Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 34 of 295
Found at i:10181230 original size:25 final size:25
Alignment explanation
Indices: 10181179--10181251 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
10181169 TGAAATAAAT
* *
10181179 AATAAAAAGAGTAAAACATAA-GA-A
1 AATAAAAA-AGTAAAAGATAACAATA
10181203 AATAAAAAAGTAAAAGATAACAATA
1 AATAAAAAAGTAAAAGATAACAATA
* *
10181228 AATAGAAAAGAAAAAGATAACAAT
1 AATAAAAAAGTAAAAGATAACAAT
10181252 TTTTTATTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
23 11 0.26
24 9 0.21
25 23 0.53
ACGTcount: A:0.71, C:0.04, G:0.11, T:0.14
Consensus pattern (25 bp):
AATAAAAAAGTAAAAGATAACAATA
Found at i:10184378 original size:20 final size:22
Alignment explanation
Indices: 10184353--10184395 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
10184343 TGCTGTAAAT
*
10184353 TGAAAGTTTA-TAATAG-GAAA
1 TGAAAGGTTATTAATAGAGAAA
10184373 TGAAAGGTTATTAATAGAGAAA
1 TGAAAGGTTATTAATAGAGAAA
10184395 T
1 T
10184396 CACTTTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 6 0.30
22 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.30
Consensus pattern (22 bp):
TGAAAGGTTATTAATAGAGAAA
Found at i:10185118 original size:33 final size:33
Alignment explanation
Indices: 10185080--10185184 Score: 133
Period size: 33 Copynumber: 3.2 Consensus size: 33
10185070 ATGGTACAAT
**
10185080 TTGAAAAGGTTAGGTATACTTTGTGTATACCA-
1 TTGAAAAGGAAAGGTATACTTTGTGTATACCAC
10185112 TATGAAAAGGAAAGGTATACTTTGTGTATACCAC
1 T-TGAAAAGGAAAGGTATACTTTGTGTATACCAC
* * * *
10185146 TTGAAAAGGAAAGGTACACTATATGTGTA-CAC
1 TTGAAAAGGAAAGGTATACTTTGTGTATACCAC
10185178 TTGAAAA
1 TTGAAAA
10185185 TGTTATGTGC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.17
33 53 0.82
34 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.30
Consensus pattern (33 bp):
TTGAAAAGGAAAGGTATACTTTGTGTATACCAC
Found at i:10185225 original size:33 final size:33
Alignment explanation
Indices: 10185169--10185285 Score: 121
Period size: 33 Copynumber: 3.6 Consensus size: 33
10185159 GTACACTATA
* * *
10185169 TGTGTAC-ACTTGAAAATGTTATGTGCACTTTG
1 TGTGTACAACTTGAAAAGGGTATGTGCACTTCG
* *
10185201 TGTGTACAAATTGAAAAGGGTATGTACACTTCG
1 TGTGTACAACTTGAAAAGGGTATGTGCACTTCG
* * *
10185234 TGTGTACCAGTTGAAAAGGG-AGTGTGCACCTCG
1 TGTGTACAACTTGAAAAGGGTA-TGTGCACTTCG
* *
10185267 GGTGTACAACTAGAAAAGG
1 TGTGTACAACTTGAAAAGG
10185286 AAAGGTCAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
32 8 0.11
33 62 0.89
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (33 bp):
TGTGTACAACTTGAAAAGGGTATGTGCACTTCG
Found at i:10185915 original size:30 final size:30
Alignment explanation
Indices: 10185879--10185949 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
10185869 ACTTTTCTCA
*
10185879 ACTAGCCACACCATTTCCACCACCAACTCC
1 ACTAGCCACACCATTTCCACCACCAAATCC
*
10185909 ACTAGCCACACCTTTTCCACCACCAAATCC
1 ACTAGCCACACCATTTCCACCACCAAATCC
10185939 ACTAGCCACAC
1 ACTAGCCACAC
10185950 TTGCTCCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.31, C:0.48, G:0.04, T:0.17
Consensus pattern (30 bp):
ACTAGCCACACCATTTCCACCACCAAATCC
Found at i:10185970 original size:30 final size:30
Alignment explanation
Indices: 10185894--10185993 Score: 130
Period size: 30 Copynumber: 3.3 Consensus size: 30
10185884 CCACACCATT
*
10185894 TCCACCACCAACTCCACTAGCCACACCTT-T
1 TCCACCACCAACTCCACTAGCCACA-CTTGC
*
10185924 TCCACCACCAAATCCACTAGCCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
** * *
10185954 TCCATTACCTACTCCACTAACCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
10185984 TCCACCACCA
1 TCCACCACCA
10185994 CTTGTACCTA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 3 0.05
30 56 0.95
ACGTcount: A:0.28, C:0.48, G:0.04, T:0.20
Consensus pattern (30 bp):
TCCACCACCAACTCCACTAGCCACACTTGC
Found at i:10186574 original size:25 final size:25
Alignment explanation
Indices: 10186546--10186604 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
10186536 ATATTACGTA
* *
10186546 TATATATATTTTATACTATTTTATT
1 TATATATATTTAATACTATATTATT
* *
10186571 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATT
10186596 TATATATAT
1 TATATATAT
10186605 ATTTTTTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:10186654 original size:22 final size:24
Alignment explanation
Indices: 10186626--10186684 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
10186616 ACATGTTTTC
10186626 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
10186648 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
10186673 TTATGTACATAT
1 TTATGTATATAT
10186685 TTTTAATACT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:10186674 original size:25 final size:25
Alignment explanation
Indices: 10186642--10186696 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
10186632 ATATATCTTA
**
10186642 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
*
10186667 ACTATATTATGTACATATTTTTAAT
1 ACTATATTATGTACATATTTTTAAC
10186692 ACTAT
1 ACTAT
10186697 CATGTATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:10186708 original size:23 final size:24
Alignment explanation
Indices: 10186628--10186711 Score: 66
Period size: 23 Copynumber: 3.6 Consensus size: 24
10186618 ATGTTTTCTT
* * *
10186628 ATGTATATA-TCTTAAC-TATATT
1 ATGTATATATTTTTAACACATATC
* *
10186650 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAACAC-ATATC
* *
10186675 ATGTACATATTTTTAATAC-TATC
1 ATGTATATATTTTTAACACATATC
*
10186698 ATGTATTTATTTTT
1 ATGTATATATTTTT
10186712 TATATATGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
22 8 0.16
23 21 0.42
25 21 0.42
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.54
Consensus pattern (24 bp):
ATGTATATATTTTTAACACATATC
Found at i:10186727 original size:19 final size:20
Alignment explanation
Indices: 10186669--10186727 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
10186659 TTTTTAACAC
10186669 TATAT-TATGTACATATTTT
1 TATATATATGTACATATTTT
**
10186688 TAATACTATCATGTATTTATTTT
1 T-ATA-TAT-ATGTACATATTTT
10186711 T-TATATATGTACATATT
1 TATATATATGTACATATT
10186728 GATGTAGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
19 10 0.31
20 6 0.19
21 3 0.09
22 1 0.03
23 12 0.38
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
TATATATATGTACATATTTT
Found at i:10186864 original size:16 final size:15
Alignment explanation
Indices: 10186840--10186887 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
10186830 TAATTATTAT
*
10186840 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
10186856 TATTTTAATATTTTA
1 TATTTTAATATTTTA
10186871 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
10186887 T
1 T
10186888 TATTCCCATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:10186875 original size:7 final size:8
Alignment explanation
Indices: 10186840--10186891 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
10186830 TAATTATTAT
*
10186840 TATTCTAA
1 TATTTTAA
*
10186848 TATTTTGA
1 TATTTTAA
10186856 TATTTTAA
1 TATTTTAA
10186864 TATTTT-A
1 TATTTTAA
10186871 TATTTTATA
1 TATTTTA-A
*
10186880 TATTTTAT
1 TATTTTAA
10186888 TATT
1 TATT
10186892 CCCATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:10190729 original size:18 final size:17
Alignment explanation
Indices: 10190703--10190770 Score: 64
Period size: 17 Copynumber: 3.7 Consensus size: 17
10190693 GACAGTCATG
*
10190703 AAAAGAAAAAGAAAAAA
1 AAAAAAAAAAGAAAAAA
* *
10190720 CAAAAAAAAACAAAAAGA
1 AAAAAAAAAAGAAAAA-A
10190738 AAAAAATAAAAGACAAGAAA
1 AAAAAA-AAAAGA-AA-AAA
10190758 AAAACAAAAAAGA
1 AAAA-AAAAAAGA
10190771 GAGATCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
17 13 0.32
18 6 0.15
19 5 0.12
20 13 0.32
21 4 0.10
ACGTcount: A:0.84, C:0.06, G:0.09, T:0.01
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAA
Found at i:10190729 original size:23 final size:24
Alignment explanation
Indices: 10190702--10190768 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
10190692 CGACAGTCAT
10190702 GAAAAGAAAAAGAAAAAACA-AAAA
1 GAAAAGAAAAAGAAAAAA-ATAAAA
*
10190726 -AAAACAAAAAGAAAAAAATAAAA
1 GAAAAGAAAAAGAAAAAAATAAAA
* *
10190749 GACAAGAAAAAAACAAAAAA
1 GAAAAGAAAAAGA-AAAAAA
10190769 GAGAGATCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 1 0.03
23 20 0.56
24 9 0.25
25 6 0.17
ACGTcount: A:0.84, C:0.06, G:0.09, T:0.01
Consensus pattern (24 bp):
GAAAAGAAAAAGAAAAAAATAAAA
Found at i:10192992 original size:76 final size:76
Alignment explanation
Indices: 10192912--10193193 Score: 444
Period size: 75 Copynumber: 3.7 Consensus size: 76
10192902 TCCGTTTCAT
10192912 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
10192977 TCTTTCAAAAA
66 TCTTTCAAAAA
* *
10192988 AATTCAACTCATACGGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCGATTTCTG
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
10193053 TCTTTC-AAAA
66 TCTTTCAAAAA
* * *
10193063 AATTTAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTT
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
*
10193128 TCTTTCAAAAT
66 TCTTTCAAAAA
* * * *
10193139 AA-TCAACTCATATTGCGAG-AGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTT
10193194 GATCTCCGTT
Statistics
Matches: 190, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
74 28 0.15
75 88 0.46
76 74 0.39
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (76 bp):
AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
TCTTTCAAAAA
Found at i:10193352 original size:19 final size:19
Alignment explanation
Indices: 10193324--10193365 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
10193314 AGAAGTGAGT
10193324 TGAGCCTTAGCTCACGTAC
1 TGAGCCTTAGCTCACGTAC
* *
10193343 TGAGCTTTAGCTCACGTGC
1 TGAGCCTTAGCTCACGTAC
10193362 TGAG
1 TGAG
10193366 TTATTTCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.29
Consensus pattern (19 bp):
TGAGCCTTAGCTCACGTAC
Found at i:10193627 original size:14 final size:14
Alignment explanation
Indices: 10193608--10193642 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10193598 TGCTGAGGTC
*
10193608 TTTTCATTTTCTGT
1 TTTTCAATTTCTGT
10193622 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
10193636 CTTTCAA
1 TTTTCAA
10193643 AAAATTCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.14, C:0.17, G:0.06, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:10193700 original size:159 final size:155
Alignment explanation
Indices: 10193398--10193695 Score: 355
Period size: 159 Copynumber: 1.9 Consensus size: 155
10193388 TTTTTAAGAG
* * * *
10193398 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGTTGAGTCACTTTCAATTTCTAT
1 TCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGTCACTTTCAATTTCTAT
** * *
10193463 TTTTATGTCTATTTTTTAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCAGGGCACGCTAA
66 TTTTATGTCTATTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAA
10193528 GGTAATTTCAATTTCTGTTTGTCAAAAAA
131 GG----TTCAATTTCTGTTTGTCAAAAAA
* * *
10193557 TCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTC-TTTTCATTTTCTG
1 TCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGA-GTCACTTTCAATTTCTA
* *
10193621 TTTTTCAATTTCTGTCTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
65 TTTTT--ATGTCTAT-TTT--AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *
10193686 ATGCTGAGGT
124 ACGCTAAGGT
10193696 AATTTTAATT
Statistics
Matches: 117, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
159 58 0.50
160 3 0.03
161 7 0.06
162 3 0.03
164 3 0.03
165 43 0.37
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (155 bp):
TCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGTCACTTTCAATTTCTAT
TTTTATGTCTATTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAA
GGTTCAATTTCTGTTTGTCAAAAAA
Found at i:10193763 original size:88 final size:86
Alignment explanation
Indices: 10193533--10194482 Score: 613
Period size: 89 Copynumber: 10.7 Consensus size: 86
10193523 GCTAAGGTAA
*
10193533 TTTCAATTTCTGTTTGTCAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCAC
1 TTTCAATTTCTGTTT-T-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---AC
* *
10193597 ATGCTGAGGTCTTTTCATTTTCTGTT
61 ATGCTGAGGTATTTTCAATTTCTGTT
10193623 TTTCAATTTCTGTCTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
1 TTTCAATTTCTGT-TTT-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
10193688 GCTGAGGTAATTTT-AATTTCTGTTT
63 GCTGAGGT-ATTTTCAATTTCTG-TT
* * * *
10193713 TCTTCAATTTATGTTTTTAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACG
1 T-TTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACATG
* *
10193777 CTGAGGTAATTTCAATTTATGTT
64 CTGAGGTATTTTCAATTTCTGTT
* ** ** **** ** * * * *
10193800 TTTCAATTTCTGCTTTT-CAATTTCTGCT--T-TT-C-A-AAAAAAAATCA-ACTCA-TA-TTGC
1 TTTCAATTTCTG-TTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
* * *** *
10193855 AAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAA
65 -TGAGGT-A-TT----TTCA--A-TTTCT---GT-T
* *
10193891 TTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAT
1 TTTCAATTTCTGTTT-T--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
* *
10193956 GCTGAGGTATTTTCGATTTCTGCT
63 GCTGAGGTATTTTCAATTTCTGTT
* * * * * *
10193980 TTCCAATTTCTACTCTTCAAAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCAGGGCAC
1 TTTCAATTTCT-GT-TT-TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
* *
10194045 GCTGAGGTATTTTCGATTTCTGCT
63 GCTGAGGTATTTTCAATTTCTGTT
* *
10194069 TTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCA
1 TTTCAATTTCTG-T-TT-TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---A
* *
10194133 CATGCTGAGGTCTTTTTAATTTCTGTT
60 CATGCTGAGGTATTTTCAATTTCTGTT
* * *
10194160 TTTCAATTTCTGTTCGT-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGG-CACG
1 TTTCAATTTCTGTT-TTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACATG
* * **
10194223 TTGGGGTATTTTCAATTAATGTTT
64 CTGAGGTATTTTCAATTTCTG-TT
* * * ** *
10194247 TTTCAATTTATGCTTTTCAAGAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCGGGTCACAT
1 TTTCAATTTCTG-TTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACAT
* **
10194312 GCCGAGGTATTTTCAAAATCTGTT
63 GCTGAGGTATTTTCAATTTCTGTT
*** * * * ** * *
10194336 TGGAAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCACGTG
1 TTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACATG
* *
10194401 CTGAGCTATTTTTCAATTTTTGTT
64 CTGAGGTA-TTTTCAATTTCTGTT
* * * * **
10194425 TTT-AATATCTAGTTTTTAAAAGTCAATTCATATTGCGAGAAATGAGTTGAG-CTCAGGA
1 TTTCAATTTCT-GTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
10194483 TCACACACTG
Statistics
Matches: 676, Mismatches: 128, Indels: 116
0.73 0.14 0.13
Matches are distributed among these distances:
77 2 0.00
78 6 0.01
79 4 0.01
80 5 0.01
81 1 0.00
82 1 0.00
83 2 0.00
84 4 0.01
86 37 0.05
87 28 0.04
88 181 0.27
89 218 0.32
90 58 0.09
91 92 0.14
92 2 0.00
93 2 0.00
94 7 0.01
96 3 0.00
97 2 0.00
98 1 0.00
99 1 0.00
100 6 0.01
101 5 0.01
102 5 0.01
103 3 0.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (86 bp):
TTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCT
GAGGTATTTTCAATTTCTGTT
Found at i:10193805 original size:14 final size:14
Alignment explanation
Indices: 10193786--10193833 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
10193776 GCTGAGGTAA
* *
10193786 TTTCAATTTATGTT
1 TTTCAATTTCTGCT
10193800 TTTCAATTTCTGCT
1 TTTCAATTTCTGCT
10193814 TTTCAATTTCTGCT
1 TTTCAATTTCTGCT
10193828 TTTCAA
1 TTTCAA
10193834 AAAAAAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.19, C:0.17, G:0.06, T:0.58
Consensus pattern (14 bp):
TTTCAATTTCTGCT
Found at i:10193897 original size:358 final size:358
Alignment explanation
Indices: 10193480--10194171 Score: 972
Period size: 358 Copynumber: 1.9 Consensus size: 358
10193470 TCTATTTTTT
** * * *
10193480 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCAGGGCACGCTAAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACACTAAGGTAATTTCAATTTATG
*
10193545 TTTGTC-AAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTC
66 TTTGTCAAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGG---ACATGCTGAGGTA
* * * *
10193608 TTTTC-ATTTTCTGTTTTTCAATTTCT-GTCTTTCAAAAAATTCAACTCATATTGCGAGAGGTGA
128 TTTTCGA-TTTCTGCTTTCCAATTTCTACTC-TTCAAAAAAATCAACTCATATTGCGAGAGGTGA
* * **
10193671 GTTGAGCCTCAGGACATGCTGAGGTAATTTT-AATTTCTGTTTTCTTCAATTTATG-T-TT-TTA
191 GTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTCTGCTTTC--CAATTTATGCTCTTCAAA
*
10193732 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CAC-GCTGAGGTAATTTCAATTT
253 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGCCACAGCTGAGGTAATTTCAATTT
10193795 ATGTTTTTCAATTTCTGCTTTTCAATTTCTGCTTTTCAAAAAA
316 ATGTTTTTCAATTTCTGCTTTTCAATTTCTGCTTTTCAAAAAA
*
10193838 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTATG
1 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACACTAAGGTAATTTCAATTTATG
* *
10193903 TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGGTATTT
66 TTTGTCAAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTT
*
10193968 TCGATTTCTGCTTTCCAATTTCTACTCTTCAAAAAAATCAACTCATATTGCGAGATGTGAGTTGA
131 TCGATTTCTGCTTTCCAATTTCTACTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * *
10194033 GCCTCAGGGCACGCTGAGGTATTTTCGATTTCTGCTTTCCAATTTCTGCTCTTCAAAAAAATCAA
196 GCCTCAGGACACGCTGAGGTATTTTCAATTTCTGCTTTCCAATTTATGCTCTTCAAAAAAATCAA
** * *
10194098 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGTTTTT
261 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGC-CACA-GCTGAGGTAATTTCAATTTATGTTTTT
10194163 CAATTTCTG
324 CAATTTCTG
10194172 TTCGTCAAAA
Statistics
Matches: 296, Mismatches: 26, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
355 8 0.03
356 8 0.03
357 100 0.34
358 108 0.36
359 38 0.13
360 34 0.11
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (358 bp):
AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACACTAAGGTAATTTCAATTTATG
TTTGTCAAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTT
TCGATTTCTGCTTTCCAATTTCTACTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCCTCAGGACACGCTGAGGTATTTTCAATTTCTGCTTTCCAATTTATGCTCTTCAAAAAAATCAA
CTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACAGCTGAGGTAATTTCAATTTATGTTTTTCA
ATTTCTGCTTTTCAATTTCTGCTTTTCAAAAAA
Found at i:10193913 original size:77 final size:75
Alignment explanation
Indices: 10193814--10193981 Score: 230
Period size: 75 Copynumber: 2.2 Consensus size: 75
10193804 AATTTCTGCT
*
10193814 TTTCAATTTCTGCTTTTCAAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGAC
1 TTTCAATTTATGCTTTTC--AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGAC
10193879 ACACTGAGGTAA
64 ACACTGAGGTAA
* *
10193891 TTTCAATTTATG-TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTCAATTTATGCTTT-TCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
** *
10193955 TGCTGAGGTAT
65 CACTGAGGTAA
* *
10193966 TTTCGATTTCTGCTTT
1 TTTCAATTTATGCTTT
10193982 CCAATTTCTA
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
75 62 0.77
76 6 0.07
77 13 0.16
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTCAATTTATGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
ACTGAGGTAA
Found at i:10194336 original size:176 final size:177
Alignment explanation
Indices: 10193533--10194389 Score: 730
Period size: 180 Copynumber: 4.8 Consensus size: 177
10193523 GCTAAGGTAA
* * *
10193533 TTTCAATTTCTG-TTTGTCAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCAC
1 TTTCAATTTATGCTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* * *
10193597 ATGCTGAGGTCTTTTCATTTTCTGTTTTTCAATTTCTG-TCTTTCAAAAAATTCAACTCATATTG
65 ATGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTC-TTC-AAAAA-TCAACTCATATTG
* * * ** *
10193661 CGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTT-AATTTCTGTTT
127 CGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGT-ATTTTCAATTAATG-CT
* * *
10193713 TCTTCAATTTATG-TTTT-TAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CA
1 T-TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGTCA
* * *
10193775 C--GCTGAGGTAATTTCAATTTATGTTTTTCAATTTCTGCTTTTCAATTTCTGCTTTTCAAAAAA
64 CATGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTG----------T-T-C--TTC----AA
* * * *
10193838 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACACTGAGG----------TAA--
111 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTAATG
10193891 --
176 CT
10193891 TTTCAATTTATG-TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG--
1 TTTCAATTTATGCTTT-TC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGTC
* * **
10193953 -CATGCTGAGGTATTTTCGATTTCTGCTTTCCAATTTCTACTCTTCAAAAAAATCAACTCATATT
63 ACATGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTCTTC--AAAAATCAACTCATATT
* * **
10194017 GCGAGATGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTGCT
126 GCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTAATGCT
* * * *
10194069 TTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCAC
1 TTTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* * * *
10194134 ATGCTGAGGTCTTTTTAATTTCTGTTTTTCAATTTCTGTTCGTC-AAAATCAACTCATATTGCGA
65 ATGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTCTTCAAAAATCAACTCATATTGCGA
* * * *
10194198 GAGGTGAGTTGAGCCTC-GAGGCACGTTGGGGTATTTTCAATTAATGTTT
130 GAAGTGAGTTGAGCCTCAG-GGCACGCTGAGGTATTTTCAATTAATG-CT
* **
10194247 TTTCAATTTATGCTTTTC-AAGAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* ** *** *
10194311 TGCCGAGGTATTTTCAAAATCTGTTTGGAAAATTCTGTT-TTCAAAAATCAACTCATATTGCGAG
66 TGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTCTTCAAAAATCAACTCATATTGCGAG
10194375 AAGTGAGTTGAGCCT
131 AAGTGAGTTGAGCCT
10194390 TTGCTCACGT
Statistics
Matches: 564, Mismatches: 68, Indels: 94
0.78 0.09 0.13
Matches are distributed among these distances:
164 50 0.09
166 3 0.01
168 1 0.00
169 1 0.00
174 1 0.00
175 2 0.00
176 108 0.19
177 106 0.19
178 71 0.13
179 41 0.07
180 110 0.20
181 13 0.02
183 1 0.00
189 1 0.00
190 1 0.00
191 4 0.01
193 44 0.08
194 6 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (177 bp):
TTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
TGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTCTTCAAAAATCAACTCATATTGCGAG
AAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTAATGCT
Found at i:10194646 original size:37 final size:37
Alignment explanation
Indices: 10194596--10194677 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
10194586 TCTGAAGTGG
10194596 CAGAAGAGAAGACCAAAACCTTATCTCACGGAAGCAA
1 CAGAAGAGAAGACCAAAACCTTATCTCACGGAAGCAA
* *
10194633 CAGAAGAGAAGACCAAAACCTTATCTCACTGAAGCGA
1 CAGAAGAGAAGACCAAAACCTTATCTCACGGAAGCAA
*
10194670 TAGAAGAG
1 CAGAAGAG
10194678 CAGATTGAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.12
Consensus pattern (37 bp):
CAGAAGAGAAGACCAAAACCTTATCTCACGGAAGCAA
Found at i:10195184 original size:30 final size:30
Alignment explanation
Indices: 10195148--10195322 Score: 219
Period size: 30 Copynumber: 5.8 Consensus size: 30
10195138 ACTTTTCTCA
*
10195148 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
10195178 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* * * *
10195208 ACTAGCCACTCATTTTTCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
10195238 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
10195268 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
10195298 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
10195323 CTTGTACCTA
Statistics
Matches: 128, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
29 3 0.02
30 125 0.98
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:10195902 original size:25 final size:25
Alignment explanation
Indices: 10195874--10196031 Score: 81
Period size: 25 Copynumber: 6.1 Consensus size: 25
10195864 ATATTACGTA
*
10195874 TATATATATTTTATACTATTTTATT
1 TATATATATTTTATACTATATTATT
* * *
10195899 TATATATCTTTAATATTATATTATT
1 TATATATATTTTATACTATATTATT
* * *
10195924 TATATAT-TTTTTTTCTACATGCTATCT
1 TATATATATTTTATACTATAT--TAT-T
* *
10195951 TATGTATATATCTTA-ACTATATTATG
1 TA--TATATATTTTATACTATATTATT
* * *
10195977 TATGTAT-TTTTAACACTATATTATG
1 TATATATATTTT-ATACTATATTATT
* *
10196002 TACATAT-TTTTAATATTATCATGTATT
1 TATATATATTTT-ATACTAT-AT-TATT
10196029 TAT
1 TAT
10196032 TTTTTATATA
Statistics
Matches: 101, Mismatches: 22, Indels: 18
0.72 0.16 0.13
Matches are distributed among these distances:
23 3 0.03
24 13 0.13
25 54 0.53
26 7 0.07
27 11 0.11
29 10 0.10
30 3 0.03
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATATATTTTATACTATATTATT
Found at i:10195902 original size:27 final size:26
Alignment explanation
Indices: 10195863--10195930 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 26
10195853 TTTTAAATTT
* *
10195863 TATATTACGTATATATATATTTTATAC
1 TATATTA-TTATATATATATTTAATAC
* * *
10195890 TATTTTATT-TATATATCTTTAATAT
1 TATATTATTATATATATATTTAATAC
10195915 TATATTATT-TATATAT
1 TATATTATTATATATAT
10195931 TTTTTTTCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 28 0.80
26 1 0.03
27 6 0.17
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (26 bp):
TATATTATTATATATATATTTAATAC
Found at i:10195930 original size:16 final size:16
Alignment explanation
Indices: 10195878--10195931 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 16
10195868 TACGTATATA
* *
10195878 TATATTTTATACTATT
1 TATATATTATATTATT
*
10195894 T-TAT-TTATATATCTT
1 TATATATTATAT-TATT
10195909 TA-ATATTATATTATT
1 TATATATTATATTATT
10195924 TATATATT
1 TATATATT
10195932 TTTTTTCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 5 0.16
15 14 0.45
16 12 0.39
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (16 bp):
TATATATTATATTATT
Found at i:10196032 original size:23 final size:24
Alignment explanation
Indices: 10195952--10196042 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
10195942 ATGCTATCTT
*
10195952 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
10195974 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
10195999 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
* *
10196022 ATGTATTTATTTTTTATATAT
1 ATGTATATATTTTTAATATAT
10196043 GTACATATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 9 0.17
23 27 0.50
24 3 0.06
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:10196189 original size:16 final size:15
Alignment explanation
Indices: 10196165--10196212 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
10196155 TAATTATTAT
*
10196165 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
10196181 TATTTTAATATTTTA
1 TATTTTAATATTTTA
10196196 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
10196212 T
1 T
10196213 TATTCCCATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:10196200 original size:7 final size:8
Alignment explanation
Indices: 10196165--10196216 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
10196155 TAATTATTAT
*
10196165 TATTCTAA
1 TATTTTAA
*
10196173 TATTTTGA
1 TATTTTAA
10196181 TATTTTAA
1 TATTTTAA
10196189 TATTTT-A
1 TATTTTAA
10196196 TATTTTATA
1 TATTTTA-A
*
10196205 TATTTTAT
1 TATTTTAA
10196213 TATT
1 TATT
10196217 CCCATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:10222018 original size:42 final size:42
Alignment explanation
Indices: 10221958--10222066 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
10221948 CATGTTTTAC
* * * *
10221958 TTTTTGTTTATCTTTTTCGAGCTTCTGTTCTACTGTTATGAG
1 TTTTTGTTTAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
* *
10222000 TTTTTATTTAGCTCTTTCGAGCTTCTGTTCAATTCTTATGAG
1 TTTTTGTTTAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
* *
10222042 TTTCTGTTTAGC-CCTTCGAGCTTCT
1 TTTTTGTTTAGCTCTTTCGAGCTTCT
10222067 ATTTAACTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
41 12 0.21
42 46 0.79
ACGTcount: A:0.13, C:0.18, G:0.16, T:0.53
Consensus pattern (42 bp):
TTTTTGTTTAGCTCTTTCGAGCTTCTGTTCAACTCTTATGAG
Found at i:10226509 original size:102 final size:102
Alignment explanation
Indices: 10226389--10226596 Score: 389
Period size: 102 Copynumber: 2.0 Consensus size: 102
10226379 TTAAATGTAA
* *
10226389 ATTTTATATGTTAGATATGTCACGATTACACAATATAAATATAACATGAAAAAAACATACACGCA
1 ATTTTATATGTTAAATATGTCACGATTACACAATATAAACATAACATGAAAAAAACATACACGCA
10226454 ACACGAATACATTATTCATATTTAAGTTGGAAGCATG
66 ACACGAATACATTATTCATATTTAAGTTGGAAGCATG
10226491 ATTTTATATGTTAAATATGTCACGATTACACAATATAAACATAACATGAAAAAAACATACACGCA
1 ATTTTATATGTTAAATATGTCACGATTACACAATATAAACATAACATGAAAAAAACATACACGCA
*
10226556 ACACGAATACATTATTCATATTTAAGTTGGAAGTATG
66 ACACGAATACATTATTCATATTTAAGTTGGAAGCATG
10226593 ATTT
1 ATTT
10226597 AATTATTAGT
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (102 bp):
ATTTTATATGTTAAATATGTCACGATTACACAATATAAACATAACATGAAAAAAACATACACGCA
ACACGAATACATTATTCATATTTAAGTTGGAAGCATG
Found at i:10239633 original size:104 final size:105
Alignment explanation
Indices: 10239387--10239654 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
10239377 TTGTATATAA
** *
10239387 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
10239451 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
10239492 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
10239557 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
10239596 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
10239655 ATAACGGTTA
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 85 0.55
105 68 0.44
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:10247115 original size:104 final size:105
Alignment explanation
Indices: 10246869--10247136 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
10246859 TTGTATATAA
** *
10246869 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
10246933 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
10246974 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
10247039 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
10247078 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
10247137 ATAACGGTTA
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 85 0.55
105 68 0.44
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:10251198 original size:22 final size:22
Alignment explanation
Indices: 10251173--10251260 Score: 128
Period size: 22 Copynumber: 4.0 Consensus size: 22
10251163 ACAAAAGGTG
*
10251173 ACTTAGAAATTAATTTAATTTT
1 ACTTAGAAATTAAATTAATTTT
10251195 ACTTAGAAATTAAATTAATTTT
1 ACTTAGAAATTAAATTAATTTT
10251217 ACTTAGAAATTAAATTAATTTT
1 ACTTAGAAATTAAATTAATTTT
10251239 A-TT-G-AATTATTAATTAATTTT
1 ACTTAGAAATTA--AATTAATTTT
10251260 A
1 A
10251261 ATTATAGAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
19 5 0.08
20 1 0.02
21 13 0.21
22 44 0.70
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (22 bp):
ACTTAGAAATTAAATTAATTTT
Found at i:10255322 original size:58 final size:58
Alignment explanation
Indices: 10255232--10255346 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
10255222 TTTGAAGGTA
10255232 AAAAGGATCTAGCCCAGATGAGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTT
1 AAAAGGATCTAGCCCAGATGAGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTT
*
10255290 AAAAGGATCTAGCCCAGAT-AGGTGATCTTGATATAAGCCCTCCCGAAGAATATGTGT
1 AAAAGGATCTAGCCCAGATGA-GTGATCCTGATATAAGCCCTCCCGAAGAATATGTGT
10255347 GAAATAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
57 1 0.02
58 54 0.98
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (58 bp):
AAAAGGATCTAGCCCAGATGAGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTT
Found at i:10256216 original size:15 final size:15
Alignment explanation
Indices: 10256196--10256228 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
10256186 CTGTGTGTCT
10256196 CACACGGTCTGATCA
1 CACACGGTCTGATCA
10256211 CACACGGTCTGATCA
1 CACACGGTCTGATCA
10256226 CAC
1 CAC
10256229 GCCCGTGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.36, G:0.18, T:0.18
Consensus pattern (15 bp):
CACACGGTCTGATCA
Found at i:10260707 original size:32 final size:32
Alignment explanation
Indices: 10260671--10260734 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
10260661 GAATGAGGAG
10260671 TATAAACTCCTCAGACCACCATGATCTTTCAA
1 TATAAACTCCTCAGACCACCATGATCTTTCAA
10260703 TATAAACTCCTCAGACCACCATGATCTTTCAA
1 TATAAACTCCTCAGACCACCATGATCTTTCAA
10260735 CGGAGAGGTA
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:0.31, G:0.06, T:0.28
Consensus pattern (32 bp):
TATAAACTCCTCAGACCACCATGATCTTTCAA
Found at i:10261330 original size:10 final size:10
Alignment explanation
Indices: 10261315--10261351 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
10261305 ATTTTGATTA
10261315 TTTATCTTAT
1 TTTATCTTAT
10261325 TTTATCTTAT
1 TTTATCTTAT
*
10261335 TTTATTTTAT
1 TTTATCTTAT
10261345 TTT-TCTT
1 TTTATCTT
10261352 TTATTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 3 0.12
10 22 0.88
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATCTTAT
Found at i:10261339 original size:15 final size:14
Alignment explanation
Indices: 10261312--10261351 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
10261302 AAAATTTTGA
10261312 TTATTTATCTTATT
1 TTATTTATCTTATT
*
10261326 TTATCTTATTTTATT
1 TTAT-TTATCTTATT
*
10261341 TTATTTTTCTT
1 TTATTTATCTT
10261352 TTATTAAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (14 bp):
TTATTTATCTTATT
Found at i:10265125 original size:37 final size:37
Alignment explanation
Indices: 10265075--10265148 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
10265065 TACAAATCGT
10265075 AATTCTCAGATTACTCTCCGTCAACCTTCTTTTTTCC
1 AATTCTCAGATTACTCTCCGTCAACCTTCTTTTTTCC
* *
10265112 AATTCTCGGATTACTCTTCGTCAACCTTCTTTTTTCC
1 AATTCTCAGATTACTCTCCGTCAACCTTCTTTTTTCC
10265149 TTTCTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.18, C:0.31, G:0.07, T:0.45
Consensus pattern (37 bp):
AATTCTCAGATTACTCTCCGTCAACCTTCTTTTTTCC
Found at i:10270624 original size:17 final size:17
Alignment explanation
Indices: 10270595--10270645 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
10270585 TAGGTTTGCA
*
10270595 ATAACATGAGTTCGCAT
1 ATAACATGGGTTCGCAT
* * *
10270612 TTATCATGGGTTCACAT
1 ATAACATGGGTTCGCAT
10270629 ATAACATGGGTTCGCAT
1 ATAACATGGGTTCGCAT
10270646 GTACATTGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (17 bp):
ATAACATGGGTTCGCAT
Found at i:10270642 original size:34 final size:33
Alignment explanation
Indices: 10270595--10270658 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
10270585 TAGGTTTGCA
*
10270595 ATAACATGAGTTCGCATTTATCATGGGTTCACAT
1 ATAACATGAGTTCGCATGTA-CATGGGTTCACAT
* *
10270629 ATAACATGGGTTCGCATGTACATTGGTTCA
1 ATAACATGAGTTCGCATGTACATGGGTTCA
10270659 TACAATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 9 0.33
34 18 0.67
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (33 bp):
ATAACATGAGTTCGCATGTACATGGGTTCACAT
Found at i:10270656 original size:16 final size:16
Alignment explanation
Indices: 10270598--10270657 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
10270588 GTTTGCAATA
* *
10270598 ACATGAGTTCGCATTT
1 ACATGGGTTCGCATAT
*
10270614 ATCATGGGTTCACATAT
1 A-CATGGGTTCGCATAT
*
10270631 AACATGGGTTCGCATGT
1 -ACATGGGTTCGCATAT
*
10270648 ACATTGGTTC
1 ACATGGGTTC
10270658 ATACAATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 10 0.28
17 25 0.69
18 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (16 bp):
ACATGGGTTCGCATAT
Found at i:10271343 original size:26 final size:26
Alignment explanation
Indices: 10271307--10271369 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
10271297 GATTTGTATA
10271307 ATTTTCTCTTTAGATTTAATCTTTAG
1 ATTTTCTCTTTAGATTTAATCTTTAG
10271333 ATTTTCTCTTTAGATTTAATCTTTAG
1 ATTTTCTCTTTAGATTTAATCTTTAG
10271359 ATTTTCTCTTT
1 ATTTTCTCTTT
10271370 CTTAGGTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (26 bp):
ATTTTCTCTTTAGATTTAATCTTTAG
Found at i:10271368 original size:13 final size:13
Alignment explanation
Indices: 10271307--10271369 Score: 90
Period size: 13 Copynumber: 4.8 Consensus size: 13
10271297 GATTTGTATA
10271307 ATTTTCTCTTTAG
1 ATTTTCTCTTTAG
**
10271320 ATTTAATCTTTAG
1 ATTTTCTCTTTAG
10271333 ATTTTCTCTTTAG
1 ATTTTCTCTTTAG
**
10271346 ATTTAATCTTTAG
1 ATTTTCTCTTTAG
10271359 ATTTTCTCTTT
1 ATTTTCTCTTT
10271370 CTTAGGTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (13 bp):
ATTTTCTCTTTAG
Found at i:10272768 original size:20 final size:20
Alignment explanation
Indices: 10272749--10272785 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
10272739 TAAATGTGTG
10272749 GTAATAAA-AATATACATGT
1 GTAATAAATAATATACATGT
*
10272768 GTAATAAATATTATACAT
1 GTAATAAATAATATACAT
10272786 ACATTTGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.35
Consensus pattern (20 bp):
GTAATAAATAATATACATGT
Found at i:10273199 original size:18 final size:19
Alignment explanation
Indices: 10273173--10273208 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10273163 GTTTAATGAA
10273173 AATAAAAGAAA-GAAACAT
1 AATAAAAGAAACGAAACAT
*
10273191 AATAGAAGAAACGAAACA
1 AATAAAAGAAACGAAACA
10273209 AAGAAGGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.69, C:0.08, G:0.14, T:0.08
Consensus pattern (19 bp):
AATAAAAGAAACGAAACAT
Found at i:10273238 original size:17 final size:16
Alignment explanation
Indices: 10273194--10273239 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
10273184 GAAACATAAT
* *
10273194 AGAAGAAACGAAACAA
1 AGAAGAAAGGAAAAAA
*
10273210 AGAAGGAAGGAAAAAA
1 AGAAGAAAGGAAAAAA
10273226 AGATAGAAAGGAAA
1 AGA-AGAAAGGAAA
10273240 GAAGAAAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.67, C:0.04, G:0.26, T:0.02
Consensus pattern (16 bp):
AGAAGAAAGGAAAAAA
Found at i:10273524 original size:15 final size:17
Alignment explanation
Indices: 10273504--10273542 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
10273494 AATTCGATTT
10273504 AATTCAATCA-ATA-TA
1 AATTCAATCACATACTA
10273519 AATTC-ATCACATACTA
1 AATTCAATCACATACTA
10273535 AATT-AATC
1 AATTCAATC
10273543 CATTTCCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.19
15 8 0.38
16 9 0.43
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTCAATCACATACTA
Found at i:10274273 original size:18 final size:17
Alignment explanation
Indices: 10274196--10274276 Score: 51
Period size: 18 Copynumber: 4.6 Consensus size: 17
10274186 TTCCCTTTTC
10274196 TTCTTTCCTTTCTATCTTT
1 TTCTTT-CTTTCT-TCTTT
*
10274215 TT-TTTCCTTC--CTTCT
1 TTCTTTCTTTCTTCTT-T
*
10274230 TTGTTTCGTTTCTTCTATT
1 TTCTTTC-TTTCTTCT-TT
* *
10274249 CTGTTTCTTTCCTTCTTT
1 TTCTTTCTTT-CTTCTTT
10274267 TTCTTTCTTT
1 TTCTTTCTTT
10274277 TATTTTCATT
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
14 3 0.06
15 3 0.06
16 4 0.08
17 7 0.14
18 16 0.32
19 16 0.32
20 1 0.02
ACGTcount: A:0.02, C:0.25, G:0.04, T:0.69
Consensus pattern (17 bp):
TTCTTTCTTTCTTCTTT
Found at i:10281257 original size:13 final size:13
Alignment explanation
Indices: 10281239--10281264 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10281229 CTACAACCCT
10281239 TGAATTGAGTCTC
1 TGAATTGAGTCTC
10281252 TGAATTGAGTCTC
1 TGAATTGAGTCTC
10281265 ACAATATTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
TGAATTGAGTCTC
Found at i:10284757 original size:24 final size:23
Alignment explanation
Indices: 10284714--10284758 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
10284704 TCACTTTGGA
10284714 ATTCAACATTTTAAATATTAACT
1 ATTCAACATTTTAAATATTAACT
10284737 ATTCAA-ATTTTAACAATATTAA
1 ATTCAACATTTT-A-AATATTAA
10284759 TATAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 7 0.35
24 8 0.40
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTCAACATTTTAAATATTAACT
Found at i:10295582 original size:25 final size:25
Alignment explanation
Indices: 10295536--10295583 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
10295526 AGTAATGGAT
*
10295536 CAAGAGAAAGAGGTGGCTGGGACAG
1 CAAGAGAAAGAGGTGGCAGGGACAG
*
10295561 CAAGGGAAAGAGG-GGACAGGGAC
1 CAAGAGAAAGAGGTGG-CAGGGAC
10295584 CATCAATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.38, C:0.12, G:0.46, T:0.04
Consensus pattern (25 bp):
CAAGAGAAAGAGGTGGCAGGGACAG
Found at i:10299395 original size:24 final size:26
Alignment explanation
Indices: 10299363--10299411 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
10299353 ATATTTACTG
*
10299363 ATTTTATATTT-CTTAT-TTATTATA
1 ATTTTATATTTAATTATCTTATTATA
10299387 ATTTTATATTTAATTATCTTATTAT
1 ATTTTATATTTAATTATCTTATTAT
10299412 TTTTTAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
25 4 0.18
26 7 0.32
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (26 bp):
ATTTTATATTTAATTATCTTATTATA
Found at i:10299415 original size:24 final size:23
Alignment explanation
Indices: 10299363--10299423 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 23
10299353 ATATTTACTG
*
10299363 ATTTTATATTTCTTATTTATTAT
1 ATTTTATATTTATTATTTATTAT
10299386 AATTTTATATTTAATTATCTTATTAT
1 -ATTTTATATTT-ATTAT-TTATTAT
*
10299412 TTTTTAATATTT
1 ATTTT-ATATTT
10299424 GCTTTATAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 11 0.34
25 8 0.25
26 13 0.41
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTTATATTTATTATTTATTAT
Found at i:10303075 original size:20 final size:20
Alignment explanation
Indices: 10303038--10303075 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10303028 TGATGGGGAG
*
10303038 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
10303058 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
10303076 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:10304990 original size:46 final size:46
Alignment explanation
Indices: 10304923--10305108 Score: 230
Period size: 46 Copynumber: 4.0 Consensus size: 46
10304913 GTGTGCTCTC
* * * *
10304923 TGATATGAAATGTGTAAGACCATGGTTGAAAGATTCCATGGCAGCT
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
10304969 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
**
10305015 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
10305061 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
10305107 TG
1 TG
10305109 TCAAAGATAA
Statistics
Matches: 123, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
45 1 0.01
46 122 0.99
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:10305906 original size:20 final size:22
Alignment explanation
Indices: 10305865--10305909 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 22
10305855 TATCCCTTGT
10305865 TTGTTATGGAGTCGAAATCAAC
1 TTGTTATGGAGTCGAAATCAAC
10305887 TTGTT-TGGAG-CG-AATGCAAC
1 TTGTTATGGAGTCGAAAT-CAAC
10305907 TTG
1 TTG
10305910 GTCATAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 5 0.23
22 5 0.23
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (22 bp):
TTGTTATGGAGTCGAAATCAAC
Found at i:10311059 original size:20 final size:20
Alignment explanation
Indices: 10311036--10311077 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
10311026 CAGTGCATTA
10311036 AACATAAAAGTGGGAGAAGC
1 AACATAAAAGTGGGAGAAGC
10311056 AACATAAAAGTGGGAGAAGC
1 AACATAAAAGTGGGAGAAGC
10311076 AA
1 AA
10311078 TCATGAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.52, C:0.10, G:0.29, T:0.10
Consensus pattern (20 bp):
AACATAAAAGTGGGAGAAGC
Found at i:10312399 original size:14 final size:14
Alignment explanation
Indices: 10312380--10312416 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
10312370 CATAGCTCAT
10312380 TGGAGAAAATAGAG
1 TGGAGAAAATAGAG
10312394 TGGAGAAAATAGAG
1 TGGAGAAAATAGAG
*
10312408 AGGAGAAAA
1 TGGAGAAAA
10312417 GAAACAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.35, T:0.11
Consensus pattern (14 bp):
TGGAGAAAATAGAG
Found at i:10319991 original size:15 final size:15
Alignment explanation
Indices: 10319971--10320002 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10319961 AATTTATTTT
10319971 TATATAAAAAATTAA
1 TATATAAAAAATTAA
*
10319986 TATATAAAAAGTTAA
1 TATATAAAAAATTAA
10320001 TA
1 TA
10320003 CGGGCTGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
TATATAAAAAATTAA
Found at i:10324949 original size:24 final size:22
Alignment explanation
Indices: 10324922--10324975 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 22
10324912 AATATGATTT
10324922 TTTTATATTTATATATTTAATTA
1 TTTTAT-TTTATATATTTAATTA
*
10324945 CTTTTAGTTTTATTTATTTAATTA
1 -TTTTA-TTTTATATATTTAATTA
10324969 TTTTATT
1 TTTTATT
10324976 AATTGAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 2 0.07
23 5 0.18
24 20 0.71
25 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTATTTTATATATTTAATTA
Found at i:10325236 original size:30 final size:29
Alignment explanation
Indices: 10325167--10325240 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 29
10325157 TTTAATAAAT
*
10325167 TTATGTACCAAATTGAACATAAAAAAAGC
1 TTATGTACCAAATTGAACAAAAAAAAAGC
*
10325196 TTAGGTACCAAATTAGAA-AAAAAAACAAG-
1 TTATGTACCAAATT-GAACAAAAAAA-AAGC
10325225 TTCATGTACCAAATTG
1 TT-ATGTACCAAATTG
10325241 GGCCAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 22 0.56
30 17 0.44
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.24
Consensus pattern (29 bp):
TTATGTACCAAATTGAACAAAAAAAAAGC
Found at i:10325261 original size:28 final size:28
Alignment explanation
Indices: 10325216--10325282 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
10325206 AATTAGAAAA
*
10325216 AAAAACAAGTTCATGTACCAAATTGGGCC
1 AAAAA-AAGTTCAGGTACCAAATTGGGCC
10325245 AAAAAAAGTTCAGGTACCAAATTGGGCC
1 AAAAAAAGTTCAGGTACCAAATTGGGCC
10325273 AAAAAAAGTT
1 AAAAAAAGTT
10325283 TAGATTCCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 32 0.86
29 5 0.14
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.19
Consensus pattern (28 bp):
AAAAAAAGTTCAGGTACCAAATTGGGCC
Found at i:10325292 original size:28 final size:28
Alignment explanation
Indices: 10325216--10325295 Score: 108
Period size: 28 Copynumber: 2.8 Consensus size: 28
10325206 AATTAGAAAA
10325216 AAAAACAAGTTCATG-TACCAAATTGGGCC
1 AAAAA-AAGTTCA-GATACCAAATTGGGCC
*
10325245 AAAAAAAGTTCAGGTACCAAATTGGGCC
1 AAAAAAAGTTCAGATACCAAATTGGGCC
* *
10325273 AAAAAAAGTTTAGATTCCAAATT
1 AAAAAAAGTTCAGATACCAAATT
10325296 AGAAAAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
27 1 0.02
28 41 0.87
29 5 0.11
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (28 bp):
AAAAAAAGTTCAGATACCAAATTGGGCC
Found at i:10326577 original size:28 final size:30
Alignment explanation
Indices: 10326534--10326591 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
10326524 TAATAGCTCA
* *
10326534 GTGATTTAAATAAAAAAC-TTTGAATAGTT
1 GTGACTTAAATAAAAAACTTTTGAACAGTT
10326563 GTGACTTAAAT-AAAAACTTTTGAACAGTT
1 GTGACTTAAATAAAAAACTTTTGAACAGTT
10326592 CAATGACCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (30 bp):
GTGACTTAAATAAAAAACTTTTGAACAGTT
Found at i:10334624 original size:3 final size:3
Alignment explanation
Indices: 10334616--10334645 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10334606 AATATCTTAA
*
10334616 AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10334646 TCTAGTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10342456 original size:3 final size:3
Alignment explanation
Indices: 10342448--10342472 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10342438 TTTAAGCAAA
10342448 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
10342473 CAAAACTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10344936 original size:2 final size:2
Alignment explanation
Indices: 10344929--10344953 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10344919 GAAATTAGCA
10344929 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
10344954 AATTTCAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:10350832 original size:14 final size:14
Alignment explanation
Indices: 10350807--10350842 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
10350797 GGTTATTAAA
10350807 TTATTT-AAAAAAT
1 TTATTTAAAAAAAT
10350820 TTATTTAAAAAAAT
1 TTATTTAAAAAAAT
10350834 TTATTTAAA
1 TTATTTAAA
10350843 TCATTAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTATTTAAAAAAAT
Found at i:10353148 original size:60 final size:61
Alignment explanation
Indices: 10353055--10353169 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 61
10353045 TATATGGTTT
* *
10353055 TTTCTTTTTTTGGTCACCTATCTATAAACAGTTACAAAATGGTCATC-CAACTATTAGTAAA
1 TTTCTTTTTTTGGTCACCTAACTATAAACAGTTACAAAATGGACA-CACAACTATTAGTAAA
*
10353116 TTTC-TTTTTTGGTCACCTAACTATGAAA-AGTTATAAAATGGACACACAACTATT
1 TTTCTTTTTTTGGTCACCTAACTAT-AAACAGTTACAAAATGGACACACAACTATT
10353170 CAATTTTGTC
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
59 1 0.02
60 41 0.84
61 7 0.14
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.38
Consensus pattern (61 bp):
TTTCTTTTTTTGGTCACCTAACTATAAACAGTTACAAAATGGACACACAACTATTAGTAAA
Found at i:10353326 original size:60 final size:60
Alignment explanation
Indices: 10353232--10353378 Score: 181
Period size: 60 Copynumber: 2.5 Consensus size: 60
10353222 AAAATTTAAG
* *
10353232 ATAGTTGGGTGACCGAAAAAGACAAAATTGAATAGTTGAGTGACCATTTTGTAACTTTTC
1 ATAGTTGGGTGACCAAAAAAGACAAAACTGAATAGTTGAGTGACCATTTTGTAACTTTTC
* *
10353292 ATAGTTGGGTGACTAAAAAAGA-AAATCACT-AATAGTTGGGTGACCATTTTGTAACTTTTC
1 ATAGTTGGGTGACCAAAAAAGACAAA--ACTGAATAGTTGAGTGACCATTTTGTAACTTTTC
* ** * *
10353352 ATAGCTAAGTGATCAAAAAAGAAAAAA
1 ATAGTTGGGTGACCAAAAAAGACAAAA
10353379 ATCATAGTTG
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
59 4 0.05
60 66 0.88
61 5 0.07
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (60 bp):
ATAGTTGGGTGACCAAAAAAGACAAAACTGAATAGTTGAGTGACCATTTTGTAACTTTTC
Found at i:10356574 original size:30 final size:29
Alignment explanation
Indices: 10356540--10356608 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
10356530 TATTAATTAT
*
10356540 TTTTTAAAATTT-AAAATATGTTTTTAATAC
1 TTTTTAAAATTTAAAAATAT-TTTTTAA-AA
**
10356570 TTTTTAATTTTTCAAAAATATTTTTTAAAA
1 TTTTTAAAATTT-AAAAATATTTTTTAAAA
10356600 TTTTTAAAA
1 TTTTTAAAA
10356609 ATCAATTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
30 18 0.56
31 7 0.22
32 7 0.22
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (29 bp):
TTTTTAAAATTTAAAAATATTTTTTAAAA
Found at i:10356594 original size:21 final size:21
Alignment explanation
Indices: 10356565--10356610 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
10356555 ATATGTTTTT
10356565 AATACTTTTT-AATTTTTCAAA
1 AATACTTTTTAAATTTTT-AAA
*
10356586 AATATTTTTTAAAATTTTTAAA
1 AATACTTTTT-AAATTTTTAAA
10356608 AAT
1 AAT
10356611 CAATTAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 6 0.27
23 7 0.32
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (21 bp):
AATACTTTTTAAATTTTTAAA
Found at i:10358451 original size:29 final size:30
Alignment explanation
Indices: 10358408--10358469 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
10358398 TTTTTTTATA
*
10358408 AAAATAATATTAAAAATAAATTAATTAC-G
1 AAAATAATATGAAAAATAAATTAATTACAG
10358437 AAAATAATATGAAAAATAAATTAATTACAG
1 AAAATAATATGAAAAATAAATTAATTACAG
10358467 AAA
1 AAA
10358470 TGAGATGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (30 bp):
AAAATAATATGAAAAATAAATTAATTACAG
Found at i:10362636 original size:59 final size:59
Alignment explanation
Indices: 10362542--10362667 Score: 146
Period size: 59 Copynumber: 2.1 Consensus size: 59
10362532 TAAATTCAGT
* * * *
10362542 CAAAT-GTTACTAAACTATTAATAGGTTTACGTTTTGGTCAATAAATTTTAAAAAGTTA
1 CAAATGGTTACTAAACTATTAATAAGTTTACATTTTGGTCAATAAACTTCAAAAAGTTA
** * * * *
10362600 CAAATGGTTACTAATTTATTAGTAAGTTTATATTTTGGTCACTTAACTTCAAAAAGTTA
1 CAAATGGTTACTAAACTATTAATAAGTTTACATTTTGGTCAATAAACTTCAAAAAGTTA
10362659 CAAAATGGT
1 C-AAATGGT
10362668 CATTAAATTA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
58 5 0.09
59 44 0.79
60 7 0.12
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.40
Consensus pattern (59 bp):
CAAATGGTTACTAAACTATTAATAAGTTTACATTTTGGTCAATAAACTTCAAAAAGTTA
Found at i:10362701 original size:60 final size:59
Alignment explanation
Indices: 10362591--10362702 Score: 136
Period size: 60 Copynumber: 1.9 Consensus size: 59
10362581 AATAAATTTT
* * * **
10362591 AAAAAGTTACAAATGGTTACTAATTTATTAGTAAGTTTATATTTTGGTCACTTAACTTC
1 AAAAAGTTACAAATGGTCACTAAATTATTAGAAAGTTTATATTTAAGTCACTTAACTTC
* *
10362650 AAAAAGTTACAAAATGGTCATTAAATTATTTGAAAGTTT-TCATTTAAGTCACT
1 AAAAAGTTAC-AAATGGTCACTAAATTATTAGAAAGTTTAT-ATTTAAGTCACT
10362703 AAGCTACTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
59 11 0.25
60 33 0.75
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (59 bp):
AAAAAGTTACAAATGGTCACTAAATTATTAGAAAGTTTATATTTAAGTCACTTAACTTC
Found at i:10375161 original size:46 final size:46
Alignment explanation
Indices: 10375055--10375375 Score: 417
Period size: 46 Copynumber: 7.0 Consensus size: 46
10375045 TTTGACATGA
* * * * ** * * *
10375055 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
** * *
10375102 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*** *** * *
10375148 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
10375194 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
10375240 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
10375286 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
10375332 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
10375376 AGAGCACACT
Statistics
Matches: 250, Mismatches: 24, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
46 221 0.88
47 29 0.12
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:10377545 original size:18 final size:20
Alignment explanation
Indices: 10377518--10377566 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
10377508 TAATTAATAA
* *
10377518 TAAAATAATAAAATATCTCAT
1 TAAAATAAT-ATATATCTAAT
10377539 TAAAATAATATATATCTAAT
1 TAAAATAATATATATCTAAT
10377559 T-AAATAAT
1 TAAAATAAT
10377567 CATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 9 0.35
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATAATATATATCTAAT
Found at i:10377555 original size:20 final size:21
Alignment explanation
Indices: 10377518--10377577 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
10377508 TAATTAATAA
*
10377518 TAAAATAATAAAATATCTCAT
1 TAAAATAATAAAATATCTAAT
*
10377539 TAAAATAAT-ATATATCTAAT
1 TAAAATAATAAAATATCTAAT
*
10377559 TAAATAATCATAAAATATC
1 T-AA-AATAATAAAATATC
10377578 ATCAACATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.31
21 11 0.34
22 5 0.16
23 6 0.19
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATAATAAAATATCTAAT
Found at i:10388971 original size:6 final size:5
Alignment explanation
Indices: 10388936--10388962 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
10388926 TACTCTCTTG
10388936 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
10388963 TCATTTTCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:10390656 original size:18 final size:18
Alignment explanation
Indices: 10390635--10390669 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10390625 ACAAAAATTC
10390635 ATATAAAATA-ATATAATA
1 ATATAAAA-ACATATAATA
10390653 ATATAAAAACATATAAT
1 ATATAAAAACATATAAT
10390670 TATAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
ATATAAAAACATATAATA
Found at i:10390675 original size:16 final size:17
Alignment explanation
Indices: 10390635--10390675 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
10390625 ACAAAAATTC
10390635 ATATAAAATAATATAAT
1 ATATAAAATAATATAAT
10390652 AATATAAAA-ACATATAAT
1 -ATATAAAATA-ATATAAT
10390670 -TATAAA
1 ATATAAA
10390676 TATTATATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.27
17 1 0.05
18 15 0.68
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
ATATAAAATAATATAAT
Found at i:10391428 original size:24 final size:24
Alignment explanation
Indices: 10391378--10391428 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
10391368 AAAAGTAAAA
* * **
10391378 AAATAATTAAATTTTATGATATTT
1 AAATAATTAAATATAATGATACAT
*
10391402 AAATAATTTAATATAATGATACAT
1 AAATAATTAAATATAATGATACAT
10391426 AAA
1 AAA
10391429 ATGTAAATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
AAATAATTAAATATAATGATACAT
Found at i:10391553 original size:31 final size:31
Alignment explanation
Indices: 10391509--10391578 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
10391499 TTTAAAAATA
10391509 AATATAATAATAAATAAGATTTAAATAATTT
1 AATATAATAATAAATAAGATTTAAATAATTT
* * *
10391540 ACTATAATGATAAATAATATTTAAATAATTT
1 AATATAATAATAAATAAGATTTAAATAATTT
10391571 AATATAAT
1 AATATAAT
10391579 TGTATATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (31 bp):
AATATAATAATAAATAAGATTTAAATAATTT
Found at i:10392343 original size:25 final size:25
Alignment explanation
Indices: 10392293--10392344 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
10392283 ATTAATATAC
*
10392293 TATATATTATAATATTGTATGTATT
1 TATATATTATAATATTGTATCTATT
* *
10392318 TATATATTA-AATTTTTTATCTAATT
1 TATATATTATAATATTGTATCT-ATT
10392343 TA
1 TA
10392345 ATTCAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (25 bp):
TATATATTATAATATTGTATCTATT
Found at i:10392620 original size:14 final size:14
Alignment explanation
Indices: 10392603--10392635 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10392593 TATTTTTTAA
10392603 AATTAT-AAATATCT
1 AATTATGAAATA-CT
10392617 AATTATGAAATACT
1 AATTATGAAATACT
10392631 AATTA
1 AATTA
10392636 ATTTATGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (14 bp):
AATTATGAAATACT
Found at i:10393612 original size:15 final size:16
Alignment explanation
Indices: 10393564--10393614 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 16
10393554 ATTTTTACGA
*
10393564 TAAAAAAATA-ATTTT
1 TAAATAAATATATTTT
* * *
10393579 AAAATAAAAATATTAT
1 TAAATAAATATATTTT
10393595 TAAAT-AATATATTTT
1 TAAATAAATATATTTT
10393610 TAAAT
1 TAAAT
10393615 TTTCAAAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
15 20 0.71
16 8 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAATAAATATATTTT
Found at i:10393876 original size:21 final size:20
Alignment explanation
Indices: 10393819--10393908 Score: 67
Period size: 20 Copynumber: 4.3 Consensus size: 20
10393809 TATTGAAATT
*
10393819 TATTTTAAATATATAATATTA
1 TATTTT-AATATTTAATATTA
* *
10393840 TATATTTAATTTTTTATTAGTTA
1 TAT-TTTAA-TATTTAATA-TTA
*
10393863 TATTTTAATATTTAA-AATA
1 TATTTTAATATTTAATATTA
*
10393882 TATTTTATATATTCAA-ATTA
1 TATTTTA-ATATTTAATATTA
*
10393902 AATTTTA
1 TATTTTA
10393909 TAAATCATTA
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
19 9 0.16
20 17 0.30
21 10 0.18
22 14 0.25
23 6 0.11
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (20 bp):
TATTTTAATATTTAATATTA
Found at i:10393882 original size:45 final size:44
Alignment explanation
Indices: 10393793--10393882 Score: 101
Period size: 45 Copynumber: 2.0 Consensus size: 44
10393783 TTATATTTAG
*
10393793 TATATAATTAATTTCTTATTGAAATTTATTTTAAATATATAATAT
1 TATATAATTAATTTCTTATT-AAATTTATTTTAAATATAAAATAT
* * * *
10393838 TATATATTTAATTTTTTATT-AGTTATATTTTAATATTTAAAATAT
1 TATATAATTAATTTCTTATTAAATT-TATTTTAA-ATATAAAATAT
10393883 ATTTTATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
43 3 0.08
44 8 0.21
45 27 0.71
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (44 bp):
TATATAATTAATTTCTTATTAAATTTATTTTAAATATAAAATAT
Found at i:10397046 original size:24 final size:24
Alignment explanation
Indices: 10397001--10397047 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10396991 ACTCAAATTT
*
10397001 AAATTTAAAAAATTATTTTTATAC
1 AAATTTAAAAAATTATTATTATAC
*
10397025 AAATTATAAAAATTTA-TATTATA
1 AAATT-TAAAAAATTATTATTATA
10397048 AGCTTGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
AAATTTAAAAAATTATTATTATAC
Found at i:10404118 original size:12 final size:12
Alignment explanation
Indices: 10404098--10404131 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10404088 AGAAACTCAT
*
10404098 AAAATAAAATAA
1 AAAAAAAAATAA
10404110 AAAAAAAAATAA
1 AAAAAAAAATAA
*
10404122 AACAAAAAAT
1 AAAAAAAAAT
10404132 GACCAGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAAAAAAATAA
Found at i:10404118 original size:17 final size:17
Alignment explanation
Indices: 10404098--10404130 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10404088 AGAAACTCAT
*
10404098 AAAATAAAATAAAAAAA
1 AAAATAAAACAAAAAAA
10404115 AAAATAAAACAAAAAA
1 AAAATAAAACAAAAAA
10404131 TGACCAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (17 bp):
AAAATAAAACAAAAAAA
Found at i:10407102 original size:58 final size:58
Alignment explanation
Indices: 10407038--10407157 Score: 231
Period size: 58 Copynumber: 2.1 Consensus size: 58
10407028 ACTTGCTGGC
10407038 AGAAAGGAATAATAAAAACAAAAACAAAAGAAACGATAATGATAGTGAAGTAGAGAGG
1 AGAAAGGAATAATAAAAACAAAAACAAAAGAAACGATAATGATAGTGAAGTAGAGAGG
*
10407096 AGAAAGGAATAATAAAAATAAAAACAAAAGAAACGATAATGATAGTGAAGTAGAGAGG
1 AGAAAGGAATAATAAAAACAAAAACAAAAGAAACGATAATGATAGTGAAGTAGAGAGG
10407154 AGAA
1 AGAA
10407158 CTTCGGTAGG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.61, C:0.04, G:0.23, T:0.12
Consensus pattern (58 bp):
AGAAAGGAATAATAAAAACAAAAACAAAAGAAACGATAATGATAGTGAAGTAGAGAGG
Found at i:10410322 original size:16 final size:17
Alignment explanation
Indices: 10410291--10410323 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10410281 TTCATAAGTA
10410291 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
10410308 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
10410324 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:10415937 original size:52 final size:48
Alignment explanation
Indices: 10415918--10416121 Score: 267
Period size: 46 Copynumber: 4.3 Consensus size: 48
10415908 TGACAAGTGG
* *
10415918 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
10415964 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
10416016 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
10416062 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
10416108 AAAGTGATAAGTGA
1 AAAGTGATAAGTGA
10416122 CTACACTTAT
Statistics
Matches: 145, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 101 0.70
52 44 0.30
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:10415972 original size:98 final size:98
Alignment explanation
Indices: 10415852--10416121 Score: 459
Period size: 98 Copynumber: 2.7 Consensus size: 98
10415842 TTTGAGTACT
*
10415852 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
10415917 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
10415950 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
10416015 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
10416048 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
10416113 GATAAGTGA
65 GAAAAGTGA
10416122 CTACACTTAT
Statistics
Matches: 161, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 12 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:10416129 original size:37 final size:37
Alignment explanation
Indices: 10416084--10416266 Score: 298
Period size: 37 Copynumber: 5.0 Consensus size: 37
10416074 GATAGCTTTA
10416084 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* * *
10416121 ACTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
10416158 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
10416195 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
10416232 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
10416267 ATCATACGTA
Statistics
Matches: 135, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 120 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:10416193 original size:74 final size:74
Alignment explanation
Indices: 10416084--10416267 Score: 336
Period size: 74 Copynumber: 2.5 Consensus size: 74
10416074 GATAGCTTTA
10416084 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGACTACACTTATCTGATCAAGAAACAAAG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGACTACACTTATCTGATCAAGAAACAAAG
10416149 TGATAGGTG
66 TGATAGGTG
*
10416158 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGACTACACTTATCTGATCAAGAAACAAAG
10416223 TGATAGGTG
66 TGATAGGTG
*
10416232 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTGA
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGA
10416268 TCATACGTAA
Statistics
Matches: 107, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
72 12 0.11
73 5 0.05
74 90 0.84
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (74 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGACTACACTTATCTGATCAAGAAACAAAG
TGATAGGTG
Found at i:10417597 original size:58 final size:58
Alignment explanation
Indices: 10417520--10417687 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
10417510 CATGTGAACA
10417520 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
10417579 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
10417635 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
10417686 TG
1 TG
10417688 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:10417629 original size:28 final size:28
Alignment explanation
Indices: 10417539--10417629 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
10417529 GTGATTCCGT
10417539 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
10417567 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
10417596 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
10417625 GTAAG
1 GTAAG
10417630 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:10417652 original size:49 final size:49
Alignment explanation
Indices: 10417580--10417722 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
10417570 AGTGATATGT
* *
10417580 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
10417629 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
10417678 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
10417723 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:10420930 original size:52 final size:48
Alignment explanation
Indices: 10420911--10421114 Score: 258
Period size: 46 Copynumber: 4.3 Consensus size: 48
10420901 TGACAAGTGG
* *
10420911 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
*
10420957 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGGCAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
10421009 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
10421055 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
10421101 AAAGTGATAAGTGA
1 AAAGTGATAAGTGA
10421115 CTACACTTAT
Statistics
Matches: 143, Mismatches: 9, Indels: 12
0.87 0.05 0.07
Matches are distributed among these distances:
46 100 0.70
52 43 0.30
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:10420965 original size:98 final size:98
Alignment explanation
Indices: 10420845--10421114 Score: 450
Period size: 98 Copynumber: 2.7 Consensus size: 98
10420835 TTTGAGTACT
*
10420845 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
10420910 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
** *
10420943 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGGCAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
10421008 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
10421041 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
10421106 GATAAGTGA
65 GAAAAGTGA
10421115 CTACACTTAT
Statistics
Matches: 159, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
98 147 0.92
99 12 0.08
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:10421122 original size:37 final size:37
Alignment explanation
Indices: 10421077--10421259 Score: 298
Period size: 37 Copynumber: 5.0 Consensus size: 37
10421067 GATAGCTTTA
10421077 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* * *
10421114 ACTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
10421151 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
10421188 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
10421225 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
10421260 ATCATACGTA
Statistics
Matches: 135, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 120 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:10421186 original size:74 final size:74
Alignment explanation
Indices: 10421077--10421260 Score: 336
Period size: 74 Copynumber: 2.5 Consensus size: 74
10421067 GATAGCTTTA
10421077 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGACTACACTTATCTGATCAAGAAACAAAG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGACTACACTTATCTGATCAAGAAACAAAG
10421142 TGATAGGTG
66 TGATAGGTG
*
10421151 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGACTACACTTATCTGATCAAGAAACAAAG
10421216 TGATAGGTG
66 TGATAGGTG
*
10421225 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTGA
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGA
10421261 TCATACGTAA
Statistics
Matches: 107, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
72 12 0.11
73 5 0.05
74 90 0.84
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (74 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGACTACACTTATCTGATCAAGAAACAAAG
TGATAGGTG
Found at i:10422578 original size:6 final size:6
Alignment explanation
Indices: 10422567--10422616 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
10422557 TCTAAAATTT
* *
10422567 GTCATC GTCATC GTCATC TTCATC GTCA-- -TCATC GTCATC ATCATC
1 GTCATC GTCATC GTCATC GTCATC GTCATC GTCATC GTCATC GTCATC
*
10422612 ATCAT
1 GTCAT
10422617 TAGTAACTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
3 3 0.08
6 35 0.92
ACGTcount: A:0.22, C:0.32, G:0.10, T:0.36
Consensus pattern (6 bp):
GTCATC
Found at i:10422600 original size:9 final size:9
Alignment explanation
Indices: 10422568--10422616 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
10422558 CTAAAATTTG
10422568 TCATCGTCA
1 TCATCGTCA
* * *
10422577 TCGTCATCT
1 TCATCGTCA
10422586 TCATCGTCA
1 TCATCGTCA
10422595 TCATCGTCA
1 TCATCGTCA
*
10422604 TCATCATCA
1 TCATCGTCA
10422613 TCAT
1 TCAT
10422617 TAGTAACTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.22, C:0.33, G:0.08, T:0.37
Consensus pattern (9 bp):
TCATCGTCA
Found at i:10422924 original size:15 final size:15
Alignment explanation
Indices: 10422829--10422930 Score: 53
Period size: 15 Copynumber: 6.6 Consensus size: 15
10422819 ATGCTGCAGC
10422829 ACCAAATGCTGCTGTTAT
1 ACCAAATGCTGC-G--AT
* * *
10422847 ACCAAACGTTGCGGT
1 ACCAAATGCTGCGAT
**
10422862 ACCAAATGCTATTG-T
1 ACCAAATGCT-GCGAT
** *
10422877 ACCAAACACTGTGAT
1 ACCAAATGCTGCGAT
* *
10422892 GCCAAATGCTGCTAT
1 ACCAAATGCTGCGAT
* *
10422907 ACCGAATGCTGCGGT
1 ACCAAATGCTGCGAT
10422922 ACCAAATGC
1 ACCAAATGC
10422931 GAATGAGAAA
Statistics
Matches: 62, Mismatches: 20, Indels: 7
0.70 0.22 0.08
Matches are distributed among these distances:
14 2 0.03
15 48 0.77
16 1 0.02
17 1 0.02
18 10 0.16
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (15 bp):
ACCAAATGCTGCGAT
Found at i:10423135 original size:24 final size:24
Alignment explanation
Indices: 10423108--10423155 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
10423098 AATCAGTATG
10423108 ATAAATCGTAATTTATACATATTT
1 ATAAATCGTAATTTATACATATTT
10423132 ATAAATCGTAATTTATACATATTT
1 ATAAATCGTAATTTATACATATTT
10423156 TACCCCATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (24 bp):
ATAAATCGTAATTTATACATATTT
Found at i:10423469 original size:13 final size:13
Alignment explanation
Indices: 10423451--10423475 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10423441 CAGTAATCGC
10423451 ACACGGGCGTGTT
1 ACACGGGCGTGTT
10423464 ACACGGGCGTGT
1 ACACGGGCGTGT
10423476 CCCTGCCAAA
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:10433640 original size:21 final size:20
Alignment explanation
Indices: 10433599--10433640 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
10433589 CAAAACTTGT
*
10433599 ATAACTATCAATAAATA-TTC
1 ATAACTATCAAGAAA-ACTTC
10433619 ATAATCTATCAAGAAAACTTC
1 ATAA-CTATCAAGAAAACTTC
10433640 A
1 A
10433641 AAATACATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (20 bp):
ATAACTATCAAGAAAACTTC
Found at i:10433643 original size:120 final size:120
Alignment explanation
Indices: 10433446--10433683 Score: 390
Period size: 120 Copynumber: 2.0 Consensus size: 120
10433436 CCCCTAATTT
10433446 GCATTTTCACTAAAATCACTTAACAAAACTTATATAACTATAAAAAAAACATTCATAATCTATCA
1 GCATTTTCACTAAAATCACTTAACAAAACTTATATAACTATAAAAAAAACATTCATAATCTATCA
* *
10433511 AGAAACTTCAAAATACATACTTATTCATCAAT-GACAACTTTTAAAATCTTTAATA
66 AGAAACTTCAAAATACATACTTATTCATAAATGGA-AACTTTTAAAATATTTAATA
* * * *
10433566 GCATTTTCACTAAAATCACTTAACAAAACTTGTATAACTAT-CAATAAATATTCATAATCTATCA
1 GCATTTTCACTAAAATCACTTAACAAAACTTATATAACTATAAAAAAAACATTCATAATCTATCA
10433630 AGAAAACTTCAAAATACATACTTATTCATAAATGGAAACTTTTAAAATATTTAA
66 AG-AAACTTCAAAATACATACTTATTCATAAATGGAAACTTTTAAAATATTTAA
10433684 CAGTTTTGCA
Statistics
Matches: 110, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
119 22 0.20
120 86 0.78
121 2 0.02
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.33
Consensus pattern (120 bp):
GCATTTTCACTAAAATCACTTAACAAAACTTATATAACTATAAAAAAAACATTCATAATCTATCA
AGAAACTTCAAAATACATACTTATTCATAAATGGAAACTTTTAAAATATTTAATA
Found at i:10436055 original size:15 final size:15
Alignment explanation
Indices: 10436032--10436238 Score: 211
Period size: 15 Copynumber: 13.8 Consensus size: 15
10436022 CCTCTACCAT
*
10436032 TGTACCAAATGTTGC
1 TGTACCAAATGCTGC
* *
10436047 AGCACCAAATGCTGC
1 TGTACCAAATGCTGC
* *
10436062 AGTACCAAATGCAGC
1 TGTACCAAATGCTGC
*
10436077 TGTACCAAATGCTAC
1 TGTACCAAATGCTGC
*
10436092 -GATACCAAATACTGC
1 TG-TACCAAATGCTGC
* * *
10436107 TGTTCCAAATGTTGT
1 TGTACCAAATGCTGC
* *
10436122 TGTACCAAACGTTGC
1 TGTACCAAATGCTGC
*
10436137 GGTACCAAATGCTGC
1 TGTACCAAATGCTGC
* *
10436152 TGTACCAGATGTTGC
1 TGTACCAAATGCTGC
* *
10436167 GGTACCAAATGTTGC
1 TGTACCAAATGCTGC
*
10436182 TGTACCAAATGTTGC
1 TGTACCAAATGCTGC
10436197 -GATACCAAATGCTGC
1 TG-TACCAAATGCTGC
10436212 TGTACCAAATGCTGC
1 TGTACCAAATGCTGC
*
10436227 GGTACCAAATGC
1 TGTACCAAATGC
10436239 GAACGAGAAA
Statistics
Matches: 160, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
14 2 0.01
15 156 0.98
16 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (15 bp):
TGTACCAAATGCTGC
Found at i:10436069 original size:30 final size:30
Alignment explanation
Indices: 10436032--10436238 Score: 236
Period size: 30 Copynumber: 6.9 Consensus size: 30
10436022 CCTCTACCAT
* *
10436032 TGTACCAAATGTTGCAGCACCAAATGCTGC
1 TGTACCAAATGTTGCGGTACCAAATGCTGC
* ** * *
10436062 AGTACCAAATGCAGCTGTACCAAATGCTAC
1 TGTACCAAATGTTGCGGTACCAAATGCTGC
** * * * *
10436092 -GATACCAAATACTGCTGTTCCAAATGTTGT
1 TG-TACCAAATGTTGCGGTACCAAATGCTGC
*
10436122 TGTACCAAACGTTGCGGTACCAAATGCTGC
1 TGTACCAAATGTTGCGGTACCAAATGCTGC
* *
10436152 TGTACCAGATGTTGCGGTACCAAATGTTGC
1 TGTACCAAATGTTGCGGTACCAAATGCTGC
*
10436182 TGTACCAAATGTTGCGATACCAAATGCTGC
1 TGTACCAAATGTTGCGGTACCAAATGCTGC
*
10436212 TGTACCAAATGCTGCGGTACCAAATGC
1 TGTACCAAATGTTGCGGTACCAAATGC
10436239 GAACGAGAAA
Statistics
Matches: 148, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
29 1 0.01
30 146 0.99
31 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (30 bp):
TGTACCAAATGTTGCGGTACCAAATGCTGC
Found at i:10443497 original size:42 final size:43
Alignment explanation
Indices: 10443387--10443501 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
10443377 AGAACATATA
* * *
10443387 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACAT
1 CAATGCCAATGTCCCAAACATGGTCTTACATGTAATCAAACAT
* * * * * *
10443430 CAATGCCACTGCCCCACATAGGGTCTTACATG-AAGTCAAATAT
1 CAATGCCAATGTCCCAAACATGGTCTTACATGTAA-TCAAACAT
*
10443473 -GATGCCAATGTCCCAAACATGGTCTTACA
1 CAATGCCAATGTCCCAAACATGGTCTTACA
10443502 CGCAAAACAG
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
CAATGCCAATGTCCCAAACATGGTCTTACATGTAATCAAACAT
Found at i:10445150 original size:124 final size:124
Alignment explanation
Indices: 10444924--10445172 Score: 462
Period size: 124 Copynumber: 2.0 Consensus size: 124
10444914 TAAGATATGG
10444924 ATTGGAGTTTCATCGTAAGTCATATCAGACTGAATTTCAATCTCAGACGGGGAAATCACATGCGA
1 ATTGGAGTTTCATCGTAAGTCATATCAGACTGAATTTCAATCTCAGACGGGGAAATCACATGCGA
*
10444989 CGGATCAGATCTGTATCGTCAAAGCACCGATATATGAAACACATCATGAATCTTTTCTA
66 CGGATCAGATCTGTATCGTCAAAGCACCGATACATGAAACACATCATGAATCTTTTCTA
*
10445048 ATTGGCGTTTCATCGTAAGTCATATCAGACTGAATTTCAATCTCAGACGGGGAAATCACATGCGA
1 ATTGGAGTTTCATCGTAAGTCATATCAGACTGAATTTCAATCTCAGACGGGGAAATCACATGCGA
* *
10445113 CGGATCAGATCTGTATCGTCAAAGCACTGATACATGAAACACATCATGAATTTTTTCTA
66 CGGATCAGATCTGTATCGTCAAAGCACCGATACATGAAACACATCATGAATCTTTTCTA
10445172 A
1 A
10445173 CTCTGGTGGC
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 121 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (124 bp):
ATTGGAGTTTCATCGTAAGTCATATCAGACTGAATTTCAATCTCAGACGGGGAAATCACATGCGA
CGGATCAGATCTGTATCGTCAAAGCACCGATACATGAAACACATCATGAATCTTTTCTA
Done.