Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 323 of 378
Found at i:98190205 original size:84 final size:85
Alignment explanation
Indices: 98190070--98190465 Score: 528
Period size: 92 Copynumber: 4.5 Consensus size: 85
98190060 AGTGTGCTCT
98190070 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG-TGTGTAAGACCATGG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATGTGTAAGACCATGG
98190134 TTGAAAGATACCATGGCAAC
66 TTGAAAGATACCATGGCAAC
98190154 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG-TGTGTAAGACCATGG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATGTGTAAGACCATGG
*
98190218 TTGACAGATACCATGGCAAC
66 TTGAAAGATACCATGGCAAC
98190238 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--GATGTGTAAG
*
98190303 ACTATGGTTGAAAGATACCATGGCAAC
59 ACCATGGTTGAAAGATACCATGGCAAC
* * *
98190330 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--ATG---TG--TAAG
98190395 ACCATGGTTGAAAGATACCATGGCAAC
59 ACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
98190422 ATGACA-GAAAATGAGTAAGATCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
98190466 TCACGTCAAA
Statistics
Matches: 281, Mismatches: 15, Indels: 24
0.88 0.05 0.08
Matches are distributed among these distances:
84 130 0.46
85 1 0.00
87 4 0.01
89 1 0.00
90 1 0.00
91 2 0.01
92 142 0.51
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (85 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATGTGTAAGACCATGG
TTGAAAGATACCATGGCAAC
Found at i:98197202 original size:27 final size:27
Alignment explanation
Indices: 98197172--98197226 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
98197162 TTGTATAAAG
98197172 ATAGTATTTCAAATGATTTGATGAGTA
1 ATAGTATTTCAAATGATTTGATGAGTA
98197199 ATAGTATTTCAAATGATTTGATGAGTA
1 ATAGTATTTCAAATGATTTGATGAGTA
98197226 A
1 A
98197227 AGCTCCAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (27 bp):
ATAGTATTTCAAATGATTTGATGAGTA
Found at i:98197551 original size:52 final size:52
Alignment explanation
Indices: 98197487--98197591 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
98197477 GAATATAAAG
98197487 AAGCGGTAAGTTAATTACCATGTTAGACGAATTTATTAAATATTACATGTTT
1 AAGCGGTAAGTTAATTACCATGTTAGACGAATTTATTAAATATTACATGTTT
*
98197539 AAGCGGTAAGTTAATTACCATGTTATACGAATTTATTAAATATTACATGTTT
1 AAGCGGTAAGTTAATTACCATGTTAGACGAATTTATTAAATATTACATGTTT
98197591 A
1 A
98197592 CTTTGTTTTA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (52 bp):
AAGCGGTAAGTTAATTACCATGTTAGACGAATTTATTAAATATTACATGTTT
Found at i:98197577 original size:25 final size:25
Alignment explanation
Indices: 98197497--98197577 Score: 58
Period size: 25 Copynumber: 3.2 Consensus size: 25
98197487 AAGCGGTAAG
*
98197497 TTAATTACCATGTTAGACGAATTTA
1 TTAATTACCATGTTATACGAATTTA
* *** *
98197522 TTAAATATTA-CATGTT-TAAGCGGTAA
1 TT--A-ATTACCATGTTATACGAATTTA
98197548 GTTAATTACCATGTTATACGAATTTA
1 -TTAATTACCATGTTATACGAATTTA
98197574 TTAA
1 TTAA
98197578 ATATTACATG
Statistics
Matches: 39, Mismatches: 11, Indels: 12
0.63 0.18 0.19
Matches are distributed among these distances:
24 4 0.10
25 13 0.33
26 9 0.23
27 9 0.23
28 4 0.10
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (25 bp):
TTAATTACCATGTTATACGAATTTA
Found at i:98197588 original size:27 final size:28
Alignment explanation
Indices: 98197500--98197589 Score: 75
Period size: 27 Copynumber: 3.4 Consensus size: 28
98197490 CGGTAAGTTA
*
98197500 ATTACCATGTTAGACGAATTTATTAAAT
1 ATTACCATGTTATACGAATTTATTAAAT
* *** *
98197528 ATTA-CATGTT-TAAGCGGTAAGTT--A-
1 ATTACCATGTTATACGAATTTA-TTAAAT
98197552 ATTACCATGTTATACGAATTTATTAAAT
1 ATTACCATGTTATACGAATTTATTAAAT
98197580 ATTA-CATGTT
1 ATTACCATGTT
98197590 TACTTTGTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 13
0.65 0.16 0.19
Matches are distributed among these distances:
24 4 0.09
25 9 0.20
26 9 0.20
27 15 0.33
28 8 0.18
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (28 bp):
ATTACCATGTTATACGAATTTATTAAAT
Found at i:98198651 original size:13 final size:13
Alignment explanation
Indices: 98198633--98198657 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98198623 TTTACAGGGA
98198633 CATGCCCGTGTGC
1 CATGCCCGTGTGC
98198646 CATGCCCGTGTG
1 CATGCCCGTGTG
98198658 AAGGTGCTCA
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:0.08, C:0.36, G:0.32, T:0.24
Consensus pattern (13 bp):
CATGCCCGTGTGC
Found at i:98200850 original size:6 final size:6
Alignment explanation
Indices: 98200816--98200855 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
98200806 TTAAAACATG
* * *
98200816 AAAAAT GAAAAT AGAAAT AAAAAT AAAAAT AAAAAC AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
98200856 GCAAAAGCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.80, C:0.03, G:0.05, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:98212066 original size:45 final size:45
Alignment explanation
Indices: 98211938--98212066 Score: 177
Period size: 45 Copynumber: 2.9 Consensus size: 45
98211928 TCCTCACTTC
* *
98211938 CATCTTGATGCCATAACATCTTTCAGCTATGGTATTACCTGTTTT
1 CATCATGATGCCATAACATCTTTCAGCTATGGTATTACTTGTTTT
* * *
98211983 CATCATGTTGCCATAACATCTTTCATCTATGGTCTTACTTGTTTT
1 CATCATGATGCCATAACATCTTTCAGCTATGGTATTACTTGTTTT
* * * *
98212028 CATCATGATGTCATAGCATCTTTCGGCTATGGTTTTACT
1 CATCATGATGCCATAACATCTTTCAGCTATGGTATTACT
98212067 CATTTCTGTT
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (45 bp):
CATCATGATGCCATAACATCTTTCAGCTATGGTATTACTTGTTTT
Found at i:98212574 original size:5 final size:5
Alignment explanation
Indices: 98212560--98212606 Score: 69
Period size: 5 Copynumber: 9.4 Consensus size: 5
98212550 GTCTTTTGTG
*
98212560 AAAA- AAAAT AAAAT AAAAT AAAAT AAAAT AAAGAA AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AA
98212607 CTCAAATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
4 4 0.10
5 31 0.79
6 4 0.10
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:98217030 original size:5 final size:5
Alignment explanation
Indices: 98217020--98217066 Score: 67
Period size: 5 Copynumber: 9.0 Consensus size: 5
98217010 CCAATTTGTG
*
98217020 AATAA AATAA AATAA AATAA AATAA AATAAA GAAAAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AAT-AA -AATAA AATAA AATAA
98217067 CACAAATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 32 0.84
6 4 0.11
7 2 0.05
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:98221426 original size:22 final size:23
Alignment explanation
Indices: 98221391--98221455 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
98221381 GCTTACTATC
* *
98221391 CAGCACTTCGGTGCCTTCTG-AT
1 CAGCACTTCAGTGCCTACTGTAT
* *
98221413 CAGCACTTTAGTGCCTACTGTTT
1 CAGCACTTCAGTGCCTACTGTAT
*
98221436 AAGCACTTCAGTGCCTACTG
1 CAGCACTTCAGTGCCTACTG
98221456 GTATGGTGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 17 0.47
23 19 0.53
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.32
Consensus pattern (23 bp):
CAGCACTTCAGTGCCTACTGTAT
Found at i:98224495 original size:5 final size:5
Alignment explanation
Indices: 98224487--98224525 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
98224477 ATTTAATTAG
*
98224487 TAAAT TAAAT TAAAT TAAAT TAAAT T-AAT TAAAA TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
98224526 AATATTTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
TAAAT
Found at i:98224507 original size:15 final size:14
Alignment explanation
Indices: 98224487--98224525 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
98224477 ATTTAATTAG
98224487 TAAATTAAATTAAAT
1 TAAATTAAATT-AAT
98224502 TAAATTAAATTAAT
1 TAAATTAAATTAAT
*
98224516 TAAAATAAAT
1 TAAATTAAAT
98224526 AATATTTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAATTAAATTAAT
Found at i:98226890 original size:42 final size:42
Alignment explanation
Indices: 98226843--98226928 Score: 122
Period size: 42 Copynumber: 2.0 Consensus size: 42
98226833 TCCTTCTTTT
*
98226843 GTGGAAAAAATGTTA-TAA-TTTAAGTGCTAATTTTGTATTTAA
1 GTGGAAAAAATG-TAGTAATTTTAAG-GCTAATTTTGTACTTAA
*
98226885 GTGGAAATAATGTAGTAATTTTAAGGCTAATTTTGTACTTAA
1 GTGGAAAAAATGTAGTAATTTTAAGGCTAATTTTGTACTTAA
98226927 GT
1 GT
98226929 CTACAATAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
41 2 0.05
42 32 0.80
43 6 0.15
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (42 bp):
GTGGAAAAAATGTAGTAATTTTAAGGCTAATTTTGTACTTAA
Found at i:98228757 original size:21 final size:23
Alignment explanation
Indices: 98228733--98228783 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
98228723 AAATGGTAGC
*
98228733 AAAATAGTGAA-AAAATAAT-AA
1 AAAATAGTAAAGAAAATAATAAA
98228754 AAAATA-TAAAGAAAATAATAAA
1 AAAATAGTAAAGAAAATAATAAA
98228776 AAAATAGT
1 AAAATAGT
98228784 TTTTTTCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 3 0.12
21 14 0.54
22 8 0.31
23 1 0.04
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.20
Consensus pattern (23 bp):
AAAATAGTAAAGAAAATAATAAA
Found at i:98228762 original size:12 final size:11
Alignment explanation
Indices: 98228742--98228781 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
98228732 CAAAATAGTG
98228742 AAAAAATAAT-
1 AAAAAATAATA
98228752 AAAAAAT-ATA
1 AAAAAATAATA
98228762 AAGAAAATAATA
1 AA-AAAATAATA
98228774 AAAAAATA
1 AAAAAATA
98228782 GTTTTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.07
10 9 0.33
11 11 0.41
12 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (11 bp):
AAAAAATAATA
Found at i:98235629 original size:17 final size:18
Alignment explanation
Indices: 98235597--98235631 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
98235587 TATGCACAAC
98235597 ATGTTCCATCCAGTTTCA
1 ATGTTCCATCCAGTTTCA
*
98235615 ATGTTCCA-GCAGTTTCA
1 ATGTTCCATCCAGTTTCA
98235632 GGTGCTGCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (18 bp):
ATGTTCCATCCAGTTTCA
Found at i:98237465 original size:14 final size:14
Alignment explanation
Indices: 98237428--98237475 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
98237418 AATTTTCTAA
*
98237428 TAAAAATTCAGCAC
1 TAAAAATTCAGTAC
* *
98237442 TTATAAAATTTAGTAG
1 -TA-AAAATTCAGTAC
98237458 TAAAAATTCAGTAC
1 TAAAAATTCAGTAC
98237472 TAAA
1 TAAA
98237476 TTTTTCAGCG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 14 0.52
15 4 0.15
16 9 0.33
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.31
Consensus pattern (14 bp):
TAAAAATTCAGTAC
Found at i:98243918 original size:2 final size:2
Alignment explanation
Indices: 98243911--98243941 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
98243901 TATGCATGCT
*
98243911 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
98243942 TGAACTCGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:98245762 original size:16 final size:17
Alignment explanation
Indices: 98245741--98245775 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
98245731 TAGGGTTGAA
*
98245741 AAGAAA-GATTTAGAAG
1 AAGAAAGGATTGAGAAG
98245757 AAGAAAGGATTGAGAAG
1 AAGAAAGGATTGAGAAG
98245774 AA
1 AA
98245776 AGAACTGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.29, T:0.14
Consensus pattern (17 bp):
AAGAAAGGATTGAGAAG
Found at i:98252720 original size:48 final size:50
Alignment explanation
Indices: 98252618--98252741 Score: 216
Period size: 48 Copynumber: 2.5 Consensus size: 50
98252608 CCATGGCAAC
98252618 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
98252668 AAGTGATAAGTGATAGCTTCGGCTACAC-T-TCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
* *
98252716 AAGTGATAAGTGGTAGCTTCAGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
98252742 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
48 43 0.60
49 1 0.01
50 28 0.39
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
Found at i:98252758 original size:31 final size:31
Alignment explanation
Indices: 98252716--98252793 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
98252706 GGAAAAGTGA
* * *
98252716 AAGTGATAAGTGGTAGCTTCAGCTACCTGAT
1 AAGTGAAAAGTGGTAGCTCCAGCTACCTAAT
* * *
98252747 CAGTGAAAAGTGGTAACTCCGGCTACCTAAT
1 AAGTGAAAAGTGGTAGCTCCAGCTACCTAAT
*
98252778 AAGTGACAAGTGGTAG
1 AAGTGAAAAGTGGTAG
98252794 TACCGGCTAC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (31 bp):
AAGTGAAAAGTGGTAGCTCCAGCTACCTAAT
Found at i:98252895 original size:47 final size:46
Alignment explanation
Indices: 98252826--98253034 Score: 192
Period size: 47 Copynumber: 4.5 Consensus size: 46
98252816 ATTTCCGTAC
* * * *
98252826 AAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTAT
1 AAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATAC-GTGT
* ** * *
98252873 AAGACCATATCTGGGATATGGCATTAGTGAGATATGTGATTCGTGT
1 AAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACGTGT
* * *
98252919 AAGACCATAGCTGGGCTATGCCATCGATATGTGATATGTGATTACGTGT
1 AAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTGA-TACGTGT
* * * *
98252968 AAGACCATAGCTGGGCTATGGCATC-G-AT-ATATG-AATATGTGT
1 AAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACGTGT
* *
98253010 AAGACCATAGCTGGGCTATGACATC
1 AAGACCATAGCTGGGATATGGCATC
98253035 ATTATGTGAA
Statistics
Matches: 138, Mismatches: 21, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
42 30 0.22
43 1 0.01
44 5 0.04
45 1 0.01
46 24 0.17
47 36 0.26
48 11 0.08
49 30 0.22
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (46 bp):
AAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACGTGT
Found at i:98252973 original size:49 final size:48
Alignment explanation
Indices: 98252903--98253043 Score: 188
Period size: 49 Copynumber: 3.0 Consensus size: 48
98252893 GCATTAGTGA
*
98252903 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGCCATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
* *
98252951 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATAT
1 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
98253000 GA-A--T-A-T-GTGTAAGACCATAGCTGGGCTATGACATC-ATTATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGA-TATGT
98253042 GA
1 GA
98253044 AGATGTGTAA
Statistics
Matches: 87, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
41 1 0.01
42 34 0.39
44 1 0.01
45 1 0.01
46 1 0.01
48 12 0.14
49 37 0.43
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
Found at i:98253010 original size:42 final size:43
Alignment explanation
Indices: 98252915--98253078 Score: 172
Period size: 42 Copynumber: 3.7 Consensus size: 43
98252905 TATGTGATTC
* *
98252915 GTGTAAGACCATAGCTGGGCTATGCCATCGATATGTGATATG-TGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
*
98252962 ACGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* *
98253006 GTGTAAGACCATAGCTGGGCTATGACATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
98253048 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
98253079 GAAAACGAAG
Statistics
Matches: 102, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 62 0.61
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 29 0.28
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:98255012 original size:2 final size:2
Alignment explanation
Indices: 98255005--98255044 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
98254995 GTTTATAGGG
98255005 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
98255045 TATTAGTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:98264943 original size:11 final size:11
Alignment explanation
Indices: 98264929--98264975 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
98264919 TAATTAGATA
98264929 AATATTATTTT
1 AATATTATTTT
*
98264940 AATAATATTTT
1 AATATTATTTT
98264951 AATAATATATTTT
1 AAT-AT-TATTTT
*
98264964 ATTATTATTTT
1 AATATTATTTT
98264975 A
1 A
98264976 TTAGTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 20 0.65
12 3 0.10
13 8 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
AATATTATTTT
Found at i:98264962 original size:24 final size:24
Alignment explanation
Indices: 98264929--98264984 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
98264919 TAATTAGATA
98264929 AATATTATTTTAATAATATTTTAAT
1 AATA-TATTTTAATAATATTTTAAT
* * *
98264954 AATATATTTTATTATTATTTTATT
1 AATATATTTTAATAATATTTTAAT
*
98264978 AGTATAT
1 AATATAT
98264985 AAAGAAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
AATATATTTTAATAATATTTTAAT
Found at i:98267132 original size:46 final size:46
Alignment explanation
Indices: 98267081--98267353 Score: 404
Period size: 46 Copynumber: 5.9 Consensus size: 46
98267071 GTGTGCTCTC
* * *
98267081 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
98267127 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* *
98267173 TGATATGAAATGAGTAAGACCATGATTGAAAGATACCATGGCAATG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
98267219 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * *
98267265 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * * *
98267311 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
98267354 TTATGTCAAA
Statistics
Matches: 212, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 211 1.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:98268914 original size:104 final size:104
Alignment explanation
Indices: 98268789--98269340 Score: 521
Period size: 104 Copynumber: 5.3 Consensus size: 104
98268779 GCTAACTCAA
* *
98268789 AGAGATATAGGTTGCGATCTTAAATCAGCTAACCTTTAAACATCATATTGGGAATGTAGGTCTGC
1 AGAGATATAGGTTGCGATCTTAAATCAGCTAACCTTTAAACATCATATTGGGAACGTAGGTCCGC
* * * * *
98268854 AAGTTGTTTGGGAGATGCAATCTTAAATCAGCT-ACTTAG
66 GAGCTATTTGGGAGTTGCAATCTTAAAT-AGTTAACTTAG
* ** *
98268893 AGAGATATAGGTT-CCAGTCTTAAATCAAATAACCTTTAAACATCA-ATTGGGAACGTAGGTCCA
1 AGAGATATAGGTTGCGA-TCTTAAATCAGCTAACCTTTAAACATCATATTGGGAACGTAGGTCCG
** * * * *
98268956 CGATTTTTTTGGGAGTTACGAA-CTTAAATAAATTAACTCAG
65 CGAGCTATTTGGGAGTTGC-AATCTTAAAT-AGTTAACTTAG
* * * * * *
98268997 AGAGATATAGG-TACGATCTTAAATCAGCTAACCTTTAAACTTCA-ACTGGTAACATAGGTCCGT
1 AGAGATATAGGTTGCGATCTTAAATCAGCTAACCTTTAAACATCATATTGGGAACGTAGGTCCGC
**
98269060 GAGCTATTTGGGAGTTG-AGATCTTAAATAAACTAACTTAG
66 GAGCTATTTGGGAGTTGCA-ATCTTAAAT-AGTTAACTTAG
* * * * * *
98269100 AGAGATTTAGGTTGCGATATTAAATCAGCTAACCTTTAAATATCAT-CTGAGAACGTAGGTCCGT
1 AGAGATATAGGTTGCGATCTTAAATCAGCTAACCTTTAAACATCATATTGGGAACGTAGGTCCGC
* * *
98269164 GAGCTATTTGGGAGTTGCGATATTAAATATGTTAACTCAG
66 GAGCTATTTGGGAGTTGCAATCTTAAATA-GTTAACTTAG
* * * * * * * *
98269204 AGAAATTTAGGTTACGATTTTAAATCAACTAATCTTTAAACAT--TAGTTGGGAATGTAAGTCCG
1 AGAGATATAGGTTGCGATCTTAAATCAGCTAACCTTTAAACATCATA-TTGGGAACGTAGGTCCG
* * **
98269267 CAAGCTGTTTGGGAGTTGTGATCTTAAATATGTTAACTTAG
65 CGAGCTATTTGGGAGTTGCAATCTTAAATA-GTTAACTTAG
* *
98269308 AGAGATTTAGGTTGCGATCTTAAATCAGGTAAC
1 AGAGATATAGGTTGCGATCTTAAATCAGCTAAC
98269341 TCAGAGAGAT
Statistics
Matches: 371, Mismatches: 65, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
101 1 0.00
102 2 0.01
103 121 0.33
104 247 0.67
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (104 bp):
AGAGATATAGGTTGCGATCTTAAATCAGCTAACCTTTAAACATCATATTGGGAACGTAGGTCCGC
GAGCTATTTGGGAGTTGCAATCTTAAATAGTTAACTTAG
Found at i:98269028 original size:207 final size:207
Alignment explanation
Indices: 98268781--98269334 Score: 629
Period size: 207 Copynumber: 2.7 Consensus size: 207
98268771 TTAACTCTGC
* *
98268781 TAACTCAAAGAGATATAGGTTGCGATCTTAAATCAGCTAACCTTTAAACATCATATTGGGAATGT
1 TAACTCAGAGAGATATAGGTTACGATCTTAAATCAGCTAACCTTTAAACATCATATTGGGAATGT
* * * * *
98268846 AGGTCTGCAAGTTGTTTGGGAGATGCAATCTTAAATCAGCT-ACTTAGAGAGATATAGGTT-CCA
66 AGGTCCGCAAGCTGTTTGGGAGTTG-AATCTTAAAT-AGCTAACTTAGAGAGATTTAGGTTGCGA
* ** *
98268909 GTCTTAAATCAAATAACCTTTAAACATCAAT-TGGGAACGTAGGTCCACGATTTTTTTGGGAGTT
129 -TCTTAAATCAAATAACCTTTAAACATC-ATCTGAGAACGTAGGTCCACGAGCTATTTGGGAGTT
98268973 ACGA-ACTTAAATAAAT
192 ACGATA-TTAAATAAAT
* * * **
98268989 TAACTCAGAGAGATATAGG-TACGATCTTAAATCAGCTAACCTTTAAACTTCA-ACTGGTAACAT
1 TAACTCAGAGAGATATAGGTTACGATCTTAAATCAGCTAACCTTTAAACATCATATTGGGAATGT
** * *
98269052 AGGTCCGTGAGCTATTTGGGAGTTGAGATCTTAAATAAACTAACTTAGAGAGATTTAGGTTGCGA
66 AGGTCCGCAAGCTGTTTGGGAGTTGA-ATCTTAAAT-AGCTAACTTAGAGAGATTTAGGTTGCGA
* ** * ** *
98269117 TATTAAATCAGCTAACCTTTAAATATCATCTGAGAACGTAGGTCCGTGAGCTATTTGGGAGTTGC
129 TCTTAAATCAAATAACCTTTAAACATCATCTGAGAACGTAGGTCCACGAGCTATTTGGGAGTTAC
**
98269182 GATATTAAATATGT
194 GATATTAAATAAAT
* * * * *
98269196 TAACTCAGAGAAATTTAGGTTACGATTTTAAATCAACTAATCTTTAAACAT--TAGTTGGGAATG
1 TAACTCAGAGAGATATAGGTTACGATCTTAAATCAGCTAACCTTTAAACATCATA-TTGGGAATG
* * *
98269259 TAAGTCCGCAAGCTGTTTGGGAGTTGTGATCTTAAATATGTTAACTTAGAGAGATTTAGGTTGCG
65 TAGGTCCGCAAGCTGTTTGGGAGTTG-AATCTTAAATA-GCTAACTTAGAGAGATTTAGGTTGCG
98269324 ATCTTAAATCA
128 ATCTTAAATCA
98269335 GGTAACTCAG
Statistics
Matches: 288, Mismatches: 48, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
205 1 0.00
206 40 0.14
207 129 0.45
208 118 0.41
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (207 bp):
TAACTCAGAGAGATATAGGTTACGATCTTAAATCAGCTAACCTTTAAACATCATATTGGGAATGT
AGGTCCGCAAGCTGTTTGGGAGTTGAATCTTAAATAGCTAACTTAGAGAGATTTAGGTTGCGATC
TTAAATCAAATAACCTTTAAACATCATCTGAGAACGTAGGTCCACGAGCTATTTGGGAGTTACGA
TATTAAATAAAT
Found at i:98269341 original size:37 final size:37
Alignment explanation
Indices: 98269281--98269358 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
98269271 CTGTTTGGGA
* * *
98269281 GTTGTGATCTTAAATATGTTAACTTAGAGAGATTTAG
1 GTTGCGATCTTAAATATGGTAACTCAGAGAGATTTAG
98269318 GTTGCGATCTTAAATCA-GGTAACTCAGAGAGATTTAG
1 GTTGCGATCTTAAAT-ATGGTAACTCAGAGAGATTTAG
98269355 GTTG
1 GTTG
98269359 TTATCATTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (37 bp):
GTTGCGATCTTAAATATGGTAACTCAGAGAGATTTAG
Found at i:98271093 original size:13 final size:13
Alignment explanation
Indices: 98271075--98271101 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
98271065 AACTAATTAT
98271075 TAGACTAATAGGC
1 TAGACTAATAGGC
98271088 TAGACTAATAGGC
1 TAGACTAATAGGC
98271101 T
1 T
98271102 TCTCAAAAGA
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:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (13 bp):
TAGACTAATAGGC
Found at i:98273656 original size:20 final size:21
Alignment explanation
Indices: 98273617--98273656 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
98273607 TGTGTTTGCT
* *
98273617 TTCCGTTTAGCTCTTATGAGC
1 TTCCGTTTAACTCATATGAGC
98273638 TTCCG-TTAACTCATATGAG
1 TTCCGTTTAACTCATATGAG
98273657 TTTCAGTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (21 bp):
TTCCGTTTAACTCATATGAGC
Found at i:98280529 original size:21 final size:22
Alignment explanation
Indices: 98280503--98280570 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 22
98280493 AATTAGTTAA
98280503 AATCCAAATCTAAATTTAAATT
1 AATCCAAATCTAAATTTAAATT
*
98280525 -ATCCAAATAATAAATTTAAATT
1 AATCCAAAT-CTAAATTTAAATT
*
98280547 AATTCAAAATCTTAAATTTCAAAT
1 AA-TCCAAATC-TAAATTT-AAAT
98280571 ATGTTAAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 8 0.21
22 12 0.32
23 1 0.03
24 13 0.34
25 4 0.11
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
AATCCAAATCTAAATTTAAATT
Found at i:98280538 original size:22 final size:21
Alignment explanation
Indices: 98280504--98280547 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
98280494 ATTAGTTAAA
*
98280504 ATCCAAATCTAAATTTAAATT
1 ATCCAAATATAAATTTAAATT
98280525 ATCCAAATAATAAATTTAAATT
1 ATCCAAAT-ATAAATTTAAATT
98280547 A
1 A
98280548 ATTCAAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.36
Consensus pattern (21 bp):
ATCCAAATATAAATTTAAATT
Found at i:98280618 original size:15 final size:16
Alignment explanation
Indices: 98280598--98280627 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
98280588 AAAACTTTAA
98280598 AAATAAT-AATTTCAT
1 AAATAATAAATTTCAT
98280613 AAATAATAAATTTCA
1 AAATAATAAATTTCA
98280628 AAGTTACCAA
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:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATAATAAATTTCAT
Found at i:98281075 original size:24 final size:22
Alignment explanation
Indices: 98281048--98281096 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
98281038 TCTTAGATTT
*
98281048 TTATGTTTTAAATATATTAATATA
1 TTAT-TTTTAAATATA-AAATATA
*
98281072 TTA-TTTTAATTATAAAATATA
1 TTATTTTTAAATATAAAATATA
98281093 TTAT
1 TTAT
98281097 ATTATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 9 0.41
22 10 0.45
24 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTATTTTTAAATATAAAATATA
Found at i:98281092 original size:21 final size:22
Alignment explanation
Indices: 98281066--98281106 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
98281056 TAAATATATT
*
98281066 AATATATTATTTTA-ATTATAA
1 AATATATTATATTATATTATAA
98281087 AATATATTATATTATATTAT
1 AATATATTATATTATATTAT
98281107 TATGTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AATATATTATATTATATTATAA
Found at i:98282296 original size:21 final size:21
Alignment explanation
Indices: 98282270--98282315 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
98282260 CCTCGAGTCG
*
98282270 ATTAGGCACTATATGTGTCAT
1 ATTAGGCACCATATGTGTCAT
* *
98282291 ATTAGGCACCATGTGTGTCGT
1 ATTAGGCACCATATGTGTCAT
98282312 ATTA
1 ATTA
98282316 TTACTTCTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (21 bp):
ATTAGGCACCATATGTGTCAT
Found at i:98282494 original size:24 final size:26
Alignment explanation
Indices: 98282454--98282502 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
98282444 ATAAAAGAAC
98282454 AAATTGCAATAGAATTGGTAT-TGAAT
1 AAATTGCAATAGAATT-GTATATGAAT
98282480 AAATTG-AAT-GAATTGTATATGAA
1 AAATTGCAATAGAATTGTATATGAA
98282503 ATGAAATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.18
24 9 0.41
25 3 0.14
26 6 0.27
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.35
Consensus pattern (26 bp):
AAATTGCAATAGAATTGTATATGAAT
Found at i:98284152 original size:24 final size:21
Alignment explanation
Indices: 98284105--98284157 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 21
98284095 TGATATTACA
98284105 TTATTATTATTTTCTTTCTAT
1 TTATTATTATTTTCTTTCTAT
* *
98284126 TTATTATT-TTTT-TTCCTTT
1 TTATTATTATTTTCTTTCTAT
98284145 TTATT-TTATTTTC
1 TTATTATTATTTTC
98284158 GAATTTGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 2 0.07
19 14 0.50
20 4 0.14
21 8 0.29
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.75
Consensus pattern (21 bp):
TTATTATTATTTTCTTTCTAT
Found at i:98284857 original size:15 final size:14
Alignment explanation
Indices: 98284831--98284866 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
98284821 TTATATTTTG
98284831 TTATACTTATATATA
1 TTATA-TTATATATA
98284846 TGTATATTATATATA
1 T-TATATTATATATA
98284861 TTATAT
1 TTATAT
98284867 AGTATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 11 0.55
16 4 0.20
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATATTATATATA
Found at i:98285202 original size:31 final size:31
Alignment explanation
Indices: 98285161--98285256 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 31
98285151 GCATATACTG
* *
98285161 TGTAAATATTTTAAATATTGTATTTTTATTA-
1 TGTATATATTTTTAATA-TGTATTTTTATTAC
*
98285192 TGTATATATTTTTAATACGGATACATTTTTATTAC
1 TGTATATATTTTTAATA-TG-T--ATTTTTATTAC
98285227 TCGTATATATATTTTAATAT-TATTTTTATT
1 T-GTATATAT-TTTTAATATGTATTTTTATT
98285257 GTTATGCAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
31 16 0.30
32 10 0.19
34 11 0.20
35 1 0.02
36 8 0.15
37 8 0.15
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.57
Consensus pattern (31 bp):
TGTATATATTTTTAATATGTATTTTTATTAC
Found at i:98285203 original size:17 final size:17
Alignment explanation
Indices: 98285181--98285242 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
98285171 TTAAATATTG
98285181 TATTTTTATTATGTATA
1 TATTTTTATTATGTATA
* * *
98285198 TATTTTTAATACGGATA
1 TATTTTTATTATGTATA
*
98285215 CATTTTTATTACTCGTATA
1 TATTTTTATTA-T-GTATA
98285234 TATATTTTA
1 TAT-TTTTA
98285243 ATATTATTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
17 23 0.68
19 6 0.18
20 5 0.15
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (17 bp):
TATTTTTATTATGTATA
Found at i:98285325 original size:24 final size:24
Alignment explanation
Indices: 98285279--98285325 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
98285269 CTTTAATACT
* *
98285279 ATATCATTTTTATTTTTATTTTTC
1 ATATCATTCTTATGTTTATTTTTC
98285303 ATATCA-TCTTATGTTTATGTTTT
1 ATATCATTCTTATGTTTAT-TTTT
98285326 TCAAACTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (24 bp):
ATATCATTCTTATGTTTATTTTTC
Found at i:98285593 original size:3 final size:3
Alignment explanation
Indices: 98285585--98285635 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
98285575 AATTTTACTT
* * * *
98285585 TTA TTA TTA CTA CTA -TA TTA TTA TTA TTA TCA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
98285632 TTA T
1 TTA T
98285636 CATATTTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:98285853 original size:3 final size:3
Alignment explanation
Indices: 98285845--98285898 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
98285835 TATCTCTAAC
98285845 TAT TAT TAT TAT T-T TA- TAT ATAT TAT TAT CTA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT TAT
*
98285889 TAC TAT TAT T
1 TAT TAT TAT T
98285899 CTTTATTGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 6 0.14
3 33 0.75
4 5 0.11
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:98286958 original size:40 final size:39
Alignment explanation
Indices: 98286882--98286959 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
98286872 AATTTACAAT
* *
98286882 AAAAAAAACTAAAAAAAAATTAAAATTTATTCGAATTTA
1 AAAAAAAACTAAAAAAAAATTAAAATTCATCCGAATTTA
*
98286921 AAAAAATAACTAAAATAAAATTAAAATTCA-CCAGAATTT
1 AAAAAA-AACTAAAAAAAAATTAAAATTCATCC-GAATTT
98286960 CCCTCACTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 7 0.21
40 27 0.79
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.27
Consensus pattern (39 bp):
AAAAAAAACTAAAAAAAAATTAAAATTCATCCGAATTTA
Found at i:98287691 original size:46 final size:46
Alignment explanation
Indices: 98287638--98287729 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
98287628 CCAATGCTTC
*
98287638 GTCTATTAATTGCAAATTATTTGGTCACGGA-GTCAATCCACTAAAA
1 GTCTATTAATTGCAAATTATTTGGTCA-GAAGGTCAATCCACTAAAA
*
98287684 GTCTATTAATTGCAAATTATTTGGTCATAAGGTCAATCCACTAAAA
1 GTCTATTAATTGCAAATTATTTGGTCAGAAGGTCAATCCACTAAAA
98287730 ATATCATGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 1 0.02
46 42 0.98
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (46 bp):
GTCTATTAATTGCAAATTATTTGGTCAGAAGGTCAATCCACTAAAA
Found at i:98290313 original size:20 final size:20
Alignment explanation
Indices: 98290288--98290327 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
98290278 CGGACAGAAG
98290288 AAAGCTGAACACTTTTTTTT
1 AAAGCTGAACACTTTTTTTT
98290308 AAAGCTGAACACTTTTTTTT
1 AAAGCTGAACACTTTTTTTT
98290328 TTCCCTTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (20 bp):
AAAGCTGAACACTTTTTTTT
Found at i:98295278 original size:15 final size:15
Alignment explanation
Indices: 98295258--98295302 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
98295248 AATTATTTTT
98295258 AATTTTTTATAGTTA
1 AATTTTTTATAGTTA
*
98295273 AA--TTTTAT-TTTA
1 AATTTTTTATAGTTA
98295285 AATTTTTTATAGTTA
1 AATTTTTTATAGTTA
98295300 AAT
1 AAT
98295303 ATTCTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 5 0.20
13 6 0.24
14 6 0.24
15 8 0.32
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (15 bp):
AATTTTTTATAGTTA
Found at i:98295290 original size:26 final size:27
Alignment explanation
Indices: 98295249--98295311 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
98295239 TAAAATTATA
*
98295249 ATTATTTTTAATTTTTTATAGTTAAAT
1 ATTATTTTAAATTTTTTATAGTTAAAT
*
98295276 TTTATTTTAAATTTTTTATAGTTAAAT
1 ATTATTTTAAATTTTTTATAGTTAAAT
*
98295303 ATTCTTTTA
1 ATTATTTTA
98295312 TAACAATGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (27 bp):
ATTATTTTAAATTTTTTATAGTTAAAT
Found at i:98298268 original size:2 final size:2
Alignment explanation
Indices: 98298261--98298296 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
98298251 ACATAAAACC
98298261 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
98298297 CATAATAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98301073 original size:51 final size:51
Alignment explanation
Indices: 98300992--98301095 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
98300982 TGCTGTGGAG
* *
98300992 TATGATGAACTGTCAAGTGTCTCATGATCCCTTCTGACTTGCACAATCTAT
1 TATGACGAACTGTCAAGTGTCTCATAATCCCTTCTGACTTGCACAATCTAT
98301043 TATGACGAACTGTCAAGTGTCTCATAATCCCTTCTGACTTGCACAATCTAT
1 TATGACGAACTGTCAAGTGTCTCATAATCCCTTCTGACTTGCACAATCTAT
98301094 TA
1 TA
98301096 AACTCATCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (51 bp):
TATGACGAACTGTCAAGTGTCTCATAATCCCTTCTGACTTGCACAATCTAT
Found at i:98306466 original size:11 final size:11
Alignment explanation
Indices: 98306452--98306481 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
98306442 TTTATATATT
98306452 TAAAAATTATA
1 TAAAAATTATA
*
98306463 TAAAAATAATA
1 TAAAAATTATA
98306474 TAAAAATT
1 TAAAAATT
98306482 TAATATGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:98315735 original size:20 final size:20
Alignment explanation
Indices: 98315710--98315749 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
98315700 ACAGCATTCA
*
98315710 ATAGCTAATCTTTAGGGATT
1 ATAGCTAATCTTTAGAGATT
* *
98315730 ATAGCTGATTTTTAGAGATT
1 ATAGCTAATCTTTAGAGATT
98315750 CTAATTAGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.42
Consensus pattern (20 bp):
ATAGCTAATCTTTAGAGATT
Found at i:98320687 original size:46 final size:46
Alignment explanation
Indices: 98320610--98320725 Score: 157
Period size: 46 Copynumber: 2.6 Consensus size: 46
98320600 TCTGTTATTA
* *
98320610 ATCTTATTCGCATGTTAAGCATGCCACTGTGTTAATTTATAATGAG
1 ATCTGATTCGCATGTTAAGCATGCCAATGTGTTAATTTATAATGAG
* * *
98320656 ATCTGATTCTCATGTTAAGCATGTCAATGTGTTAATTTGTAATGAG
1 ATCTGATTCGCATGTTAAGCATGCCAATGTGTTAATTTATAATGAG
*
98320702 ATC---TTCGCATGTAAAGCATGCCAA
1 ATCTGATTCGCATGTTAAGCATGCCAA
98320726 CCAAAAATTA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
43 18 0.29
46 44 0.71
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (46 bp):
ATCTGATTCGCATGTTAAGCATGCCAATGTGTTAATTTATAATGAG
Found at i:98320972 original size:49 final size:49
Alignment explanation
Indices: 98320857--98320978 Score: 154
Period size: 49 Copynumber: 2.5 Consensus size: 49
98320847 ATATTTGCAA
* * * *
98320857 ATCTGGTGGCTTGACCACAATATTCTGTATCTTGCAGTTTGTCTGCATT
1 ATCTGGTGGCTTAACCACAATATTCTGTATCTGGCAGCTTGTCTGCACT
* * ** *
98320906 ATTTGATGATTTTACCACAATATTCTGTATCTGGCAGCTTGTCTGCACT
1 ATCTGGTGGCTTAACCACAATATTCTGTATCTGGCAGCTTGTCTGCACT
*
98320955 ATCTGGTGGCTTAACCACATTATT
1 ATCTGGTGGCTTAACCACAATATT
98320979 GGTGTGATAT
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 59 1.00
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.40
Consensus pattern (49 bp):
ATCTGGTGGCTTAACCACAATATTCTGTATCTGGCAGCTTGTCTGCACT
Found at i:98327230 original size:33 final size:33
Alignment explanation
Indices: 98327193--98327259 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
98327183 CAAGCAACTT
98327193 ATAAAAACAAATTCCAAGGAGGAGAATTATATG
1 ATAAAAACAAATTCCAAGGAGGAGAATTATATG
98327226 ATAAAAACAAATTCCAAGGAGGAGAATTATATG
1 ATAAAAACAAATTCCAAGGAGGAGAATTATATG
98327259 A
1 A
98327260 GAGCATAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.21
Consensus pattern (33 bp):
ATAAAAACAAATTCCAAGGAGGAGAATTATATG
Found at i:98329674 original size:1 final size:1
Alignment explanation
Indices: 98329668--98329694 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
98329658 CGGTCGATTC
98329668 GGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGG
98329695 ACTGATGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:98330782 original size:20 final size:20
Alignment explanation
Indices: 98330757--98330797 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
98330747 TAAAAAACAA
*
98330757 TTAATTCACCATTTAGTTCT
1 TTAATTCACAATTTAGTTCT
98330777 TTAATTCACAATTTAGTTCT
1 TTAATTCACAATTTAGTTCT
98330797 T
1 T
98330798 AAACTTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (20 bp):
TTAATTCACAATTTAGTTCT
Found at i:98332900 original size:48 final size:49
Alignment explanation
Indices: 98332800--98332902 Score: 113
Period size: 48 Copynumber: 2.1 Consensus size: 49
98332790 TATCGATGTT
98332800 AATGCCATATCCCAGACATGGTCTGTCTTACATAGGATAGTAAATCAATGCC
1 AATGCCATATCCCAGACATGG--TGTCTTACATA-GATAGTAAATCAATGCC
* **
98332852 AATGCCATGTCCCAGACAT-G-GTCTTACAT-GATATCGTAAATCCTTGCC
1 AATGCCATATCCCAGACATGGTGTCTTACATAGATA--GTAAATCAATGCC
98332900 AAT
1 AAT
98332903 AGCCCAGCTA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
46 4 0.09
48 23 0.50
51 1 0.02
52 18 0.39
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (49 bp):
AATGCCATATCCCAGACATGGTGTCTTACATAGATAGTAAATCAATGCC
Found at i:98335907 original size:27 final size:28
Alignment explanation
Indices: 98335849--98335905 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
98335839 TTACCGTAGG
*
98335849 TTCAAATCTTTTTGATTCATCAAGTACT
1 TTCAAATCTTTTTGAGTCATCAAGTACT
*
98335877 TTCAAATCTTTTTGAGTCATTAAGTACT
1 TTCAAATCTTTTTGAGTCATCAAGTACT
98335905 T
1 T
98335906 CAGACATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (28 bp):
TTCAAATCTTTTTGAGTCATCAAGTACT
Found at i:98338288 original size:34 final size:34
Alignment explanation
Indices: 98338248--98338317 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
98338238 GTCGATACAC
98338248 ATTCCTGAGCGTACTTACTAAGTCTTACGAACCA
1 ATTCCTGAGCGTACTTACTAAGTCTTACGAACCA
98338282 ATTCCTGAGCGTACTTACTAAGTCTTACGAACCA
1 ATTCCTGAGCGTACTTACTAAGTCTTACGAACCA
98338316 AT
1 AT
98338318 GCTCATATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (34 bp):
ATTCCTGAGCGTACTTACTAAGTCTTACGAACCA
Found at i:98350479 original size:14 final size:13
Alignment explanation
Indices: 98350447--98350480 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
98350437 TGAAAATATT
98350447 AAAACAATAATTA
1 AAAACAATAATTA
*
98350460 AGAACACATAATTA
1 AAAACA-ATAATTA
98350474 AAAACAA
1 AAAACAA
98350481 AAACAAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.68, C:0.12, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAACAATAATTA
Found at i:98352840 original size:6 final size:6
Alignment explanation
Indices: 98352711--98352840 Score: 95
Period size: 6 Copynumber: 21.7 Consensus size: 6
98352701 AGAAACAACC
* * * * * * *
98352711 ATAAAA ATTAAA ATAAAG TTCAAA ATAGAAA A-CAAA CTAAAC ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATA-AAA ATAAAA ATAAAA ATAAAA
* * * *
98352759 AGAAAA AT-AAA A-AAAA TTAAAA GTATAA ATAAAA ATAAAA GATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA -ATAAAA
* *
98352806 GATAAAA ATAAAA ATAAAC ATAAAC ATAAAA ATAA
1 -ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAA
98352841 TCAGACTCAA
Statistics
Matches: 96, Mismatches: 23, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
5 10 0.10
6 69 0.72
7 17 0.18
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:98354132 original size:3 final size:3
Alignment explanation
Indices: 98354124--98354187 Score: 119
Period size: 3 Copynumber: 21.0 Consensus size: 3
98354114 ATAAATAGAA
98354124 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
98354170 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
98354188 TGAATGAAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 57 0.95
4 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:98354585 original size:26 final size:28
Alignment explanation
Indices: 98354542--98354593 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 28
98354532 TAACCAAAGA
98354542 AATAATTAAGAATGAAAAGAAAAAAATAT
1 AATAATTAAGAATGAAAA-AAAAAAATAT
*
98354571 AATAA-TAA-AAT-AAAAATAAAAAT
1 AATAATTAAGAATGAAAAAAAAAAAT
98354594 CTAAAGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 7 0.32
26 4 0.18
27 3 0.14
28 3 0.14
29 5 0.23
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (28 bp):
AATAATTAAGAATGAAAAAAAAAAATAT
Found at i:98354737 original size:14 final size:15
Alignment explanation
Indices: 98354718--98354746 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
98354708 GGAAAAGACA
98354718 AAAGAA-AGGGGAAG
1 AAAGAAGAGGGGAAG
98354732 AAAGAAGAGGGGAAG
1 AAAGAAGAGGGGAAG
98354747 GGGGTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (15 bp):
AAAGAAGAGGGGAAG
Found at i:98358449 original size:22 final size:22
Alignment explanation
Indices: 98358424--98358467 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
98358414 GATAAGTTAG
98358424 TAAATTATAATAAAAATAAAAA
1 TAAATTATAATAAAAATAAAAA
* *
98358446 TAAATTGTATTAAAAATAAAAA
1 TAAATTATAATAAAAATAAAAA
98358468 ATGGCTAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
TAAATTATAATAAAAATAAAAA
Found at i:98359177 original size:14 final size:14
Alignment explanation
Indices: 98359158--98359184 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
98359148 TATTAAAATA
98359158 ATAATTAAGAACAC
1 ATAATTAAGAACAC
98359172 ATAATTAAGAACA
1 ATAATTAAGAACA
98359185 AGAACAAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:98362642 original size:42 final size:42
Alignment explanation
Indices: 98362595--98362700 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 42
98362585 TTTGGGTTAC
**
98362595 TGAGACTATGTGTAAGACCATATCTGGGATATGGCCTCAATA
1 TGAGACTATGTGTAAGACCATATCTGGGATATGGAATCAATA
*
98362637 TGAGACTATGTGTAAGACCGTATCTGGGATATGGAATCAATA
1 TGAGACTATGTGTAAGACCATATCTGGGATATGGAATCAATA
* *
98362679 TGATAGT-TCGTGTAAGACCATA
1 TGAGACTAT-GTGTAAGACCATA
98362701 GTTAAGTTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 1 0.02
42 56 0.98
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGACTATGTGTAAGACCATATCTGGGATATGGAATCAATA
Found at i:98363374 original size:25 final size:25
Alignment explanation
Indices: 98363346--98363397 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
98363336 CTGACGTCGA
98363346 ATACATGTAAGGAGTGTTATATACT
1 ATACATGTAAGGAGTGTTATATACT
98363371 ATACATGTAAGGAGTGTTATATACT
1 ATACATGTAAGGAGTGTTATATACT
98363396 AT
1 AT
98363398 GTATTAATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.37
Consensus pattern (25 bp):
ATACATGTAAGGAGTGTTATATACT
Found at i:98367894 original size:2 final size:2
Alignment explanation
Indices: 98367887--98367916 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
98367877 AAAAATTTCA
98367887 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
98367917 CTGTGACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98369266 original size:2 final size:2
Alignment explanation
Indices: 98369261--98369298 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
98369251 AAGTATAGCA
98369261 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
98369299 TTCCATTCCT
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:98377645 original size:12 final size:12
Alignment explanation
Indices: 98377615--98377648 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
98377605 TATATATTTT
98377615 AAAATT-ATATA
1 AAAATTAATATA
98377626 AAAA-TAATATA
1 AAAATTAATATA
98377637 AAAATTAATATA
1 AAAATTAATATA
98377649 GACGGGCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:98380435 original size:27 final size:27
Alignment explanation
Indices: 98380393--98380446 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
98380383 GAATGGACAA
98380393 AGAATCTAATTCTTAAAGGTGTATAGT
1 AGAATCTAATTCTTAAAGGTGTATAGT
98380420 AGAATCTAAATT-TTAAAGGTGTATAGT
1 AGAATCT-AATTCTTAAAGGTGTATAGT
98380447 CTATTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.37
Consensus pattern (27 bp):
AGAATCTAATTCTTAAAGGTGTATAGT
Found at i:98383275 original size:8 final size:8
Alignment explanation
Indices: 98383262--98383286 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
98383252 AATAATTAAT
98383262 TTTTAAAA
1 TTTTAAAA
98383270 TTTTAAAA
1 TTTTAAAA
98383278 TTTTAAAA
1 TTTTAAAA
98383286 T
1 T
98383287 ATATATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTTAAAA
Found at i:98384027 original size:44 final size:44
Alignment explanation
Indices: 98383964--98384050 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
98383954 TGTGATAGAA
*
98383964 TTTCTAGTGGTTAATAAACAAAGT-TGTTTTATTTTTCTATACAG
1 TTTCTAGTAGTTAATAAAC-AAGTGTGTTTTATTTTTCTATACAG
*
98384008 TTTCTAGTAGTTAATAAACAAGTGTGTTTTATTTTTTTATACA
1 TTTCTAGTAGTTAATAAACAAGTGTGTTTTATTTTTCTATACA
98384051 ATATTAGCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 4 0.10
44 36 0.90
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.49
Consensus pattern (44 bp):
TTTCTAGTAGTTAATAAACAAGTGTGTTTTATTTTTCTATACAG
Found at i:98384759 original size:23 final size:24
Alignment explanation
Indices: 98384709--98384759 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
98384699 CTAAAATGTG
* *
98384709 ATGTGATGTGTATAAGATGTGCTA
1 ATGTGATGTATATAAGATGTGATA
* *
98384733 ATGTGAT-TATATGAGATGTGATT
1 ATGTGATGTATATAAGATGTGATA
98384756 ATGT
1 ATGT
98384760 CAGAATATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.41
Consensus pattern (24 bp):
ATGTGATGTATATAAGATGTGATA
Found at i:98385924 original size:24 final size:24
Alignment explanation
Indices: 98385892--98385939 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
98385882 ATATGACATG
98385892 TTAGAATAGAGAAACTAGCTTGAA
1 TTAGAATAGAGAAACTAGCTTGAA
98385916 TTAGAATAGAGAAACTAGCTTGAA
1 TTAGAATAGAGAAACTAGCTTGAA
98385940 AACACGAAAT
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:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (24 bp):
TTAGAATAGAGAAACTAGCTTGAA
Found at i:98386615 original size:19 final size:19
Alignment explanation
Indices: 98386593--98386636 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
98386583 CATGTATTTG
98386593 TGTGGTATGAATGGTGGTT
1 TGTGGTATGAATGGTGGTT
* *
98386612 TGTGGTGTGATTGGTGGTT
1 TGTGGTATGAATGGTGGTT
*
98386631 GGTGGT
1 TGTGGT
98386637 TGGTAAGGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.09, C:0.00, G:0.48, T:0.43
Consensus pattern (19 bp):
TGTGGTATGAATGGTGGTT
Found at i:98386921 original size:18 final size:20
Alignment explanation
Indices: 98386883--98386923 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
98386873 ATATAACAAT
*
98386883 TAATTATATATTATTATTTA
1 TAATTATATATTATTAGTTA
98386903 TAATTATAT-TTA-TAGTTA
1 TAATTATATATTATTAGTTA
98386921 TAA
1 TAA
98386924 AGTCTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 3 0.15
20 9 0.45
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TAATTATATATTATTAGTTA
Found at i:98389240 original size:12 final size:12
Alignment explanation
Indices: 98389223--98389257 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
98389213 TAAAATTAGG
*
98389223 TAAATATATATA
1 TAAATATATAAA
98389235 TAAATATATAAA
1 TAAATATATAAA
*
98389247 TATATATATAA
1 TAAATATATAA
98389258 TTAGAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TAAATATATAAA
Found at i:98398369 original size:43 final size:43
Alignment explanation
Indices: 98398199--98398370 Score: 159
Period size: 43 Copynumber: 4.0 Consensus size: 43
98398189 CATAGCATTC
* * ** * *
98398199 CGATATGTGATTTCGTGTAAGACCACGCCTGGGACGTTGGCAC
1 CGATATTTGATTACGTGTAAGACCACGTTTGGGACATTGGCAT
* * * * *
98398242 CGAT-TTGAGATTTACGTGTAAGGCCATGTTTGGGACATCGACAT
1 CGATATT-TGA-TTACGTGTAAGACCACGTTTGGGACATTGGCAT
* ** *
98398286 C-ATATTTGATTTCGTGTAAGACCTTGTTTGGGACAATGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTTTGGGACATTGGCAT
* *
98398328 CGATATTTGATTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTTTGGGACATTGGCAT
98398371 TGTACAAGTT
Statistics
Matches: 101, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
42 29 0.29
43 45 0.45
44 27 0.27
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTTTGGGACATTGGCAT
Found at i:98398583 original size:46 final size:46
Alignment explanation
Indices: 98398531--98398638 Score: 173
Period size: 46 Copynumber: 2.4 Consensus size: 46
98398521 ACATTTGTGA
*
98398531 ACATATGTTATATGTGAATGAATTATGATCAAATGAGCCATATGAG
1 ACATATGTTATATGTGAATGAATTATGATAAAATGAGCCATATGAG
* *
98398577 CCATATGTTATATGTGAATGAATTATGATAAAATGAGCTATATGAG
1 ACATATGTTATATGTGAATGAATTATGATAAAATGAGCCATATGAG
*
98398623 ACATATG-GATATGTGA
1 ACATATGTTATATGTGA
98398639 TTGTATTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 8 0.14
46 49 0.86
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.33
Consensus pattern (46 bp):
ACATATGTTATATGTGAATGAATTATGATAAAATGAGCCATATGAG
Found at i:98405667 original size:46 final size:46
Alignment explanation
Indices: 98405607--98405834 Score: 350
Period size: 46 Copynumber: 5.0 Consensus size: 46
98405597 TTTGACATGA
* * * * * *
98405607 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
98405653 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
98405699 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
98405745 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
98405791 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
98405835 AGAGCACACT
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 166 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:98407988 original size:11 final size:11
Alignment explanation
Indices: 98407972--98408023 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
98407962 TATACTAAAT
98407972 AAATAATAATA
1 AAATAATAATA
*
98407983 AAATAAT-ATT
1 AAATAATAATA
* *
98407993 AAATATCTCATA
1 AAATA-ATAATA
*
98408005 AAATATTAATA
1 AAATAATAATA
98408016 AAATAATA
1 AAATAATA
98408024 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:98410922 original size:46 final size:46
Alignment explanation
Indices: 98410862--98411089 Score: 350
Period size: 46 Copynumber: 5.0 Consensus size: 46
98410852 TTTGACATGA
* * * * * *
98410862 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
98410908 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
98410954 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
98411000 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
98411046 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
98411090 AGAGCACACT
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 166 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:98413241 original size:11 final size:11
Alignment explanation
Indices: 98413225--98413276 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
98413215 TATACTAAAT
98413225 AAATAATAATA
1 AAATAATAATA
*
98413236 AAATAAT-ATT
1 AAATAATAATA
* *
98413246 AAATATCTCATA
1 AAATA-ATAATA
*
98413258 AAATATTAATA
1 AAATAATAATA
98413269 AAATAATA
1 AAATAATA
98413277 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:98414402 original size:55 final size:55
Alignment explanation
Indices: 98414302--98414420 Score: 159
Period size: 55 Copynumber: 2.2 Consensus size: 55
98414292 TCCACGCCCA
* *
98414302 TGTTGTTTTCTCAGTCTTGACCATGGGTAGCGAGCACCGGTGTGTCGCACACCCG
1 TGTTGTTTTCTCAGTCTTGACCATGGGTAGCGAGCACAGGCGTGTCGCACACCCG
* ** * *
98414357 TGTTGTTTTCTCAGTTTTGACCAT-GGTCTCTAGACACAGGCGTGTCGCACGCCCG
1 TGTTGTTTTCTCAGTCTTGACCATGGGTAGCGAG-CACAGGCGTGTCGCACACCCG
98414412 TGTTGTTTT
1 TGTTGTTTT
98414421 GATAGATTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 6 0.11
55 50 0.89
ACGTcount: A:0.13, C:0.25, G:0.27, T:0.34
Consensus pattern (55 bp):
TGTTGTTTTCTCAGTCTTGACCATGGGTAGCGAGCACAGGCGTGTCGCACACCCG
Found at i:98425253 original size:30 final size:30
Alignment explanation
Indices: 98425210--98425312 Score: 93
Period size: 30 Copynumber: 3.4 Consensus size: 30
98425200 GTGAAGAGTT
*
98425210 AAATTTATTAAATTATTTAGAATTAGGATC
1 AAATTTATAAAATTATTTAGAATTAGGATC
* * * *
98425240 AAATTGATAAAATT-TATA-AATGTGAAGATT
1 AAATTTATAAAATTATTTAGAAT-T-AGGATC
** *
98425270 AAATTTATTGAATTACTTAGAATTAGGATC
1 AAATTTATAAAATTATTTAGAATTAGGATC
*
98425300 AAATTAATAAAAT
1 AAATTTATAAAAT
98425313 ATGTAAGTAT
Statistics
Matches: 54, Mismatches: 15, Indels: 8
0.70 0.19 0.10
Matches are distributed among these distances:
28 3 0.06
29 4 0.07
30 41 0.76
31 3 0.06
32 3 0.06
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.39
Consensus pattern (30 bp):
AAATTTATAAAATTATTTAGAATTAGGATC
Found at i:98425254 original size:61 final size:60
Alignment explanation
Indices: 98425179--98425318 Score: 217
Period size: 60 Copynumber: 2.3 Consensus size: 60
98425169 TTTGAATATT
* *
98425179 AAATTGATAGAATTTGTAAATGTGAAGAGTTAAATTTATTAAATTATTTAGAATTAGGATC
1 AAATTGATAAAATTTGTAAATGTGAAGA-TTAAATTTATTAAATTACTTAGAATTAGGATC
* *
98425240 AAATTGATAAAATTTATAAATGTGAAGATTAAATTTATTGAATTACTTAGAATTAGGATC
1 AAATTGATAAAATTTGTAAATGTGAAGATTAAATTTATTAAATTACTTAGAATTAGGATC
* *
98425300 AAATTAATAAAATATGTAA
1 AAATTGATAAAATTTGTAA
98425319 GTATTGAGGG
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
60 46 0.64
61 26 0.36
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (60 bp):
AAATTGATAAAATTTGTAAATGTGAAGATTAAATTTATTAAATTACTTAGAATTAGGATC
Found at i:98436568 original size:46 final size:45
Alignment explanation
Indices: 98436463--98436591 Score: 168
Period size: 46 Copynumber: 2.8 Consensus size: 45
98436453 ACATTATGAG
* *
98436463 AGCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGACAA
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACAA
* * *
98436510 ATGCAAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGACATA
1 A-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACA-A
*
98436557 AGCCAGTGTAAGACATGTCTGGAACATGCATCGGC
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
98436592 TACGAGATGT
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 45 0.62
47 16 0.22
48 11 0.15
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAA
Found at i:98438558 original size:17 final size:16
Alignment explanation
Indices: 98438529--98438575 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
98438519 AAACAAGTGG
98438529 AAGTG-AATGAAGTGACC
1 AAGTGAAAT-AAGTG-CC
*
98438546 AAGTGAAATAAGTGCT
1 AAGTGAAATAAGTGCC
*
98438562 AAGAGAAATAAGTG
1 AAGTGAAATAAGTG
98438576 GTAAGCAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 14 0.52
17 10 0.37
18 3 0.11
ACGTcount: A:0.47, C:0.06, G:0.28, T:0.19
Consensus pattern (16 bp):
AAGTGAAATAAGTGCC
Found at i:98438571 original size:16 final size:16
Alignment explanation
Indices: 98438550--98438580 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98438540 GTGACCAAGT
98438550 GAAATAAGTGCTAAGA
1 GAAATAAGTGCTAAGA
*
98438566 GAAATAAGTGGTAAG
1 GAAATAAGTGCTAAG
98438581 CAAAGTAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.29, T:0.19
Consensus pattern (16 bp):
GAAATAAGTGCTAAGA
Found at i:98441838 original size:12 final size:12
Alignment explanation
Indices: 98441823--98441853 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
98441813 TTCTCTTTTA
98441823 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
98441835 TTTTTCTTTCTC
1 TTTTTCTTTCCC
98441847 TTTTTCT
1 TTTTTCT
98441854 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:98441954 original size:16 final size:16
Alignment explanation
Indices: 98441933--98441963 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98441923 TTTATTATTT
98441933 TATTAACATAATATAA
1 TATTAACATAATATAA
*
98441949 TATTAATATAATATA
1 TATTAACATAATATA
98441964 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:98445574 original size:9 final size:9
Alignment explanation
Indices: 98445560--98445585 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
98445550 TTTATACCAT
98445560 TTTTACAAC
1 TTTTACAAC
98445569 TTTTACAAC
1 TTTTACAAC
98445578 TTTTACAA
1 TTTTACAA
98445586 AATGGTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (9 bp):
TTTTACAAC
Found at i:98451058 original size:16 final size:17
Alignment explanation
Indices: 98451016--98451058 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
98451006 ATATTTTTAA
*
98451016 TTATTTATTGTTATTTT
1 TTATTTATTTTTATTTT
*
98451033 TT-TTTGTTTTTATTTT
1 TTATTTATTTTTATTTT
98451049 TTATTT-TTTT
1 TTATTTATTTT
98451059 CACTCTGGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.84
Consensus pattern (17 bp):
TTATTTATTTTTATTTT
Found at i:98461116 original size:31 final size:31
Alignment explanation
Indices: 98461078--98461141 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
98461068 CCTTTTCATA
* *
98461078 TTTCATATTTCATAACAGTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGACT
**
98461109 TTTCATATTTCATATTACTGGGCCGAAGACT
1 TTTCATATTTCATAACACTGGGCCGAAGACT
98461140 TT
1 TT
98461142 ACTGTAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGACT
Found at i:98461386 original size:24 final size:24
Alignment explanation
Indices: 98461335--98461452 Score: 170
Period size: 23 Copynumber: 5.0 Consensus size: 24
98461325 GCTTTATCAT
*
98461335 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
98461360 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
98461384 ATAACTGGGGCATAAGCCC-TTGA
1 ATAACTGGGGCATAAGCCCTTTTA
98461407 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
98461430 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
98461453 GCACTTCCTC
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 44 0.51
24 30 0.35
25 12 0.14
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:98461527 original size:20 final size:20
Alignment explanation
Indices: 98461502--98461566 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
98461492 ATGAATACAC
98461502 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
98461522 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
98461542 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
98461562 CATGT
1 CATGT
98461567 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:98461533 original size:11 final size:11
Alignment explanation
Indices: 98461502--98461555 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
98461492 ATGAATACAC
98461502 CATGTGCATAT
1 CATGTGCATAT
*
98461513 CA--TACATAT
1 CATGTGCATAT
98461522 CATGTGCATAT
1 CATGTGCATAT
* *
98461533 CA--TACATGT
1 CATGTGCATAT
98461542 CATGTGCATAT
1 CATGTGCATAT
98461553 CAT
1 CAT
98461556 ACATACCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:98462727 original size:12 final size:12
Alignment explanation
Indices: 98462699--98462747 Score: 71
Period size: 12 Copynumber: 4.0 Consensus size: 12
98462689 GCTGGTTTGA
*
98462699 AAGAAGGAGAAGG
1 AAGAA-GAGATGG
*
98462712 AAGAAAAGATGG
1 AAGAAGAGATGG
98462724 AAGAAGAGATGG
1 AAGAAGAGATGG
98462736 AAGAAGAGATGG
1 AAGAAGAGATGG
98462748 TAGATTCGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
12 28 0.85
13 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.41, T:0.06
Consensus pattern (12 bp):
AAGAAGAGATGG
Found at i:98464587 original size:46 final size:46
Alignment explanation
Indices: 98464537--98464712 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
98464527 TGGTTGAGCA
98464537 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
98464583 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
**
98464628 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
98464676 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
98464713 GCGGGTTATA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:98464693 original size:93 final size:93
Alignment explanation
Indices: 98464534--98464705 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
98464524 GGATGGTTGA
***
98464534 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
98464599 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
98464627 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
98464692 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
98464706 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:98469588 original size:46 final size:46
Alignment explanation
Indices: 98469538--98469713 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
98469528 TGGTTGAGCA
98469538 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
98469584 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
98469629 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
98469677 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
98469714 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:98469694 original size:93 final size:93
Alignment explanation
Indices: 98469535--98469706 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
98469525 GGATGGTTGA
* *
98469535 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
98469600 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
98469628 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
98469693 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
98469707 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:98479014 original size:25 final size:25
Alignment explanation
Indices: 98478986--98479059 Score: 112
Period size: 25 Copynumber: 3.0 Consensus size: 25
98478976 TTTTATAAAA
*
98478986 TTTAAATTAGGAATTTTATTAGGAC
1 TTTAAATTAGGAATTATATTAGGAC
* *
98479011 TTTAAATTAGGAATTCTACTAGGAC
1 TTTAAATTAGGAATTATATTAGGAC
*
98479036 TTTAAATTAGGAATTAGATTAGGA
1 TTTAAATTAGGAATTATATTAGGA
98479060 TTTTCCCTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (25 bp):
TTTAAATTAGGAATTATATTAGGAC
Found at i:98483916 original size:48 final size:48
Alignment explanation
Indices: 98483723--98483916 Score: 148
Period size: 48 Copynumber: 4.1 Consensus size: 48
98483713 CATAGTAGGG
* * ** * * * *
98483723 TGCCAATGCCATATCCCAAATGTGGTCTTATATGAGACCACTTATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
* *
98483771 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACACAT--A
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
* *** * *
98483817 T--CAAAGCCGATAG-CCCAG-CTATGGTCTTACACAATGTTCTCATATCGA
1 TGCCAATGCC-AT-GTCCCAGAC-ATGGTCTTACA-TGGGATCACATATCGA
* *
98483865 TGCCAATGCCATGTCACAGACATGGTCTTACATGGGATCAAATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
98483913 TGCC
1 TGCC
98483917 GATTACATAT
Statistics
Matches: 112, Mismatches: 24, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
44 7 0.06
45 17 0.15
46 10 0.09
48 54 0.48
49 17 0.15
50 7 0.06
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
Found at i:98484447 original size:49 final size:49
Alignment explanation
Indices: 98484375--98484475 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
98484365 TCTTTGTTAC
98484375 TCAAGCCTAGATGACGCATATTCCCTAACAAACCACATTTTTCATCCAA
1 TCAAGCCTAGATGACGCATATTCCCTAACAAACCACATTTTTCATCCAA
98484424 TCAAGCCTAGATGACGCATATTCCCTAACAAACCACATTTTTCATCCAA
1 TCAAGCCTAGATGACGCATATTCCCTAACAAACCACATTTTTCATCCAA
98484473 TCA
1 TCA
98484476 CATTCTTAAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.35, C:0.31, G:0.08, T:0.27
Consensus pattern (49 bp):
TCAAGCCTAGATGACGCATATTCCCTAACAAACCACATTTTTCATCCAA
Found at i:98489798 original size:8 final size:8
Alignment explanation
Indices: 98489785--98489811 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
98489775 CGTACTATTC
98489785 TAAAATAT
1 TAAAATAT
98489793 TAAAATAT
1 TAAAATAT
98489801 TAAAATAT
1 TAAAATAT
98489809 TAA
1 TAA
98489812 TTATAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TAAAATAT
Found at i:98491595 original size:6 final size:6
Alignment explanation
Indices: 98491569--98491620 Score: 77
Period size: 6 Copynumber: 8.3 Consensus size: 6
98491559 TCTAAATAAA
*
98491569 TTCATT TCTCATT TCTCATT TTCATT TTCATT TTCATT TTCATT TCCATT
1 TTCATT T-TCATT T-TCATT TTCATT TTCATT TTCATT TTCATT TTCATT
98491619 TT
1 TT
98491621 GAGAAAACCA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 30 0.70
7 13 0.30
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.63
Consensus pattern (6 bp):
TTCATT
Found at i:98494863 original size:59 final size:59
Alignment explanation
Indices: 98494771--98494896 Score: 207
Period size: 59 Copynumber: 2.1 Consensus size: 59
98494761 CATGATAAAC
* *
98494771 ATGCCATACTTCTAATTCTTATTCGCATGTAAAGCATGCTTACTGAAATTATGTTCTAT
1 ATGCCATACTTCTAATTCCTATCCGCATGTAAAGCATGCTTACTGAAATTATGTTCTAT
* * *
98494830 ATGCCATACTTCTGATTCCTATCCGTATGTAAAGCATGCTTACTGAAATTATGTTCTGT
1 ATGCCATACTTCTAATTCCTATCCGCATGTAAAGCATGCTTACTGAAATTATGTTCTAT
98494889 ATGCCATA
1 ATGCCATA
98494897 TCATATGCAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (59 bp):
ATGCCATACTTCTAATTCCTATCCGCATGTAAAGCATGCTTACTGAAATTATGTTCTAT
Found at i:98495429 original size:19 final size:18
Alignment explanation
Indices: 98495405--98495443 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
98495395 TTTAGTTGCT
*
98495405 TTGGACTTTGGTTTTGGAC
1 TTGGACTTT-CTTTTGGAC
98495424 TTGGACTTTCTTTTGGAC
1 TTGGACTTTCTTTTGGAC
98495442 TT
1 TT
98495444 TGGATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.10, C:0.13, G:0.26, T:0.51
Consensus pattern (18 bp):
TTGGACTTTCTTTTGGAC
Found at i:98495446 original size:19 final size:20
Alignment explanation
Indices: 98495403--98495447 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
98495393 TGTTTAGTTG
*
98495403 CTTTGGACTTTGGTTTTGGA
1 CTTTGGACTTTGCTTTTGGA
98495423 C-TTGGACTTT-CTTTTGGA
1 CTTTGGACTTTGCTTTTGGA
98495441 CTTTGGA
1 CTTTGGA
98495448 TTTATTGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 14 0.61
20 1 0.04
ACGTcount: A:0.11, C:0.13, G:0.27, T:0.49
Consensus pattern (20 bp):
CTTTGGACTTTGCTTTTGGA
Found at i:98501827 original size:18 final size:18
Alignment explanation
Indices: 98501796--98501838 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
98501786 GGTTTTGGAC
*
98501796 TTGGATTTTCTTGTGGATT
1 TTGGA-TTTATTGTGGATT
**
98501815 TTGGATTTATTGTGTTTT
1 TTGGATTTATTGTGGATT
98501833 TTGGAT
1 TTGGAT
98501839 GGTTTTGCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.12, C:0.02, G:0.26, T:0.60
Consensus pattern (18 bp):
TTGGATTTATTGTGGATT
Found at i:98505515 original size:27 final size:26
Alignment explanation
Indices: 98505483--98505623 Score: 185
Period size: 27 Copynumber: 5.3 Consensus size: 26
98505473 GTGACGAAGT
98505483 CACCAGATCAGATAATCGTGGCATAGC
1 CACCAGATCAGATAAT-GTGGCATAGC
* *
98505510 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATA-ATGTGGCATAGC
98505537 CACCAGATCAGATAATCGTGGCATAGC
1 CACCAGATCAGATAAT-GTGGCATAGC
* *
98505564 CACCAGAACAGATATATGT-GCAGAGC
1 CACCAGATCAGATA-ATGTGGCATAGC
*
98505590 CACCAGATCAGATATTTGTGGCATAGC
1 CACCAGATCAGATA-ATGTGGCATAGC
98505617 CACCAGA
1 CACCAGA
98505624 ACGCTTCCTC
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
26 25 0.25
27 72 0.71
28 4 0.04
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.18
Consensus pattern (26 bp):
CACCAGATCAGATAATGTGGCATAGC
Done.