGCTG
* *
20252025 GTATTATATCCGGGTTAAATCCCGCAGGCTTAACGCTG
1 GTATTATATCCGGGTTAAATCCCGCAAGCTTAATGCTG
* * * *
20252063 GTATTATATTCGGGTTTAAAGTCTCGCAGGCTTTATGCT
1 GTATTATATCCGGG-TTAAA-TCCCGCAAGCTTAATGCT
20252102 AGTGACTAGA
Statistics
Matches: 106, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 86 0.81
39 5 0.05
40 15 0.14
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (38 bp):
GTATTATATCCGGGTTAAATCCCGCAAGCTTAATGCTG
Found at i:20256499 original size:28 final size:28
Alignment explanation
Indices: 20256459--20256512 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
20256449 CGATTATTTC
20256459 TATCTCAGATTTGTGGTCACAAAACCTT
1 TATCTCAGATTTGTGGTCACAAAACCTT
20256487 TATCTCAGATTTGTGGTCACAAAACC
1 TATCTCAGATTTGTGGTCACAAAACC
20256513 ACTATTCCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (28 bp):
TATCTCAGATTTGTGGTCACAAAACCTT
Found at i:20267305 original size:40 final size:40
Alignment explanation
Indices: 20267261--20267390 Score: 197
Period size: 40 Copynumber: 3.2 Consensus size: 40
20267251 ATAATTATTG
*
20267261 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTTCTTCGGTACCC
* *
20267301 CTGAATGCACATATGTGCCCCTGTTTGTTCTTCGATACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTTCTTCGGTACCC
* * *
20267341 GTGGATGCACATACGTGCCCCTGTTTGTTCTTCTGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTTCTTCGGTACCC
*
20267381 CTGGATGCAC
1 CTGAATGCAC
20267391 TAGCATGTGA
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.16, C:0.31, G:0.21, T:0.32
Consensus pattern (40 bp):
CTGAATGCACATACGTGCCCCTGTTTGTTCTTCGGTACCC
Found at i:20267321 original size:20 final size:20
Alignment explanation
Indices: 20267261--20267323 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
20267251 ATAATTATTG
20267261 CTGAATGCACATACGTGCCC
1 CTGAATGCACATACGTGCCC
** * * *
20267281 CTGTTTGTAC-TTCGGTACCC
1 CTGAATGCACATAC-GTGCCC
*
20267301 CTGAATGCACATATGTGCCC
1 CTGAATGCACATACGTGCCC
20267321 CTG
1 CTG
20267324 TTTGTTCTTC
Statistics
Matches: 30, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
19 2 0.07
20 27 0.90
21 1 0.03
ACGTcount: A:0.19, C:0.32, G:0.21, T:0.29
Consensus pattern (20 bp):
CTGAATGCACATACGTGCCC
Found at i:20269549 original size:31 final size:31
Alignment explanation
Indices: 20269511--20269574 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
20269501 TAAGTAGATT
20269511 TCCCATATAAATACATCATTTAATTCATCAA
1 TCCCATATAAATACATCATTTAATTCATCAA
20269542 TCCCATATAAATACATCATTTAATTCATCAA
1 TCCCATATAAATACATCATTTAATTCATCAA
20269573 TC
1 TC
20269575 TTTTTATAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (31 bp):
TCCCATATAAATACATCATTTAATTCATCAA
Found at i:20271772 original size:30 final size:30
Alignment explanation
Indices: 20271736--20271801 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
20271726 GTCACACGGT
*
20271736 CGTGTGACACGCACGACCTGACGACACAAC
1 CGTGTGACACACACGACCTGACGACACAAC
* **
20271766 CGTGTGACACACACGGCCTGGTGACACAAC
1 CGTGTGACACACACGACCTGACGACACAAC
*
20271796 TGTGTG
1 CGTGTG
20271802 TCATTTAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.32, G:0.27, T:0.15
Consensus pattern (30 bp):
CGTGTGACACACACGACCTGACGACACAAC
Found at i:20278120 original size:13 final size:13
Alignment explanation
Indices: 20278102--20278126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20278092 ATCAGCAAAA
20278102 ATTTTAAAATATT
1 ATTTTAAAATATT
20278115 ATTTTAAAATAT
1 ATTTTAAAATAT
20278127 AAATAAATTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTAAAATATT
Found at i:20278563 original size:4 final size:4
Alignment explanation
Indices: 20278546--20278576 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
20278536 TTTTTTTACT
20278546 TAAA TAATA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAA-A TAAA TAAA TAAA TAAA TAAA TA
20278577 TTGAAACAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
TAAA
Found at i:20289902 original size:15 final size:15
Alignment explanation
Indices: 20289884--20289913 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20289874 AAGCAAATAA
20289884 AGAAATCCAAGATAG
1 AGAAATCCAAGATAG
*
20289899 AGAAATCCGAGATAG
1 AGAAATCCAAGATAG
20289914 GATACCATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.23, T:0.13
Consensus pattern (15 bp):
AGAAATCCAAGATAG
Found at i:20290365 original size:20 final size:20
Alignment explanation
Indices: 20290340--20290379 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
20290330 TTCACTGTGA
20290340 TTACCACATTCTTTCAATAT
1 TTACCACATTCTTTCAATAT
*
20290360 TTACCACATTCTTTTAATAT
1 TTACCACATTCTTTCAATAT
20290380 CGTATCCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (20 bp):
TTACCACATTCTTTCAATAT
Found at i:20299674 original size:25 final size:25
Alignment explanation
Indices: 20299645--20299886 Score: 189
Period size: 25 Copynumber: 9.7 Consensus size: 25
20299635 AAGATAATAC
* *
20299645 GATCGGCACAAATCCATCGATAACA
1 GATCGGCACAAAGCCATCAATAACA
* * *
20299670 GATCGACACATAGCCATCAATATCA
1 GATCGGCACAAAGCCATCAATAACA
* **
20299695 TATCGGCACAAAGCCATTGATAACA
1 GATCGGCACAAAGCCATCAATAACA
* * *
20299720 GATCGACACATAGCCATCAATATCA
1 GATCGGCACAAAGCCATCAATAACA
* * **
20299745 TATCAGCACAAAGCCATCGTTAACA
1 GATCGGCACAAAGCCATCAATAACA
* * *
20299770 AATCGACACATAGCCATCAATAACA
1 GATCGGCACAAAGCCATCAATAACA
* * *
20299795 TATCGGCACAAAGCCATGAATAGCA
1 GATCGGCACAAAGCCATCAATAACA
* * * * *
20299820 TA-CTGGCACGAAGCCTTCAGTAGCA
1 GATC-GGCACAAAGCCATCAATAACA
* ** *
20299845 TATCGGCACAAAGCTTTCAATAGCA
1 GATCGGCACAAAGCCATCAATAACA
*
20299870 TATCGGCACAAAGCCAT
1 GATCGGCACAAAGCCAT
20299887 AATTAGAATA
Statistics
Matches: 171, Mismatches: 44, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
24 1 0.01
25 169 0.99
26 1 0.01
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.19
Consensus pattern (25 bp):
GATCGGCACAAAGCCATCAATAACA
Found at i:20299721 original size:50 final size:50
Alignment explanation
Indices: 20299646--20299811 Score: 278
Period size: 50 Copynumber: 3.3 Consensus size: 50
20299636 AGATAATACG
*
20299646 ATCGGCACAAATCCATCGATAACAGATCGACACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGACACATAGCCATCAATATCAT
*
20299696 ATCGGCACAAAGCCATTGATAACAGATCGACACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGACACATAGCCATCAATATCAT
* * * *
20299746 ATCAGCACAAAGCCATCGTTAACAAATCGACACATAGCCATCAATAACAT
1 ATCGGCACAAAGCCATCGATAACAGATCGACACATAGCCATCAATATCAT
20299796 ATCGGCACAAAGCCAT
1 ATCGGCACAAAGCCAT
20299812 GAATAGCATA
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 108 1.00
ACGTcount: A:0.41, C:0.28, G:0.13, T:0.19
Consensus pattern (50 bp):
ATCGGCACAAAGCCATCGATAACAGATCGACACATAGCCATCAATATCAT
Found at i:20299854 original size:100 final size:100
Alignment explanation
Indices: 20299646--20299858 Score: 279
Period size: 100 Copynumber: 2.1 Consensus size: 100
20299636 AGATAATACG
* * *
20299646 ATCGGCACAAATCCATCGATAACAGATCGACACATAGCCATCAATATCATATCGGCACAAAGCCA
1 ATCGGCACAAAGCCATCGATAACAAATCGACACATAGCCATCAATAACATATCGGCACAAAGCCA
*
20299711 TTGATAACAGATCGACACATAGCCATCAATATCAT
66 TTGATAACAGATCGACACATAGCCATCAATAGCAT
* *
20299746 ATCAGCACAAAGCCATCGTTAACAAATCGACACATAGCCATCAATAACATATCGGCACAAAGCCA
1 ATCGGCACAAAGCCATCGATAACAAATCGACACATAGCCATCAATAACATATCGGCACAAAGCCA
* * * * *
20299811 -TGAATAGCATA-CTGGCACGA-AGCCTTCAGTAGCAT
66 TTG-ATAACAGATC-GACAC-ATAGCCATCAATAGCAT
20299846 ATCGGCACAAAGC
1 ATCGGCACAAAGC
20299859 TTTCAATAGC
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
99 3 0.03
100 94 0.96
101 1 0.01
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.18
Consensus pattern (100 bp):
ATCGGCACAAAGCCATCGATAACAAATCGACACATAGCCATCAATAACATATCGGCACAAAGCCA
TTGATAACAGATCGACACATAGCCATCAATAGCAT
Found at i:20300167 original size:26 final size:26
Alignment explanation
Indices: 20300138--20300195 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
20300128 AAAACGTCAT
20300138 TTTACCCTACAAGGGTATTTCAGTAA
1 TTTACCCTACAAGGGTATTTCAGTAA
*
20300164 TTTACCCTACAGGGGTATTTCAGTAA
1 TTTACCCTACAAGGGTATTTCAGTAA
20300190 TCTTAC
1 T-TTAC
20300196 AAACTTAGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.36
Consensus pattern (26 bp):
TTTACCCTACAAGGGTATTTCAGTAA
Found at i:20303380 original size:25 final size:25
Alignment explanation
Indices: 20303341--20303582 Score: 180
Period size: 25 Copynumber: 9.7 Consensus size: 25
20303331 ACAACAATAC
* * *
20303341 GATCTGCATAAAGCCATCGATAACA
1 GATCGGCACAAAGCCATCAATAACA
* *
20303366 GATCGGCACATAGCCATCAATATCA
1 GATCGGCACAAAGCCATCAATAACA
* * * *
20303391 TATCGACACAAAGCCATCGATAATA
1 GATCGGCACAAAGCCATCAATAACA
* *
20303416 GATCGGCACATAGCCATCAATATCA
1 GATCGGCACAAAGCCATCAATAACA
* * **
20303441 TATCAGCACAAAGCCATCGTTAACA
1 GATCGGCACAAAGCCATCAATAACA
* *
20303466 GATCGGCACATAGCCATCAATATCA
1 GATCGGCACAAAGCCATCAATAACA
* * *
20303491 TATCGGCACAAAGCCATGAATAGCA
1 GATCGGCACAAAGCCATCAATAACA
* * * * * *
20303516 TA-CTGGCACGAGGCCTTCAGTAGCA
1 GATC-GGCACAAAGCCATCAATAACA
* * ** *
20303541 TATCGACACAAAGCTTTCAATAGCA
1 GATCGGCACAAAGCCATCAATAACA
*
20303566 TATCGGCACAAAGCCAT
1 GATCGGCACAAAGCCAT
20303583 AATTAGAATA
Statistics
Matches: 169, Mismatches: 46, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
24 1 0.01
25 167 0.99
26 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (25 bp):
GATCGGCACAAAGCCATCAATAACA
Found at i:20303409 original size:50 final size:50
Alignment explanation
Indices: 20303350--20303507 Score: 273
Period size: 50 Copynumber: 3.2 Consensus size: 50
20303340 CGATCTGCAT
20303350 AAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCATATCGACAC
1 AAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCATATCGACAC
*
20303400 AAAGCCATCGATAATAGATCGGCACATAGCCATCAATATCATATC-AGCAC
1 AAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCATATCGA-CAC
* *
20303450 AAAGCCATCGTTAACAGATCGGCACATAGCCATCAATATCATATCGGCAC
1 AAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCATATCGACAC
20303500 AAAGCCAT
1 AAAGCCAT
20303508 GAATAGCATA
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
49 1 0.01
50 101 0.99
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.19
Consensus pattern (50 bp):
AAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCATATCGACAC
Found at i:20303524 original size:50 final size:49
Alignment explanation
Indices: 20303350--20303554 Score: 247
Period size: 50 Copynumber: 4.1 Consensus size: 49
20303340 CGATCTGCAT
*
20303350 AAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCATATCGACAC
1 AAAGCCATCG-TAATAGATCGGCACATAGCCATCAATATCATATCGACAC
20303400 AAAGCCATCGATAATAGATCGGCACATAGCCATCAATATCATATC-AGCAC
1 AAAGCCATCG-TAATAGATCGGCACATAGCCATCAATATCATATCGA-CAC
* *
20303450 AAAGCCATCGTTAACAGATCGGCACATAGCCATCAATATCATATCGGCAC
1 AAAGCCATCG-TAATAGATCGGCACATAGCCATCAATATCATATCGACAC
* * * *
20303500 AAAGCCAT-G-AATAGCATACTGGCACGA-GGCCTTCAGTAGCATATCGACAC
1 AAAGCCATCGTAATAG-AT-C-GGCAC-ATAGCCATCAATATCATATCGACAC
20303550 AAAGC
1 AAAGC
20303555 TTTCAATAGC
Statistics
Matches: 139, Mismatches: 10, Indels: 12
0.86 0.06 0.07
Matches are distributed among these distances:
47 4 0.03
48 2 0.01
49 3 0.02
50 129 0.93
51 1 0.01
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.19
Consensus pattern (49 bp):
AAAGCCATCGTAATAGATCGGCACATAGCCATCAATATCATATCGACAC
Found at i:20303543 original size:100 final size:99
Alignment explanation
Indices: 20303350--20303582 Score: 276
Period size: 100 Copynumber: 2.3 Consensus size: 99
20303340 CGATCTGCAT
20303350 AAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCATATCGACACAAAGCCATCGATAAT
1 AAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCATATCGACACAAAGCCATCGA-AAT
*
20303415 AGATCGGCACATAGCCATCAATATCATATC-AGCAC
65 AGATCGGCACATAGCCATCAATAGCATATCGA-CAC
* *
20303450 AAAGCCATCGTTAACAGATCGGCACATAGCCATCAATATCATATCGGCACAAAGCCAT-G-AATA
1 AAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCATATCGACACAAAGCCATCGAAATA
* * *
20303513 GCATACTGGCACGA-GGCCTTCAGTAGCATATCGACAC
66 G-AT-C-GGCAC-ATAGCCATCAATAGCATATCGACAC
** * * * *
20303550 AAAGCTTTCAATAGCATATCGGCACAAAGCCAT
1 AAAGCCATCGATAACAGATCGGCACATAGCCAT
20303583 AATTAGAATA
Statistics
Matches: 115, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
97 5 0.04
98 2 0.02
99 2 0.02
100 104 0.90
101 2 0.02
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (99 bp):
AAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCATATCGACACAAAGCCATCGAAATA
GATCGGCACATAGCCATCAATAGCATATCGACAC
Found at i:20303869 original size:26 final size:27
Alignment explanation
Indices: 20303812--20303870 Score: 86
Period size: 25 Copynumber: 2.3 Consensus size: 27
20303802 GTAAAACATC
20303812 ATTTTACCCTACAAGGGTATTTCGGTA
1 ATTTTACCCTACAAGGGTATTTCGGTA
* *
20303839 A-TTTACCTTAC-AGGGTATTTTGGTA
1 ATTTTACCCTACAAGGGTATTTCGGTA
20303864 ATTTTAC
1 ATTTTAC
20303871 AAACCTGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 14 0.48
26 14 0.48
27 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTACAAGGGTATTTCGGTA
Found at i:20321144 original size:39 final size:40
Alignment explanation
Indices: 20321099--20321230 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
20321089 GCTCCTCGTT
* * *
20321099 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
20321139 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
20321178 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
20321218 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
20321231 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.43
40 46 0.57
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:20321292 original size:41 final size:41
Alignment explanation
Indices: 20321215--20321292 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
20321205 TTAGTATCTC
* * *
20321215 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
20321256 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
20321293 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:20328007 original size:40 final size:40
Alignment explanation
Indices: 20327952--20328315 Score: 602
Period size: 40 Copynumber: 9.1 Consensus size: 40
20327942 NNNNNNNNNN
* *
20327952 ATATCATCTCGCATAATTGCCTTCGGGTTTTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
* *
20327992 ATATCATCTCGCATAATTGCCTTCGGGTTTTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
* * *
20328032 ATATCATCTCGCATAATTGCCTTCGGGTCATAGCCCGGAC
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
* *
20328072 ATATTAACTCGCATAATTGCTTTCGGGTCTTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
20328112 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
* *
20328152 ATATCATCTCGCATAATTGCCTTCGGGTCCTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
*
20328192 ATATCAACTCGCATAATTGCCTTCGGGTCCTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
*
20328232 ATATCAACTCGCATAATTGCCTTCGGGTCCTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
*
20328272 ATATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
20328312 ATAT
1 ATAT
20328316 TCCAATGCTC
Statistics
Matches: 310, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 310 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
Found at i:20333073 original size:21 final size:21
Alignment explanation
Indices: 20333044--20333096 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
20333034 TTTTGGATAT
20333044 TTTCC-CCCA-TAATCCTCTAA
1 TTTCCTCCCACTAATCC-CTAA
*
20333064 TTTCCTCCCACTTATCCCTAA
1 TTTCCTCCCACTAATCCCTAA
*
20333085 ATTCACTCCCAC
1 TTTC-CTCCCAC
20333097 ACTTCCCCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.18
21 11 0.39
22 12 0.43
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.34
Consensus pattern (21 bp):
TTTCCTCCCACTAATCCCTAA
Found at i:20337413 original size:25 final size:26
Alignment explanation
Indices: 20337385--20337436 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
20337375 GAGAATTTCG
20337385 ATTAAA-GGTTCTTTATGAACTTCCC
1 ATTAAATGGTTCTTTATGAACTTCCC
* *
20337410 ATTAAATTGGTTCTTTGTGAGCTTCCC
1 ATTAAA-TGGTTCTTTATGAACTTCCC
20337437 GATCGTGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 6 0.26
27 17 0.74
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.42
Consensus pattern (26 bp):
ATTAAATGGTTCTTTATGAACTTCCC
Found at i:20337502 original size:24 final size:24
Alignment explanation
Indices: 20337475--20337530 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
20337465 TGGCTATCAA
20337475 GAGCTTCCTGACATGG-TCTTTTGT
1 GAGCTTCCTGACATGGTTC-TTTGT
*
20337499 GAGCTTCCTGATATGGTTCTTTGT
1 GAGCTTCCTGACATGGTTCTTTGT
*
20337523 GAACTTCC
1 GAGCTTCC
20337531 CAATTATTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 27 0.93
25 2 0.07
ACGTcount: A:0.14, C:0.21, G:0.23, T:0.41
Consensus pattern (24 bp):
GAGCTTCCTGACATGGTTCTTTGT
Found at i:20351281 original size:41 final size:41
Alignment explanation
Indices: 20351176--20351284 Score: 130
Period size: 43 Copynumber: 2.6 Consensus size: 41
20351166 CGATGATAAA
* * * *
20351176 TCAGATATATGTGGCACTTAGTATGCGAGATCGAGATATAT
1 TCAGCTATATATGGCACTTAGTGTGCAAGATCGAGATATAT
**
20351217 TTGGCTATATATATGGCACTTAGTGTGCAAGATCGAGATA-ACT
1 TCAGC--TATATATGGCACTTAGTGTGCAAGATCGAGATATA-T
20351260 TCAGCTATATATGGCACTTAGTGTG
1 TCAGCTATATATGGCACTTAGTGTG
20351285 TGATTTAAGA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
41 22 0.39
42 1 0.02
43 34 0.60
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (41 bp):
TCAGCTATATATGGCACTTAGTGTGCAAGATCGAGATATAT
Found at i:20351307 original size:40 final size:39
Alignment explanation
Indices: 20351224--20351327 Score: 109
Period size: 40 Copynumber: 2.6 Consensus size: 39
20351214 TATTTGGCTA
* *
20351224 TATATATGGCACTTAGTGTGCAAGATCGAGATAACTTCAGC
1 TATATATGGCACTTAGTGTG--TGATCAAGATAACTTCAGC
* * *
20351265 TATATATGGCACTTAGTGTGTGATTTAAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGTGA-TCAAGATAACTTCAGC
* * *
20351305 TATGTACGACACTTAGTGTGTGA
1 TATATATGGCACTTAGTGTGTGA
20351328 GATATTGAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.04
40 32 0.59
41 20 0.37
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (39 bp):
TATATATGGCACTTAGTGTGTGATCAAGATAACTTCAGC
Found at i:20351365 original size:28 final size:28
Alignment explanation
Indices: 20351314--20351367 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
20351304 CTATGTACGA
* * *
20351314 CACTTAGTGTGTGAGATATTGAGTATGG
1 CACTTAGTGTCTGAGACATGGAGTATGG
*
20351342 CACTTAGTGTCTGAGGCATGGAGTAT
1 CACTTAGTGTCTGAGACATGGAGTAT
20351368 TCAACGGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.24, C:0.11, G:0.31, T:0.33
Consensus pattern (28 bp):
CACTTAGTGTCTGAGACATGGAGTATGG
Found at i:20356317 original size:4 final size:4
Alignment explanation
Indices: 20356308--20356341 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
20356298 AAGTTTTATT
20356308 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
20356342 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:20356349 original size:22 final size:22
Alignment explanation
Indices: 20356291--20356350 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
20356281 AAGTGGCCCA
*
20356291 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
20356315 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
20356336 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
20356351 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:20357499 original size:22 final size:20
Alignment explanation
Indices: 20357469--20357513 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
20357459 CATTTATGAG
*
20357469 AATGAATGCTTTATGTTTGATA
1 AATGAATGCTATAT-TTTG-TA
*
20357491 AATGTATGCTATATTTTGTA
1 AATGAATGCTATATTTTGTA
20357511 AAT
1 AAT
20357514 TGATCGGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 4 0.19
22 12 0.57
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (20 bp):
AATGAATGCTATATTTTGTA
Found at i:20357880 original size:12 final size:11
Alignment explanation
Indices: 20357847--20357879 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
20357837 ACCCCTAATA
*
20357847 AAAATTATTTT
1 AAAATTCTTTT
20357858 AAAATTCTTTT
1 AAAATTCTTTT
20357869 AAAATTCTTTT
1 AAAATTCTTTT
20357880 TCGACCCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (11 bp):
AAAATTCTTTT
Found at i:20358814 original size:16 final size:16
Alignment explanation
Indices: 20358793--20358825 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
20358783 TTGTAACACC
20358793 CCAAAAATCTCGAAAT
1 CCAAAAATCTCGAAAT
20358809 CCAAAAATCTCGAAAT
1 CCAAAAATCTCGAAAT
20358825 C
1 C
20358826 TTGAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.18
Consensus pattern (16 bp):
CCAAAAATCTCGAAAT
Found at i:20360345 original size:29 final size:29
Alignment explanation
Indices: 20360306--20360417 Score: 129
Period size: 29 Copynumber: 3.9 Consensus size: 29
20360296 ATGAGTATAA
*
20360306 ATGATTTGGGCCTAATGGGCCATATGAAT
1 ATGAATTGGGCCTAATGGGCCATATGAAT
* *
20360335 GTGAATTGGGCCTAATGGGCCATAAGAAT
1 ATGAATTGGGCCTAATGGGCCATATGAAT
*
20360364 ATGAACTGGGCC-AGATGGGCCATATGAAT
1 ATGAATTGGGCCTA-ATGGGCCATATGAAT
* * * *
20360393 AAG-ATTGGGCCCAGTGGACCATATG
1 ATGAATTGGGCCTAATGGGCCATATG
20360418 CATGTATGTA
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
28 18 0.25
29 53 0.75
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (29 bp):
ATGAATTGGGCCTAATGGGCCATATGAAT
Found at i:20362412 original size:29 final size:29
Alignment explanation
Indices: 20362373--20362484 Score: 129
Period size: 29 Copynumber: 3.9 Consensus size: 29
20362363 ATGAGTATAA
*
20362373 ATGATTTGGGCCTAATGGGCCATATGAAT
1 ATGAATTGGGCCTAATGGGCCATATGAAT
* *
20362402 GTGAATTGGGCCTAATGGGCCATAAGAAT
1 ATGAATTGGGCCTAATGGGCCATATGAAT
*
20362431 ATGAACTGGGCC-AGATGGGCCATATGAAT
1 ATGAATTGGGCCTA-ATGGGCCATATGAAT
* * * *
20362460 AAG-ATTGGGCCCAGTGGACCATATG
1 ATGAATTGGGCCTAATGGGCCATATG
20362485 CATGTATGTA
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
28 18 0.25
29 53 0.75
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (29 bp):
ATGAATTGGGCCTAATGGGCCATATGAAT
Found at i:20364970 original size:14 final size:14
Alignment explanation
Indices: 20364951--20364978 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20364941 ATACTTAAGA
20364951 CTCTTATGATCAGT
1 CTCTTATGATCAGT
20364965 CTCTTATGATCAGT
1 CTCTTATGATCAGT
20364979 GTATATCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (14 bp):
CTCTTATGATCAGT
Done.