Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008008.1 Hibiscus syriacus cultivar Beakdansim tig00110470_pilon, 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: 294377
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:12806 original size:24 final size:24
Alignment explanation
Indices: 12778--12836 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
12768 GTGAAGACAA
12778 GAGTCGAGAGTAGCGAGCGAGTGT
1 GAGTCGAGAGTAGCGAGCGAGTGT
12802 GAGTCGAGAGTAGCGAGCGAGTGT
1 GAGTCGAGAGTAGCGAGCGAGTGT
*
12826 GAG-CGTGAGTA
1 GAGTCGAGAGTA
12837 AATTGAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 7 0.21
24 27 0.79
ACGTcount: A:0.25, C:0.12, G:0.46, T:0.17
Consensus pattern (24 bp):
GAGTCGAGAGTAGCGAGCGAGTGT
Found at i:19312 original size:18 final size:18
Alignment explanation
Indices: 19289--19334 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
19279 GTAATTGAAC
19289 GTTGTTCTAATATAAAGA
1 GTTGTTCTAATATAAAGA
19307 GTTGTTCTAATATAAAGA
1 GTTGTTCTAATATAAAGA
19325 GTTGTTCTAA
1 GTTGTTCTAA
19335 GGAGTCGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (18 bp):
GTTGTTCTAATATAAAGA
Found at i:23096 original size:2 final size:2
Alignment explanation
Indices: 23089--23126 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
23079 AGATCCTCTC
23089 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23127 CTTCTCTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26630 original size:6 final size:6
Alignment explanation
Indices: 26609--26769 Score: 87
Period size: 6 Copynumber: 24.3 Consensus size: 6
26599 ATTTTGCTTG
26609 AAGAATA AATGAAA AAGAAA AAGAGAA AAG-AA AAGAAA AAGGAAA AAGGAAA
1 AAGAA-A AA-GAAA AAGAAA AAGA-AA AAGAAA AAGAAA AA-GAAA AA-GAAA
* * *
26661 AAGGAAAA AATGAAA TGAA-AAA ATGAAA ATGATGAA AAGAAA ATGATGAA
1 AA-G-AAA AA-GAAA --AAGAAA AAGAAA AAGA--AA AAGAAA AAGA--AA
*
26711 AAGAAA AAGAAA AATGAAAA AATGAAA AGGAAA AAGAAA AA-AAGA AA-AAA
1 AAGAAA AAGAAA AA-G-AAA AA-GAAA AAGAAA AAGAAA AAGAA-A AAGAAA
26761 AATGAAA AA
1 AA-GAAA AA
26770 ACGGAGAAAA
Statistics
Matches: 130, Mismatches: 7, Indels: 34
0.76 0.04 0.20
Matches are distributed among these distances:
5 11 0.08
6 50 0.38
7 41 0.32
8 26 0.20
9 2 0.02
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (6 bp):
AAGAAA
Found at i:26636 original size:14 final size:14
Alignment explanation
Indices: 26620--26759 Score: 77
Period size: 14 Copynumber: 10.3 Consensus size: 14
26610 AGAATAAATG
26620 AAAA-AGAAAAAGA
1 AAAAGAGAAAAAGA
*
26633 GAAA-AG-AAAAGA
1 AAAAGAGAAAAAGA
26645 AAAAG-GAAAAAGGA
1 AAAAGAGAAAAA-GA
26659 AAAAG-GAAAAA-A
1 AAAAGAGAAAAAGA
*
26671 TGAAATGA-AAAAATGA
1 --AAAAGAGAAAAA-GA
*
26687 AAATGATG-AAAAGA
1 AAAAGA-GAAAAAGA
*
26701 AAATGATG-AAAAGA
1 AAAAGA-GAAAAAGA
*
26715 AAAAGA-AAAATGA
1 AAAAGAGAAAAAGA
*
26728 AAAA-ATGAAAAGGA
1 AAAAGA-GAAAAAGA
*
26742 AAAAGAAAAAAAGA
1 AAAAGAGAAAAAGA
26756 AAAA
1 AAAA
26760 AAATGAAAAA
Statistics
Matches: 105, Mismatches: 8, Indels: 27
0.75 0.06 0.19
Matches are distributed among these distances:
12 12 0.11
13 18 0.17
14 69 0.66
15 5 0.05
16 1 0.01
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (14 bp):
AAAAGAGAAAAAGA
Found at i:26675 original size:8 final size:8
Alignment explanation
Indices: 26673--26806 Score: 52
Period size: 8 Copynumber: 16.8 Consensus size: 8
26663 GGAAAAAATG
26673 AAATGAAA
1 AAATGAAA
26681 AAATGAAA
1 AAATGAAA
*
26689 ATGATGAAAAGA
1 A-AATG--AA-A
*
26701 AAATGATGA
1 AAATGA-AA
26710 AAA-G-AA
1 AAATGAAA
26716 AAA-G-AA
1 AAATGAAA
26722 AAATGAAA
1 AAATGAAA
26730 AAATG--A
1 AAATGAAA
*
26736 AAA-GGAA
1 AAATGAAA
26743 AAA-GAAA
1 AAATGAAA
*
26750 AAAAGAAAAA
1 AAATG--AAA
26760 AAATGAAA
1 AAATGAAA
*
26768 AAACGGAGAA
1 AAA-TGA-AA
*
26778 AAAT-AGA
1 AAATGAAA
**
26785 AAATGGGA
1 AAATGAAA
26793 AAATGAAA
1 AAATGAAA
26801 AAATGA
1 AAATGA
26807 CAAAGAAAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 30
0.70 0.09 0.21
Matches are distributed among these distances:
5 1 0.01
6 14 0.14
7 16 0.16
8 39 0.39
9 10 0.10
10 12 0.12
11 5 0.05
12 2 0.02
ACGTcount: A:0.71, C:0.01, G:0.19, T:0.10
Consensus pattern (8 bp):
AAATGAAA
Found at i:26768 original size:7 final size:7
Alignment explanation
Indices: 26615--26838 Score: 69
Period size: 6 Copynumber: 32.9 Consensus size: 7
26605 CTTGAAGAAT
26615 AAATGAA
1 AAATGAA
26622 AAA-GAA
1 AAATGAA
26628 AAA-GAGA
1 AAATGA-A
26635 AAA-G-A
1 AAATGAA
26640 AAA-GAA
1 AAATGAA
*
26646 AAAGGAA
1 AAATGAA
*
26653 AAAGGAA
1 AAATGAA
*
26660 AAAGGAAA
1 AAATG-AA
26668 AAATG--
1 AAATGAA
26673 AAATGAAA
1 AAATG-AA
26681 AAATG-A
1 AAATGAA
26687 AAATGATGA
1 AAATGA--A
26696 AAA-G-A
1 AAATGAA
26701 AAATGATGA
1 AAATGA--A
26710 AAA-GAA
1 AAATGAA
26716 AAA-GAA
1 AAATGAA
26722 AAATGAAA
1 AAATG-AA
26730 AAATG-A
1 AAATGAA
*
26736 AAAGGAA
1 AAATGAA
26743 AAA-GAA
1 AAATGAA
26749 AAA--AA
1 AAATGAA
26754 GAAA--AA
1 -AAATGAA
26760 AAATGAAA
1 AAATG-AA
*
26768 AAACGGAGAA
1 AAA---TGAA
26778 AAAT-AGA
1 AAATGA-A
*
26785 AAATGGGA
1 AAAT-GAA
26793 AAATGAAA
1 AAATG-AA
*
26801 AAATGAC
1 AAATGAA
26808 AAA-GAA
1 AAATGAA
26814 AAAT-AA
1 AAATGAA
* *
26820 AAAAGGA
1 AAATGAA
26827 AAA-GAA
1 AAATGAA
26833 AAATGA
1 AAATGA
26839 TGAAAAAAGA
Statistics
Matches: 175, Mismatches: 11, Indels: 62
0.71 0.04 0.25
Matches are distributed among these distances:
5 19 0.11
6 61 0.35
7 44 0.25
8 37 0.21
9 8 0.05
10 5 0.03
11 1 0.01
ACGTcount: A:0.72, C:0.01, G:0.19, T:0.08
Consensus pattern (7 bp):
AAATGAA
Found at i:26821 original size:20 final size:20
Alignment explanation
Indices: 26792--26838 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
26782 AGAAAATGGG
*
26792 AAAATGAAAAAATGACAAAGA
1 AAAATGAAAAAAGGA-AAAGA
26813 AAAAT-AAAAAAGGAAAAGA
1 AAAATGAAAAAAGGAAAAGA
26832 AAAATGA
1 AAAATGA
26839 TGAAAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 10 0.42
20 9 0.38
21 5 0.21
ACGTcount: A:0.74, C:0.02, G:0.15, T:0.09
Consensus pattern (20 bp):
AAAATGAAAAAAGGAAAAGA
Found at i:26848 original size:36 final size:36
Alignment explanation
Indices: 26639--26858 Score: 102
Period size: 36 Copynumber: 6.4 Consensus size: 36
26629 AAGAGAAAAG
* *
26639 AAAAGAAAAA-GGAAAA-AGGAAAAAGGAAAAAATG-
1 AAAAGAAAAATAGAAAATAGG-AAAATGAAAAAATGA
* * *
26673 AAATGAAAAA-ATGAAAATGATGAAAA-GAAAATGATG-
1 AAAAGAAAAATA-GAAAAT-AGGAAAATGAAAA-AATGA
* * *
26709 AAAAGAAAAAGA-AAAAT-GAAAAAATG--AAAAGGA
1 AAAAGAAAAATAGAAAATAG-GAAAATGAAAAAATGA
* *
26742 AAAAGAAAAAAAG-AAA-A--AAAATGAAAAAACG-
1 AAAAGAAAAATAGAAAATAGGAAAATGAAAAAATGA
* *
26773 --GAGAAAAATAGAAAATGGGAAAATGAAAAAATGA
1 AAAAGAAAAATAGAAAATAGGAAAATGAAAAAATGA
*
26807 CAAAGAAAAATA-AAAA-AGGAAAA-GAAAAATGATGAA
1 AAAAGAAAAATAGAAAATAGGAAAATGAAAAA--ATG-A
*
26843 AAAAGAAAAAGAGAAA
1 AAAAGAAAAATAGAAA
26859 GAAATAAAAG
Statistics
Matches: 144, Mismatches: 19, Indels: 43
0.70 0.09 0.21
Matches are distributed among these distances:
29 9 0.06
30 9 0.06
32 7 0.05
33 35 0.24
34 19 0.13
35 23 0.16
36 36 0.25
37 6 0.04
ACGTcount: A:0.72, C:0.01, G:0.19, T:0.08
Consensus pattern (36 bp):
AAAAGAAAAATAGAAAATAGGAAAATGAAAAAATGA
Found at i:26852 original size:7 final size:7
Alignment explanation
Indices: 26620--26760 Score: 59
Period size: 7 Copynumber: 20.7 Consensus size: 7
26610 AGAATAAATG
26620 AAAAAG-
1 AAAAAGA
26626 AAAAAGA
1 AAAAAGA
*
26633 GAAAAG-
1 AAAAAGA
26639 -AAAAGA
1 AAAAAGA
*
26645 AAAAGGA
1 AAAAAGA
*
26652 AAAAGGA
1 AAAAAGA
*
26659 AAAAGGA
1 AAAAAGA
26666 AAAAATG-
1 AAAAA-GA
*
26673 -AAATGA
1 AAAAAGA
26679 AAAAATG-
1 AAAAA-GA
*
26686 AAAATGA
1 AAAAAGA
*
26693 TGAAAAG-
1 -AAAAAGA
*
26700 AAAATGA
1 AAAAAGA
*
26707 TGAAAAG-
1 -AAAAAGA
26714 AAAAAGA
1 AAAAAGA
*
26721 AAAATGA
1 AAAAAGA
26728 AAAAATG-
1 AAAAA-GA
*
26735 -AAAAGG
1 AAAAAGA
26741 AAAAAGAA
1 AAAAAG-A
26749 AAAAAGA
1 AAAAAGA
26756 AAAAA
1 AAAAA
26761 AATGAAAAAA
Statistics
Matches: 103, Mismatches: 16, Indels: 31
0.69 0.11 0.21
Matches are distributed among these distances:
5 7 0.07
6 23 0.22
7 56 0.54
8 17 0.17
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (7 bp):
AAAAAGA
Found at i:28160 original size:37 final size:36
Alignment explanation
Indices: 28106--28175 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 36
28096 AAACAAGTCA
28106 ATCTTAAGCCTTCACGGAAGAGCT-GTGAAGCAAATC
1 ATCTTAAGCCTTCACGGAAGAG-TAGTGAAGCAAATC
28142 ATCTATAAGCCTTCACGGAAGAGTAGTGAAGCAA
1 ATCT-TAAGCCTTCACGGAAGAGTAGTGAAGCAA
28176 GCTCATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
36 5 0.16
37 27 0.84
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (36 bp):
ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATC
Found at i:28324 original size:55 final size:55
Alignment explanation
Indices: 28192--28448 Score: 253
Period size: 55 Copynumber: 4.7 Consensus size: 55
28182 TTTATAAAGA
* * * * **
28192 TCGAGTCATATACTCTCTGAAGGAATATGGAGCGGATACGTTTGT-TGAAGA----
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACCCGTTT-TATGAAGATTGT
*
28243 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACCCGTTTTATGAAGATTGT
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACCCGTTTTATGAAGATTGT
* * * * * * *
28298 TCGAGT-TCTATAATCTCTGAAAGAATAGAGAGCGGACCCATTTTCTGAAGATTGT
1 TCGAGTCT-TATACTCCCTGAAGGAATAGGGAGCAGACCCGTTTTATGAAGATTGT
* * *
28353 TCGAGT-TCTATACTCCCTGAACGAATTGGGAG-AGGACCTG-TTTATTGAAGATTGT
1 TCGAGTCT-TATACTCCCTGAAGGAATAGGGAGCA-GACCCGTTTTA-TGAAGATTGT
28408 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACCCGT
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACCCGT
28449 CATTCAAAGA
Statistics
Matches: 172, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
50 1 0.01
51 44 0.26
54 4 0.02
55 121 0.70
56 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (55 bp):
TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACCCGTTTTATGAAGATTGT
Found at i:32579 original size:76 final size:76
Alignment explanation
Indices: 32442--32589 Score: 183
Period size: 76 Copynumber: 1.9 Consensus size: 76
32432 ATTAATCCAA
* ** *
32442 TAGGATGAGACATTAAATATCTCAAGTAAAGTCATGAGTTTGAATCCGGACGTTTGCGGATAGAT
1 TAGGATGAGACATTAAATATCTCAAGCAAAGTCATGAGTTTGAATCCGGAAATTTGCGGATAGAG
32507 CAAACTATTGG
66 CAAACTATTGG
* * * * *
32518 TAGGATGAGGCATTAGAA-CTCTCAAGCAAGGTCATGAGTTTGAATCAC-TAAATTTGTGGATAG
1 TAGGATGAGACATTA-AATATCTCAAGCAAAGTCATGAGTTTGAATC-CGGAAATTTGCGGATAG
32581 AGCAAACTA
64 AGCAAACTA
32590 AGTTTTGAGA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
76 58 0.95
77 3 0.05
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (76 bp):
TAGGATGAGACATTAAATATCTCAAGCAAAGTCATGAGTTTGAATCCGGAAATTTGCGGATAGAG
CAAACTATTGG
Found at i:33535 original size:2 final size:2
Alignment explanation
Indices: 33519--33561 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
33509 ATACCTCTAC
33519 TA TA T- TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33559 TA T
1 TA T
33562 TTAATTACTC
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:35619 original size:3 final size:3
Alignment explanation
Indices: 35597--35664 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
35587 GAAAACAAAT
* * * *
35597 TAA TAAA TAA -AA TAAA TAA TAA TAG TAA TAC TAT TAA TAT TAA TAA
1 TAA T-AA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
35643 CAA TAA AAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
35665 GGTATTCGGA
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:39561 original size:21 final size:18
Alignment explanation
Indices: 39529--39584 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 18
39519 GCAATAACAG
39529 TCAATGACCGATCAACGA
1 TCAATGACCGATCAACGA
*
39547 TCAACGTGACTCGATCAACAA
1 TCAA--TGAC-CGATCAACGA
39568 TCAATGACCGATCAACG
1 TCAATGACCGATCAACG
39585 TAACTCGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 12 0.36
19 4 0.12
20 4 0.12
21 13 0.39
ACGTcount: A:0.38, C:0.29, G:0.16, T:0.18
Consensus pattern (18 bp):
TCAATGACCGATCAACGA
Found at i:39581 original size:18 final size:18
Alignment explanation
Indices: 39524--39583 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
39514 GGCAAGCAAT
*
39524 AACAGTCAATGACCGATC
1 AACAATCAATGACCGATC
*
39542 AACGATCAACGTGACTCGATC
1 AACAATCAA--TGAC-CGATC
39563 AACAATCAATGACCGATC
1 AACAATCAATGACCGATC
39581 AAC
1 AAC
39584 GTAACTCGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 15 0.42
19 4 0.11
20 4 0.11
21 13 0.36
ACGTcount: A:0.40, C:0.28, G:0.15, T:0.17
Consensus pattern (18 bp):
AACAATCAATGACCGATC
Found at i:45890 original size:19 final size:18
Alignment explanation
Indices: 45862--45901 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
45852 AATAACAATA
45862 TAATTTAAACACTTATTT
1 TAATTTAAACACTTATTT
*
45880 TAATATTAAACATTTATTT
1 TAAT-TTAAACACTTATTT
45899 TAA
1 TAA
45902 ATGCCCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTTAAACACTTATTT
Found at i:50983 original size:18 final size:19
Alignment explanation
Indices: 50934--50983 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
50924 TTTGTGCAGA
*
50934 CCGAAACCAAAAACACATT
1 CCGACACCAAAAACACATT
50953 CCGACACCAAAAACACATT
1 CCGACACCAAAAACACATT
50972 CCGACACCAAAA
1 CCGACACCAAAA
50984 CTGCTACAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.50, C:0.36, G:0.06, T:0.08
Consensus pattern (19 bp):
CCGACACCAAAAACACATT
Found at i:56618 original size:156 final size:156
Alignment explanation
Indices: 56371--56678 Score: 395
Period size: 156 Copynumber: 2.0 Consensus size: 156
56361 AAGATGCATA
* * * * * **
56371 TGGCTGCAAATTACACCGTTTTAATTCTTAATCAATGTCAAATGATATTGCTAAACTCAAATAAC
1 TGGCTACAAATTAAACCATTTTAATTCTTAACCAACGTCAAATGATATCACTAAACTCAAATAAC
* ** * * *
56436 TCAAAGTCCAACCACCAGCCCATGACTTCTTGGGATCTAAGAAAATTACTA-AACGAGTAAAGGT
66 TCAAAGTCCAACCACCAACCCATGACTTCTTGAAATCTAAGAAAATAACTACAA-GAGTAAAAGA
*
56500 AATCAAATTGAAACAGGAAAAGGATAC
130 AATCAAACTGAAACAGGAAAAGGATAC
* * *
56527 TGGCTACAAGTTAAACCATTTTAGTTCTTAACCAACGTCAAATGGTATCACTAAACTCAAATAAC
1 TGGCTACAAATTAAACCATTTTAATTCTTAACCAACGTCAAATGATATCACTAAACTCAAATAAC
* * * *
56592 TCAATA-TTCTACCATCAACCCATGACTTTTTGAAATCTAAGAAAATAACTACAAGAGTAAAAGA
66 TCAA-AGTCCAACCACCAACCCATGACTTCTTGAAATCTAAGAAAATAACTACAAGAGTAAAAGA
56656 AATCAAACTGAAACAGGAAAAGG
130 AATCAAACTGAAACAGGAAAAGG
56679 CTTTTCTACA
Statistics
Matches: 129, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
156 126 0.98
157 3 0.02
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.25
Consensus pattern (156 bp):
TGGCTACAAATTAAACCATTTTAATTCTTAACCAACGTCAAATGATATCACTAAACTCAAATAAC
TCAAAGTCCAACCACCAACCCATGACTTCTTGAAATCTAAGAAAATAACTACAAGAGTAAAAGAA
ATCAAACTGAAACAGGAAAAGGATAC
Found at i:64298 original size:20 final size:20
Alignment explanation
Indices: 64262--64299 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64252 ATCCTATTTC
**
64262 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
64282 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
64300 GTGAACAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:64620 original size:23 final size:23
Alignment explanation
Indices: 64594--64648 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
64584 TTTTAATAAT
*
64594 TATGACTTTGTAACATGTTTATC
1 TATGTCTTTGTAACATGTTTATC
*
64617 TATGTCTTTGTGACATGTTTATC
1 TATGTCTTTGTAACATGTTTATC
64640 TATGTCTTT
1 TATGTCTTT
64649 TGGCAGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.20, C:0.13, G:0.15, T:0.53
Consensus pattern (23 bp):
TATGTCTTTGTAACATGTTTATC
Found at i:68492 original size:28 final size:29
Alignment explanation
Indices: 68434--68492 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
68424 AGAGGTGTAT
*
68434 AAAAAATCCGAATATCTGATTTTGCGTAAA
1 AAAAAATCCGAATATCGGATTTTGCG-AAA
* *
68464 AAAATATCCGAA-ATCGGA-TTTGGGAAA
1 AAAAAATCCGAATATCGGATTTTGCGAAA
68491 AA
1 AA
68493 TCGTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 5 0.19
28 5 0.19
29 5 0.19
30 11 0.42
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (29 bp):
AAAAAATCCGAATATCGGATTTTGCGAAA
Found at i:68729 original size:22 final size:20
Alignment explanation
Indices: 68695--68735 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
68685 TAAAAATCGG
68695 TTTTTTAAAAAAACCGGTTT
1 TTTTTTAAAAAAACCGGTTT
68715 TTTTTTAAATCAAAACCGGTT
1 TTTTTTAAA--AAAACCGGTT
68736 ACATCATCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
22 10 0.53
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (20 bp):
TTTTTTAAAAAAACCGGTTT
Found at i:69049 original size:23 final size:23
Alignment explanation
Indices: 69019--69066 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
69009 GAAAAAACGT
*
69019 AATGCTACTGATGTTTTCCCAAA
1 AATGCTACCGATGTTTTCCCAAA
*
69042 AATGCTACCGATGTTTTTCCAAA
1 AATGCTACCGATGTTTTCCCAAA
69065 AA
1 AA
69067 AAAGTTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (23 bp):
AATGCTACCGATGTTTTCCCAAA
Found at i:73238 original size:61 final size:60
Alignment explanation
Indices: 73158--73288 Score: 140
Period size: 60 Copynumber: 2.2 Consensus size: 60
73148 TATGGTTTGA
* * * * * *
73158 GATGGAATTAGAATGTTCAAAGAGTTTGAGGACCAAGTTAGAATGTATA-TCATAGTTTGGG
1 GATGGAATTAGAATCTTCAAA-AGCTCGAGGACAAAGTTAGAACG-ATAGTCATAGTTTAGG
* *
73219 GATGGAATT-GAAATCTTCAAAAGCTCGAGGATAAATTTAGAACGATAGTCATAGTTTAGG
1 GATGGAATTAG-AATCTTCAAAAGCTCGAGGACAAAGTTAGAACGATAGTCATAGTTTAGG
*
73279 GATGAAATTA
1 GATGGAATTA
73289 AAACATTTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
59 3 0.05
60 37 0.64
61 18 0.31
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (60 bp):
GATGGAATTAGAATCTTCAAAAGCTCGAGGACAAAGTTAGAACGATAGTCATAGTTTAGG
Found at i:80616 original size:20 final size:20
Alignment explanation
Indices: 80591--80628 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
80581 TTTGGTTCAC
80591 GGAATGTAAGATTACCAGCG
1 GGAATGTAAGATTACCAGCG
80611 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
80629 GGAATAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGCG
Found at i:80633 original size:18 final size:19
Alignment explanation
Indices: 80591--80633 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
80581 TTTGGTTCAC
80591 GGAATGTAAGATTACCAGCG
1 GGAATGTAAGATTACCA-CG
80611 GGAATGTAAGATTACCA-G
1 GGAATGTAAGATTACCACG
80629 GGAAT
1 GGAAT
80634 AGGATTACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.26
20 17 0.74
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (19 bp):
GGAATGTAAGATTACCACG
Found at i:80856 original size:36 final size:36
Alignment explanation
Indices: 80783--80856 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
80773 CAAGTTGAAA
**
80783 AATATTTATATATTTTCTTTAAAAATTTAAATTTAT
1 AATATTTATATATTTTCTTTAAAAATTTAAAAATAT
80819 AATATTTATATAATTTT-TTTACAAAA-TTAAAAATAT
1 AATATTTATAT-ATTTTCTTTA-AAAATTTAAAAATAT
80855 AA
1 AA
80857 AAAAAGTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 25 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (36 bp):
AATATTTATATATTTTCTTTAAAAATTTAAAAATAT
Found at i:81907 original size:36 final size:36
Alignment explanation
Indices: 81833--81907 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
81823 TTTTTATATT
*
81833 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
*
81869 TTTAATTTT-TAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
81905 TTT
1 TTT
81908 GTAATATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 17 0.49
36 18 0.51
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:82020 original size:35 final size:35
Alignment explanation
Indices: 81978--82057 Score: 160
Period size: 35 Copynumber: 2.3 Consensus size: 35
81968 TTATTCCTTT
81978 AACCAAACACGGTAATCTTACATTCCTGCTAAACC
1 AACCAAACACGGTAATCTTACATTCCTGCTAAACC
82013 AACCAAACACGGTAATCTTACATTCCTGCTAAACC
1 AACCAAACACGGTAATCTTACATTCCTGCTAAACC
82048 AACCAAACAC
1 AACCAAACAC
82058 AAAATACAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (35 bp):
AACCAAACACGGTAATCTTACATTCCTGCTAAACC
Found at i:84184 original size:9 final size:9
Alignment explanation
Indices: 84170--84194 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
84160 TAAATAAATA
84170 AAAATATTT
1 AAAATATTT
84179 AAAATATTT
1 AAAATATTT
84188 AAAATAT
1 AAAATAT
84195 AAGATGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAATATTT
Found at i:85787 original size:23 final size:25
Alignment explanation
Indices: 85722--85788 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
85712 GGAAGAAATG
*
85722 ATAACAGATTTAGATGCATAATAATT
1 ATAACAGCTTT-GATGCATAATAATT
85748 ATAACAGCTTTGAATGCATAATAATT
1 ATAACAGCTTTG-ATGCATAATAATT
*
85774 A-AGCAG-TTTGATGCA
1 ATAACAGCTTTGATGCA
85789 GCCACAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
23 5 0.13
24 4 0.11
25 5 0.13
26 24 0.63
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (25 bp):
ATAACAGCTTTGATGCATAATAATT
Found at i:95314 original size:3 final size:3
Alignment explanation
Indices: 95306--95333 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
95296 AAATAACGAC
95306 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
95334 TGAGAAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:96324 original size:23 final size:22
Alignment explanation
Indices: 96270--96327 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
96260 TAGTGCGTTT
* * *
96270 GCTGACTGATTCAGCAAACAGT
1 GCTGAATGATTCAGAAAACAGC
*
96292 GCTGACTGATTCAGTAAAACAGC
1 GCTGAATGATTCAG-AAAACAGC
*
96315 GTTGAATGATTCA
1 GCTGAATGATTCA
96328 ACATAGAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 14 0.45
23 17 0.55
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (22 bp):
GCTGAATGATTCAGAAAACAGC
Found at i:97444 original size:30 final size:28
Alignment explanation
Indices: 97410--97516 Score: 88
Period size: 30 Copynumber: 3.6 Consensus size: 28
97400 TAATTTTACC
97410 TATTAATATTAAAAATATATTTTATTTTTA
1 TATTAA-ATT-AAAATATATTTTATTTTTA
* * *
97440 TATTAACTTATTAAATATATTTAATTCTTA
1 TATTAAATTA--AAATATATTTTATTTTTA
* * * *
97470 TTTTAACTTCAAATATATTTTAGTCTTTA
1 TATTAAATTAAAATATATTTTA-TTTTTA
* *
97499 TCTTAACTTAAAATATAT
1 TATTAAATTAAAATATAT
97517 ATATTTTACT
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
28 12 0.19
29 22 0.34
30 30 0.47
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (28 bp):
TATTAAATTAAAATATATTTTATTTTTA
Found at i:97529 original size:27 final size:29
Alignment explanation
Indices: 97421--97539 Score: 82
Period size: 29 Copynumber: 4.0 Consensus size: 29
97411 ATTAATATTA
* * *
97421 AAAATATATTTTA-TTTTTATATTAACTT
1 AAAATATATTATAGTCTTTATCTTAACTT
* *
97449 ATTAAATATATT-TAAT-TCTTATTTTAACTT
1 A--AAATATATTATAGTCT-TTATCTTAACTT
* *
97479 CAAATATATTTTAGTCTTTATCTTAACTT
1 AAAATATATTATAGTCTTTATCTTAACTT
**
97508 AAAATATATATATTTTACTCTTATCTTAACTT
1 AAAATATAT-TATAGT-CT-TTATCTTAACTT
97540 GTTACATAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
28 10 0.14
29 25 0.34
30 25 0.34
31 2 0.03
32 12 0.16
ACGTcount: A:0.36, C:0.09, G:0.01, T:0.54
Consensus pattern (29 bp):
AAAATATATTATAGTCTTTATCTTAACTT
Found at i:97537 original size:61 final size:58
Alignment explanation
Indices: 97422--97539 Score: 146
Period size: 61 Copynumber: 2.0 Consensus size: 58
97412 TTAATATTAA
* * * *
97422 AAATATATTTTATTTTTATATTAACTTATTAAATATATTTAATTCTTATTTTAACTTC
1 AAATATATTTTATCTTTATATTAACTTAATAAATATATTTAACTCTTATCTTAACTTC
* * *
97480 AAATATATTTTAGTCTTTATCTTAACTTAAAATATATATATTTTACTCTTATCTTAACTT
1 AAATATATTTTA-TCTTTATATTAACTT--AATAAATATATTTAACTCTTATCTTAACTT
97540 GTTACATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 12 0.24
59 13 0.26
61 25 0.50
ACGTcount: A:0.36, C:0.09, G:0.01, T:0.54
Consensus pattern (58 bp):
AAATATATTTTATCTTTATATTAACTTAATAAATATATTTAACTCTTATCTTAACTTC
Found at i:97583 original size:30 final size:30
Alignment explanation
Indices: 97499--97619 Score: 106
Period size: 30 Copynumber: 4.1 Consensus size: 30
97489 TTAGTCTTTA
* * *
97499 TCTTAACTTAAA--A-TATATATATTTTAC
1 TCTTAACTTAAATTATTAAATATATTATAT
* * * * *
97526 TCTTATCTTAACTTGTTACATAAATTATAT
1 TCTTAACTTAAATTATTAAATATATTATAT
*
97556 TTTTAACTTAAATTATTAAATATATTATAT
1 TCTTAACTTAAATTATTAAATATATTATAT
* *
97586 TCTTACCTTAAATTATTAAGTATAATTA-AT
1 TCTTAACTTAAATTATTAAATAT-ATTATAT
97616 TCTT
1 TCTT
97620 GTTTTAACTT
Statistics
Matches: 74, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
27 10 0.14
30 60 0.81
31 4 0.05
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (30 bp):
TCTTAACTTAAATTATTAAATATATTATAT
Found at i:97694 original size:25 final size:24
Alignment explanation
Indices: 97643--97704 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
97633 ACATAACTTC
* * *
97643 TATTCTTATCTTAACTTAAAAATA
1 TATTTTTATTTTAACTCAAAAATA
97667 TATTTTTATTTTAACTACAAAAATA
1 TATTTTTATTTTAACT-CAAAAATA
*
97692 TA-TTATATTTTAA
1 TATTTTTATTTTAA
97705 TATTAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 24 0.73
25 9 0.27
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (24 bp):
TATTTTTATTTTAACTCAAAAATA
Found at i:97787 original size:30 final size:29
Alignment explanation
Indices: 97751--97861 Score: 111
Period size: 30 Copynumber: 3.7 Consensus size: 29
97741 TACTTAAGTT
*
97751 AAGATAAGAATAAATTATATTTTTTAATTA
1 AAGATAAGAATAAA-TATATTTTTAAATTA
*
97781 AAGATAAGATTGAAATATATATTTTAAATTA
1 AAGATAAGAAT-AAATATAT-TTTTAAATTA
**
97812 AA-ATAAGAATAAAATATATTTTTAGGTTA
1 AAGATAAGAAT-AAATATATTTTTAAATTA
97841 CAA-A-AAGAATAAAATATATTT
1 -AAGATAAGAAT-AAATATATTT
97862 AATAAGTTAA
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
29 25 0.35
30 33 0.46
31 14 0.19
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.38
Consensus pattern (29 bp):
AAGATAAGAATAAATATATTTTTAAATTA
Found at i:97848 original size:29 final size:29
Alignment explanation
Indices: 97726--97861 Score: 130
Period size: 29 Copynumber: 4.6 Consensus size: 29
97716 AAATATTATT
** * *
97726 AGAATAAAATATAAATACTTAAGTTAAGATA
1 AGAATAAAATAT--ATTTTTAAATTAAAATA
* *
97757 AGAATAAATTATATTTTTTAATTAAAGATA
1 AGAATAAAATATATTTTTAAATTAAA-ATA
* *
97787 AGATTGAAATATATATTTTAAATTAAAATA
1 AGAATAAAATATAT-TTTTAAATTAAAATA
**
97817 AGAATAAAATATATTTTTAGGTTACAAA-A
1 AGAATAAAATATATTTTTAAATTA-AAATA
97846 AGAATAAAATATATTT
1 AGAATAAAATATATTT
97862 AATAAGTTAA
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
29 34 0.39
30 32 0.36
31 22 0.25
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.37
Consensus pattern (29 bp):
AGAATAAAATATATTTTTAAATTAAAATA
Found at i:98254 original size:29 final size:29
Alignment explanation
Indices: 98173--98267 Score: 113
Period size: 29 Copynumber: 3.2 Consensus size: 29
98163 TTTAATACAT
* *
98173 TATATTTTT-AATTAAAGATAAGATTGAAA
1 TATATTTTTAAATTAAA-ATAAGAATAAAA
98202 TATATATTTTAAATTAAAATAAGAATAAAA
1 TATAT-TTTTAAATTAAAATAAGAATAAAA
**
98232 TATATTTTTAGGTTACAAA-AAGAATAAAA
1 TATATTTTTAAATTA-AAATAAGAATAAAA
98261 TATATTT
1 TATATTT
98268 AATAAGTTAA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
29 30 0.51
30 22 0.37
31 7 0.12
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.40
Consensus pattern (29 bp):
TATATTTTTAAATTAAAATAAGAATAAAA
Found at i:101828 original size:25 final size:25
Alignment explanation
Indices: 101796--101843 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
101786 GGCTGGAACA
101796 TTTAGGGTTTGAAACCCTAATCTAT
1 TTTAGGGTTTGAAACCCTAATCTAT
101821 TTTAGGGTTTGAAACCCTAATCT
1 TTTAGGGTTTGAAACCCTAATCT
101844 GATGGGTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (25 bp):
TTTAGGGTTTGAAACCCTAATCTAT
Found at i:101966 original size:3 final size:3
Alignment explanation
Indices: 101958--101993 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
101948 ATTAATAAAC
*
101958 ATA ATA ATA AAA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
101994 CGATAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:101967 original size:12 final size:11
Alignment explanation
Indices: 101950--101993 Score: 56
Period size: 12 Copynumber: 4.0 Consensus size: 11
101940 AATATGTAAT
101950 TAATAAACATAA
1 TAATAAA-ATAA
101962 TAAT-AAA-AA
1 TAATAAAATAA
101971 TAATAATAATAA
1 TAATAA-AATAA
101983 TAATAAAATAA
1 TAATAAAATAA
101994 CGATAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 6 0.21
10 2 0.07
11 9 0.31
12 12 0.41
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:102210 original size:43 final size:43
Alignment explanation
Indices: 102149--102467 Score: 215
Period size: 43 Copynumber: 7.4 Consensus size: 43
102139 TGTTGGGGAC
* * * *
102149 GACACTGCTCATACGTGATGAAGAG-TTTGGGTCGTCTAAAGG-T
1 GACACGGCTCCTACGTGATGAAGAGATCT-GGTCATCT-AAGGTT
* * *
102192 GACACGGCTCCTACGTGATGAGGAGATCTGGTTATCTATGGTT
1 GACACGGCTCCTACGTGATGAAGAGATCTGGTCATCTAAGGTT
* ** *
102235 GACACGGCTCCTACGTGATGAGGAGATCTGG---TCTGGGGAT
1 GACACGGCTCCTACGTGATGAAGAGATCTGGTCATCTAAGGTT
* * *
102275 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGAT
1 GACACGGCTCCTACGTGATGAAGAGATCTGGTCATCT-AAGGT--T
* * * * * * *
102321 AACACGGTTCCTACGTGACGAGGACG-GCTGGTTATCTATGGTT
1 GACACGGCTCCTACGTGATGAAGA-GATCTGGTCATCTAAGGTT
* * ** *
102364 GACACGGCTCCCACGTGATGAGGAGATCTGG---TCTGGGGAT
1 GACACGGCTCCTACGTGATGAAGAGATCTGGTCATCTAAGGTT
* * *
102404 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGAT
1 GACACGGCTCCTACGTGATGAAGAGATCTGGTCATCT-AAGGT--T
* *
102450 AACACGGTTCCTACGTGA
1 GACACGGCTCCTACGTGA
102468 CGAGGATGGC
Statistics
Matches: 217, Mismatches: 43, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
40 67 0.31
42 4 0.02
43 91 0.42
44 6 0.03
45 4 0.02
46 44 0.20
47 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (43 bp):
GACACGGCTCCTACGTGATGAAGAGATCTGGTCATCTAAGGTT
Found at i:102290 original size:40 final size:41
Alignment explanation
Indices: 102191--102434 Score: 206
Period size: 40 Copynumber: 5.8 Consensus size: 41
102181 CGTCTAAAGG
** *
102191 TGACACGGCTCCTACGTGATGAGGAGATCTGGTTATCTATGGT
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG-T-TCTGGGGA
102234 TGACACGGCTCCTACGTGATGAGGAGATCTGG-TCTGGGGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTTCTGGGGA
* * * * *
102274 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG--TTCT---GGGGA
* * * * ** *
102320 TAACACGGTTCCTACGTGACGAGGACG-GCTGGTTATCTATGGT
1 TGACACGGCTCCTACGTGATGAGGA-GATCTGG-T-TCTGGGGA
*
102363 TGACACGGCTCCCACGTGATGAGGAGATCTGG-TCTGGGGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTTCTGGGGA
* * *
102403 TGACACGGCTCATACGTGATGAAGAGTTCTGG
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG
102435 CCATCTAAAG
Statistics
Matches: 161, Mismatches: 31, Indels: 21
0.76 0.15 0.10
Matches are distributed among these distances:
40 67 0.42
42 1 0.01
43 61 0.38
46 31 0.19
47 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (41 bp):
TGACACGGCTCCTACGTGATGAGGAGATCTGGTTCTGGGGA
Found at i:102358 original size:46 final size:45
Alignment explanation
Indices: 102193--102486 Score: 161
Period size: 46 Copynumber: 6.8 Consensus size: 45
102183 TCTAAAGGTG
* * * *
102193 ACACGGCTCCTACGTGATGAGGAGATCTGGTTATCTATGGT--TG
1 ACACGGCTCCTACGTGACGAGGAGAGCTGGTTATCTAAGGTGATA
* * * *
102236 ACACGGCTCCTACGTGATGAGGAGATCTGG---TCT--GGGGATG
1 ACACGGCTCCTACGTGACGAGGAGAGCTGGTTATCTAAGGTGATA
* * * ** **
102276 ACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGACGAGGAGAGCTGGTTATCT-AAGGTGATA
* * *
102322 ACACGGTTCCTACGTGACGAGGACG-GCTGGTTATCTATGGT--TG
1 ACACGGCTCCTACGTGACGAGGA-GAGCTGGTTATCTAAGGTGATA
* * * * *
102365 ACACGGCTCCCACGTGATGAGGAGATCTGG---TCT--GGGGATG
1 ACACGGCTCCTACGTGACGAGGAGAGCTGGTTATCTAAGGTGATA
* * * ** **
102405 ACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGACGAGGAGAGCTGGTTATCT-AAGGTGATA
*
102451 ACACGGTTCCTACGTGACGAGGATG-GCTGGTTATCT
1 ACACGGCTCCTACGTGACGAGGA-GAGCTGGTTATCT
102487 CTAGGATAAT
Statistics
Matches: 199, Mismatches: 33, Indels: 35
0.75 0.12 0.13
Matches are distributed among these distances:
38 4 0.02
40 63 0.32
42 1 0.01
43 61 0.31
45 4 0.02
46 64 0.32
47 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (45 bp):
ACACGGCTCCTACGTGACGAGGAGAGCTGGTTATCTAAGGTGATA
Found at i:102369 original size:129 final size:128
Alignment explanation
Indices: 102142--102486 Score: 554
Period size: 129 Copynumber: 2.7 Consensus size: 128
102132 TATTGGTTGT
* * * * *
102142 TGGGGACGACACTGCTCATACGTGATGAAGAGTT-TGGGTCGTCTAAAGGTG---ACACGGCTCC
1 TGGGGATGACACGGCTCATACGTGATGAAGAGTTCT-GGCCATCTAAAGGTGATAACACGGTTCC
* * *
102203 TACGTGATGAGGAGATCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
65 TACGTGACGAGGAG-GCTGGTTATCTATGGTTGACACGGCTCCCACGTGATGAGGAGATCTGGTC
102268 TGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCT
1 TGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCT
102333 ACGTGACGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCCACGTGATGAGGAGATCTGGTC
66 ACGTGACGAGGA-GGCTGGTTATCTATGGTTGACACGGCTCCCACGTGATGAGGAGATCTGGTC
102397 TGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCT
1 TGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCT
102462 ACGTGACGAGGATGGCTGGTTATCT
66 ACGTGACGAGGA-GGCTGGTTATCT
102487 CTAGGATAAT
Statistics
Matches: 205, Mismatches: 9, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
126 45 0.22
127 1 0.00
129 158 0.77
130 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (128 bp):
TGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCT
ACGTGACGAGGAGGCTGGTTATCTATGGTTGACACGGCTCCCACGTGATGAGGAGATCTGGTC
Found at i:102871 original size:35 final size:36
Alignment explanation
Indices: 102824--102898 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 36
102814 ACAAAATTCA
*
102824 TTTCAAGAGAAAC-GATCTCAAAGATGGT-TATTTTG
1 TTTCAAGAGAAACAGAT-TCAAAGATGGTAAATTTTG
*
102859 TTTCAAGGGAAACAGATTCAAAGATGGTAAATTTTG
1 TTTCAAGAGAAACAGATTCAAAGATGGTAAATTTTG
102895 TTTC
1 TTTC
102899 CAAATAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 23 0.64
36 13 0.36
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (36 bp):
TTTCAAGAGAAACAGATTCAAAGATGGTAAATTTTG
Found at i:103314 original size:40 final size:40
Alignment explanation
Indices: 103270--103389 Score: 222
Period size: 40 Copynumber: 3.0 Consensus size: 40
103260 GTTTTAATAG
* *
103270 AAACGATATCAAATGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
103310 AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
103350 AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
103390 TGAGAGACAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (40 bp):
AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
Found at i:103603 original size:67 final size:67
Alignment explanation
Indices: 103372--103720 Score: 544
Period size: 67 Copynumber: 5.2 Consensus size: 67
103362 AGGTGGGTAT
* * * *
103372 TTTCAAAAGAAGTTGTCTT--GAGAGACAAAATTTTGTTT-CAAAGGAAACAAACTTAGAGATTT
1 TTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAA-GAAACAAACTCAAAGATTT
103434 TT-
65 TTG
*
103436 TTCTCAAAAGAAATTGTCTTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAAGAT
1 TT-TCAAAAGAAATTATC-TTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTC-AAAGAT
103501 TTTTG
63 TTTTG
103506 TTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTT
1 TTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTT
103571 TG
66 TG
* *
103573 TTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCTAAAGAAACAAACTCAAAGATTTT
1 TTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTT
103638 TG
66 TG
*
103640 TTTCAAAAGAAATTATCTTAAAAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTT
1 TTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGA--TT
103705 TTTG
64 TTTG
103709 TTTCAAAAGAAA
1 TTTCAAAAGAAA
103721 CCATCTCAAA
Statistics
Matches: 267, Mismatches: 9, Indels: 13
0.92 0.03 0.04
Matches are distributed among these distances:
64 2 0.01
65 14 0.05
66 2 0.01
67 134 0.50
68 68 0.25
69 45 0.17
70 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (67 bp):
TTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTT
TG
Found at i:103678 original size:134 final size:135
Alignment explanation
Indices: 103392--103726 Score: 541
Period size: 136 Copynumber: 2.5 Consensus size: 135
103382 AGTTGTCTTG
* * * *
103392 AGAGACAAAATTTTGTTT-CAAAGGAAACAAACTTAGAGATTTTT-TTCTCAAAAGAAATTGTCT
1 AGAGACAAAATTTTGTTTCCAAA-GAAACAAACTCAAAGATTTTTGTT-TCAAAAGAAACTATC-
103455 TTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAAGATTTTTGTTTCAAAAGAAATT
63 TTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAAGATTTTTGTTTCAAAAGAAATT
*
103520 ATCTTAAG
128 ATCTTAAA
103528 AGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTA
1 AGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTA
*
103593 AGAGAGACAAAATTTTGTTTCTAAAGAAACAAACTC-AAAGATTTTTGTTTCAAAAGAAATTATC
66 AGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAAGATTTTTGTTTCAAAAGAAATTATC
103657 TTAAA
131 TTAAA
*
103662 AGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTTTGTTTCAAAAGAAACCATCT
1 AGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGA--TTTTTGTTTCAAAAGAAACTATCT
103727 CAAAGATTTT
Statistics
Matches: 188, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
134 71 0.38
135 38 0.20
136 73 0.39
137 6 0.03
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (135 bp):
AGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTA
AGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAAGATTTTTGTTTCAAAAGAAATTATC
TTAAA
Found at i:103740 original size:28 final size:29
Alignment explanation
Indices: 103667--103952 Score: 130
Period size: 27 Copynumber: 9.8 Consensus size: 29
103657 TTAAAAGAGA
*
103667 CAAA-ATTTTGTTTCCAAAGAAACAAACT
1 CAAAGATTTTGTTTCAAAAGAAACAAACT
* *
103695 CAAAGATTTTTTTGTTTCAAAAGAAACCATCT
1 CAAAGA---TTTTGTTTCAAAAGAAACAAACT
* * * **
103727 CAAAGATTTT-TTTCACAAAATTGTCTCAAGAGAGA
1 CAAAGATTTTGTTT--CAAAA--G---AAACAAACT
* * *
103762 CAAA-ACTTTGTTTC-AAAGTAAATAGACT
1 CAAAGATTTTGTTTCAAAAG-AAACAAACT
* *
103790 CAAAGA-TTT-TTTCAAACGATAC-AACT
1 CAAAGATTTTGTTTCAAAAGAAACAAACT
* * *
103816 CACAGATTTT-TATTCCAAAGGAACAAACT
1 CAAAGATTTTGT-TTCAAAAGAAACAAACT
* *
103845 CCAAGATTTT-TATTCAAAAGGAACAAACT
1 CAAAGATTTTGT-TTCAAAAGAAACAAACT
* * *
103874 CAAAGA-TAT-TTTCAAGAGGAACAAACT
1 CAAAGATTTTGTTTCAAAAGAAACAAACT
* *
103901 CAAAGA-TTT-TTTCAAGAGGAACAAACT
1 CAAAGATTTTGTTTCAAAAGAAACAAACT
*
103928 CAAAGATTTTTTTCCTCAAAAGAAA
1 CAAAGATTTTGTT--TCAAAAGAAA
103953 TTGTCTTTAA
Statistics
Matches: 204, Mismatches: 33, Indels: 39
0.74 0.12 0.14
Matches are distributed among these distances:
26 8 0.04
27 58 0.28
28 37 0.18
29 43 0.21
30 6 0.03
31 8 0.04
32 30 0.15
33 1 0.00
34 4 0.02
35 9 0.04
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (29 bp):
CAAAGATTTTGTTTCAAAAGAAACAAACT
Found at i:103798 original size:95 final size:99
Alignment explanation
Indices: 103605--103801 Score: 260
Period size: 95 Copynumber: 2.0 Consensus size: 99
103595 AGAGACAAAA
* *
103605 TTTTGTTTCTAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAAAGAGACAA
1 TTTTGTTTCAAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTCAAAAGAGACAA
*
103670 AATTTTGTTTCCAAAGAAACAAACTCAAAGATTT
66 AACTTTGTTTCCAAAGAAACAAACTCAAAGATTT
* * * * *
103704 TTTTGTTTCAAAAGAAACCATCTCAAAGA-TTTT-TTTC-ACA-AAATTGTCTCAAGAGAGACAA
1 TTTTGTTTCAAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTCAAAAGAGACAA
* *
103765 AACTTTGTTT-CAAAGTAAATAGACTCAAAGATTT
66 AACTTTGTTTCCAAAG-AAACAAACTCAAAGATTT
103799 TTT
1 TTT
103802 CAAACGATAC
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
94 5 0.06
95 46 0.53
96 2 0.02
97 4 0.05
98 4 0.05
99 26 0.30
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.35
Consensus pattern (99 bp):
TTTTGTTTCAAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTCAAAAGAGACAA
AACTTTGTTTCCAAAGAAACAAACTCAAAGATTT
Found at i:103802 original size:27 final size:26
Alignment explanation
Indices: 103787--103939 Score: 182
Period size: 27 Copynumber: 5.6 Consensus size: 26
103777 AAGTAAATAG
*
103787 ACTCAAAGATTTTTTCAAACGATAC-A
1 ACTCAAAGATTTTTTCAAAGGA-ACAA
*
103813 ACTCACAGATTTTTATTCCAAAGGAACAA
1 ACTCAAAGA-TTTT-TT-CAAAGGAACAA
*
103842 ACTCCAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGA-TTTT-TTC-AAAGGAACAA
*
103871 ACTCAAAGATATTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTCAA-AGGAACAA
103898 ACTCAAAGATTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTCAA-AGGAACAA
103925 ACTCAAAGATTTTTT
1 ACTCAAAGATTTTTT
103940 TCCTCAAAAG
Statistics
Matches: 114, Mismatches: 7, Indels: 11
0.86 0.05 0.08
Matches are distributed among these distances:
26 10 0.09
27 56 0.49
28 8 0.07
29 40 0.35
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (26 bp):
ACTCAAAGATTTTTTCAAAGGAACAA
Found at i:104278 original size:36 final size:34
Alignment explanation
Indices: 104195--104286 Score: 103
Period size: 36 Copynumber: 2.6 Consensus size: 34
104185 AGAAAATGAG
*
104195 GTCTCAAGCGAGACAAAATTTGCTTTAAGATACA
1 GTCTCAAGCGAGACAAAATTTGCTTTAAGAAACA
** * **
104229 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGCGAGACAAAATTTG-CTTTA-AGAAACA
*
104265 GTCTCAAGCGAGACAAAGTTTG
1 GTCTCAAGCGAGACAAAATTTG
104287 AGAAAACGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
34 20 0.43
35 4 0.09
36 23 0.49
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (34 bp):
GTCTCAAGCGAGACAAAATTTGCTTTAAGAAACA
Found at i:104552 original size:21 final size:21
Alignment explanation
Indices: 104491--104552 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
104481 TTGTGGAAAA
*
104491 TGTCTCAAGCGAGACATAATT
1 TGTCTCAAGCGAGACAAAATT
* * * *
104512 TGTTTTAA---AGA-GAAAGT
1 TGTCTCAAGCGAGACAAAATT
104529 TGTCTCAAGCGAGACAAAATT
1 TGTCTCAAGCGAGACAAAATT
104550 TGT
1 TGT
104553 TTTTAAGAAA
Statistics
Matches: 28, Mismatches: 9, Indels: 8
0.62 0.20 0.18
Matches are distributed among these distances:
17 9 0.32
18 3 0.11
20 3 0.11
21 13 0.46
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (21 bp):
TGTCTCAAGCGAGACAAAATT
Found at i:104569 original size:36 final size:35
Alignment explanation
Indices: 104486--104593 Score: 117
Period size: 38 Copynumber: 2.9 Consensus size: 35
104476 AAAGTTTGTG
* *
104486 GAAAATGTCTCAAGCGAGACATAATTTGTTTTAAA
1 GAAAATGTCTCAAGCGAGACAAAATTTGTTTTTAA
104521 GAGAAAGTTGTCTCAAGCGAGACAAAATTTGTTTTTAA
1 GA-AAA--TGTCTCAAGCGAGACAAAATTTGTTTTTAA
* * * *
104559 GAAAACTGTCTCTAGTGAGACGACACTTTGTTTTT
1 GAAAA-TGTCTCAAGCGAGAC-AAAATTTGTTTTT
104594 TTAATAAGAT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
35 2 0.03
36 16 0.26
37 14 0.23
38 30 0.48
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (35 bp):
GAAAATGTCTCAAGCGAGACAAAATTTGTTTTTAA
Found at i:106128 original size:11 final size:11
Alignment explanation
Indices: 106114--106230 Score: 78
Period size: 11 Copynumber: 10.2 Consensus size: 11
106104 CCTCTTTTTG
*
106114 TTCTTTGCTTT
1 TTCTTTGATTT
106125 TTCTTTGATTT
1 TTCTTTGATTT
106136 TTGC-TTGATTT
1 TT-CTTTGATTT
106147 TTCTTTG-TTT
1 TTCTTTGATTT
106157 TTGCTTTGATTTT
1 TT-CTTTGA-TTT
* *
106170 TTCTCTCTGCTCT
1 TTCT-T-TGATTT
* **
106183 TTGTTTTTTTT
1 TTCTTTGATTT
*
106194 TTCTTTGCTCTT
1 TTCTTTGAT-TT
106206 TTCTATTTGATTT
1 TTC--TTTGATTT
106219 TTCTTTG-TTT
1 TTCTTTGATTT
106229 TT
1 TT
106231 GATTGGATCT
Statistics
Matches: 85, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
10 11 0.13
11 42 0.49
12 9 0.11
13 16 0.19
14 7 0.08
ACGTcount: A:0.04, C:0.14, G:0.10, T:0.72
Consensus pattern (11 bp):
TTCTTTGATTT
Found at i:106149 original size:22 final size:22
Alignment explanation
Indices: 106116--106231 Score: 94
Period size: 22 Copynumber: 5.0 Consensus size: 22
106106 TCTTTTTGTT
*
106116 CTTTGCTTTTTCTTTGATTTTTG
1 CTTTGATTTTTCTTTG-TTTTTG
106139 C-TTGATTTTTCTTTGTTTTTG
1 CTTTGATTTTTCTTTGTTTTTG
*
106160 CTTTGATTTTTTCTCTCTGCTCTTTG
1 CTTTGA-TTTTTCT-T-TG-TTTTTG
**
106186 -TTTTTTTTTTCTTTGCTCTTTT-
1 CTTTGATTTTTCTTTG-T-TTTTG
106208 CTATTTGATTTTTCTTTGTTTTTG
1 C--TTTGATTTTTCTTTGTTTTTG
106232 ATTGGATCTT
Statistics
Matches: 76, Mismatches: 7, Indels: 19
0.75 0.07 0.19
Matches are distributed among these distances:
21 7 0.09
22 21 0.28
23 16 0.21
24 9 0.12
25 18 0.24
26 5 0.07
ACGTcount: A:0.04, C:0.14, G:0.11, T:0.71
Consensus pattern (22 bp):
CTTTGATTTTTCTTTGTTTTTG
Found at i:106230 original size:36 final size:36
Alignment explanation
Indices: 106140--106241 Score: 105
Period size: 36 Copynumber: 2.8 Consensus size: 36
106130 TGATTTTTGC
* *
106140 TTGATTTTTCTTTGTTTTTGCTTTGATTTTTTCTCT
1 TTGATTTTTCTTTGTTTTTGCTTTGATCTTTTCTAT
* * * * * * *
106176 CTGCTCTTTGTTTTTTTTTTCTTTGCTCTTTTCTAT
1 TTGATTTTTCTTTGTTTTTGCTTTGATCTTTTCTAT
* *
106212 TTGATTTTTCTTTGTTTTTGATTGGATCTT
1 TTGATTTTTCTTTGTTTTTGCTTTGATCTT
106242 CGCACTTGAT
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.06, C:0.13, G:0.12, T:0.70
Consensus pattern (36 bp):
TTGATTTTTCTTTGTTTTTGCTTTGATCTTTTCTAT
Found at i:112699 original size:25 final size:25
Alignment explanation
Indices: 112667--112714 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
112657 GGCTGGAACA
112667 TTTAGGGTTTGAAACCCTAATCTAT
1 TTTAGGGTTTGAAACCCTAATCTAT
112692 TTTAGGGTTTGAAACCCTAATCT
1 TTTAGGGTTTGAAACCCTAATCT
112715 GATGGGTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (25 bp):
TTTAGGGTTTGAAACCCTAATCTAT
Found at i:112837 original size:3 final size:3
Alignment explanation
Indices: 112829--112867 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
112819 ATTAATAAAC
* *
112829 ATA ATA ATA AAA AAA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
112868 CGATAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:112838 original size:12 final size:11
Alignment explanation
Indices: 112821--112867 Score: 58
Period size: 12 Copynumber: 4.0 Consensus size: 11
112811 AATATGTAAT
112821 TAATAAACATAA
1 TAATAAA-ATAA
*
112833 TAATAAAAAAAA
1 TAAT-AAAATAA
112845 TAATAATAATAA
1 TAATAA-AATAA
112857 TAATAAAATAA
1 TAATAAAATAA
112868 CGATAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 7 0.23
12 21 0.68
13 3 0.10
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:113270 original size:42 final size:42
Alignment explanation
Indices: 113202--113283 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
113192 TTGGAAAATA
* ** *
113202 TTTTTCGAAAAATATTTTCCGGTGTTTGATAGA-TGTAATTGG
1 TTTTACGAAAAATATTTTCCAATGTTTAATA-ATTGTAATTGG
113244 TTTTACGAAAAATATTTTCCAATGTTTAATAATTGTAATT
1 TTTTACGAAAAATATTTTCCAATGTTTAATAATTGTAATT
113284 AATTTTTCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 34 0.97
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (42 bp):
TTTTACGAAAAATATTTTCCAATGTTTAATAATTGTAATTGG
Found at i:113468 original size:17 final size:17
Alignment explanation
Indices: 113421--113472 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
113411 TTTATTTATT
**
113421 TAATATTA-ATTTAAAA
1 TAATATTATATTTTTAA
* * *
113437 TTATAATATAATTTTAA
1 TAATATTATATTTTTAA
113454 TAATATTATATTTTTAA
1 TAATATTATATTTTTAA
113471 TA
1 TA
113473 TTATATTAAT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATATTATATTTTTAA
Found at i:113471 original size:47 final size:52
Alignment explanation
Indices: 113419--113522 Score: 130
Period size: 47 Copynumber: 2.1 Consensus size: 52
113409 ATTTTATTTA
*
113419 TTTAATATTA-ATTTAAAAT-TA-TAATATA-ATTTTAAT-A-ATATTATATT
1 TTTAATATTATA-TTAAAATATACTAATATATATTATAATAATATATTATATT
* *
113466 TTTAATATTATATTAATATATACTCATATATATTATAATAATATATTATATT
1 TTTAATATTATATTAAAATATACTAATATATATTATAATAATATATTATATT
113518 TTTAA
1 TTTAA
113523 ATTTACTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
47 16 0.33
48 3 0.06
49 6 0.12
50 7 0.15
51 1 0.02
52 15 0.31
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (52 bp):
TTTAATATTATATTAAAATATACTAATATATATTATAATAATATATTATATT
Found at i:113478 original size:19 final size:19
Alignment explanation
Indices: 113430--113480 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 19
113420 TTAATATTAA
* *
113430 TTTAAAATTATAATATAAT
1 TTTAATATTATATTATAAT
*
113449 TTTAATA--ATATTATATT
1 TTTAATATTATATTATAAT
113466 TTTAATATTATATTA
1 TTTAATATTATATTA
113481 ATATATACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 15 0.56
19 12 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAATATTATATTATAAT
Found at i:113481 original size:28 final size:27
Alignment explanation
Indices: 113440--113553 Score: 78
Period size: 25 Copynumber: 4.3 Consensus size: 27
113430 TTTAAAATTA
* *
113440 TAATATAATTTTAATAATATTATATTTT
1 TAATATTATATTAAT-ATATTATATTTT
*
113468 TAATATTATATTAATATA-TACTCA--TA
1 TAATATTATATTAATATATTA-T-ATTTT
*
113494 T-ATATTATAATAATATATTATATTTT
1 TAATATTATATTAATATATTATATTTT
* * * **
113520 TAA-ATT-TACTAATACATAATATAAT
1 TAATATTATATTAATATATTATATTTT
113545 TAATATTAT
1 TAATATTAT
113554 CTATTTTTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
24 1 0.01
25 33 0.49
26 14 0.21
27 6 0.09
28 14 0.21
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (27 bp):
TAATATTATATTAATATATTATATTTT
Found at i:113482 original size:52 final size:52
Alignment explanation
Indices: 113423--113522 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 52
113413 TATTTATTTA
* * *
113423 ATATTAATTTAAAATTATAATATAATTTTAAT-A-ATATTATATTTTTAATATT
1 ATATTAATATAAAATCAT-ATAT-ATTATAATAATATATTATATTTTTAATATT
* *
113475 ATATTAATATATACTCATATATATTATAATAATATATTATATTTTTAA
1 ATATTAATATAAAATCATATATATTATAATAATATATTATATTTTTAA
113523 ATTTACTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 7 0.17
51 5 0.12
52 29 0.71
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (52 bp):
ATATTAATATAAAATCATATATATTATAATAATATATTATATTTTTAATATT
Found at i:119811 original size:2 final size:2
Alignment explanation
Indices: 119800--119833 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
119790 CTATTCTAAG
119800 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
119834 GTTCAGTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:122673 original size:46 final size:46
Alignment explanation
Indices: 122616--122786 Score: 256
Period size: 46 Copynumber: 3.7 Consensus size: 46
122606 CGGAGAAGGG
* *
122616 TACTTAAGTAAAAACCGAGAGTCGGAGTAAGTGTCGGAGATAGATA
1 TACTAAAGTAAAAACCGAGAGCCGGAGTAAGTGTCGGAGATAGATA
*
122662 TACTAAAGTAAAAACCGAGAGTCGGAGTAAGTGTCGGAGATAGATA
1 TACTAAAGTAAAAACCGAGAGCCGGAGTAAGTGTCGGAGATAGATA
**
122708 TACTAAAGTAAAAACCGAGAGCCGGAGTAAGTGTCGGAGAT-G-GG
1 TACTAAAGTAAAAACCGAGAGCCGGAGTAAGTGTCGGAGATAGATA
* *
122752 TACTTTAAGTTAAAACCGAGAGCCGGAGTAAGTGT
1 TAC-TAAAGTAAAAACCGAGAGCCGGAGTAAGTGT
122787 TATAAAATTA
Statistics
Matches: 118, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
44 3 0.03
45 30 0.25
46 85 0.72
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.20
Consensus pattern (46 bp):
TACTAAAGTAAAAACCGAGAGCCGGAGTAAGTGTCGGAGATAGATA
Found at i:136206 original size:14 final size:14
Alignment explanation
Indices: 136189--136229 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
136179 TCATTTTTAT
*
136189 AAAAATAAAAAATA
1 AAAAATATAAAATA
*
136203 AAAACTATAAAATA
1 AAAAATATAAAATA
*
136217 CAAAATATAAAAT
1 AAAAATATAAAAT
136230 GTATCTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAAATATAAAATA
Found at i:144900 original size:32 final size:31
Alignment explanation
Indices: 144864--144981 Score: 141
Period size: 32 Copynumber: 3.7 Consensus size: 31
144854 GTTCTACGGA
*
144864 ACATATGAACAGAATTACCTATGTCTTTCGAG
1 ACATATGGACAGAA-TACCTATGTCTTTCGAG
* *
144896 ACATATGGACAGTATACCTATGT-TCTACG-G
1 ACATATGGACAGAATACCTATGTCT-TTCGAG
*
144926 AACATATGGACAAAATTACCTATGTCTTTCGAG
1 -ACATATGGACAGAA-TACCTATGTCTTTCGAG
*
144959 ACATATGGACAGTATACCTATGT
1 ACATATGGACAGAATACCTATGT
144982 TCTAAAGAAC
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
30 2 0.03
31 33 0.45
32 36 0.49
33 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (31 bp):
ACATATGGACAGAATACCTATGTCTTTCGAG
Found at i:144943 original size:63 final size:63
Alignment explanation
Indices: 144844--145000 Score: 278
Period size: 63 Copynumber: 2.5 Consensus size: 63
144834 AGAGTTGAGG
* *
144844 GTATACCTATGTTCTACGGAACATATGAACAGAATTACCTATGTCTTTCGAGACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACAAAATTACCTATGTCTTTCGAGACATATGGACA
144907 GTATACCTATGTTCTACGGAACATATGGACAAAATTACCTATGTCTTTCGAGACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACAAAATTACCTATGTCTTTCGAGACATATGGACA
**
144970 GTATACCTATGTTCTAAAGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
145001 GTTTACCTAG
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 90 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (63 bp):
GTATACCTATGTTCTACGGAACATATGGACAAAATTACCTATGTCTTTCGAGACATATGGACA
Found at i:145034 original size:31 final size:31
Alignment explanation
Indices: 144847--145034 Score: 177
Period size: 31 Copynumber: 6.0 Consensus size: 31
144837 GTTGAGGGTA
* *
144847 TACCTATGTTCTACGGAACATATGAACAGAAT
1 TACCTATGTTCTACGGAACATATGGACAG-TT
* *
144879 TACCTATG-TCTTTC-GAGACATATGGACAGTA
1 TACCTATGTTC-TACGGA-ACATATGGACAGTT
**
144910 TACCTATGTTCTACGGAACATATGGACAAAAT
1 TACCTATGTTCTACGGAACATATGGAC-AGTT
* *
144942 TACCTATG-TCTTTC-GAGACATATGGACAGTA
1 TACCTATGTTC-TACGGA-ACATATGGACAGTT
**
144973 TACCTATGTTCTAAAGAACATATGGACAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTT
* * *
145004 TACCTAGGTTCTTCGGAACCTATGGACAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTT
145035 GCCGAGGATC
Statistics
Matches: 127, Mismatches: 20, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
31 77 0.61
32 50 0.39
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTT
Found at i:145083 original size:30 final size:30
Alignment explanation
Indices: 145021--145092 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
145011 GTTCTTCGGA
* * * *
145021 ACCTATGGACAGTTGCCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCCTTATG
* *
145051 ACCTCTGGATAGTTACCGAGGTTCCTTGTG
1 ACCTCTGGATAGTTACCGAGGATCCTTATG
145081 ACCTCTGGATAG
1 ACCTCTGGATAG
145093 GTCCTTCAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCGAGGATCCTTATG
Found at i:160307 original size:29 final size:31
Alignment explanation
Indices: 160264--160322 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 31
160254 TATACCCGTT
160264 TTTTCAGTTTAATATCTAACGTTT-ATTTCG
1 TTTTCAGTTTAATATCTAACGTTTCATTTCG
*
160294 TTTT-AGTTTGATATCTAACGTTTCATTTC
1 TTTTCAGTTTAATATCTAACGTTTCATTTC
160323 ATGATTCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.54
Consensus pattern (31 bp):
TTTTCAGTTTAATATCTAACGTTTCATTTCG
Found at i:160947 original size:32 final size:31
Alignment explanation
Indices: 160911--160997 Score: 84
Period size: 37 Copynumber: 2.6 Consensus size: 31
160901 AACCTTTTTT
160911 ATATTTTTAATTTTGTAAAAAAAATTATATAA
1 ATATTTTTAATTTTGTAAAAAAAA-TATATAA
* *
160943 ATATTATGAATTTAATTTTTTAAAGAAAATATATAA
1 ATA-T-T---TTTAATTTTGTAAAAAAAATATATAA
*
160979 ATATTTTACAATTTTGTAA
1 ATATTTT-TAATTTTGTAA
160998 TATTATACAA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
31 2 0.04
32 12 0.27
33 1 0.02
34 2 0.04
35 1 0.02
36 10 0.22
37 17 0.38
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (31 bp):
ATATTTTTAATTTTGTAAAAAAAATATATAA
Found at i:160992 original size:37 final size:37
Alignment explanation
Indices: 160916--160992 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
160906 TTTTTATATT
*
160916 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
160953 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
160990 TTT
1 TTT
160993 TGTAATATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:161016 original size:18 final size:18
Alignment explanation
Indices: 160969--161017 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
160959 TTTTTAAAGA
*
160969 AAATATATAAATATTTTAC
1 AAATATAT-AATATTATAC
* * *
160988 AATTTTGTAATATTATAC
1 AAATATATAATATTATAC
161006 AAATATATAATA
1 AAATATATAATA
161018 AGGACAATTT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
AAATATATAATATTATAC
Found at i:163029 original size:228 final size:227
Alignment explanation
Indices: 162675--163459 Score: 897
Period size: 228 Copynumber: 3.4 Consensus size: 227
162665 CGAGGTGGAG
* * * * * *
162675 AGCTCTGACACCATCGATAACGTCAAGTCCAAGATTCAAGACAAGGAAGGTATCCCTCCCGATCA
1 AGCTCTGACACCATCGACAACGTCAAGGCCAAGATTCAGGACAAGGAAGGCATCCCTCCGGACCA
* * * * *
162740 GCAACGATTGATCTTCGCCGGAAAGCAACTTGAAGACGGTCGTACCCTCGCCGACTATAACATCC
66 ACAGCGATTGATCTTCGCCGGGAAGCAACTTGAAGACGGTCGTA-CCTCGCCGATTATAACATTC
* * * *
162805 AGAAGGAGTCGACTCTCCATCTGGTCCTCCGTCTCCGCGGTGGCATGCAGATCTTCGTCAAAACC
130 AGAAGGAATCGACTCTACATCTGGTCCTCCGTCTCCGTGGTGGCATGCAGATCTTCGTTAAAACC
*
162870 TTAACCGGCAAGACTATAACTCTTGAAGTCGAA
195 TTAACCGGCAAGACTATAACTCTTGAAGTAGAA
* * * *
162903 AGCTCGGACACCATCGATAACGTCAAGGCGAAGATTCAGGACAAAGAAGGCATCCCTCCGGACCA
1 AGCTCTGACACCATCGACAACGTCAAGGCCAAGATTCAGGACAAGGAAGGCATCCCTCCGGACCA
* * *
162968 ACAGCGATTGATCTTCGCCGGCAAGCAACTTGAAGACGGCCGTACTCTCGCTGATTATAACATTC
66 ACAGCGATTGATCTTCGCCGGGAAGCAACTTGAAGACGGTCGTAC-CTCGCCGATTATAACATTC
* *
163033 AGAAGGAATCGACACTACATCTGGTCCTCCGTCTCCGTGGTGGTATGCAGATCTTCGTTAAAACC
130 AGAAGGAATCGACTCTACATCTGGTCCTCCGTCTCCGTGGTGGCATGCAGATCTTCGTTAAAACC
* * *
163098 CTAACCGGCAAGACTATCACTCTTGAAGTGGAA
195 TTAACCGGCAAGACTATAACTCTTGAAGTAGAA
* * *
163131 AGCTCTGACACCATAGACAATGTCAAGACCAAGATTCAGGACAAGGAAGGCATCCCTCCGGACCA
1 AGCTCTGACACCATCGACAACGTCAAGGCCAAGATTCAGGACAAGGAAGGCATCCCTCCGGACCA
* * * * * * * *
163196 GCAGCGATTGATCTTCGCCGGGAAGC-AGTTAGACGATGGTCGCACCTTGGCCGATTACAATATT
66 ACAGCGATTGATCTTCGCCGGGAAGCAACTT-GAAGACGGTCGTACC-TCGCCGATTATAACATT
* * * * * * * *
163260 CAGAAGGAATCGACTCTTCACCTTGTGCTCAGGCTTCGTGGTGGCATGCAGATCTTTGTTAAAAC
129 CAGAAGGAATCGACTCTACATCTGGTCCTCCGTCTCCGTGGTGGCATGCAGATCTTCGTTAAAAC
* * * * * * *
163325 CTTGACCGGAAAAACAATTACCCTTGAGGTAGAA
194 CTTAACCGGCAAGACTATAACTCTTGAAGTAGAA
* * * * * * * * * *
163359 AGCTCCGACACGATCGACAATGTGAAGGCGAAAATCCAGGATAAGGAAGGGATTCCTCCGGACCA
1 AGCTCTGACACCATCGACAACGTCAAGGCCAAGATTCAGGACAAGGAAGGCATCCCTCCGGACCA
* * * * * *
163424 ACAGAGGTTGATTTTCGCAGGGAAGCAGCTGGAAGA
66 ACAGCGATTGATCTTCGCCGGGAAGCAACTTGAAGA
163460 TGGCAGGACC
Statistics
Matches: 472, Mismatches: 81, Indels: 8
0.84 0.14 0.01
Matches are distributed among these distances:
227 5 0.01
228 466 0.99
229 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (227 bp):
AGCTCTGACACCATCGACAACGTCAAGGCCAAGATTCAGGACAAGGAAGGCATCCCTCCGGACCA
ACAGCGATTGATCTTCGCCGGGAAGCAACTTGAAGACGGTCGTACCTCGCCGATTATAACATTCA
GAAGGAATCGACTCTACATCTGGTCCTCCGTCTCCGTGGTGGCATGCAGATCTTCGTTAAAACCT
TAACCGGCAAGACTATAACTCTTGAAGTAGAA
Found at i:163479 original size:456 final size:456
Alignment explanation
Indices: 162621--163480 Score: 1056
Period size: 456 Copynumber: 1.9 Consensus size: 456
162611 TTCGTTGAAG
* * * * *
162621 ATGCAGATCTTTGTGAAGACCCTCACCGGCAAAACAATCACCCTCGAGGTGGAGAGCTCTGACAC
1 ATGCAGATCTTCGTGAAAACCCTAACCGGCAAAACAATCACCCTCGAAGTGGAAAGCTCTGACAC
* * * * *
162686 CATCGATAACGTCAAGTCCAAGATTCAAGACAAGGAAGGTATCCCTCCCGATCAGCAACGATTGA
66 CATAGACAACGTCAAGACCAAGATTCAAGACAAGGAAGGCATCCCTCCCGACCAGCAACGATTGA
* * *
162751 TCTTCGCCGGAAAGCAACTTGAAGACGGTCGTACCCTCGCCGACTATAACATCCAGAAGGAGTCG
131 TCTTCGCCGGAAAGCAACTTGAAGACGGTCGCACCCTCGCCGACTACAACATCCAGAAGGAATCG
* * * *
162816 ACTCTCCATCTGGTCCTCCGTCTCCGCGGTGGCATGCAGATCTTCGTCAAAACCTTAACCGGCAA
196 ACTCTCCACCTGGTCCTCAGGCTCCGCGGTGGCATGCAGATCTTCGTCAAAACCTTAACCGGAAA
* * * * * * * *
162881 GACTATAACTCTTGAAGTCGAAAGCTCGGACACCATCGATAACGTCAAGGCGAAGATTCAGGACA
261 AACAATAACCCTTGAAGTAGAAAGCTCCGACACCATCGACAACGTCAAGGCGAAAATCCAGGACA
* * * * *
162946 AAGAAGGCATCCCTCCGGACCAACAGCGATTGATCTTCGCCGGCAAGCAACTTGAAGACGGCCGT
326 AAGAAGGCATCCCTCCGGACCAACAGAGATTGATCTTCGCAGGCAAGCAACTGGAAGACGGCAGG
*
163011 ACTCTCGCTGATTATAACATTCAGAAGGAATCGACACTACATCTGGTCCTCCGTCTCCGTGGTGG
391 ACCCTCGCTGATTATAACATTCAGAAGGAATCGACACTACATCTGGTCCTCCGTCTCCGTGGTGG
163076 T
456 T
* * * * *
163077 ATGCAGATCTTCGTTAAAACCCTAACCGGCAAGACTATCACTCTTGAAGTGGAAAGCTCTGACAC
1 ATGCAGATCTTCGTGAAAACCCTAACCGGCAAAACAATCACCCTCGAAGTGGAAAGCTCTGACAC
* * * *
163142 CATAGACAATGTCAAGACCAAGATTCAGGACAAGGAAGGCATCCCTCCGGACCAGCAGCGATTGA
66 CATAGACAACGTCAAGACCAAGATTCAAGACAAGGAAGGCATCCCTCCCGACCAGCAACGATTGA
* * * * * * * * *
163207 TCTTCGCCGGGAAGC-AGTTAGACGATGGTCGCACCTTGGCCGATTACAATATTCAGAAGGAATC
131 TCTTCGCCGGAAAGCAACTT-GAAGACGGTCGCACCCTCGCCGACTACAACATCCAGAAGGAATC
* * * * * * * *
163271 GACTCTTCACCTTGTGCTCAGGCTTCGTGGTGGCATGCAGATCTTTGTTAAAACCTTGACCGGAA
195 GACTCTCCACCTGGTCCTCAGGCTCCGCGGTGGCATGCAGATCTTCGTCAAAACCTTAACCGGAA
* * * * * *
163336 AAACAATTACCCTTGAGGTAGAAAGCTCCGACACGATCGACAATGTGAAGGCGAAAATCCAGGAT
260 AAACAATAACCCTTGAAGTAGAAAGCTCCGACACCATCGACAACGTCAAGGCGAAAATCCAGGAC
* * * * * * * *
163401 AAGGAAGGGATTCCTCCGGACCAACAGAGGTTGATTTTCGCAGGGAAGCAGCTGGAAGATGGCAG
325 AAAGAAGGCATCCCTCCGGACCAACAGAGATTGATCTTCGCAGGCAAGCAACTGGAAGACGGCAG
*
163466 GACCCTTGCTGATTA
390 GACCCTCGCTGATTA
163481 CAATATACAG
Statistics
Matches: 331, Mismatches: 72, Indels: 2
0.82 0.18 0.00
Matches are distributed among these distances:
455 3 0.01
456 328 0.99
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (456 bp):
ATGCAGATCTTCGTGAAAACCCTAACCGGCAAAACAATCACCCTCGAAGTGGAAAGCTCTGACAC
CATAGACAACGTCAAGACCAAGATTCAAGACAAGGAAGGCATCCCTCCCGACCAGCAACGATTGA
TCTTCGCCGGAAAGCAACTTGAAGACGGTCGCACCCTCGCCGACTACAACATCCAGAAGGAATCG
ACTCTCCACCTGGTCCTCAGGCTCCGCGGTGGCATGCAGATCTTCGTCAAAACCTTAACCGGAAA
AACAATAACCCTTGAAGTAGAAAGCTCCGACACCATCGACAACGTCAAGGCGAAAATCCAGGACA
AAGAAGGCATCCCTCCGGACCAACAGAGATTGATCTTCGCAGGCAAGCAACTGGAAGACGGCAGG
ACCCTCGCTGATTATAACATTCAGAAGGAATCGACACTACATCTGGTCCTCCGTCTCCGTGGTGG
T
Found at i:168657 original size:99 final size:99
Alignment explanation
Indices: 168486--168681 Score: 392
Period size: 99 Copynumber: 2.0 Consensus size: 99
168476 TAAATATTGC
168486 CATCCTTACTAGCCCCAAAAATGGTCTGCATTAAATGCATTTATCAAGGTTAAGGATTATTCAAA
1 CATCCTTACTAGCCCCAAAAATGGTCTGCATTAAATGCATTTATCAAGGTTAAGGATTATTCAAA
168551 ATCTCAAATAGAAAGCATTACAAGCAATAAATCG
66 ATCTCAAATAGAAAGCATTACAAGCAATAAATCG
168585 CATCCTTACTAGCCCCAAAAATGGTCTGCATTAAATGCATTTATCAAGGTTAAGGATTATTCAAA
1 CATCCTTACTAGCCCCAAAAATGGTCTGCATTAAATGCATTTATCAAGGTTAAGGATTATTCAAA
168650 ATCTCAAATAGAAAGCATTACAAGCAATAAAT
66 ATCTCAAATAGAAAGCATTACAAGCAATAAAT
168682 TGTGTAGCAT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.28
Consensus pattern (99 bp):
CATCCTTACTAGCCCCAAAAATGGTCTGCATTAAATGCATTTATCAAGGTTAAGGATTATTCAAA
ATCTCAAATAGAAAGCATTACAAGCAATAAATCG
Found at i:176296 original size:22 final size:20
Alignment explanation
Indices: 176271--176329 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
176261 CAATATGAGG
176271 AAAAAAAATACTAATAATAATT
1 AAAAAAAATA-TAATAATAA-T
**
176293 AAAAAGCATGATAATAATAAT
1 AAAAAAAAT-ATAATAATAAT
* *
176314 AAATAAAATAAAATAA
1 AAAAAAAATATAATAA
176330 GAATTCGGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 6 0.20
21 7 0.23
22 16 0.53
23 1 0.03
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.24
Consensus pattern (20 bp):
AAAAAAAATATAATAATAAT
Found at i:177617 original size:49 final size:45
Alignment explanation
Indices: 177563--177672 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 45
177553 GTTTTCAAAA
*
177563 TATATATATTTTTCAAAAAAATAATTTTTTTTAAAAAAAATCTATATAG
1 TATATATATTTTTCAAAAAAA-AATGTTTTTT--AAAAAAT-TATATAG
* * *
177612 TATATATATGATTTC--AAAAAAATGTTTTTTCAAAAATTATATAT
1 TATATATAT-TTTTCAAAAAAAAATGTTTTTTAAAAAATTATATAG
177656 TATATATA-TTTTCAAAA
1 TATATATATTTTTCAAAA
177673 CTATATAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
42 4 0.08
44 16 0.30
45 6 0.11
47 9 0.17
48 5 0.09
49 9 0.17
50 4 0.08
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (45 bp):
TATATATATTTTTCAAAAAAAAATGTTTTTTAAAAAATTATATAG
Found at i:177691 original size:24 final size:25
Alignment explanation
Indices: 177638--177696 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
177628 AAAAAATGTT
* *
177638 TTTTCAAAAATTATATATTATATATA
1 TTTTC-AAAACTATATATAATATATA
*
177664 TTTTCAAAACTATATA-AATATATG
1 TTTTCAAAACTATATATAATATATA
177688 TTTTCAAAA
1 TTTTCAAAA
177697 ATATTTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 15 0.50
25 10 0.33
26 5 0.17
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (25 bp):
TTTTCAAAACTATATATAATATATA
Found at i:177701 original size:36 final size:36
Alignment explanation
Indices: 177661--177835 Score: 203
Period size: 37 Copynumber: 4.8 Consensus size: 36
177651 TATATTATAT
* * *
177661 ATATTTTCAAAACTATATAAATATATGTTTTCAAAA
1 ATATTTTAAAAACTATATAATTATATATTTTCAAAA
177697 ATATTTTTAAAAAACTATAT-ATTATATATTTTC-AAA
1 ATA-TTTT-AAAAACTATATAATTATATATTTTCAAAA
* * *
177733 ATGATTTCAAAAATTATATACATTATATATTTTCTAAA
1 AT-ATTTTAAAAACTATATA-ATTATATATTTTCAAAA
*
177771 ATGTTTTAAAAACTATAT-ATTATATCATTTTCAAAA
1 ATATTTTAAAAACTATATAATTATAT-ATTTTCAAAA
*
177807 ATGTTTTAAAAACTATATAATATATATAT
1 ATATTTTAAAAACTATATAAT-TATATAT
177836 ATATATATAT
Statistics
Matches: 121, Mismatches: 9, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
35 17 0.14
36 38 0.31
37 46 0.38
38 20 0.17
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (36 bp):
ATATTTTAAAAACTATATAATTATATATTTTCAAAA
Found at i:177730 original size:37 final size:37
Alignment explanation
Indices: 177669--177879 Score: 187
Period size: 37 Copynumber: 5.5 Consensus size: 37
177659 ATATATTTTC
* * *
177669 AAAACTATATAAATATATGTTTTCAAAAATATTTTTAA
1 AAAACTATAT-ATTATATATTTTCAAAAATATTTTAAA
*
177707 AAAACTATATATTATATATTTTC-AAAATGATTTCAAA
1 AAAACTATATATTATATATTTTCAAAAAT-ATTTTAAA
* * * *
177744 AATTA-TATACATTATATATTTTCTAAAATGTTTT--A
1 AA-AACTATATATTATATATTTTCAAAAATATTTTAAA
*
177779 AAAACTATATATTATATCATTTTCAAAAATGTTTTAAAA
1 AAAACTATATATTATAT-ATTTTCAAAAATATTTT-AAA
* *
177818 ACTATATAATATATATATATATATATATTCAAAAATGTTTTAAA
1 A--A-A-ACTATATAT-TATATAT-T-TTCAAAAATATTTTAAA
177862 AAAACTATATATTATATA
1 AAAACTATATATTATATA
177880 CGTATTTTCA
Statistics
Matches: 145, Mismatches: 13, Indels: 29
0.78 0.07 0.16
Matches are distributed among these distances:
34 1 0.01
35 14 0.10
36 21 0.14
37 39 0.27
38 16 0.11
39 8 0.06
40 8 0.06
41 2 0.01
42 2 0.01
43 10 0.07
44 10 0.07
45 14 0.10
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (37 bp):
AAAACTATATATTATATATTTTCAAAAATATTTTAAA
Found at i:177837 original size:47 final size:46
Alignment explanation
Indices: 177784--177879 Score: 142
Period size: 45 Copynumber: 2.1 Consensus size: 46
177774 TTTTAAAAAC
*
177784 TATATAT-TATATCATTTTCAAAAATGTTTT-AAAAACTATATAATA
1 TATATATATATAT-ATATTCAAAAATGTTTTAAAAAACTATATAATA
*
177829 TATATATATATATATATTCAAAAATGTTTTAAAAAAACTATATATTA
1 TATATATATATATATATTCAAAAATGTTTT-AAAAAACTATATAATA
177876 TATA
1 TATA
177880 CGTATTTTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
45 23 0.50
46 5 0.11
47 18 0.39
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (46 bp):
TATATATATATATATATTCAAAAATGTTTTAAAAAACTATATAATA
Found at i:177925 original size:86 final size:82
Alignment explanation
Indices: 177674--177927 Score: 275
Period size: 86 Copynumber: 3.2 Consensus size: 82
177664 TTTTCAAAAC
* *
177674 TATATAA-ATATATGTTTTCAAAAATATTTTTAAAAAACTATATA-T-TATA-TATTTTC-AAAA
1 TATATAATATATATATTTTCAAAAAT-GTTTTAAAAAACTATATATTATATACTATTTTCAAAAA
177734 TGATTTCAAA--A-AT--
65 TGATTTCAAACTATATAA
*
177747 TATATACAT-TATATATTTTCTAAAATGTTTT-AAAAACTATATATTATAT-C-ATTTTCAAAAA
1 TATATA-ATATATATATTTTCAAAAATGTTTTAAAAAACTATATATTATATACTATTTTCAAAAA
* *
177808 TGTTTTAAAAACTATATAA
65 TGATTT-CAAACTATATAA
*
177827 TATATATATATATATATATTCAAAAATGTTTTAAAAAAACTATATATTATATACGTATTTTCAAA
1 TATATA-ATATATATATTTTCAAAAATGTTTT-AAAAAACTATATATTATATAC-TATTTTCAAA
*
177892 AATCATTTGCAAACTATATAA
63 AATGATTT-CAAACTATATAA
177913 TATATAGATATATAT
1 TATATA-ATATATAT
177928 GTAAAAAAAA
Statistics
Matches: 150, Mismatches: 13, Indels: 23
0.81 0.07 0.12
Matches are distributed among these distances:
72 12 0.08
73 17 0.11
74 28 0.19
75 3 0.02
77 1 0.01
78 2 0.01
80 8 0.05
81 20 0.13
83 18 0.12
84 1 0.01
86 40 0.27
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (82 bp):
TATATAATATATATATTTTCAAAAATGTTTTAAAAAACTATATATTATATACTATTTTCAAAAAT
GATTTCAAACTATATAA
Found at i:178740 original size:21 final size:21
Alignment explanation
Indices: 178666--178732 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
178656 ATATGAAAAT
*
178666 ATAAAATAAAATACTTATAGC
1 ATAAAATAAAATACTTACAGC
178687 ATAAAATAAAATACTTACAGC
1 ATAAAATAAAATACTTACAGC
*
178708 ATAAAATAAAATACTTACAGT
1 ATAAAATAAAATACTTACAGC
178729 ATAA
1 ATAA
178733 GAGTAAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.58, C:0.10, G:0.04, T:0.27
Consensus pattern (21 bp):
ATAAAATAAAATACTTACAGC
Found at i:179239 original size:25 final size:24
Alignment explanation
Indices: 179211--179264 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
179201 TTATATGTAA
179211 TTTATGTTCT-TTTTCTATAAAATT
1 TTTATGTT-TATTTTCTATAAAATT
* *
179235 CTTTAAGTTTATTTTCTCTAAAATT
1 -TTTATGTTTATTTTCTATAAAATT
179260 TTTAT
1 TTTAT
179265 AAATTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.26, C:0.09, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTATGTTTATTTTCTATAAAATT
Found at i:180116 original size:47 final size:48
Alignment explanation
Indices: 180047--180163 Score: 130
Period size: 47 Copynumber: 2.5 Consensus size: 48
180037 ACTTGTTAAT
* * ** * * *
180047 GAACACGTTCGTGAACATATAAACGAGTAAGTTCGC-GAACATTAAAC
1 GAACATGTTCATGAACATATAAACGAACAAGTTCACAAAACATTAAAA
* *
180094 GAACATGTTTATGAACATATAAACGAACATGTTCACAAAACATTAAAA
1 GAACATGTTCATGAACATATAAACGAACAAGTTCACAAAACATTAAAA
*
180142 GAACATGTTCATGCACA-ATAAA
1 GAACATGTTCATGAACATATAAA
180164 TAAAAGAACA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
47 34 0.59
48 24 0.41
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (48 bp):
GAACATGTTCATGAACATATAAACGAACAAGTTCACAAAACATTAAAA
Found at i:180140 original size:24 final size:23
Alignment explanation
Indices: 180084--180152 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 23
180074 TAAGTTCGCG
* **
180084 AACATTAAACGAACATGTTTATG
1 AACATTAAACGAACATGTTCAAA
180107 AACATATAAACGAACATGTTCACAA
1 AACAT-TAAACGAACATGTTCA-AA
*
180132 AACATTAAAAGAACATGTTCA
1 AACATTAAACGAACATGTTCA
180153 TGCACAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 5 0.12
24 30 0.75
25 5 0.12
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.25
Consensus pattern (23 bp):
AACATTAAACGAACATGTTCAAA
Found at i:180257 original size:30 final size:30
Alignment explanation
Indices: 180158--180258 Score: 109
Period size: 30 Copynumber: 3.4 Consensus size: 30
180148 GTTCATGCAC
* *
180158 AATAAATAAAAGAACACGAACACCTTTAAA
1 AATAAATAAACGAACACGAACACATTTAAA
* *
180188 AA-AAATAAACGAACATGAACACGATATTGAA
1 AATAAATAAACGAACACGAACAC-AT-TTAAA
* *
180219 AAT--TTAAACGAACACGAACACATTCAAA
1 AATAAATAAACGAACACGAACACATTTAAA
180247 AATAAATAAACG
1 AATAAATAAACG
180259 GTTACGAACA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
28 6 0.11
29 20 0.35
30 25 0.44
31 6 0.11
ACGTcount: A:0.58, C:0.16, G:0.09, T:0.17
Consensus pattern (30 bp):
AATAAATAAACGAACACGAACACATTTAAA
Found at i:183813 original size:44 final size:44
Alignment explanation
Indices: 183742--183865 Score: 198
Period size: 44 Copynumber: 2.8 Consensus size: 44
183732 TATAAAATCT
183742 CTTACCATT-TATCTCATAAGCTCGTAAGCTTATTTTAC-CAATATA
1 CTTACCATTAT-TC-CATAAGCTCGTAAGCTTATTTTACTC-ATATA
*
183787 CTTACCATTATTCCATAAGCTTGTAAGCTTATTTTACTCATATA
1 CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACTCATATA
183831 CTTACCATTATTCCATAAGCTCGTAAGCTTATTTT
1 CTTACCATTATTCCATAAGCTCGTAAGCTTATTTT
183866 CATGATTACA
Statistics
Matches: 75, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
44 62 0.83
45 12 0.16
46 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (44 bp):
CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACTCATATA
Found at i:184244 original size:21 final size:22
Alignment explanation
Indices: 184208--184248 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
184198 CACAATATTA
184208 TTCATGATAAAAATCATATATG
1 TTCATGATAAAAATCATATATG
*
184230 TTCATGAT-AATATCATATA
1 TTCATGATAAAAATCATATA
184249 CAACAATCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (22 bp):
TTCATGATAAAAATCATATATG
Found at i:184957 original size:15 final size:15
Alignment explanation
Indices: 184937--184965 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
184927 AACAAATTTA
184937 TGATCCTTTTCAAAT
1 TGATCCTTTTCAAAT
184952 TGATCCTTTTCAAA
1 TGATCCTTTTCAAA
184966 AATACTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.45
Consensus pattern (15 bp):
TGATCCTTTTCAAAT
Found at i:192676 original size:21 final size:21
Alignment explanation
Indices: 192649--192691 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
192639 TGTTTGAAAA
192649 TTATATTAAATTATTTGTATAAG
1 TTAT-TTAAATTATTT-TATAAG
*
192672 TTATTTACATTATTTTATAA
1 TTATTTAAATTATTTTATAA
192692 AAAGAATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
TTATTTAAATTATTTTATAAG
Found at i:192900 original size:25 final size:25
Alignment explanation
Indices: 192872--192937 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
192862 CGAGTCATAT
* *
192872 ATTTATAATTCAAATTTAATTTAAA
1 ATTTATAAATCAAATTAAATTTAAA
* *
192897 ATTTTTAAATCGAATTAAATTTATAA
1 ATTTATAAATCAAATTAAATTTA-AA
* *
192923 AATT-CAAATCAAATT
1 ATTTATAAATCAAATT
192938 TATACTTATT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
25 28 0.85
26 5 0.15
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (25 bp):
ATTTATAAATCAAATTAAATTTAAA
Found at i:194960 original size:17 final size:18
Alignment explanation
Indices: 194923--194965 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
194913 TCATTTTAGT
* *
194923 AAATACTTTAAAATTATA
1 AAATATTTTAAAATTAAA
194941 AAATATTTTAAAA-TAAA
1 AAATATTTTAAAATTAAA
194958 AAATATTT
1 AAATATTT
194966 AAATATTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATATTTTAAAATTAAA
Found at i:207235 original size:42 final size:42
Alignment explanation
Indices: 207175--207269 Score: 163
Period size: 42 Copynumber: 2.2 Consensus size: 42
207165 ACTTATTATG
*
207175 TATTTAACCTTAAAATTCAGAAGACAGTGTCTAATTTGTCTAA
1 TATTTAATC-TAAAATTCAGAAGACAGTGTCTAATTTGTCTAA
*
207218 TATTTAATCTAAAATTCAGAAGACGGTGTCTAATTTGTCTAA
1 TATTTAATCTAAAATTCAGAAGACAGTGTCTAATTTGTCTAA
207260 TATTTAATCT
1 TATTTAATCT
207270 TACAATAACC
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 42 0.84
43 8 0.16
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.40
Consensus pattern (42 bp):
TATTTAATCTAAAATTCAGAAGACAGTGTCTAATTTGTCTAA
Found at i:211507 original size:24 final size:24
Alignment explanation
Indices: 211450--211507 Score: 57
Period size: 27 Copynumber: 2.3 Consensus size: 24
211440 TTATCATGTA
211450 AAAAAT-ATTTAATTTTAATTAAT
1 AAAAATAATTTAATTTTAATTAAT
*
211473 ATAAACTATAATTTATATTTTAA-TAGT
1 A-AAA--ATAATTTA-ATTTTAATTAAT
211500 AAAAATAA
1 AAAAATAA
211508 AATCTCTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
23 1 0.03
24 7 0.24
26 5 0.17
27 9 0.31
28 7 0.24
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
AAAAATAATTTAATTTTAATTAAT
Found at i:227308 original size:15 final size:15
Alignment explanation
Indices: 227288--227321 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
227278 TGAAATCTTT
*
227288 TTTTCCCATTCTGGA
1 TTTTCCCAGTCTGGA
*
227303 TTTTCCCCGTCTGGA
1 TTTTCCCAGTCTGGA
227318 TTTT
1 TTTT
227322 GATCTGCCGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.26, G:0.15, T:0.50
Consensus pattern (15 bp):
TTTTCCCAGTCTGGA
Found at i:228829 original size:30 final size:30
Alignment explanation
Indices: 228793--228858 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
228783 AAATAGCAAA
228793 GAAATCGAACTAAAGCCGTCGATTACCGAC
1 GAAATCGAACTAAAGCCGTCGATTACCGAC
228823 GAAATCGAACTAAAGCCGTCGATTACCGAC
1 GAAATCGAACTAAAGCCGTCGATTACCGAC
228853 GAAATC
1 GAAATC
228859 ATCCATATGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.17
Consensus pattern (30 bp):
GAAATCGAACTAAAGCCGTCGATTACCGAC
Found at i:233199 original size:2 final size:2
Alignment explanation
Indices: 233192--233219 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
233182 AAAGATACAG
233192 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
233220 CGAGTATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:235973 original size:21 final size:20
Alignment explanation
Indices: 235917--235975 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
235907 CTCTTTTTAC
*
235917 CCCAAACCCCAAAATCCCTAA
1 CCCAAAACCCAAAA-CCCTAA
* * * *
235938 CCCTAAACACTAAACTCTAAA
1 CCCAAAACCCAAAACCCT-AA
235959 CCCAAAACCCAAAACCC
1 CCCAAAACCCAAAACCC
235976 CAAACCTTAA
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.46, C:0.44, G:0.00, T:0.10
Consensus pattern (20 bp):
CCCAAAACCCAAAACCCTAA
Found at i:239345 original size:117 final size:117
Alignment explanation
Indices: 239100--239347 Score: 370
Period size: 117 Copynumber: 2.1 Consensus size: 117
239090 TGCCCAAACA
* **
239100 AAGCAAAGCTCGGTGCCAATGCGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGCCA
1 AAGCAAAGCTCGGTGACAATGCGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGAAA
* * * *
239165 TTGAAGTGTTTCTAATGTGATGGAGAACACAAGGTGCGAGATTGCACCAATG
66 TTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAACG
** * *
239217 AAGCAGGGCTCGGTGACAATGCGAGTGGCGAAGCAACTAAGCCGAGGGTAAAGAAGTGAGAGAAA
1 AAGCAAAGCTCGGTGACAATGCGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGAAA
* *
239282 TTGAAGTGTTTCCAATGCGGTGGACAACACAAGGTGCGAGATTGCACCACCG
66 TTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAACG
*
239334 AAGTAAAGCTCGGT
1 AAGCAAAGCTCGGT
239348 ACGAAAGCCA
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 115 1.00
ACGTcount: A:0.33, C:0.18, G:0.32, T:0.17
Consensus pattern (117 bp):
AAGCAAAGCTCGGTGACAATGCGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGAAA
TTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAACG
Found at i:239377 original size:117 final size:116
Alignment explanation
Indices: 239100--239411 Score: 333
Period size: 117 Copynumber: 2.7 Consensus size: 116
239090 TGCCCAAACA
* * * * * *
239100 AAGCAAAGCTCGGTGCCAATGCGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGCCA
1 AAGCAAAGCTCGGTGACAAAGCAAGTGGCCAAGCAAC-AAGCCGAGGGTAAAGAAGCGAGAGCAA
* * * *
239165 TTGAAGTGTTTCTAATGTGATGGAGAACACAAGGTGCGAGATTGCACCAATG
65 TTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAACG
** * * * * *
239217 AAGCAGGGCTCGGTGACAATGCGAGTGGCGAAGCAACTAAGCCGAGGGTAAAGAAGTGAGAGAAA
1 AAGCAAAGCTCGGTGACAAAGCAAGTGGCCAAGCAAC-AAGCCGAGGGTAAAGAAGCGAGAGCAA
* *
239282 TTGAAGTGTTTCCAATGCGGTGGACAACACAAGGTGCGAGATTGCACCACCG
65 TTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAACG
* * *
239334 AAGTAAAGCTCGGT-ACGAAAGCCAAG-GGCCAAGCTGAA-GAGCCGAGGGTAAATAAGCGAGAG
1 AAGCAAAGCTCGGTGAC-AAAG-CAAGTGGCCAAGC--AACAAGCCGAGGGTAAAGAAGCGAGAG
* *
239396 CAACTGGAGTGTTTCC
62 CAATTGAAGTGTTTCC
239412 GGTGCAAAGG
Statistics
Matches: 166, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
116 2 0.01
117 159 0.96
118 3 0.02
119 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.32, T:0.16
Consensus pattern (116 bp):
AAGCAAAGCTCGGTGACAAAGCAAGTGGCCAAGCAACAAGCCGAGGGTAAAGAAGCGAGAGCAAT
TGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAACG
Found at i:240039 original size:15 final size:15
Alignment explanation
Indices: 240019--240053 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
240009 AGCAAGGCTC
240019 TTCGAGTGAAGCTTG
1 TTCGAGTGAAGCTTG
*
240034 TTCGAGTGAAGTTTG
1 TTCGAGTGAAGCTTG
240049 TTCGA
1 TTCGA
240054 ATAGTGAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.20, C:0.11, G:0.31, T:0.37
Consensus pattern (15 bp):
TTCGAGTGAAGCTTG
Found at i:242281 original size:3 final size:3
Alignment explanation
Indices: 242273--242297 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
242263 GTTATTTGTG
242273 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
242298 ATTTTCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:251171 original size:33 final size:33
Alignment explanation
Indices: 251129--251191 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
251119 GTACAGATGA
*
251129 TGGACACGACCTTATATGTCATATGGATTATGG
1 TGGACACGACCTTATATGTCATACGGATTATGG
*
251162 TGGACACGACCTTATGTGTCATACGGATTA
1 TGGACACGACCTTATATGTCATACGGATTA
251192 GCACTACGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (33 bp):
TGGACACGACCTTATATGTCATACGGATTATGG
Found at i:251391 original size:46 final size:44
Alignment explanation
Indices: 251270--251422 Score: 236
Period size: 44 Copynumber: 3.4 Consensus size: 44
251260 TGGTATATGG
*
251270 TTATGGA-ATAATGGCAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGATA-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
251314 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
251358 TTATGGTATTAAATGGTAAGTATATTGGAAAAATAAGCTTACGAGC
1 TTATGG-A-TAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
251404 TTAGGGGATAAATGGTAAG
1 TTA-TGGATAAATGGTAAG
251423 AGATTATATA
Statistics
Matches: 102, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
44 47 0.46
45 13 0.13
46 40 0.39
47 2 0.02
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.31
Consensus pattern (44 bp):
TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:254814 original size:261 final size:253
Alignment explanation
Indices: 254301--254842 Score: 717
Period size: 261 Copynumber: 2.1 Consensus size: 253
254291 AATAAATTAT
254301 AAAAATCATTTTTATTCAAT-AAAACATCGACTTAATTGAAAAATATATATATAGAGGGGTATTA
1 AAAAAT-ATTTTTATTCAATAAAAACATCGACTTAATTGAAAAATATATATATAGAGGGGTATTA
*
254365 TTGTAATTATTCATAAATATATAAGGTAAAATTATATATATTTTTTGAGTCGGGTCAGGTTTTTT
65 TTGTAATTATTCATAAATATATAAGGTAAAATTATATATA--TTTT--GTCGGGTCAGGTATTTT
*
254430 TCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAAAACCCGACTCGACCCGAACAAAAT
126 TCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAACAAAAT
*
254495 AAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCCGACCGACCAGACCCAAAATAAT
191 AAAGTTTCACCCGACCCGACCAGAATATATGAATTAGAAA--C-ACC-ACCAGACCCAAAATAAT
254560 AA
252 AA
254562 AAAAATATTTTTATTCAATAAAAACAGT-GACTTAATTGAAAAA-ATTATATATAGAGGGGTATT
1 AAAAATATTTTTATTCAATAAAAACA-TCGACTTAATTGAAAAATA-TATATATAGAGGGGTATT
*
254625 ATTGTAATTATTCATAAATATATAAGGTAAAATTATATATA-TTT-TCGGGTCGGGTATTTTTCA
64 ATTGTAATTATTCATAAATATATAAGGTAAAATTATATATATTTTGTCGGGTCAGGTATTTTTCA
*
254688 CCCTAAACCCGAACTCAACCCGACCCTAATATCACACTTAAAAAAACCGACCCGACCCGACCCGA
129 CCCTAAACCCG-----AACCCGACCCGAATATCACACTT--AAAAA---ACCCGACCCGACCCGA
* *
254753 CCAAAATAAAGTTTCACCCAACCCGACCCGACCAGAATATATGAATTAG-AA-A-C-TC-GACCC
184 ACAAAATAAAGTTT----C-ACCCGACCCGACCAGAATATATGAATTAGAAACACCACCAGACCC
254813 AAAATAATAA
244 AAAATAATAA
254823 AAAAATATTTTTATTCAATA
1 AAAAATATTTTTATTCAATA
254843 TATGAATAAG
Statistics
Matches: 256, Mismatches: 7, Indels: 36
0.86 0.02 0.12
Matches are distributed among these distances:
255 28 0.11
258 3 0.01
260 36 0.14
261 121 0.47
262 7 0.03
264 1 0.00
265 29 0.11
269 3 0.01
270 28 0.11
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (253 bp):
AAAAATATTTTTATTCAATAAAAACATCGACTTAATTGAAAAATATATATATAGAGGGGTATTAT
TGTAATTATTCATAAATATATAAGGTAAAATTATATATATTTTGTCGGGTCAGGTATTTTTCACC
CTAAACCCGAACCCGACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAAAGT
TTCACCCGACCCGACCAGAATATATGAATTAGAAACACCACCAGACCCAAAATAATAA
Found at i:256772 original size:48 final size:48
Alignment explanation
Indices: 256666--257395 Score: 534
Period size: 48 Copynumber: 15.2 Consensus size: 48
256656 ACACTACCAT
* * ** * * *
256666 TATAAATCTCCACCACCGCCCGAACACTCACCACCTCCTCCACATTACATT
1 TATAAATCTCCACCACCTCCAGTCCACTCTCCACCTCCTCC-C--TATATC
* * * * * * * * *
256717 TACAAATCTCCTCCACCGCCGGTTCACTCTCCTCCTCCACCGTATTTC
1 TATAAATCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTATATC
* * * *
256765 TATAAATCTCCACCACCACCAGTCCATTCTCCACCACCTCCCTATGTC
1 TATAAATCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTATATC
* *
256813 TATAACTCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCTTATATC
1 TATAAATCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTATATC
* * *
256861 TATAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCC-CCCTTACATT
1 TATAAATCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCC-TATATC
* * * * * * *
256909 TACAAATCCCCACCACCTCCAGTCCACTCACCGCCTCCTCCATACATT
1 TATAAATCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTATATC
* * * * * * * * * *
256957 TACAAGTCACCTCCTCCACCAGTCCACTCCCCACCACCTCCTTATATT
1 TATAAATCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTATATC
* * * * *
257005 TATAAGTCTCCACCACCTCCAGTTCACTCACCTCCTCCTCCCTATATT
1 TATAAATCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTATATC
* * * * *
257053 TACAAGTCTCCACCACCTCCAGTCCACTCCCCACCTCCTCCCTACATT
1 TATAAATCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTATATC
* * * * * * *
257101 TACAAGTCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCCTATGTT
1 TATAAATCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTATATC
* * * * *
257149 TACAAGTCTCCACCA---CCAGTCCACTCCCCACCACCTCCCTATATT
1 TATAAATCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTATATC
* * * * * * *
257194 TACAAGTCTCCTCCACCTCCAGTGCACTCACCACCTCCTCCCTACATT
1 TATAAATCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTATATC
* * * * * * * * * *
257242 TACAAGTCTCCTCCACCGCCAGTTCACTCCCCGCCTCCTCCTTATGTT
1 TATAAATCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTATATC
* * * * * * *
257290 TACAAGTCTCCTCCACCTCCAGTGCACTCACCACCTCCTCCCTACATT
1 TATAAATCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTATATC
* * * * * *
257338 TACAAATCTCCTCC-CCACCAGTCCACTCTCCGCCTCCTCCCTATGTT
1 TATAAATCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTATATC
*
257385 TACAAATCTCC
1 TATAAATCTCC
257396 TCCCCACCGT
Statistics
Matches: 577, Mismatches: 97, Indels: 14
0.84 0.14 0.02
Matches are distributed among these distances:
45 42 0.07
47 40 0.07
48 460 0.80
49 2 0.00
51 33 0.06
ACGTcount: A:0.22, C:0.48, G:0.05, T:0.26
Consensus pattern (48 bp):
TATAAATCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTATATC
Found at i:256823 original size:27 final size:27
Alignment explanation
Indices: 256792--256880 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 27
256782 ACCAGTCCAT
256792 TCTCCACCACCTCCCTATGTCTATAAC
1 TCTCCACCACCTCCCTATGTCTATAAC
*
256819 TCTCCACCACCT-CC-A-GTC---CAC
1 TCTCCACCACCTCCCTATGTCTATAAC
* * * *
256840 TCTCCACCTCCTCCTTATATCTATAAG
1 TCTCCACCACCTCCCTATGTCTATAAC
256867 TCTCCACCACCTCC
1 TCTCCACCACCTCC
256881 AGTCCACTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
21 13 0.27
22 1 0.02
23 1 0.02
24 5 0.10
25 1 0.02
26 2 0.04
27 26 0.53
ACGTcount: A:0.20, C:0.48, G:0.03, T:0.28
Consensus pattern (27 bp):
TCTCCACCACCTCCCTATGTCTATAAC
Found at i:256852 original size:21 final size:21
Alignment explanation
Indices: 256771--256895 Score: 79
Period size: 21 Copynumber: 5.4 Consensus size: 21
256761 TTTCTATAAA
* *
256771 TCTCCACCACCACCAGTCCAT
1 TCTCCACCACCTCCAGTCCAC
*
256792 TCTCCACCACCTCCCTATGTCTATAAC
1 TCTCCACCACCT-CC-A-GTC---CAC
256819 TCTCCACCACCTCCAGTCCAC
1 TCTCCACCACCTCCAGTCCAC
* * * *
256840 TCTCCACCTCCTCCTTATATCTATAAG
1 TCTCCACCACCTCC--A-GTC---CAC
256867 TCTCCACCACCTCCAGTCCAC
1 TCTCCACCACCTCCAGTCCAC
256888 TCTCCACC
1 TCTCCACC
256896 TCCCCCTTAC
Statistics
Matches: 80, Mismatches: 12, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
21 35 0.44
22 2 0.03
23 2 0.03
24 10 0.12
25 2 0.03
26 2 0.03
27 27 0.34
ACGTcount: A:0.21, C:0.50, G:0.04, T:0.26
Consensus pattern (21 bp):
TCTCCACCACCTCCAGTCCAC
Done.