Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1822
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: 1013428
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
File 2 of 7
Found at i:107943 original size:52 final size:53
Alignment explanation
Indices: 107899--108028 Score: 235
Period size: 53 Copynumber: 2.5 Consensus size: 53
107889 CACTGATCTT
107899 TGTATCGATACATGCAGGCAAATTTG-CCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCTAGATGTATCGATACACTATAAAA
*
107951 TGTATCGATACATGCAGGCAAATTTGCCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCTAGATGTATCGATACACTATAAAA
*
108004 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
108029 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 26 0.35
53 49 0.65
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (53 bp):
TGTATCGATACATGCAGGCAAATTTGCCCTAGATGTATCGATACACTATAAAA
Found at i:111533 original size:22 final size:22
Alignment explanation
Indices: 111505--111559 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
111495 TGGACATGTT
111505 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
111527 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
111549 AAAAATGCATG
1 AAAAATGCATG
111560 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:112515 original size:20 final size:20
Alignment explanation
Indices: 112468--112542 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
112458 AAAAAGACAT
*
112468 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
112487 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
112508 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
112528 AATGTATCGATACAT
1 AATGTATCGATACAT
112543 CAAGGGAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:112536 original size:40 final size:39
Alignment explanation
Indices: 112465--112542 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
112455 GGTAAAAAGA
* *
112465 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
112504 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
112543 CAAGGGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:113505 original size:86 final size:86
Alignment explanation
Indices: 113104--115516 Score: 3225
Period size: 86 Copynumber: 28.0 Consensus size: 86
113094 TAAAAAAAAT
* * * *
113104 GTGCCACT-AGCTTGTGTAGGCTTTGAAAAAAGTTGCCACTAACACATGTGGGCTTTGAAAAGAG
1 GTGCCACTGA-CTTGTG--GGCTTTGAAAAGAG-TGCCACT--GACTTGTGGGCTTTG-AAAGGG
** *
113168 TGTTACTGACTTGCGTGGGCTTT-AAAAGG
59 TGCCACTGACTT--GTGGGCTTTGAAAAGA
* * * *
113197 GTGCCACTGACTTGTGTGGGCTTTGAAATGA-TGCCACTGACTTGCGTGAGCTTTAAAAGAGTGC
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGCTTTGAAAGGGTGC
*
113261 CACTGACTTGTGTGGGCTTT-AAAAGG
62 CACTGAC-T-TGTGGGCTTTGAAAAGA
* * * * *
113287 GTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGAATTGTGGG-TTCGTAATGGTGCCATT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
* *
113350 GACTTGTGGGCTTCG-AAAGG
66 GACTTGTGGGCTTTGAAAAGA
* * * *
113370 GTGCCACTGACATGTGGGCTCTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
*
113434 AACTTGTGGGCTTTGAAAAGA
66 GACTTGTGGGCTTTGAAAAGA
* * *
113455 GTGCCACTGATTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGCGCTTTGAAAGGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCCAC
* * *
113520 TAACATGTGGGCTTTG-AAAGG
65 TGACTTGTGGGCTTTGAAAAGA
* *
113541 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
*
113606 TGACTTGTGGGCTTTGAAAGGA
65 TGACTTGTGGGCTTTGAAAAGA
* * *
113628 GTGCCACTGACTTATGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
*
113692 AACTTGTGGGCTTTGAAAAGA
66 GACTTGTGGGCTTTGAAAAGA
* * * *
113713 GTGCCACTGACTTGTGGGCTCTG-AAAGGGTGCCACTAACTAGTGGGCTTTGAAAGGGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
* *
113777 AACTTATGGGCTTTGAAAAGA
66 GACTTGTGGGCTTTGAAAAGA
* *
113798 GTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCCAC
* * *
113863 TAACATGTGGGCTTTG-AAAGG
65 TGACTTGTGGGCTTTGAAAAGA
* *
113884 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
*
113949 TGACTTGTGGGCTTTGAAAGGA
65 TGACTTGTGGGCTTTGAAAAGA
* * * * * *
113971 GTGCTACTGACTTATGGGCTTTG-AAAGGGTGCCACTAACTTCTGGGCTTTTAAAGGGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
* *
114035 AACTTGTGGGCTGTGAAAAGA
66 GACTTGTGGGCTTTGAAAAGA
* * *
114056 GTGCCATTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCCAC
* * *
114121 TAACATGTGGGCTTTG-AAAGG
65 TGACTTGTGGGCTTTGAAAAGA
* * *
114142 GTGTCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGGAGTCCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCCAC
* *
114207 TGACTTATGGGCTTTG-AAAGG
65 TGACTTGTGGGCTTTGAAAAGA
* *
114228 GTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
* * *
114292 TGATTTATGGGCTTTGAAAGGA
65 TGACTTGTGGGCTTTGAAAAGA
** * * *
114314 GTGCCACTGACTTGTGGGCTTTGAATGGAGTGCCACTAACTTGTGGGCTTTAAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT-GAAAGGGTGCCAC
*
114379 TGATTTGTGGGCTTTGAAAAGA
65 TGACTTGTGGGCTTTGAAAAGA
* *
114401 GTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACATGTGGGCTTTGAAAGGGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
114466 GACTTGTGGGCTTTGAAAAGA
66 GACTTGTGGGCTTTGAAAAGA
* * *
114487 GTGCCACTGATTTGTGGGCTTTGAAATGAGTGCCACTGACTTATGGGCTTTGAAAGGGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
*
114552 GACTTGTGGGCTTTG-AAAGG
66 GACTTGTGGGCTTTGAAAAGA
* *
114572 GTGCCACTGACTTATGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCCAC
*
114637 TGACTTGTGGGCTTTGAAAGGA
65 TGACTTGTGGGCTTTGAAAAGA
* * * *
114659 GTGCCGCTGACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
* *
114723 TAACTTGTGGGCTTTGAAAGGA
65 TGACTTGTGGGCTTTGAAAAGA
* * *
114745 GTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
*
114809 TGATTTGTGGGCTTTGAAAAGA
65 TGACTTGTGGGCTTTGAAAAGA
* *
114831 GTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACATGTGGGCTTTGAAAGGGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
114896 GACTTGTGGGCTTTGAAAAGA
66 GACTTGTGGGCTTTGAAAAGA
* * *
114917 GTGCCACTGATTTGTGGGCTTTGAAAGGAGTGCCACTGACTTATGGGCTTTGAAAGGGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
*
114982 GACTTGTGGGCTTTG-AAAGG
66 GACTTGTGGGCTTTGAAAAGA
*
115002 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCCAC
*
115067 TGACTTGTGGGCTTTGAAAGGA
65 TGACTTGTGGGCTTTGAAAAGA
* * * *
115089 GGGCCGCTGACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGCTTTGAAAGGGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
* * * *
115153 AACATGTGCGCTTTG-AAAGG
66 GACTTGTGGGCTTTGAAAAGA
* *
115173 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
*
115238 TGACTTGTGGGCTTTGAAAGGA
65 TGACTTGTGGGCTTTGAAAAGA
* * * *
115260 GTGCCGCTGACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGTGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
*
115324 TGACTTGTGGGCTTTGAAAGGA
65 TGACTTGTGGGCTTTGAAAAGA
*
115346 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
* *
115411 TGATTTGTGGGTTTTGAAAAGA
65 TGACTTGTGGGCTTTGAAAAGA
*
115433 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCCAC
*
115498 TGATTTGTGGGCTTTGAAA
65 TGACTTGTGGGCTTTGAAA
115517 GGGATGAACA
Statistics
Matches: 2090, Mismatches: 194, Indels: 78
0.88 0.08 0.03
Matches are distributed among these distances:
83 55 0.03
84 51 0.02
85 426 0.20
86 988 0.47
87 461 0.22
88 22 0.01
89 4 0.00
90 40 0.02
91 16 0.01
92 1 0.00
93 20 0.01
94 2 0.00
95 4 0.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (86 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
GACTTGTGGGCTTTGAAAAGA
Found at i:113535 original size:115 final size:115
Alignment explanation
Indices: 113104--115516 Score: 3473
Period size: 115 Copynumber: 21.0 Consensus size: 115
113094 TAAAAAAAAT
* * * *
113104 GTGCCACT-AGCTTGTGTAGGCTTTGAAAAAAGTTGCCACTAACACATGTGGGCTTTGAAAAGAG
1 GTGCCACTGA-CTTGTG--GGCTTTGAAAAGAG-TGCCACT--GACTTGTGGGCTTTGAAAGGAG
** * *
113168 TGTTACTGACTTGCGTGGGCTTTAAAAGGGTGCCACTGACTTGTGTGGGCTTTGAAATGA
60 TGCCACTGACTT--GTGGGCTTTGAAAGGGTGCCACTGAC-T-TGTGGGCTTTGAAAAGA
* *
113228 -TGCCACTGACTTGCGTGAGCTTT-AAAAGAGTGCCACTGACTTGTGTGGGCTTTAAAAGG-GTG
1 GTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGAC-T-TGTGGGCTTTGAAAGGAGTG
* * * * *
113290 CCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGAATTGTGGG-TTCGTAATG-
62 CCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * * * *
113342 GTGCCATTGACTTGTGGGCTTCG-AAAGGGTGCCACTGACATGTGGGCTCTGAAAGG-GTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
* *
113405 TAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
66 TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
113455 GTGCCACTGATTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGCGCTTTGAAAGGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
* *
113520 TAACATGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
66 TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
*
113570 GTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
* * *
113635 TGACTTATGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTG-AAAGG
66 TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
113684 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTCTGAAAGG-GTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
* * * *
113748 TAACTAGTGGGCTTTGAAAGGGTGCCACTAACTTATGGGCTTTGAAAAGA
66 TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
113798 GTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
* *
113863 TAACATGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
66 TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
113913 GTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCTAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
* * * * *
113978 TGACTTATGGGCTTTGAAAGGGTGCCACTAACTTCTGGGCTTT-TAAAGG
66 TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * * * *
114027 GTGCCACTAACTTGTGGGCTGTGAAAAGAGTGCCATTGATTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
* * * *
114092 TGACTTGTGGGCTTTGAAAGGAGTGCCATTAACATGTGGGCTTTG-AAAGG
66 TGACTTGTGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
114142 GTGTCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGGAGTCCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
* *
114207 TGACTTATGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGG
66 TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
114256 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTATGGGCTTTGAAAGGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
* * *
114321 TGACTTGTGGGCTTTGAATGGAGTGCCACTAACTTGTGGGCTTTAAAAAGA
66 TGACTTGTGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
114372 GTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
*
114437 TGACATGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
66 TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
114487 GTGCCACTGATTTGTGGGCTTTGAAATGAGTGCCACTGACTTATGGGCTTTGAAAGG-GTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
*
114551 TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAAAGA
66 TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
114601 GTGCCACTGATTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCGC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
*
114666 TGACTTGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGA
66 TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
114716 GTGCCACTAACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
* * *
114780 TGATTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGA
66 TGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
114831 GTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACATGTGGGCTTTGAAAGG-GTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
* * *
114895 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGGA
66 TGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
114946 GTGCCACTGACTTATGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
* * *
115009 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGGA
66 TGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
115060 GTGCCACTGACTTGTGGGCTTTGAAAGGAGGGCCGCTGACTTGTGGGCTTTGAAAGG-GTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
* * * * *
115124 TGATTTGTGGGCTTTGAAAGGGTGCCACTAACATGTGCGCTTTG-AAAGG
66 TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
115173 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
* *
115238 TGACTTGTGGGCTTTGAAAGGAGTGCCGCTGACTTGTGGGCTTTG-AAAGG
66 TGACTTGTGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
115288 GTGCCACTGATTTGTGGGCTTTGAAAAGTGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
*
115353 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
66 TGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
115404 GTGCCACTGATTTGTGGGTTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
* *
115469 TGATTTGTGGGCTTTGAAAGGAGTGCCACTGATTTGTGGGCTTTGAAA
66 TGACTTGTGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAA
115517 GGGATGAACA
Statistics
Matches: 2101, Mismatches: 163, Indels: 58
0.90 0.07 0.02
Matches are distributed among these distances:
111 56 0.03
112 6 0.00
113 143 0.07
114 623 0.30
115 989 0.47
116 201 0.10
117 1 0.00
118 23 0.01
119 2 0.00
120 11 0.01
121 21 0.01
122 6 0.00
123 15 0.01
124 1 0.00
125 3 0.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (115 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:115517 original size:29 final size:29
Alignment explanation
Indices: 113150--115518 Score: 3382
Period size: 29 Copynumber: 82.6 Consensus size: 29
113140 CACTAACACA
* **
113150 TGTGGGCTTTGAAAAGAGTGTTACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
113179 TGCGTGGGCTTTAAAAGG-GTGCCACTGACTT
1 T--GTGGGCTTTGAAAGGAGTGCCACTGAC-T
*
113210 GTGTGGGCTTTGAAATGA-TGCCACTGACT
1 -TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
113239 TGCGTGAGCTTT-AAAAGAGTGCCACTGACTT
1 T--GTGGGCTTTGAAAGGAGTGCCACTGAC-T
*
113270 GTGTGGGCTTTAAAAGG-GTGCCACTGACT
1 -TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
113299 TGTGGGCTTTGAAA-GAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * * *
113327 TGTGGG-TTCGTAATG-GTGCCATTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
113354 TGTGGGCTTCGAAAGG-GTGCCACTGACA
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
113382 TGTGGGCTCTGAAAGG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
113410 TGTGGGCTTTGAAAGG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
113438 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
113467 TGTGGGCTTTAAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
113496 TGTGCGCTTTGAAAGGAGTGCCACTAACA
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
113525 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
113553 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
113582 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
113611 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
113640 TATGGGCTTTGAAAGG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
113668 TGTGGGCTTTGAAAGG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
113696 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
113725 TGTGGGCTCTGAAAGG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
113753 AGTGGGCTTTGAAAGG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
113781 TATGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
113810 TGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
113839 TGTGGGCTTTGAAAGGAGTGCCACTAACA
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
113868 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
113896 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
113925 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
113954 TGTGGGCTTTGAAAGGAGTGCTACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
113983 TATGGGCTTTGAAAGG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
114011 TCTGGGCTTTTAAAGG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * * *
114039 TGTGGGCTGTGAAAAGAGTGCCATTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
114068 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
114097 TGTGGGCTTTGAAAGGAGTGCCATTAACA
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
114126 TGTGGGCTTTGAAAGG-GTGTCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
114154 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
114183 TGTGGGCTTTGAAAGGAGTCCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
114212 TATGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
114240 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
114268 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
114297 TATGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
114326 TGTGGGCTTTGAATGGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
114355 TGTGGGCTTTAAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
114384 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
114413 TGTGGGCTTTGAAAGGAGTGCCACTGACA
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
114442 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
114470 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
114499 TGTGGGCTTTGAAATGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
114528 TATGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
114556 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
114584 TATGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
114613 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
114642 TGTGGGCTTTGAAAGGAGTGCCGCTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
114671 TGTGGGCTTTGAAAGG-GTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
114699 TGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
114728 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
114757 TGTGGGCTTTGAAAGG-GTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
114785 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
114814 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
114843 TGTGGGCTTTGAAAGGAGTGCCACTGACA
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
114872 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
114900 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
114929 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
114958 TATGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
114986 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
115014 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
115043 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
115072 TGTGGGCTTTGAAAGGAGGGCCGCTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
115101 TGTGGGCTTTGAAAGG-GTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
115129 TGTGGGCTTTGAAAGG-GTGCCACTAACA
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
115157 TGTGCGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
115185 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
115214 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
115243 TGTGGGCTTTGAAAGGAGTGCCGCTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
115272 TGTGGGCTTTGAAAGG-GTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
115300 TGTGGGCTTTGAAAAGTGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
115329 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
115358 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
115387 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
115416 TGTGGGTTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
115445 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
115474 TGTGGGCTTTGAAAGGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
115503 TGTGGGCTTTGAAAGG
1 TGTGGGCTTTGAAAGG
115519 GATGAACATT
Statistics
Matches: 2124, Mismatches: 186, Indels: 60
0.90 0.08 0.03
Matches are distributed among these distances:
27 22 0.01
28 700 0.33
29 1312 0.62
30 69 0.03
31 19 0.01
32 2 0.00
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.29
Consensus pattern (29 bp):
TGTGGGCTTTGAAAGGAGTGCCACTGACT
Found at i:116752 original size:1 final size:1
Alignment explanation
Indices: 116748--116807 Score: 66
Period size: 1 Copynumber: 60.0 Consensus size: 1
116738 TTTTTTGCTA
* * * * * *
116748 TTTTTTTCTTTTTTTTTTGTTTTTTTGTTTTGTTTTTTTTGTTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
116808 GGGTGTAAAG
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (1 bp):
T
Found at i:116778 original size:24 final size:23
Alignment explanation
Indices: 116738--116807 Score: 83
Period size: 22 Copynumber: 3.1 Consensus size: 23
116728 GACCCTTCTA
* * *
116738 TTTTTTGCTATTTTTT-TCTTTT
1 TTTTTTGTTTTTTTTTGTTTTTT
116760 TTTTTTG--TTTTTTTGTTTTGTT
1 TTTTTTGTTTTTTTTTGTTTT-TT
116782 TTTTTTGTTTTTTTTTGTTTTTT
1 TTTTTTGTTTTTTTTTGTTTTTT
116805 TTT
1 TTT
116808 GGGTGTAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.14
21 3 0.07
22 16 0.38
23 5 0.12
24 12 0.29
ACGTcount: A:0.01, C:0.03, G:0.09, T:0.87
Consensus pattern (23 bp):
TTTTTTGTTTTTTTTTGTTTTTT
Found at i:116808 original size:10 final size:10
Alignment explanation
Indices: 116738--116808 Score: 81
Period size: 10 Copynumber: 6.7 Consensus size: 10
116728 GACCCTTCTA
116738 TTTTTTGCTATT
1 TTTTTTG-T-TT
116750 TTTTTCT-TTT
1 TTTTT-TGTTT
116760 TTTTTTGTTT
1 TTTTTTGTTT
*
116770 TTTTGTTTTGTT
1 TTTT-TTGT-TT
116782 TTTTTTGTTT
1 TTTTTTGTTT
116792 TTTTTTGTTT
1 TTTTTTGTTT
116802 TTTTTTG
1 TTTTTTG
116809 GGTGTAAAGG
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
9 1 0.02
10 33 0.62
11 7 0.13
12 11 0.21
13 1 0.02
ACGTcount: A:0.01, C:0.03, G:0.10, T:0.86
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:130763 original size:20 final size:20
Alignment explanation
Indices: 130716--130790 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
130706 AAAAAGACAT
*
130716 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
130735 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
130756 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
130776 AATGTATCGATACAT
1 AATGTATCGATACAT
130791 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:130784 original size:40 final size:39
Alignment explanation
Indices: 130713--130790 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
130703 GGTAAAAAGA
* *
130713 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
130752 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
130791 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:131948 original size:24 final size:26
Alignment explanation
Indices: 131921--131974 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
131911 TCAAAATTTT
131921 ATTCAT-C-GGGGACACTACAACCCC
1 ATTCATCCAGGGGACACTACAACCCC
* *
131945 ATTCTTCCGAGGGGACACTCCAACCCC
1 ATTCATCC-AGGGGACACTACAACCCC
131972 ATT
1 ATT
131975 TTCAACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 1 0.04
27 19 0.76
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (26 bp):
ATTCATCCAGGGGACACTACAACCCC
Found at i:140573 original size:32 final size:33
Alignment explanation
Indices: 140528--140593 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
140518 AGTAGCTTAA
*
140528 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCAATACAAAACTTTATGTATCGATAC
*
140560 ATTGTATCAATACAACACTTTATGTATCGATAC
1 ATTGTATCAATACAAAACTTTATGTATCGATAC
140593 A
1 A
140594 AATCATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.35
Consensus pattern (33 bp):
ATTGTATCAATACAAAACTTTATGTATCGATAC
Found at i:147277 original size:15 final size:14
Alignment explanation
Indices: 147259--147314 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 14
147249 AAGAAGAAAT
147259 AAGAAAAAAAAAGAG
1 AAGAAAAAAAAA-AG
147274 AAGAAAAAAAACAAG
1 AAGAAAAAAAA-AAG
*
147289 AAAGAAGAAAAAAAAC
1 -AAGAA-AAAAAAAAG
147305 AA-AAAAAAAA
1 AAGAAAAAAAA
147315 CAACAAACAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
13 6 0.16
14 2 0.05
15 15 0.41
16 8 0.22
17 6 0.16
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAAAAG
Found at i:147281 original size:16 final size:15
Alignment explanation
Indices: 147243--147330 Score: 70
Period size: 16 Copynumber: 5.5 Consensus size: 15
147233 CCTCCACAAA
*
147243 AAAAAAAAGAAGAAATA
1 AAAAAAAA-AAGAAA-G
147260 AGAAAAAAAAAGAGAAG
1 A-AAAAAAAAAGA-AAG
147277 AAAAAAAACAAGAAAG
1 AAAAAAAA-AAGAAAG
*
147293 AAGAAAAAAAACAAA-
1 AA-AAAAAAAAGAAAG
* * *
147308 AAAAAAACAACAAAC
1 AAAAAAAAAAGAAAG
147323 AAAAAAAA
1 AAAAAAAA
147331 CAAACCAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
14 11 0.18
15 9 0.15
16 17 0.27
17 16 0.26
18 9 0.15
ACGTcount: A:0.83, C:0.06, G:0.10, T:0.01
Consensus pattern (15 bp):
AAAAAAAAAAGAAAG
Found at i:147304 original size:19 final size:19
Alignment explanation
Indices: 147243--147306 Score: 82
Period size: 19 Copynumber: 3.6 Consensus size: 19
147233 CCTCCACAAA
* *
147243 AAAAAAAAGAAGAAATAAG
1 AAAAAAAACAAGAAAGAAG
147262 -AAAAAAA-AAG--AGAAG
1 AAAAAAAACAAGAAAGAAG
147277 AAAAAAAACAAGAAAGAAG
1 AAAAAAAACAAGAAAGAAG
147296 AAAAAAAACAA
1 AAAAAAAACAA
147307 AAAAAAAACA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
15 4 0.10
16 7 0.17
17 6 0.15
18 7 0.17
19 16 0.40
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.02
Consensus pattern (19 bp):
AAAAAAAACAAGAAAGAAG
Found at i:147314 original size:13 final size:13
Alignment explanation
Indices: 147296--147358 Score: 81
Period size: 14 Copynumber: 4.5 Consensus size: 13
147286 AAGAAAGAAG
*
147296 AAAAAAAACAAAA
1 AAAAAAAACAAAC
147309 AAAAAACAACAAAC
1 AAAAAA-AACAAAC
147323 AAAAAAAACAAACC
1 AAAAAAAACAAA-C
147337 AAAAAAAACACAAC
1 AAAAAAAACA-AAC
147351 AACAAAAA
1 AA-AAAAA
147359 GGGTCCGGAT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
13 12 0.27
14 26 0.58
15 7 0.16
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAC
Found at i:147329 original size:27 final size:28
Alignment explanation
Indices: 147296--147358 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
147286 AAGAAAGAAG
147296 AAAAAAAACAAA-AAAAAAACAACA-AAC
1 AAAAAAAACAAACAAAAAAA-AACACAAC
*
147323 AAAAAAAACAAACCAAAAAAAACACAAC
1 AAAAAAAACAAACAAAAAAAAACACAAC
*
147351 AACAAAAA
1 AAAAAAAA
147359 GGGTCCGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 16 0.50
28 16 0.50
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (28 bp):
AAAAAAAACAAACAAAAAAAAACACAAC
Found at i:148829 original size:34 final size:34
Alignment explanation
Indices: 148786--148923 Score: 163
Period size: 34 Copynumber: 4.1 Consensus size: 34
148776 ACATTCCTCA
*
148786 CCCTTTT-AAGCCCACAACTCCGTGGCATCTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTTT
* * *
148819 CCCTTTTTAAGCCCACAACTCCGTGGTATCTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTTT
* *
148853 TCCTTTTAAAGCCCACAACTCTGTGGCACCTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTTT
* * *
148887 -TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTT
1 CCCTTTT-AAAGCCCACAACTCCGTGGCA-CCTTTT
148922 CC
1 CC
148924 AAAGCCCACA
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
33 12 0.13
34 73 0.80
35 6 0.07
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (34 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCACCTTTT
Found at i:148993 original size:29 final size:30
Alignment explanation
Indices: 148887--149326 Score: 619
Period size: 29 Copynumber: 15.0 Consensus size: 30
148877 GGCACCTTTT
148887 TCTTTT-CAAAGCCCACAAGTCAGTGGCAC
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCAC
*
148916 CCTTTTCCAAAGCCCACAAGTCAGTGGCAC
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCAC
* *
148946 CCTTTTCCAAAGCCGACAAGTCAGTGGCA-
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCAC
* *
148975 TCTTTTCAAAAGCTCACAAGTCAGTGGCAC
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCAC
* *
149005 CCTTCTCCAAAGCCCACAAGTCAGTGGCA-
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCAC
*
149034 TCTTTTCCAAAGCCCATAAGTCAGTGGCAC
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCAC
* * *
149064 CCTTTTCCAAAGCCCACAACTCAATGGCA-
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCAC
*
149093 TCTTTTCAAAAGCCCACAAGTCAGTGGCAC
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCAC
*
149123 CCTTTTCCAAAGCCCA-AAGTCAGTGGCA-
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCAC
*
149151 TCTTTTCCAAAGCCCACAAGTCAGTGGTA-
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCAC
*
149180 TCTTTTCAAAAGCCCACAAGTCAGTGGCAC
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCAC
*
149210 CCTTTTCCAAAGCCCACAAGTCAGTGGCA-
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCAC
*
149239 TCTTTTCCAAAGCCTACAAGTCAGTGGCAC
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCAC
* * *
149269 CCTTTTCCAAAGCCCACAAGTTAGTGGTA-
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCAC
* *
149298 TCTTTTCAAAAGCCCACAAGTTAGTGGCA
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCA
149327 ACCTTCAAAA
Statistics
Matches: 366, Mismatches: 38, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
28 15 0.04
29 184 0.50
30 167 0.46
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (30 bp):
TCTTTTCCAAAGCCCACAAGTCAGTGGCAC
Found at i:148993 original size:59 final size:59
Alignment explanation
Indices: 148860--149326 Score: 627
Period size: 59 Copynumber: 7.9 Consensus size: 59
148850 TTTTCCTTTT
* * * *
148860 AAAGCCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTC----CAAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* *
148924 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCGACAAGTCAGTGGCATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
* *
148983 AAAGCTCACAAGTCAGTGGCACCCTTCTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
* * * *
149042 AAAGCCCATAAGTCAGTGGCACCCTTTTCCAAAGCCCACAACTCAATGGCATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
149101 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCA-AAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
* * * *
149159 AAAGCCCACAAGTCAGTGGTA-TCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* * *
149218 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCTACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* * * * *
149277 AAAGCCCACAAGTTAGTGGTA-TCTTTTCAAAAGCCCACAAGTTAGTGGCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCA
149327 ACCTTCAAAA
Statistics
Matches: 369, Mismatches: 32, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
57 14 0.04
58 49 0.13
59 259 0.70
60 21 0.06
64 26 0.07
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (59 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
Found at i:149240 original size:205 final size:207
Alignment explanation
Indices: 148887--149331 Score: 752
Period size: 205 Copynumber: 2.2 Consensus size: 207
148877 GGCACCTTTT
148887 TCTTTTC-AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTT
1 TCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTT
* *
148951 TCCAAAGCCGACAAGTCAGTGGCATCTTTTCAAAAGCTCACAAGTCAGTGGCACCCTTCTCCAAA
66 TCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTCTCCAAA
*
149016 GCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCATAAGTCAGTGGCACCCTTTTCCAAAGCCCAC
131 GCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCAC
149081 AACTCAATGGCA
196 AACTCAATGGCA
*
149093 TCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCA-AAGTCAGTGGCA-TCTTT
1 TCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTT
* *
149156 TCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAA
66 TCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTCTCCAAA
*
149221 GCCCACAAGTCAGTGGCATCTTTTCCAAAGCCTACAAGTCAGTGGCACCCTTTTCCAAAGCCCAC
131 GCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCAC
* * * *
149286 AAGTTAGTGGTA
196 AACTCAATGGCA
* *
149298 TCTTTTCAAAAGCCCACAAGTTAGTGGCAACCTT
1 TCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTT
149332 CAAAAGCATA
Statistics
Matches: 225, Mismatches: 13, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
205 168 0.75
206 19 0.08
207 38 0.17
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (207 bp):
TCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTT
TCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTCTCCAAA
GCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCAC
AACTCAATGGCA
Found at i:149602 original size:49 final size:49
Alignment explanation
Indices: 149389--149688 Score: 310
Period size: 49 Copynumber: 6.1 Consensus size: 49
149379 GGTGGCATCT
149389 TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA----C-
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
149434 -CTTTAAGTCCAATATCGCTGGTCTTGAATTAGCATATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
** * * * *
149482 TCTTTAAAACCCAAATGTCGTTGGCCTTGAATCAACACATTGGCA--TTCT
1 TCTTT-AAGTCC-AATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
149531 TCTTTAAGTCCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * **
149580 TCTTTAAGTCCAATATCGCTGGCCTTGAATCCGCATATTGGTGCCTTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCA
* * * *
149632 CCTTTTAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
1 TC-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
149682 TCTTTAA
1 TCTTTAA
149689 CATTCCTAAG
Statistics
Matches: 208, Mismatches: 33, Indels: 24
0.78 0.12 0.09
Matches are distributed among these distances:
43 36 0.17
44 3 0.01
47 30 0.14
48 4 0.02
49 59 0.28
50 7 0.03
51 28 0.13
52 4 0.02
53 37 0.18
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.34
Consensus pattern (49 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:150554 original size:32 final size:33
Alignment explanation
Indices: 150499--150562 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
150489 TTCAACGATT
150499 TGTATCGATACATAAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
*
150532 TGTATCGATACAT-AAGTGTTGTATCGATACA
1 TGTATCGATACATAAAGTGTTGTATCAATACA
150563 TAAGTTTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCAATACAA
Found at i:150556 original size:19 final size:19
Alignment explanation
Indices: 150498--150581 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
150488 TTTCAACGAT
150498 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
*
150518 TTGTATCAATAC--AA---
1 TTGTATCGATACATAAGTG
150532 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
150550 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
150569 TTGTATCGATACA
1 TTGTATCGATACA
150582 ATGTAAGCTA
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
13 10 0.18
15 2 0.04
17 2 0.04
19 30 0.55
20 11 0.20
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:150642 original size:13 final size:13
Alignment explanation
Indices: 150624--150648 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
150614 ATTACTCAAA
150624 TGTATCGATACAT
1 TGTATCGATACAT
150637 TGTATCGATACA
1 TGTATCGATACA
150649 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:155261 original size:73 final size:73
Alignment explanation
Indices: 155150--155291 Score: 180
Period size: 73 Copynumber: 1.9 Consensus size: 73
155140 TATCCCCTCG
* ** *
155150 AAAATAATAGGGTTAGAGTATCCCTGATTATAGAAAATTGGTATTTT-GAAAATAAAATCGGGGT
1 AAAATAATAGGGTTAGAGTATCCCCGATTATAGAAAATTAATATTTTAG-AAATAAAATCGAGGT
155214 TGGAGGGCA
65 TGGAGGGCA
* * * *
155223 AAAATAATGGGGTTGGAGTATCCCCGATTGT-GACAAATTAATATTTTAGAAATAAAGTCGAGGT
1 AAAATAATAGGGTTAGAGTATCCCCGATTATAGA-AAATTAATATTTTAGAAATAAAATCGAGGT
155287 TGGAG
65 TGGAG
155292 TATCCCCTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
72 2 0.03
73 56 0.95
74 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (73 bp):
AAAATAATAGGGTTAGAGTATCCCCGATTATAGAAAATTAATATTTTAGAAATAAAATCGAGGTT
GGAGGGCA
Found at i:155319 original size:28 final size:28
Alignment explanation
Indices: 155284--155354 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
155274 ATAAAGTCGA
*
155284 GGTTGGAGTATCCCC-TCAGAAATAATGG
1 GGTTGGAGTATCCCCAT-AGAAATAACGG
*
155312 GGTTGGAGTATCCCCATTGAAATAACGG
1 GGTTGGAGTATCCCCATAGAAATAACGG
155340 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
155355 GATTATAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (28 bp):
GGTTGGAGTATCCCCATAGAAATAACGG
Found at i:155344 original size:107 final size:108
Alignment explanation
Indices: 155224--155438 Score: 269
Period size: 107 Copynumber: 2.0 Consensus size: 108
155214 TGGAGGGCAA
* * *
155224 AAATAATGGGGTTGGAGTATCCCCGATTGT-GACAAATTAATATTTT-AGAAATAAAGTC-GAGG
1 AAATAACGGGGTTGGAGTATCCCCGATTATAGA-AAATTAATATTTTGA-AAATAAAATCAG-GG
* * *
155286 TTGGAGTATCCCCTCAG-AAATAATGGGGTTGGAGTATCCCC-ATTG
63 TTGCAGTATCCCCT-AGAAAATAACGAGGTTGGAGTATCCCCGATTG
** *
155331 AAATAACGGGGTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAATCAGGGTTG
1 AAATAACGGGGTTGGAGTATCCCCGATTATAGAAAATTAATATTTTGAAAATAAAATCAGGGTTG
*
155396 CAGTATCCCCTTGAAAATAACGAGGTTGGAGTATCCCCGATTG
66 CAGTATCCCCTAGAAAATAACGAGGTTGGAGTATCCCCGATTG
155439 TGAAAAATCA
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
106 1 0.01
107 84 0.90
108 8 0.09
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (108 bp):
AAATAACGGGGTTGGAGTATCCCCGATTATAGAAAATTAATATTTTGAAAATAAAATCAGGGTTG
CAGTATCCCCTAGAAAATAACGAGGTTGGAGTATCCCCGATTG
Found at i:155394 original size:79 final size:77
Alignment explanation
Indices: 155311--155587 Score: 283
Period size: 79 Copynumber: 3.5 Consensus size: 77
155301 AGAAATAATG
*
155311 GGGTTGGAGTATCCCCATTGAAATAACGGGGTTGGAGTATCCCCGATTAT-AGAAAATTGGTGTT
1 GGGTTGGAGTATCCCC-TTGAAATAACGAGGTTGGAGTATCCCCGATTATGA-AAAATTGGTGTT
155375 TTGAAAATAAAATC
64 TTGAAAATAAAATC
* * *** **
155389 AGGGTTGCAGTATCCCCTTGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATCAATACT
1 -GGGTTGGAGTATCCCCTTG-AAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTT
* ***
155454 TTAAAAATAAGGCC
64 TTGAAAATAAAATC
*** *
155468 GTGGTTGGAGTATCCCCGCAAAAATAAC-AGGTTGGAGTAAT-CCTGATTATGAAAAATTGGTGT
1 G-GGTTGGAGTATCCCC-TTGAAATAACGAGGTTGGAGT-ATCCCCGATTATGAAAAATTGGTGT
*
155531 TTTGGAAATAAAATC
63 TTTGAAAATAAAATC
*
155546 GGAGTTGGAGTATCCCCTTGGAAATAACGAGATTGGA-TATCC
1 GG-GTTGGAGTATCCCCTT-GAAATAACGAGGTTGGAGTATCC
155588 TTGATGAAAT
Statistics
Matches: 157, Mismatches: 32, Indels: 19
0.75 0.15 0.09
Matches are distributed among these distances:
77 3 0.02
78 63 0.40
79 90 0.57
80 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (77 bp):
GGGTTGGAGTATCCCCTTGAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTT
GAAAATAAAATC
Found at i:155687 original size:28 final size:28
Alignment explanation
Indices: 155654--155725 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
155644 TATAACACCG
155654 GGGTTGGAGTATTCCCTCG-GAAATAAC-
1 GGGTTGGAGTATTCCC-CGAGAAATAACA
155681 GGAGTTGGAGTA-TCCCCGATGAAATAACA
1 GG-GTTGGAGTATTCCCCGA-GAAATAACA
155710 GGGTTGGAGTA-TCCCC
1 GGGTTGGAGTATTCCCC
155726 AATTGAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
26 2 0.05
27 6 0.15
28 31 0.76
29 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATTCCCCGAGAAATAACA
Found at i:155768 original size:107 final size:105
Alignment explanation
Indices: 155471--155776 Score: 302
Period size: 107 Copynumber: 2.9 Consensus size: 105
155461 TAAGGCCGTG
* * *
155471 GTTGGAGTATCCCCGCA-AAAATAACA-GGTTGGAGTAAT-CCTGATTATGAAAAATTGGTGTTT
1 GTTGGAGTATCCCCG-ATGAAATAACAGGGTTGGAGT-ATCCCCGATTATAAAAAATTGGTGTTT
*
155533 TGGAAATAAAATC-GGAGTTGGAGTATCCCCTTGGAAATAACGA
64 TGGAAAT-AAATCGGGA-TTGGAGTATCCCCTCGGAAATAACGA
** * *** *
155576 GATTGGA-TATCCTTGATGAAATAACGGGGTTGGAGTA-CCCTCGATTATGAAAAAATCAATATT
1 G-TTGGAGTATCCCCGATGAAATAACAGGGTTGGAGTATCCC-CGATTAT-AAAAAATTGGTGTT
* * * * *
155639 TTAGATATAACACCGGGGTTGGAGTATTCCCTCGGAAATAACGGA
63 TTGGAAATAA-ATCGGGATTGGAGTATCCCCTCGGAAATAAC-GA
*
155684 GTTGGAGTATCCCCGATGAAATAACAGGGTTGGAGTATCCCCAATTGA-AAAAAATTGGTGTTTT
1 GTTGGAGTATCCCCGATGAAATAACAGGGTTGGAGTATCCCCGATT-ATAAAAAATTGGTGTTTT
*
155748 GGAAATGAAATCGGGATTGGAGCATCCCC
65 GGAAAT-AAATCGGGATTGGAGTATCCCC
155777 AAGATGAAAA
Statistics
Matches: 158, Mismatches: 30, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
104 1 0.01
105 17 0.11
106 22 0.14
107 76 0.48
108 38 0.24
109 4 0.03
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (105 bp):
GTTGGAGTATCCCCGATGAAATAACAGGGTTGGAGTATCCCCGATTATAAAAAATTGGTGTTTTG
GAAATAAATCGGGATTGGAGTATCCCCTCGGAAATAACGA
Found at i:158083 original size:20 final size:20
Alignment explanation
Indices: 158058--158129 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
158048 AAAATGCTTG
158058 ATGTATCGATACATTGTAAA
1 ATGTATCGATACATTGTAAA
*
158078 ATGTATCGATACAATG-AGAA
1 ATGTATCGATACATTGTA-AA
*
158098 ATGTATCGATACA-T-TACA
1 ATGTATCGATACATTGTAAA
*
158116 ATATATCGATACAT
1 ATGTATCGATACAT
158130 CTGGGTAAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
18 13 0.28
19 3 0.07
20 30 0.65
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACATTGTAAA
Found at i:158757 original size:40 final size:41
Alignment explanation
Indices: 158747--159020 Score: 134
Period size: 43 Copynumber: 6.5 Consensus size: 41
158737 AAATAGGTCT
158747 TGCTCCTTGAGGACAAAGGAAAAAAGAAAAAAAAAGTGTCC
1 TGCTCCTTGAGGACAAAGGAAAAAAGAAAAAAAAAGTGTCC
* * **
158788 TGCTTCTTGAGGAC------AAAATGAAAAAGAGTAG-GTCC
1 TGCTCCTTGAGGACAAAGGAAAAAAGAAAAA-AAAAGTGTCC
* *
158823 TGCT-TTTCGAGGACAAAGGAAAAAAGGAAAACAAAATGTGTCC
1 TGCTCCTT-GAGGACAAAGGAAAAAA-GAAAA-AAAAAGTGTCC
* * * **
158866 TGCTCTTTGAGGACTCAGAGGGAAAAAA-AGAAATGAAGTGCGTCC
1 TGCTCCTTGAGGA--CA-AAGGAAAAAAGAAAAAAAAAGT--GTCC
* *** *
158911 TGCTCGTTGAGGACAAAAGGAGAAAAAAGGAAATGGAACGTGTCC
1 TGCTCCTTGAGGAC-AAA-G-GAAAAAA-GAAAAAAAAAGTGTCC
* * * * * *
158956 TGCTCTTTGAGGACAAAAGAGAAAAGGAAAACGAAATGCGTCC
1 TGCTCCTTGAGGACAAAGGA-AAAAAGAAAA-AAAAAGTGTCC
* *
158999 TGCTCTTTGAGGACAAAAGAAA
1 TGCTCCTTGAGGACAAAGGAAA
159021 GAGGAAAATA
Statistics
Matches: 180, Mismatches: 29, Indels: 47
0.70 0.11 0.18
Matches are distributed among these distances:
34 2 0.01
35 24 0.13
36 3 0.02
41 17 0.09
42 15 0.08
43 52 0.29
44 11 0.06
45 42 0.23
46 9 0.05
47 5 0.03
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (41 bp):
TGCTCCTTGAGGACAAAGGAAAAAAGAAAAAAAAAGTGTCC
Found at i:158867 original size:43 final size:43
Alignment explanation
Indices: 158819--159054 Score: 203
Period size: 45 Copynumber: 5.4 Consensus size: 43
158809 AAAAGAGTAG
* *
158819 GTCCTGCT-TTTCGAGGACAAAGGAAAAAAGGAAAACAAAATGT
1 GTCCTGCTCTTT-GAGGACAAAGGAAAAAAGGAAAACGAAATGC
* * * *
158862 GTCCTGCTCTTTGAGGACTCAGAGGGAAAAAAAG-AAATGAAGTGC
1 GTCCTGCTCTTTGAGGA--CA-AAGGAAAAAAGGAAAACGAAATGC
* * * * *
158907 GTCCTGCTCGTTGAGGACAAAAGGAGAAAAAAGG-AAATGGAACGT
1 GTCCTGCTCTTTGAGGAC-AAA-G-GAAAAAAGGAAAACGAAATGC
* *
158952 GTCCTGCTCTTTGAGGACAAAAGAGAAAAGGAAAACGAAATGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAACGAAATGC
* * *
158995 GTCCTGCTCTTTGAGGACAAAAG-AAAGAGGAAAA-TAAAGTGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAACGAAA-TGC
* *
159037 ATCATGCTCTTTGAGGAC
1 GTCCTGCTCTTTGAGGAC
159055 TAAAAAGTGC
Statistics
Matches: 159, Mismatches: 25, Indels: 19
0.78 0.12 0.09
Matches are distributed among these distances:
41 3 0.02
42 36 0.23
43 45 0.28
44 8 0.05
45 57 0.36
46 10 0.06
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.19
Consensus pattern (43 bp):
GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAACGAAATGC
Found at i:159126 original size:61 final size:60
Alignment explanation
Indices: 159041--159349 Score: 327
Period size: 61 Copynumber: 5.2 Consensus size: 60
159031 AAGTGCATCA
* *
159041 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAATGCGTCC
1 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA-GCGTCC
* * * * * * *
159102 TGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTATGGGCTTTGCAATGAGAAAGCATCT
1 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGA-AAAGCGTCC
*
159163 TGCTCTTTGAGGACTGGAAAA-TGCCACCGACTTGTGTGGGCTTTG-AAAG----GCGTCC
1 TGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGCGTCC
* * * *
159218 TGCTCTTTGAGGACTGAAAAATGCCACCCACTTGTGTAGGCTTT-AACAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AAGAAAA-GCGTCC
* * *
159279 TGCTCTTTGAAGACTAGAAAAGTGCCACCAACTTGTGTGGTCTTT-AAAAG----GTGTCC
1 TGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGCGTCC
159335 TGCTCTTTGAGGACT
1 TGCTCTTTGAGGACT
159350 AAAGGGTGAA
Statistics
Matches: 210, Mismatches: 27, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
54 5 0.02
55 41 0.20
56 21 0.10
60 3 0.01
61 107 0.51
62 33 0.16
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (60 bp):
TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGCGTCC
Found at i:159239 original size:55 final size:55
Alignment explanation
Indices: 159163--159349 Score: 230
Period size: 55 Copynumber: 3.3 Consensus size: 55
159153 GAAAGCATCT
* *
159163 TGCTCTTTGAGGACTGGAAAATGCCACCGACTTGTGTGGGCTTTGAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* *
159218 TGCTCTTTGAGGACTGAAAAATGCCACCCACTTGTGTAGGCTTTAACAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCC
* * * * *
159279 TGCTCTTTGAAGACTAGAAAAGTGCCACCAACTTGTGTGGTCTTTAAAAGGTGTCC
1 TGCTCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
159335 TGCTCTTTGAGGACT
1 TGCTCTTTGAGGACT
159350 AAAGGGTGAA
Statistics
Matches: 114, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
55 41 0.36
56 23 0.20
60 1 0.01
61 24 0.21
62 25 0.22
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (55 bp):
TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
Found at i:159283 original size:116 final size:116
Alignment explanation
Indices: 159035--159349 Score: 357
Period size: 116 Copynumber: 2.7 Consensus size: 116
159025 AAAATAAAGT
* * *
159035 GCATCATGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAATGCGT
1 GCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCGT
* ** * * *
159100 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTATGGGCTTTGCAATGAGAAA
60 CCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTATAGGCTTTACAAGGAGAAA
* *
159157 GCATCTTGCTCTTTGAGGACTGGAAAA-TGCCACCGACTTGTGTGGGCTTTGAAAGGCGTCCTGC
1 GCATCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
* *
159221 TCTTTGAGGACTGAAAAATGCCACCCACTTGTGTAGGCTTTA-ACAGGA-AAA
65 TCTTTGAGGACTGAAAAATGCCACCAACTTGTATAGGCTTTACA-AGGAGAAA
* * * * *
159272 GGCGTCCTGCTCTTTGAAGACTAGAAAAGTGCCACCAACTTGTGTGGTCTTTAAAAGGTGTCCTG
1 -GCATCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTG
159337 CTCTTTGAGGACT
64 CTCTTTGAGGACT
159350 AAAGGGTGAA
Statistics
Matches: 169, Mismatches: 20, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
115 4 0.02
116 70 0.41
117 45 0.27
121 4 0.02
122 42 0.25
123 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (116 bp):
GCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
CTTTGAGGACTGAAAAATGCCACCAACTTGTATAGGCTTTACAAGGAGAAA
Found at i:159435 original size:211 final size:205
Alignment explanation
Indices: 159151--159757 Score: 592
Period size: 226 Copynumber: 2.8 Consensus size: 205
159141 GCTTTGCAAT
* * *
159151 GAGAAAGCATCTTGCTCTTTGAGGACTGGAAAATGCCACCGACTTGTGTGGGCTTTGAAAGGCGT
1 GAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGT
* *
159216 CCTGCTCTTTGAGGACTGAAAAATGCCACCCACTTGTGTAGGCTTTAACAGGAAAAGGCGTCCTG
66 CCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTAGGCTTT-----G-AAAGGCGTCCTG
* * **
159281 CTCTTTGAAGACTAGAAAAGTGCCACCAACTTGTGTGGTCTTTAAAAGGTGTCCTGCTCTTTGAG
125 CTCTTTGAAGACT-GAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAG
159346 GACT-AAAGGGTGAAAG
189 GACTGAAAGGGTGAAAG
* * * * * *
159362 GAGAGAGCATCCTGTTCTTTGAGGATTGGGAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGCGT
1 GAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGT
* *
159427 CCTGCTCTTTGAGGACTAAAAAATGCCACGAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
66 CCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCCTGCTCTTT
* * *
159492 GAGGACTGAAAGGTACCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAA
131 GAAGACTGAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGAA
*
159557 A-GGTACCACCAACTTGTGTGG
196 AGGGT--GA--AA--------G
* *
159578 GCTTTGAAAGGCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
1 G---AGAAA-GCATCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT----
* * * * * *
159642 AGAAAAGGCG-CCTTGCTCTTTGAGGATTGAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
57 --AAAAGGCGTCC-TGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGC
* * * * * *
159706 GTCTTACTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
119 GTCCTGCTCTTTGAAGACTGAAAAGTACCACCAACTTGTGTGGGCTTTAAAA
159758 AGAAAAGGCG
Statistics
Matches: 333, Mismatches: 38, Indels: 35
0.82 0.09 0.09
Matches are distributed among these distances:
204 52 0.16
205 27 0.08
206 2 0.01
208 2 0.01
211 98 0.29
216 2 0.01
219 6 0.02
220 42 0.13
225 2 0.01
226 100 0.30
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (205 bp):
GAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGT
CCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCCTGCTCTTT
GAAGACTGAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGAA
AGGGTGAAAG
Found at i:159438 original size:55 final size:55
Alignment explanation
Indices: 159371--159757 Score: 501
Period size: 55 Copynumber: 6.9 Consensus size: 55
159361 GGAGAGAGCA
* * * *
159371 TCCTGTTCTTTGAGGATTGGGAA-GTGCCACTAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* ** * *
159426 TCCTGCTCTTTGAGGACTAAAAAATGCCACGAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* * *
159481 TCCTGCTCTTTGAGGACTGAAAGGTACCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* * *
159536 TCCTGCTCTTTGAGGACTGAAAGGTACCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
159591 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCG
*
159652 -CCTTGCTCTTTGAGGATTGAGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCC-TGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* * *
159707 TCTTACTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
159758 AGAAAAGGCG
Statistics
Matches: 302, Mismatches: 19, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
54 4 0.01
55 247 0.82
56 1 0.00
60 2 0.01
61 46 0.15
62 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
Found at i:159559 original size:26 final size:26
Alignment explanation
Indices: 159472--159614 Score: 83
Period size: 26 Copynumber: 5.3 Consensus size: 26
159462 GTGTGGGCTT
*
159472 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGCATCCTGCTCTTTGAGGAC
* ** * * *
159498 TGAAAGGTA-CCACCAACTTGTGTGGGC
1 TGAAAGGCATCCTGC-TCTT-TGAGGAC
159525 TTTGAAAGGCATCCTGCTCTTTGAGGAC
1 --TGAAAGGCATCCTGCTCTTTGAGGAC
* ** * * *
159553 TGAAAGGTA-CCACCAACTTGTGTGGGC
1 TGAAAGGCATCCTGC-TCTT-TGAGGAC
159580 TTTGAAAGGCATCCTGCTCTTTGAGGAC
1 --TGAAAGGCATCCTGCTCTTTGAGGAC
159608 TGAAAGG
1 TGAAAGG
159615 TGCCACCAAC
Statistics
Matches: 82, Mismatches: 25, Indels: 20
0.65 0.20 0.16
Matches are distributed among these distances:
25 6 0.07
26 28 0.34
27 10 0.12
28 10 0.12
29 22 0.27
30 6 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (26 bp):
TGAAAGGCATCCTGCTCTTTGAGGAC
Found at i:161885 original size:79 final size:77
Alignment explanation
Indices: 161718--162016 Score: 278
Period size: 79 Copynumber: 3.8 Consensus size: 77
161708 ATCTTCACTC
* * * *
161718 ACATCAATTTTCTACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCA
1 ACATCGATTTTC-ACAATC-GGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCTCG
** *
161783 ACTTTGTTTCTAAA
64 GTTTTATTTCTAAA
* * * * * * * *
161797 ATATTGATTTCTCATAATCAGGGATACTCCAACCCCATTATTTTTGTGGGGATACTCTAATCTCG
1 ACATCGATTT-TCACAATC-GGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCTCG
161862 GTTTTATTT-TCAAA
64 GTTTTATTTCT-AAA
* * *
161876 ACATCGATTTTCCACCATCGGAGATACTCTAACCCCGTTATTTCTAAGGGGATACTCCAACCTCG
1 ACATCGATTTT-CACAATCGG-GATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCTCG
161941 GTTTTATTTCTAAA
64 GTTTTATTTCTAAA
* * * * * *
161955 ACATCAATTTTTCACAACCGGGGATACTTCAACCTCGTTATTTCAT-CGGGGATACTCAAACC
1 ACATCGA-TTTTCACAATC-GGGATACTCCAACCCCGTTATTTC-TGAGGGGATACTCCAACC
162017 CCATTATTTT
Statistics
Matches: 177, Mismatches: 35, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
78 4 0.02
79 163 0.92
80 10 0.06
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (77 bp):
ACATCGATTTTCACAATCGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCTCGGT
TTTATTTCTAAA
Found at i:162006 original size:158 final size:158
Alignment explanation
Indices: 161718--162011 Score: 374
Period size: 158 Copynumber: 1.9 Consensus size: 158
161708 ATCTTCACTC
* * *
161718 ACATCAATTTTCTACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCA
1 ACATCAATTTTCCACCATCGGAGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCA
* * ** * * * *
161783 ACTTTGTTTCTAAAATATTGATTTCTCATAATCAGGGATACTCCAACCCCATTATTTTTGTGGGG
66 ACTTTATTTCTAAAACATCAATTTCTCACAACCAGGGATACTCCAACCCCATTATTTATGCGGGG
161848 ATACTCTAATCTCGGTTTTATTTTCAAA
131 ATACTCTAATCTCGGTTTTATTTTCAAA
* * * *
161876 ACATCGATTTTCCACCATCGGAGATACTCTAACCCCGTTATTTCTAAGGGGATACTCCAACCTCG
1 ACATCAATTTTCCACCATCGGAGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCA
** * * * * *
161941 GTTTTATTTCTAAAACATCAATTTTTCACAACCGGGGATACTTCAACCTCGTTATTTCAT-CGGG
66 ACTTTATTTCTAAAACATCAATTTCTCACAACCAGGGATACTCCAACCCCATTATTT-ATGCGGG
162005 GATACTC
130 GATACTC
162012 AAACCCCATT
Statistics
Matches: 113, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
158 112 0.99
159 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (158 bp):
ACATCAATTTTCCACCATCGGAGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCA
ACTTTATTTCTAAAACATCAATTTCTCACAACCAGGGATACTCCAACCCCATTATTTATGCGGGG
ATACTCTAATCTCGGTTTTATTTTCAAA
Found at i:162056 original size:186 final size:187
Alignment explanation
Indices: 161811--162297 Score: 567
Period size: 186 Copynumber: 2.6 Consensus size: 187
161801 TGATTTCTCA
* * * * * **
161811 TAATCAGGGATACTCCAACCCCATTATTTTTGTGGGGATACTCTAATCTCGGTTTTATTTTC-AA
1 TAATCGGGGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCGACTTTATTTTCTAA
* *
161875 AACATCGATTT-TCCACCATCGGAGATACTCTAACCCCGTTA-TTTCTAAGGGGATACTCCAACC
66 AACATCGATTTCT-CACAATCGGAGATACTCTAACCCCATTATTTTC-AAGGGGATACTCCAACC
* * *
161938 TCGGTTTTA-TTTCTAAAACATCAATTTT-TCACAACCGGGGATACTTCAA-CCTCGTTATT
129 TCGATTTTATTTTC-AAAACACCAATTTTCT-ACAACCGGGGATACTCCAACCCT-GTTATT
* * *
161997 TCATCGGGGATACTCAAACCCCATTATTTTTGAGGGGATGCTCCAACCCCGACTTTA-TTTCTAA
1 TAATCGGGGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCGACTTTATTTTCTAA
* * * * * *
162061 AATATTGATTTCTCACAATCGGGGATACTCTAACCCCATTATTTTCATGGGGATACTCCAATCTT
66 AACATCGATTTCTCACAATCGGAGATACTCTAACCCCATTATTTTCAAGGGGATACTCCAACCTC
* *
162126 GATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTCCAACCCTGTTATT
131 GATTTTATTTTCAAAACACCAATTTTCTACAACCGGGGATACTCCAACCCTGTTATT
* * *
162183 TAATCGGGCATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTA-TTTCTAA
1 TAATCGGGGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCGACTTTATTTTCTAA
* * * * *
162247 AATATTGATTTCTCACAATTGGGGATACTCCAACCCCGATTTTATTTTCAA
66 AACATCGATTTCTCACAATCGGAGATACTCTAACCCC-A--TTATTTTCAA
162298 AATACCGATT
Statistics
Matches: 260, Mismatches: 32, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
185 4 0.02
186 233 0.90
187 14 0.05
189 9 0.03
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (187 bp):
TAATCGGGGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCGACTTTATTTTCTAA
AACATCGATTTCTCACAATCGGAGATACTCTAACCCCATTATTTTCAAGGGGATACTCCAACCTC
GATTTTATTTTCAAAACACCAATTTTCTACAACCGGGGATACTCCAACCCTGTTATT
Found at i:162103 original size:107 final size:108
Alignment explanation
Indices: 161891--162118 Score: 282
Period size: 107 Copynumber: 2.1 Consensus size: 108
161881 GATTTTCCAC
* * * * **
161891 CATCGGAGATACTCTAACCCCGTTATTTCTAAGGGGATACTCCAACCTCGGTTTTATTTCTAAAA
1 CATCGGGGATACTCAAACCCCATTATTTCTAAGGGGATACTCCAACCCCGACTTTATTTCTAAAA
* * *
161956 CATCAATTTTTCACAACCGGGGATACTTCAACCTCGTTA-TTT
66 CATCAATTTCTCACAACCGGGGATACTTCAACCCCATTATTTT
* * *
161998 CATCGGGGATACTCAAACCCCATTATTTTTGAGGGGATGCTCCAACCCCGACTTTATTTCTAAAA
1 CATCGGGGATACTCAAACCCCATTATTTCTAAGGGGATACTCCAACCCCGACTTTATTTCTAAAA
* ** *
162063 TATTGATTTCTCACAATCGGGGATAC-TCTAACCCCATTATTTT
66 CATCAATTTCTCACAACCGGGGATACTTC-AACCCCATTATTTT
162106 CAT-GGGGATACTC
1 CATCGGGGATACTC
162119 CAATCTTGAT
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
106 2 0.02
107 95 0.92
108 6 0.06
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (108 bp):
CATCGGGGATACTCAAACCCCATTATTTCTAAGGGGATACTCCAACCCCGACTTTATTTCTAAAA
CATCAATTTCTCACAACCGGGGATACTTCAACCCCATTATTTT
Found at i:162160 original size:79 final size:79
Alignment explanation
Indices: 161999--162205 Score: 197
Period size: 79 Copynumber: 2.6 Consensus size: 79
161989 TCGTTATTTC
* * *
161999 ATCGGGGATACTCAAACCCCATTATTTTTGAGGGGATGCTCCAACCCCGACTTTATTTCTAAAAT
1 ATCGGGGATACTCAAACCCCATTATTTTTCAGGGGATACTCCAACCCCGACTTTATTTCTAAAAC
***
162064 ATTGATTTCTCACA
66 ACCAATTTCTCACA
* * ** *
162078 ATCGGGGATACTCTAACCCCATTA-TTTTCATGGGGATACTCCAATCTTGATTTTATTT-TCAAA
1 ATCGGGGATACTCAAACCCCATTATTTTTCA-GGGGATACTCCAACCCCGACTTTATTTCT-AAA
*
162141 ACACCAATTT-TCTATA
64 ACACCAATTTCTC-ACA
* ** * *
162157 ATCGGGGATACTCCAACCCTGTTATTTAATC-GGGCATACTCCAACCCCG
1 ATCGGGGATACTCAAACCCCATTATTT-TTCAGGGGATACTCCAACCCCG
162206 TTATTTTCGA
Statistics
Matches: 103, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
78 8 0.08
79 91 0.88
80 2 0.02
81 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
ATCGGGGATACTCAAACCCCATTATTTTTCAGGGGATACTCCAACCCCGACTTTATTTCTAAAAC
ACCAATTTCTCACA
Found at i:162187 original size:28 final size:28
Alignment explanation
Indices: 162155--162233 Score: 108
Period size: 28 Copynumber: 2.8 Consensus size: 28
162145 CAATTTTCTA
*
162155 TAATCGGGGATACTCCAACCCTGTTATT
1 TAATCGGGGATACTCCAACCCCGTTATT
*
162183 TAATCGGGCATACTCCAACCCCGTTATT
1 TAATCGGGGATACTCCAACCCCGTTATT
162211 T--TCGAGGGGATACTCCAACCCCG
1 TAATC--GGGGATACTCCAACCCCG
162234 ACTTTATTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 2 0.04
28 44 0.96
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (28 bp):
TAATCGGGGATACTCCAACCCCGTTATT
Found at i:162271 original size:107 final size:107
Alignment explanation
Indices: 162077--162282 Score: 247
Period size: 107 Copynumber: 1.9 Consensus size: 107
162067 GATTTCTCAC
* * * ** *
162077 AATCGGGGATACTCTAACCCCATTATTTTCATGGGGATACTCCAATCTTGATTTTATTTTCAAAA
1 AATCGGGCATACTCCAACCCCATTATTTTCATGGGGATACTCCAACCCCGACTTTATTTTCAAAA
*
162142 CACCAATTTTCTATAATCGGGGATACTCCAACCCTGTTATTT
66 CACCAATTTTCTACAATCGGGGATACTCCAACCCTGTTATTT
*
162184 AATCGGGCATACTCCAACCCCGTTATTTTCGA-GGGGATACTCCAACCCCGACTTTA-TTTCTAA
1 AATCGGGCATACTCCAACCCCATTATTTTC-ATGGGGATACTCCAACCCCGACTTTATTTTC-AA
* *** *
162247 AATATTGA-TTTCTCACAATTGGGGATACTCCAACCC
64 AACACCAATTTTCT-ACAATCGGGGATACTCCAACCC
162283 CGATTTTATT
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
106 9 0.11
107 73 0.88
108 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (107 bp):
AATCGGGCATACTCCAACCCCATTATTTTCATGGGGATACTCCAACCCCGACTTTATTTTCAAAA
CACCAATTTTCTACAATCGGGGATACTCCAACCCTGTTATTT
Found at i:162282 original size:51 final size:50
Alignment explanation
Indices: 162216--162332 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 50
162206 TTATTTTCGA
**
162216 GGGGATACTCCAACCCCGACTTTA-TTTCTAAAATATTGA-TTTCTCACAATT
1 GGGGATACTCCAACCCCGACTTTATTTTC-AAAATACCGATTTTCT-ACAA-T
* *
162267 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCGATTTTCTATAAT
1 GGGGATACTCCAACCCCGACTTTATTTTCAAAATACCGATTTTCTACAAT
162317 GAGGGATACTCCAACC
1 G-GGGATACTCCAACC
162333 TTATTATTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
50 2 0.03
51 48 0.81
52 9 0.15
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGACTTTATTTTCAAAATACCGATTTTCTACAAT
Found at i:169042 original size:71 final size:71
Alignment explanation
Indices: 168905--169046 Score: 171
Period size: 71 Copynumber: 2.0 Consensus size: 71
168895 AGTATCCTCT
** ** **
168905 CGAAAATAATAGGGTTGGAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAATTGGGG
1 CGAAAATAATAGGGTTGGAGTATCCCCAATTATAGAAAATCAATATTTTGAAAATAAAATCAGGG
168970 TTGGAG
66 TTGGAG
* * *
168976 CGAAAATAATGGGGTTGGAGTATCCCCAATTGT-GAGAAATCAATATTTT-AGAAATAAAGTCAG
1 CGAAAATAATAGGGTTGGAGTATCCCCAATTATAGA-AAATCAATATTTTGA-AAATAAAATCAG
169039 GGTTGGAG
64 GGTTGGAG
169047 TATCCTCTCG
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
70 3 0.05
71 57 0.95
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (71 bp):
CGAAAATAATAGGGTTGGAGTATCCCCAATTATAGAAAATCAATATTTTGAAAATAAAATCAGGG
TTGGAG
Found at i:169096 original size:28 final size:29
Alignment explanation
Indices: 169038--169111 Score: 118
Period size: 28 Copynumber: 2.7 Consensus size: 29
169028 AATAAAGTCA
*
169038 GGGTTGGAGTATCCTC--TCGAAATAACG
1 GGGTTGGAGTATCCCCGATCGAAATAACG
169065 GGGTTGGAGTATCCCCGAT-GAAATAACG
1 GGGTTGGAGTATCCCCGATCGAAATAACG
169093 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
169112 TATAGAAAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
27 15 0.34
28 28 0.64
29 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (29 bp):
GGGTTGGAGTATCCCCGATCGAAATAACG
Found at i:169159 original size:79 final size:77
Alignment explanation
Indices: 169063--169315 Score: 265
Period size: 79 Copynumber: 3.2 Consensus size: 77
169053 CTCGAAATAA
* * * *
169063 CGGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTATAGAAAATTAGTGT
1 CGGGGTTGGAGTATCCCC-ATGAAATAACGAGGTTGGAGTATCCTCGATTGT-GAAAATTAGTAT
169128 TTTGAAAATAAAAT
64 TTTGAAAATAAAAT
* * * * *
169142 CGGGGTTAGAGTATCCCCTTGAAAATAACGAGGTTGGAGTATCCTCGATTGTGGAAAATCAATAC
1 CGGGGTTGGAGTATCCCCATG-AAATAACGAGGTTGGAGTATCCTCGATTGT-GAAAATTAGTAT
***
169207 TTT-AGAAATAAGGC
64 TTTGA-AAATAAAAT
** * * *
169221 CGGGGTTGGAGTATCCCCACAAAAATAACGAGGATGGAGTATCCTCGATTGTGAAAAATTGGTTT
1 CGGGGTTGGAGTATCCCCA-TGAAATAACGAGGTTGGAGTATCCTCGATTGTG-AAAATTAGTAT
*
169286 TTTGGAAATAAAAT
64 TTTGAAAATAAAAT
*
169300 CGGAGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
169316 TCGATTGTGG
Statistics
Matches: 141, Mismatches: 28, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
78 4 0.03
79 137 0.97
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (77 bp):
CGGGGTTGGAGTATCCCCATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAATTAGTATTT
TGAAAATAAAAT
Found at i:169316 original size:51 final size:51
Alignment explanation
Indices: 169255--169366 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 51
169245 ATAACGAGGA
* *
169255 TGGAGTATCCTCGATTGTGAAAAATTGGTTTTTTGGAAATAAAATCGGAGT
1 TGGAGTATCCTCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGAGT
* *
169306 TGGAGTATCCTCGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGGGT
1 TGGAGTATCCTCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGAGT
169357 TGGAGTATCC
1 TGGAGTATCC
169367 CCTCGGAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.34
Consensus pattern (51 bp):
TGGAGTATCCTCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGAGT
Found at i:169403 original size:28 final size:28
Alignment explanation
Indices: 169354--169427 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
169344 ATAAAATCGG
***
169354 GGTTGGAGTATCCCCTCGGAAATAACA-
1 GGTTGGAGTATCCCCGATGAAATAACAT
*
169381 GGATTGGAGTATCCCCGATGAAATAATAT
1 GG-TTGGAGTATCCCCGATGAAATAACAT
169410 GGTTGGAGTA-CCTCCGAT
1 GGTTGGAGTATCC-CCGAT
169428 TATGAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 4 0.10
28 34 0.85
29 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGATGAAATAACAT
Found at i:171811 original size:20 final size:19
Alignment explanation
Indices: 171786--171874 Score: 101
Period size: 20 Copynumber: 4.6 Consensus size: 19
171776 TGCCTGAATC
*
171786 TATCGATACATTGTAAAATG
1 TATCGATACAATG-AAAATG
* *
171806 TATCGATATAATGAGAAATC
1 TATCGATACAATGA-AAATG
171826 TATCGATAC-A-GCAAAATG
1 TATCGATACAATG-AAAATG
171844 TATCGATACAATGAACAATG
1 TATCGATACAATGAA-AATG
171864 TATCGATACAA
1 TATCGATACAA
171875 GTTGTGAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
18 14 0.24
19 6 0.10
20 39 0.66
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (19 bp):
TATCGATACAATGAAAATG
Found at i:171851 original size:38 final size:39
Alignment explanation
Indices: 171782--171873 Score: 125
Period size: 38 Copynumber: 2.4 Consensus size: 39
171772 AAAATGCCTG
* *
171782 AATCTATCGATACATTGTAAAATGTATCGATATAATGAGA-
1 AATCTATCGATACA-TGCAAAATGTATCGATACAATGA-AC
171822 AATCTATCGATACA-GCAAAATGTATCGATACAATGAAC
1 AATCTATCGATACATGCAAAATGTATCGATACAATGAAC
*
171860 AATGTATCGATACA
1 AATCTATCGATACA
171874 AGTTGTGAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
37 1 0.02
38 33 0.69
40 14 0.29
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.28
Consensus pattern (39 bp):
AATCTATCGATACATGCAAAATGTATCGATACAATGAAC
Found at i:172608 original size:43 final size:43
Alignment explanation
Indices: 172547--172784 Score: 189
Period size: 43 Copynumber: 5.4 Consensus size: 43
172537 AAAAAGAGTA
**
172547 CGTCCTGCT-TTTCGAGGACAAAGGAAAAAAGGAAAACAAAATG
1 CGTCCTGCTCTTT-GAGGACAAAGGAAAAAAGGAAAATGAAATG
* * *
172590 TGTCATGCTCTTTGAGGACTAGAAGGGAAAAGAAGG-AAATGAAGTG
1 CGTCCTGCTCTTTGAGGAC-A-AA-GGAAAA-AAGGAAAATGAAATG
* * * * * *
172636 CATCTTGCTCTCTGAGGACAAAAGGAGAAAAAAGG-GAATGGAACG
1 CGTCCTGCTCTTTGAGGAC-AAA-G-GAAAAAAGGAAAATGAAATG
* * *
172681 TGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAACGAAATG
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAATG
* * * * *
172724 CGTCTTGCTCTTTGAGGATAAAAG-AAAGAGAAAAAT-AAAGTG
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAA-TG
172766 CGTCCTGCTCTTTGAGGAC
1 CGTCCTGCTCTTTGAGGAC
172785 TAAAAAGTGC
Statistics
Matches: 154, Mismatches: 33, Indels: 17
0.75 0.16 0.08
Matches are distributed among these distances:
41 3 0.02
42 35 0.23
43 40 0.26
44 7 0.05
45 31 0.20
46 34 0.22
47 4 0.03
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.20
Consensus pattern (43 bp):
CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAATG
Found at i:172698 original size:45 final size:44
Alignment explanation
Indices: 172589--172711 Score: 135
Period size: 45 Copynumber: 2.8 Consensus size: 44
172579 AAAACAAAAT
*
172589 GTGTCATGCTCTTTGAGGACTAGAAGG-GAAAAGAAGGAAATGAA
1 GTGTCATGCTCTTTGAGGAC-AAAAGGAGAAAAGAAGGAAATGAA
* * *
172633 GTGCATCTTGCTCTCTGAGGACAAAAGGAGAAAA-AAGGGAATGGAA
1 GTG--TCATGCTCTTTGAGGACAAAAGGAGAAAAGAAGGAAAT-GAA
*
172679 CGTGTCCTGCTCTTTGAGGAC-AAAGGAGAAAAG
1 -GTGTCATGCTCTTTGAGGACAAAAGGAGAAAAG
172712 GAAAACGAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
44 14 0.21
45 27 0.40
46 23 0.34
47 3 0.04
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.20
Consensus pattern (44 bp):
GTGTCATGCTCTTTGAGGACAAAAGGAGAAAAGAAGGAAATGAA
Found at i:172862 original size:61 final size:58
Alignment explanation
Indices: 172760--173079 Score: 384
Period size: 61 Copynumber: 5.4 Consensus size: 58
172750 AGAGAAAAAT
* **
172760 AAAGTGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGA
1 AAAG-GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT---AAGA
* *
172822 AAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT---AAGA
* * *
172883 GAAA-GCATCCTGCTCTTTGAAGACTGAAAAATGCCACCAACTTGTGTGGGCTTT--G-
1 -AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAGA
* *
172938 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCCACTTGTGTGGGCTTTAATAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-A-A-GA
*
172999 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGAGCTTT---A
1 AAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAGA
173055 AAAGGCGTCCTGCTCTTTGAGGACT
1 AAAGGCGTCCTGCTCTTTGAGGACT
173080 AAAGGGCGAA
Statistics
Matches: 232, Mismatches: 17, Indels: 24
0.85 0.06 0.09
Matches are distributed among these distances:
54 3 0.01
55 47 0.20
56 27 0.12
60 1 0.00
61 121 0.52
62 33 0.14
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (58 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAGA
Found at i:172966 original size:55 final size:55
Alignment explanation
Indices: 172890--173079 Score: 272
Period size: 55 Copynumber: 3.3 Consensus size: 55
172880 AGAGAAAGCA
*
172890 TCCTGCTCTTTGAAGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
172945 TCCTGCTCTTTGAGGACTGAAAAATGCCACCCACTTGTGTGGGCTTTAATAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGC-TT--T--G-AAAGGCG
* * *
173006 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
173062 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
173080 AAAGGGCGAA
Statistics
Matches: 122, Mismatches: 6, Indels: 13
0.87 0.04 0.09
Matches are distributed among these distances:
55 42 0.34
56 27 0.22
58 1 0.01
59 1 0.01
60 1 0.01
61 27 0.22
62 23 0.19
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:172981 original size:116 final size:116
Alignment explanation
Indices: 172768--173079 Score: 398
Period size: 116 Copynumber: 2.6 Consensus size: 116
172758 ATAAAGTGCG
** *
172768 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAGGTGTCC
1 TCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCC
**
172832 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAA-A-GAGAAA-GCA
59 TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT--AATAGGA-AAAGGCA
*
172890 TCCTGCTCTTTGAAGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* *
172955 TGAGGACTGAAAAATGCCACCCACTTGTGTGGGCTTTAATAGGAAAAGGCG
66 TGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAATAGGAAAAGGCA
* * *
173006 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
173071 TTGAGGACT
65 TTGAGGACT
173080 AAAGGGCGAA
Statistics
Matches: 173, Mismatches: 12, Indels: 15
0.87 0.06 0.08
Matches are distributed among these distances:
114 2 0.01
115 4 0.02
116 71 0.41
117 53 0.31
122 38 0.22
123 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (116 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
TGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAATAGGAAAAGGCA
Found at i:173166 original size:94 final size:95
Alignment explanation
Indices: 173003--173176 Score: 278
Period size: 94 Copynumber: 1.8 Consensus size: 95
172993 ATAGGAAAAG
*
173003 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTCTGTGAGCTTTAAAAGGCGTCCTGC
173068 TCTTTGAGGACTAAAGGGCGAAAGGAGAGA
66 TCTTTGAGGACTAAAGGGCGAAAGGAGAGA
** * * * *
173098 GCGTCCTGCTCTTTGAGGACT-GGCAAGTGCCACTAACTTCTGTGGGCTTTAAAAGGCGTTCTGT
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTCTGTGAGCTTTAAAAGGCGTCCTGC
173162 TCTTTGAGGACTAAA
66 TCTTTGAGGACTAAA
173177 AAATGCCACC
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
94 51 0.71
95 21 0.29
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (95 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTCTGTGAGCTTTAAAAGGCGTCCTGC
TCTTTGAGGACTAAAGGGCGAAAGGAGAGA
Found at i:173227 original size:149 final size:154
Alignment explanation
Indices: 172942--173405 Score: 427
Period size: 171 Copynumber: 2.9 Consensus size: 154
172932 GCTTTGAAAG
* *
172942 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCCACTTGTGTGGGCTTTAATAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTCTGTGGGCTTT-AT--GAAAAGGCGT
* *
173007 CCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGCGTCCTGCTCTT
63 CCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTATGTGAGCTTTAAAAGGCGTCCTGCTCTT
173072 TGAGGACT-AAAGGGCGAAAGGAGAGA
128 TGAGGACTGAAAGGGCGAAAGGAGAGA
** * * *
173098 GCGTCCTGCTCTTTGAGGACTGGCAAGTGCCACTAACTTCTGTGGGC-TT-T-AAAAGGCGTTCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTCTGTGGGCTTTATGAAAAGGCGTCCT
* * * *
173160 GTTCTTTGAGGACTA-AAAAATGCCACCAACTTATGTGGGCTTTGAAAGGCGTCTTGCTCTTTGA
66 GCTCTTTGAGGACTAGAAAAATGCCACCAACTTATGTGAGCTTTAAAAGGCGTCCTGCTCTTTGA
* * * *
173224 GGACTGAAAGGTACCACCAACTTGTGTGGGCTTTGAAA
131 GGACTGAAAGG-GCGA--AA--------GG---AGAGA
* ** * *
173262 GGCGTCCTGTTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
1 -GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTCTGTGGGCTTT---ATGAAAAGGCG
** * * * * *
173327 TCCTGCTCTTTGAGGACT-GGGAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
62 TCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTATGTGAGCTTTAAAAGGCGTCCTGCTCT
*
173391 CTGAGGACTGAAAGG
127 TTGAGGACTGAAAGG
173406 TGCCACCAAC
Statistics
Matches: 250, Mismatches: 35, Indels: 31
0.79 0.11 0.10
Matches are distributed among these distances:
149 49 0.20
150 30 0.12
151 2 0.01
153 3 0.01
155 2 0.01
156 41 0.16
161 2 0.01
164 3 0.01
165 41 0.16
166 2 0.01
171 75 0.30
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (154 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTCTGTGGGCTTTATGAAAAGGCGTCCT
GCTCTTTGAGGACTAGAAAAATGCCACCAACTTATGTGAGCTTTAAAAGGCGTCCTGCTCTTTGA
GGACTGAAAGGGCGAAAGGAGAGA
Found at i:173379 original size:116 final size:116
Alignment explanation
Indices: 173098--173515 Score: 589
Period size: 116 Copynumber: 3.7 Consensus size: 116
173088 AAAGGAGAGA
* * * * * *
173098 GCGTCCTGCTCTTTGAGGACTGGCAAGTGCCACTAACTTCTGTGGGCTTTAAAAGGCGTTCTGTT
1 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
* ** *
173163 CTTTGAGGACTAAAAAATGCCACCAACTTATGTGGGCTTT-----G-AAAG
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
* * * * * *
173208 GCGTCTTGCTCTTTGAGGACT-GAAAGGTACCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGT
1 GCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGC
173272 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
65 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
*
173324 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
*
173389 CTCTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
* * *
173440 GCATCCTACTTTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
173505 CTTTGAGGACT
66 CTTTGAGGACT
173516 AAAAAGTGAA
Statistics
Matches: 276, Mismatches: 24, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
109 3 0.01
110 90 0.33
115 1 0.00
116 179 0.65
117 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (116 bp):
GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
Found at i:173402 original size:171 final size:171
Alignment explanation
Indices: 173098--173520 Score: 501
Period size: 171 Copynumber: 2.5 Consensus size: 171
173088 AAAGGAGAGA
* * * * *
173098 GCGTCCTGCTCTTTGAGGACTGGCAAGTGCCACTAACTTCTGTGGGCTTT----AAAAGGCGTTC
1 GCGTCCTGTTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAGGCGTCC
* * * * *
173159 TGTTCTTTGAGGACTAAAAAATGCCACCAACTTATGTGGGCTTTGAAAGGCGTCTTGCTCTTTGA
66 TGCTCTTTGAGGACTAAAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTGCTCTCTGA
173224 GGACTGAAAGGTACCACCAACTTGTGTGGGCTTT-G-AAAG
131 GGACTGAAAGGTACCACCAACTTGTGTGGGCTTTAGAAAAG
173263 GCGTCCTGTTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
1 GCGTCCTGTTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAA-AAAAGGCG
*** * * *
173327 TCCTGCTCTTTGAGGACTGGGAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTC
63 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTGCTCTC
*
173392 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
128 TGAGGACTGAAAGGTACCACCAACTTGTGTGGGCTTT----AGAAAAG
* * * *
173440 GCATCCTACTT-TTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT----AAAAGGCATC
1 GCGTCCT-GTTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAGGCGTC
173500 CTGCTCTTTGAGGACTAAAAA
65 CTGCTCTTTGAGGACTAAAAA
173521 GTGAAAGGAG
Statistics
Matches: 219, Mismatches: 24, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
164 3 0.01
165 42 0.19
171 124 0.57
176 1 0.00
177 44 0.20
178 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (171 bp):
GCGTCCTGTTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAGGCGTCC
TGCTCTTTGAGGACTAAAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTGCTCTCTGA
GGACTGAAAGGTACCACCAACTTGTGTGGGCTTTAGAAAAG
Found at i:173523 original size:55 final size:55
Alignment explanation
Indices: 173098--173523 Score: 483
Period size: 55 Copynumber: 7.5 Consensus size: 55
173088 AAAGGAGAGA
** * *
173098 GCGTCCTGCTCTTTGAGGACTGGCAAGTGCCACTAACTTCTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * * * *
173153 GCGTTCTGTTCTTTGAGGACTAAAAAATGCCACCAACTTATGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
173208 GCGTCTTGCTCTTTGAGGACTGAAAGGTACCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
173263 GCGTCCTGTTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAG
** *
173324 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACTAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
173379 GCATCCTGCTCTCTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAG
* * * **
173440 GCATCCTACTTTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
173495 GCATCCTGCTCTTTGAGGACTAAAAAGTG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTG
173524 AAAGGAGAAA
Statistics
Matches: 316, Mismatches: 43, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
55 218 0.69
61 98 0.31
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:188894 original size:20 final size:19
Alignment explanation
Indices: 188869--188975 Score: 109
Period size: 20 Copynumber: 5.7 Consensus size: 19
188859 AAAATGCCTG
*
188869 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
188889 AATGTATCAATACAATGAGA
1 AATGTATCGATACAATGA-A
188909 AATGTATCGAT---AT---
1 AATGTATCGATACAATGAA
*
188922 AATGTATCGATACAATGAGT
1 AATGTATCGATACAATGA-A
188942 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
188962 AATGTATCGATACA
1 AATGTATCGATACA
188976 TCTGGGTAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
13 11 0.15
16 2 0.03
17 2 0.03
19 1 0.01
20 57 0.77
21 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:188927 original size:13 final size:13
Alignment explanation
Indices: 188909--188938 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
188899 TACAATGAGA
*
188909 AATGTATCGATAT
1 AATGTATCGATAC
188922 AATGTATCGATAC
1 AATGTATCGATAC
188935 AATG
1 AATG
188939 AGTAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:188931 original size:53 final size:53
Alignment explanation
Indices: 188869--188973 Score: 151
Period size: 53 Copynumber: 2.0 Consensus size: 53
188859 AAAATGCCTG
*
188869 AATGTATCGATACATTGTA-AAATGTATCAATACAATG-AGAAATGTATCGATAT
1 AATGTATCGATACAATG-AGAAATGTATCAATACAATGCA-AAATGTATCGATAT
* *
188922 AATGTATCGATACAATGAGTAATGTATCGATACAATGCAAAATGTATCGATA
1 AATGTATCGATACAATGAGAAATGTATCAATACAATGCAAAATGTATCGATA
188974 CATCTGGGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
52 1 0.02
53 45 0.96
54 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.30
Consensus pattern (53 bp):
AATGTATCGATACAATGAGAAATGTATCAATACAATGCAAAATGTATCGATAT
Found at i:188935 original size:33 final size:33
Alignment explanation
Indices: 188889--188958 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
188879 TACATTGTAA
*
188889 AATGTATCAATACAATGAGAAATGTATCGATAT
1 AATGTATCAATACAATGAGAAATGTATCGATAC
* *
188922 AATGTATCGATACAATGAGTAATGTATCGATAC
1 AATGTATCAATACAATGAGAAATGTATCGATAC
188955 AATG
1 AATG
188959 CAAAATGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (33 bp):
AATGTATCAATACAATGAGAAATGTATCGATAC
Found at i:196301 original size:9 final size:9
Alignment explanation
Indices: 196287--196349 Score: 74
Period size: 9 Copynumber: 6.9 Consensus size: 9
196277 CTTCATATGA
196287 AAAAAAAAC
1 AAAAAAAAC
*
196296 -AAAAAAAT
1 AAAAAAAAC
*
196304 AAAAAAAAT
1 AAAAAAAAC
196313 AAAAAAAACC
1 AAAAAAAA-C
196323 AAAAAAAAC
1 AAAAAAAAC
*
196332 AAAAAAACC
1 AAAAAAAAC
196341 AAGAAAAAA
1 AA-AAAAAA
196350 ATAACAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
8 7 0.15
9 27 0.57
10 13 0.28
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.03
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:196339 original size:18 final size:18
Alignment explanation
Indices: 196287--196349 Score: 83
Period size: 18 Copynumber: 3.4 Consensus size: 18
196277 CTTCATATGA
*
196287 AAAAAAAACAAAAAAA-T
1 AAAAAAAACAAAAAAACC
*
196304 AAAAAAAATAAAAAAAACC
1 AAAAAAAA-CAAAAAAACC
196323 AAAAAAAACAAAAAAACC
1 AAAAAAAACAAAAAAACC
196341 AAGAAAAAA
1 AA-AAAAAA
196350 ATAACAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
17 8 0.20
18 18 0.45
19 14 0.35
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.03
Consensus pattern (18 bp):
AAAAAAAACAAAAAAACC
Found at i:196350 original size:1 final size:1
Alignment explanation
Indices: 196286--196338 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
196276 CCTTCATATG
* * * ** *
196286 AAAAAAAAACAAAAAAATAAAAAAAATAAAAAAAACCAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
196339 CCAAGAAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.89, C:0.08, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Found at i:197619 original size:28 final size:28
Alignment explanation
Indices: 197579--198272 Score: 755
Period size: 28 Copynumber: 24.3 Consensus size: 28
197569 CGTTCATCTC
* *
197579 TTCAAAGCCCACAAGTTAGTGGCACCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
197607 TTCAAAGCCCACAAGTCAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* *
197635 TTCAAAGCCCATAAGGT-AGTGGCACCAT
1 TTCAAAGCCCACAA-GTCAGTGGCACCTT
197663 TTCAAAGCCCACAAGTCAGTGGCACC-T
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
197690 TTCAAAGCCCACAAGTCAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* * *
197718 TTCAAAGTCCACAAGTCGGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
*
197746 TTCAAAGCCCACAAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CTT
197776 TTCAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
*
197805 TT-AAAGCCCACAAGTTAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
*
197832 TTCAAAGCCCACAAGTCAGTGGCA-TTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCT-T
* *
197860 TTCAAAGCCCACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CTT
* * *
197890 TTCAAAGCCCATAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
*
197918 TTCAAAGCCCACAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
* *
197947 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* *
197975 TTCAAAGTCCACAAGGCAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* *
198003 TGCAAAGCCCACGAGTC-GATGGCAACTCTT
1 TTCAAAGCCCACAAGTCAG-TGGC-AC-CTT
*
198033 TTCAAAGCCCACAAGTCAGTGGTACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
*
198061 TTCAAAGCCCATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
*
198090 TTCAAAGCCCACAAGTTAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* **
198118 TTCAAAGCCCACGAGTC-GATAGTAACTCTT
1 TTCAAAGCCCACAAGTCAG-T-GGCAC-CTT
* *
198148 TTCAAAACCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
*
198176 TTCAAAGCCCACAAGTCAGTTGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
*
198205 TTCAAAGCCCACAAGTTAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* * *
198233 TTCAAAGCTCACATGAGTCGGTGGTAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGG-CAC-CTT
198265 TTCAAAGC
1 TTCAAAGC
198273 TTACACAAGT
Statistics
Matches: 572, Mismatches: 58, Indels: 68
0.82 0.08 0.10
Matches are distributed among these distances:
27 35 0.06
28 329 0.58
29 102 0.18
30 92 0.16
31 5 0.01
32 9 0.02
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCTT
Found at i:198009 original size:143 final size:142
Alignment explanation
Indices: 197579--198245 Score: 868
Period size: 143 Copynumber: 4.7 Consensus size: 142
197569 CGTTCATCTC
** *
197579 TTCAAAGCCCACAAGTTAGTGGCAC-CATTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAG
1 TTCAAAGCCCACAAGTCGGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAG
* * *
197642 CCCATAAGGT-AGTGGCAC-CATTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAA
65 CCCACAA-GTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAA
197704 GTCAGTGGCATCCT
129 GTCAGTGGCATCCT
* *
197718 TTCAAAGTCCACAAGTCGGTGGCA-TCTTTTCAAAGCCCACAAGTCGGTGGCAACTCTTTTCAAA
1 TTCAAAGCCCACAAGTCGGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGC-AC-CTTTTCAAA
*
197782 GCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAA
64 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAA
*
197846 GTCAGTGGCATTCT
129 GTCAGTGGCATCCT
* * * *
197860 TTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCATAAGTCAATGGCACCCTTTCAAAG
1 TTCAAAGCCCACAAGTCGGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAG
* * *
197925 CCCACAAGTCAATGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGTCCACAAG
65 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAG
*
197990 GCAGTGGCATCCT
130 TCAGTGGCATCCT
* * * *
198003 TGCAAAGCCCACGAGTCGATGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGTACCTTTTCAAAG
1 TTCAAAGCCCACAAGTCGGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAG
* *
198068 CCCATAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAG
65 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAG
** *
198133 TC-GATAGTAACTCTT
130 TCAG-T-GGCA-TCCT
* * * *
198148 TTCAAAACCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTTGCACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCGGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAG
* * *
198212 CCCACAAGTTAGTGGCA-TCCTTTCAAAGCTCACA
65 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA
198246 TGAGTCGGTG
Statistics
Matches: 466, Mismatches: 48, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
139 46 0.10
140 4 0.01
141 42 0.09
142 87 0.19
143 213 0.46
144 53 0.11
145 21 0.05
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (142 bp):
TTCAAAGCCCACAAGTCGGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGC
CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGT
CAGTGGCATCCT
Found at i:198036 original size:115 final size:114
Alignment explanation
Indices: 197579--198272 Score: 784
Period size: 115 Copynumber: 6.1 Consensus size: 114
197569 CGTTCATCTC
* * *
197579 TTCAAAGCCCACAAGTTAGTGGCAC-CATTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
*
197643 CCATAAGGT-AGTGGCA-CCATTTCAAAGCCCACAAGTC-AGTGGCAC-C-T
66 CCACAA-GTCAGTGGCATCC-TTTCAAAGCCCACAAGTCGA-TGGCACTCTT
* * * *
197690 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGTCCACAAGTCGGTGGCATCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
197754 CCACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTC-AGTGGCACCCTT
66 CCACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACAAGTCGA-TGGCACTCTT
* **
197805 TT-AAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCATTCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * * *
197868 CCACGAGTCGGTGGCAACTCTTTTCAAAGCCCATAAGTCAATGGCAC-CCT
66 CCACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACAAGTCGATGGCACTCTT
* * * *
197918 TTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGT
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
197983 CCACAAGGCAGTGGCATCCTTGCAAAGCCCACGAGTCGATGGCAACTCTT
66 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCGATGGC-ACTCTT
* * * *
198033 TTCAAAGCCCACAAGTCAGTGGTAC-CTTTTCAAAGCCCATAAGTCAGTGGCACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAG
* * **
198097 CCCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAGTCGATAGTAACTCTT
65 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCGAT-GGCACTCTT
* * *
198148 TTCAAAACCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTTGCACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAG
* * * *
198212 CCCACAAGTTAGTGGCATCCTTTCAAAGCTCACATGAGTCGGTGGTAACTCTT
65 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACA--AGTCGATGG-CACTCTT
198265 TTCAAAGC
1 TTCAAAGC
198273 TTACACAAGT
Statistics
Matches: 513, Mismatches: 53, Indels: 28
0.86 0.09 0.05
Matches are distributed among these distances:
110 2 0.00
111 68 0.13
112 1 0.00
113 52 0.10
114 149 0.29
115 219 0.43
116 2 0.00
117 20 0.04
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (114 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCGATGGCACTCTT
Found at i:198456 original size:49 final size:46
Alignment explanation
Indices: 198353--198481 Score: 161
Period size: 49 Copynumber: 2.8 Consensus size: 46
198343 ACTGTCTGAC
* * *
198353 ATCGCTAGCCTTGAATCAGCATATTGGCACCTTT-ATTAGCCCAAT
1 ATCGCTGGCCTTGAATCAGCACATTGGCACTTTTCATTAGCCCAAT
*
198398 ATCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAAT
1 ATCGCTGGCCTTGAATCAGCACATTGG--CACTTTT-CATTAGCCCAAT
* **
198447 GTCGCTGGCCTTGAATTGGCACATTGGCACTTTTC
1 ATCGCTGGCCTTGAATCAGCACATTGGCACTTTTC
198482 TCATCTCTGA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
45 25 0.34
46 1 0.01
47 13 0.18
49 34 0.47
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.32
Consensus pattern (46 bp):
ATCGCTGGCCTTGAATCAGCACATTGGCACTTTTCATTAGCCCAAT
Found at i:199155 original size:20 final size:20
Alignment explanation
Indices: 199132--199208 Score: 118
Period size: 20 Copynumber: 3.9 Consensus size: 20
199122 AATTACCCAG
*
199132 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTGA
* *
199152 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTGA
*
199172 ATGTATCGATACATTCTTGA
1 ATGTATCGATACATTTTTGA
199192 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
199209 GTGTTTTTAC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTGA
Found at i:205559 original size:32 final size:32
Alignment explanation
Indices: 205518--205585 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
205508 ATGCATTTGA
*
205518 AATTCTAGCTGTTGGAC-TCAATGTATCGATAC
1 AATTATAGCTGTTGGACAT-AATGTATCGATAC
*
205550 AATTATAGCTGTTGGGCATAATGTATCGATAC
1 AATTATAGCTGTTGGACATAATGTATCGATAC
205582 AATT
1 AATT
205586 TACCATGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 32 0.97
33 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (32 bp):
AATTATAGCTGTTGGACATAATGTATCGATAC
Found at i:205682 original size:19 final size:20
Alignment explanation
Indices: 205654--205702 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
205644 ATTTCATGGG
*
205654 GTATCAATACAAAG-AACAT
1 GTATCGATACAAAGCAACAT
* *
205673 GTATCGATACTAAGCAATAT
1 GTATCGATACAAAGCAACAT
205693 GTATCGATAC
1 GTATCGATAC
205703 GTCTGGGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (20 bp):
GTATCGATACAAAGCAACAT
Found at i:205853 original size:24 final size:23
Alignment explanation
Indices: 205809--205853 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
205799 ATTATTTTTA
* * *
205809 CTTGAAAAATATTTGATTTATTG
1 CTTGAAAAACATTTAACTTATTG
205832 CTTGAAAAACATTTAAACTTAT
1 CTTGAAAAACATTT-AACTTAT
205854 CTGTAAAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (23 bp):
CTTGAAAAACATTTAACTTATTG
Found at i:207185 original size:10 final size:9
Alignment explanation
Indices: 207165--207213 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
207155 AAGTTTCCTC
*
207165 AAAATAAAA
1 AAAACAAAA
*
207174 AATACAAAA
1 AAAACAAAA
207183 AAAACAAAA
1 AAAACAAAA
*
207192 AAAAGGAAAA
1 AAAA-CAAAA
*
207202 TAAACAAAA
1 AAAACAAAA
207211 AAA
1 AAA
207214 TGAAATAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
9 25 0.78
10 7 0.22
ACGTcount: A:0.84, C:0.06, G:0.04, T:0.06
Consensus pattern (9 bp):
AAAACAAAA
Found at i:207194 original size:19 final size:20
Alignment explanation
Indices: 207170--207214 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
207160 TCCTCAAAAT
207170 AAAAAATA-CAAAAAAAACA
1 AAAAAATAGCAAAAAAAACA
* *
207189 AAAAAA-AGGAAAATAAACA
1 AAAAAATAGCAAAAAAAACA
207208 AAAAAAT
1 AAAAAAT
207215 GAAATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.82, C:0.07, G:0.04, T:0.07
Consensus pattern (20 bp):
AAAAAATAGCAAAAAAAACA
Found at i:207219 original size:17 final size:18
Alignment explanation
Indices: 207179--207232 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
207169 TAAAAAATAC
* *
207179 AAAAAAAACAAAAAAAAGG
1 AAAATAAAC-AAAAAAATG
207198 AAAATAAACAAAAAAATG
1 AAAATAAACAAAAAAATG
207216 -AAATAAA-AAAGAAAATG
1 AAAATAAACAAA-AAAATG
207233 CATAGAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 3 0.09
17 13 0.41
18 8 0.25
19 8 0.25
ACGTcount: A:0.80, C:0.04, G:0.09, T:0.07
Consensus pattern (18 bp):
AAAATAAACAAAAAAATG
Found at i:209107 original size:45 final size:45
Alignment explanation
Indices: 209038--209180 Score: 162
Period size: 45 Copynumber: 3.2 Consensus size: 45
209028 AATCGGTTAA
* * * *
209038 ATTTACCTTCTTTTGATTATATTGGCATTAGGACCTGGTCAAACT
1 ATTTTCCTTCATTTGACTATATTGGCATTAGGACCTAGTCAAACT
*
209083 ATTTTCCTTCATTTGACTATATTGGCATTAGGACCTAGTCAAACC
1 ATTTTCCTTCATTTGACTATATTGGCATTAGGACCTAGTCAAACT
* * ** * *
209128 CTTTCTACTTTTGTTTGACTGTATTGGCATTAGGACCTAGTTAAACT
1 ATTT-T-CCTTCATTTGACTATATTGGCATTAGGACCTAGTCAAACT
209175 -TTTTCC
1 ATTTTCC
209181 ACTCTTGTTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
44 1 0.01
45 44 0.53
46 4 0.05
47 34 0.41
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.43
Consensus pattern (45 bp):
ATTTTCCTTCATTTGACTATATTGGCATTAGGACCTAGTCAAACT
Found at i:209163 original size:47 final size:47
Alignment explanation
Indices: 209057--209288 Score: 211
Period size: 47 Copynumber: 5.0 Consensus size: 47
209047 CTTTTGATTA
* * * * *
209057 TATTGGCATTAGGACCTGGTCAAACTATTT-TCCT-TCATTTGACTA
1 TATTGGCATTAGGACCTAGTCAAACTCTTTCTACTCTCGTTTGACTG
* * *
209102 TATTGGCATTAGGACCTAGTCAAACCCTTTCTACTTTTGTTTGACTG
1 TATTGGCATTAGGACCTAGTCAAACTCTTTCTACTCTCGTTTGACTG
* * * * *
209149 TATTGGCATTAGGACCTAGTTAAACTTTTTCCACTCTTGTTTGATTG
1 TATTGGCATTAGGACCTAGTCAAACTCTTTCTACTCTCGTTTGACTG
** * * *
209196 TATTGGCGGTATGACCTAGTCAAAGTCTTT-TCACTCTCGTTTAACTG
1 TATTGGCATTAGGACCTAGTCAAACTCTTTCT-ACTCTCGTTTGACTG
** * * *
209243 TATTGGTGTTAGGACTTGGTCAAACTCTTTCCT-CCCTCGTTTGACT
1 TATTGGCATTAGGACCTAGTCAAACTCTTT-CTACTCTCGTTTGACT
209289 ACATTAGTGT
Statistics
Matches: 151, Mismatches: 31, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
45 27 0.18
46 3 0.02
47 120 0.79
49 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.41
Consensus pattern (47 bp):
TATTGGCATTAGGACCTAGTCAAACTCTTTCTACTCTCGTTTGACTG
Found at i:209285 original size:94 final size:94
Alignment explanation
Indices: 209057--209289 Score: 238
Period size: 94 Copynumber: 2.5 Consensus size: 94
209047 CTTTTGATTA
* * *
209057 TATTGGCATTAGGACCTGGTCAAACTATTT--TCCTTCATTTGACTATATTGGCATTAGGACCTA
1 TATTGGCATTAGGACCTGGTCAAACTATTTCCTCCCTCGTTTGACTATATTGGCAGTAGGACCTA
* * *
209120 GTCAAACCCTTTCTACTTTTGTTTGACTG
66 GTCAAACCCTTTCTACTCTCGTTTAACTG
* * * * * * * * * *
209149 TATTGGCATTAGGACCTAGTTAAACTTTTTCCACTCTTGTTTGATTGTATTGGCGGTATGACCTA
1 TATTGGCATTAGGACCTGGTCAAACTATTTCCTCCCTCGTTTGACTATATTGGCAGTAGGACCTA
**
209214 GTCAAAGTCTTT-TCACTCTCGTTTAACTG
66 GTCAAACCCTTTCT-ACTCTCGTTTAACTG
** * *
209243 TATTGGTGTTAGGACTTGGTCAAACTCTTTCCTCCCTCGTTTGACTA
1 TATTGGCATTAGGACCTGGTCAAACTATTTCCTCCCTCGTTTGACTA
209290 CATTAGTGTT
Statistics
Matches: 109, Mismatches: 29, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
92 27 0.25
93 1 0.01
94 81 0.74
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.41
Consensus pattern (94 bp):
TATTGGCATTAGGACCTGGTCAAACTATTTCCTCCCTCGTTTGACTATATTGGCAGTAGGACCTA
GTCAAACCCTTTCTACTCTCGTTTAACTG
Found at i:209332 original size:47 final size:45
Alignment explanation
Indices: 209214--209373 Score: 122
Period size: 47 Copynumber: 3.4 Consensus size: 45
209204 GTATGACCTA
* * * ** * * *
209214 GTCAAAGTCTTTTCACTCTCGTTTAACTGTATTGGTGTTAGGACTTG
1 GTCAAACTC-TTTCACCCTCGTTTGACTACATTAGCGTTAGG-CCTG
* * *
209261 GTCAAACTCTTTCCTCCCTCGTTTGACTACATTAGTGTTGGGGCCTG
1 GTCAAACTCTTT-CACCCTCGTTTGACTACATTAGCGTT-AGGCCTG
* * * * *
209308 GTCAAACTCTTCTCACCCTTGTTTGATTATATTGGCGTTAGTCCTG
1 GTCAAACTCTT-TCACCCTCGTTTGACTACATTAGCGTTAGGCCTG
209354 GTCAAACTCTTTTCACCCTC
1 GTCAAACTC-TTTCACCCTC
209374 ATTCGATGTG
Statistics
Matches: 91, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
46 24 0.26
47 64 0.70
48 3 0.03
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.39
Consensus pattern (45 bp):
GTCAAACTCTTTCACCCTCGTTTGACTACATTAGCGTTAGGCCTG
Found at i:209789 original size:33 final size:33
Alignment explanation
Indices: 209752--209818 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
209742 TTCAACGATT
209752 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
209785 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
209818 T
1 T
209819 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:209790 original size:13 final size:13
Alignment explanation
Indices: 209772--209796 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
209762 CATAAAATGT
209772 TGTATCGATACAA
1 TGTATCGATACAA
209785 TGTATCGATACA
1 TGTATCGATACA
209797 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:209877 original size:13 final size:13
Alignment explanation
Indices: 209859--209896 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
209849 ATTACTCAAA
209859 TGTATCGATACAT
1 TGTATCGATACAT
209872 TGTATCGATACAT
1 TGTATCGATACAT
209885 TGTATCGATACA
1 TGTATCGATACA
209897 CTGATCTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:209999 original size:52 final size:52
Alignment explanation
Indices: 209905--210032 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
209895 CACTGATCTT
* *
209905 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATT-AAA
209956 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATTAAA
210008 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
210033 TCATATTTCG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATTAAA
Found at i:213302 original size:85 final size:82
Alignment explanation
Indices: 213213--214743 Score: 668
Period size: 85 Copynumber: 18.1 Consensus size: 82
213203 CTGCCGACTC
* * * *
213213 AGTCCCCAGTAAATGCCTTACACCTATGGTGACCTATCCGCTTAGTGC-CGAATCAACCTTTATC
1 AGTCCCTAGTAAA--CCTTACACCTATGGTGACCTGTCAGCTTAGT-CTCG-GTCAACCTTTATC
*
213277 TCATTATTTACCTATCGGCTT
62 TCATTGTTTACCTATCGGCTT
* * ** ** *
213298 AGTCCCTGGTAAACCTTTTACACCTATGATGACCTGTCAGCCCAGTCTTCCATTAACCTTTATCT
1 AGTCCCTAGTAAACC--TTACACCTATGGTGACCTGTCAGCTTAGTC-TCGGTCAACCTTTATCT
* * *
213363 CATTGTTTATCTGTTGGCTT
63 CATTGTTTACCTATCGGCTT
* * * * * * * *
213383 AGTTCCTGGTAAACCTCTTATCCCCT-CGGTGACCTGTCGGCTTAGTCCTTGGTTAATCTTTTAT
1 AGTCCCTAGTAAA-C-CTTA-CACCTATGGTGACCTGTCAGCTTAGT-CTCGGTCAA-CCTTTAT
* * *
213447 CTCATTATTTACCTCTCGGCTC
61 CTCATTGTTTACCTATCGGCTT
* * * * *
213469 AGTCCCTAGTAAACCTCTTACACCTATAGTGACCTTTTAGCTCAGTCTCTGGTCAACCTTCATCT
1 AGTCCCTAGTAAA-C-CTTACACCTATGGTGACCTGTCAGCTTAGTCTC-GGTCAACCTTTATCT
** *
213534 CATTGTTTACCTATCAACTC
63 CATTGTTTACCTATCGGCTT
* * * * *
213554 AGTCGCTAGTAAACTCCATATCGCCTCA-GGTGACCTGTC-GACTTTGTCCTCGGTCAACTTTTC
1 AGTCCCTAGTAAA--CCTTA-CACCT-ATGGTGACCTGTCAG-CTTAGT-CTCGGTCAACCTTT-
*
213617 ATC-CTTTGTTTACCTATCGGCTT
59 ATCTCATTGTTTACCTATCGGCTT
* * * * * *
213640 AGTCCCCACTAAACTCTTTACACTTATGGTGACCTATCAGCTTAGTCTCTTGTCAACCTTCATCT
1 AGTCCCTAGTAAAC-C-TTACACCTATGGTGACCTGTCAGCTTAGTCTC-GGTCAACCTTTATCT
* * *
213705 CATTCTTTACTTATTGGCTT
63 CATTGTTTACCTATCGGCTT
* * * *
213725 AGTCCC-CGCT-AA-CTTACACCTATGGTGACCTGTAAGCTTAGTCTCTGATAAACCTTTATCTC
1 AGTCCCTAG-TAAACCTTACACCTATGGTGACCTGTCAGCTTAGTCTC-GGTCAACCTTTATCTC
*
213787 ATTGTTTACCTGTCGGCTT
64 ATTGTTTACCTATCGGCTT
* * * * * *
213806 AGTCCTTGGTAAACCTCTTACACTTATGGTGACCTGTCAGCTCAATCTTCGGTCAACCTTCATCT
1 AGTCCCTAGTAAA-C-CTTACACCTATGGTGACCTGTCAGCTTAGTC-TCGGTCAACCTTTATCT
* * ** *
213871 CATTGCTTACCTGTCATCTC
63 CATTGTTTACCTATCGGCTT
* * * * * *
213891 AGTCCTTGGTAAACCCCTTATC-CTCT-TGGTGACTTATC-GATTTAGTCCCCGGAT-AATCCTT
1 AGTCCCTAGTAAA--CCTTA-CAC-CTATGGTGACCTGTCAG-CTTAGT-CTCGG-TCAA-CCTT
* * ** *
213952 CATC-CTTTGTTTACCTATCAACTC
58 TATCTCATTGTTTACCTATCGGCTT
* * * * * *
213976 AGT-CCTCGATAAACCCTTTACACCTACGATGACTTGTCAGCTCAGTCTTTGGTCAA-CTTTCAT
1 AGTCCCTAG-TAAA-CC-TTACACCTATGGTGACCTGTCAGCTTAGTC-TCGGTCAACCTTT-AT
*
214039 CTCATTGTTTACCTGA-CGGCTC
61 CTCATTGTTTACCT-ATCGGCTT
* * ** * * * * *
214061 AGT-CCTCGGCAAACCTCTTACATTTATGGTGACCTATTAGCTCAATCTCTGGTCAACCTTCATC
1 AGTCCCT-AGTAAA-C-CTTACACCTATGGTGACCTGTCAGCTTAGTCTC-GGTCAACCTTTATC
* * * * *
214125 -CATTATTTACTTGTCAGCTC
62 TCATTGTTTACCTATCGGCTT
* * * * * * *
214145 AATCCCCAGTAAACCCCTTATCCCCT-TGGTGAGCTATCGGCTTAGTCCCTGGTCAACCTTTCAT
1 AGTCCCTAGTAAA--CCTTA-CACCTATGGTGACCTGTCAGCTTAGTCTC-GGTCAACCTTT-AT
* * * **
214209 TTCATTATTTACCTGTCAACTT
61 CTCATTGTTTACCTATCGGCTT
* * * * * * *
214231 AGTCTCC-AGTAAACCCTTACACTTATGGTGACCTATTAGCTTATTCTCTAGTCAACCTTCATCA
1 AGTC-CCTAGTAAA-CCTTACACCTATGGTGACCTGTCAGCTTAGTCTC-GGTCAACCTTTATCT
* * *
214295 AATTCTTTACCTATCGGCTC
63 CATTGTTTACCTATCGGCTT
* ** ** *
214315 AGTCCCTGGTAAACCCCTTATTCCT-TCGGTGACCTGTTGGCTTACTCCTCGGTCAACCCTTTAT
1 AGTCCCTAGTAAA--CCTTACACCTAT-GGTGACCTGTCAGCTTAGT-CTCGGTCAA-CCTTTAT
* * *
214379 C-CTTTGTTTACTTATCGGCTC
61 CTCATTGTTTACCTATCGGCTT
* * * * *
214400 AGTTTCC-ACTAAACCTTTTACACCTATGGTGA-CTCTCAACTTAGTCTTCGGTCAACCTTCATC
1 AG-TCCCTAGTAAACC--TTACACCTATGGTGACCTGTCAGCTTAGTC-TCGGTCAACCTTTATC
** *
214463 TCATTGTTTACCTATTAGCTG
62 TCATTGTTTACCTATCGGCTT
* * * * * *
214484 AATCCCTAGCAAACCCCTTACACCTATGGTGACTTGTCAGCTCAGTTTTCGGTGAACCTTTATCT
1 AGTCCCTAGTAAA--CCTTACACCTATGGTGACCTGTCAGCTTAG-TCTCGGTCAACCTTTATCT
* *
214549 CATTGTTTACCTATTGGCTC
63 CATTGTTTACCTATCGGCTT
* ** * ** * ** ** * *
214569 A-ACCCCCGATAAACCCCTTATATTTTTTTTGACCTGTTGGCTTAGTCTTCGATCAACCCTTCAT
1 AGTCCCTAG-TAAA--CCTTACACCTATGGTGACCTGTCAGCTTAGTC-TCGGTCAA-CCTTTAT
* *
214633 -TCCTTATTTACCTATCGG-TT
61 CTCATTGTTTACCTATCGGCTT
** * * * *
214653 CAGTCCCTAGTAAACCTTTTACCTTTTTGGTGACTTGTCAGCTTAGTCTCCGATCAACCTTTTTC
1 -AGTCCCTAGTAAACCTTACACC--TATGGTGACCTGTCAGCTTAGTCT-CGGTCAACCTTTATC
* * *
214718 TCATTGTTTACCCATCAGCCT
62 TCATTGTTTACCTATCGGCTT
214739 AGTCC
1 AGTCC
214744 TAGGGTAAAT
Statistics
Matches: 1101, Mismatches: 260, Indels: 170
0.72 0.17 0.11
Matches are distributed among these distances:
81 63 0.06
82 4 0.00
83 26 0.02
84 172 0.16
85 627 0.57
86 199 0.18
87 10 0.01
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (82 bp):
AGTCCCTAGTAAACCTTACACCTATGGTGACCTGTCAGCTTAGTCTCGGTCAACCTTTATCTCAT
TGTTTACCTATCGGCTT
Found at i:213631 original size:171 final size:167
Alignment explanation
Indices: 213271--214066 Score: 600
Period size: 171 Copynumber: 4.7 Consensus size: 167
213261 CGAATCAACC
* * * *
213271 TTTATCTCATTATTTACCTATCGGCTTAGTCCCTGGTAAACCTTTTACACCTATGATGACCTGTC
1 TTTATCTCATTGTTTACCTATCGGCTTAGTCCCTAGTAAACCTCTTACACCTATGGTGACCTGTC
* ** * * * * ** *
213336 AGCCCAGTCTTCCATTAACCTTTATCTCATTGTTTATCTGTTGGCTTAGTTCCTGGTAAAC-CTC
66 AGCTCAGTCTT-GGTCAACCTTCATCTCATTGTTTACCTATCAGCTCAG-TCCTGGTAAACTC-C
* *
213400 TTATCCCCTC-GGTGACCTGTCGGCTTAGTCCTTGGTTAATCT
128 TTAT-CCCTCAGGTGACCTGTCGACTTAGTCCTCGG-TAA-CT
* * * * * *
213442 TTTATCTCATTATTTACCTCTCGGCTCAGTCCCTAGTAAACCTCTTACACCTATAGTGACCTTTT
1 TTTATCTCATTGTTTACCTATCGGCTTAGTCCCTAGTAAACCTCTTACACCTATGGTGACCTGTC
* * *
213507 AGCTCAGTCTCTGGTCAACCTTCATCTCATTGTTTACCTATCAACTCAGTCGCTAGTAAACTCCA
66 AGCTCAGTCT-TGGTCAACCTTCATCTCATTGTTTACCTATCAGCTCAGTC-CTGGTAAACTCCT
*
213572 TATCGCCTCAGGTGACCTGTCGACTTTGTCCTCGGTCAACT
129 TATC-CCTCAGGTGACCTGTCGACTTAGTCCTCGGT-AACT
* * * * *
213613 TTTCATC-CTTTGTTTACCTATCGGCTTAGTCCCCACTAAA-CTCTTTACACTTATGGTGACCTA
1 TTT-ATCTCATTGTTTACCTATCGGCTTAGTCCCTAGTAAACCTC-TTACACCTATGGTGACCTG
* * * * ** * * *
213676 TCAGCTTAGTCTCTTGTCAACCTTCATCTCATTCTTTACTTATTGGCTTAGTCCCCGCT-AA---
64 TCAGCTCAGTCT-TGGTCAACCTTCATCTCATTGTTTACCTATCAGCTCAGT-CCTGGTAAACTC
* * *
213737 CTTA-CACCT-ATGGTGACCTGT-AAGCTTAGT-CTCTGATAAACC
127 CTTATC-CCTCA-GGTGACCTGTCGA-CTTAGTCCTC-GGT-AACT
* * * *
213779 TTTATCTCATTGTTTACCTGTCGGCTTAGTCCTTGGTAAACCTCTTACACTTATGGTGACCTGTC
1 TTTATCTCATTGTTTACCTATCGGCTTAGTCCCTAGTAAACCTCTTACACCTATGGTGACCTGTC
* * * * *
213844 AGCTCAATCTTCGGTCAACCTTCATCTCATTGCTTACCTGTCATCTCAGTCCTTGGTAAACCCCT
66 AGCTCAGTCTT-GGTCAACCTTCATCTCATTGTTTACCTATCAGCTCAGTCC-TGGTAAACTCCT
* * * * * *
213909 TAT-CCTCTTGGTGACTTATCGATTTAGTCCCCGGATAATCC
129 TATCCCTC-AGGTGACCTGTCGACTTAGTCCTCGG-TAA-CT
* * ** * * * * *
213950 TTCATC-CTTTGTTTACCTATCAACTCAGT-CCTCGATAAACC-CTTTACACCTACGATGACTTG
1 TTTATCTCATTGTTTACCTATCGGCTTAGTCCCTAG-TAAACCTC-TTACACCTATGGTGACCTG
* *
214012 TCAGCTCAGTCTTTGGTCAACTTTCATCTCATTGTTTACCTGA-CGGCTCAGTCCT
64 TCAGCTCAGTC-TTGGTCAACCTTCATCTCATTGTTTACCT-ATCAGCTCAGTCCT
214067 CGGCAAACCT
Statistics
Matches: 497, Mismatches: 97, Indels: 64
0.76 0.15 0.10
Matches are distributed among these distances:
165 11 0.02
166 113 0.23
167 8 0.02
169 8 0.02
170 111 0.22
171 216 0.43
172 30 0.06
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (167 bp):
TTTATCTCATTGTTTACCTATCGGCTTAGTCCCTAGTAAACCTCTTACACCTATGGTGACCTGTC
AGCTCAGTCTTGGTCAACCTTCATCTCATTGTTTACCTATCAGCTCAGTCCTGGTAAACTCCTTA
TCCCTCAGGTGACCTGTCGACTTAGTCCTCGGTAACT
Found at i:213819 original size:42 final size:41
Alignment explanation
Indices: 213752--213905 Score: 121
Period size: 42 Copynumber: 3.6 Consensus size: 41
213742 ACCTATGGTG
* * * *
213752 ACCTGTAAGCTTAGTCTCTGATAAACCTTTATCTCATTGTTT
1 ACCTGTCAGCTCAGTCT-TGGTAAACCTTTATCTCATTGCTT
* * * * * *
213794 ACCTGTCGGCTTAGTCCTTGGTAAACCTCTTA-CACTTATGGTG
1 ACCTGTCAGCTCAGT-CTTGGTAAACCT-TTATCTCAT-TGCTT
* * *
213837 ACCTGTCAGCTCAATCTTCGGTCAACCTTCATCTCATTGCTT
1 ACCTGTCAGCTCAGTCTT-GGTAAACCTTTATCTCATTGCTT
*
213879 ACCTGTCATCTCAGTCCTTGGTAAACC
1 ACCTGTCAGCTCAGT-CTTGGTAAACC
213906 CCTTATCCTC
Statistics
Matches: 87, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
42 53 0.61
43 34 0.39
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (41 bp):
ACCTGTCAGCTCAGTCTTGGTAAACCTTTATCTCATTGCTT
Found at i:213869 original size:337 final size:336
Alignment explanation
Indices: 213442--214050 Score: 775
Period size: 337 Copynumber: 1.8 Consensus size: 336
213432 TGGTTAATCT
* *
213442 TTTATCTCATTATTTACCTCTCGGCTCAGTCCCTAGTAAACCTCTTACACCTATAGTGACCTTTT
1 TTTATCTCATTATTTACCTCTCGGCTCAGTCCCTAGTAAACCTCTTACACCTATAGTGACCTGTC
* * *
213507 AGCTCAGTCTCTGGTCAACCTTCATCTCATTGTTTACCTATCAACTCAGTCGC-TAGTAAACTCC
66 AGCTCAATCTCTGGTCAACCTTCATCTCATTGCTTACCTATCAACTCAGTC-CTTAGTAAACCCC
* * *
213571 ATATCGC-CTCAGGTGACCTGTCGACTTT-GTCCTCGG-TCAA-CTTTTCATCCTTTGTTTACCT
130 ATATC-CTCT-AGGTGACCTATCGA-TTTAGTCCCCGGAT-AATC-CTTCATCCTTTGTTTACCT
** * * * * * *
213632 ATCGGCTTAGTCC-CCACTAAACTCTTTACACTTATGGTGACCTATCAGCTTAGTCTCTT-GTCA
190 ATCAACTCAGTCCTCCA-TAAACCCTTTACACCTACGATGACCTATCAGCTCAGTCT-TTGGTCA
213695 ACCTTCATCTCATTCTTTACTTATTGGCTTAGTCCCCGCTAACTTACACCTATGGTGACCTGTAA
253 ACCTTCATCTCATTCTTTACTTATTGGCTTAGTCCCCGCTAACTTACACCTATGGTGACCTGTAA
213760 GCTTAGTCTCTGATAAACC
318 GCTTAGTCTCTGATAAACC
* * * * * * *
213779 TTTATCTCATTGTTTACCTGTCGGCTTAGTCCTTGGTAAACCTCTTACACTTATGGTGACCTGTC
1 TTTATCTCATTATTTACCTCTCGGCTCAGTCCCTAGTAAACCTCTTACACCTATAGTGACCTGTC
* * *
213844 AGCTCAATCT-TCGGTCAACCTTCATCTCATTGCTTACCTGTCATCTCAGTCCTTGGTAAACCCC
66 AGCTCAATCTCT-GGTCAACCTTCATCTCATTGCTTACCTATCAACTCAGTCCTTAGTAAACCCC
* * *
213908 TTATCCTCTTGGTGACTTATCGATTTAGTCCCCGGATAATCCTTCATCCTTTGTTTACCTATCAA
130 ATATCCTCTAGGTGACCTATCGATTTAGTCCCCGGATAATCCTTCATCCTTTGTTTACCTATCAA
* * * *
213973 CTCAGTCCTCGATAAACCCTTTACACCTACGATGACTTGTCAGCTCAGTCTTTGGTCAACTTTCA
195 CTCAGTCCTCCATAAACCCTTTACACCTACGATGACCTATCAGCTCAGTCTTTGGTCAACCTTCA
*
214038 TCTCATTGTTTAC
260 TCTCATTCTTTAC
214051 CTGACGGCTC
Statistics
Matches: 230, Mismatches: 34, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
335 5 0.02
336 105 0.46
337 120 0.52
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (336 bp):
TTTATCTCATTATTTACCTCTCGGCTCAGTCCCTAGTAAACCTCTTACACCTATAGTGACCTGTC
AGCTCAATCTCTGGTCAACCTTCATCTCATTGCTTACCTATCAACTCAGTCCTTAGTAAACCCCA
TATCCTCTAGGTGACCTATCGATTTAGTCCCCGGATAATCCTTCATCCTTTGTTTACCTATCAAC
TCAGTCCTCCATAAACCCTTTACACCTACGATGACCTATCAGCTCAGTCTTTGGTCAACCTTCAT
CTCATTCTTTACTTATTGGCTTAGTCCCCGCTAACTTACACCTATGGTGACCTGTAAGCTTAGTC
TCTGATAAACC
Found at i:214208 original size:170 final size:169
Alignment explanation
Indices: 214025--214503 Score: 411
Period size: 169 Copynumber: 2.8 Consensus size: 169
214015 GCTCAGTCTT
* *
214025 TGGTCAA-CTTTCATCTCATTGTTTACCTGACGGCTCAGTC-CTCGGCAAACCTCTTACATTTAT
1 TGGTCAACCTTTCATCTCATTGTTTACCTGACGGCTCAGTCTC-CAGCAAACC-CTTACACTTAT
* * * *
214088 GGTGACCTATTAGCTCAATCTCTGGTCAACCTTCATC-CATTATTTACTTGTCAGCTCAATCCCC
64 GGTGACCTATTAGCTCAATCTCTAGTCAACCTTCATCAAATTATTTACCTATCAGCTCAATCCCC
* *
214152 AGTAAACCCCTTATCCCCTT-GGTGAGCTATCGGCTTAGTCCC
129 AGTAAACCCCTTAT-CCCTTCGGTGACCTATCGGCTTACT-CC
* * * ** * *
214194 TGGTCAACCTTTCATTTCATTATTTACCTGTCAACTTAGTCTCCAGTAAACCCTTACACTTATGG
1 TGGTCAACCTTTCATCTCATTGTTTACCTGACGGCTCAGTCTCCAGCAAACCCTTACACTTATGG
* * * * * **
214259 TGACCTATTAGCTTATTCTCTAGTCAACCTTCATCAAATTCTTTACCTATCGGCTCAGTCCCTGG
66 TGACCTATTAGCTCAATCTCTAGTCAACCTTCATCAAATTATTTACCTATCAGCTCAATCCCCAG
* * *
214324 TAAACCCCTTATTCCTTCGGTGACCTGTTGGCTTACTCC
131 TAAACCCCTTATCCCTTCGGTGACCTATCGGCTTACTCC
* * * * *
214363 TCGGTCAACCCTTT-ATC-CTTTGTTTA-CTTATCGGCTCAGTTTCCA-CTAAACCTTTTACACC
1 T-GGTCAA-CCTTTCATCTCATTGTTTACCTGA-CGGCTCAGTCTCCAGC-AAACC-CTTACACT
* * * * * * ** * * *
214424 TATGGTGA-CTCTCAACTTAGTCT-TCGGTCAACCTTCATCTCATTGTTTACCTATTAGCTGAAT
61 TATGGTGACCTATTAGCTCAATCTCT-AGTCAACCTTCATCAAATTATTTACCTATCAGCTCAAT
* *
214487 CCCTAGCAAACCCCTTA
125 CCCCAGTAAACCCCTTA
214504 CACCTATGGT
Statistics
Matches: 249, Mismatches: 51, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
168 3 0.01
169 136 0.55
170 104 0.42
171 6 0.02
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.36
Consensus pattern (169 bp):
TGGTCAACCTTTCATCTCATTGTTTACCTGACGGCTCAGTCTCCAGCAAACCCTTACACTTATGG
TGACCTATTAGCTCAATCTCTAGTCAACCTTCATCAAATTATTTACCTATCAGCTCAATCCCCAG
TAAACCCCTTATCCCTTCGGTGACCTATCGGCTTACTCC
Found at i:214514 original size:254 final size:255
Alignment explanation
Indices: 214244--214729 Score: 543
Period size: 254 Copynumber: 1.9 Consensus size: 255
214234 CTCCAGTAAA
* * *
214244 CCCTTACACTTATGGTGACCTATTAGCTTA-TTCTCTAGTCAACCTTCATCAAATTCTTTACCTA
1 CCCTTACACCTATGGTGACCTATCAGCTCAGTTCTC-AGTCAACCTTCATCAAATTCTTTACCTA
** * * *
214308 TCGGCTCAGTCCCTGGTAAACCCCTTAT-TCCTTCGGTGACCTGTTGGCTTACTCCTCGGTCAAC
65 TCGGCTCAACCCCCGATAAACCCCTTATAT-CTTCGGTGACCTGTTGGCTTACTCCTCGATCAAC
* * * *
214372 CCTTTA-TCCTTTGTTTACTTATCGGCTCAGTTTCC-ACTAAACCTTTTACAC-CTATGGTGAC-
129 CCTTCATTCC-TTATTTACCTATCGGCTCAG-TCCCTACTAAACCTTTTAC-CTCTATGGTGACT
* *
214433 TCTCAACTTAGTCTTCGGTCAACCTTCATCTCATTGTTTACCTATTAGCTGAATCCCTAGCAAAC
191 TCTCAACTTAGTCTCCGATCAACCTTCATCTCATTGTTTACCTATTAGCTGAATCCCTAGCAAAC
* * * * * * ** *
214498 CCCTTACACCTATGGTGACTTGTCAGCTCAGTTTTCGGTGAACCTTTATCTCATTGTTTACCTAT
1 CCCTTACACCTATGGTGACCTATCAGCTCAGTTCTCAGTCAACCTTCATCAAATTCTTTACCTAT
* * *** * *
214563 TGGCTCAACCCCCGATAAACCCCTTATATTTTTTTTGACCTGTTGGCTTAGTCTTCGATCAACCC
66 CGGCTCAACCCCCGATAAACCCCTTATATCTTCGGTGACCTGTTGGCTTACTCCTCGATCAACCC
* * * * *
214628 TTCATTCCTTATTTACCTATCGGTTCAGTCCCTAGTAAACCTTTTACCTTTTTGGTGACTTGTCA
131 TTCATTCCTTATTTACCTATCGGCTCAGTCCCTACTAAACCTTTTACCTCTATGGTGACTTCTCA
* **
214693 GCTTAGTCTCCGATCAACCTTTTTCTCATTGTTTACC
196 ACTTAGTCTCCGATCAACCTTCATCTCATTGTTTACC
214730 CATCAGCCTA
Statistics
Matches: 188, Mismatches: 38, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
253 4 0.02
254 140 0.74
255 44 0.23
ACGTcount: A:0.20, C:0.29, G:0.13, T:0.38
Consensus pattern (255 bp):
CCCTTACACCTATGGTGACCTATCAGCTCAGTTCTCAGTCAACCTTCATCAAATTCTTTACCTAT
CGGCTCAACCCCCGATAAACCCCTTATATCTTCGGTGACCTGTTGGCTTACTCCTCGATCAACCC
TTCATTCCTTATTTACCTATCGGCTCAGTCCCTACTAAACCTTTTACCTCTATGGTGACTTCTCA
ACTTAGTCTCCGATCAACCTTCATCTCATTGTTTACCTATTAGCTGAATCCCTAGCAAAC
Found at i:215022 original size:85 final size:83
Alignment explanation
Indices: 214918--215173 Score: 243
Period size: 84 Copynumber: 3.1 Consensus size: 83
214908 GTGCTCGATA
* * * *
214918 AACTCCTTTATCCTGTGTTGGCTTATCGGTTCAATCCCAG-TCAA-CTTTTTACCCTATTTGTTT
1 AACTCCTTTA-CCTTTGTTGGCTTATCAGTTCAA-CCCAGATCAACCTTTTTA-CCT-GTTGCTT
*
214981 ACTTGTCGGCATAGTCCTGGGT
62 ACTTGTAGGCATAGTCCTGGGT
* * * *
215003 AACTCCTTTACCTTTTGTTGGCTTGTCAGTTTAACCCCGATCAACCTTTTTATCTGTTGCTTACT
1 AACTCCTTTACC-TTTGTTGGCTTATCAGTTCAACCCAGATCAACCTTTTTACCTGTTGCTTACT
* *
215068 TGTAGGCTTAGTCTTGGGT
65 TGTAGGCATAGTCCTGGGT
* * * * *
215087 AACTTCTTTACCCTTTGTTGGCTTGTTAGTTTAACCTC-GATCAACCTTTTTATCTGTTGCTTAC
1 AACTCCTTTA-CCTTTGTTGGCTTATCAGTTCAACC-CAGATCAACCTTTTTACCTGTTGCTTAC
* * *
215151 --CTAGGCTTAGTCTTGGGT
64 TTGTAGGCATAGTCCTGGGT
215169 AACTC
1 AACTC
215174 TTTTTATCTT
Statistics
Matches: 151, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
82 21 0.14
84 87 0.58
85 36 0.24
86 7 0.05
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.43
Consensus pattern (83 bp):
AACTCCTTTACCTTTGTTGGCTTATCAGTTCAACCCAGATCAACCTTTTTACCTGTTGCTTACTT
GTAGGCATAGTCCTGGGT
Found at i:215096 original size:84 final size:84
Alignment explanation
Indices: 214979--215189 Score: 309
Period size: 84 Copynumber: 2.5 Consensus size: 84
214969 CCCTATTTGT
* * * *
214979 TTACTTGTCGGCATAGTCCTGGGTAACTCCTTTACCTTTTGTTGGCTTGTCAGTTTAACCCCGAT
1 TTACTTGTAGGCTTAGTCTTGGGTAACTTCTTTACCTTTTGTTGGCTTGTCAGTTTAACCCCGAT
215044 CAACCTTTTTATCTGTTGC
66 CAACCTTTTTATCTGTTGC
* * *
215063 TTACTTGTAGGCTTAGTCTTGGGTAACTTCTTTACCCTTTGTTGGCTTGTTAGTTTAACCTCGAT
1 TTACTTGTAGGCTTAGTCTTGGGTAACTTCTTTACCTTTTGTTGGCTTGTCAGTTTAACCCCGAT
215128 CAACCTTTTTATCTGTTGC
66 CAACCTTTTTATCTGTTGC
* * *
215147 TTAC--CTAGGCTTAGTCTTGGGTAACTCTTTTTATCTTTTGTTG
1 TTACTTGTAGGCTTAGTCTTGGGTAACT-TCTTTACCTTTTGTTG
215190 ACCAAACTGC
Statistics
Matches: 115, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
82 21 0.18
83 13 0.11
84 81 0.70
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.45
Consensus pattern (84 bp):
TTACTTGTAGGCTTAGTCTTGGGTAACTTCTTTACCTTTTGTTGGCTTGTCAGTTTAACCCCGAT
CAACCTTTTTATCTGTTGC
Found at i:217116 original size:16 final size:16
Alignment explanation
Indices: 217079--217125 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
217069 TGAAACTTGG
*
217079 AGAAAAGAAAGAGAGAA
1 AGAAAAGAAAGA-AAAA
217096 A-AAAAGAAAGAAAAA
1 AGAAAAGAAAGAAAAA
*
217111 AGAAAA-AAGGAAAAA
1 AGAAAAGAAAGAAAAA
217126 CTAGCAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 12 0.44
16 14 0.52
17 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AGAAAAGAAAGAAAAA
Found at i:219091 original size:155 final size:151
Alignment explanation
Indices: 218681--219162 Score: 450
Period size: 155 Copynumber: 3.1 Consensus size: 151
218671 CACTCTATCT
* * * * *
218681 CATCTATATATCCTTTTAAAGTCCTTTAGGGGTATC-GAGTACTTTTACATTGAAGGTATCCCCA
1 CATCTATA-AT-CTTTTTAAGTCCTTTAAGGGTATCAG-GTAC-TTTACGTCGAAGGTATCCCTA
* * * * * * * * *
218745 GGGGCATTTTTGTAATTTTTCATAACCTAGTCCTGGGTTGTCACCAGATCCGCTTTTATGCCGAA
62 GGGGCATTTTTATAATTTTTTAAAATCGAGTCCTAGGTTGTCACCAGGTTCGCTTTTATGCTGAA
** * * *
218810 AATGTGTATTTAGGATAGGTACATCC
127 GGTGGGCATTTAGGATAGGTTCAT-C
* * *
218836 CATCTCTAATCTTTTTAAGTCCTTT-AGGGT-T-AGGGATACTTTCACGTCGTAGGTATACCAAT
1 CATCTATAATCTTTTTAAGTCCTTTAAGGGTATCA-GG-TACTTT-ACGTCGAAGGTAT-CC-CT
* * ** * *
218898 AGGGGCATTTTCATAATATCCTAAAATCGAGTCCTAGGTTGTCACCAGGTTTGTTTTTATGCTGA
61 AGGGGCATTTTTATAATTTTTTAAAATCGAGTCCTAGGTTGTCACCAGGTTCGCTTTTATGCTGA
*
218963 AGGTGGGCATTTAGAATAGGTTCATC
126 AGGTGGGCATTTAGGATAGGTTCATC
* *
218989 GCATCTATAATCCTTTTTAAGTCCTTTAAGGGTATCAGGCACTTCTACGTCGAAGATATCCCGTA
1 -CATCTATAAT-CTTTTTAAGTCCTTTAAGGGTATCAGGTACTT-TACGTCGAAGGTATCCC-TA
* * * *** *
219054 AGGGCATTTTTATAATTTTTTAGAATCGAGTCTTAGGTTGTCATGGGGTTCGCTTTTATGCTAAA
62 GGGGCATTTTTATAATTTTTTAAAATCGAGTCCTAGGTTGTCACCAGGTTCGCTTTTATGCTGAA
*
219119 GGTAGGCATTTAGGATAGGTTCACTC
127 GGTGGGCATTTAGGATAGGTTCA-TC
219145 CATCTATAATCTTTTTAA
1 CATCTATAATCTTTTTAA
219163 ACCTTTTATG
Statistics
Matches: 264, Mismatches: 49, Indels: 29
0.77 0.14 0.08
Matches are distributed among these distances:
151 5 0.02
152 18 0.07
153 17 0.06
154 88 0.33
155 109 0.41
156 22 0.08
157 4 0.02
158 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (151 bp):
CATCTATAATCTTTTTAAGTCCTTTAAGGGTATCAGGTACTTTACGTCGAAGGTATCCCTAGGGG
CATTTTTATAATTTTTTAAAATCGAGTCCTAGGTTGTCACCAGGTTCGCTTTTATGCTGAAGGTG
GGCATTTAGGATAGGTTCATC
Found at i:223237 original size:20 final size:20
Alignment explanation
Indices: 223212--223249 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
223202 CTACCCTAAA
*
223212 TGAATTGTATTGATACATGG
1 TGAATTGTATCGATACATGG
223232 TGAATTGTATCGATACAT
1 TGAATTGTATCGATACAT
223250 TAAGCCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (20 bp):
TGAATTGTATCGATACATGG
Found at i:223355 original size:20 final size:19
Alignment explanation
Indices: 223330--223376 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
223320 TTTCAAATGC
*
223330 ATTGTATCAATACAATATGA
1 ATTGTATCAATAC-ATAGGA
*
223350 ATTGTATCGATACATAGGA
1 ATTGTATCAATACATAGGA
223369 ATATGTAT
1 AT-TGTAT
223377 ACACAGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (19 bp):
ATTGTATCAATACATAGGA
Found at i:225356 original size:21 final size:20
Alignment explanation
Indices: 225326--225374 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
225316 GCAAGAAGCT
*
225326 AATAAGAATTAACCAATAAG
1 AATAAGAATTAACCAAGAAG
*
225346 AATAATGAATTAACTAAGAAG
1 AATAA-GAATTAACCAAGAAG
*
225367 AACAAGAA
1 AATAAGAA
225375 CTTCCATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.61, C:0.08, G:0.12, T:0.18
Consensus pattern (20 bp):
AATAAGAATTAACCAAGAAG
Found at i:229433 original size:21 final size:22
Alignment explanation
Indices: 229409--229460 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
229399 TTATTCCAAC
229409 TCAAATTTCATCTT-TTTTGCA
1 TCAAATTTCATCTTGTTTTGCA
* *
229430 TCAAATCTC-T-TTGTTTTTCA
1 TCAAATTTCATCTTGTTTTGCA
229450 TCAAA-TTCATC
1 TCAAATTTCATC
229461 AACAAAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 4 0.16
20 13 0.52
21 8 0.32
ACGTcount: A:0.25, C:0.21, G:0.04, T:0.50
Consensus pattern (22 bp):
TCAAATTTCATCTTGTTTTGCA
Found at i:231170 original size:25 final size:23
Alignment explanation
Indices: 231121--231171 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
231111 AGATAAGTTG
*
231121 AAATGTTTTTCAAGCAATAAATC
1 AAATGTTTTTCAAGAAATAAATC
*
231144 AAATGTTTTTCAAGTAAAATAATTC
1 AAATGTTTTTCAAG--AAATAAATC
231169 AAA
1 AAA
231172 GTATCGATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 14 0.58
25 10 0.42
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (23 bp):
AAATGTTTTTCAAGAAATAAATC
Found at i:231393 original size:20 final size:20
Alignment explanation
Indices: 231368--231406 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
231358 GCTACCCTAA
231368 GTGAATTGTATCAATACATG
1 GTGAATTGTATCAATACATG
*
231388 GTGAATTGTATCGATACAT
1 GTGAATTGTATCAATACAT
231407 TAAGCCCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (20 bp):
GTGAATTGTATCAATACATG
Found at i:231882 original size:35 final size:34
Alignment explanation
Indices: 231835--231900 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 34
231825 GAAGTGAGTG
* * *
231835 AGAGGTTTTATCTTAGTCTTTGTAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTTCG-AAAAGATAGGGA
231870 AGAGGTTCTATCTTAGCCTTCGAAAAGATAG
1 AGAGGTTCTATCTTAGCCTTCGAAAAGATAG
231901 TGTTGTAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 9 0.32
35 19 0.68
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTTCGAAAAGATAGGGA
Found at i:234862 original size:32 final size:32
Alignment explanation
Indices: 234786--234862 Score: 82
Period size: 33 Copynumber: 2.4 Consensus size: 32
234776 TTTTGACTTG
* * * * * *
234786 TTTATAAAGAAACCAATTTGACTTTTACCCTT
1 TTTAAAAAGATACAAATTTGACTATTACACTA
*
234818 TTTCAAAAAGATACAAATTTGACTATTATACTA
1 TTT-AAAAAGATACAAATTTGACTATTACACTA
234851 TTTAAAAAGATA
1 TTTAAAAAGATA
234863 AAGGTTTAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
32 12 0.32
33 25 0.68
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (32 bp):
TTTAAAAAGATACAAATTTGACTATTACACTA
Found at i:234952 original size:32 final size:32
Alignment explanation
Indices: 234864--234998 Score: 110
Period size: 32 Copynumber: 4.2 Consensus size: 32
234854 AAAAAGATAA
* * * *
234864 AGGTTTAACTCTTTAACTTGTTTAGAACAGTAT
1 AGGTTTAACTC-TTAACCTATTTAGAAGAATAT
* * * *
234897 AAGTTCT-ACCCTTAACTTCTTTAGAAGAATAT
1 AGGTT-TAACTCTTAACCTATTTAGAAGAATAT
** * *
234929 AGGTTTAACTCTTGTCTTATTTAGAAGGATAT
1 AGGTTTAACTCTTAACCTATTTAGAAGAATAT
* * *
234961 AGGTTTAACTTTTAACCTATTCAAAAGAATAT
1 AGGTTTAACTCTTAACCTATTTAGAAGAATAT
234993 AGGTTT
1 AGGTTT
234999 GACTTTTTGA
Statistics
Matches: 82, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
31 1 0.01
32 73 0.89
33 7 0.09
34 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.41
Consensus pattern (32 bp):
AGGTTTAACTCTTAACCTATTTAGAAGAATAT
Found at i:235034 original size:33 final size:34
Alignment explanation
Indices: 234996--235157 Score: 88
Period size: 34 Copynumber: 4.9 Consensus size: 34
234986 AGAATATAGG
*
234996 TTTGACTTTTTGAA-TAGTTTGGAAAGATACAAA
1 TTTGACTTTTTGAACTAGTTTAGAAAGATACAAA
* * *
235029 TTTGAC-CTTT-AACTTGTTTAGAAAGATACAAG
1 TTTGACTTTTTGAACTAGTTTAGAAAGATACAAA
* * * *
235061 TTTGATTCTTTTG-ACTTA-TTCAGGAAGATACAAG
1 TTTGACT-TTTTGAAC-TAGTTTAGAAAGATACAAA
* * * *
235095 TTCGA-TTCTTT-AACCTA-CTTAGAAGGATACAAG
1 TTTGACTT-TTTGAA-CTAGTTTAGAAAGATACAAA
* * * *
235128 TTTAACTTTTTTAACTTGTTTAGAAGGATA
1 TTTGACTTTTTGAACTAGTTTAGAAAGATA
235158 AAAGTTCAAT
Statistics
Matches: 100, Mismatches: 18, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
31 2 0.02
32 25 0.25
33 33 0.33
34 39 0.39
35 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (34 bp):
TTTGACTTTTTGAACTAGTTTAGAAAGATACAAA
Found at i:235141 original size:34 final size:34
Alignment explanation
Indices: 235103--235173 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
235093 AGTTCGATTC
* *
235103 TTTAACCTACTTAGAAGGATACAAGTTTAACTTT
1 TTTAACCTACTTAGAAGGATAAAAGTTCAACTTT
* ** *
235137 TTTAACTTGTTTAGAAGGATAAAAGTTCAATTTT
1 TTTAACCTACTTAGAAGGATAAAAGTTCAACTTT
235171 TTT
1 TTT
235174 GGCTTGTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.44
Consensus pattern (34 bp):
TTTAACCTACTTAGAAGGATAAAAGTTCAACTTT
Found at i:235180 original size:34 final size:34
Alignment explanation
Indices: 235113--235186 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
235103 TTTAACCTAC
* *
235113 TTAGAAGGATACAAGTTTAACTTTTTTAACTTGT
1 TTAGAAGGATAAAAGTTCAACTTTTTTAACTTGT
* **
235147 TTAGAAGGATAAAAGTTCAATTTTTTTGGCTTGT
1 TTAGAAGGATAAAAGTTCAACTTTTTTAACTTGT
235181 TTAGAA
1 TTAGAA
235187 AAATGCAAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (34 bp):
TTAGAAGGATAAAAGTTCAACTTTTTTAACTTGT
Found at i:239715 original size:79 final size:78
Alignment explanation
Indices: 239520--239781 Score: 246
Period size: 79 Copynumber: 3.3 Consensus size: 78
239510 TTTCATCTCA
* * * * *
239520 GGGATACTCCAACCTCGGCTTTATTTGT-AAAATATTGATTTCTCACAATCGGGGATACTCCAA-
1 GGGATACTCCAACC-CGACTTTATTT-TCAAAATGTCGATTTTTCACAATCGGGGATACTCTAAC
* *
239583 CCCGTTATTTTGGTG
64 CCCGTTATTTTCGAG
* * *
239598 GGGATACTCTAACCCAGACCTTA-TTTCTAAA-GCATCGATTTTTCACAATCGGGGATACTCTAA
1 GGGATACTCCAACCC-GACTTTATTTTCAAAATG--TCGATTTTTCACAATCGGGGATACTCTAA
239661 CCCCGTTATTTTCGAG
63 CCCCGTTATTTTCGAG
* * ***
239677 GGGATACTCCAATCCCGATTTTATTTTCAAAATGTCGA-TTTTCTATAATTAAGGATACTCTAAC
1 GGGATACTCCAA-CCCGACTTTATTTTCAAAATGTCGATTTTTC-ACAATCGGGGATACTCTAAC
* *
239741 CCTGTCATTTTCGAG
64 CCCGTTATTTTCGAG
* *
239756 GGGATACTTCAACCCCGATTTTATTT
1 GGGATACTCCAA-CCCGACTTTATTT
239782 CTAGAACACC
Statistics
Matches: 153, Mismatches: 22, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
76 1 0.01
77 6 0.04
78 49 0.32
79 86 0.56
80 10 0.07
81 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (78 bp):
GGGATACTCCAACCCGACTTTATTTTCAAAATGTCGATTTTTCACAATCGGGGATACTCTAACCC
CGTTATTTTCGAG
Found at i:239795 original size:79 final size:79
Alignment explanation
Indices: 239650--239804 Score: 213
Period size: 79 Copynumber: 2.0 Consensus size: 79
239640 TCACAATCGG
* * ***
239650 GGATACTCTAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTATTTTCAAAATGTCGA
1 GGATACTCTAACCCCGTCATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCGA
*
239715 TTTTCTATAATTAA
66 TTTTCCATAATTAA
* * *
239729 GGATACTCTAACCCTGTCATTTTCGAGGGGATACTTCAACCCCGATTTTA-TTTCTAGAACACCG
1 GGATACTCTAACCCCGTCATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCG
239793 ATTTTCCATAAT
65 ATTTTCCATAAT
239805 CAGGGCTGGA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
78 4 0.06
79 62 0.94
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (79 bp):
GGATACTCTAACCCCGTCATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCGA
TTTTCCATAATTAA
Found at i:248876 original size:52 final size:52
Alignment explanation
Indices: 248791--248919 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
248781 CGAAATATGA
248791 AAATTTGCCTGCATGTATCGATAAATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATAAATTTCATAGTGTATCGATACATCTAGGC
* * *
248843 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATAAATTTCATAGTGTATCGATACATCTAGGC
*
248895 AAATTTGCCTGCATGTATTGATAAA
1 AAATTTGCCTGCATGTATCGATAAA
248920 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATAAATTTCATAGTGTATCGATACATCTAGGC
Found at i:248930 original size:52 final size:51
Alignment explanation
Indices: 248791--248939 Score: 208
Period size: 52 Copynumber: 2.9 Consensus size: 51
248781 CGAAATATGA
248791 AAATTTGCCTGCATGTATCGATAAATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATAAA-TTCATAGTGTATCGATACATCTAGGC
* * *
248843 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATA-AATTCATAGTGTATCGATACATCTAGGC
* ***
248895 AAATTTGCCTGCATGTATTGATAAAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATAAATTCAT-AGTGTATCGATACA
248940 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 3 0.03
52 83 0.95
53 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATAAATTCATAGTGTATCGATACATCTAGGC
Found at i:248946 original size:13 final size:13
Alignment explanation
Indices: 248928--248952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
248918 AAAAGATCAG
248928 TGTATCGATACAA
1 TGTATCGATACAA
248941 TGTATCGATACA
1 TGTATCGATACA
248953 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Done.