Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 72 of 410
Found at i:20184649 original size:9 final size:9
Alignment explanation
Indices: 20184630--20184675 Score: 83
Period size: 9 Copynumber: 5.0 Consensus size: 9
20184620 TTTAGTACCT
20184630 AGAACTTGAA
1 AGAA-TTGAA
20184640 AGAATTGAA
1 AGAATTGAA
20184649 AGAATTGAA
1 AGAATTGAA
20184658 AGAATTGAA
1 AGAATTGAA
20184667 AGAATTGAA
1 AGAATTGAA
20184676 CGGTCAGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 32 0.89
10 4 0.11
ACGTcount: A:0.54, C:0.02, G:0.22, T:0.22
Consensus pattern (9 bp):
AGAATTGAA
Found at i:20201185 original size:13 final size:13
Alignment explanation
Indices: 20201167--20201191 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20201157 TTTTACGCGG
20201167 CCGTGTAACACGA
1 CCGTGTAACACGA
20201180 CCGTGTAACACG
1 CCGTGTAACACG
20201192 TCCATGTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (13 bp):
CCGTGTAACACGA
Found at i:20207621 original size:3 final size:3
Alignment explanation
Indices: 20207603--20207635 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
20207593 AGATATTTAC
*
20207603 TTA TTA -TA TTA CTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
20207636 ATTTTATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:20207861 original size:30 final size:29
Alignment explanation
Indices: 20207774--20207880 Score: 92
Period size: 30 Copynumber: 3.6 Consensus size: 29
20207764 TAAGTAAATG
20207774 AAAGAAATA-AAATGAAAT-GAAATAAAGAA
1 AAAGAAA-AGAAA-GAAATAGAAATAAAGAA
* * * *
20207803 TAAATAAAAGAAAGAAAAAAAAAAAAAGAA
1 -AAAGAAAAGAAAGAAATAGAAATAAAGAA
* *
20207833 ACAGAGAAGAAACGAAATAGAAATAAAGAA
1 AAAGAAAAGAAA-GAAATAGAAATAAAGAA
20207863 AGAAGAAAAGAAAAGAAA
1 A-AAGAAAAG-AAAGAAA
20207881 AAGGAGAAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
29 14 0.23
30 33 0.55
31 10 0.17
32 3 0.05
ACGTcount: A:0.75, C:0.02, G:0.16, T:0.07
Consensus pattern (29 bp):
AAAGAAAAGAAAGAAATAGAAATAAAGAA
Found at i:20207889 original size:26 final size:26
Alignment explanation
Indices: 20207804--20207880 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 26
20207794 AATAAAGAAT
20207804 AAATAAAAGAAAGAA-AAAA-AAA-A-
1 AAAT-AAAGAAAGAAGAAAAGAAATAG
* * * *
20207827 AAAGAAACAGAGAAGAAACGAAATAG
1 AAATAAAGAAAGAAGAAAAGAAATAG
20207853 AAATAAAGAAAGAAGAAAAGAAA-AG
1 AAATAAAGAAAGAAGAAAAGAAATAG
20207878 AAA
1 AAA
20207881 AAGGAGAAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 8 0.19
23 6 0.14
24 3 0.07
25 6 0.14
26 19 0.45
ACGTcount: A:0.77, C:0.03, G:0.17, T:0.04
Consensus pattern (26 bp):
AAATAAAGAAAGAAGAAAAGAAATAG
Found at i:20208695 original size:14 final size:14
Alignment explanation
Indices: 20208676--20208713 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
20208666 TAACTCAAGC
20208676 ATTAAGAACACATA
1 ATTAAGAACACATA
20208690 ATTAAGAACACATA
1 ATTAAGAACACATA
*
20208704 ATTGAGAACA
1 ATTAAGAACA
20208714 AATCAAGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.55, C:0.13, G:0.11, T:0.21
Consensus pattern (14 bp):
ATTAAGAACACATA
Found at i:20211191 original size:6 final size:5
Alignment explanation
Indices: 20211162--20211252 Score: 55
Period size: 6 Copynumber: 17.2 Consensus size: 5
20211152 TATGTCTTTC
* *
20211162 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT CAAAAT CAAAAG AAATAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAAT AAA-AT
20211210 AAAAAT AAAAT AAAAT AAAAAT AAGAAT -AAAT AATAA- AAAAT A
1 -AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AA-AAT AAAAT A
20211253 GGAAGAGTCA
Statistics
Matches: 70, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
3 3 0.04
4 5 0.07
5 28 0.40
6 31 0.44
7 3 0.04
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:20211247 original size:7 final size:6
Alignment explanation
Indices: 20211182--20211249 Score: 59
Period size: 6 Copynumber: 11.5 Consensus size: 6
20211172 AATAAAATTG
* * * * *
20211182 AAATGA AAATCA AAATCA AAAGAA ATATAA AAAT-A AAAT-A AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
20211228 AAATAA GAATAA ATAATAA AAA
1 AAATAA AAATAA A-AATAA AAA
20211250 ATAGGAAGAG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
5 10 0.19
6 36 0.69
7 6 0.12
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:20227964 original size:29 final size:30
Alignment explanation
Indices: 20227922--20228051 Score: 153
Period size: 29 Copynumber: 4.5 Consensus size: 30
20227912 ATAGTGAATC
*
20227922 CGCACACTTAGTGCTATA-AATTTTCAGCT
1 CGCACACTTAGTGCTATACAATTTTCAACT
* *
20227951 CGCACACTTAGTGCTATA-TATTTTCAGCT
1 CGCACACTTAGTGCTATACAATTTTCAACT
*
20227980 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATACAATTTTC-AACT
* * *
20228008 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATACAATTTTCAACT
20228038 CGCACACTTAGTGC
1 CGCACACTTAGTGC
20228052 CAATCTTGTC
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
27 2 0.02
28 22 0.25
29 46 0.52
30 18 0.20
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATACAATTTTCAACT
Found at i:20235696 original size:29 final size:30
Alignment explanation
Indices: 20235654--20235783 Score: 153
Period size: 29 Copynumber: 4.5 Consensus size: 30
20235644 ATAGTGAATC
*
20235654 CGCACACTTAGTGCTATA-AATTTTCAGCT
1 CGCACACTTAGTGCTATACAATTTTCAACT
* *
20235683 CGCACACTTAGTGCTATA-TATTTTCAGCT
1 CGCACACTTAGTGCTATACAATTTTCAACT
*
20235712 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATACAATTTTC-AACT
* * *
20235740 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATACAATTTTCAACT
20235770 CGCACACTTAGTGC
1 CGCACACTTAGTGC
20235784 CAATCTTGTC
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
27 2 0.02
28 22 0.25
29 46 0.52
30 18 0.20
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATACAATTTTCAACT
Found at i:20252402 original size:49 final size:47
Alignment explanation
Indices: 20252285--20252601 Score: 433
Period size: 47 Copynumber: 6.7 Consensus size: 47
20252275 GATTTTACGC
* *
20252285 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
20252332 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
*
20252379 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
*
20252428 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCA-ATGT
*
20252477 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATAGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
* * * * *
20252524 GATGAATGTGAAGGTGTATATATGTGACAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* * *
20252571 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
20252602 TCCCGAAGGG
Statistics
Matches: 244, Mismatches: 18, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
46 4 0.02
47 143 0.59
48 10 0.04
49 85 0.35
50 2 0.01
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
Found at i:20252409 original size:96 final size:93
Alignment explanation
Indices: 20252285--20252601 Score: 424
Period size: 96 Copynumber: 3.3 Consensus size: 93
20252275 GATTTTACGC
20252285 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
20252350 TATATGTGATAAGGCTGAATGGCCAATGT
65 TATATGTGATAAGGCTGAATGGCCAATGT
20252379 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
*
20252444 TATATATATGTGATAAGGCCT-AATGG-CAGATGT
61 TGTATATATGTGATAAGG-CTGAATGGCCA-ATGT
* *
20252477 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATAGCCAATGTGATGAATGTGAAGGTGT
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAGGTGT
* * * * *
20252541 ATATATGTGACAGGGCCGAGTGGCCAACGT
64 ATATATGTGATAAGGCTGAATGGCCAATGT
* *
20252571 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTG-AAGTGTATATATGTGATAAG
20252602 TCCCGAAGGG
Statistics
Matches: 201, Mismatches: 12, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
93 1 0.00
94 59 0.29
95 11 0.05
96 84 0.42
97 7 0.03
98 37 0.18
99 2 0.01
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.29
Consensus pattern (93 bp):
GATGAATGTGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
ATATGTGATAAGGCTGAATGGCCAATGT
Found at i:20254587 original size:42 final size:41
Alignment explanation
Indices: 20254523--20254734 Score: 214
Period size: 40 Copynumber: 5.2 Consensus size: 41
20254513 CTCGACGATG
* * *
20254523 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT
* * * * *
20254565 ATCCGGGTTAAGTCCCGTAGAGCATTCGTGCTGGTGT-TAC
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
*
20254605 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATAT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
* *
20254645 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATGT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
* * ** * * *
20254685 ATCCGGACCAGGTTCCGAAGAGCAGTCATGCTGGTGATATGT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT
*
20254727 ATTCGGGC
1 ATCCGGGC
20254735 CTTCGTGCCT
Statistics
Matches: 147, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 103 0.70
41 1 0.01
42 43 0.29
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
Found at i:20254765 original size:43 final size:43
Alignment explanation
Indices: 20254717--20254936 Score: 379
Period size: 43 Copynumber: 5.1 Consensus size: 43
20254707 CAGTCATGCT
20254717 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
20254760 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
20254803 GGTGATATGTATTCGGG-CTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
20254845 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
* * **
20254888 GGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTAATGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
20254931 GGTGAT
1 GGTGAT
20254937 TCGAGCAAGG
Statistics
Matches: 170, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
42 41 0.24
43 129 0.76
ACGTcount: A:0.14, C:0.21, G:0.33, T:0.32
Consensus pattern (43 bp):
GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
Found at i:20254832 original size:85 final size:86
Alignment explanation
Indices: 20254717--20254936 Score: 379
Period size: 85 Copynumber: 2.6 Consensus size: 86
20254707 CAGTCATGCT
20254717 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTC
*
20254782 GTGCCTAGCAGGCTTTGTGCC
66 GAGCCTAGCAGGCTTTGTGCC
*
20254803 GGTGATATGTATTCGGG-CTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTC
20254867 GAGCCTAGCAGGCTTTGTGCC
66 GAGCCTAGCAGGCTTTGTGCC
* * **
20254888 GGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTAATGCCGGTGAT
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGAT
20254937 TCGAGCAAGG
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
85 83 0.65
86 44 0.35
ACGTcount: A:0.14, C:0.21, G:0.33, T:0.32
Consensus pattern (86 bp):
GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTC
GAGCCTAGCAGGCTTTGTGCC
Found at i:20258793 original size:49 final size:47
Alignment explanation
Indices: 20258676--20258992 Score: 433
Period size: 47 Copynumber: 6.7 Consensus size: 47
20258666 GATTTTACGC
* *
20258676 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
20258723 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
*
20258770 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
*
20258819 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCA-ATGT
*
20258868 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATAGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
* * * * *
20258915 GATGAATGTGAAGGTGTATATATGTGACAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* * *
20258962 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
20258993 TCCCGAAGGG
Statistics
Matches: 244, Mismatches: 18, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
46 4 0.02
47 143 0.59
48 10 0.04
49 85 0.35
50 2 0.01
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
Found at i:20258800 original size:96 final size:93
Alignment explanation
Indices: 20258676--20258992 Score: 424
Period size: 96 Copynumber: 3.3 Consensus size: 93
20258666 GATTTTACGC
20258676 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
20258741 TATATGTGATAAGGCTGAATGGCCAATGT
65 TATATGTGATAAGGCTGAATGGCCAATGT
20258770 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
*
20258835 TATATATATGTGATAAGGCCT-AATGG-CAGATGT
61 TGTATATATGTGATAAGG-CTGAATGGCCA-ATGT
* *
20258868 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATAGCCAATGTGATGAATGTGAAGGTGT
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAGGTGT
* * * * *
20258932 ATATATGTGACAGGGCCGAGTGGCCAACGT
64 ATATATGTGATAAGGCTGAATGGCCAATGT
* *
20258962 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTG-AAGTGTATATATGTGATAAG
20258993 TCCCGAAGGG
Statistics
Matches: 201, Mismatches: 12, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
93 1 0.00
94 59 0.29
95 11 0.05
96 84 0.42
97 7 0.03
98 37 0.18
99 2 0.01
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.29
Consensus pattern (93 bp):
GATGAATGTGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
ATATGTGATAAGGCTGAATGGCCAATGT
Found at i:20268379 original size:21 final size:21
Alignment explanation
Indices: 20268350--20268405 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
20268340 TTGTGATTAT
20268350 TTATCATATTACT-TATATTTCA
1 TTAT-ATATTA-TATATATTTCA
* *
20268372 TTGTATATTATATATATTTTA
1 TTATATATTATATATATTTCA
20268393 TTATATATTATAT
1 TTATATATTATAT
20268406 TTTATTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 26 0.87
22 3 0.10
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (21 bp):
TTATATATTATATATATTTCA
Found at i:20268396 original size:14 final size:14
Alignment explanation
Indices: 20268377--20268482 Score: 63
Period size: 15 Copynumber: 6.9 Consensus size: 14
20268367 TTTCATTGTA
20268377 TATTATATATATTT
1 TATTATATATATTT
20268391 TATTATATATTATATTT
1 TA-T-TATA-TATATTT
20268408 TATTATATAT-TGTT
1 TATTATATATAT-TT
* *
20268422 CTCTATATTATCTTCATTT
1 -TAT-TA-TAT-AT-ATTT
20268441 TATTATATATTATTT
1 TATTATATA-TATTT
*
20268456 TATTATTTAT-TATT
1 TATTATATATAT-TT
20268470 TATTAGTATATAT
1 TATTA-TATATAT
20268483 ATAATCAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 26
0.69 0.06 0.25
Matches are distributed among these distances:
13 2 0.03
14 15 0.21
15 23 0.32
16 12 0.17
17 14 0.19
18 3 0.04
19 2 0.03
20 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (14 bp):
TATTATATATATTT
Found at i:20268397 original size:12 final size:12
Alignment explanation
Indices: 20268375--20268484 Score: 56
Period size: 12 Copynumber: 9.4 Consensus size: 12
20268365 TATTTCATTG
20268375 TATATTATA-TA
1 TATATTATATTA
20268386 TAT-TT-TATTA
1 TATATTATATTA
*
20268396 TATATTATATTT
1 TATATTATATTA
*
20268408 TAT-TATATATTG
1 TATAT-TATATTA
*
20268420 T-TCTCTATATTA
1 TATAT-TATATTA
* *
20268432 TCTTCATTTTATTA
1 T-AT-ATTATATTA
*
20268446 TATATTATTTTA
1 TATATTATATTA
20268458 T-TATT-TATTA
1 TATATTATATTA
*
20268468 TTTATTAGTA-TA
1 TATATTA-TATTA
20268480 TATAT
1 TATAT
20268485 AATCAAAATT
Statistics
Matches: 77, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
9 2 0.03
10 12 0.16
11 15 0.19
12 36 0.47
13 3 0.04
14 8 0.10
15 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (12 bp):
TATATTATATTA
Found at i:20268400 original size:33 final size:31
Alignment explanation
Indices: 20268363--20268482 Score: 106
Period size: 33 Copynumber: 3.8 Consensus size: 31
20268353 TCATATTACT
20268363 TATATTTCATTGTATATTATATATATTTTATTA
1 TATATTTCATT-T-TATTATATATATTTTATTA
* *
20268396 TATATTAT-ATTTTATTATATAT-TGTTCTCTA
1 TATATT-TCATTTTATTATATATATTTTAT-TA
20268427 TATTATCTTCATTTTATTATATATTATTTTATTA
1 TA-TAT-TTCATTTTATTATATA-TATTTTATTA
*
20268461 TTTA-TT-A-TTTATTAGTATATAT
1 TATATTTCATTTTATTA-TATATAT
20268483 ATAATCAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
29 10 0.14
30 9 0.12
31 16 0.22
32 5 0.07
33 25 0.34
34 5 0.07
35 4 0.05
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (31 bp):
TATATTTCATTTTATTATATATATTTTATTA
Found at i:20274304 original size:40 final size:40
Alignment explanation
Indices: 20274177--20274306 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
20274167 ATGCTGGAAA
* *
20274177 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
20274217 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
20274257 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
20274297 TTATATCCGG
1 TTATATCCGG
20274307 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:20282360 original size:40 final size:40
Alignment explanation
Indices: 20282233--20282362 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
20282223 ATGCTGGAAA
* *
20282233 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
20282273 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
20282313 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
20282353 TTATATCCGG
1 TTATATCCGG
20282363 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:20291806 original size:40 final size:40
Alignment explanation
Indices: 20291679--20291808 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
20291669 ATGCTGGAAA
* *
20291679 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
20291719 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
20291759 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
20291799 TTATATCCGG
1 TTATATCCGG
20291809 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:20295616 original size:66 final size:68
Alignment explanation
Indices: 20295540--20295726 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
20295530 TAGTACCACT
*
20295540 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
20295602 CACG
65 CACG
20295606 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
20295671 ATCACG
63 ATCACG
20295677 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
20295727 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:20295651 original size:71 final size:71
Alignment explanation
Indices: 20295563--20295726 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
20295553 CGATTTGTCT
20295563 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
20295628 CTTTCA
66 CTTTCA
20295634 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
20295699 CTTTCA
66 CTTTCA
20295705 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
20295727 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:20295764 original size:71 final size:70
Alignment explanation
Indices: 20295563--20295760 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
20295553 CGATTTGTCT
* * *
20295563 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
20295628 CTTTCA
65 CTTTCA
* * *
20295634 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
20295699 CTTTCA
65 CTTTCA
* *
20295705 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
20295761 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:20298425 original size:44 final size:44
Alignment explanation
Indices: 20298348--20298800 Score: 440
Period size: 44 Copynumber: 10.2 Consensus size: 44
20298338 TATAGATTAG
* * *
20298348 AGATAGTATATTTGGCGCCTCTGTATTGACAGAGAGCAGATCGA
1 AGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGA
* * *
20298392 ATAT-GACAGATTTGGAGTCTCTGTATTGTCAGAGAGCAGATCGA
1 AGATAG-CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGA
* * * *
20298436 AGATAGCATATTTGGCGTCTCTATATTAACAGAGAGCAGATCAA
1 AGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGA
* * * * *
20298480 AGATAGCAGATTTGGCGTCTCTGTATCGACGGGGAACAGAT-AA
1 AGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGA
* * *
20298523 AAATAGCAGATTTGGTGTCTCTGTATTGACAGAGAGCAGATTGA
1 AGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGA
20298567 AGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGA
1 AGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGA
* *
20298611 AGAT-GACAGATTTAAG-GTCTCTGTGTTGACAGAGAGCAGATCGA
1 AGATAG-CAGATTT-GGCGTCTCTGTATTGACAGAGAGCAGATCGA
* * *
20298655 AGAT-GATAGATTTGGCGTCTCTGTATTAGCCAGGGAGCAGATCGA
1 AGATAG-CAGATTTGGCGTCTCTGTATT-GACAGAGAGCAGATCGA
* * * *
20298700 AGATAGCAGATCTGACAT-TC-GTATGTTCG-CATCGA-AGTAGATCGA
1 AGATAGCAGATTTGGCGTCTCTGTA--TT-GACA--GAGAGCAGATCGA
* * * *
20298745 AAAT-GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGA
1 AGATAG-CAGATTTGGCGTCTCTGTATT-GACAGAGAGCAGATCGA
*
20298790 AGATAGTAGAT
1 AGATAGCAGAT
20298801 CTGACATTTG
Statistics
Matches: 338, Mismatches: 53, Indels: 35
0.79 0.12 0.08
Matches are distributed among these distances:
43 43 0.13
44 213 0.63
45 73 0.22
46 6 0.02
47 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (44 bp):
AGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGA
Found at i:20298583 original size:131 final size:132
Alignment explanation
Indices: 20298366--20298710 Score: 419
Period size: 131 Copynumber: 2.6 Consensus size: 132
20298356 TATTTGGCGC
* * * * *
20298366 CTCTGTATTGACAGAGAGCAGATCGAATATGACAGATTTGGAGTCTCTGTATTGTCAGAGAGCAG
1 CTCTGTATCGACAGAGAACAGATCAAAAATGACAGATTTGGAGTCTCTGTATTGACAGAGAGCAG
* *
20298431 ATCGAAGATAGCATATTTGGCGTCTCTATATTAACAGAGAGCAGATCAAAGAT-AGCAGATTT-G
66 ATCGAAGATAGCAGATTTGGCGTCTCTATATTAACAGAGAGCAGATCAAAGATGA-CAGATTTAA
20298494 GCGT
130 G-GT
* * *
20298498 CTCTGTATCGACGGGGAACAGAT-AAAAAT-AGCAGATTTGGTGTCTCTGTATTGACAGAGAGCA
1 CTCTGTATCGACAGAGAACAGATCAAAAATGA-CAGATTTGGAGTCTCTGTATTGACAGAGAGCA
* * * *
20298561 GATTGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGACAGATTTAA
65 GATCGAAGATAGCAGATTTGGCGTCTCTATATTAACAGAGAGCAGATCAAAGATGACAGATTTAA
20298626 GGT
130 GGT
* * * * * * * * *
20298629 CTCTGTGTTGACAGAGAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGCCAGGGAGCA
1 CTCTGTATCGACAGAGAACAGATCAAAAATGACAGATTTGGAGTCTCTGTATT-GACAGAGAGCA
20298694 GATCGAAGATAGCAGAT
65 GATCGAAGATAGCAGAT
20298711 CTGACATTCG
Statistics
Matches: 181, Mismatches: 26, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
130 1 0.01
131 110 0.61
132 44 0.24
133 26 0.14
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (132 bp):
CTCTGTATCGACAGAGAACAGATCAAAAATGACAGATTTGGAGTCTCTGTATTGACAGAGAGCAG
ATCGAAGATAGCAGATTTGGCGTCTCTATATTAACAGAGAGCAGATCAAAGATGACAGATTTAAG
GT
Found at i:20298668 original size:175 final size:175
Alignment explanation
Indices: 20298357--20298680 Score: 467
Period size: 175 Copynumber: 1.9 Consensus size: 175
20298347 GAGATAGTAT
* *
20298357 ATTTGGCGCCTCTGTATTGACAGAGAGCAGATCGAATATGACAGATTTGGAGTCTCTGTATTGTC
1 ATTTGGCGCCTCTGTATTGACAGAGAGCAGATCGAAGATGACAGATTTGGAGTCTCTGTATTGAC
* *
20298422 AGAGAGCAGATCGAAGATAGCATATTTGGCGTCTCTATATTAACAGAGAGCAGATCAAAGATAGC
66 AGAGAGCAGATCGAAGATAGCAGATTTAGCGTCTCTATATTAACAGAGAGCAGATCAAAGATAGC
20298487 AGATTTGGCGTCTCTGTATCGACGGGGAACAGATAAAAATAGCAG
131 AGATTTGGCGTCTCTGTATCGACGGGGAACAGATAAAAATAGCAG
* * * *
20298532 ATTTGGTGTCTCTGTATTGACAGAGAGCAGATTGAAGAT-AGCAGATTTGGCGTCTCTGTATTGA
1 ATTTGGCGCCTCTGTATTGACAGAGAGCAGATCGAAGATGA-CAGATTTGGAGTCTCTGTATTGA
* * * *
20298596 CAGAGAGCAGATCGAAGAT-GACAGATTTAAG-GTCTCTGTGTTGACAGAGAGCAGATCGAAGAT
65 CAGAGAGCAGATCGAAGATAG-CAGATTT-AGCGTCTCTATATTAACAGAGAGCAGATCAAAGAT
*
20298659 -GATAGATTTGGCGTCTCTGTAT
128 AG-CAGATTTGGCGTCTCTGTAT
20298681 TAGCCAGGGA
Statistics
Matches: 132, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
174 3 0.02
175 128 0.97
176 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (175 bp):
ATTTGGCGCCTCTGTATTGACAGAGAGCAGATCGAAGATGACAGATTTGGAGTCTCTGTATTGAC
AGAGAGCAGATCGAAGATAGCAGATTTAGCGTCTCTATATTAACAGAGAGCAGATCAAAGATAGC
AGATTTGGCGTCTCTGTATCGACGGGGAACAGATAAAAATAGCAG
Found at i:20298766 original size:90 final size:90
Alignment explanation
Indices: 20298382--20298883 Score: 347
Period size: 90 Copynumber: 5.7 Consensus size: 90
20298372 ATTGACAGAG
* * * *
20298382 AGCAGATCGAATATGACAGATTTGG-AGTCTCTGTATT-GTCAGAGAGCAGATCGAAGATAGCAT
1 AGCAGATCGAAGATGACAGATTTGGCA-TCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAG
* * * * *
20298445 ATTTGGCGTCTC-TATATTAACA--GA
65 ATCTGACAT-TCGTATGTTCACATCGA
* * * * * * *
20298469 GAGCAGATCAAAGAT-AGCAGATTTGGCGTCTCTGTA-TCGACGGGGAACAGAT-AAAAATAGCA
1 -AGCAGATCGAAGATGA-CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCA
* *** *
20298531 GATTTGGTGTCTCTGTA--TTGACA--GA
64 GATCTGACAT-TC-GTATGTTCACATCGA
* * *
20298556 GAGCAGATTGAAGAT-AGCAGATTTGGCGTCTCTGTATT-GACAGAGAGCAGATCGAAGAT-GAC
1 -AGCAGATCGAAGATGA-CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAG-C
* * ** * *
20298618 AGATTTAAGGTCTC-TGTGTTGACA--GA
63 AGATCTGACAT-TCGTATGTTCACATCGA
* * *
20298644 GAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGCCAGGGAGCAGATCGAAGATAGCAG
1 -AGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAG
*
20298709 ATCTGACATTCGTATGTTCGCATCGA
65 ATCTGACATTCGTATGTTCACATCGA
* * * *
20298735 AGTAGATCGAAAATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGA
1 AGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGA
* * *
20298800 TCTGACATTTGTATGTTTATATCGA
66 TCTGACATTCGTATGTTCACATCGA
* * * * * * *
20298825 AGCAGATTGAAGATGACAGATTTGGCCTCTCTGTTTTAGGCAAGGAGTAGATCAAAGAT
1 AGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGAT
20298884 TTCAGCATGG
Statistics
Matches: 343, Mismatches: 55, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
86 1 0.00
87 74 0.22
88 100 0.29
89 37 0.11
90 129 0.38
91 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (90 bp):
AGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGA
TCTGACATTCGTATGTTCACATCGA
Found at i:20300568 original size:17 final size:16
Alignment explanation
Indices: 20300548--20300655 Score: 96
Period size: 17 Copynumber: 6.6 Consensus size: 16
20300538 TTCATTGTAC
20300548 ATTATATATATATTTTT
1 ATTATATAT-TATTTTT
20300565 ATTATATATTATATTTT
1 ATTATATATTAT-TTTT
*
20300582 ATTATATATTGTTCTCTAT
1 ATTATATATTATT-T-T-T
* *
20300601 ATTATCT-TCA-TTTT
1 ATTATATATTATTTTT
20300615 ATTATATATTA-TTTT
1 ATTATATATTATTTTT
*
20300630 ATTATTTATTATTTATT
1 ATTATATATTATTT-TT
*
20300647 AGTATATAT
1 ATTATATAT
20300656 ATAATTAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
14 7 0.09
15 17 0.23
16 7 0.09
17 35 0.47
18 2 0.03
19 7 0.09
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTATATATTATTTTT
Found at i:20300572 original size:13 final size:14
Alignment explanation
Indices: 20300549--20300591 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
20300539 TCATTGTACA
20300549 TTATATATATATTT
1 TTATATATATATTT
20300563 TTATTATATATTATATT
1 TTA-TATATA-TAT-TT
20300580 TTAT-TATATATT
1 TTATATATATATT
20300592 GTTCTCTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.04
14 6 0.23
15 10 0.38
16 4 0.15
17 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATATATATATTT
Found at i:20305391 original size:15 final size:16
Alignment explanation
Indices: 20305371--20305400 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20305361 GATGATATTA
20305371 AAATGAT-AAATAAAT
1 AAATGATAAAATAAAT
20305386 AAATGATAAAATAAA
1 AAATGATAAAATAAA
20305401 AATGCTATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (16 bp):
AAATGATAAAATAAAT
Found at i:20305402 original size:29 final size:30
Alignment explanation
Indices: 20305347--20305404 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
20305337 TAGTAGTAGG
* * *
20305347 TAAAAAAATGAAATGATGATATTAAAATGA
1 TAAAAAAATGAAATGATAAAATAAAAATGA
*
20305377 TAAATAAAT-AAATGATAAAATAAAAATG
1 TAAAAAAATGAAATGATAAAATAAAAATG
20305405 CTATGCTAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (30 bp):
TAAAAAAATGAAATGATAAAATAAAAATGA
Found at i:20307592 original size:46 final size:47
Alignment explanation
Indices: 20307441--20307659 Score: 223
Period size: 46 Copynumber: 4.6 Consensus size: 47
20307431 TTTGTGTGTT
* **
20307441 AGTGTAAGACATGTCTGGGACATGCATTGGCCATATA-ATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAGATGTAGAGCC
* * * * * * * *
20307487 AGTGTAAGACCAAGTCTGGGACATGGCATTGGCATTGAGACG-AAAACT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGAGCC
20307535 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGCC
*
20307581 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGTGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGT-AGAGCC
*
20307629 AGTGTAAGACCATGTTTGGGACATGACATCG
1 AGTGTAAGA-CATGTCTGGGACATG-CATCG
20307660 ACTTGATGGA
Statistics
Matches: 147, Mismatches: 17, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
45 2 0.01
46 62 0.42
47 30 0.20
48 34 0.23
49 14 0.10
50 5 0.03
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGCC
Found at i:20307631 original size:94 final size:94
Alignment explanation
Indices: 20307440--20307707 Score: 255
Period size: 94 Copynumber: 2.8 Consensus size: 94
20307430 ATTTGTGTGT
* *
20307440 TAGTGTAAGACATGTCTGGGACATGCATTGGCCATATAATGAGAGCCAGTGTAAGACCAAGTCTG
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCATAGAATGAGAGCCAGTGTAAGACCAAGTCTG
* *
20307505 GGACATGGCATTGGCATTGAGACGAAAAC
66 GGACATGGCATCGGCATCGAGACGAAAAC
* *
20307534 TAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAGATGTA-AGCCAGTGTAAGA-CATGTC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCATAGA-ATG-AGAGCCAGTGTAAGACCAAGTC
* * *
20307596 TGGGACAT-GCATCGGC-TACGAGATGTGAGAGC
64 TGGGACATGGCATCGGCAT-CGAGA--CGAAAAC
* * * * *
20307628 TAGTGTAAGACCATGTTTGGGACATGACATC-GAC-TTG-ATGGATGAGCCAGTGTAGGACCATG
1 TAGTGTAAGA-CATGTCTGGGACATG-CATCGGCCATAGAAT-GA-GAGCCAGTGTAAGACCAAG
* *
20307690 TTTGGGATATGGCATCGG
62 TCTGGGACATGGCATCGG
20307708 TATTATACCT
Statistics
Matches: 147, Mismatches: 15, Indels: 21
0.80 0.08 0.11
Matches are distributed among these distances:
91 1 0.01
92 11 0.07
93 18 0.12
94 63 0.43
95 31 0.21
96 16 0.11
97 7 0.05
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (94 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCCATAGAATGAGAGCCAGTGTAAGACCAAGTCTG
GGACATGGCATCGGCATCGAGACGAAAAC
Found at i:20307690 original size:47 final size:47
Alignment explanation
Indices: 20307441--20307706 Score: 167
Period size: 47 Copynumber: 5.6 Consensus size: 47
20307431 TTTGTGTGTT
* * * *
20307441 AGTGTAAGA-CATGTCTGGGACATGCATTGGC-C-ATATAATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGCA-TCGCACGAGAT-GTGAGAGCC
* * * * * * * *
20307487 AGTGTAAGACCAAGTCTGGGACATGGCATTGGCATTGAGA--CGAAAACT
1 AGTGTAAGACCATGTTTGGGACAT-GCA-TCGCA-CGAGATGTGAGAGCC
* *
20307535 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGATGT-A-AGCC
1 AGTGTAAGACCATGTTTGGGACATGCATC-G-CACGAGATGTGAGAGCC
* *
20307581 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATGTGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGCATC-GC-ACGAGATGTGAGAGCC
**
20307629 AGTGTAAGACCATGTTTGGGACATGACATCG-ACTTGATG-GATGAGCC
1 AGTGTAAGACCATGTTTGGGACATG-CATCGCACGAGATGTGA-GAGCC
* *
20307676 AGTGTAGGACCATGTTTGGGATATGGCATCG
1 AGTGTAAGACCATGTTTGGGACAT-GCATCG
20307707 GTATTATACC
Statistics
Matches: 182, Mismatches: 22, Indels: 31
0.77 0.09 0.13
Matches are distributed among these distances:
45 2 0.01
46 59 0.32
47 66 0.36
48 34 0.19
49 15 0.08
50 4 0.02
51 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTTTGGGACATGCATCGCACGAGATGTGAGAGCC
Found at i:20309463 original size:46 final size:45
Alignment explanation
Indices: 20309332--20309497 Score: 144
Period size: 46 Copynumber: 3.6 Consensus size: 45
20309322 GTCAGGTGCT
*
20309332 GATGCAATGTCCCAGACATGGTCTTACACTGGCA-CATCTCGTAGCC
1 GATGC-ATGTCCCAGACATGGTCTTACACTGGCATCGTCTCG-AGCC
* *
20309378 GATGCATCTCCTAGACAT-GTC-TACCACTGGCTTAT-GTCTCGAGGCC
1 GATGCATGTCCCAGACATGGTCTTA-CACTGGC--ATCGTCTCGA-GCC
* * * *
20309424 AATGCATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCAATGCT
1 GATGCATGTCCCAGACATGGTCTTACACTGGCA-TCGTCTCGA-GCC
*
20309470 GATGCCATGTCCCAGACGTGGTCTTACA
1 GATG-CATGTCCCAGACATGGTCTTACA
20309498 TTTACTCTCA
Statistics
Matches: 98, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
43 2 0.02
44 11 0.11
45 13 0.13
46 49 0.50
47 15 0.15
48 8 0.08
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCATCGTCTCGAGCC
Found at i:20313425 original size:2 final size:2
Alignment explanation
Indices: 20313418--20313451 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
20313408 AGTATAGTTG
* *
20313418 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20313452 TCGGCCATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:20314127 original size:29 final size:29
Alignment explanation
Indices: 20314092--20314165 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
20314082 GTTGTGAGAT
* *
20314092 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
20314121 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
20314150 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
20314166 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:20322249 original size:29 final size:29
Alignment explanation
Indices: 20322214--20322287 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
20322204 GTTGTGAGAT
* *
20322214 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
20322243 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
20322272 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
20322288 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:20328519 original size:46 final size:44
Alignment explanation
Indices: 20328425--20328539 Score: 160
Period size: 46 Copynumber: 2.5 Consensus size: 44
20328415 GTGCCTATGC
*
20328425 CATGTCCCAGACATGGTCTTACACTGGTACATCTCGTAGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGTACATCTCGTAGCCGATG
* *
20328470 CATGTTCCAGACATGTCTTACACTGGCTTACGTCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGG--TACATCTCGTA-GCCGATG
20328516 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
20328540 ATCATTCGTC
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
44 12 0.19
45 14 0.22
46 37 0.59
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGGTACATCTCGTAGCCGATG
Found at i:20328550 original size:46 final size:45
Alignment explanation
Indices: 20328425--20328633 Score: 147
Period size: 46 Copynumber: 4.5 Consensus size: 45
20328415 GTGCCTATGC
** * *
20328425 CATGTCCCAGACATGGTCTTACACT-GGTACATCTCGTA-GCTGATG
1 CATGTCCCAGACAT-GTCTTACACTATCTTCATCTCG-AGGCCGATG
* ** *
20328470 CATGTTCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTATCTT-CATCTCGAGGCCGATG
* * ** *
20328516 CATGTCCCAGACATGTCTTACACTATCATTCGTCTCAATACCCATG
1 CATGTCCCAGACATGTCTTACACTATC-TTCATCTCGAGGCCGATG
* * * *
20328562 ACATGTCCTAGACATGGTCTTACACCGA-CTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACA-CTATCT-TCAT-CTCGAGGCCGATG
*
20328610 CATGTCCCAGACTTGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
20328634 GGCTCACAGA
Statistics
Matches: 131, Mismatches: 24, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
44 10 0.08
45 17 0.13
46 56 0.43
47 28 0.21
48 17 0.13
49 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTATCTTCATCTCGAGGCCGATG
Found at i:20331104 original size:29 final size:29
Alignment explanation
Indices: 20331042--20331144 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 29
20331032 GTGACAAGAT
* * *
20331042 TGGCACTGAGTGTGTGAGCTTGTAAT-GTA
1 TGGCACTAAGTGTGCGAGCTTG-AATCATA
* * *
20331071 CGGCACTAAGTGTGCGAGTTTGGA-CTATA
1 TGGCACTAAGTGTGCGAGCTTGAATC-ATA
* *
20331100 TGGCACTATGTGTGCGGGCTTGAATCATA
1 TGGCACTAAGTGTGCGAGCTTGAATCATA
*
20331129 TGGCACTAAATGTGCG
1 TGGCACTAAGTGTGCG
20331145 TGATTGAGTA
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
28 1 0.02
29 56 0.97
30 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAATCATA
Found at i:20357803 original size:75 final size:75
Alignment explanation
Indices: 20357684--20357854 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
20357674 CATGGCAAAG
** *
20357684 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
20357743 CCATACTGAGC
65 CCATACCGAGC
20357754 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
20357819 CATACCGAGT
66 CATACCGAGC
***
20357829 TAAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
20357855 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:20357822 original size:35 final size:35
Alignment explanation
Indices: 20357687--20357852 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
20357677 GGCAAAGTGT
* **
20357687 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
20357722 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
20357757 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
20357797 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
*
20357832 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
20357853 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
35 85 0.73
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:20365300 original size:75 final size:75
Alignment explanation
Indices: 20365181--20365351 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
20365171 CATGGCAAAG
** *
20365181 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
20365240 CCATACTGAGC
65 CCATACCGAGC
20365251 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
20365316 CATACCGAGT
66 CATACCGAGC
***
20365326 TAAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
20365352 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:20365319 original size:35 final size:35
Alignment explanation
Indices: 20365184--20365349 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
20365174 GGCAAAGTGT
* **
20365184 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
20365219 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
20365254 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
20365294 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
*
20365329 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
20365350 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
35 85 0.73
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:20372921 original size:21 final size:21
Alignment explanation
Indices: 20372893--20372933 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
20372883 CAAAACTTGT
20372893 ATAACTATCA-TCAAACATCC
1 ATAACTATCATTCAAACATCC
*
20372913 ATAATCTATCATTTAAACATC
1 ATAA-CTATCATTCAAACATC
20372934 AAAATACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
22 8 0.44
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAACTATCATTCAAACATCC
Found at i:20387534 original size:12 final size:12
Alignment explanation
Indices: 20387517--20387542 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20387507 AAAATATGGA
20387517 AATAAACAAAGT
1 AATAAACAAAGT
20387529 AATAAACAAAGT
1 AATAAACAAAGT
20387541 AA
1 AA
20387543 GCTTTATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (12 bp):
AATAAACAAAGT
Found at i:20392151 original size:7 final size:8
Alignment explanation
Indices: 20392126--20392165 Score: 64
Period size: 8 Copynumber: 5.0 Consensus size: 8
20392116 GAAATAATCG
20392126 AAAATAATA
1 AAAATAA-A
20392135 AAAATAAA
1 AAAATAAA
20392143 AAAATAAA
1 AAAATAAA
20392151 AAAAT-AA
1 AAAATAAA
20392158 AAAATAAA
1 AAAATAAA
20392166 TTTTCTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.23
8 16 0.53
9 7 0.23
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
AAAATAAA
Found at i:20400044 original size:29 final size:28
Alignment explanation
Indices: 20400001--20400057 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
20399991 TGTCTGAACT
20400001 ACTGATATCATGGCCCGAAGCCAAATCA
1 ACTGATATCATGGCCCGAAGCCAAATCA
* *
20400029 ACTGATATTCATGGCCCGAATCTAAATCA
1 ACTGATA-TCATGGCCCGAAGCCAAATCA
20400058 GTATAACTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (28 bp):
ACTGATATCATGGCCCGAAGCCAAATCA
Found at i:20404365 original size:105 final size:102
Alignment explanation
Indices: 20404165--20404378 Score: 259
Period size: 105 Copynumber: 2.0 Consensus size: 102
20404155 TTTCTTAACG
* * *
20404165 AAATTTTCACACAATCATATTATCATGCTGTAGACATTAAAATAATAATAAATTTGACCTCGTAT
1 AAATTTTCACACAAACATATTATCATGCTATAGACATTAAAATAATAATAAATTTAACCTCGTAT
*
20404230 TTTTGGTTTCAAAACCACTATTCTAATTTGATTAAAAACA
66 TTGTGGTTTCAAAACCAC--TTCT-ATTTGATTAAAAACA
*
20404270 AAATTTTCACACAAACATATTATCATGTTATAGACATTAAAATAATAAAATAAATAATTCAACCT
1 AAATTTTCACACAAACATATTATCATGCTATAGACATTAAAATAAT--AATAAAT--TT-AACCT
*
20404335 CGTATTTGTGG-TTCTAAAACCACTGTTTTGATTTGATTAAAAAC
61 CGTATTTGTGGTTTC-AAAACCAC--TTCT-ATTTGATTAAAAAC
20404379 GGGCTATTAC
Statistics
Matches: 95, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
105 43 0.45
107 7 0.07
109 5 0.05
110 40 0.42
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.36
Consensus pattern (102 bp):
AAATTTTCACACAAACATATTATCATGCTATAGACATTAAAATAATAATAAATTTAACCTCGTAT
TTGTGGTTTCAAAACCACTTCTATTTGATTAAAAACA
Found at i:20405423 original size:61 final size:61
Alignment explanation
Indices: 20405339--20405493 Score: 229
Period size: 61 Copynumber: 2.5 Consensus size: 61
20405329 TAGGCTTAGA
* *
20405339 GCAATAAGTGTGTTTTGATCATTACTTTAAAATAGTTCTAAAAATTACAAGGATTTATTCT
1 GCAATAAGTGTGTTTTGAACATTACTTTGAAATAGTTCTAAAAATTACAAGGATTTATTCT
* * * * * *
20405400 GCAATAAGTGGGTTGTGAACATTACTTTGAAATAGTTTTAAAAATTACAGGGATTTCTTTT
1 GCAATAAGTGTGTTTTGAACATTACTTTGAAATAGTTCTAAAAATTACAAGGATTTATTCT
*
20405461 GCAGTAAGTGTGTTTTGAACATTACTTTGAAAT
1 GCAATAAGTGTGTTTTGAACATTACTTTGAAAT
20405494 GTCTGATAGG
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 83 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (61 bp):
GCAATAAGTGTGTTTTGAACATTACTTTGAAATAGTTCTAAAAATTACAAGGATTTATTCT
Found at i:20406931 original size:27 final size:27
Alignment explanation
Indices: 20406883--20406935 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
20406873 TAGTAACAAT
*
20406883 TGGGCCTAGCCCATTAACAGAATCAAG
1 TGGGCCTAGCCCAATAACAGAATCAAG
*
20406910 TGGGCCTAAGCCCAAT-ATAGAATCAA
1 TGGGCCT-AGCCCAATAACAGAATCAA
20406936 TATCAGATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.19
Consensus pattern (27 bp):
TGGGCCTAGCCCAATAACAGAATCAAG
Found at i:20410425 original size:40 final size:40
Alignment explanation
Indices: 20410366--20410507 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
20410356 AAATTGAATG
* * *
20410366 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
20410406 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
20410446 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
20410486 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
20410508 GCATTTGTGC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 3 0.04
40 82 0.96
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:20410531 original size:40 final size:39
Alignment explanation
Indices: 20410404--20410533 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
20410394 ATGCTGGAAA
* * *
20410404 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
20410445 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
20410483 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
20410524 TTATATCCGG
1 TTATATCCGG
20410534 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:20418503 original size:40 final size:39
Alignment explanation
Indices: 20418401--20418551 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
20418391 AAATTGAATG
* * * * *
20418401 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-CATT
* **
20418441 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGC-ATT
*
20418481 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-CATT
* *
20418521 CTATCCGGGCTAAGACCC-AAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
20418552 ACATGCTTAT
Statistics
Matches: 93, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
39 12 0.13
40 80 0.86
41 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCATT
Found at i:20418565 original size:39 final size:39
Alignment explanation
Indices: 20418439--20418567 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 39
20418429 ATGCTGGAAA
* * *
20418439 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
20418480 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
20418518 ATTCTATCCGGGCTAAGACCC-AAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
20418558 TTATATCCGG
1 TTATATCCGG
20418568 TTATATTCCG
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 21 0.28
40 50 0.68
41 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:20430885 original size:43 final size:42
Alignment explanation
Indices: 20430803--20430916 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 42
20430793 GATGCTACTA
* * *
20430803 TCCCAGACAGGGTCTTACACGAATCATAATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAATCACAATACAATGCCAATG
* * *
20430845 TCCCAGACATGGTCTTACGCATAATCACACTACAATGCCAATG
1 TCCCAGACATGGTCTTACAC-GAATCACAATACAATGCCAATG
* * *
20430888 TCCCAAACATGCTCTTACATGTAATCACA
1 TCCCAGACATGGTCTTACACG-AATCACA
20430917 TCTCAATAAC
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 18 0.31
43 41 0.69
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAATCACAATACAATGCCAATG
Found at i:20432565 original size:13 final size:13
Alignment explanation
Indices: 20432547--20432573 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20432537 TTAATCACAG
20432547 TACTCTTCCCTTT
1 TACTCTTCCCTTT
20432560 TACTCTTCCCTTT
1 TACTCTTCCCTTT
20432573 T
1 T
20432574 TCAATCCCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.37, G:0.00, T:0.56
Consensus pattern (13 bp):
TACTCTTCCCTTT
Found at i:20436367 original size:42 final size:43
Alignment explanation
Indices: 20436266--20436369 Score: 113
Period size: 42 Copynumber: 2.4 Consensus size: 43
20436256 TCCGAGCTAA
* * * *
20436266 TTGAGCGGTCTGAGTTCGTGATATATGTAAGAATCTGAACTTG
1 TTGAGTGGTCCGAGTTCATGATATATGTAAGAATCTGAACTCG
* * *
20436309 TTGAGTGGTCCAAGTTCATGATATATG-AGGCATCT-AAGCTCG
1 TTGAGTGGTCCGAGTTCATGATATATGTAAGAATCTGAA-CTCG
*
20436351 TTGAGTGGTTCGAGTTCAT
1 TTGAGTGGTCCGAGTTCAT
20436370 AATGGATGCG
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.04
42 26 0.51
43 23 0.45
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (43 bp):
TTGAGTGGTCCGAGTTCATGATATATGTAAGAATCTGAACTCG
Found at i:20444199 original size:32 final size:32
Alignment explanation
Indices: 20444158--20444221 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
20444148 TCGTTCTAAT
20444158 ATGTGAAGGGTCATTTGTTGAGTAGAGACAAA
1 ATGTGAAGGGTCATTTGTTGAGTAGAGACAAA
20444190 ATGTGAAGGGTCATTTGTTGAGTAGAGACAAA
1 ATGTGAAGGGTCATTTGTTGAGTAGAGACAAA
20444222 CTCGACAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.31, T:0.28
Consensus pattern (32 bp):
ATGTGAAGGGTCATTTGTTGAGTAGAGACAAA
Found at i:20457972 original size:20 final size:18
Alignment explanation
Indices: 20457949--20457985 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
20457939 ACCTAACATG
20457949 AATTAAATCTAAATCATATT
1 AATTAAAT-TAAA-CATATT
20457969 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
20457986 CAACATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:20462687 original size:40 final size:40
Alignment explanation
Indices: 20462642--20462849 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
20462632 TGAATGATAC
* * * *
20462642 CCGGGCTAAGTCCCGAAGGCATTTATGCTA-ATGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
20462682 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
20462722 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *** *
20462762 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
20462802 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
20462842 CC-GGCTAA
1 CCGGGCTAA
20462850 ATTCCAAGAA
Statistics
Matches: 146, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 5 0.03
40 139 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:20470925 original size:40 final size:40
Alignment explanation
Indices: 20470738--20470918 Score: 229
Period size: 40 Copynumber: 4.5 Consensus size: 40
20470728 TGAATGATAC
* ** * *
20470738 CCGGGCTAAGTCCCGAAGGCATTTATGCTA-ATGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
20470778 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
*
20470818 CTGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
* * *** *
20470858 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
*
20470898 CCGGGTTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
20470919 ATTGTGCTTG
Statistics
Matches: 126, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 124 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
Found at i:20473003 original size:16 final size:15
Alignment explanation
Indices: 20472977--20473006 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
20472967 AACTATTTTA
20472977 TTACAAATTTCACTC
1 TTACAAATTTCACTC
20472992 TTACATAATTTCACT
1 TTACA-AATTTCACT
20473007 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:20473326 original size:50 final size:50
Alignment explanation
Indices: 20473220--20473444 Score: 184
Period size: 50 Copynumber: 4.5 Consensus size: 50
20473210 GTACGCATAG
* ** * * * *
20473220 CTGCACTTAGTACTACACATGCAACC-AACAATCTGGTACATGTAGTAGT
1 CTGCACTTAGTACTACACAAGTGACCTGACCATCTGGTACACGTAGTAGC
* * *
20473269 CTGCACTTAGTATTACACACGTGACCTGACCATCTGATACACGTAGTAGC
1 CTGCACTTAGTACTACACAAGTGACCTGACCATCTGGTACACGTAGTAGC
* * * * * * * * *
20473319 CTACACTTACTATTACACAAGTGATC-GAAACTATCAGCTACGCATAGTAGC
1 CTGCACTTAGTACTACACAAGTGACCTG--ACCATCTGGTACACGTAGTAGC
* * * ** *
20473370 TTGCACTTAGTACAACGCGTGTGACCTAACCATCTGGTACACGTAGTAGC
1 CTGCACTTAGTACTACACAAGTGACCTGACCATCTGGTACACGTAGTAGC
*
20473420 CTGCACTTAGTACTACACAGGTGAC
1 CTGCACTTAGTACTACACAAGTGAC
20473445 TTAAAACCAT
Statistics
Matches: 134, Mismatches: 38, Indels: 7
0.75 0.21 0.04
Matches are distributed among these distances:
49 23 0.17
50 77 0.57
51 34 0.25
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
CTGCACTTAGTACTACACAAGTGACCTGACCATCTGGTACACGTAGTAGC
Found at i:20475531 original size:340 final size:341
Alignment explanation
Indices: 20474909--20475595 Score: 1198
Period size: 340 Copynumber: 2.0 Consensus size: 341
20474899 CCATAAAAAT
* * * *
20474909 ATAATAAAAACAAATTTTAATGTGTCGAATTTGTGGTCCCGAAACCACTGTTCCGACTAGGTCAT
1 ATAATAAAAACAAATTTTAATGTGTCAAATTTGAGATCCCGAAACCACTGTTCCGACTAGGCCAT
* *
20474974 AATTCGGGATGTTACAACTCTCCCCCTTTTAGGGATTTTCGTCCTTGAAAATCTTACCAGAAGAG
66 AATTCGGGATGTTACAACTCTCCCCCCTTTAAGGATTTTCGTCCTTGAAAATCTTACCAGAAGAG
*
20475039 TGGTTCGATTTTCAAATAAACTCCACTATCTCATAATCATTGTTGAATAACTTTTACTCAGGCTA
131 TGGTTCGATTTTCAAATAAACTCCACTATCTCATAATCATTGCTGAATAACTTTTACTCAGGCTA
*
20475104 TGTTTAATACTTAGCTCTTTAATTTCTCATACTAAAGTCATGAACAATTCCGTGTTATACGACGC
196 TGTTTAATACTTAGCTCTTTAATTTCTCATACTAAAGACATGAACAATTCCGTGTTATACGACGC
* * * *
20475169 ATCAATTGAATCTTGACTTCTATTAGAGAACTCATGTATACAAGGGTCAAACCCATACCGTCGGA
261 ATCAATCGAATCTTGACTTCTATCAGAGAACTCATGTATACAAGGGTCAAACCCATACCATCAGA
20475234 GAATAAGTATTTACAC
326 GAATAAGTATTTACAC
* * *
20475250 ATAATAAAAACAAATTTTACTGTGTCAAATTTGAGATCCTGAAACCACTGTTCCGACTAGGCCCT
1 ATAATAAAAACAAATTTTAATGTGTCAAATTTGAGATCCCGAAACCACTGTTCCGACTAGGCCAT
20475315 AATTCGGGATGTTA-AACTCTCCCCCCTTTAAGGATTTTCGTCCTTGAAAATCTTACCAGAAGAG
66 AATTCGGGATGTTACAACTCTCCCCCCTTTAAGGATTTTCGTCCTTGAAAATCTTACCAGAAGAG
* *
20475379 TGGTTCGATTTTCACATAAACTCCACTATCTCATAATCATTGCTGAATAACTTTTACTCGGGCTA
131 TGGTTCGATTTTCAAATAAACTCCACTATCTCATAATCATTGCTGAATAACTTTTACTCAGGCTA
20475444 TGTTTAATACTTAGCTCTTTAATTTCTCATACTAAAGACATGAACAATTCCGTGTTATACGACGC
196 TGTTTAATACTTAGCTCTTTAATTTCTCATACTAAAGACATGAACAATTCCGTGTTATACGACGC
20475509 ATCAATCGAATCTT-AGCTTCTATCAGAGAACTCATGTATACAAGGGTCAAACCCATACCATCAG
261 ATCAATCGAATCTTGA-CTTCTATCAGAGAACTCATGTATACAAGGGTCAAACCCATACCATCAG
20475573 AGAATAAGTATTTACAC
325 AGAATAAGTATTTACAC
20475590 ATAATA
1 ATAATA
20475596 CTTGAATCCT
Statistics
Matches: 328, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
339 1 0.00
340 255 0.78
341 72 0.22
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (341 bp):
ATAATAAAAACAAATTTTAATGTGTCAAATTTGAGATCCCGAAACCACTGTTCCGACTAGGCCAT
AATTCGGGATGTTACAACTCTCCCCCCTTTAAGGATTTTCGTCCTTGAAAATCTTACCAGAAGAG
TGGTTCGATTTTCAAATAAACTCCACTATCTCATAATCATTGCTGAATAACTTTTACTCAGGCTA
TGTTTAATACTTAGCTCTTTAATTTCTCATACTAAAGACATGAACAATTCCGTGTTATACGACGC
ATCAATCGAATCTTGACTTCTATCAGAGAACTCATGTATACAAGGGTCAAACCCATACCATCAGA
GAATAAGTATTTACAC
Found at i:20476834 original size:15 final size:15
Alignment explanation
Indices: 20476800--20476859 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
20476790 TATAGATAAC
* * *
20476800 AAGAAAACCAGGATT
1 AAGAAATCCAAGATA
*
20476815 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
20476830 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
*
20476845 AAGAAATCCGAGATA
1 AAGAAATCCAAGATA
20476860 CAATATCATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.53, C:0.13, G:0.20, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:20476835 original size:30 final size:30
Alignment explanation
Indices: 20476801--20476859 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
20476791 ATAGATAACA
* * *
20476801 AGAAAACCAGGATTAAGAAGTCCAAGATAG
1 AGAAAACCAAGATAAAGAAATCCAAGATAG
* *
20476831 AGAAATCCAAGATAAAGAAATCCGAGATA
1 AGAAAACCAAGATAAAGAAATCCAAGATA
20476860 CAATATCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.53, C:0.14, G:0.20, T:0.14
Consensus pattern (30 bp):
AGAAAACCAAGATAAAGAAATCCAAGATAG
Found at i:20477008 original size:2 final size:2
Alignment explanation
Indices: 20477001--20477038 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
20476991 ATACCTTCCC
20477001 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20477039 CGAACAGAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20483841 original size:50 final size:50
Alignment explanation
Indices: 20483724--20484001 Score: 247
Period size: 50 Copynumber: 5.5 Consensus size: 50
20483714 CTGGTATGCA
* * * * *
20483724 TAGTAGCCTACACTTAGTACTACACATGCGACC-AACAATC-CAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGA-TACACG
* * *
20483773 TAGTAGACTGCACCTAGTACTACACGCGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * ** * * ** *
20483823 TAATAGCCTACACTTAGTACTACACACGTGA-TTGAAAATATCAGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACG
* * *
20483874 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * * *
20483924 TAGTAGCCTGCACTTAGTACTACACAGGTGACCTAAAACCATTTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACG
*
20483976 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
20484002 TGTGTTCTCA
Statistics
Matches: 182, Mismatches: 40, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
49 28 0.15
50 80 0.44
51 37 0.20
52 37 0.20
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:20483907 original size:101 final size:101
Alignment explanation
Indices: 20483773--20483954 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 101
20483763 CCAGTACACG
* *
20483773 TAGTAGACTGCACCTAGTACTACACGCGTGACCTAACCATCTGATACACGTAATAGCCTACACTT
1 TAGTAGACTGCACCTAGTACTACACACGCGACCTAACCATCTGATACACGTAATAGCCTACACTT
20483838 AGTACTACACACGTGATTGAAAATATCAGGTATGCA
66 AGTACTACACACGTGATTGAAAATATCAGGTATGCA
* * * * * *
20483874 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGACTGCACCTAGTACTACACACGCGACCTAACCATCTGATACACGTAATAGCCTACACTT
*
20483939 AGTACTACACAGGTGA
66 AGTACTACACACGTGA
20483955 CCTAAAACCA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
TAGTAGACTGCACCTAGTACTACACACGCGACCTAACCATCTGATACACGTAATAGCCTACACTT
AGTACTACACACGTGATTGAAAATATCAGGTATGCA
Found at i:20489869 original size:28 final size:28
Alignment explanation
Indices: 20489829--20489885 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
20489819 GTTGGCACCC
20489829 TCCTTTTTTCCCAACTGTATTATACTGG
1 TCCTTTTTTCCCAACTGTATTATACTGG
20489857 TCCTTTTTTCCCAACTGTATTATACTGG
1 TCCTTTTTTCCCAACTGTATTATACTGG
20489885 T
1 T
20489886 ATACTTTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.18, C:0.25, G:0.11, T:0.47
Consensus pattern (28 bp):
TCCTTTTTTCCCAACTGTATTATACTGG
Found at i:20490773 original size:23 final size:21
Alignment explanation
Indices: 20490720--20490771 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
20490710 TTTGTTGGTC
*
20490720 AAATTTTATACTTTTGTATAT
1 AAATTTTATACTTTGGTATAT
20490741 AAATTTTATACTTTGGTATAT
1 AAATTTTATACTTTGGTATAT
20490762 AAATTTTATA
1 AAATTTTATA
20490772 TATTTTCGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (21 bp):
AAATTTTATACTTTGGTATAT
Found at i:20490826 original size:17 final size:16
Alignment explanation
Indices: 20490804--20490857 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 16
20490794 AAAATGTACA
*
20490804 TATTTTCTTATATTAT
1 TATTTTTTTATATTAT
*
20490820 TATTTTTGTA-A-TAT
1 TATTTTTTTATATTAT
*
20490834 TATTTGTTTATATTAT
1 TATTTTTTTATATTAT
20490850 ATATTTTT
1 -TATTTTT
20490858 GACTCAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
14 11 0.37
15 2 0.07
16 11 0.37
17 6 0.20
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.69
Consensus pattern (16 bp):
TATTTTTTTATATTAT
Found at i:20492159 original size:10 final size:10
Alignment explanation
Indices: 20492144--20492190 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
20492134 CTAGGATGTG
20492144 AATTGAATTA
1 AATTGAATTA
20492154 AATTGAATTA
1 AATTGAATTA
20492164 AATTGAATATGA
1 AATTGAAT-T-A
*
20492176 AA-TGGATTA
1 AATTGAATTA
20492185 AATTGA
1 AATTGA
20492191 CATCAAATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 3 0.09
10 21 0.66
11 5 0.16
12 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (10 bp):
AATTGAATTA
Found at i:20496146 original size:40 final size:39
Alignment explanation
Indices: 20496102--20496216 Score: 158
Period size: 40 Copynumber: 2.9 Consensus size: 39
20496092 ATAAGCATGT
* *
20496102 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATG-CTC
** *
20496142 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCCGCTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATA-ATGCTC
*
20496182 GCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAAT
20496217 TTCCAGCATA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 65 0.98
41 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAATGCTC
Found at i:20496230 original size:40 final size:40
Alignment explanation
Indices: 20496102--20496253 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 40
20496092 ATAAGCATGT
* * * *
20496102 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCAC-CA
* ** * *
20496142 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCCGCTA
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCACCA
**
20496182 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCACCA
* * * *
20496222 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATAT
20496254 CATTCAATTT
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 94 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCACCA
Found at i:20496236 original size:80 final size:80
Alignment explanation
Indices: 20496102--20496253 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
20496092 ATAAGCATGT
* *
20496102 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACAAATGCCTTCGGGTCTTAACC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACAAATGCCTTCGGGGCTTAACC
20496167 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * * * *
20496182 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCATAATTGTCTTCGGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACAAATGCCTTCGGGGCTTAAC
20496246 CCGGATAT
65 CCGGATAT
20496254 CATTCAATTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 60 0.98
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACAAATGCCTTCGGGGCTTAACC
CGGATATAGCCGCTA
Found at i:20497610 original size:419 final size:419
Alignment explanation
Indices: 20496832--20497674 Score: 1686
Period size: 419 Copynumber: 2.0 Consensus size: 419
20496822 CTAGTTAATG
20496832 CTTTGCATATTGTTGCTCAAAACTTATAATATAGCATCGAGCACTCATATGTGTGCTAGGCCGAA
1 CTTTGCATATTGTTGCTCAAAACTTATAATATAGCATCGAGCACTCATATGTGTGCTAGGCCGAA
20496897 TGTGCTTGCAATTTCACATTCATTCTTCAACATCTTCTTCTTTAAACAAACATATTCATCACTTA
66 TGTGCTTGCAATTTCACATTCATTCTTCAACATCTTCTTCTTTAAACAAACATATTCATCACTTA
20496962 GTTCATAACCAAACATCATGTGCAAACATATATATACATATATGAGCATGGCCGAATTTCAAGGT
131 GTTCATAACCAAACATCATGTGCAAACATATATATACATATATGAGCATGGCCGAATTTCAAGGT
20497027 GTCCATAGCCATCCAAAACACAAATTTTAACTAACATGCAAGAAGCATGAACCATGCTTATGAAT
196 GTCCATAGCCATCCAAAACACAAATTTTAACTAACATGCAAGAAGCATGAACCATGCTTATGAAT
20497092 GCATCATGGCCGAATATGACAATCATGCTCCTTTTCAACTTCAATCATGATTAAACAAAAAGAAA
261 GCATCATGGCCGAATATGACAATCATGCTCCTTTTCAACTTCAATCATGATTAAACAAAAAGAAA
20497157 ACTCAAAATCTTACTCAAGAGTAGACAATCCATCATTGTATGCATCATCATCAAGCTTTACACTT
326 ACTCAAAATCTTACTCAAGAGTAGACAATCCATCATTGTATGCATCATCATCAAGCTTTACACTT
20497222 AGCATGCAATGGCTTTATCACCATAACAA
391 AGCATGCAATGGCTTTATCACCATAACAA
20497251 CTTTGCATATTGTTGCTCAAAACTTATAATATAGCATCGAGCACTCATATGTGTGCTAGGCCGAA
1 CTTTGCATATTGTTGCTCAAAACTTATAATATAGCATCGAGCACTCATATGTGTGCTAGGCCGAA
20497316 TGTGCTTGCAATTTCACATTCATTCTTCAACATCTTCTTCTTTAAACAAACATATTCATCACTTA
66 TGTGCTTGCAATTTCACATTCATTCTTCAACATCTTCTTCTTTAAACAAACATATTCATCACTTA
20497381 GTTCATAACCAAACATCATGTGCAAACATATATATACATATATGAGCATGGCCGAATTTCAAGGT
131 GTTCATAACCAAACATCATGTGCAAACATATATATACATATATGAGCATGGCCGAATTTCAAGGT
20497446 GTCCATAGCCATCCAAAACACAAATTTTAACTAACATGCAAGAAGCATGAACCATGCTTATGAAT
196 GTCCATAGCCATCCAAAACACAAATTTTAACTAACATGCAAGAAGCATGAACCATGCTTATGAAT
20497511 GCATCATGGCCGAATATGACAATCATGCTCCTTTTCAACTTCAATCATGATTAAACAAAAAGAAA
261 GCATCATGGCCGAATATGACAATCATGCTCCTTTTCAACTTCAATCATGATTAAACAAAAAGAAA
20497576 ACTCAAAATCTTACTCAAGAGTAGACAATCCATCATTGTATGCATCATCATCAAGCTTTACACTT
326 ACTCAAAATCTTACTCAAGAGTAGACAATCCATCATTGTATGCATCATCATCAAGCTTTACACTT
20497641 AGCATGCAATGGCTTTATCACCATAACAA
391 AGCATGCAATGGCTTTATCACCATAACAA
20497670 CTTTG
1 CTTTG
20497675 GCCAAATACC
Statistics
Matches: 424, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
419 424 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (419 bp):
CTTTGCATATTGTTGCTCAAAACTTATAATATAGCATCGAGCACTCATATGTGTGCTAGGCCGAA
TGTGCTTGCAATTTCACATTCATTCTTCAACATCTTCTTCTTTAAACAAACATATTCATCACTTA
GTTCATAACCAAACATCATGTGCAAACATATATATACATATATGAGCATGGCCGAATTTCAAGGT
GTCCATAGCCATCCAAAACACAAATTTTAACTAACATGCAAGAAGCATGAACCATGCTTATGAAT
GCATCATGGCCGAATATGACAATCATGCTCCTTTTCAACTTCAATCATGATTAAACAAAAAGAAA
ACTCAAAATCTTACTCAAGAGTAGACAATCCATCATTGTATGCATCATCATCAAGCTTTACACTT
AGCATGCAATGGCTTTATCACCATAACAA
Found at i:20504496 original size:40 final size:40
Alignment explanation
Indices: 20504451--20504618 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
20504441 CGGAATATAA
*
20504451 CCGGATATAAGCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCACT-AGCACAAATGCCTTCGGGTCTTAGC
* * *
20504491 CCGGATAGAATG-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
20504531 CCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAG-CACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
20504571 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
20504611 CCGGATAT
1 CCGGATAT
20504619 CATTCAATTT
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 102 0.95
41 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:20504601 original size:80 final size:80
Alignment explanation
Indices: 20504467--20504618 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
20504457 ATAAGCATGT
* *
20504467 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
20504532 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
20504547 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
20504610 CCCGGATAT
64 CCCGGATAT
20504619 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:20507350 original size:50 final size:48
Alignment explanation
Indices: 20507178--20507393 Score: 282
Period size: 50 Copynumber: 4.5 Consensus size: 48
20507168 TACATATATG
* * *
20507178 TGTGATAAGGCCGAAT-GCCAATGTGATGAATGTGAAAGTGCA-TATG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATTATA
20507224 TGTGATAAGGCCGT-ATGGCCAATGTGATGAATGTGAAAGTG--TTATA
1 TGTGATAAGGCC-TAATGGCCAATGTGATGAATGTGAAAGTGTATTATA
*
20507270 TGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTAT-TATA
* *
20507318 TGTGATAAGGCCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATA
1 TGTGATAAGG-CCTAATGGCCAATGTGATGAATGTGAAAGTGTAT-TATA
*
20507368 TGTGTATAAGGCCTAATGGCTAATGT
1 TGTG-ATAAGGCCTAATGGCCAATGT
20507394 AAAATATATG
Statistics
Matches: 153, Mismatches: 7, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
44 1 0.01
45 34 0.22
46 20 0.13
47 25 0.16
48 7 0.05
49 6 0.04
50 54 0.35
51 6 0.04
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.30
Consensus pattern (48 bp):
TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATTATA
Found at i:20507541 original size:37 final size:37
Alignment explanation
Indices: 20507487--20507608 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
20507477 TGGAAATGTT
* *
20507487 CCGGGTGAGACCTGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
20507524 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
20507561 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
20507598 CCGGGTAAGAC
1 CCGGGTAAGAC
20507609 TTCATAATAA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 82 1.00
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:20509700 original size:40 final size:40
Alignment explanation
Indices: 20509645--20509794 Score: 187
Period size: 40 Copynumber: 3.8 Consensus size: 40
20509635 GTTATAGTGA
* * *
20509645 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* * *
20509685 TCGCACGAATGCCTTC-GGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
*
20509724 TCGCACAAATGCCTTCGGGACTTAACCCGG-TTTAGTCAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* * *
20509763 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGACTTAACCCGGA
20509795 CACCATTCGA
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 41 0.43
40 54 0.57
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
Found at i:20509742 original size:79 final size:80
Alignment explanation
Indices: 20509645--20509793 Score: 203
Period size: 79 Copynumber: 1.9 Consensus size: 80
20509635 GTTATAGTGA
* * * * *
20509645 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC-TCGCACGAATGCCTTC-GGACTTA
1 TCGCACAAATGCCTTCGGGAATTAACCCGG-TTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
20509708 ACCCGGTTTTGGTAAC
65 ACCCGGTTTTGGTAAC
* * *
20509724 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAG
1 TCGCACAAATGCCTTCGGGAATTAACCCGGTTTAGTAACTTAGCACAAAAGCCTTCGGGACTTAA
20509789 CCCGG
66 CCCGG
20509794 ACACCATTCG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
78 8 0.13
79 40 0.67
80 12 0.20
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (80 bp):
TCGCACAAATGCCTTCGGGAATTAACCCGGTTTAGTAACTTAGCACAAAAGCCTTCGGGACTTAA
CCCGGTTTTGGTAAC
Found at i:20517722 original size:40 final size:40
Alignment explanation
Indices: 20517678--20517827 Score: 174
Period size: 40 Copynumber: 3.7 Consensus size: 40
20517668 TATAGTGATC
* * * * *
20517678 CGCACAATTGCCTTCGGGAATTAGCCCTGATTTAGTAACT
1 CGCACAAATGCCTTCGGGACTTAACCCGGTTTTAGTAACT
* * * *
20517718 CGCACGAATGCCTTTGAGACTTAACCCGGTTTTGGTAACT
1 CGCACAAATGCCTTCGGGACTTAACCCGGTTTTAGTAACT
*
20517758 CGCACAAATGCCTTCGGGACTTAACCCGGTTTTAGTCACTT
1 CGCACAAATGCCTTCGGGACTTAACCCGGTTTTAGTAAC-T
* * *
20517799 AGCACAAAAGCCTTCGGGACTTAGCCCGG
1 CGCACAAATGCCTTCGGGACTTAACCCGG
20517828 ACACCATTCG
Statistics
Matches: 92, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 65 0.71
41 27 0.29
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGTTTTAGTAACT
Found at i:20524976 original size:11 final size:11
Alignment explanation
Indices: 20524960--20524995 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
20524950 TTGTGTGTTC
20524960 TTTATTTTATT
1 TTTATTTTATT
20524971 TTTATTTT-TAT
1 TTTATTTTAT-T
20524982 TTTATTTTATT
1 TTTATTTTATT
20524993 TTT
1 TTT
20524996 CTCAATGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 1 0.04
11 21 0.91
12 1 0.04
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:20524995 original size:6 final size:5
Alignment explanation
Indices: 20524960--20524994 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
20524950 TTGTGTGTTC
20524960 TTTAT TTTATT TTTATT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTA-T TTTA-T TTTAT TTTAT TTTAT TTT
20524995 TCTCAATGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:20528172 original size:21 final size:21
Alignment explanation
Indices: 20528143--20528185 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
20528133 AGAACATGCC
*
20528143 AACAGAAGCTCGTGAGAGCTG
1 AACAAAAGCTCGTGAGAGCTG
20528164 AACAAAAGCTCGTGAGAGCTG
1 AACAAAAGCTCGTGAGAGCTG
20528185 A
1 A
20528186 TCCACCCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.19, G:0.30, T:0.14
Consensus pattern (21 bp):
AACAAAAGCTCGTGAGAGCTG
Found at i:20529108 original size:71 final size:71
Alignment explanation
Indices: 20529025--20529171 Score: 294
Period size: 71 Copynumber: 2.1 Consensus size: 71
20529015 TTGAAGGAAT
20529025 AAGATTGGCCGAATGAAGCTTCAACAGCTTGTTGTTTTCCAACATTCAGTTGAAAAGAAAAATAA
1 AAGATTGGCCGAATGAAGCTTCAACAGCTTGTTGTTTTCCAACATTCAGTTGAAAAGAAAAATAA
20529090 TAATGG
66 TAATGG
20529096 AAGATTGGCCGAATGAAGCTTCAACAGCTTGTTGTTTTCCAACATTCAGTTGAAAAGAAAAATAA
1 AAGATTGGCCGAATGAAGCTTCAACAGCTTGTTGTTTTCCAACATTCAGTTGAAAAGAAAAATAA
20529161 TAATGG
66 TAATGG
20529167 AAGAT
1 AAGAT
20529172 GCTAGAAATT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 76 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (71 bp):
AAGATTGGCCGAATGAAGCTTCAACAGCTTGTTGTTTTCCAACATTCAGTTGAAAAGAAAAATAA
TAATGG
Found at i:20531109 original size:47 final size:48
Alignment explanation
Indices: 20531040--20531357 Score: 215
Period size: 47 Copynumber: 6.7 Consensus size: 48
20531030 GGTATAATAC
*
20531040 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTCATC-CATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCACATCAAGT
* * * * *
20531087 CGATGCCATGTGCCAGACATGGTCTTACACTAACT-ATCGAAATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-ACATC-AAGT
** * *
20531136 CGACACCATGTCCCAAACATGGTCTTACACTAGCTC-TCACA-CATCCGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCACATCA--AGT
* *
20531184 GCTGATGCCATGTCCCAGACATAGTCTTACACT-G---A-CACATCTAGTAGC
1 -C-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCACATC-A--AGT
* *
20531232 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTC-TAAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-ACATCAA-GT
* *
20531278 CGATGCCATGTCCCAGACATGGCCTTACACTGGCTC-T--CAT-AATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCACATCAA-GT
*
20531323 GACTGATG-CATGTCCCAGACAT-GTCTTACATTAGC
1 --C-GATGCCATGTCCCAGACATGGTCTTACACTAGC
20531358 ACACAAAATA
Statistics
Matches: 217, Mismatches: 30, Indels: 49
0.73 0.10 0.17
Matches are distributed among these distances:
44 10 0.05
45 22 0.10
46 29 0.13
47 65 0.30
48 28 0.13
49 37 0.17
50 26 0.12
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCACATCAAGT
Found at i:20531234 original size:96 final size:95
Alignment explanation
Indices: 20531045--20531309 Score: 269
Period size: 96 Copynumber: 2.8 Consensus size: 95
20531035 AATACCGATG
* * *
20531045 CCATGTCCTAGACATGGTCTTACACTAGCTCATC-CATCA-AGTCGATGCCATGTGCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTC-TCACA-CATCGTCGATGCCATGTCCCAGACATG
20531108 GTCTTACACT-AACTATCGAAATCGAGGCCGACA
64 GTCTTACACTGAACTATCGAAATC-AGGCCGA-A
*
20531141 CCATGTCCCAAACATGGTCTTACACTAGCTCTCACACATCCGTGCTGATGCCATGTCCCAGACAT
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACACAT-CGT-C-GATGCCATGTCCCAGACAT
* * * *
20531206 AGTCTTACACTGACAC-ATC-TAGT-A-GCCGAT
63 GGTCTTACACTGA-ACTATCGAAATCAGGCCGAA
* * *
20531236 GCATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTAAAT-GTCGATGCCATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTC-AC-ACATCGTCGATGCCATGTCCCAGACATG
*
20531299 GCCTTACACTG
64 GTCTTACACTG
20531310 GCTCTCATAA
Statistics
Matches: 146, Mismatches: 14, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
92 29 0.20
93 1 0.01
94 19 0.13
95 18 0.12
96 39 0.27
97 3 0.02
98 1 0.01
99 30 0.21
100 4 0.03
101 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (95 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCACACATCGTCGATGCCATGTCCCAGACATGGT
CTTACACTGAACTATCGAAATCAGGCCGAA
Found at i:20531337 original size:94 final size:93
Alignment explanation
Indices: 20531038--20531357 Score: 289
Period size: 94 Copynumber: 3.4 Consensus size: 93
20531028 AGGGTATAAT
* * *
20531038 ACCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCATCCATCAA-GTCGATGCCATGTGCCA
1 ACCGATG-CATGTCCCAGACATGGTCTTACACTAGCTC-TCC-TAAATGTCGATGCCATGTCCCA
* * *
20531102 GACATGGTCTTACACTAACTATCGA-AATCGAG
63 GACATGGTCTTACACTGACTCTC-ATAAT-GTG
* ** * *
20531134 GCCGACACCATGTCCCAAACATGGTCTTACACTAGCTCTCAC-ACATCCGTGCTGATGCCATGTC
1 ACCGA-TGCATGTCCCAGACATGGTCTTACACTAGCTCTC-CTAAAT--GT-C-GATGCCATGTC
* *
20531198 CCAGACATAGTCTTACACTGACACATC-T-A-GT-
60 CCAGACATGGTCTTACACTGACTC-TCATAATGTG
20531229 AGCCGATGCATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTAAATGTCGATGCCATGTCCCA
1 A-CCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTC--CTAAATGTCGATGCCATGTCCCA
* *
20531293 GACATGGCCTTACACTGGCTCTCATAATGTG
63 GACATGGTCTTACACTGACTCTCATAATGTG
* *
20531324 ACTGATGCATGTCCCAGACAT-GTCTTACATTAGC
1 ACCGATGCATGTCCCAGACATGGTCTTACACTAGC
20531358 ACACAAAATA
Statistics
Matches: 183, Mismatches: 25, Indels: 34
0.76 0.10 0.14
Matches are distributed among these distances:
91 2 0.01
92 32 0.17
93 2 0.01
94 53 0.29
95 17 0.09
96 41 0.22
97 2 0.01
98 2 0.01
99 30 0.16
100 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (93 bp):
ACCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCCTAAATGTCGATGCCATGTCCCAGAC
ATGGTCTTACACTGACTCTCATAATGTG
Found at i:20539520 original size:46 final size:46
Alignment explanation
Indices: 20539460--20539730 Score: 427
Period size: 46 Copynumber: 5.9 Consensus size: 46
20539450 TTTGACATGA
* * * * * *
20539460 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
20539506 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
20539552 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
20539598 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
20539644 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
20539690 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
20539731 AAGAGAGCAC
Statistics
Matches: 211, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 207 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:20544495 original size:47 final size:45
Alignment explanation
Indices: 20544427--20544782 Score: 258
Period size: 47 Copynumber: 7.7 Consensus size: 45
20544417 TTTGTGCGCT
* * *
20544427 AGTGTAAGGCATGTCTGGGACATGCTTCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGAGAGCC
* * * * **
20544473 AGTGTAAGACCATGTCTAGGACATGGCATCGG-TATCCAGACGAGGGAT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CAGATGAGAGCC
* * * * *
20544521 AGTGTAAGACATGTCTAGGACATGCATCAGCCATACTATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGAGAGCC
* * *
20544567 AGTATAAGACCATGTCTGGGACATGGCATTGG--A-AGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAGATGAGAGCC
*
20544611 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGA-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACAGATGAGAGCC
* * * * *
20544658 AGTGTAAGACGTGTCTGGGACACGCATCGGCTA-AGA-GATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGA-GAGCC
* * * *
20544702 AGTGTAAGACATGTTTGGGACATGCATCAGCACGCGTATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-CAC--AGATGAGAGCC
*
20544750 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
20544783 AATATAACCC
Statistics
Matches: 241, Mismatches: 47, Indels: 40
0.73 0.14 0.12
Matches are distributed among these distances:
42 6 0.02
43 19 0.08
44 45 0.19
45 2 0.01
46 28 0.12
47 76 0.32
48 42 0.17
49 16 0.07
50 7 0.03
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGAGAGCC
Found at i:20544589 original size:94 final size:90
Alignment explanation
Indices: 20544424--20544781 Score: 370
Period size: 94 Copynumber: 3.9 Consensus size: 90
20544414 TGATTTGTGC
* * * * *
20544424 GCTAGTGTAAGGCATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTC
*
20544489 TAGGACATGGCATCGGTATCCAGACGAGG
66 TAGGACATGGCATCGGTA---AGA-GAGT
* * * *
20544518 GATAGTGTAAGACATGTCTAGGACATGCATCAGCCATACTATGATAGCCAGTATAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTC
* *
20544583 TGGGACATGGCATTGG-AAGATGAGT
66 TAGGACATGGCATCGGTAAGA-GAGT
* * *
20544608 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAC-A-GAGATAGCCAGTGTAAGA-CG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTATGAG--AGCCAGTGTAAGACCA
* *
20544669 TGTCTGGGACA-CGCATCGGCTAAGAGATGT
62 TGTCTAGGACATGGCATCGG-TAAGAGA-GT
* *
20544699 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCACGCGTA-TATGAGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGAGAGCCAGTGTAAGACCAT
20544763 GTCTAGGACATGGCATCGG
63 GTCTAGGACATGGCATCGG
20544782 CAATATAACC
Statistics
Matches: 221, Mismatches: 28, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
89 9 0.04
90 52 0.24
91 50 0.23
92 13 0.06
93 15 0.07
94 81 0.37
95 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (90 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTC
TAGGACATGGCATCGGTAAGAGAGT
Found at i:20551070 original size:28 final size:28
Alignment explanation
Indices: 20551005--20551103 Score: 128
Period size: 28 Copynumber: 3.5 Consensus size: 28
20550995 TCATGAATTG
* ** *
20551005 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-TGATTATATA
20551034 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
20551062 GCACTAAGTGTGCGAGTTTGACTAT-TAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
20551090 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
20551104 GGCTTATTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.02
28 46 0.72
29 17 0.27
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:20554497 original size:29 final size:29
Alignment explanation
Indices: 20554464--20554595 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
20554454 GTGACGAGAT
20554464 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
20554493 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
20554522 TGGCACTAAATGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
20554551 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
20554580 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
20554596 GGCTTAAATT
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:20560542 original size:7 final size:7
Alignment explanation
Indices: 20560530--20560560 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
20560520 AAAATTCTAT
20560530 AATTTTA
1 AATTTTA
20560537 AATTTTA
1 AATTTTA
20560544 AATTTTAA
1 AATTTT-A
20560552 AATTTTA
1 AATTTTA
20560559 AA
1 AA
20560561 ATAATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AATTTTA
Found at i:20560554 original size:15 final size:15
Alignment explanation
Indices: 20560520--20560560 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
20560510 ATTTTCTTTA
*
20560520 AAAATTCTATAATTTT
1 AAAATTTTA-AATTTT
20560536 -AAATTTTAAATTTT
1 AAAATTTTAAATTTT
20560550 AAAATTTTAAA
1 AAAATTTTAAA
20560561 ATAATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
AAAATTTTAAATTTT
Found at i:20560556 original size:8 final size:8
Alignment explanation
Indices: 20560520--20560562 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
20560510 ATTTTCTTTA
*
20560520 AAAATTCT
1 AAAATTTT
*
20560528 ATAATTTT
1 AAAATTTT
20560536 -AAATTTT
1 AAAATTTT
20560543 -AAATTTT
1 AAAATTTT
20560550 AAAATTTT
1 AAAATTTT
20560558 AAAAT
1 AAAAT
20560563 AATATATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
7 13 0.42
8 18 0.58
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (8 bp):
AAAATTTT
Found at i:20560723 original size:17 final size:17
Alignment explanation
Indices: 20560690--20560722 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20560680 TTTTTTCTAA
*
20560690 ATATTCTTTACAATTTT
1 ATATTATTTACAATTTT
20560707 ATATTATTTAC-ATTTT
1 ATATTATTTACAATTTT
20560723 TTAGTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (17 bp):
ATATTATTTACAATTTT
Found at i:20573649 original size:28 final size:32
Alignment explanation
Indices: 20573595--20573663 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 32
20573585 GAATATTTTC
*
20573595 TTTTTATATAAAAAAGATAATTTATTT-TAAT
1 TTTTTATATAAAAAAGATAATTAATTTGTAAT
* *
20573626 TTTTTA-ATAAAATA-A-AATTAATTTGTATT
1 TTTTTATATAAAAAAGATAATTAATTTGTAAT
20573655 TTTTTATAT
1 TTTTTATAT
20573664 TAATTGATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 8 0.24
29 10 0.30
30 9 0.27
31 6 0.18
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (32 bp):
TTTTTATATAAAAAAGATAATTAATTTGTAAT
Found at i:20582627 original size:10 final size:9
Alignment explanation
Indices: 20582614--20582657 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 9
20582604 GGAAATTTAT
20582614 AAAAATGATA
1 AAAAAT-ATA
20582624 AAAAGATATA
1 AAAA-ATATA
20582634 GAAAAATAATA
1 -AAAAAT-ATA
20582645 AAAAATATA
1 AAAAATATA
20582654 AAAA
1 AAAA
20582658 TTCTATAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 7 0.23
10 15 0.48
11 9 0.29
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (9 bp):
AAAAATATA
Found at i:20582638 original size:21 final size:19
Alignment explanation
Indices: 20582614--20582657 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
20582604 GGAAATTTAT
*
20582614 AAAAATGATAAAAAGATATA
1 AAAAATAATAAAAA-ATATA
20582634 GAAAAATAATAAAAAATATA
1 -AAAAATAATAAAAAATATA
20582654 AAAA
1 AAAA
20582658 TTCTATAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 5 0.23
21 13 0.59
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (19 bp):
AAAAATAATAAAAAATATA
Found at i:20586135 original size:30 final size:30
Alignment explanation
Indices: 20586101--20586163 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
20586091 ACTTAACAAG
*
20586101 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGACTCTAAAATAATAACAAAATTAA
* *
20586131 CAAATGACTTTAAAATAATAACGAAATTAA
1 CAAATGACTCTAAAATAATAACAAAATTAA
20586161 CAA
1 CAA
20586164 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (30 bp):
CAAATGACTCTAAAATAATAACAAAATTAA
Found at i:20588556 original size:21 final size:22
Alignment explanation
Indices: 20588523--20588563 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
20588513 TTCCTTTATG
*
20588523 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
20588544 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
20588564 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:20592555 original size:224 final size:224
Alignment explanation
Indices: 20592153--20592603 Score: 649
Period size: 224 Copynumber: 2.0 Consensus size: 224
20592143 ATGGAGTGGA
* * * *
20592153 GCAAAATTAACAAAGGTAGACGCATGCAATGAAGGGAGGAGCTGAATGCTGGGTTAAGCTGTTTG
1 GCAAAATTAACAAAGGTAGACGCATGCAATGAAGGGAGGAGCAGAATGATAGGTTAAGCTATTTG
* * *
20592218 AACAATGATAATCCAGATGAAACTAATCTAGCAGAAATTACGAAGGTCAAATTGACTTTAAATAA
66 AACAATGATAATCCAGATCAAAATAATCTAGCAGAAATTACGAAGGTCAAATTGACTTTAAACAA
* * * * *
20592283 GGAAGTTGATAAGTAGAAATTATTTTGGAAGCAACGTGCTAGAGTCAATTGGTTACAAAT-GGGG
131 GGAAATTGATAAGGAGAAATTATTTTGGAAGCAACATGCTAAAGTCAATTGGCTACAAATAGGGG
*
20592347 GATAGTAATACTTCCTTCTTTTATAATTTT
196 G-TAGTAATACTTCCTTCTTTCATAATTTT
20592377 GCAAAATTAACAAAGGTAGACGCATGCAACT-AAGGGAGGAGCAGAATGATAGGTTAAGCTATTT
1 GCAAAATTAACAAAGGTAGACGCATGCAA-TGAAGGGAGGAGCAGAATGATAGGTTAAGCTATTT
* * * *
20592441 GAACAATGATAAT-CTG-TACAAAGATAATCTAGCAGAAATTATGGAGGTCAAATTGGCTTTAAA
65 GAACAATGATAATCCAGAT-CAAA-ATAATCTAGCAGAAATTACGAAGGTCAAATTGACTTTAAA
* * *
20592504 CAAGGAAATTGATAAGGAGGAATTATTTTGGGAGCAACATGCTAAAGTCAATTGGCTACGAATAG
128 CAAGGAAATTGATAAGGAGAAATTATTTTGGAAGCAACATGCTAAAGTCAATTGGCTACAAATAG
*
20592569 GGGGTCGTAATACTTCCTTCTTTCATAATTTT
193 GGGGTAGTAATACTTCCTTCTTTCATAATTTT
20592601 GCA
1 GCA
20592604 CCTTATTACA
Statistics
Matches: 202, Mismatches: 21, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
222 1 0.00
223 5 0.02
224 190 0.94
225 6 0.03
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (224 bp):
GCAAAATTAACAAAGGTAGACGCATGCAATGAAGGGAGGAGCAGAATGATAGGTTAAGCTATTTG
AACAATGATAATCCAGATCAAAATAATCTAGCAGAAATTACGAAGGTCAAATTGACTTTAAACAA
GGAAATTGATAAGGAGAAATTATTTTGGAAGCAACATGCTAAAGTCAATTGGCTACAAATAGGGG
GTAGTAATACTTCCTTCTTTCATAATTTT
Found at i:20598313 original size:45 final size:45
Alignment explanation
Indices: 20598230--20598315 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
20598220 TTTCAATTCT
* * *
20598230 TAATTTAACAATATTCCATTTCTCAACAATATATTAAATACTTAA
1 TAATTTAACAACATACCATTTCTCAACAATATACTAAATACTTAA
* *
20598275 TAATTTAACAACATACTATTTTTCAACAA-AGTACTAAATAC
1 TAATTTAACAACATACCATTTCTCAACAATA-TACTAAATAC
20598316 ATATTAACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 1 0.03
45 34 0.97
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (45 bp):
TAATTTAACAACATACCATTTCTCAACAATATACTAAATACTTAA
Found at i:20609075 original size:3 final size:3
Alignment explanation
Indices: 20609061--20609141 Score: 76
Period size: 3 Copynumber: 26.7 Consensus size: 3
20609051 AAATAAATGA
* *
20609061 AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACA- AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * *
20609106 AAA AAT AAAT AAT -TT AAT TAT AAT AAT AAAT AAT AA
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
20609142 ATGAATTATG
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
2 1 0.02
3 55 0.87
4 7 0.11
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:20609305 original size:2 final size:2
Alignment explanation
Indices: 20609298--20609344 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
20609288 AAAATAATTG
20609298 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20609340 TA TA T
1 TA TA T
20609345 GAGTAATATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20609831 original size:22 final size:22
Alignment explanation
Indices: 20609801--20609842 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
20609791 CGCTCTGATT
20609801 ATTAACACAT-TAGTGCTCTCCA
1 ATTAACACATGT-GTGCTCTCCA
*
20609823 ATTAGCACATGTGTGCTCTC
1 ATTAACACATGTGTGCTCTC
20609843 TGTTTATCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ATTAACACATGTGTGCTCTCCA
Found at i:20614659 original size:2 final size:2
Alignment explanation
Indices: 20614652--20614692 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
20614642 ACAGAACTTT
20614652 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20614693 CATTTTGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20614961 original size:13 final size:13
Alignment explanation
Indices: 20614923--20614961 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
20614913 AACTTTATAA
20614923 AAAATATTTTAAT
1 AAAATATTTTAAT
* * *
20614936 ACAATAATATAAT
1 AAAATATTTTAAT
20614949 AAAATATTTTAAT
1 AAAATATTTTAAT
20614962 TTTATGAAAT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAATATTTTAAT
Found at i:20615333 original size:61 final size:61
Alignment explanation
Indices: 20615263--20615386 Score: 203
Period size: 61 Copynumber: 2.0 Consensus size: 61
20615253 GGTCAGATTG
* * *
20615263 TGGTAACATGTTGTGTACTTCATAGCTTCACTTGTTAGTAGAATTGGGATGACCCATACTT
1 TGGTAACATGTTGTATACTTCATAGCGTCACTTGTTAGTAGAATTGGAATGACCCATACTT
* *
20615324 TGGTAACATGTTGTATACTTTATAGCGTCACTTGTTAGTAGAATTGGAATGACCTATACTT
1 TGGTAACATGTTGTATACTTCATAGCGTCACTTGTTAGTAGAATTGGAATGACCCATACTT
20615385 TG
1 TG
20615387 AAGAGTACAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.39
Consensus pattern (61 bp):
TGGTAACATGTTGTATACTTCATAGCGTCACTTGTTAGTAGAATTGGAATGACCCATACTT
Found at i:20615404 original size:3 final size:3
Alignment explanation
Indices: 20615396--20615435 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
20615386 GAAGAGTACA
20615396 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
20615436 TCTTAATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Done.