Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 47 of 89
Found at i:10451634 original size:36 final size:33
Alignment explanation
Indices: 10451589--10451676 Score: 99
Period size: 32 Copynumber: 2.6 Consensus size: 33
10451579 ATAGAACATA
*
10451589 AAATTTTATAAATTTATTTCATTTTAAATAATAAAT
1 AAATATTATAAATTTATTT-ATTTT--ATAATAAAT
*
10451625 AAATATTATAATATTTA--TATTTTATCATAAAT
1 AAATATTATAA-ATTTATTTATTTTATAATAAAT
10451657 AAATATTATAAATTTTATTT
1 AAATATTATAAA-TTTATTT
10451677 TAAAATTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
31 1 0.02
32 23 0.50
34 6 0.13
35 1 0.02
36 10 0.22
37 5 0.11
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (33 bp):
AAATATTATAAATTTATTTATTTTATAATAAAT
Found at i:10451635 original size:16 final size:16
Alignment explanation
Indices: 10451616--10451667 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
10451606 TTCATTTTAA
10451616 ATAATAAATAAATATT
1 ATAATAAATAAATATT
** * *
10451632 ATAATATTTATATTTT
1 ATAATAAATAAATATT
*
10451648 ATCATAAATAAATATT
1 ATAATAAATAAATATT
10451664 ATAA
1 ATAA
10451668 ATTTTATTTT
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATAAATAAATATT
Found at i:10451660 original size:32 final size:30
Alignment explanation
Indices: 10451619--10451678 Score: 102
Period size: 32 Copynumber: 1.9 Consensus size: 30
10451609 ATTTTAAATA
10451619 ATAAATAAATATTATAATATTTATATTTTATC
1 ATAAATAAATATTATAA-ATTT-TATTTTATC
10451651 ATAAATAAATATTATAAATTTTATTTTA
1 ATAAATAAATATTATAAATTTTATTTTA
10451679 AAATTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 7 0.25
31 4 0.14
32 17 0.61
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (30 bp):
ATAAATAAATATTATAAATTTTATTTTATC
Found at i:10453484 original size:24 final size:24
Alignment explanation
Indices: 10453457--10453515 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
10453447 CTATTCTTTC
10453457 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
10453481 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
10453505 GCTTCAATTGA
1 GCTTCAATTGA
10453516 ACTTCTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:10455350 original size:45 final size:43
Alignment explanation
Indices: 10455300--10455515 Score: 150
Period size: 43 Copynumber: 5.0 Consensus size: 43
10455290 CCGCTAAAAT
* *
10455300 TAGCGGC-GTTTAAGAACAAAAAATGCCGCAATAGGTCAAGATCTA
1 TAGCGGCAGTTTAAGAAC---AAACGCCGCAAAAGGTCAAGATCTA
* * * *
10455345 TAGCGGCATTTTTAGAACAAACGCCGCAAAAGGTCGATATCTA
1 TAGCGGCAGTTTAAGAACAAACGCCGCAAAAGGTCAAGATCTA
* ** * ** *
10455388 TAGCGGC-TTTTTGGAACAAACGCTGCAAAAGGTCAATTTTTA
1 TAGCGGCAGTTTAAGAACAAACGCCGCAAAAGGTCAAGATCTA
* * * ** * * *
10455430 TTGTGGCATTTTCTGAACAAATGCCGCAAGAGGTCGAGATCTA
1 TAGCGGCAGTTTAAGAACAAACGCCGCAAAAGGTCAAGATCTA
* * * * *
10455473 TAGCTGCATTTTTAGAATAAACACCGCAAAAGGTC-AGATCTA
1 TAGCGGCAGTTTAAGAACAAACGCCGCAAAAGGTCAAGATCTA
10455515 T
1 T
10455516 CATTGTTTTT
Statistics
Matches: 138, Mismatches: 31, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
42 43 0.31
43 80 0.58
45 7 0.05
46 8 0.06
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (43 bp):
TAGCGGCAGTTTAAGAACAAACGCCGCAAAAGGTCAAGATCTA
Found at i:10455416 original size:42 final size:43
Alignment explanation
Indices: 10455324--10455515 Score: 210
Period size: 43 Copynumber: 4.5 Consensus size: 43
10455314 AACAAAAAAT
* *
10455324 GCCGCAATAGGTCAAGATCTATAGCGGCATTTTTAGAACAAAC
1 GCCGCAAAAGGTCGAGATCTATAGCGGCATTTTTAGAACAAAC
* *
10455367 GCCGCAAAAGGTCGATATCTATAGCGGC-TTTTTGGAACAAAC
1 GCCGCAAAAGGTCGAGATCTATAGCGGCATTTTTAGAACAAAC
* * ** * * * *
10455409 GCTGCAAAAGGTCAATTTTTATTGTGGCATTTTCT-GAACAAAT
1 GCCGCAAAAGGTCGAGATCTATAGCGGCATTTT-TAGAACAAAC
* * *
10455452 GCCGCAAGAGGTCGAGATCTATAGCTGCATTTTTAGAATAAAC
1 GCCGCAAAAGGTCGAGATCTATAGCGGCATTTTTAGAACAAAC
*
10455495 ACCGCAAAAGGTC-AGATCTAT
1 GCCGCAAAAGGTCGAGATCTAT
10455516 CATTGTTTTT
Statistics
Matches: 122, Mismatches: 24, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
42 44 0.36
43 77 0.63
44 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (43 bp):
GCCGCAAAAGGTCGAGATCTATAGCGGCATTTTTAGAACAAAC
Found at i:10455448 original size:85 final size:86
Alignment explanation
Indices: 10455349--10455508 Score: 225
Period size: 85 Copynumber: 1.9 Consensus size: 86
10455339 GATCTATAGC
* * * *
10455349 GGCATTTTTAGAACAAACGCCGCAAAAGGTCGATATCTATAGCGGC-TTTTTGGAACAAACGCTG
1 GGCATTTTTAGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCATTTTTAGAACAAACACCG
10455413 CAAAAGGTCAATTTTTATTGT
66 CAAAAGGTCAATTTTTATTGT
* * * *
10455434 GGCATTTTCT-GAACAAATGCCGCAAGAGGTCGAGATCTATAGCTGCATTTTTAGAATAAACACC
1 GGCATTTT-TAGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCATTTTTAGAACAAACACC
10455498 GCAAAAGGTCA
65 GCAAAAGGTCA
10455509 GATCTATCAT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
85 40 0.62
86 25 0.38
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (86 bp):
GGCATTTTTAGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCATTTTTAGAACAAACACCG
CAAAAGGTCAATTTTTATTGT
Found at i:10455640 original size:43 final size:43
Alignment explanation
Indices: 10455574--10455741 Score: 180
Period size: 43 Copynumber: 3.9 Consensus size: 43
10455564 GTTTGTATCT
* * *
10455574 GTTTTTGGA-ACAAACACCGCAAAAGTTCATATCTTTAGCGGC
1 GTTTTTGGATACAAACGCCACAAAAGTTCATATCTATAGCGGC
* * *
10455616 GTTTTTAGATACAAATGCCACAAAAGGTCATATCTATAGCGGC
1 GTTTTTGGATACAAACGCCACAAAAGTTCATATCTATAGCGGC
* * * *
10455659 GTTTTTGGATACAAACGTCGCA-AAAAG-TCAGATCTATAACAGT
1 GTTTTTGGATACAAACG-C-CACAAAAGTTCATATCTATAGCGGC
* * *
10455702 GTTTTTGGATACAAACGCTACAAAAGTTCAAATATATAGC
1 GTTTTTGGATACAAACGCCACAAAAGTTCATATCTATAGC
10455742 AGTATTTTTT
Statistics
Matches: 105, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 14 0.13
43 82 0.78
44 6 0.06
45 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (43 bp):
GTTTTTGGATACAAACGCCACAAAAGTTCATATCTATAGCGGC
Found at i:10455885 original size:21 final size:21
Alignment explanation
Indices: 10455861--10455907 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
10455851 ACTTTACATC
*
10455861 CATAACATCAAACTTGAAATT
1 CATAACAACAAACTTGAAATT
*
10455882 CATAACAAGAAACTTGAAATT
1 CATAACAACAAACTTGAAATT
*
10455903 TATAA
1 CATAA
10455908 AAATAAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (21 bp):
CATAACAACAAACTTGAAATT
Found at i:10458676 original size:41 final size:40
Alignment explanation
Indices: 10458558--10458858 Score: 162
Period size: 41 Copynumber: 7.3 Consensus size: 40
10458548 CGTACGAATC
* * * * *
10458558 TTTAGCGGCGTTTATATAAAAACTCCACTAAAGT-TTGAGTC
1 TTTAGCGGCGTTTGTATAAAAACGCCACCAAAGTACT-A-TT
** *
10458599 TTTAGCATCGTTTGTAT-AAAACGCCACCAAAATACTATT
1 TTTAGCGGCGTTTGTATAAAAACGCCACCAAAGTACTATT
* *
10458638 TTATAGGGGCGTTTGTATAAAAATGCCACCAAAGTACTACTT
1 TT-TAGCGGCGTTTGTATAAAAACGCCACCAAAGTACTA-TT
* * * * * *
10458680 TATAGCGACATTTTTATAAAAACGACACTAAAGTA-TGAGTT
1 TTTAGCGGCGTTTGTATAAAAACGCCACCAAAGTACT-A-TT
* * * * ** *
10458721 TATAGCAGCGTTTGTA-AACTCAAACGCCACTAAAATAAGAATC
1 TTTAGCGGCGTTTGTATAA---AAACGCCACCAAAGT-ACTATT
* * ** *
10458764 TTTAGCGGCGTTTTTATAAAAATGCCATGAAAGTA-TGAGTC
1 TTTAGCGGCGTTTGTATAAAAACGCCACCAAAGTACT-A-TT
* * * *
10458805 TTTAGCGGCATTTGTATAAAAATGCCACGAAAGTACGATT
1 TTTAGCGGCGTTTGTATAAAAACGCCACCAAAGTACTATT
10458845 CTTTAGCGGCGTTT
1 -TTTAGCGGCGTTT
10458859 TTACTTAAAA
Statistics
Matches: 201, Mismatches: 44, Indels: 30
0.73 0.16 0.11
Matches are distributed among these distances:
39 3 0.01
40 32 0.16
41 132 0.66
42 3 0.01
43 27 0.13
44 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (40 bp):
TTTAGCGGCGTTTGTATAAAAACGCCACCAAAGTACTATT
Found at i:10458785 original size:84 final size:82
Alignment explanation
Indices: 10458690--10458870 Score: 197
Period size: 84 Copynumber: 2.2 Consensus size: 82
10458680 TATAGCGACA
* *
10458690 TTTTTATAAAAACGACACT-AAAGTATGAGT-TTATAGCAGCGTTTGTA-AACTCAAACGCCACT
1 TTTTTATAAAAACGACA-TGAAAGTATGAGTCTT-TAGCAGCATTTGTATAA---AAACGCCACG
10458752 AAAATAAGAATCTTTAGCGGCG
61 AAAATAAGAATCTTTAGCGGCG
* * * * *
10458774 TTTTTATAAAAATGCCATGAAAGTATGAGTCTTTAGCGGCATTTGTATAAAAATGCCACGAAAGT
1 TTTTTATAAAAACGACATGAAAGTATGAGTCTTTAGCAGCATTTGTATAAAAACGCCACGAAAAT
* *
10458839 ACGATTCTTTAGCGGCG
66 AAGAATCTTTAGCGGCG
*
10458856 TTTTTACTTAAAACG
1 TTTTTA-TAAAAACG
10458871 CTGCTATATG
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
82 33 0.40
83 7 0.09
84 38 0.46
85 4 0.05
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (82 bp):
TTTTTATAAAAACGACATGAAAGTATGAGTCTTTAGCAGCATTTGTATAAAAACGCCACGAAAAT
AAGAATCTTTAGCGGCG
Found at i:10458798 original size:125 final size:122
Alignment explanation
Indices: 10458572--10458858 Score: 285
Period size: 125 Copynumber: 2.3 Consensus size: 122
10458562 GCGGCGTTTA
** * * *
10458572 TATAAAAACTCCACTAAAGTTTGAGTCTTTAGCATCGTTTGTATAAAACGCCACCAAAATACTAT
1 TATAAAAACGACACTAAAGTATGAGTCTTTAGCAGCGTTTGTATAAAACGCCACCAAAATACAAT
* *
10458637 TTTATAGGGGCGTTTGTATAAAAATGCCACCAAAGTACTACTTTATAGCGACATTTT
66 CTTATAGCGGCGTTTGTATAAAAATGCCACCAAAGTACTACTTTATAGCGACATTTT
* *
10458694 TATAAAAACGACACTAAAGTATGAGT-TTATAGCAGCGTTTGTAAACTCAAACGCCACTAAAATA
1 TATAAAAACGACACTAAAGTATGAGTCTT-TAGCAGCGTTTGT--A-TAAAACGCCACCAAAAT-
* * ** * * *
10458758 AGAATCTT-TAGCGGCGTTTTTATAAAAATGCCATGAAAGTA-TGAGTCTT-TAGCGGCATTTG
61 ACAATCTTATAGCGGCGTTTGTATAAAAATGCCACCAAAGTACT-ACT-TTATAGCGACATTTT
* * * * * *
10458819 TATAAAAATGCCACGAAAGTACGATTCTTTAGCGGCGTTT
1 TATAAAAACGACACTAAAGTATGAGTCTTTAGCAGCGTTT
10458859 TTACTTAAAA
Statistics
Matches: 135, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
121 2 0.01
122 35 0.26
124 2 0.01
125 87 0.64
126 9 0.07
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (122 bp):
TATAAAAACGACACTAAAGTATGAGTCTTTAGCAGCGTTTGTATAAAACGCCACCAAAATACAAT
CTTATAGCGGCGTTTGTATAAAAATGCCACCAAAGTACTACTTTATAGCGACATTTT
Found at i:10460728 original size:27 final size:27
Alignment explanation
Indices: 10460689--10460746 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
10460679 TACAAAATGT
10460689 AAAGTACCAAAGTCAT-AATATCCAAATA
1 AAAGTACCAAAGT-ATAAATAT-CAAATA
*
10460717 AAAGTTCC-AAGTATCAAATATCAAATA
1 AAAGTACCAAAGTAT-AAATATCAAATA
10460744 AAA
1 AAA
10460747 ATATAACATC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 2 0.07
27 13 0.48
28 12 0.44
ACGTcount: A:0.55, C:0.16, G:0.07, T:0.22
Consensus pattern (27 bp):
AAAGTACCAAAGTATAAATATCAAATA
Found at i:10461549 original size:18 final size:18
Alignment explanation
Indices: 10461526--10461561 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10461516 GTTCAGTATT
*
10461526 TGTCCCGAAAGACCACTA
1 TGTCCCGAAAAACCACTA
10461544 TGTCCCGAAAAACCACTA
1 TGTCCCGAAAAACCACTA
10461562 GATACGTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.33, G:0.14, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAAAACCACTA
Found at i:10461587 original size:22 final size:22
Alignment explanation
Indices: 10461545--10461732 Score: 277
Period size: 22 Copynumber: 8.5 Consensus size: 22
10461535 AGACCACTAT
** *
10461545 GTCCCGAAAAACCACTAGATAC
1 GTCCCGAAGGACCACTGGATAC
* *
10461567 GTCCCAAAGGACTACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
10461589 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
* *
10461611 GTCCCAAAGGACCACTGGATAA
1 GTCCCGAAGGACCACTGGATAC
* *
10461633 GTCCTGAAGGATCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
10461655 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
* *
10461677 GTCCTGAAGGATCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
10461699 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
10461721 GTCCCGAAGGAC
1 GTCCCGAAGGAC
10461733 TAATATACCC
Statistics
Matches: 147, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 147 1.00
ACGTcount: A:0.30, C:0.29, G:0.25, T:0.16
Consensus pattern (22 bp):
GTCCCGAAGGACCACTGGATAC
Found at i:10471284 original size:36 final size:36
Alignment explanation
Indices: 10471132--10471284 Score: 162
Period size: 36 Copynumber: 4.2 Consensus size: 36
10471122 GTGCACCGAT
* * ** *
10471132 GATTCAAATCAAACGGAAGGAAGCATCGGCACTTCT
1 GATTCAAGTCGAACGGAAGGAAGCATCAACACTTCC
* * *
10471168 GATTCAAATCGAACGGAATGAAGCATCAATACTTCC
1 GATTCAAGTCGAACGGAAGGAAGCATCAACACTTCC
* * * *
10471204 AATTCTAGTCGAATGAAAGGAAGCATCAACACTTCC
1 GATTCAAGTCGAACGGAAGGAAGCATCAACACTTCC
* **
10471240 GATTCAAGTCGAACGGAAGAAAGCATCGGCACTTCC
1 GATTCAAGTCGAACGGAAGGAAGCATCAACACTTCC
*
10471276 GATCCAAGT
1 GATTCAAGT
10471285 GTTCGTTTTC
Statistics
Matches: 96, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 96 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (36 bp):
GATTCAAGTCGAACGGAAGGAAGCATCAACACTTCC
Found at i:10473761 original size:21 final size:18
Alignment explanation
Indices: 10473734--10473777 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
10473724 AAAGCTATAC
10473734 AAAAATAATTCAAAACATAA
1 AAAAATAA--CAAAACATAA
*
10473754 AGAAAATAACATAACATAA
1 A-AAAATAACAAAACATAA
10473773 AAAAA
1 AAAAA
10473778 GAAAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 4 0.18
19 10 0.45
20 1 0.05
21 7 0.32
ACGTcount: A:0.73, C:0.09, G:0.02, T:0.16
Consensus pattern (18 bp):
AAAAATAACAAAACATAA
Found at i:10476133 original size:17 final size:18
Alignment explanation
Indices: 10476111--10476147 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
10476101 ATTCAAGTAA
*
10476111 TTTACTAAAA-AATTATT
1 TTTACTAAAATAATGATT
10476128 TTTACTAAAATAATGATT
1 TTTACTAAAATAATGATT
10476146 TT
1 TT
10476148 GGTTTGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTACTAAAATAATGATT
Found at i:10477418 original size:22 final size:23
Alignment explanation
Indices: 10477372--10477420 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
10477362 TTAAGATTTA
*
10477372 AAATAAAATTATAAGTCAAAATT
1 AAATAAAATTATAAGACAAAATT
10477395 AAATAAAATT-TAA-ACATAAATT
1 AAATAAAATTATAAGACA-AAATT
10477417 AAAT
1 AAAT
10477421 GAATCGAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 2 0.08
22 12 0.50
23 10 0.42
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATAAAATTATAAGACAAAATT
Found at i:10477499 original size:14 final size:14
Alignment explanation
Indices: 10477480--10477509 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10477470 ATTATTTCCT
10477480 ACGCATGTGAAAAC
1 ACGCATGTGAAAAC
10477494 ACGCATGTGAAAAC
1 ACGCATGTGAAAAC
10477508 AC
1 AC
10477510 ATGTAACCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.23, G:0.20, T:0.13
Consensus pattern (14 bp):
ACGCATGTGAAAAC
Found at i:10483902 original size:15 final size:14
Alignment explanation
Indices: 10483884--10483926 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
10483874 AAATTTAAAA
10483884 AAATAAAATAAATT
1 AAATAAAATAAATT
10483898 CAAATAAAATAAATT
1 -AAATAAAATAAATT
*
10483913 AAATTAAATTAAAT
1 AAA-TAAAATAAAT
10483927 AGAATGGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 3 0.12
15 23 0.88
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAAAATAAATT
Found at i:10492351 original size:21 final size:21
Alignment explanation
Indices: 10492325--10492375 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
10492315 AATTTCGGGA
10492325 AGAATTGAAGGATGATAAATT
1 AGAATTGAAGGATGATAAATT
10492346 AGAATTGAAGGATGATAAATT
1 AGAATTGAAGGATGATAAATT
10492367 AGAATTGAA
1 AGAATTGAA
10492376 AATATTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (21 bp):
AGAATTGAAGGATGATAAATT
Found at i:10497264 original size:21 final size:20
Alignment explanation
Indices: 10497236--10497275 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
10497226 CGTTGCAGGA
10497236 ATTTATGGCCTCAACAAAAG
1 ATTTATGGCCTCAACAAAAG
*
10497256 ATTTCATGGCGTCAACAAAA
1 ATTT-ATGGCCTCAACAAAA
10497276 ACCTTGATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAG
Found at i:10508252 original size:19 final size:19
Alignment explanation
Indices: 10508230--10508267 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10508220 CGTTCGTTTC
10508230 TTCTTTGATCGTACGGTTG
1 TTCTTTGATCGTACGGTTG
10508249 TTCTTTGATCGTACGGTTG
1 TTCTTTGATCGTACGGTTG
10508268 AGGATTGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.26, T:0.47
Consensus pattern (19 bp):
TTCTTTGATCGTACGGTTG
Found at i:10508275 original size:19 final size:19
Alignment explanation
Indices: 10508234--10508276 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
10508224 CGTTTCTTCT
** *
10508234 TTGATCGTACGGTTGTTCT
1 TTGATCGTACGGTTGAGCA
*
10508253 TTGATCGTACGGTTGAGGA
1 TTGATCGTACGGTTGAGCA
10508272 TTGAT
1 TTGAT
10508277 GGCGGCTGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.16, C:0.12, G:0.30, T:0.42
Consensus pattern (19 bp):
TTGATCGTACGGTTGAGCA
Found at i:10508480 original size:3 final size:3
Alignment explanation
Indices: 10508472--10508534 Score: 83
Period size: 3 Copynumber: 21.0 Consensus size: 3
10508462 TACTTTTTGA
* *
10508472 AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AGT AAT AAT ATT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
*
10508520 AAT AAT ATT AAT AAT
1 AAT AAT AAT AAT AAT
10508535 GAGAACGGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 2 0.04
3 48 0.92
4 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:10511107 original size:13 final size:13
Alignment explanation
Indices: 10511084--10511118 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
10511074 TAATGTTAGA
10511084 GTGTT-GAATTTG
1 GTGTTAGAATTTG
10511096 GTGTTAGAATTTG
1 GTGTTAGAATTTG
*
10511109 GTATTAGAAT
1 GTGTTAGAAT
10511119 GTGAAATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.46
Consensus pattern (13 bp):
GTGTTAGAATTTG
Found at i:10513033 original size:4 final size:4
Alignment explanation
Indices: 10513024--10513082 Score: 118
Period size: 4 Copynumber: 14.8 Consensus size: 4
10513014 TTTAGTGGAT
10513024 GAAC GAAC GAAC GAAC GAAC GAAC GAAC GAAC GAAC GAAC GAAC GAAC
1 GAAC GAAC GAAC GAAC GAAC GAAC GAAC GAAC GAAC GAAC GAAC GAAC
10513072 GAAC GAAC GAA
1 GAAC GAAC GAA
10513083 TGAATGAATG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.51, C:0.24, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAC
Found at i:10526589 original size:23 final size:22
Alignment explanation
Indices: 10526563--10526622 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
10526553 ATCAAGGAAA
*
10526563 ATAACAAATTAGGTAGCGCTTAT
1 ATAACAAA-TAGGTAGCGCATAT
**
10526586 ATAATGTAATAGGTAGCGCATAT
1 ATAA-CAAATAGGTAGCGCATAT
*
10526609 ATAATAAAATAGGT
1 ATAA-CAAATAGGT
10526623 TAATTACTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 29 0.94
24 2 0.06
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.30
Consensus pattern (22 bp):
ATAACAAATAGGTAGCGCATAT
Found at i:10526697 original size:87 final size:87
Alignment explanation
Indices: 10526550--10526761 Score: 343
Period size: 87 Copynumber: 2.4 Consensus size: 87
10526540 AACCGAAAAT
* * *
10526550 ATTATCAAGGAAAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCATATATAATA
1 ATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCATATATAATA
*
10526615 AAATAGGTTAATTACTAGAAAC
66 AAATAGGTTAATTACTACAAAC
* * *
10526637 ATTATCAAGCACAATACCATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATA
1 ATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCATATATAATA
* *
10526702 AAATATGTTAATTACTACAAAT
66 AAATAGGTTAATTACTACAAAC
10526724 ATTATCAAGCACAATAACATATTAGGTAGCGCTTATAT
1 ATTATCAAGCACAATAACATATTAGGTAGCGCTTATAT
10526762 TGACCTATTC
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 114 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (87 bp):
ATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCATATATAATA
AAATAGGTTAATTACTACAAAC
Found at i:10526706 original size:23 final size:23
Alignment explanation
Indices: 10526659--10526706 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
10526649 AATACCATAT
* **
10526659 TAGGTAGCGTTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
10526682 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
10526705 TA
1 TA
10526707 TGTTAATTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:10527109 original size:199 final size:200
Alignment explanation
Indices: 10526763--10527330 Score: 792
Period size: 199 Copynumber: 2.9 Consensus size: 200
10526753 CGCTTATATT
* * * ** * *
10526763 GACCTATTCTATCATAAAA-CCGATATATTTA-TACCGGCAACATTGCAAATTTATCTATTACAT
1 GACCTATTTTCTCATAAAATCAG-TATA-TTACTACCGGGTACATTGTAAATTTACCTATTACAT
* * * * *
10526826 TATAATTATTGGTTTCGATGTTTTTGTGATCGATACAATTT--TAACTGTATCGACACTTTATAC
64 TATAATTATTGGTTTCGATATTTTTGAGATCGATAC-TTTTAATAAATGTATCGACACTTTATGC
10526889 GTGCACCTCGTTAGG-CATTCATTCTGGAAAAAAAGTATCGACACAAACTTAAAACGTGTCGATA
128 GTGCACCTCGTT-GGACATTCATTCTGGAAAAAAAGTATCGACACAAACTTAAAACGTGTCGATA
10526953 CATTATGTA
192 CATTATGTA
*
10526962 GACCTATTTTCTCATAAAATCAGTATATTACTACCGGGTACATTGTAAACTTACCTATTACATTA
1 GACCTATTTTCTCATAAAATCAGTATATTACTACCGGGTACATTGTAAATTTACCTATTACATTA
* *
10527027 TAATTATTGGTTTCGAT-TTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTG
66 TAATTATTGGTTTCGATATTTTTGAGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTG
* * *
10527091 CACCTCGTTGGACATTCATTCTGGAAAAAAA-CATCCACACAAACTTAAAATGTGTCGATACATT
131 CACCTCGTTGGACATTCATTCTGGAAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATT
10527155 ATGTA
196 ATGTA
* * * * *
10527160 GACATATTTTCTCATAAAATCAATATATTTCTACCGAGTACATTGTAAATTTACCTATTACATTG
1 GACCTATTTTCTCATAAAATCAGTATATTACTACCGGGTACATTGTAAATTTACCTATTACATTA
* *
10527225 TAATTATCGGTTTCGATATTTTTGAGATCGATACTTTTAATAAATGTATCGATACTTTATGCGTG
66 TAATTATTGGTTTCGATATTTTTGAGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTG
* *
10527290 CACCTCGTTTGACATTCATTCT-GAACAAAATGTATCGACAC
131 CACCTCGTTGGACATTCATTCTGGAA-AAAAAGTATCGACAC
10527331 TTTTTAAATT
Statistics
Matches: 331, Mismatches: 30, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
197 3 0.01
198 133 0.40
199 186 0.56
200 9 0.03
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.37
Consensus pattern (200 bp):
GACCTATTTTCTCATAAAATCAGTATATTACTACCGGGTACATTGTAAATTTACCTATTACATTA
TAATTATTGGTTTCGATATTTTTGAGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTG
CACCTCGTTGGACATTCATTCTGGAAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATT
ATGTA
Found at i:10528817 original size:28 final size:30
Alignment explanation
Indices: 10528747--10528818 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 30
10528737 AAATATAATT
*
10528747 TATAATAATTTTATTTTAATAAAATATGTAA
1 TATAAT-ATTTTATTTTAATAAAATATATAA
*
10528778 TCATAATTTTTTA-TTT-ATAAAAT-TATAGA
1 T-ATAATATTTTATTTTAATAAAATATATA-A
10528807 TATAATATTTTA
1 TATAATATTTTA
10528819 ATAATAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
28 13 0.36
29 9 0.25
30 3 0.08
31 6 0.17
32 5 0.14
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (30 bp):
TATAATATTTTATTTTAATAAAATATATAA
Found at i:10528817 original size:29 final size:31
Alignment explanation
Indices: 10528747--10528817 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
10528737 AAATATAATT
* *
10528747 TATAATAATTTTATTTTAATAAAATATGTAA
1 TATAATATTTTTATTTTAATAAAATATATAA
10528778 TCATAAT-TTTTTA-TTT-ATAAAAT-TATAGA
1 T-ATAATATTTTTATTTTAATAAAATATATA-A
10528807 TATAATATTTT
1 TATAATATTTT
10528818 AATAATAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
28 8 0.23
29 13 0.37
30 3 0.09
31 6 0.17
32 5 0.14
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (31 bp):
TATAATATTTTTATTTTAATAAAATATATAA
Found at i:10528825 original size:14 final size:14
Alignment explanation
Indices: 10528744--10528829 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
10528734 AATAAATATA
**
10528744 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
10528759 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
* *
10528772 A-TGTAATCATAAT
1 ATTTTAATAATAAT
* * * *
10528785 TTTTTATTTATAAA
1 ATTTTAATAATAAT
*
10528799 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
10528813 ATTTTAATAATAAT
1 ATTTTAATAATAAT
10528827 ATT
1 ATT
10528830 GACATAAATA
Statistics
Matches: 53, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
12 6 0.11
13 7 0.13
14 35 0.66
15 5 0.09
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:10528825 original size:28 final size:29
Alignment explanation
Indices: 10528763--10528825 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
10528753 AATTTTATTT
* * *
10528763 TAATAAAATATGTAATCATAATTTTTTAT
1 TAATAAAATATATAATCATAATATTTTAA
*
10528792 TTATAAAAT-TATAGAT-ATAATATTTTAA
1 TAATAAAATATATA-ATCATAATATTTTAA
10528820 TAATAA
1 TAATAA
10528826 TATTGACATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (29 bp):
TAATAAAATATATAATCATAATATTTTAA
Found at i:10528912 original size:24 final size:25
Alignment explanation
Indices: 10528844--10528912 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 25
10528834 TAAATAATAT
*
10528844 TAAATAA-ATTATTCTAATATT-TTAA
1 TAAATAATATTA-T-TATTATTGTTAA
*
10528869 -AAATATTATTATTATT-TTGTTAA
1 TAAATAATATTATTATTATTGTTAA
10528892 TAAATAATATTATT-TTATTGT
1 TAAATAATATTATTATTATTGT
10528913 ATTTTATGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 2 0.05
23 9 0.24
24 22 0.59
25 4 0.11
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (25 bp):
TAAATAATATTATTATTATTGTTAA
Found at i:10529486 original size:25 final size:27
Alignment explanation
Indices: 10529435--10529487 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
10529425 CATATGTTTA
* * *
10529435 ATTATTCTCTCATTATAATATAGATAT
1 ATTATTCTCTCATTATAAAAAAAATAT
10529462 ATTATTCT-T-ATTATAAAAAAAATAT
1 ATTATTCTCTCATTATAAAAAAAATAT
10529487 A
1 A
10529488 ATTTATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 14 0.61
26 1 0.04
27 8 0.35
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (27 bp):
ATTATTCTCTCATTATAAAAAAAATAT
Found at i:10529515 original size:31 final size:30
Alignment explanation
Indices: 10529480--10529570 Score: 82
Period size: 30 Copynumber: 3.1 Consensus size: 30
10529470 TATTATAAAA
*
10529480 AAAATATAATTTATAATAATTTTATT-TTAAT
1 AAAATATAA-TAATAATAATTTT-TTATTAAT
* *
10529511 AAAATATAATAATCATAATTTTTTATTTAT
1 AAAATATAATAATAATAATTTTTTATTAAT
* *
10529541 AAAAT-T-ATAGAT-ATAATATTTTAATAAT
1 AAAATATAATA-ATAATAATTTTTTATTAAT
10529569 AA
1 AA
10529571 TATTGACATA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
28 18 0.35
29 5 0.10
30 20 0.38
31 9 0.17
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
AAAATATAATAATAATAATTTTTTATTAAT
Found at i:10529570 original size:14 final size:14
Alignment explanation
Indices: 10529488--10529574 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
10529478 AAAAAATATA
**
10529488 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
10529503 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
10529516 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * * *
10529530 TTTTTATTTATAAA
1 ATTTTAATAATAAT
*
10529544 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
10529558 ATTTTAATAATAAT
1 ATTTTAATAATAAT
10529572 ATT
1 ATT
10529575 GACATAAATA
Statistics
Matches: 53, Mismatches: 16, Indels: 7
0.70 0.21 0.09
Matches are distributed among these distances:
13 10 0.19
14 38 0.72
15 5 0.09
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:10529570 original size:28 final size:28
Alignment explanation
Indices: 10529502--10529570 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
10529492 ATAATAATTT
*
10529502 TATTTTAATAA-AATATAATAATCATAA
1 TATTTTAATAATAAAATAATAATCATAA
* * * *
10529529 TTTTTTATTTATAAAATTATAGAT-ATAA
1 TATTTTAATAATAAAATAATA-ATCATAA
10529557 TATTTTAATAATAA
1 TATTTTAATAATAA
10529571 TATTGACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 8 0.25
28 22 0.69
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTTTAATAATAAAATAATAATCATAA
Found at i:10529641 original size:24 final size:23
Alignment explanation
Indices: 10529606--10529657 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 23
10529596 ATTATTATAA
10529606 TATT-TTAAAAATAATATTATTT
1 TATTGTTAAAAATAATATTATTT
*
10529628 TTTTGTTAATAAATAATATTATTT
1 TATTGTTAA-AAATAATATTATTT
10529652 TATTGT
1 TATTGT
10529658 ATTTGATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 4 0.15
24 19 0.73
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
TATTGTTAAAAATAATATTATTT
Found at i:10530223 original size:768 final size:773
Alignment explanation
Indices: 10527366--10531243 Score: 6080
Period size: 779 Copynumber: 5.0 Consensus size: 773
10527356 TGCAGACATG
10527366 TTGTATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATTATGATTATT
1 TTGTATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATTATGATTATT
* * * * * * *
10527431 TTTTAAAATTATATTGTAATTATATATA--TATATATATTTTAATTGAAAGTTAATATCAAAATA
66 TTTTTAAATTATATTGTAATTATATATATTTTTTTATTTTTTATTTGAAAGCTAATATCGAAATA
* *
10527494 GAAATA-CTGCGTCCTTTTTTTCATTAGTTATATTATGG-AACTTACAAACTAAAAAATTAAAAT
131 GAAATATC-GTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACTAAAAAATTAAAAT
* * * *
10527557 TAATTTGTATAATTTGTGTTTACTAATTTTATCA-TCAAATGTCTATTTTTACCGATTTTGTTAT
195 TAATTTGTATAATTTGTATTTACTAATTTTATCATTAAAAAGTCTATTTTTACCGGTTTTGTTAT
* *
10527621 TGTTGTGCATAACAAAACTGGTAAAAATTACCTAAAACATTATTATTTCTACCTAAAACATCAAT
260 TGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTACCTAAAACATCAAT
* *
10527686 GCTTTTTAACATTTCCGGTAAAGTGCCCAACAATAACAAAATCGATAAAAAAATAACAAAACTGG
325 G-TTTTTAACATTTCCGGTAAAGTGCCCAACAATAACAAAACCGGTAAAAAAATAACAAAACTGG
* * *
10527751 TAGCGTTTTACGTGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCTATTTTGTTATTGA
389 TAGCGTTTTACCTGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCTGTTTTGTTATTGT
* *
10527816 TGTATACCGGTTACATTGCAAATTTACCTATTACATTATAGTTATAACATATGTGTCGATACTTT
454 TGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAACATATGTGTCGATACTTT
*
10527881 TAGAAAATGTATCGACACATATGTTTAATTATTCTCTCATTAT-A-AT-A-T-AT-ATATATTAT
519 TAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAATGATATATTAT
* * *
10527940 TCTTATTATAAAAAATAAAAAATATAATTTATAATAATTTTATTTTAATAAAATATAATAAACAA
584 TCTTATTAT--AAAATAATAAATATAATTTATAATAATTTTATTTTAATAAAATATAATAATCAT
10528005 AATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGAC----ATAATATTAA
647 AATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAAATAATATTAA
10528066 ATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGTTAATAAATAATATTATTTTA
712 ATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGTTAATAAATAATATTATTTTA
*
10528128 TTATATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATTATGATTATT
1 TTGTATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATTATGATTATT
10528193 TTTTTAAATTATATTGTAATTATATATAAATTTTTTTTATTTTATTATTTGAAAGCTAATATCGA
66 TTTTTAAATTATATTGTAATTATATAT--A-TTTTTTTATTTT-TTATTTGAAAGCTAATATCGA
* *
10528258 AATAGAAATATCGTTTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACTAAAAAACTAA
127 AATAGAAATATCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACTAAAAAATTAA
*
10528323 AATTAATTTGTATAATTTGTATTTACTAATTTTATCATTAAAAAGTTTATTTTTACCGGTTTTGT
192 AATTAATTTGTATAATTTGTATTTACTAATTTTATCATTAAAAAGTCTATTTTTACCGGTTTTGT
* *
10528388 TATTGTTGGGCATAACAAAACCCGTAAAAATTACCTAAAACATTATTATTTCTACCTATAACATC
257 TATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTACCTAAAACATC
* *
10528453 AATGTTTTTTAACATTTCCGGTAAAGTGTCCAACAATAACAAAACCTGTAAAAAAAAATAACAAA
322 AATG-TTTTTAACATTTCCGGTAAAGTGCCCAACAATAACAAAACCGGT--AAAAAAATAACAAA
* * * *
10528518 ACTGATAGCGTTTTACCTATTTTGTTAAAATAATGGTGTTTTCGGTAATTTTTACATGTTTTGTT
384 ACTGGTAGCGTTTTACCTGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCTGTTTTGTT
*
10528583 ATTGTTGTGTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAACATATGTGTCGAT
449 ATTGTTGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAACATATGTGTCGAT
* *
10528648 ACTTTTAGAAAATGTATCTACACATATGTTTAACTATTCTCACATTATAATATAATTAATGATAT
514 ACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAATGATAT
*
10528713 ATTATTCTTATTATAAAAAATAATAAATATAATTTATAATAATTTTATTTTAATAAAATAT-GTA
579 ATTATTCTTATTAT--AAAATAATAAATATAATTTATAATAATTTTATTTTAATAAAATATAATA
10528777 ATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAAATAAT
642 ATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAAATAAT
*
10528842 ATTAAATAAATTATTCTAATATTTTAAAAATATTATTATTATTTTGTTAATAAATAATATTATTT
707 ATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGTTAATAAATAATATTATTT
10528907 TA
772 TA
*
10528909 TTGTATTTTATGTTTATAATTATATTGTAATTATGATTATTTTT--T-A----A--A--ATTA-T
1 TTGTATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATTATGATTATT
* * **
10528962 ATTGT-AATTATA---T-A-TA-A-ATATTTTAATATTTTATTATTTGAAAGCTAATATCGAAAT
66 TTTTTAAATTATATTGTAATTATATATATTTTTTTATTTT-TTATTTGAAAGCTAATATCGAAAT
* * * *
10529019 AGAAATACCGTGCCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAATTAATAAATTAAAAT
130 AGAAATATCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACTAAAAAATTAAAAT
* * **
10529084 TAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAAAATTCTATTTTTACCAATTTTGTTAT
195 TAATTTGTATAATTTGTATTTACTAATTTTATCATTAAAAAGTCTATTTTTACCGGTTTTGTTAT
*
10529149 TGTTGGGCATAACAAAACCGGTAACAATTACCTAAAACATTATTATTTCTACCTAAAACATCAAT
260 TGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTACCTAAAACATCAAT
* *
10529214 GTTTTTAACATTTCCAGTAAAGTGCCCAACAATAATAAAACCGGTAAAAAAATAACAAAACCT-G
325 GTTTTTAACATTTCCGGTAAAGTGCCCAACAATAACAAAACCGGTAAAAAAATAACAAAA-CTGG
* * * *
10529278 TAGCGCTTTACATGTTTTGTTAAAATAATGATATTTTCGGTAATTTTTACCTGTTTTATTATTGT
389 TAGCGTTTTACCTGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCTGTTTTGTTATTGT
10529343 TGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAACATATGTGTCGATACTTT
454 TGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAACATATGTGTCGATACTTT
*
10529408 TAGAAAATGTATCGACACATATGTTTAATTATTCTCTCATTAT-A-AT-A-T-A-GATATATTAT
519 TAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAATGATATATTAT
10529467 TCTTATTAT-AAA-AA-AAATATAATTTATAATAATTTTATTTTAATAAAATATAATAATCATAA
584 TCTTATTATAAAATAATAAATATAATTTATAATAATTTTATTTTAATAAAATATAATAATCATAA
10529529 TTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAAATAATATTAAAT
649 TTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAAATAATATTAAAT
* *
10529594 AAATTATTATAATATTTTAAAAATAATATTATTTTTTTGTTAATAAATAATATTATTTTA
714 AAATTATTCTAATATTTTAAAAATAATATTATTATTTTGTTAATAAATAATATTATTTTA
*
10529654 TTGTATTTGATGTTTATAACTATATTGTAATTATGATTATTTTTCATCACTTCATTATGATTATT
1 TTGTATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATTATGATTA--
10529719 TTTTTTTAAATTATATTGTAATTATATATATTTTTTTAATTTTTTATTTGAAAGCTAATATCGAA
64 TTTTTTTAAATTATATTGTAATTATATATATTTTTTT-ATTTTTTATTTGAAAGCTAATATCGAA
10529784 ATAGAAATATCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACTAAAAAATTAAA
128 ATAGAAATATCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACTAAAAAATTAAA
10529849 ATTAATTTGTATAATTTGTATTTACTAATTTTATCATTAAAAAGTCTA-TTTTACCGGTTTTGTT
193 ATTAATTTGTATAATTTGTATTTACTAATTTTATCATTAAAAAGTCTATTTTTACCGGTTTTGTT
* * *
10529913 ATTGTTTGGCATAAAAAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTACCTATAACATC
258 ATTGTTGGGCAT-AACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTACCTAAAACATC
*
10529978 AATATGTTTTAACATTTCCGGTAAAGTGCCCAACAATAACAAAACCGGTAAAAAAATAACAAAAC
322 AATGT-TTTTAACATTTCCGGTAAAGTGCCCAACAATAACAAAACCGGTAAAAAAATAACAAAAC
*
10530043 TGGTAGCGTTTTACCTGTTTTGTTAAAATAATGATGTTTTCAGTAATTTTTACCTGTTTTGTTAT
386 TGGTAGCGTTTTACCTGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCTGTTTTGTTAT
10530108 TGTTGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAACATATGTGTCGATAC
451 TGTTGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAACATATGTGTCGATAC
*
10530173 TTTTAGAAAATGTATCGACACATATGTTTAGCTATTCTCTCATTATAATATAATTAATGATATAT
516 TTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAATGATATAT
*
10530238 TATTCTTATTATAAAAATTAATAAATATAATTTACAATAATTTTATTTTAATAAAATATAATAAT
581 TATTCTTATTAT-AAAA-TAATAAATATAATTTATAATAATTTTATTTTAATAAAATATAATAAT
10530303 CATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAAATAATAT
644 CATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAAATAATAT
* *
10530368 TAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGTTAATAAATAAAATTGTTTTA
709 TAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGTTAATAAATAATATTATTTTA
*
10530433 TTGTATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCAATTCATTATGATTATT
1 TTGTATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATTATGATTATT
10530498 TTTTTAAATTATATTGTAATTATATATAATTTTTTTTTATTTTTTATTTGAAAGCTAATATCGAA
66 TTTTTAAATTATATTGTAATTATATAT-A--TTTTTTTATTTTTTATTTGAAAGCTAATATCGAA
* * * *
10530563 ATAAAAACATTGTGTCC-TTTTTTCATTAGTTATATTGTGGCAACTTACAAACCAAAAAATTAAA
128 ATAGAAATATCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACTAAAAAATTAAA
*
10530627 ATTAATTTGTATAATTTG-AGTTTACTAATTTTATCATTAAAAAGTCTATTTTTACCGGTTTTAT
193 ATTAATTTGTATAATTTGTA-TTTACTAATTTTATCATTAAAAAGTCTATTTTTACCGGTTTTGT
* *
10530691 TATTGTTGGGCATAACAAAACTGGTAAAAATTACCTAAAACATTATTATTTTTACCTAAAACATC
257 TATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTACCTAAAACATC
* * * *
10530756 AATTTTTTTAACATTTCCAGTAAAGTGCCCAACAATAATAAAACCGGT-AAAAAATAACAAAACA
322 AATGTTTTTAACATTTCCGGTAAAGTGCCCAACAATAACAAAACCGGTAAAAAAATAACAAAACT
* * * *
10530820 GGTAGCGCTTTACCTGTTATGTTAAAATAATGATGTTTTAGGTAA-TTTTATCTGTTTTGTTATT
387 GGTAGCGTTTTACCTGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCTGTTTTGTTATT
10530884 GTTGTATACCGGTTACATTGTAAATTTACGTATTATATTATAATTATAACTATTACATTATAATT
452 GTTGTATACCGGTTACATTGTAAATTTAC--------------------CTATTACATTATAATT
*
10530949 ATTACATATGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTAT
497 ATAACATATGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTAT
10531014 AATATAATTAATGATATATTATTCTTATTATAAAAAATAATAAATATAATTTATAATAATTTTAT
562 AATATAATTAATGATATATTATTCTTATTAT--AAAATAATAAATATAATTTATAATAATTTTAT
10531079 TTTAATAAAATATAATAATCATAA-TTTTTATTTATAAAATTATAGATATAATATTTTAATAATA
625 TTTAATAAAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATA
*
10531143 ATATTGACATAAATAATATTAAAT-AATTATTCTAATATTTTAAAAATAATATGATTATTTTGTT
690 ATATTGACATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGTT
**
10531207 AATAAATAATATTGGTTTA
755 AATAAATAATATTATTTTA
*
10531226 TTGTATTTGATATTTATA
1 TTGTATTTGATGTTTATA
10531244 GGCGCTATTA
Statistics
Matches: 2885, Mismatches: 145, Indels: 141
0.91 0.05 0.04
Matches are distributed among these distances:
744 37 0.01
745 175 0.06
746 3 0.00
747 1 0.00
748 1 0.00
749 19 0.01
750 1 0.00
751 1 0.00
752 2 0.00
753 2 0.00
754 2 0.00
755 177 0.06
756 6 0.00
757 40 0.01
758 217 0.08
759 5 0.00
760 7 0.00
761 2 0.00
762 91 0.03
763 3 0.00
764 3 0.00
765 3 0.00
766 26 0.01
767 199 0.07
768 290 0.10
769 63 0.02
770 134 0.05
771 1 0.00
772 181 0.06
773 2 0.00
774 22 0.01
775 48 0.02
776 60 0.02
777 129 0.04
778 212 0.07
779 297 0.10
780 7 0.00
781 113 0.04
793 73 0.03
794 64 0.02
795 161 0.06
796 5 0.00
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.45
Consensus pattern (773 bp):
TTGTATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATTATGATTATT
TTTTTAAATTATATTGTAATTATATATATTTTTTTATTTTTTATTTGAAAGCTAATATCGAAATA
GAAATATCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACTAAAAAATTAAAATT
AATTTGTATAATTTGTATTTACTAATTTTATCATTAAAAAGTCTATTTTTACCGGTTTTGTTATT
GTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTACCTAAAACATCAATG
TTTTTAACATTTCCGGTAAAGTGCCCAACAATAACAAAACCGGTAAAAAAATAACAAAACTGGTA
GCGTTTTACCTGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCTGTTTTGTTATTGTTG
TATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAACATATGTGTCGATACTTTTA
GAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAATGATATATTATTC
TTATTATAAAATAATAAATATAATTTATAATAATTTTATTTTAATAAAATATAATAATCATAATT
TTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAAATAATATTAAATAA
ATTATTCTAATATTTTAAAAATAATATTATTATTTTGTTAATAAATAATATTATTTTA
Found at i:10530265 original size:28 final size:33
Alignment explanation
Indices: 10530205--10530265 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 33
10530195 TATGTTTAGC
*
10530205 TATTCTCTCATTATAATATAATTAATGATATAT
1 TATTCTCTCATTATAATATAATTAATGAAATAT
10530238 TATTCT-T-ATTATAA-A-AATTAAT-AAATAT
1 TATTCTCTCATTATAATATAATTAATGAAATAT
10530266 AATTTACAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 5 0.19
29 7 0.26
30 1 0.04
31 7 0.26
32 1 0.04
33 6 0.22
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.48
Consensus pattern (33 bp):
TATTCTCTCATTATAATATAATTAATGAAATAT
Found at i:10530341 original size:28 final size:32
Alignment explanation
Indices: 10530277--10530342 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 32
10530267 ATTTACAATA
10530277 ATTTTATTTTAATAAAATATAATAATCATAAT
1 ATTTTATTTTAATAAAATATAATAATCATAAT
*
10530309 TTTTTA-TTT-ATAAAAT-T-ATAGAT-ATAAT
1 ATTTTATTTTAATAAAATATAATA-ATCATAAT
10530337 ATTTTA
1 ATTTTA
10530343 ATAATAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 13 0.42
29 3 0.10
30 7 0.23
31 3 0.10
32 5 0.16
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (32 bp):
ATTTTATTTTAATAAAATATAATAATCATAAT
Found at i:10530349 original size:14 final size:14
Alignment explanation
Indices: 10530281--10530353 Score: 51
Period size: 14 Copynumber: 5.3 Consensus size: 14
10530271 ACAATAATTT
10530281 TATTTTAATAA-AA
1 TATTTTAATAATAA
** *
10530294 TATAATAATCATAA
1 TATTTTAATAATAA
* * *
10530308 TTTTTTATTTATAA
1 TATTTTAATAATAA
* *
10530322 AATTATAGAT-ATAA
1 TATTTTA-ATAATAA
10530336 TATTTTAATAATAA
1 TATTTTAATAATAA
10530350 TATT
1 TATT
10530354 GACATAAATA
Statistics
Matches: 43, Mismatches: 14, Indels: 5
0.69 0.23 0.08
Matches are distributed among these distances:
13 10 0.23
14 32 0.74
15 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (14 bp):
TATTTTAATAATAA
Found at i:10530349 original size:28 final size:28
Alignment explanation
Indices: 10530281--10530349 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
10530271 ACAATAATTT
*
10530281 TATTTTAATAA-AATATAATAATCATAA
1 TATTTTAATAATAAAATAATAATCATAA
* * * *
10530308 TTTTTTATTTATAAAATTATAGAT-ATAA
1 TATTTTAATAATAAAATAATA-ATCATAA
10530336 TATTTTAATAATAA
1 TATTTTAATAATAA
10530350 TATTGACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 8 0.25
28 22 0.69
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTTTAATAATAAAATAATAATCATAA
Found at i:10530436 original size:24 final size:24
Alignment explanation
Indices: 10530385--10530436 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
10530375 ATTATTCTAA
*
10530385 TATT-TTAAAAATAATATTATTAT
1 TATTGTTAAAAATAAAATTATTAT
*
10530408 T-TTGTTAATAAATAAAATTGTT-T
1 TATTGTTAA-AAATAAAATTATTAT
10530431 TATTGT
1 TATTGT
10530437 ATTTGATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.29
24 15 0.62
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (24 bp):
TATTGTTAAAAATAAAATTATTAT
Found at i:10530520 original size:30 final size:30
Alignment explanation
Indices: 10530445--10530533 Score: 75
Period size: 24 Copynumber: 3.1 Consensus size: 30
10530435 GTATTTGATG
10530445 TTTATAATTATATTGTAATTATGATTA--TT
1 TTTA-AATTATATTGTAATTATGATTATTTT
* * *
10530474 TTT-CATCA-A-T-TCATTATGATTATTTT
1 TTTAAATTATATTGTAATTATGATTATTTT
10530500 TTTAAATTATATTGTAATTAT-ATATAATTTT
1 TTTAAATTATATTGTAATTATGAT-T-ATTTT
10530531 TTT
1 TTT
10530534 TTATTTTTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
24 11 0.24
25 1 0.02
26 6 0.13
27 6 0.13
28 1 0.02
29 6 0.13
30 7 0.15
31 8 0.17
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (30 bp):
TTTAAATTATATTGTAATTATGATTATTTT
Found at i:10530763 original size:21 final size:21
Alignment explanation
Indices: 10530721--10530765 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
10530711 CTGGTAAAAA
*
10530721 TTACCTAAAACATTATTATTT
1 TTACCTAAAACATAATTATTT
10530742 TTACCTAAAACATCAATT-TTT
1 TTACCTAAAACAT-AATTATTT
10530763 TTA
1 TTA
10530766 ACATTTCCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (21 bp):
TTACCTAAAACATAATTATTT
Found at i:10530945 original size:14 final size:14
Alignment explanation
Indices: 10530926--10530955 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10530916 TTATATTATA
10530926 ATTATAACTATTAC
1 ATTATAACTATTAC
*
10530940 ATTATAATTATTAC
1 ATTATAACTATTAC
10530954 AT
1 AT
10530956 ATGTGTCGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTATAACTATTAC
Found at i:10531085 original size:30 final size:31
Alignment explanation
Indices: 10531051--10531135 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 31
10531041 TTATAAAAAA
*
10531051 TAAT-AAATATAATTTATAATAA-TTTTATTT
1 TAATAAAATATAA-TAATAATAATTTTTATTT
*
10531081 TAATAAAATATAATAATCATAATTTTTA-TT
1 TAATAAAATATAATAATAATAATTTTTATTT
10531111 T-ATAAAATTATAGAT-ATAAT-ATTTT
1 TAATAAAA-TATA-ATAATAATAATTTT
10531136 AATAATAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
29 11 0.23
30 22 0.46
31 15 0.31
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (31 bp):
TAATAAAATATAATAATAATAATTTTTATTT
Found at i:10531143 original size:14 final size:14
Alignment explanation
Indices: 10531062--10531147 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
10531052 AATAAATATA
**
10531062 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
10531077 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
10531090 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * *
10531104 -TTTTATTTATAAA
1 ATTTTAATAATAAT
*
10531117 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
10531131 ATTTTAATAATAAT
1 ATTTTAATAATAAT
10531145 ATT
1 ATT
10531148 GACATAAATA
Statistics
Matches: 53, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
13 18 0.34
14 30 0.57
15 5 0.09
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:10531511 original size:21 final size:23
Alignment explanation
Indices: 10531484--10531533 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
10531474 ACATATTTTA
*
10531484 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
*
10531507 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
10531530 TTAT
1 TTAT
10531534 TGTGTTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:10531575 original size:64 final size:64
Alignment explanation
Indices: 10531507--10531652 Score: 247
Period size: 64 Copynumber: 2.3 Consensus size: 64
10531497 ACCTATTACG
** * *
10531507 TTATATAAGCGCTACCTAATATGTTATTGTGTTTGATAATGTTTTCAGTAATTAACCTATTTTA
1 TTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATGTTTCCAATAATTAACCTATTTTA
*
10531571 TTATATAAGCGGTACCTAATATGTTATTGTACTTGATAATGTTTCCAATAATTAACCTATTTTA
1 TTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATGTTTCCAATAATTAACCTATTTTA
10531635 TTATATAAGCGCTACCTA
1 TTATATAAGCGCTACCTA
10531653 TTACATTATA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 76 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.44
Consensus pattern (64 bp):
TTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATGTTTCCAATAATTAACCTATTTTA
Found at i:10531662 original size:21 final size:23
Alignment explanation
Indices: 10531625--10531819 Score: 120
Period size: 23 Copynumber: 8.7 Consensus size: 23
10531615 CCAATAATTA
**
10531625 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
10531648 ACCTATTACATTATATAAGCGTT
1 ACCTATTACATTATATAAGCGCT
*
10531671 ACCTATTACATTATATAAGCGGT
1 ACCTATTACATTATATAAGCGCT
* * ** * *
10531694 ACTTAATATGTTAT-TATGCTTGAT
1 ACCTATTACATTATATAAGC--GCT
* * * *
10531718 A-ATGTTTCCAGTA-ATTAA-C-CT
1 ACCT-ATTACATTATA-TAAGCGCT
*
10531739 A--T-TT-TATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
* * *
10531758 ACTTATTATATTATATAAGCTCT
1 ACCTATTACATTATATAAGCGCT
10531781 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
10531804 ACCTATTACATCATAT
1 ACCTATTACATTATAT
10531820 TTTTACTTGT
Statistics
Matches: 134, Mismatches: 26, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
17 6 0.04
18 4 0.03
19 3 0.02
20 1 0.01
21 3 0.02
22 6 0.04
23 102 0.76
24 7 0.05
25 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:10531754 original size:110 final size:110
Alignment explanation
Indices: 10531561--10531808 Score: 399
Period size: 110 Copynumber: 2.3 Consensus size: 110
10531551 TCAGTAATTA
** *
10531561 ACCTATTTTATTATATAAGCGGTACCTAATATGTTATTGTACTTGATAATGTTTCCAATAATTAA
1 ACCTATTACATTATATAAGCGGTACCTAATATGTTATTATACTTGATAATGTTTCCAATAATTAA
10531626 CCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGT-T
66 CCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGC-TCT
* * *
10531671 ACCTATTACATTATATAAGCGGTACTTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTAA
1 ACCTATTACATTATATAAGCGGTACCTAATATGTTATTATACTTGATAATGTTTCCAATAATTAA
* *
10531736 CCTATTTTATTATATAAGCGCTACTTATTATATTATATAAGCTCT
66 CCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCTCT
*
10531781 ACCTATTACATTATATAAGCGCTACCTA
1 ACCTATTACATTATATAAGCGGTACCTA
10531809 TTACATCATA
Statistics
Matches: 127, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
109 1 0.01
110 126 0.99
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (110 bp):
ACCTATTACATTATATAAGCGGTACCTAATATGTTATTATACTTGATAATGTTTCCAATAATTAA
CCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCTCT
Found at i:10534432 original size:85 final size:85
Alignment explanation
Indices: 10534289--10534460 Score: 308
Period size: 85 Copynumber: 2.0 Consensus size: 85
10534279 AAAAAAAAAA
*
10534289 ACATCAATAGTATCATTAACAATAGCAACAATAAAATTAATAATGATCATGAAAATATCAATAAT
1 ACATCAATAGTATCATTAACAATAACAACAATAAAATTAATAATGATCATGAAAATATCAATAAT
*
10534354 TTTAGTATTAATCAAATGTC
66 TTCAGTATTAATCAAATGTC
* *
10534374 ACATCAGTAGTATCATTAACAATAACAACAATAAAATTAGTAATGATCATGAAAATATCAATAAT
1 ACATCAATAGTATCATTAACAATAACAACAATAAAATTAATAATGATCATGAAAATATCAATAAT
10534439 TTCAGTATTAATCAAATGTC
66 TTCAGTATTAATCAAATGTC
10534459 AC
1 AC
10534461 GCTTTCAAAG
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.31
Consensus pattern (85 bp):
ACATCAATAGTATCATTAACAATAACAACAATAAAATTAATAATGATCATGAAAATATCAATAAT
TTCAGTATTAATCAAATGTC
Found at i:10540151 original size:81 final size:81
Alignment explanation
Indices: 10540050--10540623 Score: 770
Period size: 81 Copynumber: 7.1 Consensus size: 81
10540040 ATTCCTTTAG
* * * * * ** * * *
10540050 TCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTACATGATTGACACTTTTCTGTCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
10540115 ATAACTAGGCCATTAA
66 ACAACTAGGCCATTAA
* *
10540131 TCTTTTACTCAACGGTATTTAATCGTTCATCTAACTGGCATAATTGACACCTTTCTTCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* *
10540196 ATAGCTAGGCCATTAA
66 ACAACTAGGCCATTAA
* * *
10540212 TCTTTTACTCAACTGTATTTAACCGTTCATCTAATTGGCATAATTGACACTTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* *
10540277 ACAGCTAGTCCATTAA
66 ACAACTAGGCCATTAA
* * *
10540293 TCTTTTACTCAGCGATATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
10540358 ACAACTAGGCCATTAA
66 ACAACTAGGCCATTAA
* * *
10540374 TCTTTTACTCGACGGTATTTAACTGTTCATCTAACTGGCATAATTGAAACCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
10540439 ACAACTAGGCTATTAA
66 ACAACTAGGCCATTAA
** * * *
10540455 TCTTTTACTCAATAGTATTTAACCGTTCATCTAACTAGCATAATTGACACCTTTTTGCCAAATGT
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* ** * *
10540520 GCAGTTAGACTATTAA
66 ACAACTAGGCCATTAA
*
10540536 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
** * *
10540601 ACAGTTAGACAATTAA
66 ACAACTAGGCCATTAA
10540617 TCTTTTA
1 TCTTTTA
10540624 TTTTAGAACT
Statistics
Matches: 438, Mismatches: 55, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 438 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
ACAACTAGGCCATTAA
Found at i:10541310 original size:20 final size:20
Alignment explanation
Indices: 10541285--10541337 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
10541275 GTTAACAATG
*
10541285 GTATCGATACCATCCTCATA
1 GTATCGATACCACCCTCATA
* *
10541305 GTATCGATACGC-CCCTCTTG
1 GTATCGATAC-CACCCTCATA
10541325 GTATCGATACCAC
1 GTATCGATACCAC
10541338 TTGAATCGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (20 bp):
GTATCGATACCACCCTCATA
Found at i:10556683 original size:14 final size:14
Alignment explanation
Indices: 10556664--10556700 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
10556654 ATATCTTATT
*
10556664 TCATTTTCTTCCTC
1 TCATTTTCCTCCTC
10556678 TCATTTTCCTCCTC
1 TCATTTTCCTCCTC
10556692 TCATTTTCC
1 TCATTTTCC
10556701 ATTTTCTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.08, C:0.38, G:0.00, T:0.54
Consensus pattern (14 bp):
TCATTTTCCTCCTC
Found at i:10557309 original size:21 final size:20
Alignment explanation
Indices: 10557261--10557300 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
10557251 TTTCATATGG
*
10557261 GAGTATCGATACTGCCAGGGT
1 GAGTATCGATACT-CCAAGGT
10557282 GAGTATCGATACT-CAAGGT
1 GAGTATCGATACTCCAAGGT
10557301 AGCAGTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
21 13 0.72
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (20 bp):
GAGTATCGATACTCCAAGGT
Found at i:10558555 original size:32 final size:32
Alignment explanation
Indices: 10558500--10558579 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 32
10558490 ACAAAGTCAA
* * *
10558500 TATTACATTCAGATAATGCACAGTATAGCCAG
1 TATTGCATTCAGATAACGCACAGTAGAGCCAG
* * *
10558532 TATTGCATTTAGATAACGTACAGTAGAGCTAG
1 TATTGCATTCAGATAACGCACAGTAGAGCCAG
* *
10558564 CATGGCATTCAGATAA
1 TATTGCATTCAGATAA
10558580 TGCATCACAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (32 bp):
TATTGCATTCAGATAACGCACAGTAGAGCCAG
Found at i:10560415 original size:90 final size:90
Alignment explanation
Indices: 10560289--10560466 Score: 295
Period size: 90 Copynumber: 2.0 Consensus size: 90
10560279 TAATCCCGAA
* *
10560289 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATA-AAATCCCTAATATGA
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAGAAA-CCCTAATATGA
10560353 TTAGGGTAACTTGGATATAAAAGGAT
65 TTAGGGTAACTTGGATATAAAAGGAT
*
10560379 TATTAAATTCCAATTAATTAAATATAGATTTGATTAATTTGAAATAATAGAAACCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAGAAACCCTAATATGAT
* *
10560444 TAGGGTAACTTGGCTTTAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
10560467 GTGTGTTAGG
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
90 79 0.96
91 3 0.04
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAGAAACCCTAATATGAT
TAGGGTAACTTGGATATAAAAGGAT
Found at i:10563873 original size:18 final size:18
Alignment explanation
Indices: 10563828--10563863 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10563818 TATTTTTTTC
10563828 AAAAAAAAAACAAAAAAA
1 AAAAAAAAAACAAAAAAA
10563846 AAAAAAAAAACAAAAAAA
1 AAAAAAAAAACAAAAAAA
10563864 GGCAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAACAAAAAAA
Found at i:10563876 original size:1 final size:1
Alignment explanation
Indices: 10563828--10563863 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
10563818 TATTTTTTTC
* *
10563828 AAAAAAAAAACAAAAAAAAAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10563864 GGCAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10563883 original size:12 final size:13
Alignment explanation
Indices: 10563827--10563887 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
10563817 CTATTTTTTT
10563827 CAAAAAAAAAA--
1 CAAAAAAAAAAGG
**
10563838 CAAAAAAAAAAAAA
1 C-AAAAAAAAAAGG
*
10563852 AAAACAAAAAAAGG
1 CAAA-AAAAAAAGG
10563866 CAAAAAAAAAAGG
1 CAAAAAAAAAAGG
*
10563879 TAAAAAAAA
1 CAAAAAAAA
10563888 CCAAAAAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
11 1 0.02
12 10 0.24
13 20 0.49
14 10 0.24
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.02
Consensus pattern (13 bp):
CAAAAAAAAAAGG
Found at i:10563896 original size:10 final size:10
Alignment explanation
Indices: 10563829--10563875 Score: 62
Period size: 9 Copynumber: 4.9 Consensus size: 10
10563819 ATTTTTTTCA
10563829 AAAAAAAAAC
1 AAAAAAAAAC
10563839 -AAAAAAAA-
1 AAAAAAAAAC
10563847 AAAAAAAAAC
1 AAAAAAAAAC
**
10563857 AAAAAAAGGC
1 AAAAAAAAAC
10563867 AAAAAAAAA
1 AAAAAAAAA
10563876 AGGTAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 16 0.52
10 15 0.48
ACGTcount: A:0.89, C:0.06, G:0.04, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:10574438 original size:16 final size:17
Alignment explanation
Indices: 10574407--10574440 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10574397 TACAAATATC
10574407 ACATAATATATTATTAAA
1 ACATAATATA-TATTAAA
10574425 ACATAATATA-ATTAAA
1 ACATAATATATATTAAA
10574441 TTACAGACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
ACATAATATATATTAAA
Found at i:10576207 original size:43 final size:43
Alignment explanation
Indices: 10576148--10576353 Score: 120
Period size: 43 Copynumber: 4.7 Consensus size: 43
10576138 GGGTGATAAT
* *
10576148 ACGGTTCCTACATGATGAGGACGGCTGGTTATCTAGG-GGTGAC
1 ACGGCTCCTACGTGATGAGGA-GGCTGGTTATCTAGGAGGTGAC
** *
10576191 ACGGCTCCTACGTGATGAGGAGATATGG---TC--GGTGGATGAC
1 ACGGCTCCTACGTGATGAGGAG-GCTGGTTATCTAGGAGG-TGAC
* * * **
10576231 ACGGCTCATACGTGATGAAGAGTTCTGGCAATCTTTAGGAAAGGTGATAAC
1 ACGGCTCCTACGTGATGAGGAG-GCTGGTTATC--TAGG--AGGTG---AC
** *
10576282 ACGATTCCTACATGATGAGGACGGCTGGTTATCTAGG-GGTGAC
1 ACGGCTCCTACGTGATGAGGA-GGCTGGTTATCTAGGAGGTGAC
*
10576325 ACGACTCCTACGTGATGAGGAGGTCTGGT
1 ACGGCTCCTACGTGATGAGGAGG-CTGGT
10576354 CGGGGGATAA
Statistics
Matches: 127, Mismatches: 19, Indels: 34
0.71 0.11 0.19
Matches are distributed among these distances:
38 2 0.02
39 2 0.02
40 30 0.24
42 3 0.02
43 50 0.39
46 4 0.03
47 2 0.02
48 2 0.02
49 6 0.05
51 25 0.20
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (43 bp):
ACGGCTCCTACGTGATGAGGAGGCTGGTTATCTAGGAGGTGAC
Found at i:10576405 original size:134 final size:134
Alignment explanation
Indices: 10575905--10576366 Score: 708
Period size: 134 Copynumber: 3.4 Consensus size: 134
10575895 TGAAGAGTTT
* * * * * *
10575905 TGGTTATCTAAGGGTGACACGCCTCCTACGTGTTGAGGAGATCTGGTCGGTGGATGACACGACTC
1 TGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGGGATAACACGGCTC
*
10575970 ATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAATACGGTTCCTACGTGATGAGGA
66 ATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAATACGGTTCCTACATGATGAGGA
**
10576035 CGAT
131 CGGC
* * * * *
10576039 TGGTTATCTAGCGGTGATATGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATAACATGGCTC
1 TGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGGGATAACACGGCTC
*
10576104 ATACGTGATGAAGAGTTCTAGCCATCTTTAGGAAGGGTGATAATACGGTTCCTACATGATGAGGA
66 ATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAATACGGTTCCTACATGATGAGGA
10576169 CGGC
131 CGGC
* * *
10576173 TGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAGGAGATATGGTCGGTGGATGACACGGCTC
1 TGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGGGATAACACGGCTC
* * * *
10576238 ATACGTGATGAAGAGTTCTGGCAATCTTTAGGAAAGGTGATAACACGATTCCTACATGATGAGGA
66 ATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAATACGGTTCCTACATGATGAGGA
10576303 CGGC
131 CGGC
* *
10576307 TGGTTATCTAGGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATAACAC
1 TGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGGGATAACAC
10576367 AGTTCTTACA
Statistics
Matches: 295, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
134 295 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (134 bp):
TGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGGGATAACACGGCTC
ATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAATACGGTTCCTACATGATGAGGA
CGGC
Found at i:10576531 original size:66 final size:65
Alignment explanation
Indices: 10576442--10576620 Score: 234
Period size: 66 Copynumber: 2.7 Consensus size: 65
10576432 CAGATGATGC
* * * *
10576442 TTCAAAAGAAGCTGTCTCAAGAGAGACAAAATTCGTTTCGAGGGAAACGATATCAAAGATTGGTG
1 TTCAATAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAAGGAAACGA-ATCAAAGATTGGTG
10576507 T
65 T
* *
10576508 TTC-ATGAGAAACTGTCTCAAGAGAGACAAAATTCTTTTCAAAGGAAACGACTCAAAGATTGGTG
1 TTCAAT-AGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAAGGAAACGAATCAAAGATTGGTG
10576572 T
65 T
* * * *
10576573 TTCAATAGAAACTATCTCAAAAGAGACTAAACTTTGTTTCAAAGGAAA
1 TTCAATAGAAACTGTCTCAAGAGAGAC-AAAATTCGTTTCAAAGGAAA
10576621 TTGTCTCAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
65 37 0.37
66 62 0.63
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.26
Consensus pattern (65 bp):
TTCAATAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAAGGAAACGAATCAAAGATTGGTGT
Found at i:10576592 original size:65 final size:65
Alignment explanation
Indices: 10576420--10576620 Score: 228
Period size: 66 Copynumber: 3.1 Consensus size: 65
10576410 GGTTTTAAGA
* * * * * * * *
10576420 GAAACCGACTCACAGA-TGATGCTTCAAAAGAAGCTGTCTCAAGAGAGACAAAATTCGTTTCGAG
1 GAAA-CGACTCAAAGATTGGTGTTTCAATAGAAACTGTCTCAAGAGAGACAAAATTCTTTTCAAA
10576484 G
65 G
*
10576485 GAAACGATATCAAAGATTGGTGTTTC-ATGAGAAACTGTCTCAAGAGAGACAAAATTCTTTTCAA
1 GAAACGA-CTCAAAGATTGGTGTTTCAAT-AGAAACTGTCTCAAGAGAGACAAAATTCTTTTCAA
10576549 AG
64 AG
* * *
10576551 GAAACGACTCAAAGATTGGTGTTTCAATAGAAACTATCTCAAAAGAGACTAAACTT-TGTTTCAA
1 GAAACGACTCAAAGATTGGTGTTTCAATAGAAACTGTCTCAAGAGAGAC-AAAATTCT-TTTCAA
10576615 AG
64 AG
10576617 GAAA
1 GAAA
10576621 TTGTCTCAAA
Statistics
Matches: 117, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
64 3 0.03
65 48 0.41
66 66 0.56
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (65 bp):
GAAACGACTCAAAGATTGGTGTTTCAATAGAAACTGTCTCAAGAGAGACAAAATTCTTTTCAAAG
Found at i:10576615 original size:22 final size:22
Alignment explanation
Indices: 10576589--10576652 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
10576579 AGAAACTATC
10576589 TCAAAAGAGACTAAACTTTGTT
1 TCAAAAGAGACTAAACTTTGTT
*
10576611 TC-AAAG-G---AAA--TTGTC
1 TCAAAAGAGACTAAACTTTGTT
10576626 TCAAAAGAGACTAAACTTTGTT
1 TCAAAAGAGACTAAACTTTGTT
10576648 TCAAA
1 TCAAA
10576653 GGAAACAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
15 6 0.18
16 4 0.12
17 4 0.12
20 4 0.12
21 4 0.12
22 11 0.33
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (22 bp):
TCAAAAGAGACTAAACTTTGTT
Found at i:10576628 original size:37 final size:37
Alignment explanation
Indices: 10576570--10576667 Score: 144
Period size: 37 Copynumber: 2.6 Consensus size: 37
10576560 CAAAGATTGG
10576570 TGTTTCAATA-GAAACTATCTCAAAAGAGACTAAACTT
1 TGTTTCAA-AGGAAACTATCTCAAAAGAGACTAAACTT
* *
10576607 TGTTTCAAAGGAAATTGTCTCAAAAGAGACTAAACTT
1 TGTTTCAAAGGAAACTATCTCAAAAGAGACTAAACTT
* *
10576644 TGTTTCAAAGGAAACAAACTCAAA
1 TGTTTCAAAGGAAACTATCTCAAA
10576668 GATTTTTTCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 1 0.02
37 53 0.98
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (37 bp):
TGTTTCAAAGGAAACTATCTCAAAAGAGACTAAACTT
Found at i:10576681 original size:66 final size:65
Alignment explanation
Indices: 10576611--10576740 Score: 156
Period size: 64 Copynumber: 2.0 Consensus size: 65
10576601 AAACTTTGTT
* * * *
10576611 TCAAAGGAAATTGTCTCAAAAGAGACTAAACTTTGTTT-CAAAGGAAACAAACTCAAAGAT-TTT
1 TCAAAAGAAATTATCT--AAAGAGACAAAAATTTGTTTCCAAA-GAAACAAACTCAAAGATGTTT
10576674 TTC
63 TTC
* * *
10576677 TCAAAAGAAATTATCTTAAGAGACAAAAATTTGTTTCCAAAGAGACAGACTCAAAGATGTTTTT
1 TCAAAAGAAATTATCTAAAGAGACAAAAATTTGTTTCCAAAGAAACAAACTCAAAGATGTTTTT
10576741 GTTTCATGTG
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
64 32 0.58
65 9 0.16
66 14 0.25
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (65 bp):
TCAAAAGAAATTATCTAAAGAGACAAAAATTTGTTTCCAAAGAAACAAACTCAAAGATGTTTTTC
Found at i:10576692 original size:103 final size:100
Alignment explanation
Indices: 10576515--10576718 Score: 234
Period size: 103 Copynumber: 2.0 Consensus size: 100
10576505 TGTTTCATGA
* * *
10576515 GAAACTGTCTCAAGAGAGACAAAATTCTTTTCAAAGGAAACGACTCAAAGATTGGTGTTTCAATA
1 GAAACTGTCTCAAAAGAGACAAAATTCTTTTCAAAGGAAACAACTCAAAGATT-GTGTTTCAAAA
* *
10576580 GAAACTATCTCAAAAGAGACTAAACTTTGTTT-CAAAG
65 GAAACTATCT--AAAGAGACAAAAATTTGTTTCCAAAG
* * *
10576617 GAAATTGTCTCAAAAGAGACTAAACTT-TGTTTCAAAGGAAACAAACTCAAAGATT-TTTTCTCA
1 GAAACTGTCTCAAAAGAGAC-AAAATTCT-TTTCAAAGGAAAC-AACTCAAAGATTGTGTT-TCA
* *
10576680 AAAGAAATTATCTTAAGAGACAAAAATTTGTTTCCAAAG
62 AAAGAAACTATCTAAAGAGACAAAAATTTGTTTCCAAAG
10576719 AGACAGACTC
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
101 17 0.20
102 27 0.31
103 32 0.37
104 11 0.13
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (100 bp):
GAAACTGTCTCAAAAGAGACAAAATTCTTTTCAAAGGAAACAACTCAAAGATTGTGTTTCAAAAG
AAACTATCTAAAGAGACAAAAATTTGTTTCCAAAG
Found at i:10576985 original size:37 final size:37
Alignment explanation
Indices: 10576879--10577117 Score: 317
Period size: 37 Copynumber: 6.5 Consensus size: 37
10576869 TATTACCAAA
* *
10576879 GAAATAGACTCAAAGATTTTTTTTCATTTTGTTTCAAGT
1 GAAACAGACTCAAAGA-TTTTTTT-GTTTTGTTTCAAGT
* *
10576918 GAAACAAACTCAAAGATTTTTTTTGCTTTGTTTCAAGT
1 GAAACAGACTCAAAGA-TTTTTTTGTTTTGTTTCAAGT
*
10576956 GAAACAGACTCAAAGATTTTTTTGTTTTGTTTGAAGT
1 GAAACAGACTCAAAGATTTTTTTGTTTTGTTTCAAGT
*
10576993 GAAACAGACTCAAAGA-TTTTTTGTTTTGTTTCAATT
1 GAAACAGACTCAAAGATTTTTTTGTTTTGTTTCAAGT
* * **
10577029 GAAATAGACTCAAAGATTTCTTCATTTTGTTTCAAGT
1 GAAACAGACTCAAAGATTTTTTTGTTTTGTTTCAAGT
*
10577066 GAAACAAACTCAAAGA---TTTT-TTTTGTTTCAAGT
1 GAAACAGACTCAAAGATTTTTTTGTTTTGTTTCAAGT
10577099 GAAACAGACTCAAAGATTT
1 GAAACAGACTCAAAGATTT
10577118 CTCTTCAAAA
Statistics
Matches: 177, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
33 28 0.16
34 2 0.01
36 33 0.19
37 65 0.37
38 27 0.15
39 22 0.12
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (37 bp):
GAAACAGACTCAAAGATTTTTTTGTTTTGTTTCAAGT
Found at i:10577057 original size:73 final size:73
Alignment explanation
Indices: 10576879--10577119 Score: 335
Period size: 73 Copynumber: 3.3 Consensus size: 73
10576869 TATTACCAAA
* * *
10576879 GAAATAGACTCAAAGATTTTTTTTCATTTTGTTTCAAGTGAAACAAACTCAAAGATTTTTTTTGC
1 GAAACAGACTCAAAGA--TTTCTTCATTTTGTTTCAAGTGAAACAAACTCAAAGA--TTTTTTGT
10576944 TTTGTTTCAAGT
62 TTTGTTTCAAGT
* ** * *
10576956 GAAACAGACTCAAAGATTTTTTTGTTTTGTTTGAAGTGAAACAGACTCAAAGATTTTTTGTTTTG
1 GAAACAGACTCAAAGATTTCTTCATTTTGTTTCAAGTGAAACAAACTCAAAGATTTTTTGTTTTG
*
10577021 TTTCAATT
66 TTTCAAGT
*
10577029 GAAATAGACTCAAAGATTTCTTCATTTTGTTTCAAGTGAAACAAACTCAAAGA--TTTT-TTTTG
1 GAAACAGACTCAAAGATTTCTTCATTTTGTTTCAAGTGAAACAAACTCAAAGATTTTTTGTTTTG
10577091 TTTCAAGT
66 TTTCAAGT
10577099 GAAACAGACTCAAAGATTTCT
1 GAAACAGACTCAAAGATTTCT
10577120 CTTCAAAAGA
Statistics
Matches: 149, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
70 32 0.21
71 4 0.03
73 65 0.44
75 33 0.22
77 15 0.10
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (73 bp):
GAAACAGACTCAAAGATTTCTTCATTTTGTTTCAAGTGAAACAAACTCAAAGATTTTTTGTTTTG
TTTCAAGT
Found at i:10577125 original size:29 final size:31
Alignment explanation
Indices: 10577059--10577125 Score: 75
Period size: 33 Copynumber: 2.2 Consensus size: 31
10577049 TTCATTTTGT
* *
10577059 TTCAAGTGAAACAAACTCAAAGATTTTTTTTGT
1 TTCAAGTGAAACAAACTCAAAGA--TTTTCTGC
*
10577092 TTCAAGTGAAACAGACTCAAAGA-TTTCT-C
1 TTCAAGTGAAACAAACTCAAAGATTTTCTGC
10577121 TTCAA
1 TTCAA
10577126 AAGAAATTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 5 0.16
30 4 0.13
33 22 0.71
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (31 bp):
TTCAAGTGAAACAAACTCAAAGATTTTCTGC
Found at i:10577403 original size:33 final size:34
Alignment explanation
Indices: 10577366--10577433 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
10577356 TTGTGTCAAG
* * * *
10577366 AGAAAT-TTTCTCAAGCGAGATGACATTTTTTTT
1 AGAAATCTGTCTCAAGCGAGACGAAATTTTGTTT
10577399 AGAAATCTGTCTCAAGCGAGACGAAATTTTGTTT
1 AGAAATCTGTCTCAAGCGAGACGAAATTTTGTTT
10577433 A
1 A
10577434 AAGAGAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 6 0.20
34 24 0.80
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (34 bp):
AGAAATCTGTCTCAAGCGAGACGAAATTTTGTTT
Found at i:10577563 original size:32 final size:32
Alignment explanation
Indices: 10577522--10577593 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
10577512 TTCACATCAG
*
10577522 GATGTTGAATCCCCAAAGATGCCCCAACATTC
1 GATGTTGAATACCCAAAGATGCCCCAACATTC
** * *
10577554 GATGTTGAATATTCAATGATGCCCCAATATTC
1 GATGTTGAATACCCAAAGATGCCCCAACATTC
10577586 GATGTTGA
1 GATGTTGA
10577594 TTGCTTCAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (32 bp):
GATGTTGAATACCCAAAGATGCCCCAACATTC
Found at i:10578670 original size:15 final size:14
Alignment explanation
Indices: 10578622--10578670 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
10578612 TTGCGTGTTC
*
10578622 TTCTTTACTTTTTT
1 TTCTTTGCTTTTTT
*
10578636 TTTTTTGCTTTGTTT
1 TTCTTTGCTTT-TTT
*
10578651 CTCTTTGCTCTTTTT
1 TTCTTTGCT-TTTTT
10578666 TTCTT
1 TTCTT
10578671 ATTTCTTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 9 0.32
15 17 0.61
16 2 0.07
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (14 bp):
TTCTTTGCTTTTTT
Found at i:10579370 original size:28 final size:28
Alignment explanation
Indices: 10579339--10579404 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
10579329 TACTCATGAA
*
10579339 TTATTTTGGGTAAAGAAATCGCGAGATT
1 TTATTTTGGGTAAAGAAATCGAGAGATT
*
10579367 TTATTTTGGGTAAAGAAATTGAGAGATT
1 TTATTTTGGGTAAAGAAATCGAGAGATT
10579395 TTATTTTGGG
1 TTATTTTGGG
10579405 GTTTTAGACG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.03, G:0.26, T:0.41
Consensus pattern (28 bp):
TTATTTTGGGTAAAGAAATCGAGAGATT
Found at i:10589822 original size:3 final size:3
Alignment explanation
Indices: 10589814--10589878 Score: 87
Period size: 3 Copynumber: 21.7 Consensus size: 3
10589804 CTATTGGACC
**
10589814 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
10589862 TGA TAA -ATA TAA TAA TA
1 TAA TAA TA-A TAA TAA TA
10589879 TTTTATAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
2 1 0.02
3 52 0.96
4 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10589963 original size:2 final size:2
Alignment explanation
Indices: 10589904--10589945 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
10589894 TATGTGTGTG
*
10589904 TA TA TA TA TA -A TA CA CTA -A 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
10589945 T
1 T
10589946 TTTAAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 2 0.06
2 32 0.91
3 1 0.03
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:10589991 original size:2 final size:2
Alignment explanation
Indices: 10589986--10590126 Score: 77
Period size: 2 Copynumber: 72.5 Consensus size: 2
10589976 TAAAAATAAG
* *
10589986 AT AT AT AT -T AT AT AT ACT AC A- AT AT AT AT -T AT ACT AC AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT
* * * *
10590027 AT A- AT A- AT AA AT AT ACT AT AA AT ACT AT AT -T AC AT A- AA AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT
* *
10590067 AT AA AT ACT AT AT AT GT AT AT AT ACT AT AT A- AT AT A- AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
*
10590109 AT AT AT AT A- AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT A
10590127 AAACTCTACT
Statistics
Matches: 107, Mismatches: 16, Indels: 32
0.69 0.10 0.21
Matches are distributed among these distances:
1 10 0.09
2 85 0.79
3 12 0.11
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.40
Consensus pattern (2 bp):
AT
Found at i:10590018 original size:17 final size:17
Alignment explanation
Indices: 10589988--10590117 Score: 74
Period size: 17 Copynumber: 7.5 Consensus size: 17
10589978 AAAATAAGAT
10589988 ATATATTATATATACTAC
1 ATATA-TATATATACTAC
10590006 A-ATATATATTATACTAC
1 ATATATATA-TATACTAC
10590023 ATATATAATAATAAATA-TAC
1 ATATAT-AT-AT--ATACTAC
* *
10590043 -TATAAATACTATATTAC
1 ATATATATA-TATACTAC
* * *
10590060 ATAAAATATAAATACTAT
1 AT-ATATATATATACTAC
* *
10590078 ATATGTATATATACTAT
1 ATATATATATATACTAC
*
10590095 ATA-ATATA-ATA-TAT
1 ATATATATATATACTAC
10590109 ATATATATA
1 ATATATATA
10590118 ATAAATATAA
Statistics
Matches: 91, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
14 6 0.07
15 8 0.09
16 11 0.12
17 31 0.34
18 16 0.18
19 12 0.13
20 4 0.04
21 3 0.03
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.41
Consensus pattern (17 bp):
ATATATATATATACTAC
Found at i:10605860 original size:20 final size:21
Alignment explanation
Indices: 10605815--10605866 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
10605805 AGTGAACTCG
** *
10605815 GTATCGATACTTCTCCTGTGA
1 GTATCGATACTTAACCAGTGA
10605836 GTATCGATACTTAACCAGT-A
1 GTATCGATACTTAACCAGTGA
10605856 GTATCGATACT
1 GTATCGATACT
10605867 CGATAAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (21 bp):
GTATCGATACTTAACCAGTGA
Found at i:10608790 original size:29 final size:29
Alignment explanation
Indices: 10608733--10608790 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
10608723 GTGTTTGCCA
* *
10608733 TAGGTCGCCATGCCTTCCGGGTGACCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
* *
10608762 TAGGTCGCCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
10608791 AAGAGATTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.34, G:0.28, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGGCGACCTAC
Found at i:10608854 original size:14 final size:14
Alignment explanation
Indices: 10608834--10608913 Score: 70
Period size: 14 Copynumber: 5.3 Consensus size: 14
10608824 GCTGGGCATT
10608834 CGAGGCCATCCGAC
1 CGAGGCCATCCGAC
*
10608848 TGAGGCCATCCGAC
1 CGAGGCCATCCGAC
* *
10608862 CGAGGTCATCTGAGAGCATC
1 CGAGGCCATC----CG-A-C
10608882 CGAGGCCATCCGAC
1 CGAGGCCATCCGAC
*
10608896 CGAGGCCATCCGAA
1 CGAGGCCATCCGAC
10608910 CGAG
1 CGAG
10608914 CTATGCGAGG
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
14 39 0.74
15 1 0.02
16 1 0.02
18 1 0.02
19 1 0.02
20 10 0.19
ACGTcount: A:0.24, C:0.35, G:0.30, T:0.11
Consensus pattern (14 bp):
CGAGGCCATCCGAC
Found at i:10608931 original size:23 final size:23
Alignment explanation
Indices: 10608896--10608946 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
10608886 GCCATCCGAC
*
10608896 CGAGGCCATCCGAACGAGCTATG
1 CGAGGCCAACCGAACGAGCTATG
* *
10608919 CGAGGGCAACCGAGCGAGCTATG
1 CGAGGCCAACCGAACGAGCTATG
10608942 CGAGG
1 CGAGG
10608947 AAATTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.37, T:0.10
Consensus pattern (23 bp):
CGAGGCCAACCGAACGAGCTATG
Found at i:10609006 original size:29 final size:29
Alignment explanation
Indices: 10608973--10609028 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
10608963 GAGCGAGGGT
*
10608973 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
10609002 AGGTCGCCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
10609029 TGTGTTGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.12
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:10617404 original size:21 final size:21
Alignment explanation
Indices: 10617357--10617406 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
10617347 TTTATTTGAA
* *
10617357 AAATAAAAT-AATCAAAAGGT
1 AAATAAAATGGATCAAAAGAT
10617377 AAATAAAATGGATCAAAA-AT
1 AAATAAAATGGATCAAAAGAT
10617397 AAATTAAAAT
1 AAA-TAAAAT
10617407 CTAAACTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.22
Consensus pattern (21 bp):
AAATAAAATGGATCAAAAGAT
Found at i:10624072 original size:9 final size:8
Alignment explanation
Indices: 10624055--10624175 Score: 54
Period size: 10 Copynumber: 14.1 Consensus size: 8
10624045 ATTAAGGATA
10624055 AATATTAT
1 AATATTAT
10624063 AATATGTAT
1 AATAT-TAT
*
10624072 AATATCTAG
1 AATAT-TAT
* *
10624081 CACA-TAT
1 AATATTAT
*
10624088 ACTATATAT
1 AATAT-TAT
10624097 ATATATATAT
1 A-ATAT-TAT
10624107 ATATATATAT
1 A-ATAT-TAT
10624117 AATA-TAT
1 AATATTAT
10624124 ATATATTAT
1 A-ATATTAT
10624133 ATATATATAT
1 A-ATAT-TAT
10624143 ATATATATAT
1 A-ATAT-TAT
10624153 ATATATTAT
1 A-ATATTAT
10624162 -ATA-TAT
1 AATATTAT
10624168 -ATATTAT
1 AATATTAT
10624175 A
1 A
10624176 TATACTAAGA
Statistics
Matches: 95, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
6 6 0.06
7 13 0.14
8 8 0.08
9 31 0.33
10 37 0.39
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (8 bp):
AATATTAT
Found at i:10624097 original size:2 final size:2
Alignment explanation
Indices: 10624084--10624221 Score: 166
Period size: 2 Copynumber: 71.5 Consensus size: 2
10624074 TATCTAGCAC
10624084 AT AT ACT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10624126 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
10624166 AT AT AT -T AT AT AT ACT A- AG AT GT AT ACT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT
*
10624207 AA AT A- AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT A
10624222 AATAAAATTC
Statistics
Matches: 120, Mismatches: 5, Indels: 22
0.82 0.03 0.15
Matches are distributed among these distances:
1 8 0.07
2 106 0.88
3 6 0.05
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.46
Consensus pattern (2 bp):
AT
Found at i:10624149 original size:42 final size:42
Alignment explanation
Indices: 10624090--10624221 Score: 185
Period size: 42 Copynumber: 3.1 Consensus size: 42
10624080 GCACATATAC
10624090 TATATATATATATATATATATATATATAATATATATATATTA
1 TATATATATATATATATATATATATATAATATATATATATTA
*
10624132 TATATATATATATATATATATATATATTATATATATATATTA
1 TATATATATATATATATATATATATATAATATATATATATTA
* * * *
10624174 TATATACTAAGATGTATACTATATATATATAATAAATA-ATAATA
1 TATATA-T-ATATATATA-TATATATATATAATATATATATATTA
10624218 TATA
1 TATA
10624222 AATAAAATTC
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
42 47 0.58
43 1 0.01
44 16 0.20
45 17 0.21
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (42 bp):
TATATATATATATATATATATATATATAATATATATATATTA
Found at i:10626421 original size:18 final size:18
Alignment explanation
Indices: 10626373--10626413 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
10626363 ATCTAAAATT
*
10626373 GGTATCGATACCAAAAGG
1 GGTATCAATACCAAAAGG
10626391 GGTATCAATACCAAAAGG
1 GGTATCAATACCAAAAGG
10626409 GGTAT
1 GGTAT
10626414 TGGTACCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.20
Consensus pattern (18 bp):
GGTATCAATACCAAAAGG
Found at i:10626435 original size:22 final size:22
Alignment explanation
Indices: 10626410--10626465 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
10626400 ACCAAAAGGG
*
10626410 GTATTGGTACCATAGTATAGAA
1 GTATCGGTACCATAGTATAGAA
10626432 GTATCGGTACCATAGTATAGAA
1 GTATCGGTACCATAGTATAGAA
10626454 GTATCGGTACCA
1 GTATCGGTACCA
10626466 GGGTAGTAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (22 bp):
GTATCGGTACCATAGTATAGAA
Found at i:10626955 original size:45 final size:44
Alignment explanation
Indices: 10626899--10627121 Score: 180
Period size: 45 Copynumber: 5.5 Consensus size: 44
10626889 ATAAAAGAAT
*
10626899 AATGTATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATA-TTGA
*
10626944 AATTCATATGGGTGCATTATTGGCAT-AAA--A-G--A-ATT--
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATATTGA
* * *
10626979 -ATGCATATGAGTGCATTATTGGCATGAAAGGATACCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATA-TTGA
* * *
10627023 AATACATATGGGTACATTATCGGCAT-AAA--A-G--A-A-T--
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATATTGA
*
10627057 AATGTATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAT-ATTGA
* *
10627102 AATGAATATGTGTGCATTAT
1 AATGCATATGGGTGCATTAT
10627122 CAACACAAAA
Statistics
Matches: 139, Mismatches: 17, Indels: 44
0.69 0.09 0.22
Matches are distributed among these distances:
34 45 0.32
35 6 0.04
36 1 0.01
37 4 0.03
38 3 0.02
39 2 0.01
40 2 0.01
41 2 0.01
42 4 0.03
43 1 0.01
44 6 0.04
45 63 0.45
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (44 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATATTGA
Found at i:10627024 original size:79 final size:79
Alignment explanation
Indices: 10626889--10627278 Score: 521
Period size: 79 Copynumber: 4.9 Consensus size: 79
10626879 GAATGAATGA
* *
10626889 ATAAAAGAATAATGTATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATTCATATG
1 ATAAAAGAATAATGTATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
*
10626954 GGTGCATTATTGGC
66 GGTGCATTATCGGC
* * * * *
10626968 ATAAAAGAATTATGCATATGAGTGCATTATTGGCATGAAAGGATACCATAGCTGAAATACATATG
1 ATAAAAGAATAATGTATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
*
10627033 GGTACATTATCGGC
66 GGTGCATTATCGGC
** *
10627047 ATAAAAGAATAATGTATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGAAATGAATATG
1 ATAAAAGAATAATGTATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
* **
10627112 TGTGCATTATCAAC
66 GGTGCATTATCGGC
* * ** *
10627126 ACAAAAGAATAATGTATATGGGTGCATTATTGGCATGAAAAGATGTTATAGCTGAAATGAATATG
1 ATAAAAGAATAATGTATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
*
10627191 GGTGCATTATCGAC
66 GGTGCATTATCGGC
* * * * *
10627205 ATAAAAGAATAAT-TCATATGAGTGCATTACTGGCAAGAAAGGATGTCATAGCAGAAATGCATAT
1 ATAAAAGAATAATGT-ATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATAT
*
10627269 GGGTGTATTA
65 GGGTGCATTA
10627279 CTGGCAAGAA
Statistics
Matches: 273, Mismatches: 37, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
78 1 0.00
79 272 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (79 bp):
ATAAAAGAATAATGTATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
GGTGCATTATCGGC
Found at i:10627075 original size:34 final size:35
Alignment explanation
Indices: 10627028--10627168 Score: 106
Period size: 34 Copynumber: 3.8 Consensus size: 35
10627018 GCTGAAATAC
*
10627028 ATATGGGTACATTATCGGCAT-AAAAGAATAATGT
1 ATATGGGTGCATTATCGGCATGAAAAGAATAATGT
* *
10627062 ATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGAAATGA
1 ATATGGGTGCATTATCGGCATGAAA--A-G----AA-T--AATGT
* ** *
10627107 ATATGTGTGCATTATCAACA-CAAAAGAATAATGT
1 ATATGGGTGCATTATCGGCATGAAAAGAATAATGT
*
10627141 ATATGGGTGCATTATTGGCATGAAAAGA
1 ATATGGGTGCATTATCGGCATGAAAAGA
10627169 TGTTATAGCT
Statistics
Matches: 81, Mismatches: 14, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
34 39 0.48
35 9 0.11
36 1 0.01
37 3 0.04
38 1 0.01
41 1 0.01
42 3 0.04
43 1 0.01
44 3 0.04
45 20 0.25
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (35 bp):
ATATGGGTGCATTATCGGCATGAAAAGAATAATGT
Found at i:10627283 original size:45 final size:45
Alignment explanation
Indices: 10627219--10627323 Score: 183
Period size: 45 Copynumber: 2.3 Consensus size: 45
10627209 AAGAATAATT
* *
10627219 CATATGAGTGCATTACTGGCAAGAAAGGATGTCATAGCAGAAATG
1 CATATGGGTGTATTACTGGCAAGAAAGGATGTCATAGCAGAAATG
10627264 CATATGGGTGTATTACTGGCAAGAAAGGATGTCATAGCAGAAATG
1 CATATGGGTGTATTACTGGCAAGAAAGGATGTCATAGCAGAAATG
*
10627309 CATATGGTTGTATTA
1 CATATGGGTGTATTA
10627324 TCAACATAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (45 bp):
CATATGGGTGTATTACTGGCAAGAAAGGATGTCATAGCAGAAATG
Found at i:10627308 original size:124 final size:124
Alignment explanation
Indices: 10627136--10627378 Score: 324
Period size: 124 Copynumber: 2.0 Consensus size: 124
10627126 ACAAAAGAAT
* * * * *
10627136 AATGTATATGGGTGCATTATTGGCATGAAAAGATGTTATAGCTGAAATGAATATGGGTGCATTAT
1 AATGCATATGGGTGCATTACTGGCAAGAAAAGATGTCATAGCAGAAATGAATATGGGTGCATTAT
* * *
10627201 CGACATAAAAGAATAATTCATATGAGTGCATTACTGGCAAGAAAGGATGTCATAGCAGA
66 CAACATAAAAGAATAATGCATATGAGTGCATTACTGGCAAGAAAGGATGCCATAGCAGA
* * * * *
10627260 AATGCATATGGGTGTATTACTGGCAAGAAAGGATGTCATAGCAGAAATGCATATGGTTGTATTAT
1 AATGCATATGGGTGCATTACTGGCAAGAAAAGATGTCATAGCAGAAATGAATATGGGTGCATTAT
** * * *
10627325 CAACATAAAAGTGTAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATA
66 CAACATAAAAGAATAATGCATATGAGTGCATTACTGGCAAGAAAGGATGCCATA
10627379 AATAAAATGC
Statistics
Matches: 101, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
124 101 1.00
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (124 bp):
AATGCATATGGGTGCATTACTGGCAAGAAAAGATGTCATAGCAGAAATGAATATGGGTGCATTAT
CAACATAAAAGAATAATGCATATGAGTGCATTACTGGCAAGAAAGGATGCCATAGCAGA
Found at i:10627931 original size:2 final size:2
Alignment explanation
Indices: 10627924--10627990 Score: 120
Period size: 2 Copynumber: 34.5 Consensus size: 2
10627914 GTATAAAAGG
10627924 AT AT AT AT AT AT A- 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 AT AT
10627965 AT AT AT AT AT AT AT AT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
10627991 CATACATAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 61 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10633192 original size:14 final size:14
Alignment explanation
Indices: 10633169--10633277 Score: 65
Period size: 14 Copynumber: 8.1 Consensus size: 14
10633159 AAGAAGAGAG
10633169 AAAAG-CAAAGAAA
1 AAAAGACAAAGAAA
10633182 AAAAGTA-AAAGAAA
1 AAAAG-ACAAAGAAA
10633196 AAAAGAGCAAAG-AA
1 AAAAGA-CAAAGAAA
*
10633210 AAAAG-CAGAGAGAA
1 AAAAGACAAAGA-AA
*
10633224 AAAAG-CAAA-CAA
1 AAAAGACAAAGAAA
*
10633236 AAAAGA-AAAAAAA
1 AAAAGACAAAGAAA
*
10633249 GAAAAGAGAAA-AAA
1 -AAAAGACAAAGAAA
* *
10633263 CAAAGA-GAAGAAA
1 AAAAGACAAAGAAA
10633276 AA
1 AA
10633278 GAAAGAAATA
Statistics
Matches: 78, Mismatches: 7, Indels: 22
0.73 0.07 0.21
Matches are distributed among these distances:
12 16 0.21
13 17 0.22
14 38 0.49
15 7 0.09
ACGTcount: A:0.76, C:0.06, G:0.17, T:0.01
Consensus pattern (14 bp):
AAAAGACAAAGAAA
Found at i:10633199 original size:15 final size:15
Alignment explanation
Indices: 10633175--10633294 Score: 68
Period size: 15 Copynumber: 7.8 Consensus size: 15
10633165 AGAGAAAAGC
*
10633175 AAAGAAAAAAAG-TA
1 AAAGAAAAAAAGAGA
*
10633189 AAAGAAAAAAAGAGC
1 AAAGAAAAAAAGAGA
10633204 AAAGAAAAAAGCAGAGA
1 AAAGAAAAAA--AGAGA
* * *
10633221 GAAA-AAAGCAAACAAA
1 -AAAGAAA-AAAAGAGA
10633237 AAAGAAAAAAA-AGA
1 AAAGAAAAAAAGAGA
*
10633251 AAAGAGAAAAAACA-A
1 AAAGA-AAAAAAGAGA
* *
10633266 AGAGAAGAAAAAGAAA
1 AAAGAA-AAAAAGAGA
*
10633282 GAAATAAAAAAAG
1 -AAAGAAAAAAAG
10633295 TTAACAGATT
Statistics
Matches: 83, Mismatches: 12, Indels: 20
0.72 0.10 0.17
Matches are distributed among these distances:
14 20 0.24
15 33 0.40
16 14 0.17
17 11 0.13
18 5 0.06
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.02
Consensus pattern (15 bp):
AAAGAAAAAAAGAGA
Found at i:10633204 original size:29 final size:26
Alignment explanation
Indices: 10633169--10633294 Score: 105
Period size: 26 Copynumber: 4.7 Consensus size: 26
10633159 AAGAAGAGAG
10633169 AAAAGCAAAGAAAAAAAGTAAAAGAAAA
1 AAAAGCAAA-AAAAAAAG-AAAAGAAAA
* * * *
10633197 AAAGAGCAAAGAAAAAAGCAGAGAGAA
1 AAA-AGCAAAAAAAAAAGAAAAGAAAA
*
10633224 AAAAGCAAACAAAAAAGAAAA-AAAA
1 AAAAGCAAAAAAAAAAGAAAAGAAAA
*
10633249 GAAAAG-AGAAAAAACAAAGAGAAGAAAA
1 -AAAAGCA-AAAAAA-AAAGAAAAGAAAA
10633277 AGAAAG-AAATAAAAAAAG
1 A-AAAGCAAA-AAAAAAAG
10633295 TTAACAGATT
Statistics
Matches: 81, Mismatches: 10, Indels: 15
0.76 0.09 0.14
Matches are distributed among these distances:
25 4 0.05
26 25 0.31
27 23 0.28
28 23 0.28
29 6 0.07
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.02
Consensus pattern (26 bp):
AAAAGCAAAAAAAAAAGAAAAGAAAA
Found at i:10633225 original size:53 final size:52
Alignment explanation
Indices: 10633157--10633290 Score: 145
Period size: 53 Copynumber: 2.6 Consensus size: 52
10633147 AAGATTAAAT
*
10633157 CAAAGA-AGAGAGAAAAGCAAAGAAAAAAAGTAAAAGAAA-AAAAGAGCAAAGAAA
1 CAAAGAGAGAGA-AAAAGCAAAGAAAAAAAG-AAAAAAAAGAAAAGAG-AAA-AAA
*
10633211 -AAAGCAGAGAGAAAAAAGCAAA-CAAAAAAGAAAAAAAAGAAAAGAGAAAAAA
1 CAAAG-AGAGAG-AAAAAGCAAAGAAAAAAAGAAAAAAAAGAAAAGAGAAAAAA
10633263 CAAAGAGA-AGAAAAAG-AAAGAAATAAAA
1 CAAAGAGAGAGAAAAAGCAAAGAAA-AAAA
10633291 AAAGTTAACA
Statistics
Matches: 70, Mismatches: 3, Indels: 17
0.78 0.03 0.19
Matches are distributed among these distances:
49 3 0.04
50 8 0.11
51 6 0.09
52 6 0.09
53 18 0.26
54 15 0.21
55 13 0.19
56 1 0.01
ACGTcount: A:0.75, C:0.05, G:0.19, T:0.01
Consensus pattern (52 bp):
CAAAGAGAGAGAAAAAGCAAAGAAAAAAAGAAAAAAAAGAAAAGAGAAAAAA
Found at i:10633293 original size:48 final size:47
Alignment explanation
Indices: 10633175--10633293 Score: 109
Period size: 49 Copynumber: 2.4 Consensus size: 47
10633165 AGAGAAAAGC
* *
10633175 AAAGAAAAAAAGTAAAAGAAAAAAAGAGCAAAGAAAAAAGCAGAGAGAAA
1 AAAGAAAAAAA-T-AAA-AAAAAAAGAGAAAAGAAAAAAGCAAAGAGAAA
10633225 AAAGCAAACAAAA-AAGAAAAAAAAGA-AAAGAGAAAAAA-CAAAGAGAAGAA
1 AAAG-AAA-AAAATAA-AAAAAAAAGAGAAA-AGAAAAAAGCAAAGAG-A-AA
*
10633275 AAAGAAAGAAATAAAAAAA
1 AAAGAAAAAAATAAAAAAA
10633294 GTTAACAGAT
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
48 16 0.27
49 25 0.42
50 11 0.19
51 3 0.05
52 4 0.07
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.02
Consensus pattern (47 bp):
AAAGAAAAAAATAAAAAAAAAAGAGAAAAGAAAAAAGCAAAGAGAAA
Found at i:10635985 original size:36 final size:36
Alignment explanation
Indices: 10635917--10636001 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
10635907 TTGAGGTTGT
* * *
10635917 TTTCTCTAAAAAC-AATTTTTTCTCGCTTAAGACAA
1 TTTCTCTTAAAACAAATTTTGTCTCGCTCAAGACAA
* *
10635952 TTTCTCTTGAAACAAATTTTGTCTTGCTCAAGACAA
1 TTTCTCTTAAAACAAATTTTGTCTCGCTCAAGACAA
10635988 TTTCTCTTAAAACA
1 TTTCTCTTAAAACA
10636002 CAGATCCTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 11 0.26
36 32 0.74
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (36 bp):
TTTCTCTTAAAACAAATTTTGTCTCGCTCAAGACAA
Found at i:10636160 original size:37 final size:38
Alignment explanation
Indices: 10636092--10636164 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
10636082 CTTGAGATTG
** **
10636092 TTTTCTTAAAAACAAAATTTTTTCTTGCTTGAGACAAT
1 TTTTCTTAAAAACAAAATTTCGTCTCACTTGAGACAAT
10636130 TTTTCTTAAAAAC-AAATTTCGTCTCACTTGAGACA
1 TTTTCTTAAAAACAAAATTTCGTCTCACTTGAGACA
10636165 GTCTTCCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 18 0.58
38 13 0.42
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.41
Consensus pattern (38 bp):
TTTTCTTAAAAACAAAATTTCGTCTCACTTGAGACAAT
Found at i:10636175 original size:37 final size:37
Alignment explanation
Indices: 10636077--10636175 Score: 101
Period size: 37 Copynumber: 2.6 Consensus size: 37
10636067 ATAAAATTAA
** **
10636077 TCTCACTTGAGATTGTTTTCTTAAAAACAAAATTTTT
1 TCTCACTTGAGACAGTTTTCTTAAAAACAAAATTTCG
** *
10636114 TCTTGCTTGAGACAATTTTTCTTAAAAAC-AAATTTCG
1 TCTCACTTGAGAC-AGTTTTCTTAAAAACAAAATTTCG
*
10636151 TCTCACTTGAGACAGTCTTCCTTAA
1 TCTCACTTGAGACAGT-TTTCTTAA
10636176 GATACGAACA
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
36 2 0.04
37 34 0.69
38 13 0.27
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.41
Consensus pattern (37 bp):
TCTCACTTGAGACAGTTTTCTTAAAAACAAAATTTCG
Found at i:10636367 original size:65 final size:66
Alignment explanation
Indices: 10636283--10636461 Score: 261
Period size: 65 Copynumber: 2.7 Consensus size: 66
10636273 AACAAAATTG
* *
10636283 ATAACCCTTTGAGATTGTTTCTCTTGAAACAAATTTTCTCTCTCTTGAGACAGTTTCTCTTGAAA
1 ATAAACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
10636348 C
66 C
* * * *
10636349 ATAAA-CTTTGAGAATGTTTCTCTAGAAACGAATTTTGTCTCTCTAGAGACAGTTTCTCTTGAAA
1 ATAAACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
10636413 C
66 C
* * * *
10636414 ATAAACCATTGAGATTATTTATCTTGAAACACATTTTGTCTCTCTTGA
1 ATAAACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCTCTTGA
10636462 AACAAATTAT
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
65 60 0.61
66 38 0.39
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (66 bp):
ATAAACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
C
Found at i:10636856 original size:138 final size:137
Alignment explanation
Indices: 10636468--10636877 Score: 511
Period size: 138 Copynumber: 3.0 Consensus size: 137
10636458 TTGAAACAAA
* * * * *
10636468 TTATCACTAAATATGGCTAGACATCCTCATCACGTAGGAACAATGTCGTCCACTGACCTA-ATCT
1 TTATCCCTAAAGATGGCTAGACGTCCTCATCAAGTAGGAACAATGTC-TCCACCGACC-AGATCT
* * * *
10636532 CCTCATCACATATGAGCCGCGTCATTCTTAGATAGTCAGACTTCCTCATCAAGTAGGAACTGTGT
64 CATCATCACGTATGAGCCGCGTCATCCTTAGATAGTCAGACTTCCTCATCACGTAGGAACTGTGT
10636597 TATCTCAAT
129 TATCTCAAT
* * * *
10636606 TTATCCCTAAAGA-GTGCTAGACGTCCTCGTCACA-TAAGAACATTGTCTGCACCGACCAGATCT
1 TTATCCCTAAAGATG-GCTAGACGTCCTCATCA-AGTAGGAACAATGTCTCCACCGACCAGATCT
* * * ** * * * * *
10636669 CATCGTCACGAAGGAGTAGTGTCATCCTTAGATAGCCATACTTCCTCATCACGTAGAAACTCTGT
64 CATCATCACGTATGAGCCGCGTCATCCTTAGATAGTCAGACTTCCTCATCACGTAGGAACTGTGT
10636734 TATCTCAAT
129 TATCTCAAT
* * *
10636743 TTATCCCTAAAGATGGCTAGACGTCTTCATCAAGTTGGAACAATGTCATCCACCGACCAGATCTT
1 TTATCCCTAAAGATGGCTAGACGTCCTCATCAAGTAGGAACAATGTC-TCCACCGACCAGATCTC
*
10636808 TTCATCACGTATGAGCCGCGTCATCCTTAGATAGTCAGACTTCCTCATCACGTAGGAACTGTGTT
65 ATCATCACGTATGAGCCGCGTCATCCTTAGATAGTCAGACTTCCTCATCACGTAGGAACTGTGTT
10636873 ATCTC
130 ATCTC
10636878 CAAATTTACC
Statistics
Matches: 225, Mismatches: 41, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
136 2 0.01
137 111 0.49
138 112 0.50
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (137 bp):
TTATCCCTAAAGATGGCTAGACGTCCTCATCAAGTAGGAACAATGTCTCCACCGACCAGATCTCA
TCATCACGTATGAGCCGCGTCATCCTTAGATAGTCAGACTTCCTCATCACGTAGGAACTGTGTTA
TCTCAAT
Found at i:10636911 original size:138 final size:135
Alignment explanation
Indices: 10636482--10636891 Score: 475
Period size: 137 Copynumber: 3.0 Consensus size: 135
10636472 CACTAAATAT
* * * * * *
10636482 GGCTAGACATCCTCATCACGTAGGAACAATGTCGTCCACTGACCTA-ATCTCCTCATCACATATG
1 GGCTAGACGTCTTCATCAAGTAGGAACAATGTC-TCCACCGACC-AGATCTCATCATCACGTATG
* *
10636546 AGCCGCGTCATTCTTAGATAGTCAGACTTCCTCATCAAGTAGGAACTGTGTTATCTCAATTTATC
64 AGCCGCGTCATCCTTAGATAGTCAGACTTCCTCATCACGTAGGAACTGTGTTATCTCAATTTA-C
10636611 CCTAAAGA
128 CCTAAAGA
* * * * * * * *
10636619 GTGCTAGACGTCCTCGTCACA-TAAGAACATTGTCTGCACCGACCAGATCTCATCGTCACGAAGG
1 G-GCTAGACGTCTTCATCA-AGTAGGAACAATGTCTCCACCGACCAGATCTCATCATCACGTATG
** * * * * *
10636683 AGTAGTGTCATCCTTAGATAGCCATACTTCCTCATCACGTAGAAACTCTGTTATCTCAATTTATC
64 AGCCGCGTCATCCTTAGATAGTCAGACTTCCTCATCACGTAGGAACTGTGTTATCTCAATTTA-C
10636748 CCTAAAGA
128 CCTAAAGA
* **
10636756 TGGCTAGACGTCTTCATCAAGTTGGAACAATGTCATCCACCGACCAGATCTTTTCATCACGTATG
1 -GGCTAGACGTCTTCATCAAGTAGGAACAATGTC-TCCACCGACCAGATCTCATCATCACGTATG
10636821 AGCCGCGTCATCCTTAGATAGTCAGACTTCCTCATCACGTAGGAACTGTGTTATCTCCAAATTTA
64 AGCCGCGTCATCCTTAGATAGTCAGACTTCCTCATCACGTAGGAACTGTGTTATCT-C-AATTTA
10636886 -CCTAAA
127 CCCTAAA
10636892 CACGACCAAA
Statistics
Matches: 226, Mismatches: 39, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
136 2 0.01
137 111 0.49
138 106 0.47
139 1 0.00
140 6 0.03
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (135 bp):
GGCTAGACGTCTTCATCAAGTAGGAACAATGTCTCCACCGACCAGATCTCATCATCACGTATGAG
CCGCGTCATCCTTAGATAGTCAGACTTCCTCATCACGTAGGAACTGTGTTATCTCAATTTACCCT
AAAGA
Found at i:10637196 original size:3 final size:3
Alignment explanation
Indices: 10637188--10637305 Score: 155
Period size: 3 Copynumber: 39.3 Consensus size: 3
10637178 GGTTATACTT
* * *
10637188 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTT TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
10637236 TTA TTA TTA TTA TTA TCA TTT TTA TCA TTA TTA TTA TTA TTA TCA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
10637284 TTA TCA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
10637306 ACTTTACATA
Statistics
Matches: 97, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 97 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:10637233 original size:27 final size:27
Alignment explanation
Indices: 10637188--10637305 Score: 209
Period size: 27 Copynumber: 4.4 Consensus size: 27
10637178 GGTTATACTT
* * *
10637188 TTATTATTATTATTATTATTATTATTA
1 TTATTATTATCATTTTTATCATTATTA
10637215 TTATTATTATCATTTTTATCATTATTA
1 TTATTATTATCATTTTTATCATTATTA
10637242 TTATTATTATCATTTTTATCATTATTA
1 TTATTATTATCATTTTTATCATTATTA
10637269 TTATTATTATCATTTTTATCATTATTA
1 TTATTATTATCATTTTTATCATTATTA
10637296 TTATTATTAT
1 TTATTATTAT
10637306 ACTTTACATA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (27 bp):
TTATTATTATCATTTTTATCATTATTA
Found at i:10641504 original size:11 final size:11
Alignment explanation
Indices: 10641488--10641515 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
10641478 GCCCAGATTC
10641488 TTTGTGAGCTG
1 TTTGTGAGCTG
10641499 TTTGTGAGCTG
1 TTTGTGAGCTG
10641510 TTTGTG
1 TTTGTG
10641516 TCTCCCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.36, T:0.50
Consensus pattern (11 bp):
TTTGTGAGCTG
Found at i:10641539 original size:30 final size:30
Alignment explanation
Indices: 10641505--10641599 Score: 120
Period size: 30 Copynumber: 3.2 Consensus size: 30
10641495 GCTGTTTGTG
10641505 AGCTGTTTGTGTCTCCCAAATGCTCCACCA
1 AGCTGTTTGTGTCTCCCAAATGCTCCACCA
* * *
10641535 AGCTGTTTGTCT-TCCAAAATGCTCCACTA
1 AGCTGTTTGTGTCTCCCAAATGCTCCACCA
* * * *
10641564 AGCTGTATGTGTCTTCCAAATGCTTCATCA
1 AGCTGTTTGTGTCTCCCAAATGCTCCACCA
10641594 AGCTGT
1 AGCTGT
10641600 CCCAACGTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 25 0.46
30 29 0.54
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.34
Consensus pattern (30 bp):
AGCTGTTTGTGTCTCCCAAATGCTCCACCA
Done.