Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 94 of 131
Found at i:16956771 original size:18 final size:17
Alignment explanation
Indices: 16956748--16956814 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
16956738 CTCTGCAAAA
16956748 CTTGAATCTTTTACGAAT
1 CTTGAATCTTTTA-GAAT
* * *
16956766 CTTGAAACCTTTATGCAT
1 CTTGAATCTTTTA-GAAT
*
16956784 CTTGGAATCTTTGAGAAT
1 CTT-GAATCTTTTAGAAT
*
16956802 CTTGAATCATTTA
1 CTTGAATCTTTTA
16956815 TGAACTTTTA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
17 8 0.21
18 23 0.61
19 7 0.18
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.42
Consensus pattern (17 bp):
CTTGAATCTTTTAGAAT
Found at i:16956858 original size:91 final size:90
Alignment explanation
Indices: 16956735--16956902 Score: 207
Period size: 91 Copynumber: 1.9 Consensus size: 90
16956725 GCAAATCTAA
* * * *
16956735 AACCTCTGCAAAACTTGAATCTTTTACGAATCTTGA-AACCTTTATGCATCTTGGAATCTTTGA-
1 AACCTCTGCAAAACTTGAATCTCTTACAAATC-TGAGAACCTTTACGAATCTT-GAATCTTT-AC
*
16956798 GAATCTTGAATCATTTATGAACTTTTAG
63 AAATCTTGAATCATTTATGAACTTTTAG
* *
16956826 AACCTCTGCAAAACTTGGAAT-TCTTGCAAATCTGAGAACCTTTGCGAATCTTGAATCTTTACAA
1 AACCTCTGCAAAACTT-GAATCTCTTACAAATCTGAGAACCTTTACGAATCTTGAATCTTTACAA
*
16956890 ATTTTGAATCATT
65 ATCTTGAATCATT
16956903 ACAATTTTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
89 1 0.02
90 24 0.36
91 37 0.56
92 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (90 bp):
AACCTCTGCAAAACTTGAATCTCTTACAAATCTGAGAACCTTTACGAATCTTGAATCTTTACAAA
TCTTGAATCATTTATGAACTTTTAG
Found at i:16956911 original size:17 final size:17
Alignment explanation
Indices: 16956876--16956910 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16956866 TTTGCGAATC
*
16956876 TTGAATCTTTACAAATT
1 TTGAATCATTACAAATT
16956893 TTGAATCATTAC-AATT
1 TTGAATCATTACAAATT
16956909 TT
1 TT
16956911 TTTTGTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (17 bp):
TTGAATCATTACAAATT
Found at i:16957371 original size:14 final size:15
Alignment explanation
Indices: 16957338--16957384 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
16957328 ACAAGAAATT
16957338 TTTAATTTTAATTTGA
1 TTTAATTTT-ATTTGA
*
16957354 TTTAATTTT-TTTGG
1 TTTAATTTTATTTGA
*
16957368 TTTAATTTTACTTGA
1 TTTAATTTTATTTGA
16957383 TT
1 TT
16957385 AAAAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 13 0.48
15 5 0.19
16 9 0.33
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (15 bp):
TTTAATTTTATTTGA
Found at i:16958404 original size:5 final size:5
Alignment explanation
Indices: 16958394--16958452 Score: 59
Period size: 5 Copynumber: 11.8 Consensus size: 5
16958384 TCTTTTCATT
* * *
16958394 TTTTA TTTTA TTTTA TTTT- TTTTCA TTTT- TTTTG TTTTA CTTTA TTTATG
1 TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTT-TA
16958444 TTTTA TTTT
1 TTTTA TTTT
16958453 GTTTACTTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
4 8 0.18
5 29 0.64
6 8 0.18
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:16958407 original size:10 final size:9
Alignment explanation
Indices: 16958392--16958457 Score: 60
Period size: 10 Copynumber: 6.8 Consensus size: 9
16958382 CTTCTTTTCA
16958392 TTTTTTATT
1 TTTTTTATT
16958401 TTATTTTATT
1 TT-TTTTATT
16958411 TTTTTTCATT
1 TTTTTT-ATT
*
16958421 TTTTTTGTT
1 TTTTTTATT
*
16958430 TTACTTTATT
1 TT-TTTTATT
16958440 TATGTTTTATT
1 T-T-TTTTATT
*
16958451 TTGTTTA
1 TTTTTTA
16958458 CTTGTTATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
9 14 0.30
10 25 0.53
11 8 0.17
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.79
Consensus pattern (9 bp):
TTTTTTATT
Found at i:16958457 original size:16 final size:15
Alignment explanation
Indices: 16958394--16958452 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
16958384 TCTTTTCATT
*
16958394 TTTTATTTTATTTTA
1 TTTTGTTTTATTTTA
16958409 TTTT-TTTTCATTTT-
1 TTTTGTTTT-ATTTTA
*
16958423 TTTTGTTTTACTTTA
1 TTTTGTTTTATTTTA
16958438 TTTATGTTTTATTTT
1 TTT-TGTTTTATTTT
16958453 GTTTACTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
14 12 0.32
15 16 0.42
16 10 0.26
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTGTTTTATTTTA
Found at i:16958620 original size:23 final size:23
Alignment explanation
Indices: 16958588--16958656 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
16958578 TAGTTTATAT
* *
16958588 TTATTGCATGATTTATTATATTA
1 TTATTACATGATATATTATATTA
16958611 TTATTACATGATATATTATATTA
1 TTATTACATGATATATTATATTA
* *
16958634 TTACTACATGACATATTATATTA
1 TTATTACATGATATATTATATTA
16958657 CTCAATTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (23 bp):
TTATTACATGATATATTATATTA
Found at i:16958622 original size:44 final size:41
Alignment explanation
Indices: 16958540--16958632 Score: 100
Period size: 44 Copynumber: 2.2 Consensus size: 41
16958530 TGTTTTTGTT
**
16958540 TATT-TATTTTTGCATGGTTATTAATTATTATCGTATGATA
1 TATTATATTTTTGCATGGTTATTAATTATTATCACATGATA
* *
16958580 GT-TTATATTTATTGCATGATTTATTATATTATTATTACATGATA
1 -TATTATATTT-TTGCATG-GTTATTA-ATTATTATCACATGATA
16958624 TATTATATT
1 TATTATATT
16958633 ATTACTACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
40 2 0.05
41 6 0.14
42 7 0.16
43 7 0.16
44 21 0.49
ACGTcount: A:0.30, C:0.04, G:0.10, T:0.56
Consensus pattern (41 bp):
TATTATATTTTTGCATGGTTATTAATTATTATCACATGATA
Found at i:16959022 original size:17 final size:17
Alignment explanation
Indices: 16958995--16959027 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16958985 CAACATATTG
16958995 AAATATATTTTTGAAAAT
1 AAATATATTTTT-AAAAT
16959013 AAAT-TATTTTTAAAA
1 AAATATATTTTTAAAA
16959028 GAATCTAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
AAATATATTTTTAAAAT
Found at i:16961466 original size:27 final size:30
Alignment explanation
Indices: 16961405--16961476 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
16961395 CTTTAGCATA
* *
16961405 CAACATGCTTGCACTATGCTATCATAATTT
1 CAACATGCTTGTACTATGCCATCATAATTT
*
16961435 CAACATGCTTGTACTATGCCAT-AT-CTTT
1 CAACATGCTTGTACTATGCCATCATAATTT
16961463 -AACATGCTTGTACT
1 CAACATGCTTGTACT
16961477 GTGTTATGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 14 0.36
28 3 0.08
29 2 0.05
30 20 0.51
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.38
Consensus pattern (30 bp):
CAACATGCTTGTACTATGCCATCATAATTT
Found at i:16961550 original size:28 final size:28
Alignment explanation
Indices: 16961518--16961572 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
16961508 AGAATGTATC
* * * *
16961518 TTGCTGTGGTTTAGTTGGATGTACCACT
1 TTGCTATGATTTAGTTAGACGTACCACT
16961546 TTGCTATGATTTAGTTAGACGTACCAC
1 TTGCTATGATTTAGTTAGACGTACCAC
16961573 CTTGTGGTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (28 bp):
TTGCTATGATTTAGTTAGACGTACCACT
Found at i:16962033 original size:24 final size:22
Alignment explanation
Indices: 16961999--16962042 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
16961989 ATGCATGTTG
*
16961999 CAAAAAAATAAACAAAGAAAACA
1 CAAAAAAATAAA-AAAAAAAACA
16962022 CAAAAAACATAAAAAAAAAAA
1 CAAAAAA-ATAAAAAAAAAAA
16962043 TTAGTATGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.82, C:0.11, G:0.02, T:0.05
Consensus pattern (22 bp):
CAAAAAAATAAAAAAAAAAACA
Found at i:16966321 original size:30 final size:30
Alignment explanation
Indices: 16966280--16966356 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
16966270 TTCCTTTTTC
*
16966280 TTTTTTT-TTTTATTTGATTTGAT-TTTTGT
1 TTTTTTTCTTTTATTTGATTT-ATGTTTTAT
*
16966309 TTTTTTTCTTTTATTTTATTTATGTTTTAT
1 TTTTTTTCTTTTATTTGATTTATGTTTTAT
16966339 TTCTTTTTGCTTATTATT
1 TT-TTTTT-CTT-TTATT
16966357 CTAATTGAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 9 0.22
30 19 0.46
31 5 0.12
32 3 0.07
33 5 0.12
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.78
Consensus pattern (30 bp):
TTTTTTTCTTTTATTTGATTTATGTTTTAT
Found at i:16966324 original size:25 final size:25
Alignment explanation
Indices: 16966283--16966345 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
16966273 CTTTTTCTTT
* * *
16966283 TTTTTTTTATTTGATTTGATTTTTG
1 TTTTTTTTCTTTTATTTGATTTATG
*
16966308 TTTTTTTTCTTTTATTTTATTTATG
1 TTTTTTTTCTTTTATTTGATTTATG
*
16966333 TTTTATTTCTTTT
1 TTTTTTTTCTTTT
16966346 TGCTTATTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.11, C:0.03, G:0.06, T:0.79
Consensus pattern (25 bp):
TTTTTTTTCTTTTATTTGATTTATG
Found at i:16966352 original size:25 final size:25
Alignment explanation
Indices: 16966301--16966353 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
16966291 ATTTGATTTG
* * *
16966301 ATTTTTGTTTTTTTTCTTTTATTTT
1 ATTTATGTTTTATTTCTTTTATCTT
16966326 ATTTATGTTTTATTTCTTTT-TGCTT
1 ATTTATGTTTTATTTCTTTTAT-CTT
16966351 ATT
1 ATT
16966354 ATTCTAATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.77
Consensus pattern (25 bp):
ATTTATGTTTTATTTCTTTTATCTT
Found at i:16966451 original size:21 final size:21
Alignment explanation
Indices: 16966425--16966489 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
16966415 ATGATGTTTT
*
16966425 TTATTATTTATTTTTGCAT-A
1 TTATTATTTATTATTGCATGA
* *
16966445 GTTATTAATTATTGTTGCATGA
1 -TTATTATTTATTATTGCATGA
16966467 TATATTATATTATTATTGCATGA
1 T-TATTAT-TTATTATTGCATGA
16966490 CATATTATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 18 0.49
22 6 0.16
23 13 0.35
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (21 bp):
TTATTATTTATTATTGCATGA
Found at i:16966485 original size:23 final size:23
Alignment explanation
Indices: 16966426--16966501 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
16966416 TGATGTTTTT
*
16966426 TATTAT-TTATTTTTGCAT-AGT-
1 TATTATATTATTATTGCATGA-TA
*
16966447 TATTA-ATTATTGTTGCATGATA
1 TATTATATTATTATTGCATGATA
*
16966469 TATTATATTATTATTGCATGACA
1 TATTATATTATTATTGCATGATA
16966492 TATTATATTA
1 TATTATATTA
16966502 CTTAATGATA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
21 17 0.35
22 6 0.12
23 25 0.52
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (23 bp):
TATTATATTATTATTGCATGATA
Found at i:16966639 original size:13 final size:14
Alignment explanation
Indices: 16966614--16966646 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
16966604 GGATTTAACG
16966614 AATTTTTTAAAAAA
1 AATTTTTTAAAAAA
*
16966628 TATTTTTT-AAAAA
1 AATTTTTTAAAAAA
16966641 AATTTT
1 AATTTT
16966647 ACCAACAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AATTTTTTAAAAAA
Found at i:16966640 original size:15 final size:14
Alignment explanation
Indices: 16966615--16966646 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
16966605 GATTTAACGA
16966615 ATTTTTTAAAAAAT
1 ATTTTTTAAAAAAT
16966629 ATTTTTTAAAAAA-
1 ATTTTTTAAAAAAT
16966642 ATTTT
1 ATTTT
16966647 ACCAACAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTTTTAAAAAAT
Found at i:16970977 original size:7 final size:7
Alignment explanation
Indices: 16970950--16971014 Score: 53
Period size: 7 Copynumber: 8.9 Consensus size: 7
16970940 AAATTTTCTT
16970950 GAAAAAA
1 GAAAAAA
*
16970957 GATGAAAAG
1 GA--AAAAA
16970966 GAAAAAA
1 GAAAAAA
*
16970973 CAAAAAA
1 GAAAAAA
16970980 -AGAAAAA
1 GA-AAAAA
16970987 GAAAAAA
1 GAAAAAA
16970994 GAAAAAA
1 GAAAAAA
16971001 -ATAAGAAA
1 GA-AA-AAA
16971009 GAAAAA
1 GAAAAA
16971015 GTAAGAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
6 2 0.04
7 33 0.69
8 6 0.12
9 7 0.15
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.03
Consensus pattern (7 bp):
GAAAAAA
Found at i:16970977 original size:21 final size:21
Alignment explanation
Indices: 16970951--16971030 Score: 79
Period size: 21 Copynumber: 3.6 Consensus size: 21
16970941 AATTTTCTTG
*
16970951 AAAAAAGATGAAAAGGAAAAAAC
1 AAAAAA-A-GAAAAAGAAAAAAC
*
16970974 AAAAAAAGAAAAAGAAAAAAG
1 AAAAAAAGAAAAAGAAAAAAC
* **
16970995 AAAAAAATAAGAAAGAAAAAGT
1 AAAAAAAGAA-AAAGAAAAAAC
16971017 AAGAAAAAGAAAAA
1 AA-AAAAAGAAAAA
16971031 AAATTGATGG
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
21 21 0.43
22 15 0.31
23 13 0.27
ACGTcount: A:0.80, C:0.01, G:0.15, T:0.04
Consensus pattern (21 bp):
AAAAAAAGAAAAAGAAAAAAC
Found at i:16970985 original size:6 final size:6
Alignment explanation
Indices: 16970976--16971030 Score: 51
Period size: 6 Copynumber: 8.8 Consensus size: 6
16970966 GAAAAAACAA
*
16970976 AAAAAG AAAAAG AAAAAAG AAAAA- AATAAG AAAGAA- AAAGTAAG AAAAAG
1 AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG AAA-AAG AAA--AAG AAAAAG
16971026 AAAAA
1 AAAAA
16971031 AAATTGATGG
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
5 4 0.10
6 24 0.59
7 10 0.24
8 3 0.07
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:16971000 original size:22 final size:22
Alignment explanation
Indices: 16970950--16971030 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 22
16970940 AAATTTTCTT
* *
16970950 GAAAAAAGATGAAAAGGAAAAAA
1 GAAAAAA-AAGAAAAAGAAAAAA
*
16970973 -CAAAAAAAGAAAAAGAAAAAA
1 GAAAAAAAAGAAAAAGAAAAAA
*
16970994 GAAAAAAATA-AGAAAG-AAAAA
1 GAAAAAAA-AGAAAAAGAAAAAA
*
16971015 GTAAGAAAAAGAAAAA
1 G-AAAAAAAAGAAAAA
16971031 AAATTGATGG
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
21 20 0.43
22 26 0.55
23 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.04
Consensus pattern (22 bp):
GAAAAAAAAGAAAAAGAAAAAA
Found at i:16971019 original size:14 final size:14
Alignment explanation
Indices: 16970978--16971022 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
16970968 AAAAACAAAA
*
16970978 AAAGAAAAAG-AAA
1 AAAGAAAAAGTAAG
*
16970991 AAAGAAAAAAATAAG
1 AAAG-AAAAAGTAAG
16971006 AAAGAAAAAGTAAG
1 AAAGAAAAAGTAAG
16971020 AAA
1 AAA
16971023 AAGAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 4 0.15
14 17 0.63
15 6 0.22
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (14 bp):
AAAGAAAAAGTAAG
Found at i:16972393 original size:22 final size:22
Alignment explanation
Indices: 16972368--16972438 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
16972358 TTTTGAATGA
*
16972368 GAATCTTTGAAATTTTTTATGT
1 GAATCTTTAAAATTTTTTATGT
* * *
16972390 GAATCATCAAAATTTTTCAAATGT
1 GAATCTTTAAAATTTTT--TATGT
*
16972414 GAATCTTTAAAATTTTGTATGT
1 GAATCTTTAAAATTTTTTATGT
16972436 GAA
1 GAA
16972439 ACCCAAAAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
22 21 0.54
24 18 0.46
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (22 bp):
GAATCTTTAAAATTTTTTATGT
Found at i:16972464 original size:46 final size:46
Alignment explanation
Indices: 16972356--16972476 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 46
16972346 TTTAAATGAG
* * *
16972356 CTTTTTGAATGAGAATCTTTGAAATTTTTTATGTGAATCATCAAAA
1 CTTTTTGAATGAGAATCTTTGAAATTTTGTATGTGAAACACCAAAA
* * *
16972402 -TTTTTCAAATGTGAATCTTTAAAATTTTGTATGTGAAAC-CCAAAAA
1 CTTTTT-GAATGAGAATCTTTGAAATTTTGTATGTGAAACACC-AAAA
*
16972448 CTTTTTGGATGAGAATCTTTGAAATTTTG
1 CTTTTTGAATGAGAATCTTTGAAATTTTG
16972477 GTTATGAAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
45 6 0.10
46 51 0.82
47 5 0.08
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (46 bp):
CTTTTTGAATGAGAATCTTTGAAATTTTGTATGTGAAACACCAAAA
Found at i:16972499 original size:46 final size:45
Alignment explanation
Indices: 16972357--16972521 Score: 136
Period size: 46 Copynumber: 3.6 Consensus size: 45
16972347 TTAAATGAGC
* *
16972357 TTTTTGAATGAGAATCTTTGAAATTTT-TTATGTGAATCATCAAAAT
1 TTTTTGAATGAGAATCTTTGAAATTTTGTTATG-AAAT-ATAAAAAT
** * * * *** *
16972403 TTTTCAAATGTGAATCTTTAAAATTTTGTATGTGAAACCCAAAAAC
1 TTTTTGAATGAGAATCTTTGAAATTTTGT-TATGAAATATAAAAAT
* *
16972449 TTTTTGGATGAGAATCTTTGAAATTTTGGTTATGAAATATTAAAAT
1 TTTTTGAATGAGAATCTTTGAAATTTT-GTTATGAAATATAAAAAT
* **
16972495 TTTTTGTACAAGAATCTTTG-AATTTTG
1 TTTTTGAATGAGAATCTTTGAAATTTTG
16972522 GCTGTGAACC
Statistics
Matches: 91, Mismatches: 25, Indels: 8
0.73 0.20 0.06
Matches are distributed among these distances:
44 1 0.01
45 6 0.07
46 76 0.84
47 5 0.05
48 3 0.03
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (45 bp):
TTTTTGAATGAGAATCTTTGAAATTTTGTTATGAAATATAAAAAT
Found at i:16972782 original size:33 final size:33
Alignment explanation
Indices: 16972752--16972825 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
16972742 AGTTCTTGTG
* * *
16972752 AATATGAATTTTTGCAAATCTTTTATTCTTGCA
1 AATATGAATTCTTACAAATCTTCTATTCTTGCA
*
16972785 AATCTGAATTCTTACAAATCTTCTATTCTTGCA
1 AATATGAATTCTTACAAATCTTCTATTCTTGCA
*
16972818 AATTTGAA
1 AATATGAA
16972826 AAGTCTTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.45
Consensus pattern (33 bp):
AATATGAATTCTTACAAATCTTCTATTCTTGCA
Found at i:16972785 original size:17 final size:17
Alignment explanation
Indices: 16972763--16972820 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 17
16972753 ATATGAATTT
*
16972763 TTGCAAATCTTTTATTC
1 TTGCAAATCTTCTATTC
**
16972780 TTGCAAATC-TGAATTC
1 TTGCAAATCTTCTATTC
*
16972796 TTACAAATCTTCTATTC
1 TTGCAAATCTTCTATTC
16972813 TTGCAAAT
1 TTGCAAAT
16972821 TTGAAAAGTC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 13 0.38
17 21 0.62
ACGTcount: A:0.29, C:0.19, G:0.07, T:0.45
Consensus pattern (17 bp):
TTGCAAATCTTCTATTC
Found at i:16972797 original size:16 final size:17
Alignment explanation
Indices: 16972756--16972825 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 17
16972746 CTTGTGAATA
*
16972756 TGAATTTTTGCAAATCT
1 TGAATTCTTGCAAATCT
**
16972773 TTTATTCTTGCAAATC-
1 TGAATTCTTGCAAATCT
*
16972789 TGAATTCTTACAAATCT
1 TGAATTCTTGCAAATCT
**
16972806 TCTATTCTTGCAAAT-T
1 TGAATTCTTGCAAATCT
16972822 TGAA
1 TGAA
16972826 AAGTCTTTGC
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
16 16 0.39
17 25 0.61
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.46
Consensus pattern (17 bp):
TGAATTCTTGCAAATCT
Found at i:16972911 original size:35 final size:36
Alignment explanation
Indices: 16972872--16972939 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
16972862 AACCTCTGTG
16972872 AAACTTGGAAT-TTTTACGAATC-TGAAACCTTTGCA
1 AAACTT-GAATCTTTTACGAATCTTGAAACCTTTGCA
**
16972907 AAACTTGAATCTTTTGTGAATCTTGAAACCTTT
1 AAACTTGAATCTTTTACGAATCTTGAAACCTTT
16972940 ATGCATCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 4 0.14
35 15 0.52
36 10 0.34
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (36 bp):
AAACTTGAATCTTTTACGAATCTTGAAACCTTTGCA
Found at i:16972931 original size:18 final size:18
Alignment explanation
Indices: 16972910--16972971 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
16972900 CTTTGCAAAA
16972910 CTTGAATCTTTTGTGAAT
1 CTTGAATCTTTTGTGAAT
* * * *
16972928 CTTGAAACCTTTATGCAT
1 CTTGAATCTTTTGTGAAT
*
16972946 CTTAGAAT-TTTTGAGAAT
1 CTT-GAATCTTTTGTGAAT
16972964 CTTGAATC
1 CTTGAATC
16972972 GTTTATGAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
17 4 0.12
18 26 0.79
19 3 0.09
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (18 bp):
CTTGAATCTTTTGTGAAT
Found at i:16974777 original size:23 final size:23
Alignment explanation
Indices: 16974690--16974786 Score: 80
Period size: 21 Copynumber: 4.4 Consensus size: 23
16974680 TTTGCATGGT
* *
16974690 TATTA-ATTATTATTGTATGATA
1 TATTATATTATTATTGCATAATA
* * *
16974712 TTTTATCTTA--ATTGTATAATA
1 TATTATATTATTATTGCATAATA
* *
16974733 GT-TTATA-T-TTATTTCATGATA
1 -TATTATATTATTATTGCATAATA
16974754 TATTATATTATTATTGCATAATA
1 TATTATATTATTATTGCATAATA
16974777 TATTATATTA
1 TATTATATTA
16974787 CTACTACATG
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
20 2 0.03
21 27 0.46
22 6 0.10
23 24 0.41
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (23 bp):
TATTATATTATTATTGCATAATA
Found at i:16983039 original size:18 final size:19
Alignment explanation
Indices: 16982997--16983039 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
16982987 ATGCATGATC
*
16982997 AGTTTTAGGGTTTAAAGGTT
1 AGTTTTAGGGTTT-AAGGCT
*
16983017 AGTTTTGGGGTTT-AGGCT
1 AGTTTTAGGGTTTAAGGCT
16983035 AGTTT
1 AGTTT
16983040 GGGATGTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.43
20 12 0.57
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.47
Consensus pattern (19 bp):
AGTTTTAGGGTTTAAGGCT
Found at i:16985219 original size:20 final size:20
Alignment explanation
Indices: 16985196--16985234 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16985186 TTTTGGTCGA
* *
16985196 GTTTGACCAATTTTGACTTC
1 GTTTAACCAATTTTAACTTC
*
16985216 GTTTAACTAATTTTAACTT
1 GTTTAACCAATTTTAACTT
16985235 TTTTATTCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (20 bp):
GTTTAACCAATTTTAACTTC
Found at i:16991995 original size:48 final size:47
Alignment explanation
Indices: 16991939--16992070 Score: 140
Period size: 48 Copynumber: 2.7 Consensus size: 47
16991929 TTTAAGGTTT
* * *
16991939 GGGTTGGTTCGGGGTTTAGGTTAGAGTTTAGGGTTCAATTTAGGGCTTA
1 GGGTTGGTT-GGGGTATAGGTTTGGGTTTAGGGTT-AATTTAGGGCTTA
* ** **
16991988 -GGTTGGTTTGGGGTCTAGGTTTGGGTTTATGGGTTGGTTTAGGTTTTA
1 GGGTTGG-TTGGGGTATAGGTTTGGGTTTA-GGGTTAATTTAGGGCTTA
16992036 GGGTTGGCTTGGGGTATAGGTTTGGGTTTAGGGTT
1 GGGTTGG-TTGGGGTATAGGTTTGGGTTTAGGGTT
16992071 TAAGGTTTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
48 37 0.52
49 34 0.48
ACGTcount: A:0.11, C:0.04, G:0.42, T:0.42
Consensus pattern (47 bp):
GGGTTGGTTGGGGTATAGGTTTGGGTTTAGGGTTAATTTAGGGCTTA
Found at i:16992026 original size:18 final size:18
Alignment explanation
Indices: 16992005--16992071 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
16991995 TTGGGGTCTA
16992005 GGTTTGGG-TTTATGGGTT
1 GGTTTGGGTTTTA-GGGTT
*
16992023 GGTTTAGGTTTTAGGGTT
1 GGTTTGGGTTTTAGGGTT
* * * *
16992041 GGCTTGGGGTATAGGTTT
1 GGTTTGGGTTTTAGGGTT
16992059 GGGTTTAGGGTTT
1 -GGTTT-GGGTTT
16992072 AAGGTTTAAG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
18 25 0.68
19 8 0.22
20 4 0.11
ACGTcount: A:0.09, C:0.01, G:0.43, T:0.46
Consensus pattern (18 bp):
GGTTTGGGTTTTAGGGTT
Found at i:17014209 original size:23 final size:22
Alignment explanation
Indices: 17014170--17014226 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
17014160 TTATTTTTGT
17014170 TTATTTGAAAAGATTTTTATTA
1 TTATTTGAAAAGATTTTTATTA
* * * *
17014192 TTATTATGGAAAGGTTTTTTTTG
1 TTATT-TGAAAAGATTTTTATTA
17014215 TTATTTTGAAAA
1 TTA-TTTGAAAA
17014227 CTCTATTTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 5 0.18
23 21 0.75
24 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (22 bp):
TTATTTGAAAAGATTTTTATTA
Found at i:17014337 original size:16 final size:16
Alignment explanation
Indices: 17014292--17014364 Score: 71
Period size: 16 Copynumber: 4.6 Consensus size: 16
17014282 AAACAGGTAG
17014292 AATAAATTATAAAATAA
1 AATAAATTA-AAAATAA
* *
17014309 AAGAAATTGAAAATAA
1 AATAAATTAAAAATAA
*
17014325 AATAAGTTAAAAATATAA
1 AATAAATT-AAAA-ATAA
17014343 AATAAA-T-AAAATAA
1 AATAAATTAAAAATAA
17014357 AA-AAATTA
1 AATAAATTA
17014365 GGAGAAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
13 3 0.07
14 7 0.15
15 3 0.07
16 13 0.28
17 11 0.24
18 9 0.20
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (16 bp):
AATAAATTAAAAATAA
Found at i:17014983 original size:50 final size:52
Alignment explanation
Indices: 17014929--17015040 Score: 122
Period size: 50 Copynumber: 2.2 Consensus size: 52
17014919 TTTCAATGAG
*
17014929 AATTGATTCTAAAATCAAATCCCA-AAATCTCTCC-CTATCA-ATTTAATGTA
1 AATTGATTCTAAAATCAAATCCCAGAAATCTCTCCAC-ATCATATTTAATGCA
* * * * * * *
17014979 AATTGATTATGAAATTAAATCCTAGCAATCTCTCCACATCATTTTTAATGCC
1 AATTGATTCTAAAATCAAATCCCAGAAATCTCTCCACATCATATTTAATGCA
17015031 AATTGATTCT
1 AATTGATTCT
17015041 GGAATTAACT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
50 20 0.40
51 13 0.26
52 17 0.34
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.37
Consensus pattern (52 bp):
AATTGATTCTAAAATCAAATCCCAGAAATCTCTCCACATCATATTTAATGCA
Found at i:17015429 original size:120 final size:120
Alignment explanation
Indices: 17015283--17015514 Score: 295
Period size: 120 Copynumber: 1.9 Consensus size: 120
17015273 GATTGGGATG
** * * *** ** *
17015283 AAACCACAAGTCATATTAAATGATCTGTATTGAGTTGAGATCAGGTGACTGGGACAAAA-TCACG
1 AAACCACAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAGGTGACCAGGACAAAACT-AAG
*
17015347 AGTCAAAGATGAAGTGACCAGGACTAAGTCGAGGTCAAAAACAAATGACCGAGACA
65 AGTCAAAGATGAAGAGACCAGGACTAAGTCGAGGTCAAAAACAAATGACCGAGACA
* * **
17015403 AAACCATAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCATGTGACCAGGATGAAACTAAGA
1 AAACCACAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAGGTGACCAGGACAAAACTAAGA
* *
17015468 GTCAAAGATGAAGAGACCAGGACTGAGTCGAGGTCAAAAATAAATGA
66 GTCAAAGATGAAGAGACCAGGACTAAGTCGAGGTCAAAAACAAATGA
17015515 TCAGGATAAA
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
120 93 0.99
121 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (120 bp):
AAACCACAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAGGTGACCAGGACAAAACTAAGA
GTCAAAGATGAAGAGACCAGGACTAAGTCGAGGTCAAAAACAAATGACCGAGACA
Found at i:17015572 original size:120 final size:120
Alignment explanation
Indices: 17015346--17015563 Score: 303
Period size: 120 Copynumber: 1.8 Consensus size: 120
17015336 ACAAAATCAC
* *
17015346 GAGTCAAAGATGAAGTGACCAGGACTAAGTCGAGGTCAAAAACAAATGACCGAGACAAAACCATA
1 GAGTCAAAGATGAAGAGACCAGGACTAAGTCGAGGTCAAAAACAAATGACAGAGACAAAACCATA
* * *
17015411 AGTCATAAGAAATGATCTGGACTGAGCCAAGATCATGTGACCAGGATGAAACTAA
66 AGTCATAAGAAATCATCTAGACTAAGCCAAGATCATGTGACCAGGATGAAACTAA
* * * *
17015466 GAGTCAAAGATGAAGAGACCAGGACTGAGTCGAGGTCAAAAATAAATGATCAG-GATAAAATCAT
1 GAGTCAAAGATGAAGAGACCAGGACTAAGTCGAGGTCAAAAACAAATGA-CAGAGACAAAACCAT
* * * *
17015530 GAGTCTTAAGAAATCATTTAGACTAAGCTAAGAT
65 AAGTCATAAGAAATCATCTAGACTAAGCCAAGAT
17015564 TGAGTGACCG
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
120 82 0.98
121 2 0.02
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (120 bp):
GAGTCAAAGATGAAGAGACCAGGACTAAGTCGAGGTCAAAAACAAATGACAGAGACAAAACCATA
AGTCATAAGAAATCATCTAGACTAAGCCAAGATCATGTGACCAGGATGAAACTAA
Found at i:17015600 original size:120 final size:120
Alignment explanation
Indices: 17015320--17015593 Score: 293
Period size: 120 Copynumber: 2.3 Consensus size: 120
17015310 TATTGAGTTG
* ** * *
17015320 AGATCAGGTGACTGGGACAAAATCACGAGTCAAAGATGAAGTGACCAGGACTAAGTCGAGGTCAA
1 AGATCATGTGACCAGGACAAAACCACGAGTCAAAGATGAAGAGACCAGGACTAAGTCGAGGTCAA
* * * *
17015385 AAACAAATGACCGAGACAAAACCATAAGTCATAAGAAATGATCTGGACTGAGCCA
66 AAACAAATGACAGAGACAAAACCATAAGTCATAAGAAATCATCTAGACTAAGCCA
** * * *
17015440 AGATCATGTGACCAGGATGAAACTAAGAGTCAAAGATGAAGAGACCAGGACTGAGTCGAGGTCAA
1 AGATCATGTGACCAGGACAAAACCACGAGTCAAAGATGAAGAGACCAGGACTAAGTCGAGGTCAA
* * * * * * *
17015505 AAATAAATGATCAG-GATAAAATCATGAGTCTTAAGAAATCATTTAGACTAAGCTA
66 AAACAAATGA-CAGAGACAAAACCATAAGTCATAAGAAATCATCTAGACTAAGCCA
* *
17015560 AGATTGA-GTGACC-GAGACAAAACCACGATTCAAA
1 AGA-TCATGTGACCAG-GACAAAACCACGAGTCAAA
17015594 ATTGAAGTTT
Statistics
Matches: 124, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
119 1 0.01
120 119 0.96
121 4 0.03
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (120 bp):
AGATCATGTGACCAGGACAAAACCACGAGTCAAAGATGAAGAGACCAGGACTAAGTCGAGGTCAA
AAACAAATGACAGAGACAAAACCATAAGTCATAAGAAATCATCTAGACTAAGCCA
Found at i:17015945 original size:17 final size:17
Alignment explanation
Indices: 17015925--17015968 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
17015915 TAAAGGTTCT
* *
17015925 AGATTCACAAAGATGCA
1 AGATTCACAAAGAAGAA
* *
17015942 AGATTCATAAGGAAGAA
1 AGATTCACAAAGAAGAA
17015959 AGATTCACAA
1 AGATTCACAA
17015969 GATTTTAGGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (17 bp):
AGATTCACAAAGAAGAA
Found at i:17016040 original size:69 final size:68
Alignment explanation
Indices: 17015957--17016285 Score: 304
Period size: 69 Copynumber: 4.8 Consensus size: 68
17015947 CATAAGGAAG
* * **
17015957 AAAGATTCACAAGATTTTAGGTTTCGTAAAGGTGCAAGGTTCGTAAAGATTTTTAAATTCACAAG
1 AAAGATTCACAAGATTTCAAGTTTCACAAAGGTGCAAGGTTCG-AAAGATTTTTAAATTCACAAG
17016022 AAAA
65 AAAA
* * * * * *
17016026 AAAGATTCGCAAGATTTCAAGTTTCATAAAGGTGCAAGGTTCGCAAGGACTTTTAGATTCACATG
1 AAAGATTCACAAGATTTCAAGTTTCACAAAGGTGCAAGGTTCG-AAAGATTTTTAAATTCACAAG
17016091 AAAA
65 AAAA
* * * **
17016095 AAAGATTAATAAGA-TTCTAAGTTTCACAAAGGTGCAGGGTTC-ACAAGAATTTTTAAATTGGCA
1 AAAGATTCACAAGATTTC-AAGTTTCACAAAGGTGCAAGGTTCGA-AAG-ATTTTTAAATTCACA
*
17016158 AGAAAG
63 AGAAAA
* * * * * * **
17016164 AAGGATTCATAAGATTTCAAGTTTCACAATGGTGCAAGGTTCGCAAGGACTTTCT-GATTTGCAA
1 AAAGATTCACAAGATTTCAAGTTTCACAAAGGTGCAAGGTTCG-AAAGA-TTTTTAAATTCACAA
17016228 GAAAA
64 GAAAA
* * * * *
17016233 AAATATTCACAAGATTCCAAGTTTCACAAAGGTTCTAGATTCGTAAAGATTTT
1 AAAGATTCACAAGATTTCAAGTTTCACAAAGGTGCAAGGTTCG-AAAGATTTT
17016286 AGGTTTGCAA
Statistics
Matches: 212, Mismatches: 41, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
67 1 0.00
68 8 0.04
69 193 0.91
70 9 0.04
71 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (68 bp):
AAAGATTCACAAGATTTCAAGTTTCACAAAGGTGCAAGGTTCGAAAGATTTTTAAATTCACAAGA
AAA
Found at i:17016136 original size:138 final size:137
Alignment explanation
Indices: 17015943--17016285 Score: 395
Period size: 138 Copynumber: 2.5 Consensus size: 137
17015933 AAAGATGCAA
* * * * * **
17015943 GATTCATAAGGAAGAAAGATTCACAAGATTTTAGGTTTCGTAAAGGTGCAAGGTTCGTAAAGATT
1 GATTCACAAGAAAAAAAGATTCACAAGATTCTAAGTTTCACAAAGGTGC-AGGTTCGTAAAGATT
* *
17016008 TTTAAATTCACAAGAAAAAAAGATTCGCAAGATTTCAAGTTTCATAAAGGTGCAAGGTTCGCAAG
65 TTTAAATTCACAAGAAAAAAAGATTCACAAGATTTCAAGTTTCACAAAGGTGCAAGGTTCGCAAG
17016073 GACTTT-T
130 GACTTTCT
* * *
17016080 AGATTCACATGAAAAAAAGATTAATAAGATTCTAAGTTTCACAAAGGTGCAGGGTTC--ACAAGA
1 -GATTCACAAGAAAAAAAGATTCACAAGATTCTAAGTTTCACAAAGGTGCA-GGTTCGTA-AAG-
** * * * *
17016143 ATTTTTAAATTGGCAAGAAAGAAGGATTCATAAGATTTCAAGTTTCACAATGGTGCAAGGTTCGC
62 ATTTTTAAATTCACAAGAAAAAAAGATTCACAAGATTTCAAGTTTCACAAAGGTGCAAGGTTCGC
17016208 AAGGACTTTCT
127 AAGGACTTTCT
** * * * *
17016219 GATTTGCAAGAAAAAAATATTCACAAGATTCCAAGTTTCACAAAGGTTCTAGATTCGTAAAGATT
1 GATTCACAAGAAAAAAAGATTCACAAGATTCTAAGTTTCACAAAGGTGC-AGGTTCGTAAAGATT
17016284 TT
65 TT
17016286 AGGTTTGCAA
Statistics
Matches: 171, Mismatches: 27, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
136 1 0.01
137 4 0.02
138 160 0.94
139 5 0.03
140 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (137 bp):
GATTCACAAGAAAAAAAGATTCACAAGATTCTAAGTTTCACAAAGGTGCAGGTTCGTAAAGATTT
TTAAATTCACAAGAAAAAAAGATTCACAAGATTTCAAGTTTCACAAAGGTGCAAGGTTCGCAAGG
ACTTTCT
Found at i:17016501 original size:8 final size:8
Alignment explanation
Indices: 17016488--17016512 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17016478 GTGATGAGTG
17016488 ATGATGCA
1 ATGATGCA
17016496 ATGATGCA
1 ATGATGCA
17016504 ATGATGCA
1 ATGATGCA
17016512 A
1 A
17016513 ATGCATGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (8 bp):
ATGATGCA
Found at i:17017241 original size:1 final size:1
Alignment explanation
Indices: 17017232--17017324 Score: 51
Period size: 1 Copynumber: 93.0 Consensus size: 1
17017222 CTTTTTCCTC
* * * * * * *** **
17017232 TTTTATTTTTTTCTTCTTTTATTTTTTTTTATTTTTTTTATTTTTTTTACATTTTTTTTTTGCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** * *
17017297 TTTGCTTTTTTTTTCTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
17017325 GCATACCTTT
Statistics
Matches: 66, Mismatches: 26, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.06, C:0.08, G:0.02, T:0.84
Consensus pattern (1 bp):
T
Found at i:17017246 original size:26 final size:26
Alignment explanation
Indices: 17017220--17017269 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
17017210 GTTTAAGTCT
17017220 TTCTTTT-TCCTCTTTTATTTTTTTC
1 TTCTTTTATCCTCTTTTATTTTTTTC
** *
17017245 TTCTTTTATTTTTTTTTATTTTTTT
1 TTCTTTTATCCTCTTTTATTTTTTT
17017270 TATTTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (26 bp):
TTCTTTTATCCTCTTTTATTTTTTTC
Found at i:17017256 original size:15 final size:16
Alignment explanation
Indices: 17017223--17017259 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
17017213 TAAGTCTTTC
17017223 TTTTTCCTCTTTTATT
1 TTTTTCCTCTTTTATT
*
17017239 TTTTTCTTCTTTTATT
1 TTTTTCCTCTTTTATT
17017255 TTTTT
1 TTTTT
17017260 TTATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTCCTCTTTTATT
Found at i:17017260 original size:9 final size:9
Alignment explanation
Indices: 17017248--17017290 Score: 59
Period size: 9 Copynumber: 4.4 Consensus size: 9
17017238 TTTTTTCTTC
17017248 TTTTATTTTT
1 TTTTA-TTTT
17017258 TTTTATTTT
1 TTTTATTTT
17017267 TTTTATTTT
1 TTTTATTTT
17017276 TTTTACATTTT
1 TTTT--ATTTT
17017287 TTTT
1 TTTT
17017291 TTGCTTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 17 0.55
10 5 0.16
11 9 0.29
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTATTTT
Found at i:17017261 original size:10 final size:10
Alignment explanation
Indices: 17017248--17017291 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
17017238 TTTTTTCTTC
17017248 TTTTATTTTT
1 TTTTATTTTT
17017258 TTTTA-TTTT
1 TTTTATTTTT
17017267 TTTTATTTTT
1 TTTTATTTTT
*
17017277 TTTACATTTTT
1 TTT-TATTTTT
17017288 TTTT
1 TTTT
17017292 TGCTTTTTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 9 0.30
10 12 0.40
11 9 0.30
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:17017299 original size:32 final size:31
Alignment explanation
Indices: 17017253--17017326 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 31
17017243 TCTTCTTTTA
* *
17017253 TTTTTTTTT-ATTTTT-TTTATTTTTTTTACAT
1 TTTTTTTTTGCTTTTTCTTT-TTTTTTCT-CAT
*
17017284 TTTTTTTTTGCTTTTTGCTTTTTTTTTCTCTT
1 TTTTTTTTTGCTTTTT-CTTTTTTTTTCTCAT
17017316 TTTTTTTTTGC
1 TTTTTTTTTGC
17017327 ATACCTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
31 9 0.24
32 18 0.49
33 7 0.19
34 3 0.08
ACGTcount: A:0.05, C:0.08, G:0.04, T:0.82
Consensus pattern (31 bp):
TTTTTTTTTGCTTTTTCTTTTTTTTTCTCAT
Found at i:17017323 original size:18 final size:17
Alignment explanation
Indices: 17017232--17017324 Score: 71
Period size: 18 Copynumber: 5.1 Consensus size: 17
17017222 CTTTTTCCTC
*
17017232 TTTTATTTTTTTCTTCTT
1 TTTTTTTTTTTTCTT-TT
* *
17017250 TTATTTTTTTTTATTTT
1 TTTTTTTTTTTTCTTTT
17017267 TTTTATTTTTTTTACATTTT
1 TTTT-TTTTTTTT-C-TTTT
*
17017287 TTTTTTGCTTTTTGCTTTT
1 TTTTTT--TTTTTTCTTTT
17017306 TTTTTCTCTTTTTT-TTTT
1 TTTTT-T-TTTTTTCTTTT
17017324 T
1 T
17017325 GCATACCTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
17 5 0.08
18 25 0.40
19 17 0.27
20 10 0.16
21 5 0.08
ACGTcount: A:0.06, C:0.08, G:0.02, T:0.84
Consensus pattern (17 bp):
TTTTTTTTTTTTCTTTT
Found at i:17017324 original size:19 final size:18
Alignment explanation
Indices: 17017232--17017324 Score: 71
Period size: 19 Copynumber: 4.9 Consensus size: 18
17017222 CTTTTTCCTC
* *
17017232 TTTTATTTTTTTCTTCTT
1 TTTTTTTTTTTTCTTTTT
* *
17017250 TTATTTTTTTTTATTTTT
1 TTTTTTTTTTTTCTTTTT
*
17017268 TTTATTTTTTTTACATTTTT
1 TTT-TTTTTTTTTC-TTTTT
* *
17017288 TTTTTGCTTTTTGCTTTTT
1 TTTTT-TTTTTTTCTTTTT
17017307 TTTTCTCTTTTTTT-TTTT
1 TTTT-T-TTTTTTTCTTTT
17017325 GCATACCTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
18 16 0.27
19 23 0.39
20 20 0.34
ACGTcount: A:0.06, C:0.08, G:0.02, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTTTTCTTTTT
Found at i:17017677 original size:58 final size:57
Alignment explanation
Indices: 17017595--17017722 Score: 161
Period size: 58 Copynumber: 2.2 Consensus size: 57
17017585 CCATCAATTT
* *
17017595 TTTTTC-TTTTTTTTTGTAGAGCATATTGGCATTTTGCCCTATCAATTTCTTT-TTTC
1 TTTTTCTTTTTTTTTTGTAGAGCATATTGACATTTTGCCCCATCAATTT-TTTCTTTC
* * *
17017651 TTTTTCTTTTTTTTTTGGTGGAGCATATTGACATTTTGCCCCATCACTTTTTTCCTTTT
1 TTTTTCTTTTTTTTTT-GTAGAGCATATTGACATTTTGCCCCATCAATTTTTT-CTTTC
*
17017710 TTTTTATTTTTTT
1 TTTTTCTTTTTTT
17017723 CATTTGTCAA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
56 6 0.10
57 12 0.19
58 29 0.47
59 15 0.24
ACGTcount: A:0.12, C:0.16, G:0.10, T:0.62
Consensus pattern (57 bp):
TTTTTCTTTTTTTTTTGTAGAGCATATTGACATTTTGCCCCATCAATTTTTTCTTTC
Found at i:17022015 original size:50 final size:51
Alignment explanation
Indices: 17021961--17022105 Score: 150
Period size: 52 Copynumber: 2.8 Consensus size: 51
17021951 TTATTTACAT
* * *
17021961 TTTAATAAGAATTGATTCTGAAATCAAATCCCAAAATCTCTCC-CTATCA-A
1 TTTAATGAGAATTGATTCTGAAATTAAATCCAAAAATCTCTCCAC-ATCATA
* * * * *
17022011 TTTAATGTGAATTGATTATGAAATTAAATCTCGACAATCTCTCCACATCATT
1 TTTAATGAGAATTGATTCTGAAATTAAATC-CAAAAATCTCTCCACATCATA
** *
17022063 TTTAATGCCAATTGATTCTGGAATTAAATCCTAAAAATCTCTC
1 TTTAATGAGAATTGATTCTGAAATTAAATCC-AAAAATCTCTC
17022106 TATTATGGTT
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
50 26 0.33
51 16 0.21
52 36 0.46
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (51 bp):
TTTAATGAGAATTGATTCTGAAATTAAATCCAAAAATCTCTCCACATCATA
Found at i:17024090 original size:161 final size:160
Alignment explanation
Indices: 17023476--17025578 Score: 1813
Period size: 161 Copynumber: 13.2 Consensus size: 160
17023466 AGATAAGTTT
** * * * *
17023476 ATGATATTAAACTCATCCGAATAAATGAACTTGGTTTC-CATTGTTGATATGTATGAAAAAGTTG
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTCACA--GTTGATATGTGTGAAAAAGTT-
* * * ** **
17023540 CAA--TTTATGTCTGTTTAGGACTTTTTTGTGCCATTAAAAGGCAAAAATG-AAAATTTATAGTT
63 -AACGTTTACGTCTATTTAGGAC-TTTTTATGCTGTTAAAAGGCAAAAATGCAAAATTGCTA-TT
* * * *
17023602 ATTGTTCTATTTTAACAATTTTGATAGTTTCAATTC
125 ATTGTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * * * *
17023638 ATAATATTAAACTTATCTGAATAATTGAACTTGGATTC-CATGATTGATATATATGAAAAAGTTG
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTCACA-G-TTGATATGTGTGAAAAAGTTA
** * * * * * * * *
17023702 TTGTTTATGTTTGTTTATGACTTTTTATG-TCATTAAAATGCAAAAATGC-AAATTCGTTATTTT
64 ACGTTTACGTCTATTTAGGACTTTTTATGCT-GTTAAAAGGCAAAAATGCAAAATT-GCTATTAT
* **
17023765 TGGTTCTATTTTAACAATTTGGATAGCTTCGGTAC
127 T-GTTCTATTTTAACAGTTTGGATAGCTTCAATAC
** *
17023800 ATGATATTAAACTTG--T---T-ATTGAACTTGGTTTCCACAGTTGATATGTACGAAAAAGTTAT
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTT-CACAGTTGATATGTGTGAAAAAGTTAA
** * * * * * *
17023859 TATTTACGTCTATTTAGGACTTTTTGTGCTATTAATAGGCAAAAATACAAATTTGCTGTTATTGT
65 CGTTTACGTCTATTTAGGACTTTTTATGCTGTTAAAAGGCAAAAATGCAAAATTGCTATTATTGT
17023924 TCTATTTTAACAGTTTGGATAGCTTCAATAC
130 TCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * * * **
17023955 ATGATATTAAACTCGTCTGAATAATTAAACTTTGTTTACACAGCTGATATATGTGAAAAAACTAA
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTT-CACAGTTGATATGTGTGAAAAAGTTAA
* * * * *
17024020 CGTTTACATCTGTTTAAGACTTTTTATGCTGTTAAAAGGCAAAATTGCAAAATTGCGATTATTGT
65 CGTTTACGTCTATTTAGGACTTTTTATGCTGTTAAAAGGCAAAAATGCAAAATTGCTATTATTGT
*
17024085 TCTATTTTAACAGTTTGGATATCTTCAATAC
130 TCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * **
17024116 ATAATATTAAACTTGTC-GAATGATTGAACTTGATTTCTACAGTTGAAATGTGTGAAAAAGTTTT
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTC-ACAGTTGATATGTGTGAAAAAGTTAA
* * * * * *
17024180 CGTTTAC-ACATATTTAGGATTTTTTTTG-TCGTTAAAAGGAAAAAATGCAAATTTACTATTATT
65 CGTTTACGTC-TATTTAGGACTTTTTATGCT-GTTAAAAGGCAAAAATGCAAAATTGCTATTATT
* *
17024243 ATTCTATTTTAATAGTTTGGATAGCTTCAATAC
128 GTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * * *
17024276 ATAATATTAAACTT-TTTCAAATGATTGAACTTAGTTTCCATAGTTG--ATGTGTGAAAAAGTTG
1 ATGATATTAAACTTGTCT-GAATGATTGAACTTGGTTT-CACAGTTGATATGTGTGAAAAAGTTA
** * * * **
17024338 TTGTTTACCTTTATTTAGGACTTTTTATGCTGCTAAAATAC-AAAATGCAAAATTGCTATTATTG
64 ACGTTTACGTCTATTTAGGACTTTTTATGCTGTTAAAAGGCAAAAATGCAAAATTGCTATTATTG
* * * *
17024402 TTATGTTTTAACAGTTTTGATAGCTTCGATAC
129 TTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * *
17024434 ATGATATTAAACTTGT-TCGAATAATTGAACTTGGTTTATACAGTTGATATATGTGAAAAAGCTA
1 ATGATATTAAACTTGTCT-GAATGATTGAACTTGGTTT-CACAGTTGATATGTGTGAAAAAGTTA
* * * * * * * *
17024498 ATGTTTATGTCTATCTAGAACCTTTTTAAG-TCGTTAAAAGGCAAAAATGCAAATTTGATATTAA
64 ACGTTTACGTCTATTTAGGA-CTTTTTATGCT-GTTAAAAGGCAAAAATGCAAAATTGCTATTAT
* *
17024562 TGTTCTATTTTAATAGTTTGGATAGCTTCAATAT
127 TGTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * *
17024596 ATGACAATAAATTTGT-TCAAATGATTGAACTTGGTTTCTACAGTTGATATGTGTGAAAAAGTT-
1 ATGATATTAAACTTGTCT-GAATGATTGAACTTGGTTTC-ACAGTTGATATGTGTGAAAAAGTTA
* * *
17024659 --GTTTACCTCTATTTAGGACTTTTTGTGCTTTTAAAAGGC-AAAATG-AAAATTTGCTATTATT
64 ACGTTTACGTCTATTTAGGACTTTTTATGCTGTTAAAAGGCAAAAATGCAAAA-TTGCTATTATT
* *
17024720 GTTCTA-TTTAACAATTTGGGTAGCTTCAATAC
128 GTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * * * * *
17024752 ATGATATTATACTTCTCTAAATAATTGAACTGGGTTTCCACAGTTGATATATATGAAAAAGCTAA
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTT-CACAGTTGATATGTGTGAAAAAGTTAA
* * ** * * *
17024817 CATTTACATCTATTTAGGACTTTTTATGCCATCAAAAGGTAAAAATGCAAATTTGCTATTATTGT
65 CGTTTACGTCTATTTAGGACTTTTTATGCTGTTAAAAGGCAAAAATGCAAAATTGCTATTATTGT
*
17024882 TCTATTTTAATAGTTTGGATAGCTTCAATAC
130 TCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * **
17024913 ATGATAATAAAATTCTCTGAATGATTGAACTTGGTTTCTACAGTTGATATGTGTGAAAAAGTTGT
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTC-ACAGTTGATATGTGTGAAAAAGTTAA
* * * *
17024978 CATTTACGTCTATTTAGGAC--TTT-T--TG-T-----GCAAACA--CAAAATTGTTGTTATTGT
65 CGTTTACGTCTATTTAGGACTTTTTATGCTGTTAAAAGGCAAAAATGCAAAATTGCTATTATTGT
*
17025030 TCT-TTTCTAACAATTTGGATAGCTTCAATAC
130 TCTATTT-TAACAGTTTGGATAGCTTCAATAC
* * * * * *
17025061 ATGATATTCAACTTGT-TCGAATAATTGAACGTAGTTTCCACAGTTGATATCTGTGAAAAAGCTA
1 ATGATATTAAACTTGTCT-GAATGATTGAACTTGGTTT-CACAGTTGATATGTGTGAAAAAGTTA
* * ** *
17025125 ACGTTTACGTCTGTGTAGGACTTTTTATGCCCTTAAAAGGCAAAAATGCAAAATTGCTATTGTTG
64 ACGTTTACGTCTATTTAGGACTTTTTATGCTGTTAAAAGGCAAAAATGCAAAATTGCTATTATTG
* *
17025190 TTCTATTTTAACAATTTGGATAGCTTCAACAC
129 TTCTATTTTAACAGTTTGGATAGCTTCAATAC
** * * * * *
17025222 ATGATAAGAAACTTGTCCGAATGATTGAACTTGGTTTTTACGGTTGATATGTGTGTAAAAGTT-G
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGG-TTTCACAGTTGATATGTGTGAAAAAGTTAA
* * * * * * *
17025286 CTTTTACTTCTACTTAGGA-TTTTCGAT-C-GTTAAAAGGTAAAAATACAAATTTG-TATTTATT
65 CGTTTACGTCTATTTAGGACTTTT-TATGCTGTTAAAAGGCAAAAATGCAAAATTGCTA-TTATT
*
17025347 ATTCTATTTTAACAGTTTGGATAGCTTCAATAC
128 GTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * ** *
17025380 ATAATATTAAACTTTTTTGGATGATTGAACTTATTTTTCACAGTTGATATGTGTGAAAAAGTTGA
1 ATGATATTAAACTTGTCTGAATGATTGAACTT-GGTTTCACAGTTGATATGTGTGAAAAAGTTAA
* * * * * * * * * *
17025445 TGTTTACCTTTATTTAGGATTTTTTGTTCTGTTAAAAGGAAAAAAATACAAATTTGCTATTATTA
65 CGTTTACGTCTATTTAGGACTTTTTATGCTGTTAAAAGG-CAAAAATGCAAAATTGCTATTATTG
* * *
17025510 TT-TTTTTTAACAGTTTGGATAACTTTAATAC
129 TTCTATTTTAACAGTTTGGATAGCTTCAATAC
** *
17025541 ATGATATTAAACTTGTCCAAATGATTGAATTTGGTTTC
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTC
17025579 TATGATTAAT
Statistics
Matches: 1578, Mismatches: 292, Indels: 144
0.78 0.14 0.07
Matches are distributed among these distances:
147 4 0.00
148 107 0.07
149 1 0.00
150 8 0.01
151 1 0.00
154 1 0.00
155 44 0.03
156 149 0.09
157 34 0.02
158 208 0.13
159 125 0.08
160 207 0.13
161 444 0.28
162 243 0.15
163 2 0.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (160 bp):
ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTCACAGTTGATATGTGTGAAAAAGTTAAC
GTTTACGTCTATTTAGGACTTTTTATGCTGTTAAAAGGCAAAAATGCAAAATTGCTATTATTGTT
CTATTTTAACAGTTTGGATAGCTTCAATAC
Found at i:17025144 original size:148 final size:148
Alignment explanation
Indices: 17024875--17025150 Score: 367
Period size: 148 Copynumber: 1.9 Consensus size: 148
17024865 AAATTTGCTA
* * *
17024875 TTATTGTTCTATTTTAATAGTTTGGATAGCTTCAATACATGATAATAAAATTCTCTGAATGATTG
1 TTATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGATAATAAAATTCTCTGAATAATTG
* * * * * ** *
17024940 AACTTGGTTTCTACAGTTGATATGTGTGAAAAAGTTGTCATTTACGTCTATTTAGGACTTTTTGT
66 AACGTAGTTTCCACAGTTGATATCTGTGAAAAAGCTAACATTTACGTCTATGTAGGACTTTTTGT
17025005 GCAAACACAAAATTGTTG
131 GCAAACACAAAATTGTTG
* * * *
17025023 TTATTGTTCT-TTTCTAACAATTTGGATAGCTTCAATACATGATATTCAACTTGT-TCGAATAAT
1 TTATTGTTCTATTT-TAACAATTTGGATAGCTTCAATACATGATAATAAAATTCTCT-GAATAAT
* *
17025086 TGAACGTAGTTTCCACAGTTGATATCTGTGAAAAAGCTAACGTTTACGTCTGTGTAGGACTTTTT
64 TGAACGTAGTTTCCACAGTTGATATCTGTGAAAAAGCTAACATTTACGTCTATGTAGGACTTTTT
17025151 ATGCCCTTAA
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
147 4 0.04
148 105 0.96
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (148 bp):
TTATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGATAATAAAATTCTCTGAATAATTG
AACGTAGTTTCCACAGTTGATATCTGTGAAAAAGCTAACATTTACGTCTATGTAGGACTTTTTGT
GCAAACACAAAATTGTTG
Found at i:17025520 original size:319 final size:320
Alignment explanation
Indices: 17023476--17025599 Score: 1848
Period size: 319 Copynumber: 6.7 Consensus size: 320
17023466 AGATAAGTTT
** * * * ** * *
17023476 ATGATATTAAACTCATCCGAATAAATGAACTTGGTTTCCATTGTTGATATGTATGAAAAAGTTGC
1 ATGATATTAAACTTGTTCGAATAATTGAACTTAGTTTCCACAGTTGATATGTGTGAAAAAGCT--
* * ** * *
17023541 AA--TTTATGTCTGTTTAGGACTTTTTTGTGCCATTAAAAGGCAAAAATGAAAATTT-ATAGTTA
64 AATGTTTACGTCTATTTAGGAC-TTTTTGTGCTGTTAAAAGGCAAAAATGCAAATTTGCTA-TTA
* * * * * * * ** *
17023603 TTGTTCTATTTTAACAATTTTGATAGTTTCAATTCATAATATTAAACTTATCTGAATAATTGAAC
127 TTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATAATAAACTTGTCCAAATGATTGAAC
* * * * * * * *
17023668 TTGGATTC--CATGATTGATATATATGAAAAAGTTGTTGTTTA-TGTTTGTTTATGACTTTTTAT
192 TTGGTTTCTACA-G-TTGATATGTGTGAAAAAGTTGCT-TTTACT-TCTATTTAGGACTTTTGAT
* * * * *
17023730 G-TCATTAAAATGCAAAAATGC-AAATTCGTTATTTTTGGTTCTATTTTAACAATTTGGATAGCT
253 GCT-GTTAAAA-GGAAAAATACAAAATT-GCTATTATT-GTTCTATTTTAACAATTTGGATAGCT
**
17023793 TCGGTAC
314 TCAATAC
* ** * *
17023800 ATGATATTAAACTTG-T----T-ATTGAACTTGGTTTCCACAGTTGATATGTACGAAAAAGTTAT
1 ATGATATTAAACTTGTTCGAATAATTGAACTTAGTTTCCACAGTTGATATGTGTGAAAAAGCTAA
* * * * *
17023859 TATTTACGTCTATTTAGGACTTTTTGTGCTATTAATAGGCAAAAATACAAATTTGCTGTTATTGT
66 TGTTTACGTCTATTTAGGACTTTTTGTGCTGTTAAAAGGCAAAAATGCAAATTTGCTATTATTGT
* * ** * * *
17023924 TCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTCGTCTGAATAATTAAACTTTG
131 TCTATTTTAACAGTTTGGATAGCTTCAATACATGATAATAAACTTGTCCAAATGATTGAACTTGG
* * * ** * * * * *
17023989 TTTAC-ACAGCTGATATATGTGAAAAAACTAACGTTTACATCTGTTTAAGACTTTTTATGCTGTT
196 TTT-CTACAGTTGATATGTGTG-AAAAAGTTGCTTTTACTTCTATTTAGGACTTTTGATGCTGTT
* * * * *
17024053 AAAAGGCAAAATTGCAAAATTGCGATTATTGTTCTATTTTAACAGTTTGGATATCTTCAATAC
259 AAAAGG-AAAAATACAAAATTGCTATTATTGTTCTATTTTAACAATTTGGATAGCTTCAATAC
* * * * *
17024116 ATAATATTAAACTTG-TCGAATGATTGAACTT-GATTTCTACAGTTGAAATGTGTGAAAAAG-TT
1 ATGATATTAAACTTGTTCGAATAATTGAACTTAG-TTTCCACAGTTGATATGTGTGAAAAAGCTA
* * * * * *
17024178 TTCGTTTAC-ACATATTTAGGATTTTTTTTG-TCGTTAAAAGGAAAAAATGCAAATTTACTATTA
65 AT-GTTTACGTC-TATTTAGGACTTTTTGTGCT-GTTAAAAGGCAAAAATGCAAATTTGCTATTA
* * * * * *
17024241 TTATTCTATTTTAATAGTTTGGATAGCTTCAATACATAATATTAAACTTTTTCAAATGATTGAAC
127 TTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATAATAAACTTGTCCAAATGATTGAAC
* * * * *
17024306 TTAGTTTCCATAGTTG--ATGTGTGAAAAAGTTGTTGTTTACCTT-TATTTAGGACTTTTTATGC
192 TTGGTTTCTACAGTTGATATGTGTGAAAAAGTTGCT-TTTA-CTTCTATTTAGGACTTTTGATGC
* * * * * * * *
17024368 TGCTAAAA-TACAAAATGCAAAATTGCTATTATTGTTATGTTTTAACAGTTTTGATAGCTTCGAT
255 TGTTAAAAGGA-AAAATACAAAATTGCTATTATTGTTCTATTTTAACAATTTGGATAGCTTCAAT
17024432 AC
319 AC
* ** *
17024434 ATGATATTAAACTTGTTCGAATAATTGAACTTGGTTTATACAGTTGATATATGTGAAAAAGCTAA
1 ATGATATTAAACTTGTTCGAATAATTGAACTTAGTTTCCACAGTTGATATGTGTGAAAAAGCTAA
* * * * *
17024499 TGTTTATGTCTATCTAGAACCTTTTTAAGT-C-GTTAAAAGGCAAAAATGCAAATTTGATATTAA
66 TGTTTACGTCTATTTAGGA-CTTTTT--GTGCTGTTAAAAGGCAAAAATGCAAATTTGCTATTAT
* * * * *
17024562 TGTTCTATTTTAATAGTTTGGATAGCTTCAATATATGACAATAAATTTGTTCAAATGATTGAACT
128 TGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATAATAAACTTGTCCAAATGATTGAACT
* *
17024627 TGGTTTCTACAGTTGATATGTGTGAAAAAGTTG--TTTACCTCTATTTAGGACTTTTTG-TGCTT
193 TGGTTTCTACAGTTGATATGTGTGAAAAAGTTGCTTTTACTTCTATTTAGGAC-TTTTGATGCTG
* * *
17024689 TTAAAAGGCAAAATGA-AAATTTGCTATTATTGTTCTA-TTTAACAATTTGGGTAGCTTCAATAC
257 TTAAAAGGAAAAAT-ACAAAATTGCTATTATTGTTCTATTTTAACAATTTGGATAGCTTCAATAC
* * * ** * *
17024752 ATGATATTATACTT-CTCTAAATAATTGAACTGGGTTTCCACAGTTGATATATATGAAAAAGCTA
1 ATGATATTAAACTTGTTC-GAATAATTGAACTTAGTTTCCACAGTTGATATGTGTGAAAAAGCTA
** * * ** * *
17024816 ACATTTACATCTATTTAGGACTTTTTATGCCATCAAAAGGTAAAAATGCAAATTTGCTATTATTG
65 ATGTTTACGTCTATTTAGGACTTTTTGTGCTGTTAAAAGGCAAAAATGCAAATTTGCTATTATTG
* * * **
17024881 TTCTATTTTAATAGTTTGGATAGCTTCAATACATGATAATAAAATTCTCTGAATGATTGAACTTG
130 TTCTATTTTAACAGTTTGGATAGCTTCAATACATGATAATAAACTTGTCCAAATGATTGAACTTG
* *
17024946 GTTTCTACAGTTGATATGTGTGAAAAAGTTGTCATTTACGTCTATTTAGGAC-TTT--T--TG-T
195 GTTTCTACAGTTGATATGTGTGAAAAAGTTG-CTTTTACTTCTATTTAGGACTTTTGATGCTGTT
* * * *
17025005 -----G-CAAACACAAAATTGTTGTTATTGTTCT-TTTCTAACAATTTGGATAGCTTCAATAC
259 AAAAGGAAAAATACAAAATTGCTATTATTGTTCTATTT-TAACAATTTGGATAGCTTCAATAC
* * *
17025061 ATGATATTCAACTTGTTCGAATAATTGAACGTAGTTTCCACAGTTGATATCTGTGAAAAAGCTAA
1 ATGATATTAAACTTGTTCGAATAATTGAACTTAGTTTCCACAGTTGATATGTGTGAAAAAGCTAA
* * * * ** * *
17025126 CGTTTACGTCTGTGTAGGACTTTTTATGCCCTTAAAAGGCAAAAATGCAAAATTGCTATTGTTGT
66 TGTTTACGTCTATTTAGGACTTTTTGTGCTGTTAAAAGGCAAAAATGCAAATTTGCTATTATTGT
* * * *
17025191 TCTATTTTAACAATTTGGATAGCTTCAACACATGATAAGAAACTTGTCCGAATGATTGAACTTGG
131 TCTATTTTAACAGTTTGGATAGCTTCAATACATGATAATAAACTTGTCCAAATGATTGAACTTGG
* * * *
17025256 TTTTTACGGTTGATATGTGTGTAAAAGTTGCTTTTACTTCTACTTAGGA-TTTTCGAT-C-GTTA
196 TTTCTACAGTTGATATGTGTGAAAAAGTTGCTTTTACTTCTATTTAGGACTTTT-GATGCTGTTA
* * *
17025318 AAAGGTAAAAATACAAATTTG-TATTTATTATTCTATTTTAACAGTTTGGATAGCTTCAATAC
260 AAAGG-AAAAATACAAAATTGCTA-TTATTGTTCTATTTTAACAATTTGGATAGCTTCAATAC
* * * * * * * * *
17025380 ATAATATTAAACTTTTTTGGATGATTGAACTTATTTTTCACAGTTGATATGTGTGAAAAAGTTGA
1 ATGATATTAAACTTGTTCGAATAATTGAACTTAGTTTCCACAGTTGATATGTGTGAAAAAGCTAA
* * * * * * *
17025445 TGTTTACCTTTATTTAGGATTTTTTGTTCTGTTAAAAGGAAAAAAATACAAATTTGCTATTATTA
66 TGTTTACGTCTATTTAGGACTTTTTGTGCTGTTAAAAGG-CAAAAATGCAAATTTGCTATTATTG
* * * * *
17025510 TT-TTTTTTAACAGTTTGGATAACTTTAATACATGATATTAAACTTGTCCAAATGATTGAATTTG
130 TTCTATTTTAACAGTTTGGATAGCTTCAATACATGATAATAAACTTGTCCAAATGATTGAACTTG
* *
17025574 GTTTCTA-TGATTAATATGTGTGAAAA
195 GTTTCTACAG-TTGATATGTGTGAAAA
17025600 TGCAAAATGC
Statistics
Matches: 1491, Mismatches: 245, Indels: 133
0.80 0.13 0.07
Matches are distributed among these distances:
307 1 0.00
308 41 0.03
309 218 0.15
310 2 0.00
311 2 0.00
312 1 0.00
314 1 0.00
315 2 0.00
316 47 0.03
317 275 0.18
318 232 0.16
319 332 0.22
320 163 0.11
321 144 0.10
322 17 0.01
324 13 0.01
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (320 bp):
ATGATATTAAACTTGTTCGAATAATTGAACTTAGTTTCCACAGTTGATATGTGTGAAAAAGCTAA
TGTTTACGTCTATTTAGGACTTTTTGTGCTGTTAAAAGGCAAAAATGCAAATTTGCTATTATTGT
TCTATTTTAACAGTTTGGATAGCTTCAATACATGATAATAAACTTGTCCAAATGATTGAACTTGG
TTTCTACAGTTGATATGTGTGAAAAAGTTGCTTTTACTTCTATTTAGGACTTTTGATGCTGTTAA
AAGGAAAAATACAAAATTGCTATTATTGTTCTATTTTAACAATTTGGATAGCTTCAATAC
Found at i:17029915 original size:31 final size:31
Alignment explanation
Indices: 17029880--17029946 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
17029870 AACCATCATT
* *
17029880 GAAAAATTCAACCGATATCGAAAAAGTCACC
1 GAAAAATTCAACCGACATCAAAAAAGTCACC
* *
17029911 GAAAAATTCAACCGACATCAAAAAATTCATC
1 GAAAAATTCAACCGACATCAAAAAAGTCACC
17029942 GAAAA
1 GAAAA
17029947 CTAGAAACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.52, C:0.21, G:0.10, T:0.16
Consensus pattern (31 bp):
GAAAAATTCAACCGACATCAAAAAAGTCACC
Found at i:17030324 original size:6 final size:6
Alignment explanation
Indices: 17030297--17030340 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
17030287 AATATCCTAT
* * *
17030297 AAATAA ATAATAA AAATCA AAATAA AAATAA GAATCA AAATAA A
1 AAATAA A-AATAA AAATAA AAATAA AAATAA AAATAA AAATAA A
17030341 TAAAGTAACA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:17030326 original size:18 final size:19
Alignment explanation
Indices: 17030297--17030343 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
17030287 AATATCCTAT
17030297 AAATAAATAATAAAAATCA
1 AAATAAATAATAAAAATCA
*
17030316 AAATAAA-AATAAGAATCA
1 AAATAAATAATAAAAATCA
17030334 AAATAAATAA
1 AAATAAATAA
17030344 AGTAACAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.19
Consensus pattern (19 bp):
AAATAAATAATAAAAATCA
Found at i:17030980 original size:44 final size:42
Alignment explanation
Indices: 17030915--17030998 Score: 98
Period size: 44 Copynumber: 2.0 Consensus size: 42
17030905 TTCTTGTTCG
* * **
17030915 AGTTCAAAGTTTCATATTCAAAAAATCTTAGAGTTTCACATCTA
1 AGTTCAAAGGTTCATACTC-AAAAAT-TTAGAAATTCACATCTA
17030959 AGTTCAAAGGTTC-TCACTCAAAAATTTAGAAATTCACATC
1 AGTTCAAAGGTTCAT-ACTCAAAAATTTAGAAATTCACATC
17030999 CAAAAGTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 13 0.37
43 7 0.20
44 15 0.43
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (42 bp):
AGTTCAAAGGTTCATACTCAAAAATTTAGAAATTCACATCTA
Found at i:17031141 original size:21 final size:21
Alignment explanation
Indices: 17031106--17031303 Score: 191
Period size: 21 Copynumber: 9.0 Consensus size: 21
17031096 GGTTTCACAT
*
17031106 CTCAAATATTCTCATTTGAAA
1 CTCAAAGATTCTCATTTGAAA
* *
17031127 CTCAACGATTTTCATTTGAAGA
1 CTCAAAGATTCTCATTTGAA-A
*
17031149 CTCAAAGATTCTGATTTGAAGA
1 CTCAAAGATTCTCATTTGAA-A
* *
17031171 TTTCTTAAAAATTCTCATTT-AAGA
1 ---CTCAAAGATTCTCATTTGAA-A
17031195 CTCAAAGATTCTCATTTGAAAA
1 CTCAAAGATTCTCATTTG-AAA
*
17031217 CTCAAAGATTCTTATTTGAAA
1 CTCAAAGATTCTCATTTGAAA
*
17031238 CTCAAAGATTCTCATTAGAAAA
1 CTCAAAGATTCTCATTTG-AAA
* * *
17031260 TTTCTTAAAAATTCTCATTTAAAA
1 ---CTCAAAGATTCTCATTTGAAA
17031284 CTCAAAGATTCTCATTTGAA
1 CTCAAAGATTCTCATTTGAA
17031304 GGTTAACAAT
Statistics
Matches: 146, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
21 68 0.47
22 41 0.28
23 2 0.01
24 7 0.05
25 28 0.19
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:17031154 original size:43 final size:43
Alignment explanation
Indices: 17031106--17031303 Score: 179
Period size: 43 Copynumber: 4.5 Consensus size: 43
17031096 GGTTTCACAT
* *
17031106 CTCAAATATTCTCATTTGAAACTCAACGATTTTCATTTGAAGA
1 CTCAAAGATTCTCATTTGAAACTCAAAGATTTTCATTTGAAGA
* * * *
17031149 CTCAAAGATTCTGATTTGAAGATTTCTTAAAAATTCTCATTT-AAGA
1 CTCAAAGATTCTCATTTGAA-A---CTCAAAGATTTTCATTTGAAGA
17031195 CTCAAAGATTCTCATTTGAAAACTCAAAGATTCTT-ATTTGAA-A
1 CTCAAAGATTCTCATTTG-AAACTCAAAGATT-TTCATTTGAAGA
* * * * *
17031238 CTCAAAGATTCTCATTAGAAAATTTCTTAAAAATTCTCATTT-AAAA
1 CTCAAAGATTCTCATTTG-AAA---CTCAAAGATTTTCATTTGAAGA
17031284 CTCAAAGATTCTCATTTGAA
1 CTCAAAGATTCTCATTTGAA
17031304 GGTTAACAAT
Statistics
Matches: 128, Mismatches: 15, Indels: 22
0.78 0.09 0.13
Matches are distributed among these distances:
43 52 0.41
44 4 0.03
45 5 0.04
46 52 0.41
47 15 0.12
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (43 bp):
CTCAAAGATTCTCATTTGAAACTCAAAGATTTTCATTTGAAGA
Found at i:17031202 original size:46 final size:47
Alignment explanation
Indices: 17031138--17031304 Score: 220
Period size: 46 Copynumber: 3.7 Consensus size: 47
17031128 TCAACGATTT
*
17031138 TCATTTGAAGACTCAAAGATTCTGATTTGAAGATTTCTTAAAAATTC
1 TCATTTGAAGACTCAAAGATTCTCATTTGAAGATTTCTTAAAAATTC
* * *
17031185 TCATTT-AAGACTCAAAGATTCTCATTTGAA-A--ACTCAAAGATTC
1 TCATTTGAAGACTCAAAGATTCTCATTTGAAGATTTCTTAAAAATTC
* * *
17031228 TTATTTGAA-ACTCAAAGATTCTCATTAGAAAATTTCTTAAAAATTC
1 TCATTTGAAGACTCAAAGATTCTCATTTGAAGATTTCTTAAAAATTC
*
17031274 TCATTT-AAAACTCAAAGATTCTCATTTGAAG
1 TCATTTGAAGACTCAAAGATTCTCATTTGAAG
17031305 GTTAACAATT
Statistics
Matches: 103, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
43 34 0.33
44 3 0.03
45 3 0.03
46 57 0.55
47 6 0.06
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (47 bp):
TCATTTGAAGACTCAAAGATTCTCATTTGAAGATTTCTTAAAAATTC
Found at i:17031222 original size:68 final size:64
Alignment explanation
Indices: 17031106--17031304 Score: 195
Period size: 68 Copynumber: 3.0 Consensus size: 64
17031096 GGTTTCACAT
* * * * *
17031106 CTCAAATATTCTCATTTGAAACTCAACGATTTTCATTTGAAGACTCAAAGATTCTGATTTGAAGA
1 CTCAAAAATTCTCATTT-AAACTCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTGAAGA
* *
17031171 TTTCTTAAAAATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACTCAAAGATTCTTATTTGA
1 ---CTCAAAAATTCTCATTTAA-ACTCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTGA
17031236 A-A
62 AGA
* * * *
17031238 CTCAAAGATTCTCATTAGAAAATTTCTTAAAAATTCTCATTT-AAAACTCAAAGATTCTCATTTG
1 CTCAAAAATTCTCATT--TAAA---CTCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTG
17031302 AAG
61 AAG
17031305 GTTAACAATT
Statistics
Matches: 112, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
64 14 0.12
65 1 0.01
66 2 0.02
67 26 0.23
68 69 0.62
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (64 bp):
CTCAAAAATTCTCATTTAAACTCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTGAAGA
Found at i:17031263 original size:89 final size:90
Alignment explanation
Indices: 17031106--17031303 Score: 312
Period size: 89 Copynumber: 2.2 Consensus size: 90
17031096 GGTTTCACAT
* * * * *
17031106 CTCAAATATTCTCATTTG-AAACTCAACGATTTTCATTTGAAGACTCAAAGATTCTGATTTGAAG
1 CTCAAAGATTCTCATTTGAAAACTCAAAGATTTTCATTTGAAGACTCAAAGATTCTCATTAGAAA
*
17031170 ATTTCTTAAAAATTCTCATTTAAGA
66 ATTTCTTAAAAATTCTCATTTAAAA
17031195 CTCAAAGATTCTCATTTGAAAACTCAAAGATTCTT-ATTTGAA-ACTCAAAGATTCTCATTAGAA
1 CTCAAAGATTCTCATTTGAAAACTCAAAGATT-TTCATTTGAAGACTCAAAGATTCTCATTAGAA
17031258 AATTTCTTAAAAATTCTCATTTAAAA
65 AATTTCTTAAAAATTCTCATTTAAAA
17031284 CTCAAAGATTCTCATTTGAA
1 CTCAAAGATTCTCATTTGAA
17031304 GGTTAACAAT
Statistics
Matches: 101, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
89 80 0.79
90 19 0.19
91 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (90 bp):
CTCAAAGATTCTCATTTGAAAACTCAAAGATTTTCATTTGAAGACTCAAAGATTCTCATTAGAAA
ATTTCTTAAAAATTCTCATTTAAAA
Found at i:17031969 original size:79 final size:79
Alignment explanation
Indices: 17031797--17031980 Score: 181
Period size: 79 Copynumber: 2.3 Consensus size: 79
17031787 CATAAGTTTT
* * ** * * *
17031797 TCAGCACTAGCCATTTCAAAATAAATTATATTTTCTGATCTATAGTATTTTCATCAATCGATCAC
1 TCAGCACTAGCCATTCCAAAACAAATTATATCATCTGATCCACAGTATGTTCATCAATCGATCAC
* *
17031862 CATTCATAGGTTTC
66 CATTCACAGGCTTC
* * * * * * *
17031876 TCAGCAAC-AACCATTCCAGAACAAATTATGTCATCTGATCCACATTATGTTCATCACTTGATTA
1 TCAGC-ACTAGCCATTCCAAAACAAATTATATCATCTGATCCACAGTATGTTCATCAATCGATCA
*
17031940 CCATTGACAGGCTTC
65 CCATTCACAGGCTTC
* *
17031955 TCAGCACTAGCCATTCTAAAATAAAT
1 TCAGCACTAGCCATTCCAAAACAAAT
17031981 CTTGTCCATT
Statistics
Matches: 82, Mismatches: 21, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
78 2 0.02
79 78 0.95
80 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (79 bp):
TCAGCACTAGCCATTCCAAAACAAATTATATCATCTGATCCACAGTATGTTCATCAATCGATCAC
CATTCACAGGCTTC
Found at i:17032628 original size:12 final size:11
Alignment explanation
Indices: 17032611--17032656 Score: 60
Period size: 10 Copynumber: 4.3 Consensus size: 11
17032601 CTTTTTCATC
17032611 TTTTCTATTTTT
1 TTTTCTA-TTTT
17032623 TTTTCTA-TTT
1 TTTTCTATTTT
17032633 TTTTC-ATTTT
1 TTTTCTATTTT
*
17032643 TTCTCTATTTT
1 TTTTCTATTTT
17032654 TTT
1 TTT
17032657 CTTTTCTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 1 0.03
10 15 0.50
11 7 0.23
12 7 0.23
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCTATTTT
Found at i:17032628 original size:30 final size:29
Alignment explanation
Indices: 17032592--17032676 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 29
17032582 TTGAGTCTTC
* *
17032592 TTTTTCTCTCTTTTTCATCTTTTCTATTTT
1 TTTTTCTATCTTTTTCAT-TTTTCTATATT
* *
17032622 TTTTTCTATTTTTTTCATTTTTTCTCTATT
1 TTTTTCTATCTTTTTCA-TTTTTCTATATT
*
17032652 TTTTTCTTTTCTTCTTTCATTTTTC
1 TTTTTC-TATCTT-TTTCATTTTTC
17032677 ATCCATTATT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
30 30 0.65
31 11 0.24
32 5 0.11
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTTTCTATCTTTTTCATTTTTCTATATT
Found at i:17032634 original size:20 final size:19
Alignment explanation
Indices: 17032602--17032676 Score: 53
Period size: 20 Copynumber: 3.7 Consensus size: 19
17032592 TTTTTCTCTC
17032602 TTTTTCATCTTTTCTATTTT
1 TTTTTCAT-TTTTCTATTTT
*
17032622 TTTTTCTATTTTTTTCA-TTT
1 TTTTTC-ATTTTTCT-ATTTT
* * *
17032642 TTTCTCTATTTTTTTCTTTT
1 TTTTTC-ATTTTTCTATTTT
17032662 CTTCTTTCATTTTTC
1 -TT-TTTCATTTTTC
17032677 ATCCATTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
20 31 0.69
21 11 0.24
22 3 0.07
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTCATTTTTCTATTTT
Found at i:17032642 original size:18 final size:18
Alignment explanation
Indices: 17032620--17032666 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 18
17032610 CTTTTCTATT
17032620 TTTTTTTCTATTTTTTTC
1 TTTTTTTCTATTTTTTTC
17032638 ATTTTTTCTCTATTTTTTTC
1 -TTTTTT-TCTATTTTTTTC
*
17032658 TTTTCTTCT
1 TTTTTTTCT
17032667 TTCATTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 3 0.12
19 11 0.42
20 12 0.46
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTTCTATTTTTTTC
Found at i:17032658 original size:12 final size:11
Alignment explanation
Indices: 17032614--17032655 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
17032604 TTTCATCTTT
*
17032614 TCTATTTTTTTT
1 TCTA-TTTTTTC
17032626 TCTATTTTTT-
1 TCTATTTTTTC
17032636 TC-ATTTTTTC
1 TCTATTTTTTC
17032646 TCTATTTTTT
1 TCTATTTTTT
17032656 TCTTTTCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 7 0.25
10 4 0.14
11 13 0.46
12 4 0.14
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.79
Consensus pattern (11 bp):
TCTATTTTTTC
Found at i:17036911 original size:15 final size:15
Alignment explanation
Indices: 17036891--17036938 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
17036881 AAATTTAGAT
17036891 AAAATTTCTCAACTA
1 AAAATTTCTCAACTA
17036906 AAAATTT-T--A-TA
1 AAAATTTCTCAACTA
*
17036917 AAAATTTCTCACCTA
1 AAAATTTCTCAACTA
17036932 AAAATTT
1 AAAATTT
17036939 TATAAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
11 9 0.32
12 2 0.07
14 1 0.04
15 16 0.57
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATTTCTCAACTA
Found at i:17036950 original size:10 final size:11
Alignment explanation
Indices: 17036904--17036949 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 11
17036894 ATTTCTCAAC
17036904 TAAAAATTTTA
1 TAAAAATTTTA
17036915 TAAAAATTTCTCA
1 TAAAAATTT-T-A
17036928 CCTAAAAATTTTA
1 --TAAAAATTTTA
17036941 TAAAAATTT
1 TAAAAATTT
17036950 ACCATTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
11 18 0.58
12 1 0.03
13 2 0.06
14 1 0.03
15 9 0.29
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAAAATTTTA
Found at i:17036963 original size:25 final size:26
Alignment explanation
Indices: 17036891--17036949 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
17036881 AAATTTAGAT
*
17036891 AAAATTTCTCAACTAAAAATTTTATA
1 AAAATTTCTCACCTAAAAATTTTATA
17036917 AAAATTTCTCACCTAAAAATTTTATA
1 AAAATTTCTCACCTAAAAATTTTATA
17036943 AAAATTT
1 AAAATTT
17036950 ACCATTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (26 bp):
AAAATTTCTCACCTAAAAATTTTATA
Found at i:17037015 original size:16 final size:16
Alignment explanation
Indices: 17036993--17037032 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
17036983 ATAATTAATA
*
17036993 TTTATTTTCA-AATTT
1 TTTATTTTAATAATTT
17037008 TGTTATTTTAATAATTT
1 T-TTATTTTAATAATTT
17037025 TTTATTTT
1 TTTATTTT
17037033 TTCTAAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 15 0.68
17 6 0.27
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTATTTTAATAATTT
Found at i:17042295 original size:26 final size:26
Alignment explanation
Indices: 17042259--17042315 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
17042249 ATGCACGTTT
* *
17042259 AAATTAATACTCGTTAGTTGCCAAAA
1 AAATTAATACTCATTACTTGCCAAAA
*
17042285 AAATTAATACTCATTCCTTGCCAAAA
1 AAATTAATACTCATTACTTGCCAAAA
17042311 AAATT
1 AAATT
17042316 GCTCTTTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.32
Consensus pattern (26 bp):
AAATTAATACTCATTACTTGCCAAAA
Found at i:17042670 original size:10 final size:10
Alignment explanation
Indices: 17042657--17042685 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
17042647 TTTTTAAAAA
17042657 TTTTATTTTG
1 TTTTATTTTG
17042667 TTTTATTTTG
1 TTTTATTTTG
17042677 TTTTATTTT
1 TTTTATTTT
17042686 TTATTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (10 bp):
TTTTATTTTG
Found at i:17042817 original size:17 final size:16
Alignment explanation
Indices: 17042795--17042839 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
17042785 CTAGATTTGT
17042795 TATTAATAATATTATAA
1 TATTAATAATA-TATAA
17042812 TATTAAT-ATA-ATAA
1 TATTAATAATATATAA
*
17042826 TATTATTAATATAT
1 TATTAATAATATAT
17042840 TATTCTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
16 5 0.20
17 7 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTAATAATATATAA
Found at i:17043012 original size:11 final size:11
Alignment explanation
Indices: 17042996--17043067 Score: 51
Period size: 11 Copynumber: 6.5 Consensus size: 11
17042986 CAGTACTAAT
17042996 TTATTAATATA
1 TTATTAATATA
17043007 TTATTAATATAA
1 TTATTAATAT-A
* *
17043019 TATAGTATTATA
1 T-TATTAATATA
17043031 TTATCT-ATATA
1 TTAT-TAATATA
* *
17043042 ATA-TATTAT-
1 TTATTAATATA
17043051 TTATTAATATA
1 TTATTAATATA
*
17043062 ATATTA
1 TTATTA
17043068 TTTTGTATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
9 3 0.07
10 8 0.17
11 23 0.50
12 5 0.11
13 7 0.15
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (11 bp):
TTATTAATATA
Found at i:17043021 original size:16 final size:16
Alignment explanation
Indices: 17043000--17043065 Score: 68
Period size: 15 Copynumber: 4.4 Consensus size: 16
17042990 ACTAATTTAT
17043000 TAATATATTATTAATA
1 TAATATATTATTAATA
*
17043016 TAATATAGTATT-ATA
1 TAATATATTATTAATA
* *
17043031 TTATCTA-TA-TAATA
1 TAATATATTATTAATA
*
17043045 TATTAT-TTATTAATA
1 TAATATATTATTAATA
17043060 TAATAT
1 TAATAT
17043066 TATTTTGTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
13 1 0.03
14 10 0.25
15 18 0.45
16 11 0.28
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
TAATATATTATTAATA
Found at i:17043030 original size:24 final size:22
Alignment explanation
Indices: 17043007--17043085 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 22
17042997 TATTAATATA
17043007 TTATTAATATAATATAGTATTAT
1 TTATTAATATAATATA-TATTAT
17043030 ATTATCT-ATAT-A-ATATATTAT
1 -TTAT-TAATATAATATATATTAT
17043051 TTATTAATATAATAT-TATT-T
1 TTATTAATATAATATATATTAT
17043071 TGTATTAATATAATA
1 T-TATTAATATAATA
17043086 ATTATCATGT
Statistics
Matches: 50, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
19 1 0.02
20 10 0.20
21 24 0.48
22 5 0.10
23 1 0.02
24 8 0.16
25 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (22 bp):
TTATTAATATAATATATATTAT
Found at i:17043206 original size:15 final size:15
Alignment explanation
Indices: 17043186--17043215 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17043176 CACCATTCCT
*
17043186 TTTTTTTTTTTTTTC
1 TTTTTTTTTGTTTTC
17043201 TTTTTTTTTGTTTTC
1 TTTTTTTTTGTTTTC
17043216 AACAATTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (15 bp):
TTTTTTTTTGTTTTC
Found at i:17048961 original size:21 final size:21
Alignment explanation
Indices: 17048937--17048980 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
17048927 CTATCCCATA
*
17048937 CATCCTTATAGATAGTACATG
1 CATCCTCATAGATAGTACATG
17048958 CATCCTCATAGATAGTACATG
1 CATCCTCATAGATAGTACATG
17048979 CA
1 CA
17048981 CATCATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (21 bp):
CATCCTCATAGATAGTACATG
Found at i:17050732 original size:4 final size:4
Alignment explanation
Indices: 17050710--17050763 Score: 54
Period size: 4 Copynumber: 13.5 Consensus size: 4
17050700 TTGTCATTTC
* * * * *
17050710 TTCA TTCA CTCA ATGA TTCA TTCA TCCA TTCA TTCA TTCA TCCA TTCA
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA
*
17050758 TCCA TT
1 TTCA TT
17050764 TATGTATTTA
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.26, C:0.30, G:0.02, T:0.43
Consensus pattern (4 bp):
TTCA
Found at i:17050741 original size:8 final size:8
Alignment explanation
Indices: 17050728--17050763 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
17050718 CTCAATGATT
17050728 CATTCATC
1 CATTCATC
*
17050736 CATTCATT
1 CATTCATC
17050744 CATTCATC
1 CATTCATC
17050752 CATTCATC
1 CATTCATC
17050760 CATT
1 CATT
17050764 TATGTATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (8 bp):
CATTCATC
Found at i:17053607 original size:22 final size:22
Alignment explanation
Indices: 17053567--17053628 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
17053557 GAAAGAATAC
17053567 AAAAAAAAAA-AAAGAGAAA-GA
1 AAAAAAAAAAGAAAG-GAAAGGA
* *
17053588 AAAGAAAAAATGAGAGGAAAGGA
1 AAA-AAAAAAAGAAAGGAAAGGA
17053611 AAAAAAAAAAGAAAGGAA
1 AAAAAAAAAAGAAAGGAA
17053629 TGGGTTGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.09
22 23 0.68
23 8 0.24
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (22 bp):
AAAAAAAAAAGAAAGGAAAGGA
Found at i:17053624 original size:17 final size:18
Alignment explanation
Indices: 17053570--17053628 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 18
17053560 AGAATACAAA
*
17053570 AAAAAAAAAAGAGAAAGA
1 AAAAAAAAAAGAGAAAGG
17053588 AAAGAAAAAATGAGAGGAAAGG
1 AAA-AAAAAA--AGA-GAAAGG
17053610 AAAAAAAAAA-AGAAAGG
1 AAAAAAAAAAGAGAAAGG
17053627 AA
1 AA
17053629 TGGGTTGTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
17 8 0.22
18 4 0.11
19 7 0.19
21 9 0.25
22 8 0.22
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAAGAGAAAGG
Found at i:17054615 original size:34 final size:34
Alignment explanation
Indices: 17054490--17054700 Score: 191
Period size: 34 Copynumber: 6.2 Consensus size: 34
17054480 TTCATGTATG
* *
17054490 TAAGCCTAGTTTAGCTAGCCTTCAAAGAAAGAT-T
1 TAAGCCTAGTTCAGGTAGCCTTCAAAGAAA-ATAT
* * * *
17054524 TAAGCCCAGATT-AGTTGGCC-CCTAAAGGAAAAATAT
1 TAAGCCTAG-TTCAGGTAGCCTTC-AAA-G-AAAATAT
* * * *
17054560 TAAGCCCAATGT-AGCTGGCCTTCAAAGAAAA-AT
1 TAAGCCTAGT-TCAGGTAGCCTTCAAAGAAAATAT
17054593 CTAAGCCTAGTTCAGGTAGCCTTCAAAGAAAATAT
1 -TAAGCCTAGTTCAGGTAGCCTTCAAAGAAAATAT
17054628 TAAGCCTAGTTCAGGTAGCCTTCAAAGAAAATAT
1 TAAGCCTAGTTCAGGTAGCCTTCAAAGAAAATAT
* * * *
17054662 TAAGCCCAGTTTAGCTAGCCTTCAAAAAAAAT-T
1 TAAGCCTAGTTCAGGTAGCCTTCAAAGAAAATAT
17054695 TAAGCC
1 TAAGCC
17054701 CAAATTGGTT
Statistics
Matches: 152, Mismatches: 15, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
33 11 0.07
34 108 0.71
35 9 0.06
36 23 0.15
37 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (34 bp):
TAAGCCTAGTTCAGGTAGCCTTCAAAGAAAATAT
Found at i:17055362 original size:33 final size:33
Alignment explanation
Indices: 17055309--17055449 Score: 115
Period size: 33 Copynumber: 4.2 Consensus size: 33
17055299 GATACAAGAT
* * *
17055309 TTAAGCCCTGATTAGCTGGCCATCAATGAAATA
1 TTAAGCCCAGATTAGCTGGCCTTCAAAGAAATA
* *
17055342 TTAAGCCCAGTTTAGTTGGCCTTCAAAGAAAAATA
1 TTAAGCCCAGATTAGCTGGCCTTCAAAG--AAATA
* * * *
17055377 TTAAGCCTTA-TTTAACTGGCCTTCAAAGAAAGA
1 TTAAGCC-CAGATTAGCTGGCCTTCAAAGAAATA
* * * *
17055410 TTTAAGCCCCGATTAGTTGGCCCT-AATGAAATA
1 -TTAAGCCCAGATTAGCTGGCCTTCAAAGAAATA
17055443 TTAAGCC
1 TTAAGCC
17055450 TAATTTATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
32 7 0.08
33 34 0.40
34 16 0.19
35 28 0.33
36 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (33 bp):
TTAAGCCCAGATTAGCTGGCCTTCAAAGAAATA
Found at i:17055382 original size:35 final size:35
Alignment explanation
Indices: 17055337--17055431 Score: 113
Period size: 35 Copynumber: 2.7 Consensus size: 35
17055327 GCCATCAATG
17055337 AAATATTAAGCCCAGTTTAGTTGGCCTTCAAAGAA
1 AAATATTAAGCCCAGTTTAGTTGGCCTTCAAAGAA
* **
17055372 AAATATTAAGCCTTA-TTTAACTGGCCTTCAAAGAA
1 AAATATTAAGCC-CAGTTTAGTTGGCCTTCAAAGAA
* * *
17055407 AGAT-TTAAGCCCCGATTAGTTGGCC
1 AAATATTAAGCCCAGTTTAGTTGGCC
17055432 CTAATGAAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
34 15 0.31
35 33 0.67
36 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (35 bp):
AAATATTAAGCCCAGTTTAGTTGGCCTTCAAAGAA
Found at i:17055426 original size:69 final size:65
Alignment explanation
Indices: 17055324--17055456 Score: 158
Period size: 69 Copynumber: 2.0 Consensus size: 65
17055314 CCCTGATTAG
* * * * *
17055324 CTGGCCATCAATGAAATATTAAGCCCAGTTTAGTTGGCCTTCAAAGAAAAATATTAAGCCTTATT
1 CTGGCCATCAAAGAAAGATTAAGCCCAGATTAGTTGGCCCT-AAAG--AAATATTAAGCCTAATT
17055389 TAA
63 TAA
* * *
17055392 CTGGCCTTCAAAGAAAGATTTAAGCCCCGATTAGTTGGCCCTAATGAAATATTAAGCCTAATTTA
1 CTGGCCATCAAAGAAAGA-TTAAGCCCAGATTAGTTGGCCCTAAAGAAATATTAAGCCTAATTTA
17055457 TTTGACAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
66 18 0.32
68 18 0.32
69 20 0.36
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (65 bp):
CTGGCCATCAAAGAAAGATTAAGCCCAGATTAGTTGGCCCTAAAGAAATATTAAGCCTAATTTAA
Found at i:17055686 original size:24 final size:24
Alignment explanation
Indices: 17055657--17055703 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
17055647 GCACTTATTT
* *
17055657 AAGACATTTGCATTTGCTTCATGC
1 AAGACATTTGCACTTGCATCATGC
17055681 AAGACATTTGCACTTGCATCATG
1 AAGACATTTGCACTTGCATCATG
17055704 GTATTTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
AAGACATTTGCACTTGCATCATGC
Found at i:17056112 original size:33 final size:33
Alignment explanation
Indices: 17056060--17056287 Score: 153
Period size: 33 Copynumber: 6.9 Consensus size: 33
17056050 ATGATACAAG
* * * *
17056060 ATTAAAT-TTAAGCCTAGATTAGTTTGCCA-CT
1 ATTAAATATTAAGCCCAGATTAGCTGGCCACCA
17056091 ATTAAATTATTAAGCCCAGATTAGCTGGCCACCA
1 ATTAAA-TATTAAGCCCAGATTAGCTGGCCACCA
* * *
17056125 ATGAAATATTAAGCCCAGATTAGCTGGCCTCTA
1 ATTAAATATTAAGCCCAGATTAGCTGGCCACCA
* * * * *
17056158 ATGAAATATTAAGCCTCA-TTTAACTGGCCTTCAAA
1 ATTAAATATTAAGCC-CAGATTAGCTGGCC-AC-CA
* * **
17056193 AATAAGAT-TTAAGCCCAAATTAGCTAACCACCA
1 ATTAA-ATATTAAGCCCAGATTAGCTGGCCACCA
* * **
17056226 ATGAAATATTAAGCCCAGATTAGTTATCC-CCTA
1 ATTAAATATTAAGCCCAGATTAGCTGGCCACC-A
* *
17056259 A-TAAACTATTAAGCCTAGTTTAGCTGGCC
1 ATTAAA-TATTAAGCCCAGATTAGCTGGCC
17056288 TTTAACGAAA
Statistics
Matches: 157, Mismatches: 29, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
31 6 0.04
32 8 0.05
33 110 0.70
34 13 0.08
35 18 0.11
36 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (33 bp):
ATTAAATATTAAGCCCAGATTAGCTGGCCACCA
Found at i:17056185 original size:66 final size:66
Alignment explanation
Indices: 17056063--17056247 Score: 169
Period size: 66 Copynumber: 2.8 Consensus size: 66
17056053 ATACAAGATT
* * * * *
17056063 AAAT-TTAAGCCTAGATTAGTTTGCCACT-ATTAAATTATTAAGCCCAGATTAGCTGGCCACCAA
1 AAATATTAAGCCCAGATTAGCTAGCCACTAATGAAA-TATTAAGCCCAGATTAACTGGCCACCAA
**
17056126 TG
65 AA
* * * **
17056128 AAATATTAAGCCCAGATTAGCTGGCCTCTAATGAAATATTAAGCCTCA-TTTAACTGGCCTTCAA
1 AAATATTAAGCCCAGATTAGCTAGCCACTAATGAAATATTAAGCC-CAGATTAACTGGCCACCAA
17056192 AA
65 AA
* * * *
17056194 ATAAGATTTAAGCCCAAATTAGCTAACCACCAATGAAATATTAAGCCCAGATTA
1 A-AATA-TTAAGCCCAGATTAGCTAGCCACTAATGAAATATTAAGCCCAGATTA
17056248 GTTATCCCCT
Statistics
Matches: 96, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
65 4 0.04
66 42 0.44
67 12 0.12
68 38 0.40
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (66 bp):
AAATATTAAGCCCAGATTAGCTAGCCACTAATGAAATATTAAGCCCAGATTAACTGGCCACCAAA
A
Found at i:17056286 original size:101 final size:100
Alignment explanation
Indices: 17056100--17056350 Score: 310
Period size: 101 Copynumber: 2.5 Consensus size: 100
17056090 TATTAAATTA
* * * *
17056100 TTAAGCCCAGATTAGCTGGCCACCAATGAAATATTAAGCCCAGATTAGCTGGCCTCTAATGAAAT
1 TTAAGCCCAGATTAGCTAGCCACCAATGAAATATTAAGCCCAGATTAGTTAGCCCCTAATGAAAT
17056165 ATTAAGCCTCATTTAACTGGCCTTCAAAAATAAGAT
66 ATTAAGCCTCATTTAACTGGCCTTCAAAAA-AAGAT
* * *
17056201 TTAAGCCCAAATTAGCTAACCACCAATGAAATATTAAGCCCAGATTAGTTATCCCCTAAT-AAAC
1 TTAAGCCCAGATTAGCTAGCCACCAATGAAATATTAAGCCCAGATTAGTTAGCCCCTAATGAAA-
* * **
17056265 TATTAAGCCT-AGTTTAGCTGGCCTTTAACGAAAGAT
65 TATTAAGCCTCA-TTTAACTGGCCTTCAAAAAAAGAT
* * * *
17056301 TTAAGCCTAGATTAGCTAGCC-CAAATGCAAATTTTAAGCCCATATTAGTT
1 TTAAGCCCAGATTAGCTAGCCACCAATG-AAATATTAAGCCCAGATTAGTT
17056351 GACACAGAAA
Statistics
Matches: 130, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
99 5 0.04
100 47 0.36
101 78 0.60
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (100 bp):
TTAAGCCCAGATTAGCTAGCCACCAATGAAATATTAAGCCCAGATTAGTTAGCCCCTAATGAAAT
ATTAAGCCTCATTTAACTGGCCTTCAAAAAAAGAT
Found at i:17056563 original size:107 final size:108
Alignment explanation
Indices: 17056452--17056927 Score: 414
Period size: 107 Copynumber: 4.4 Consensus size: 108
17056442 CATTATTTGC
* * * * *
17056452 TTCTTAACTTACGGTGTCATTTTGGTCATTTTGTTATTTCTTAACTTGCGATGTCGTTCAGTTAT
1 TTCTCAACTTACGGTGTCGTTTTGGTCATTTTGTTATTTCTCAACTTGCGATGTCATTCA-TCAT
* * *
17056517 TATTCATTTCTCAGCTTGGGGTGTCA-TTCT-ATTGTTATTTAT
65 TATTCATTTCTCAACTTGCGGTGTCATTTCTCATTGTTATTCAT
* * * * * * *
17056559 TTCTTAACTTACAGTGTCGTTCTGGTCATTTTGCTATTTCTCAACATGTGGTGTCATTACATCAT
1 TTCTCAACTTACGGTGTCGTTTTGGTCATTTTGTTATTTCTCAACTTGCGATGTCATT-CATCAT
17056624 TATTCATTTC-CTAACTTGCGGTGTCATTTCGTCA--G-TATTCAT
65 TATTCATTTCTC-AACTTGCGGTGTCATTTC-TCATTGTTATTCAT
* ** * * * * * **
17056666 TTCTCAACTTGCAATGTCGTTATAGTTATCTTATTATTTCTCAACTTATGATGTCATTCTATCAT
1 TTCTCAACTTACGGTGTCGTTTTGGTCATTTTGTTATTTCTCAACTTGCGATGTCATTC-ATCAT
* * * * *
17056731 TATTTATTTATCAACTTGCGGAGTCA-TT-TCGTTGTTATTTAT
65 TATTCATTTCTCAACTTGCGGTGTCATTTCTCATTGTTATTCAT
* * * * ** *
17056773 TTCTCAACTTGCGGTGTCGTTTCGATCATTTTGTTATTTCTCAACTTGCGGTGTCATTTTGTCGT
1 TTCTCAACTTACGGTGTCGTTTTGGTCATTTTGTTATTTCTCAACTTGCGATGTCA-TTCATCAT
* * *
17056838 TATTCATTTCTAAACTTGTGGTGTCATTTCT--TTGTTATTCGT
65 TATTCATTTCTCAACTTGCGGTGTCATTTCTCATTGTTATTCAT
* * *** *
17056880 TTCTCAACTTACGGTATTGTTTCAATCATTTTGTTATTTTTCAACTTG
1 TTCTCAACTTACGGTGTCGTTTTGGTCATTTTGTTATTTCTCAACTTG
17056928 TAGGTTGTCC
Statistics
Matches: 299, Mismatches: 57, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
104 2 0.01
106 5 0.02
107 278 0.93
108 11 0.04
109 2 0.01
110 1 0.00
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (108 bp):
TTCTCAACTTACGGTGTCGTTTTGGTCATTTTGTTATTTCTCAACTTGCGATGTCATTCATCATT
ATTCATTTCTCAACTTGCGGTGTCATTTCTCATTGTTATTCAT
Found at i:17056576 original size:35 final size:35
Alignment explanation
Indices: 17056404--17056581 Score: 108
Period size: 35 Copynumber: 5.0 Consensus size: 35
17056394 TGTTGTTCCA
* * *
17056404 ATCATTTTGTTATTTCTCAACTTATAGTGTCGTTCT
1 ATCATTAT-TTATTTCTTAACTTACAGTGTCGTTCT
** * * *
17056440 ATCATTATTTGCTTCTTAACTTACGGTGTCATTTT
1 ATCATTATTTATTTCTTAACTTACAGTGTCGTTCT
* * *
17056475 GGTCATTTTGTTATTTCTTAACTTGC-GATGTCGTTC-
1 -ATCATTAT-TTATTTCTTAACTTACAG-TGTCGTTCT
* * * * *** *
17056511 AGTTATTATTCATTTCTCAGCTTGGGGTGTCATTCT
1 A-TCATTATTTATTTCTTAACTTACAGTGTCGTTCT
**
17056547 ATTGTTATTTATTTCTTAACTTACAGTGTCGTTCT
1 ATCATTATTTATTTCTTAACTTACAGTGTCGTTCT
17056582 GGTCATTTTG
Statistics
Matches: 105, Mismatches: 31, Indels: 13
0.70 0.21 0.09
Matches are distributed among these distances:
35 65 0.62
36 21 0.20
37 19 0.18
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.51
Consensus pattern (35 bp):
ATCATTATTTATTTCTTAACTTACAGTGTCGTTCT
Found at i:17056612 original size:72 final size:70
Alignment explanation
Indices: 17056485--17056854 Score: 180
Period size: 72 Copynumber: 5.2 Consensus size: 70
17056475 GGTCATTTTG
* * * *
17056485 TTATTTCTTAACTTGCGATGTCGTTCAGTTATTATTCATTTCTCAGCTTGGGGTGTCATTCTATT
1 TTATTTCTTAACTTACGATGTCGTTCAGTCATTATTCATTTCTCAACATGGGGTGTCATTCTATT
17056550 GTTAT
66 GTTAT
* *
17056555 TTATTTCTTAACTTAC-AGTGTCGTTCTGGTCATT-TTGCTATTTCTCAACATGTGGTGTCATTA
1 TTATTTCTTAACTTACGA-TGTCGTTC-AGTCATTATT-C-ATTTCTCAACATGGGGTGTCATT-
**
17056618 C-ATCATTAT
61 CTATTGTTAT
* * * * * * * *** * *
17056627 TCATTTCCTAACTTGCGGTGTCATTTC-GTCAGTATTCATTTCTCAACTTGCAATGTCGTTATAG
1 TTATTTCTTAACTTACGATGTC-GTTCAGTCATTATTCATTTCTCAACATGGGGTGTCATTCTA-
*
17056691 TTATCT-T
64 TTGT-TAT
* * * * * * * *
17056698 ATTATTTCTCAACTTATGATGTCATTCTA-TCATTATTTATTTATCAACTTGCGGAGTCATT-TC
1 -TTATTTCTTAACTTACGATGTCGTTC-AGTCATTATTCATTTCTCAACATGGGGTGTCATTCT-
*
17056761 GTTGTTAT
63 ATTGTTAT
* * * * * * * *
17056769 TTATTTCTCAACTTGCGGTGTCGTTTC-GATCATTTTGTTATTTCTCAACTTGCGGTGTCATTTT
1 TTATTTCTTAACTTACGATGTCG-TTCAG-TCATTAT-TCATTTCTCAACATGGGGTGTCATTCT
* *
17056833 GTCGTTAT
63 ATTGTTAT
* *
17056841 TCATTTCTAAACTT
1 TTATTTCTTAACTT
17056855 GTGGTGTCAT
Statistics
Matches: 232, Mismatches: 47, Indels: 40
0.73 0.15 0.13
Matches are distributed among these distances:
69 1 0.00
70 64 0.28
71 33 0.14
72 129 0.56
73 5 0.02
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.48
Consensus pattern (70 bp):
TTATTTCTTAACTTACGATGTCGTTCAGTCATTATTCATTTCTCAACATGGGGTGTCATTCTATT
GTTAT
Found at i:17056647 original size:35 final size:35
Alignment explanation
Indices: 17056487--17056894 Score: 229
Period size: 35 Copynumber: 11.5 Consensus size: 35
17056477 TCATTTTGTT
* * * *
17056487 ATTTCTTAACTTGCGATGTC-GTTCAGTTATTATTC
1 ATTTCTCAACTTGCGGTGTCATTTCA-TCATTATTC
* * ** *
17056522 ATTTCTCAGCTTGGGGTGTCA-TTCTATTGTTATTT
1 ATTTCTCAACTTGCGGTGTCATTTC-ATCATTATTC
* * * * **
17056557 ATTTCTTAACTTACAGTGTCGTTCTGGTCATT-TTGC
1 ATTTCTCAACTTGCGGTGTCATT-TCATCATTATT-C
* * *
17056593 TATTTCTCAACATGTGGTGTCATTACATCATTATTC
1 -ATTTCTCAACTTGCGGTGTCATTTCATCATTATTC
* *
17056629 ATTTC-CTAACTTGCGGTGTCATTTCGTCAGTATTC
1 ATTTCTC-AACTTGCGGTGTCATTTCATCATTATTC
* *
17056664 ATTTCTCAACTTGCAATGTCGTTATAGTT-ATC-TTATT-
1 ATTTCTCAACTTGC--GGT-GTCAT--TTCATCATTATTC
** * *
17056701 ATTTCTCAACTTATGATGTCA-TTCTATCATTATTT
1 ATTTCTCAACTTGCGGTGTCATTTC-ATCATTATTC
* * * ** *
17056736 ATTTATCAACTTGCGGAGTCATTTCGTTGTTATTT
1 ATTTCTCAACTTGCGGTGTCATTTCATCATTATTC
* * *
17056771 ATTTCTCAACTTGCGGTGTCGTTTCGATCATTTTGTT
1 ATTTCTCAACTTGCGGTGTCATTTC-ATCATTAT-TC
** *
17056808 ATTTCTCAACTTGCGGTGTCATTTTGTCGTTATTC
1 ATTTCTCAACTTGCGGTGTCATTTCATCATTATTC
* * * **
17056843 ATTTCTAAACTTGTGGTGTCATTTCTTTGTTATTC
1 ATTTCTCAACTTGCGGTGTCATTTCATCATTATTC
* *
17056878 GTTTCTCAACTTACGGT
1 ATTTCTCAACTTGCGGT
17056895 ATTGTTTCAA
Statistics
Matches: 282, Mismatches: 70, Indels: 42
0.72 0.18 0.11
Matches are distributed among these distances:
31 2 0.01
33 3 0.01
34 9 0.03
35 173 0.61
36 24 0.09
37 59 0.21
38 8 0.03
39 2 0.01
40 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (35 bp):
ATTTCTCAACTTGCGGTGTCATTTCATCATTATTC
Found at i:17056926 original size:214 final size:214
Alignment explanation
Indices: 17056477--17056926 Score: 473
Period size: 214 Copynumber: 2.1 Consensus size: 214
17056467 GTCATTTTGG
* * * * * * *
17056477 TCATTTTGTTATTTCTT-AACTTGCGATGTCGTTCAGTTATTATTCATTTCTCAGCTTGGGGTGT
1 TCATTTTGTTATTT-TTCAACTTACGATGTCATTCAGTCATTATTCATTTATCAACTTGCGGAGT
* *
17056541 CATTCTATTGTTATTTATTTCTTAACTTACAGTGTCGTTCTGGTCATTTTGCTATTTCTCAACAT
65 CATTCTATTGTTATTTATTTCTCAACTTACAGTGTCGTTCTGATCATTTTGCTATTTCTCAACAT
*
17056606 GTGGTGTCATTACATCATTATTCATTTCCTAACTTGCGGTGTCATTTCGTCAGTATTCATTTCTC
130 GCGGTGTCATTACATCATTATTCATTTCCTAACTTGCGGTGTCATTTCGTCAGTATTCATTTCTC
* * *
17056671 AACTTGCAATGTCGTTATAG
195 AACTTACAATATCGTTATAA
* * * * * *
17056691 TTATCTTATTATTTCTCAACTTATGATGTCATTCTA-TCATTATTTATTTATCAACTTGCGGAGT
1 TCATTTTGTTATTTTTCAACTTACGATGTCATTC-AGTCATTATTCATTTATCAACTTGCGGAGT
* * * *
17056755 CATT-TCGTTGTTATTTATTTCTCAACTTGCGGTGTCGTT-TCGATCATTTTGTTATTTCTCAAC
65 CATTCT-ATTGTTATTTATTTCTCAACTTACAGTGTCGTTCT-GATCATTTTGCTATTTCTCAAC
* *** * * ** *
17056818 TTGCGGTGTCATTTTGTCGTTATTCATTT-CTAAACTTGTGGTGTCATTTC-TTTGTTATTCGTT
128 ATGCGGTGTCATTACATCATTATTCATTTCCT-AACTTGCGGTGTCATTTCGTCAG-TATTCATT
** *
17056881 TCTCAACTTACGGTATTGTT-TCAA
191 TCTCAACTTACAATATCGTTAT-AA
17056905 TCATTTTGTTATTTTTCAACTT
1 TCATTTTGTTATTTTTCAACTT
17056927 GTAGGTTGTC
Statistics
Matches: 190, Mismatches: 39, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
213 8 0.04
214 181 0.95
215 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (214 bp):
TCATTTTGTTATTTTTCAACTTACGATGTCATTCAGTCATTATTCATTTATCAACTTGCGGAGTC
ATTCTATTGTTATTTATTTCTCAACTTACAGTGTCGTTCTGATCATTTTGCTATTTCTCAACATG
CGGTGTCATTACATCATTATTCATTTCCTAACTTGCGGTGTCATTTCGTCAGTATTCATTTCTCA
ACTTACAATATCGTTATAA
Found at i:17056985 original size:22 final size:21
Alignment explanation
Indices: 17056957--17057005 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
17056947 TATTTAAAAA
17056957 AAAAAAAAACATACAAAGAA-AC
1 AAAAAAAAACATA-AAA-AATAC
17056979 AAAAAAAAACATAAAAAATAC
1 AAAAAAAAACATAAAAAATAC
17057000 AAAAAA
1 AAAAAA
17057006 GTAAGGGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.08
21 11 0.42
22 13 0.50
ACGTcount: A:0.82, C:0.10, G:0.02, T:0.06
Consensus pattern (21 bp):
AAAAAAAAACATAAAAAATAC
Found at i:17058118 original size:29 final size:31
Alignment explanation
Indices: 17058057--17058121 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
17058047 AAGAAAAAAG
*
17058057 AAAAAAAAAGAGAAAGAGAGAACATAAACCA
1 AAAAAAAAAGAGAAAGAGAGAACATAAAACA
*
17058088 AAAACAAAAAGAG-AAGAGAG-CCA-AAAACA
1 AAAA-AAAAAGAGAAAGAGAGAACATAAAACA
17058117 AAAAA
1 AAAAA
17058122 TTTTTTTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 1 0.03
29 9 0.29
30 2 0.06
31 11 0.35
32 8 0.26
ACGTcount: A:0.72, C:0.11, G:0.15, T:0.02
Consensus pattern (31 bp):
AAAAAAAAAGAGAAAGAGAGAACATAAAACA
Found at i:17059412 original size:16 final size:16
Alignment explanation
Indices: 17059391--17059421 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17059381 ATATAAAATT
*
17059391 TAAAGTTTGTTTTTAA
1 TAAAGTTTATTTTTAA
17059407 TAAAGTTTATTTTTA
1 TAAAGTTTATTTTTA
17059422 GGTGTGTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (16 bp):
TAAAGTTTATTTTTAA
Found at i:17062036 original size:145 final size:143
Alignment explanation
Indices: 17061681--17062087 Score: 348
Period size: 145 Copynumber: 2.8 Consensus size: 143
17061671 ATTTCCTAAT
* * * * ** *
17061681 TTTTTATGCATTGGAAA-CCTAATCGCACC-TCCAAAAGATTGAAATTACCAAAAT-GTCTTTTA
1 TTTTGATGCATTGAAAACCCTAATTGCACCAT--AAAAGGTTGAAATTACCAAAATACCCTTTAA
* **
17061743 GAGGTATTTTTGTAATTT-AACTTTCTCGAGGTTGATTTTTACGAAAAGCTTCAGATCATGTTTT
64 G-GGTATTTTTGTAATTTGAACTTTCTCGAGGTTGATTTTTACGAAAAGCTTCAGATAATAATTT
*
17061807 GGTATTATTTCAAGGA
128 GGTATTATTTCAAGAA
** ** * * * * *
17061823 TTTTGATGCATTGAAAATTCTAATTGTTCCTTAAAAGGATTGAAAGTACCAAACTACCTTTTAGG
1 TTTTGATGCATTGAAAACCCTAATTGCACCATAAAAGG-TTGAAATTACCAAAATACCCTTTAAG
*
17061888 GGTATTTTTGTAATTTGATA-TTT-TCGAGGTTGATTTTTCATGAAAAGCTTC-GAATTAATAAT
65 GGTATTTTTGTAATTTGA-ACTTTCTCGAGGTTGATTTTT-ACGAAAAGCTTCAG-A-TAATAAT
* *
17061950 TTGGTGTTATTTCATGAA
126 TTGGTATTATTTCAAGAA
* * *
17061968 TTTTGGCT-CATTGAAAACCCTGATTGCACCATAGAAAGGTTGTAATTACCAAAATACCCTTTAA
1 TTTT-GATGCATTGAAAACCCTAATTGCACCATA-AAAGGTTGAAATTACCAAAATACCCTTTAA
** * * * *
17062032 GGGTATTTTCATAATTTGACCTTCCT-AAGGTT-AGTTTTTCACGAAAAGCTCCAGAT
64 GGGTATTTTTGTAATTTGAACTTTCTCGAGGTTGA-TTTTT-ACGAAAAGCTTCAGAT
17062088 CATGATTAGT
Statistics
Matches: 210, Mismatches: 40, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
142 20 0.10
143 54 0.26
144 23 0.11
145 104 0.50
146 9 0.04
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.39
Consensus pattern (143 bp):
TTTTGATGCATTGAAAACCCTAATTGCACCATAAAAGGTTGAAATTACCAAAATACCCTTTAAGG
GTATTTTTGTAATTTGAACTTTCTCGAGGTTGATTTTTACGAAAAGCTTCAGATAATAATTTGGT
ATTATTTCAAGAA
Found at i:17063574 original size:6 final size:6
Alignment explanation
Indices: 17063553--17063586 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
17063543 AAACCCTAAA
* *
17063553 CCAAGC CTAGGC CCAAGC CCAAGC CCAAGC CCAA
1 CCAAGC CCAAGC CCAAGC CCAAGC CCAAGC CCAA
17063587 AGCCTCAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.32, C:0.47, G:0.18, T:0.03
Consensus pattern (6 bp):
CCAAGC
Found at i:17063718 original size:12 final size:12
Alignment explanation
Indices: 17063677--17063930 Score: 73
Period size: 12 Copynumber: 20.3 Consensus size: 12
17063667 CTCTAAATCC
17063677 TAAACCAAA-CC
1 TAAACCAAACCC
17063688 TCAAACCCCAAACCC
1 T-AAA--CCAAACCC
17063703 -AAACCCTAAA-CC
1 TAAA-CC-AAACCC
17063715 -AAACCCAAACCC
1 TAAA-CCAAACCC
17063727 T-AACCTAAACCC
1 TAAACC-AAACCC
*
17063739 TAAACCAAGCCC
1 TAAACCAAACCC
*
17063751 -AAACTCAAAACC
1 TAAAC-CAAACCC
*
17063763 TAAACCTAAACCT
1 TAAACC-AAACCC
* * *
17063776 TAACCCTAATCC
1 TAAACCAAACCC
* *
17063788 TAAACCAAGCTC
1 TAAACCAAACCC
*
17063800 -AAACCCTCAAACCT
1 TAAA--C-CAAACCC
*
17063814 TAAACCAAA-GC
1 TAAACCAAACCC
*
17063825 TAAAGCCTCAAATCC
1 TAAA--C-CAAACCC
*
17063840 TAAACCAAATCC
1 TAAACCAAACCC
17063852 -AAACCCCAAACCC
1 TAAA--CCAAACCC
*
17063865 TAAACCTAA-CC
1 TAAACCAAACCC
*
17063876 TAAACCTTAAA-TC
1 TAAACC--AAACCC
*
17063889 -AAAGTCAAACCC
1 TAAA-CCAAACCC
*
17063901 TAAGCACAAACACC
1 TAAAC-CAAAC-CC
*
17063915 TAAAACAAACCC
1 TAAACCAAACCC
17063927 TAAA
1 TAAA
17063931 TTGAAACCAA
Statistics
Matches: 183, Mismatches: 30, Indels: 59
0.67 0.11 0.22
Matches are distributed among these distances:
11 31 0.17
12 71 0.39
13 50 0.27
14 21 0.11
15 10 0.05
ACGTcount: A:0.47, C:0.37, G:0.02, T:0.13
Consensus pattern (12 bp):
TAAACCAAACCC
Found at i:17063718 original size:18 final size:18
Alignment explanation
Indices: 17063695--17064005 Score: 80
Period size: 18 Copynumber: 16.1 Consensus size: 18
17063685 ACCTCAAACC
17063695 CCAAACCCAAACCCTAAA
1 CCAAACCCAAACCCTAAA
17063713 CCAAACCCAAACCCT-AA
1 CCAAACCCAAACCCTAAA
*
17063730 CCTAAACCCTAAACCAAGCCCAAA
1 CC-AAACCC-AAA-C---CCTAAA
*
17063754 CTCAAAACCTAAA-CCTAAA
1 C-C-AAACCCAAACCCTAAA
* * *
17063773 CCTTAACCCTAATCCTAAA
1 CC-AAACCCAAACCCTAAA
* *
17063792 CCAAGCTCAAACCCTCAAA
1 CCAAACCCAAACCCT-AAA
*
17063811 CCTTAAA-CCAAA-GCTAAA
1 CC--AAACCCAAACCCTAAA
*
17063829 GCCTCAAATCCTAAA-CC-AAA
1 --C-CAAA-CCCAAACCCTAAA
17063849 TCCAAACCCCAAACCCTAAA
1 -CCAAA-CCCAAACCCTAAA
* * *
17063869 CCTAACCTAAACCTTAAA
1 CCAAACCCAAACCCTAAA
* **
17063887 TCAAAGTCAAACCCTAAGCA
1 CCAAACCCAAACCCTAA--A
*
17063907 CAAACACCTAAAACAAACCCTAAA
1 CCAA-ACC-----CAAACCCTAAA
** *
17063931 TTGAAA-CCAAGCCCTAAA
1 -CCAAACCCAAACCCTAAA
* *
17063949 CTAAACCCCAAACTCTAAA
1 CCAAA-CCCAAACCCTAAA
* *
17063968 CCAAACTCAAACCTTAAA
1 CCAAACCCAAACCCTAAA
* *
17063986 TCGAAA-CCAAATCCTAAA
1 -CCAAACCCAAACCCTAAA
17064004 CC
1 CC
17064006 TTAAACCGAA
Statistics
Matches: 212, Mismatches: 50, Indels: 63
0.65 0.15 0.19
Matches are distributed among these distances:
17 8 0.04
18 99 0.47
19 52 0.25
20 15 0.07
21 9 0.04
23 3 0.01
24 8 0.04
25 8 0.04
26 10 0.05
ACGTcount: A:0.47, C:0.36, G:0.03, T:0.14
Consensus pattern (18 bp):
CCAAACCCAAACCCTAAA
Found at i:17063775 original size:6 final size:6
Alignment explanation
Indices: 17063669--17063882 Score: 97
Period size: 6 Copynumber: 34.3 Consensus size: 6
17063659 AAGTGAACCT
* *
17063669 CTAAATC CTAAAC C-AAAC CTCAAACC CCAAAC CCAAACC CTAAAC C-AAAC
1 CTAAA-C CTAAAC CTAAAC CT-AAA-C CTAAAC CTAAA-C CTAAAC CTAAAC
* * * *
17063719 CCAAACC CT-AAC CTAAACC CTAAAC C-AAGC CCAAAC TCAAAAC CTAAAC
1 CTAAA-C CTAAAC CTAAA-C CTAAAC CTAAAC CTAAAC -CTAAAC CTAAAC
* * *
17063768 CTAAAC CTTAACC CTAATC CTAAAC C--AAG CTCAAACC CTCAAAC CTTAAAC
1 CTAAAC C-TAAAC CTAAAC CTAAAC CTAAAC CT-AAA-C CT-AAAC C-TAAAC
* *
17063819 C-AAAG CTAAAGC CTCAAATC CTAAAC C-AAATC C-AAACC CCAAACC
1 CTAAAC CTAAA-C CT-AAA-C CTAAAC CTAAA-C CTAAA-C CTAAA-C
17063864 CTAAAC CT-AAC CTAAAC CT
1 CTAAAC CTAAAC CTAAAC CT
17063883 TAAATCAAAG
Statistics
Matches: 168, Mismatches: 17, Indels: 45
0.73 0.07 0.20
Matches are distributed among these distances:
4 3 0.02
5 29 0.17
6 64 0.38
7 57 0.34
8 15 0.09
ACGTcount: A:0.45, C:0.39, G:0.02, T:0.14
Consensus pattern (6 bp):
CTAAAC
Found at i:17063801 original size:43 final size:43
Alignment explanation
Indices: 17063728--17063819 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
17063718 CCCAAACCCT
*
17063728 AACCTAAACCCTAAACCAAGCCCAAACTCAAAACCTAAACCTA
1 AACCTAAACCCTAAACCAAGACCAAACTCAAAACCTAAACCTA
* * * *
17063771 AACCTTAACCCTAATCCTAA-ACCAAGCTCAAACCCTCAAACCTTA
1 AACCTAAACCCTAAACC-AAGACCAAACTCAAAACCT-AAACC-TA
17063816 AACC
1 AACC
17063820 AAAGCTAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 28 0.68
44 7 0.17
45 6 0.15
ACGTcount: A:0.45, C:0.38, G:0.02, T:0.15
Consensus pattern (43 bp):
AACCTAAACCCTAAACCAAGACCAAACTCAAAACCTAAACCTA
Found at i:17063819 original size:26 final size:25
Alignment explanation
Indices: 17063737--17063870 Score: 93
Period size: 25 Copynumber: 5.3 Consensus size: 25
17063727 TAACCTAAAC
*
17063737 CCTAAACCAAGCCCAAA--CTCAAAA
1 CCTAAACCAAGCTCAAACCCTC-AAA
* * *
17063761 CCTAAACCTAAAC-CTTAACCCT-AAT
1 CCTAAACC-AAGCTC-AAACCCTCAAA
17063786 CCTAAACCAAGCTCAAACCCTCAAA
1 CCTAAACCAAGCTCAAACCCTCAAA
*
17063811 CCTTAAACCAAAGCT-AAAGCCTCAAA
1 CC-TAAACC-AAGCTCAAACCCTCAAA
*
17063837 TCCTAAACCAA-ATCCAAACCC-CAAA
1 -CCTAAACCAAGCT-CAAACCCTCAAA
17063862 CCCTAAACC
1 -CCTAAACC
17063871 TAACCTAAAC
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
24 19 0.21
25 34 0.38
26 27 0.30
27 9 0.10
ACGTcount: A:0.45, C:0.38, G:0.03, T:0.14
Consensus pattern (25 bp):
CCTAAACCAAGCTCAAACCCTCAAA
Found at i:17064004 original size:25 final size:25
Alignment explanation
Indices: 17063976--17064023 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
17063966 AACCAAACTC
*
17063976 AAACCTTAAATCGAAACCAAATCCT
1 AAACCTTAAACCGAAACCAAATCCT
*
17064001 AAACCTTAAACCGAAACTAAATC
1 AAACCTTAAACCGAAACCAAATC
17064024 GAACCAAGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.50, C:0.27, G:0.04, T:0.19
Consensus pattern (25 bp):
AAACCTTAAACCGAAACCAAATCCT
Found at i:17064057 original size:19 final size:18
Alignment explanation
Indices: 17064025--17064068 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
17064015 AACTAAATCG
*
17064025 AACCAAGTCTTAAAACCT
1 AACCAAGTCCTAAAACCT
*
17064043 AACCTAAGTCCTAAACCCT
1 AACC-AAGTCCTAAAACCT
17064062 AATCCAA
1 AA-CCAA
17064069 ACTTTAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 16 0.73
20 2 0.09
ACGTcount: A:0.43, C:0.32, G:0.05, T:0.20
Consensus pattern (18 bp):
AACCAAGTCCTAAAACCT
Found at i:17066675 original size:63 final size:65
Alignment explanation
Indices: 17066587--17066707 Score: 158
Period size: 63 Copynumber: 1.9 Consensus size: 65
17066577 TTTTTAAACA
*
17066587 ATAAAATCATCCAATAAGTTGGTAAGGTTTTGT-AATTAATTT-TCAAAAATTATTTTCAAATCC
1 ATAAAATCATCCAATAAGTTGGTAAGGTTTTATAAATTAATTTCTCAAAAATTATTTTCAAATCC
* * * * *
17066650 ATAAAATCCTCCAATATGTCT-GTAAGGTTTTATAAATTCATTTCTTAAAATTTATTTT
1 ATAAAATCATCCAATAAGT-TGGTAAGGTTTTATAAATTAATTTCTCAAAAATTATTTT
17066708 TTTAAACTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 28 0.57
64 9 0.18
65 12 0.24
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (65 bp):
ATAAAATCATCCAATAAGTTGGTAAGGTTTTATAAATTAATTTCTCAAAAATTATTTTCAAATCC
Found at i:17069493 original size:1 final size:1
Alignment explanation
Indices: 17069487--17069513 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
17069477 CTTGTTTAAG
17069487 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
17069514 GCTTTGAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:17072004 original size:14 final size:14
Alignment explanation
Indices: 17071982--17072011 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17071972 AAAGAACAAA
*
17071982 TTCTTTATCTTCGC
1 TTCTCTATCTTCGC
17071996 TTCTCTATCTTCGC
1 TTCTCTATCTTCGC
17072010 TT
1 TT
17072012 TGAGAGCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.30, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCTCTATCTTCGC
Done.