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 80 of 378
Found at i:21539565 original size:23 final size:21
Alignment explanation
Indices: 21539514--21539567 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
21539504 TATTAAATAA
*
21539514 TAATTTAATTTAATTTTTATT
1 TAATTAAATTTAATTTTTATT
21539535 TAATATTAAATTTAAATTTTTTATT
1 T-A-ATTAAATTT-AA-TTTTTATT
21539560 TAATTAAA
1 TAATTAAA
21539568 AATGAAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 1 0.04
22 1 0.04
23 14 0.50
24 3 0.11
25 9 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATTAAATTTAATTTTTATT
Found at i:21539570 original size:25 final size:23
Alignment explanation
Indices: 21539520--21539568 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
21539510 ATAATAATTT
*
21539520 AATTTAATTTTTATTTAATATTA
1 AATTTAATTTTTATTTAATATAA
21539543 AATTTAAATTTTTTATTTAAT-TAA
1 AATTT-AA-TTTTTATTTAATATAA
21539567 AA
1 AA
21539569 ATGAAAGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 5 0.22
24 6 0.26
25 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATTTAATTTTTATTTAATATAA
Found at i:21540753 original size:58 final size:61
Alignment explanation
Indices: 21540689--21540848 Score: 159
Period size: 58 Copynumber: 2.7 Consensus size: 61
21540679 TTATTATAAC
* * * * *
21540689 ATTTGGTACTTAAACTTGACATTTTTTTTTCTAATTTTGTGCATAAA-TTTTTT-GTCC-A
1 ATTTGGTACTTAAACTTGACATTTTTTTTCCTAATATGGTACATAAACTTTTTTGGGCCTA
* * *
21540747 ATTTGGTACTTTAACTTGACA--CTTTTTCCTAATATGGTACCTAAACTTTTTTGGGGCCTA
1 ATTTGGTACTTAAACTTGACATTTTTTTTCCTAATATGGTACATAAACTTTTTT-GGGCCTA
* * * * *
21540807 ATTTGGTACTTGAACTTGGCATTTTTTTCCCTAGTTTGGTAC
1 ATTTGGTACTTAAACTTGACATTTTTTTTCCTAATATGGTAC
21540849 CTAAGCTATT
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
56 18 0.22
57 6 0.07
58 20 0.24
59 3 0.04
60 20 0.24
62 15 0.18
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.48
Consensus pattern (61 bp):
ATTTGGTACTTAAACTTGACATTTTTTTTCCTAATATGGTACATAAACTTTTTTGGGCCTA
Found at i:21540833 original size:60 final size:63
Alignment explanation
Indices: 21540746--21540861 Score: 157
Period size: 60 Copynumber: 1.9 Consensus size: 63
21540736 TTTTTTGTCC
*
21540746 AATTTGGTACTTTAACTTGACA-CTTTTT-CCTAATATGGTACCTAAACT-TTTTTGGGGCCT
1 AATTTGGTACTTGAACTTGACATCTTTTTCCCTAATATGGTACCTAAACTATTTTTGGGGCCT
* * * * *
21540806 AATTTGGTACTTGAACTTGGCATTTTTTTCCCTAGTTTGGTACCTAAGCTATTTTT
1 AATTTGGTACTTGAACTTGACATCTTTTTCCCTAATATGGTACCTAAACTATTTTT
21540862 TAGGTTCAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
60 20 0.43
61 5 0.11
62 17 0.36
63 5 0.11
ACGTcount: A:0.22, C:0.17, G:0.16, T:0.46
Consensus pattern (63 bp):
AATTTGGTACTTGAACTTGACATCTTTTTCCCTAATATGGTACCTAAACTATTTTTGGGGCCT
Found at i:21541339 original size:60 final size:60
Alignment explanation
Indices: 21541262--21541378 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
21541252 ATCGAACAAA
* * * * *
21541262 CAAAGAAGATTAGATACCAAATTAGGAAAAAGAGTTAAGTTTAGGTATCAAATTAGACAC
1 CAAAAAAGATTAAATACCAAATTAGAAAAAAGAGTCAAGTTTAGGTACCAAATTAGACAC
* ** **
21541322 CAAAAAAGATTAAATACCAACTTTTAAAAAATTGTCAAGTTTAGGTACCAAATTAGA
1 CAAAAAAGATTAAATACCAAATTAGAAAAAAGAGTCAAGTTTAGGTACCAAATTAGA
21541379 AAGTGTCAAG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.26
Consensus pattern (60 bp):
CAAAAAAGATTAAATACCAAATTAGAAAAAAGAGTCAAGTTTAGGTACCAAATTAGACAC
Found at i:21541416 original size:31 final size:30
Alignment explanation
Indices: 21541348--21541434 Score: 106
Period size: 28 Copynumber: 2.9 Consensus size: 30
21541338 CCAACTTTTA
*
21541348 AAAAATTGTCAAGTTTAGGTACCAAATTAG
1 AAAAAGTGTCAAGTTTAGGTACCAAATTAG
*
21541378 --AAAGTGTCAAGTTTAGGTACTAAATTAGG
1 AAAAAGTGTCAAGTTTAGGTACCAAATTA-G
**
21541407 AAAAAGTGTCAAAGTTTATATACCAAAT
1 AAAAAGTGTC-AAGTTTAGGTACCAAAT
21541435 GTTATATTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
28 25 0.52
29 1 0.02
31 8 0.17
32 14 0.29
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.30
Consensus pattern (30 bp):
AAAAAGTGTCAAGTTTAGGTACCAAATTAG
Found at i:21541823 original size:19 final size:17
Alignment explanation
Indices: 21541799--21541833 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
21541789 ATTGTTAGGA
21541799 TATTGTATAACTTTTATTT
1 TATTGT-TAA-TTTTATTT
21541818 TATTGTTAATTTTATT
1 TATTGTTAATTTTATT
21541834 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (17 bp):
TATTGTTAATTTTATTT
Found at i:21549529 original size:20 final size:21
Alignment explanation
Indices: 21549496--21549548 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
21549486 ACACCCACAA
*
21549496 CCGAAGCAATCACAACCCCCG
1 CCGAAGCAACCACAACCCCCG
*
21549517 CCG-AGCAACCACAACCTCCG
1 CCGAAGCAACCACAACCCCCG
21549537 CCGAAGCAACCA
1 CCGAAGCAACCA
21549549 AGGAGGAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.34, C:0.47, G:0.15, T:0.04
Consensus pattern (21 bp):
CCGAAGCAACCACAACCCCCG
Found at i:21551695 original size:13 final size:13
Alignment explanation
Indices: 21551677--21551703 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21551667 TTTTTATGTT
21551677 TTATTATATTATA
1 TTATTATATTATA
21551690 TTATTATATTATA
1 TTATTATATTATA
21551703 T
1 T
21551704 ACTTAAATAC
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:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:21555449 original size:125 final size:126
Alignment explanation
Indices: 21555224--21555601 Score: 479
Period size: 126 Copynumber: 3.0 Consensus size: 126
21555214 GGCCAATCAT
* * * * * * *
21555224 GAACTACTGTAGAAAAAGAGCATCTATGTGGGAGCTTTTTTCAAAAATTTTGGTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTATAATTTTGCTGACAGTGCATC
* * * * *
21555289 CTGCTTGAAGCATTTTTCACACTATTTGTTCAGAAACATCTTCTTAAAAATA-TTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* *
21555349 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCCTTTTTCTATAATTTTGCTGACAGTGTATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTATAATTTTGCTGACAGTGCATC
* * * *
21555414 CTGCTTGAAGCGTTTTTGACACTATTTATTTAGAAACGTATTCTCAAAATTATTTTTTCAC
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * *** * * * *
21555475 GAACTACTGTAGAAAAAGAGTGTCCACATAAAAGATTTTTTCTGTAATTTTGTTGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTATAATTTTGCTGACAGTGCATC
* * *
21555540 TTGCTTGAAACGTTTTTGACATTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
21555601 G
1 G
21555602 GTACAAAATA
Statistics
Matches: 216, Mismatches: 36, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
125 100 0.46
126 116 0.54
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTATAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
Found at i:21555742 original size:34 final size:35
Alignment explanation
Indices: 21555704--21555779 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 35
21555694 ACACCCTAAT
* *
21555704 TTAATTTATTTA-AAACCCTAGAATCCTAATTT-AC
1 TTAATTTATTTAGAAACCATA-AACCCTAATTTAAC
*
21555738 TTAATTTATTTAGAAATCATAAACCCTAATTTAAC
1 TTAATTTATTTAGAAACCATAAACCCTAATTTAAC
21555773 TT-ATTTA
1 TTAATTTA
21555780 AAACACTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 27 0.73
35 10 0.27
ACGTcount: A:0.39, C:0.14, G:0.03, T:0.43
Consensus pattern (35 bp):
TTAATTTATTTAGAAACCATAAACCCTAATTTAAC
Found at i:21555841 original size:17 final size:16
Alignment explanation
Indices: 21555799--21555846 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
21555789 TTTATTTAAC
21555799 TTATTTAAAAACCCTAA
1 TTATTT-AAAACCCTAA
*
21555816 --ATCTAAAACCCTAA
1 TTATTTAAAACCCTAA
21555830 TTTATTTAAAACCCTAA
1 -TTATTTAAAACCCTAA
21555847 CTTAATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 10 0.38
15 3 0.12
17 13 0.50
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (16 bp):
TTATTTAAAACCCTAA
Found at i:21555914 original size:34 final size:34
Alignment explanation
Indices: 21555846--21555915 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 34
21555836 TAAAACCCTA
*
21555846 ACTTAATTTATTTAAAACCTTAAAAACCCCAATTT
1 ACTTAATTTATTTAAAACCCT-AAAACCCCAATTT
*
21555881 ACTTAATTTATTTAACAACCCT-AAACCCTAATTT
1 ACTTAATTTATTTAA-AACCCTAAAACCCCAATTT
21555915 A
1 A
21555916 AATAATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
34 12 0.38
35 15 0.47
36 5 0.16
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.37
Consensus pattern (34 bp):
ACTTAATTTATTTAAAACCCTAAAACCCCAATTT
Found at i:21555922 original size:34 final size:34
Alignment explanation
Indices: 21555849--21555931 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 34
21555839 AACCCTAACT
* **
21555849 TAATTTATTTAAAACCTTAAAAACCCCAATTTACT
1 TAATTTATTTAAAACCCT-AAAACCCCAATTTAAA
*
21555884 TAATTTATTTAACAACCCT-AAACCCTAATTTAAA
1 TAATTTATTTAA-AACCCTAAAACCCCAATTTAAA
21555918 TAATTT-TTATAAAA
1 TAATTTATT-TAAAA
21555932 TAATACTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
33 4 0.10
34 21 0.50
35 12 0.29
36 5 0.12
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.39
Consensus pattern (34 bp):
TAATTTATTTAAAACCCTAAAACCCCAATTTAAA
Found at i:21557162 original size:13 final size:13
Alignment explanation
Indices: 21557144--21557169 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21557134 ATAGTAAAGA
21557144 ATAAAAAAAATAT
1 ATAAAAAAAATAT
21557157 ATAAAAAAAATAT
1 ATAAAAAAAATAT
21557170 TTTATTGATT
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAAAAAAAATAT
Found at i:21561305 original size:28 final size:28
Alignment explanation
Indices: 21561223--21561311 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 28
21561213 AAATTTGTTA
* *
21561223 TTTTATTTTCAATTTATTTATATTC-AT-T
1 TTTTATTTTC-ATTT-TATATATTCTTTAT
21561251 TTTTATTTTCATTTTATATATTCTTTAT
1 TTTTATTTTCATTTTATATATTCTTTAT
*
21561279 TTTTA-TTTCAATTTTATATATTTTTTAT
1 TTTTATTTTC-ATTTTATATATTCTTTAT
21561307 TTTTA
1 TTTTA
21561312 ATATATATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
26 8 0.15
27 9 0.16
28 38 0.69
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (28 bp):
TTTTATTTTCATTTTATATATTCTTTAT
Found at i:21561487 original size:55 final size:55
Alignment explanation
Indices: 21561423--21561532 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
21561413 AAAAAATAGG
21561423 AATGTTTAAGATGAACCCACGTGTCAGCTCAATGCATGTCCACATCAACAAAATC
1 AATGTTTAAGATGAACCCACGTGTCAGCTCAATGCATGTCCACATCAACAAAATC
21561478 AATGTTTAAGATGAACCCACGTGTCAGCTCAATGCATGTCCACATCAACAAAATC
1 AATGTTTAAGATGAACCCACGTGTCAGCTCAATGCATGTCCACATCAACAAAATC
21561533 TTGAAAAAAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (55 bp):
AATGTTTAAGATGAACCCACGTGTCAGCTCAATGCATGTCCACATCAACAAAATC
Found at i:21563382 original size:43 final size:43
Alignment explanation
Indices: 21563321--21563408 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
21563311 TAAAATAGAC
* *
21563321 TAAAATTAGAGTTCTAATATGATTATAATATTGCTAGAATAAT
1 TAAAACTAGAGTTCTAATATGATTATAATATTCCTAGAATAAT
*
21563364 TAAAACTAGAGTTGTAATATGATTATAATATTCCTAGAATAAT
1 TAAAACTAGAGTTCTAATATGATTATAATATTCCTAGAATAAT
21563407 TA
1 TA
21563409 GAGTTTAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (43 bp):
TAAAACTAGAGTTCTAATATGATTATAATATTCCTAGAATAAT
Found at i:21571000 original size:2 final size:2
Alignment explanation
Indices: 21570993--21571024 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
21570983 GCATCAAACT
*
21570993 TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21571025 CATGAGCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21573860 original size:25 final size:25
Alignment explanation
Indices: 21573832--21573937 Score: 92
Period size: 25 Copynumber: 4.2 Consensus size: 25
21573822 AAGCTCGTAC
21573832 GAGCCAAATATTGGGAAGCTCAAGA
1 GAGCCAAATATTGGGAAGCTCAAGA
*
21573857 GAGCC-ATTAATTGGGAAGCTCAAGA
1 GAGCCAAAT-ATTGGGAAGCTCAAGA
* *
21573882 GAGCCAAACA-TCGGAATGCTCATA-A
1 GAGCCAAATATTGGGAA-GCTCA-AGA
* * * **
21573907 GAGCTAAATAATAGGAAGCTCGTGA
1 GAGCCAAATATTGGGAAGCTCAAGA
21573932 GAGCCA
1 GAGCCA
21573938 TTGTGTGTCT
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
24 7 0.11
25 51 0.78
26 7 0.11
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.17
Consensus pattern (25 bp):
GAGCCAAATATTGGGAAGCTCAAGA
Found at i:21575962 original size:63 final size:63
Alignment explanation
Indices: 21575863--21575986 Score: 212
Period size: 63 Copynumber: 2.0 Consensus size: 63
21575853 CTGATAACTA
* * * *
21575863 TTATTATATGAGAATTTGATTAACGACAGATATTTCTCCCAATTGCCTTCGAACTCTAAAATG
1 TTATTATATGAGAATTCGATTAACAACAAATATTTCTCCCAATTGCCTTCAAACTCTAAAATG
21575926 TTATTATATGAGAATTCGATTAACAACAAATATTTCTCCCAATTGCCTTCAAACTCTAAAA
1 TTATTATATGAGAATTCGATTAACAACAAATATTTCTCCCAATTGCCTTCAAACTCTAAAA
21575987 CACAACACCG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (63 bp):
TTATTATATGAGAATTCGATTAACAACAAATATTTCTCCCAATTGCCTTCAAACTCTAAAATG
Found at i:21600539 original size:28 final size:29
Alignment explanation
Indices: 21600498--21600552 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
21600488 AGTCATTTAG
*
21600498 TATTTTTCTATGTTAGTATAATTTGATTA
1 TATTTTTCTATGTTAATATAATTTGATTA
* *
21600527 TATTTTT-TTTGTTAATATAGTTTGAT
1 TATTTTTCTATGTTAATATAATTTGAT
21600553 GGCATGTACC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.62
Consensus pattern (29 bp):
TATTTTTCTATGTTAATATAATTTGATTA
Found at i:21600599 original size:81 final size:82
Alignment explanation
Indices: 21600463--21600625 Score: 274
Period size: 81 Copynumber: 2.0 Consensus size: 82
21600453 GTTCTTTTGT
* * *
21600463 TAGTTTCATGTCATGTACCTAAGAGAGTCATTTAGTATTTTTCTATGTTAGTATAATTTGATTAT
1 TAGTTTCATGGCATGTACCTAAGAGAGTCATTTAGTATTTTGCTATGTTACTATAATTTGATTAT
*
21600528 AT-TTTTTTTGTTAATA
66 ATGTTTTGTTGTTAATA
*
21600544 TAGTTTGATGGCATGTACCTAAGAGAGTCATTTAGTATTTTGCTATGTTACTATAATTTGATTAT
1 TAGTTTCATGGCATGTACCTAAGAGAGTCATTTAGTATTTTGCTATGTTACTATAATTTGATTAT
21600609 ATGTTTTGTTGTTAATA
66 ATGTTTTGTTGTTAATA
21600626 GACAATATGC
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
81 63 0.83
82 13 0.17
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.50
Consensus pattern (82 bp):
TAGTTTCATGGCATGTACCTAAGAGAGTCATTTAGTATTTTGCTATGTTACTATAATTTGATTAT
ATGTTTTGTTGTTAATA
Found at i:21602771 original size:23 final size:23
Alignment explanation
Indices: 21602708--21602799 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 23
21602698 TAAATGCTAG
*
21602708 CAAAAGTATGTTTCAAATGTTGT-
1 CAAAA-TATGTTTTAAATGTTGTC
* * * *
21602731 TAAACTAAGATTTAAATGTTGTC
1 CAAAATATGTTTTAAATGTTGTC
**
21602754 CAAAATATGTTTTAAATGTCATC
1 CAAAATATGTTTTAAATGTTGTC
** *
21602777 CAAAACGTGTTTTAATTGTTGTC
1 CAAAATATGTTTTAAATGTTGTC
21602800 TAACCTAGAC
Statistics
Matches: 52, Mismatches: 16, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
22 14 0.27
23 38 0.73
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (23 bp):
CAAAATATGTTTTAAATGTTGTC
Found at i:21603433 original size:72 final size:72
Alignment explanation
Indices: 21603321--21603545 Score: 261
Period size: 72 Copynumber: 3.1 Consensus size: 72
21603311 TTATTTTTTG
** * * * *
21603321 ATTTTACCGACCAGCGCAGAACACACTTATTTGTCAGTTATACTAACTAGTGCTGGGCATACTCA
1 ATTTTACCGACCAGCGCAGGGCACACTTATTTGTCAGTTATACTAACCAATGCTGGGCACAATCA
21603386 TTTTTCA
66 TTTTTCA
* * * * * *
21603393 ATTTTACCGACCAGCGCAGGGTACACTTATTTGTCGGTTATACCAACCAATACTGGGCACATTTA
1 ATTTTACCGACCAGCGCAGGGCACACTTATTTGTCAGTTATACTAACCAATGCTGGGCACAATCA
**
21603458 TTTTTTG
66 TTTTTCA
* ** * * * *
21603465 GTTTTACCGACCAATGCAAGGCGCACTTATTTGTCAGTTATACTGACCAATGTTGGGCACAATCA
1 ATTTTACCGACCAGCGCAGGGCACACTTATTTGTCAGTTATACTAACCAATGCTGGGCACAATCA
21603530 TTTTTCA
66 TTTTTCA
21603537 ATTTTACCG
1 ATTTTACCG
21603546 GCTAGCCCAA
Statistics
Matches: 124, Mismatches: 29, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
72 124 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (72 bp):
ATTTTACCGACCAGCGCAGGGCACACTTATTTGTCAGTTATACTAACCAATGCTGGGCACAATCA
TTTTTCA
Found at i:21606712 original size:49 final size:49
Alignment explanation
Indices: 21606655--21606886 Score: 257
Period size: 49 Copynumber: 4.7 Consensus size: 49
21606645 CTGGTACGCA
* * *
21606655 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGCACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
21606704 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
** * * * * *
21606754 TAGTAGCCTATACTTAGTACTACGCACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
* * *
21606805 TAGTAGCCTGCACTTAGTACTACACATGAGACCAATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** *
21606854 TAGTAGCCCACATTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
21606887 TCACAACAGA
Statistics
Matches: 148, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 69 0.47
50 44 0.30
51 35 0.24
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:21606825 original size:101 final size:100
Alignment explanation
Indices: 21606655--21606884 Score: 259
Period size: 101 Copynumber: 2.3 Consensus size: 100
21606645 CTGGTACGCA
** * * * * * * *
21606655 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGCACACGTAGTAGCCTGCACT
1 TAGTAGCCCACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
*
21606718 TAGTACTACACACGTGACCTAACCA-TCTGATACACG
66 TAGTACTACACACGAGACC-AACCATTC-GATACACG
* * *
21606754 TAGTAGCCTATACTTAGTACTACGCACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCCACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
* ** *
21606819 TAGTACTACACATGAGACCAATTATTCGGTACACG
66 TAGTACTACACACGAGACCAACCATTCGATACACG
*
21606854 TAGTAGCCCACATTTAGTACTACACACGTGA
1 TAGTAGCCCACACTTAGTACTACACACGTGA
21606885 CCTCACAACA
Statistics
Matches: 109, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
99 26 0.24
100 40 0.37
101 43 0.39
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (100 bp):
TAGTAGCCCACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
TAGTACTACACACGAGACCAACCATTCGATACACG
Found at i:21606884 original size:100 final size:101
Alignment explanation
Indices: 21606655--21606884 Score: 261
Period size: 100 Copynumber: 2.3 Consensus size: 101
21606645 CTGGTACGCA
** * * * * * * *
21606655 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGCACACGTAGTAGCCTGCACT
1 TAGTAGCCCACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
*
21606718 TAGTACTACACACGTGACCTAACCATCTGATACACG
66 TAGTACTACACACGAGACCTAACCATCTGATACACG
* * *
21606754 TAGTAGCCTATACTTAGTACTACGCACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCCACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
* ** *
21606819 TAGTACTACACATGAGACC-AATTAT-TCGGTACACG
66 TAGTACTACACACGAGACCTAACCATCT-GATACACG
*
21606854 TAGTAGCCCACATTTAGTACTACACACGTGA
1 TAGTAGCCCACACTTAGTACTACACACGTGA
21606885 CCTCACAACA
Statistics
Matches: 109, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
99 27 0.25
100 41 0.38
101 41 0.38
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (101 bp):
TAGTAGCCCACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
TAGTACTACACACGAGACCTAACCATCTGATACACG
Found at i:21607163 original size:27 final size:27
Alignment explanation
Indices: 21607133--21607186 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
21607123 TCATACAACC
* *
21607133 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
21607160 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
21607187 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:21616419 original size:93 final size:93
Alignment explanation
Indices: 21616260--21616430 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
21616250 GGATGGTTGA
* * * *
21616260 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAATGCCCGAACTCATTGAGT
21616325 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
21616353 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAATGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAATGCCCGAACTCATTGAGT
21616418 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
21616431 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:21616437 original size:46 final size:45
Alignment explanation
Indices: 21616264--21616438 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
21616254 GGTTGAGCAT
*
21616264 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
21616309 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT-
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
21616357 CCGAGCTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
21616402 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21616439 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 66 0.61
47 30 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21625899 original size:24 final size:26
Alignment explanation
Indices: 21625849--21625902 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
21625839 CGAGGCATAT
*
21625849 AATTCATGATAGCAATTAAGCATTTA
1 AATTCATGATAACAATTAAGCATTTA
*
21625875 AATTCAT-ATAAC-ATTAAAGCATTAA
1 AATTCATGATAACAATT-AAGCATTTA
21625900 AAT
1 AAT
21625903 ATGTAACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 15 0.60
26 7 0.28
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.33
Consensus pattern (26 bp):
AATTCATGATAACAATTAAGCATTTA
Found at i:21634406 original size:46 final size:46
Alignment explanation
Indices: 21634341--21634458 Score: 157
Period size: 46 Copynumber: 2.6 Consensus size: 46
21634331 TTATCTTTGA
* * * * *
21634341 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACACA-TTTCATAT
*
21634387 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATAT
*
21634433 CAGGTTGCCATGGTATCTTTCAACTA
1 CATGTTGCCATGGTATCTTTCAACTA
21634459 GAGCTGATCA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 4 0.06
46 59 0.94
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATAT
Found at i:21634752 original size:21 final size:22
Alignment explanation
Indices: 21634726--21634784 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
21634716 GTTTTAAGAA
*
21634726 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
21634747 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
21634769 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
21634785 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:21634799 original size:26 final size:24
Alignment explanation
Indices: 21634755--21634804 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
21634745 ATTTGTTTTA
*
21634755 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
21634779 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
21634805 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:21635076 original size:46 final size:46
Alignment explanation
Indices: 21635009--21635104 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 46
21634999 ATCACCTCTA
* *
21635009 CTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATAGTAT
1 CTTTCAACCATGATCTTACACATTTCATATCAAGCTGCCATAGTAT
*
21635055 CTTTCAACCATGATCTTACACATTTCATATCAAGCTGCCATGGTAT
1 CTTTCAACCATGATCTTACACATTTCATATCAAGCTGCCATAGTAT
21635101 CTTT
1 CTTT
21635105 ATAAATAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (46 bp):
CTTTCAACCATGATCTTACACATTTCATATCAAGCTGCCATAGTAT
Found at i:21637051 original size:30 final size:30
Alignment explanation
Indices: 21636984--21637051 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
21636974 CACCCTTAAA
* * *
21636984 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
21637014 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
21637043 AGTATTTAC
1 A-TATTTAC
21637052 TCTTAGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:21641184 original size:26 final size:24
Alignment explanation
Indices: 21641155--21641237 Score: 89
Period size: 24 Copynumber: 3.4 Consensus size: 24
21641145 GCTATGATCG
21641155 GTAAGCTCCT-TCTAAGCTGATGAACA
1 GTAAGCT-CTATC-AAGCTGA-GAACA
* *
21641181 GTAAGCTCTATCGAGCTGAAAACA
1 GTAAGCTCTATCAAGCTGAGAACA
*
21641205 GTAAGCTCTGA-CAAGCTGAGAATA
1 GTAAGCTCT-ATCAAGCTGAGAACA
21641229 GTAAGCTCT
1 GTAAGCTCT
21641238 TACGAGTTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 32 0.64
25 9 0.18
26 9 0.18
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (24 bp):
GTAAGCTCTATCAAGCTGAGAACA
Found at i:21641208 original size:24 final size:25
Alignment explanation
Indices: 21641177--21641272 Score: 92
Period size: 24 Copynumber: 3.9 Consensus size: 25
21641167 TAAGCTGATG
21641177 AACAGTAAGCTCTAT-CGAGCTGAA
1 AACAGTAAGCTCTATACGAGCTGAA
* * *
21641201 AACAGTAAGCTCT-GACAAGCTGAG
1 AACAGTAAGCTCTATACGAGCTGAA
* *
21641225 AATAGTAAGCTCT-TACGAGTTGATA
1 AACAGTAAGCTCTATACGAGCTGA-A
*
21641250 TATCAGTAAGCTC-ATACGAGCTG
1 -AACAGTAAGCTCTATACGAGCTG
21641273 CGGTGGGTCC
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
24 39 0.68
26 18 0.32
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (25 bp):
AACAGTAAGCTCTATACGAGCTGAA
Found at i:21642714 original size:19 final size:19
Alignment explanation
Indices: 21642690--21642727 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
21642680 CTCAATAACA
21642690 TAGCTCATTTCATATACAC
1 TAGCTCATTTCATATACAC
21642709 TAGCTCATTTCATATACAC
1 TAGCTCATTTCATATACAC
21642728 ACCTTTTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (19 bp):
TAGCTCATTTCATATACAC
Found at i:21643054 original size:45 final size:42
Alignment explanation
Indices: 21642990--21643112 Score: 147
Period size: 45 Copynumber: 2.8 Consensus size: 42
21642980 TGGTTGAAGG
* *
21642990 ATGTCATAGTGTCTTTCAACCATGGTCCTATTCATTCTCGACTTA
1 ATGTCATAGTGTCTTTCAACCATGGTCTTATT-ATT-T-GACATA
* *
21643035 ATGTCATAGTGTCTTTCAACCATGGTCTTATATATTTTACATC
1 ATGTCATAGTGTCTTTCAACCATGGTCTTAT-TATTTGACATA
21643078 ATGTTGCCATAGTGTCTTTCAACCATGGTCTTATT
1 ATG-T--CATAGTGTCTTTCAACCATGGTCTTATT
21643113 TGTCTGATTC
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 34 0.49
46 28 0.40
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (42 bp):
ATGTCATAGTGTCTTTCAACCATGGTCTTATTATTTGACATA
Found at i:21646696 original size:42 final size:42
Alignment explanation
Indices: 21646636--21646797 Score: 139
Period size: 42 Copynumber: 3.9 Consensus size: 42
21646626 TGAGTTATAT
*
21646636 GGCCTGGACACACGCCCATGTCCTTGCCCGTGTGGCTCACAC
1 GGCCTGGGCACACGCCCATGTCCTTGCCCGTGTGGCTCACAC
* * *
21646678 GGCCTGGGCACACACCCATGTCCTTACCTC-TATGGCTCACAC
1 GGCCTGGGCACACGCCCATGTCCTTGCC-CGTGTGGCTCACAC
* ** * *** * * * * *
21646720 AGTTTAGGCACACGTTGATGTCCTTGCCTGTGTAGTTCAAAT
1 GGCCTGGGCACACGCCCATGTCCTTGCCCGTGTGGCTCACAC
*
21646762 GGCCTGGGCACACGCCCATGTCCCTAG-CCGTGTGGC
1 GGCCTGGGCACACGCCCATGT-CCTTGCCCGTGTGGC
21646798 GTCGATAGTC
Statistics
Matches: 87, Mismatches: 30, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
42 82 0.94
43 5 0.06
ACGTcount: A:0.17, C:0.35, G:0.25, T:0.23
Consensus pattern (42 bp):
GGCCTGGGCACACGCCCATGTCCTTGCCCGTGTGGCTCACAC
Found at i:21648074 original size:64 final size:64
Alignment explanation
Indices: 21648001--21648209 Score: 147
Period size: 64 Copynumber: 3.1 Consensus size: 64
21647991 CTGGGCCAAA
*
21648001 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
21648065 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
21648127 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
21648138 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
21648202 GCCCATTT
1 GCCCATTT
21648210 GGAAATACAT
Statistics
Matches: 101, Mismatches: 27, Indels: 34
0.62 0.17 0.21
Matches are distributed among these distances:
63 9 0.09
64 23 0.23
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:21648216 original size:137 final size:136
Alignment explanation
Indices: 21647967--21648252 Score: 509
Period size: 137 Copynumber: 2.1 Consensus size: 136
21647957 CATTGGGCCT
**
21647967 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
21648032 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
21648097 CATATGC
130 CATATGC
*
21648104 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
**
21648169 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTGGAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
21648234 ATATGC
131 ATATGC
21648240 AAGCCCATTTGGG
1 AAGCCCATTTGGG
21648253 GAGACTACTC
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 22 0.15
137 121 0.85
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:21650064 original size:26 final size:26
Alignment explanation
Indices: 21650028--21650111 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
21650018 CATGAAATTC
21650028 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
21650054 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
21650080 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
21650106 TTATCA
1 TTATCA
21650112 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:21650816 original size:30 final size:31
Alignment explanation
Indices: 21650781--21650839 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
21650771 TTTCGGGATG
*
21650781 TTACAATTTTTTTAAATTT-TAATAATTTTT
1 TTACAATCTTTTTAAATTTCTAATAATTTTT
*
21650811 TTACAATCTTTTTCAATTTCTAATAATTT
1 TTACAATCTTTTTAAATTTCTAATAATTT
21650840 ATTATAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (31 bp):
TTACAATCTTTTTAAATTTCTAATAATTTTT
Found at i:21650881 original size:19 final size:19
Alignment explanation
Indices: 21650819--21650881 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
21650809 TTTTACAATC
* *
21650819 TTTTTCAATTTCTAATAAT
1 TTTTACAATTTCTAATAAA
* * *
21650838 TTATTATAATATGT-ATAATA
1 TT-TTACAATTTCTAATAA-A
21650858 TTTTACAATTTCTAATAAA
1 TTTTACAATTTCTAATAAA
21650877 TTTTA
1 TTTTA
21650882 TATTGTTATA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 20 0.61
20 13 0.39
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTTACAATTTCTAATAAA
Found at i:21661388 original size:21 final size:21
Alignment explanation
Indices: 21661364--21661405 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
21661354 AAAAACAATC
21661364 ATGTTGAAATGGAGTTTCATA
1 ATGTTGAAATGGAGTTTCATA
21661385 ATGTTGAAATGGAGTTTCATA
1 ATGTTGAAATGGAGTTTCATA
21661406 TTTCATCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (21 bp):
ATGTTGAAATGGAGTTTCATA
Found at i:21676127 original size:11 final size:11
Alignment explanation
Indices: 21676111--21676135 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21676101 ATATCTAGAA
21676111 TTCTCTTCATT
1 TTCTCTTCATT
21676122 TTCTCTTCATT
1 TTCTCTTCATT
21676133 TTC
1 TTC
21676136 ATCAGCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:21677415 original size:25 final size:25
Alignment explanation
Indices: 21677386--21677437 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
21677376 AAGAATAATT
**
21677386 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
21677411 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
21677436 TG
1 TG
21677438 TTAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:21678103 original size:10 final size:10
Alignment explanation
Indices: 21678088--21678115 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
21678078 ATATTACATG
21678088 TTTACTTTGT
1 TTTACTTTGT
21678098 TTTACTTTGT
1 TTTACTTTGT
21678108 TTTACTTT
1 TTTACTTT
21678116 TTCCCCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.71
Consensus pattern (10 bp):
TTTACTTTGT
Found at i:21682844 original size:18 final size:18
Alignment explanation
Indices: 21682821--21682863 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
21682811 TGGCCAATAT
21682821 CCCACACGCCCGTGTGGG
1 CCCACACGCCCGTGTGGG
* *
21682839 CCCACATGCCCTTGTGGG
1 CCCACACGCCCGTGTGGG
21682857 -CCACACG
1 CCCACACG
21682864 AACCAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.14, C:0.44, G:0.28, T:0.14
Consensus pattern (18 bp):
CCCACACGCCCGTGTGGG
Found at i:21686540 original size:30 final size:30
Alignment explanation
Indices: 21686504--21686561 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
21686494 TGGCAAACAT
21686504 TGCCCTGACGTATAGAATTATTATTTAATA
1 TGCCCTGACGTATAGAATTATTATTTAATA
21686534 TGCCCTGACGTATAGAATTATTATTTAA
1 TGCCCTGACGTATAGAATTATTATTTAA
21686562 CATCGCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (30 bp):
TGCCCTGACGTATAGAATTATTATTTAATA
Found at i:21691432 original size:16 final size:16
Alignment explanation
Indices: 21691411--21691443 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21691401 GAGTTACAAA
21691411 TTTATTT-ATCAGACAT
1 TTTATTTCATCA-ACAT
21691427 TTTATTTCATCAACAT
1 TTTATTTCATCAACAT
21691443 T
1 T
21691444 CATAGCTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTATTTCATCAACAT
Found at i:21693340 original size:11 final size:11
Alignment explanation
Indices: 21693299--21693343 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
21693289 GTCCTTTCAC
**
21693299 AATTCTCTTTA
1 AATTCTCTCAA
* *
21693310 AATTCTTTCTA
1 AATTCTCTCAA
21693321 AATTCTCTCAA
1 AATTCTCTCAA
21693332 AATTCTCTCAA
1 AATTCTCTCAA
21693343 A
1 A
21693344 TTTCATCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTCTCTCAA
Found at i:21693352 original size:21 final size:22
Alignment explanation
Indices: 21693299--21693353 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
21693289 GTCCTTTCAC
** *
21693299 AATTCTCTTTAAATTCTTTCTA
1 AATTCTCTCAAAATTCTCTCTA
21693321 AATTCTCTCAAAATTCTCTC-A
1 AATTCTCTCAAAATTCTCTCTA
21693342 AATT-TCATCAAA
1 AATTCTC-TCAAA
21693354 GCTGTCTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.07
21 10 0.34
22 17 0.59
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTCTCTCAAAATTCTCTCTA
Found at i:21696986 original size:7 final size:7
Alignment explanation
Indices: 21696973--21697005 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
21696963 TGGTTGTTTC
21696973 GTATTTA
1 GTATTTA
*
21696980 ATATTTA
1 GTATTTA
21696987 GTATTTA
1 GTATTTA
21696994 GTATTTA
1 GTATTTA
21697001 GTATT
1 GTATT
21697006 ACCTATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:21697856 original size:22 final size:21
Alignment explanation
Indices: 21697830--21697884 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
21697820 CCTCAACCAG
*
21697830 ATCCCCTACCGGAGGAACCACA
1 ATCCCC-ACCGGAGCAACCACA
*
21697852 ATCCCCACTGGAGCAACCACA
1 ATCCCCACCGGAGCAACCACA
21697873 A-CCCTCACCGGA
1 ATCCC-CACCGGA
21697885 AGCTGAACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.10
21 20 0.69
22 6 0.21
ACGTcount: A:0.31, C:0.44, G:0.16, T:0.09
Consensus pattern (21 bp):
ATCCCCACCGGAGCAACCACA
Found at i:21698140 original size:128 final size:128
Alignment explanation
Indices: 21697988--21698361 Score: 660
Period size: 128 Copynumber: 2.9 Consensus size: 128
21697978 TTGTAGAAAC
21697988 ATTTTTATATAGTTTT-ATATAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
1 ATTTTTATATAGTTTTAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
*
21698052 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATGTTT
65 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTT
*
21698116 ATTTTTATATAGTTTTAATTAATAAAATAAAAGTTTTTTTTAATATTTTAATTGTACTTTACTTT
1 ATTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
* *
21698181 TTTTAATTTTATTAAAATAAATATTCTTTTAAATTGGCCAATATTTTTATTATTTTTATATTT
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTT
*
21698244 ATTTTTATATAGTTTTAATTAATAAAATGAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 ATTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
* *
21698309 TTTTAATTTTAATACAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTA
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAAT-ATTTTTATTA
21698362 AAATAAATGT
Statistics
Matches: 234, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
128 222 0.95
129 12 0.05
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.56
Consensus pattern (128 bp):
ATTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTT
Found at i:21698390 original size:39 final size:38
Alignment explanation
Indices: 21698315--21698399 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 38
21698305 CTTTTTTTAA
* * *
21698315 TTTTAATACAATAAATGTTCTTTTAAATTAGCCAATAAT
1 TTTTAATAAAATAAATGTTATTTTAAATCAGCCAAT-AT
* *
21698354 TTTTATTAAAATAAATGTTATTTTGAATACAG-CAATAT
1 TTTTAATAAAATAAATGTTATTTTAAAT-CAGCCAATAT
21698392 TTTTAATA
1 TTTTAATA
21698400 TTTTTATATT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
38 9 0.23
39 28 0.72
40 2 0.05
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (38 bp):
TTTTAATAAAATAAATGTTATTTTAAATCAGCCAATAT
Found at i:21698403 original size:8 final size:9
Alignment explanation
Indices: 21698387--21698416 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
21698377 TGAATACAGC
21698387 AATATTTTT
1 AATATTTTT
21698396 AATATTTTT
1 AATATTTTT
21698405 -ATATTTTT
1 AATATTTTT
21698413 AATA
1 AATA
21698417 AAATATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:21701678 original size:126 final size:126
Alignment explanation
Indices: 21701448--21701755 Score: 501
Period size: 126 Copynumber: 2.4 Consensus size: 126
21701438 GTCTAAGGCG
* *
21701448 TTTTCAGATACTACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGACA
1 TTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTACTGACA
*
21701513 ATGCATCATTCTTAAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATT
66 ATGCATCATTCTTAAAGCATTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTATT
* * * *
21701574 TTTTCAAATACTACTGTAGCAAAATAGCATCCATGTGGGAGC-TTTTTCCTGTAATTTTACTGAC
1 TTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCC-GTAATTTTACTGAC
* *
21701638 AGTGCATCATTCTTAAAGCGTTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTATT
65 AATGCATCATTCTTAAAGCATTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTATT
* *
21701700 TTTTCAGATACTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCCGTAATT
1 TTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATT
21701756 AATAGTTAAT
Statistics
Matches: 165, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
125 7 0.04
126 151 0.92
127 7 0.04
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (126 bp):
TTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTACTGACA
ATGCATCATTCTTAAAGCATTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTATT
Found at i:21701961 original size:16 final size:16
Alignment explanation
Indices: 21701937--21701970 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21701927 TAAAATAATA
*
21701937 AAAAAACCTTAACCCT
1 AAAAAACCTAAACCCT
*
21701953 AAAACACCTAAACCCT
1 AAAAAACCTAAACCCT
21701969 AA
1 AA
21701971 TTTAATTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAAACCTAAACCCT
Found at i:21702077 original size:16 final size:17
Alignment explanation
Indices: 21702052--21702090 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
21702042 CCTTAGAAAA
21702052 CACT-AAAACCATAAAC
1 CACTAAAAACCATAAAC
*
21702068 C-CTAAAAACCCTAAAC
1 CACTAAAAACCATAAAC
21702084 CACTAAA
1 CACTAAA
21702091 CATTAACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 13 0.65
17 5 0.25
ACGTcount: A:0.54, C:0.33, G:0.00, T:0.13
Consensus pattern (17 bp):
CACTAAAAACCATAAAC
Found at i:21702229 original size:175 final size:172
Alignment explanation
Indices: 21701776--21702279 Score: 730
Period size: 173 Copynumber: 2.9 Consensus size: 172
21701766 TTAGTTAATA
*
21701776 AACCCTAAAAAACCCTAAACCCTAATTTAATTA--TTTTTAATTTAATAGTTAATTTAATTAATT
1 AACCCTAAAAAACCCTAAACCCTAATTTAATTATTTTTTTAATTTCATAGTTAATTTAATTAATT
* * *
21701839 AACCCTCAAGTCTAATTAAATTAATTTTTTCCTTAAAAAATACTAAAATCCTAAATCCTAAAAAC
66 AACCCTCAACTCTAATTAAATTAATTTTTTCCTTAAAAAACACTAAAA-CCTAAACCCTAAAAAC
* * *
21701904 CCTAAACCACTAAACCGTAACCCTAAAATAATAAAAAAACCTT
130 CCTAAACCACTAAACAGTAACCCTAAAACAATAAAAAAACCCT
*
21701947 AACCCTAAAACA-CCTAAACCCTAATTTAATTGATTTTTTTAATTTCAT-GATTAATTTAATTAA
1 AACCCTAAAAAACCCTAAACCCTAATTTAATT-ATTTTTTTAATTTCATAG-TTAATTTAATTAA
*
21702010 TTAACCCTCAACTCTAATTAAATTAATTTTTTCCTTAGAAAACACTAAAACCATAAACCCTAAAA
64 TTAACCCTCAACTCTAATTAAATTAATTTTTTCCTTAAAAAACACTAAAACC-TAAACCCTAAAA
* ** *
21702075 ACCCTAAACCACTAAACATTAACTTTAAAACAAT-CAAAAACCCT
128 ACCCTAAACCACTAAACAGTAACCCTAAAACAATAAAAAAACCCT
*
21702119 AACCTTAAAAAACCCTAAACCCTAATTTAATTAATTTTTTTTTAATTTCATAGTTAATTTAATTA
1 AACCCTAAAAAACCCTAAACCCTAATTTAATT-A--TTTTTTTAATTTCATAGTTAATTTAATTA
*
21702184 ATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCCTAAA
63 ATTAACCCTCAACTCTAATTAAATTAATTTTTTCCTTAAAAAACACTAAAA-CCTAAACCCTAAA
* * **
21702249 AACACTAAACCATTAAACTCTAACCCTAAAA
127 AACCCTAAACCACTAAACAGTAACCCTAAAA
21702280 AAAAGGGTCA
Statistics
Matches: 299, Mismatches: 24, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
170 19 0.06
171 12 0.04
172 21 0.07
173 132 0.44
175 112 0.37
176 3 0.01
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (172 bp):
AACCCTAAAAAACCCTAAACCCTAATTTAATTATTTTTTTAATTTCATAGTTAATTTAATTAATT
AACCCTCAACTCTAATTAAATTAATTTTTTCCTTAAAAAACACTAAAACCTAAACCCTAAAAACC
CTAAACCACTAAACAGTAACCCTAAAACAATAAAAAAACCCT
Found at i:21702247 original size:15 final size:15
Alignment explanation
Indices: 21702224--21702279 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
21702214 TTCCCTTAAA
* *
21702224 AAACACTAAAACCCT
1 AAACCCTAAAACACT
21702239 AAACCCTAAAAACACT
1 AAACCCT-AAAACACT
* * *
21702255 AAACCATTAAACTCT
1 AAACCCTAAAACACT
21702270 -AACCCTAAAA
1 AAACCCTAAAA
21702280 AAAAGGGTCA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
14 8 0.24
15 12 0.36
16 13 0.39
ACGTcount: A:0.54, C:0.30, G:0.00, T:0.16
Consensus pattern (15 bp):
AAACCCTAAAACACT
Found at i:21703351 original size:22 final size:23
Alignment explanation
Indices: 21703312--21703389 Score: 63
Period size: 22 Copynumber: 3.4 Consensus size: 23
21703302 CACTATTAAA
* * *
21703312 CAGAGAGTATTGAAGTGCTATA-
1 CAGAGAGCATAGATGTGCTATAG
21703334 CAGAGAGCATAGATGTGCTA-AG
1 CAGAGAGCATAGATGTGCTATAG
* *
21703356 CGGAGAGCACTA-ATGTGCTAATAAT
1 CAGAGAGCA-TAGATGTGCT-AT-AG
21703381 CAGAGAGCA
1 CAGAGAGCA
21703390 CTAACGTACT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 1 0.02
22 32 0.71
23 3 0.07
25 9 0.20
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (23 bp):
CAGAGAGCATAGATGTGCTATAG
Found at i:21703391 original size:25 final size:25
Alignment explanation
Indices: 21703358--21703409 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
21703348 GTGCTAAGCG
* *
21703358 GAGAGCACTAATGTGCTAATAATCA
1 GAGAGCACTAACGTACTAATAATCA
21703383 GAGAGCACTAACGTACTAATAATCA
1 GAGAGCACTAACGTACTAATAATCA
21703408 GA
1 GA
21703410 TAGCGCGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.21
Consensus pattern (25 bp):
GAGAGCACTAACGTACTAATAATCA
Found at i:21704320 original size:169 final size:170
Alignment explanation
Indices: 21704034--21704340 Score: 422
Period size: 169 Copynumber: 1.8 Consensus size: 170
21704024 TATCTTTAAT
* * * *
21704034 CAAATCATGAACCTTTGGTTCAAGCTTTCAATCACATATCTCAATTTCAATTCACATTTCAATTC
1 CAAATCATGAACCTTAGGTTCAAGCTTTCAATCACACATCTCAATTTCAATTCACAATTCAACTC
* * *
21704099 ATAATTCCACTTTTTCATACTTTTAATAGTTCAATCGATCAAATTCATTTAATTTTCTCATTTCA
66 ATAATT-CACTTTCTCATACTTTTAATAGTACAATCAATCAAATTCATTTAATTTTCTCATTTCA
*
21704164 TTTATTCAACTGATTTCAATATCAACAATTTGATATTTTAG
130 GTTATTCAACTGATTTCAATATCAACAATTTGATATTTTAG
* * * *
21704205 CAAATTCATGAACCTTAGGTTTATGC-TTCAAATCTCACATCTCAA-TTCATTTCACAATTCAAC
1 CAAA-TCATGAACCTTAGGTTCAAGCTTTC-AATCACACATCTCAATTTCAATTCACAATTCAAC
* * * *
21704268 TCATAATT-TCTTTCTCATATTTTTAATAGTACGATCAATCAAATTTATTTAATTTTCTCATTTC
64 TCATAATTCACTTTCTCATACTTTTAATAGTACAATCAATCAAATTCATTTAATTTTCTCATTTC
21704332 AGTTATTCA
129 AGTTATTCA
21704341 CCCTATTAAC
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
169 57 0.48
171 30 0.25
172 31 0.26
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (170 bp):
CAAATCATGAACCTTAGGTTCAAGCTTTCAATCACACATCTCAATTTCAATTCACAATTCAACTC
ATAATTCACTTTCTCATACTTTTAATAGTACAATCAATCAAATTCATTTAATTTTCTCATTTCAG
TTATTCAACTGATTTCAATATCAACAATTTGATATTTTAG
Found at i:21704512 original size:23 final size:23
Alignment explanation
Indices: 21704463--21704560 Score: 137
Period size: 23 Copynumber: 4.3 Consensus size: 23
21704453 AGTGCATGAA
21704463 ACGACACACGAGGTGCCTG--AT
1 ACGACACACGAGGTGCCTGAAAT
* *
21704484 ACGACACACGAGATGCTTGAAAT
1 ACGACACACGAGGTGCCTGAAAT
* *
21704507 ATGACACACGAGGTGCTTGAAAT
1 ACGACACACGAGGTGCCTGAAAT
*
21704530 ACGACACACGAGGTGCCTAAAAT
1 ACGACACACGAGGTGCCTGAAAT
21704553 ACGACACA
1 ACGACACA
21704561 TAAAGTGCCT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
21 17 0.25
23 51 0.75
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.15
Consensus pattern (23 bp):
ACGACACACGAGGTGCCTGAAAT
Found at i:21704568 original size:23 final size:23
Alignment explanation
Indices: 21704503--21704570 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 23
21704493 GAGATGCTTG
* * * * *
21704503 AAATATGACACACGAGGTGCTTG
1 AAATACGACACACAAAGTGCCTA
* *
21704526 AAATACGACACACGAGGTGCCTA
1 AAATACGACACACAAAGTGCCTA
*
21704549 AAATACGACACATAAAGTGCCT
1 AAATACGACACACAAAGTGCCT
21704571 GATCGGCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.18
Consensus pattern (23 bp):
AAATACGACACACAAAGTGCCTA
Found at i:21704931 original size:44 final size:44
Alignment explanation
Indices: 21704840--21704931 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
21704830 CCCATGTAAC
* * * * **
21704840 AGTAGCAGTACGACACATATTGTGCCTCATCGACTCGATGTTGA
1 AGTAACAGTACGACACATATAGTGCCTCATCGACTCAAGGTCAA
*
21704884 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCAA
1 AGTAACAGTACGACACATATAGTGCCTCATCGACTCAAGGTCAA
21704928 AGTA
1 AGTA
21704932 TCCCTGAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (44 bp):
AGTAACAGTACGACACATATAGTGCCTCATCGACTCAAGGTCAA
Found at i:21711103 original size:25 final size:25
Alignment explanation
Indices: 21711075--21711144 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 25
21711065 TTTTTAATTC
21711075 TCTTAACAATAATTGTAAAAGAAAA
1 TCTTAACAATAATTGTAAAAGAAAA
* *
21711100 TCTTAAACTAA-AAAT-TAATAGAAAA
1 TCTT-AAC-AATAATTGTAAAAGAAAA
*
21711125 TCTATAAAAATAATTG-AAAA
1 TCT-TAACAATAATTGTAAAA
21711145 TTCATAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
24 2 0.06
25 24 0.69
26 7 0.20
27 2 0.06
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.29
Consensus pattern (25 bp):
TCTTAACAATAATTGTAAAAGAAAA
Found at i:21713022 original size:26 final size:24
Alignment explanation
Indices: 21712982--21713041 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 24
21712972 TTATTTCATT
* *
21712982 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAATATAA
21713006 TAAATCAAATATATTTAAAAATATAA
1 -AAAT-AAATATATTTAAAAATATAA
21713032 AAATAAATAT
1 AAATAAATAT
21713042 TAAAACAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.25
26 18 0.56
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATAAATATATTTAAAAATATAA
Found at i:21713051 original size:24 final size:24
Alignment explanation
Indices: 21712998--21713070 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 24
21712988 AAAAATTTAA
**
21712998 AAATATAATAAATCAAATATATTTAA-
1 AAATATAA-AAAT-AAATAT-TAAAAC
21713024 AAATATAAAAATAAATATTAAAAC
1 AAATATAAAAATAAATATTAAAAC
*
21713048 -AA-ATAAAAAT-AATACTAAAAC
1 AAATATAAAAATAAATATTAAAAC
21713069 AA
1 AA
21713071 TTCTTAAAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 10 0.24
22 9 0.21
23 5 0.12
24 6 0.14
25 4 0.10
26 8 0.19
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (24 bp):
AAATATAAAAATAAATATTAAAAC
Found at i:21713053 original size:22 final size:22
Alignment explanation
Indices: 21713012--21713070 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
21713002 ATAATAAATC
* *
21713012 AAATATAT-TTAAAA-ATATAA
1 AAATAAATATTAAAACAAATAA
21713032 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
21713054 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
21713071 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.25
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:21713146 original size:15 final size:16
Alignment explanation
Indices: 21713116--21713148 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
21713106 AAATAGTTAT
21713116 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
21713133 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
21713148 A
1 A
21713149 AAAATATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:21728414 original size:12 final size:13
Alignment explanation
Indices: 21728378--21728415 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
21728368 AAATATTTGA
21728378 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
21728391 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
21728405 CTTG-TCTTAAT
1 CTTGTTCTTAAT
21728416 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:21749508 original size:17 final size:17
Alignment explanation
Indices: 21749482--21749515 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21749472 TATATAATTG
*
21749482 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
21749499 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
21749516 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:21750723 original size:48 final size:48
Alignment explanation
Indices: 21750652--21750807 Score: 210
Period size: 48 Copynumber: 3.3 Consensus size: 48
21750642 GAAATGACAT
*
21750652 TGGCACTATGTGAG-AGAATTTAAATGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCAG-ATTTAAATGGCACTATGTGTGCGGATTTGAA
*
21750700 TGGCACTATGTGTGCAGATTTAAATAGCACTATGTGTGC-GATTTGAA
1 TGGCACTATGTGTGCAGATTTAAATGGCACTATGTGTGCGGATTTGAA
* ** * *
21750747 TGGTACTATGTGTGCAGATTTGGATGGCACTACGTGTGCGGATTAGCAA
1 TGGCACTATGTGTGCAGATTTAAATGGCACTATGTGTGCGGATTTG-AA
21750796 -GGCACTATGTGT
1 TGGCACTATGTGT
21750808 ACGGGTTAGC
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
47 42 0.44
48 50 0.52
49 4 0.04
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (48 bp):
TGGCACTATGTGTGCAGATTTAAATGGCACTATGTGTGCGGATTTGAA
Found at i:21750755 original size:71 final size:72
Alignment explanation
Indices: 21750654--21750790 Score: 195
Period size: 71 Copynumber: 1.9 Consensus size: 72
21750644 AATGACATTG
* *
21750654 GCACTATGTGAGAGAATTTAAATGGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCAGAT
1 GCACTATGTGAGAGAATTTAAATGGCACTATGTGTGCAGATTTGAATGGCACTACGTGTGCAGAT
21750719 TTAAATA
66 TTAAATA
* * * * * *
21750726 GCACTATGTGTGCG-ATTTGAATGGTACTATGTGTGCAGATTTGGATGGCACTACGTGTGCGGAT
1 GCACTATGTGAGAGAATTTAAATGGCACTATGTGTGCAGATTTGAATGGCACTACGTGTGCAGAT
21750790 T
66 T
21750791 AGCAAGGCAC
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
71 45 0.79
72 12 0.21
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (72 bp):
GCACTATGTGAGAGAATTTAAATGGCACTATGTGTGCAGATTTGAATGGCACTACGTGTGCAGAT
TTAAATA
Found at i:21750785 original size:24 final size:24
Alignment explanation
Indices: 21750652--21750807 Score: 183
Period size: 24 Copynumber: 6.5 Consensus size: 24
21750642 GAAATGACAT
* *
21750652 TGGCACTATGTGAG-AGAATTTAAA
1 TGGCACTATGTGTGCAG-ATTTGAA
*
21750676 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCAGATTTGAA
*
21750700 TGGCACTATGTGTGCAGATTTAAA
1 TGGCACTATGTGTGCAGATTTGAA
*
21750724 TAGCACTATGTGTGC-GATTTGAA
1 TGGCACTATGTGTGCAGATTTGAA
* *
21750747 TGGTACTATGTGTGCAGATTTGGA
1 TGGCACTATGTGTGCAGATTTGAA
* * *
21750771 TGGCACTACGTGTGCGGATTAGCAA
1 TGGCACTATGTGTGCAGATTTG-AA
21750796 -GGCACTATGTGT
1 TGGCACTATGTGT
21750808 ACGGGTTAGC
Statistics
Matches: 113, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
23 20 0.18
24 91 0.81
25 2 0.02
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCAGATTTGAA
Found at i:21750801 original size:71 final size:72
Alignment explanation
Indices: 21750652--21750807 Score: 192
Period size: 71 Copynumber: 2.2 Consensus size: 72
21750642 GAAATGACAT
* * *
21750652 TGGCACTATGTGAGAGAATTTAAATGGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCAG
1 TGGCACTATGTGTGAGAATTTAAATGGCACTATGTGTGCAGATTTGAATGGCACTACGTGTGCAG
21750717 ATTTAAA
66 ATTTAAA
* * * * * *
21750724 TAGCACTATGTGTGCG-ATTTGAATGGTACTATGTGTGCAGATTTGGATGGCACTACGTGTGCGG
1 TGGCACTATGTGTGAGAATTTAAATGGCACTATGTGTGCAGATTTGAATGGCACTACGTGTGCAG
21750788 A-TTAGCAA
66 ATTTA--AA
21750796 -GGCACTATGTGT
1 TGGCACTATGTGT
21750808 ACGGGTTAGC
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
70 3 0.04
71 54 0.75
72 15 0.21
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (72 bp):
TGGCACTATGTGTGAGAATTTAAATGGCACTATGTGTGCAGATTTGAATGGCACTACGTGTGCAG
ATTTAAA
Found at i:21750816 original size:24 final size:24
Alignment explanation
Indices: 21750677--21750832 Score: 79
Period size: 24 Copynumber: 6.5 Consensus size: 24
21750667 GAATTTAAAT
* *
21750677 GGCACTATGTGTGCGGATTTG-AA
1 GGCACTATGTGTACGGATTAGCAA
* *
21750700 TGGCACTATGTGTGCAGATTTA--AA
1 -GGCACTATGTGTACGGA-TTAGCAA
* * *
21750724 TAGCACTATGTGTGC-GATTTG-AA
1 -GGCACTATGTGTACGGATTAGCAA
* * * * * *
21750747 TGGTACTATGTGTGCAGATTTGGAT
1 -GGCACTATGTGTACGGATTAGCAA
* *
21750772 GGCACTACGTGTGCGGATTAGCAA
1 GGCACTATGTGTACGGATTAGCAA
* *
21750796 GGCACTATGTGTACGGGTTAGCAT
1 GGCACTATGTGTACGGATTAGCAA
*
21750820 GGCAATATGTGTA
1 GGCACTATGTGTA
21750833 TGAATTTCCT
Statistics
Matches: 110, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
22 2 0.02
23 17 0.15
24 88 0.80
25 3 0.03
ACGTcount: A:0.24, C:0.13, G:0.31, T:0.31
Consensus pattern (24 bp):
GGCACTATGTGTACGGATTAGCAA
Found at i:21754433 original size:17 final size:18
Alignment explanation
Indices: 21754407--21754440 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21754397 TTTTTGTTTA
21754407 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
21754424 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
21754441 ATATTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:21754449 original size:23 final size:23
Alignment explanation
Indices: 21754422--21754472 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
21754412 ATTAATAGCA
21754422 TTAATAATTTAATATGCATATAT
1 TTAATAATTTAATATGCATATAT
21754445 TTAATAATTTAATATGCATATAT
1 TTAATAATTTAATATGCATATAT
21754468 TTAAT
1 TTAAT
21754473 TATTAATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
TTAATAATTTAATATGCATATAT
Found at i:21759186 original size:19 final size:19
Alignment explanation
Indices: 21759139--21759186 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
21759129 TATAGAGCAT
*
21759139 ACGCCCGTGTGCTAGGGAC
1 ACGCCCATGTGCTAGGGAC
*
21759158 ATGCCCATGTGCTAGGGAC
1 ACGCCCATGTGCTAGGGAC
*
21759177 ACGCCTATGT
1 ACGCCCATGT
21759187 CCTGAACCCG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.19, C:0.29, G:0.31, T:0.21
Consensus pattern (19 bp):
ACGCCCATGTGCTAGGGAC
Found at i:21761202 original size:46 final size:47
Alignment explanation
Indices: 21761071--21761423 Score: 289
Period size: 46 Copynumber: 7.5 Consensus size: 47
21761061 AGGCTGACGC
* **
21761071 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-GTTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCT--CATAT-CGTAGCCGATG
* * * *
21761120 CCATGTCCTAGACATGGTCTTACACT-G-ACACATCTCGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTAGCCGATG
* *
21761166 CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCGAAGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCT-CATATCGTAGCCGATG
* * * * * *
21761212 CATGTCCCAGACAT-GTCTTACAATAGCTCTCGTCTC-AATGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTA-GCCGATG
*
21761258 TCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGTAGCCGATG
* * * * * * *
21761306 CATGTCCCAGAC-TTGTCTTACACTAGCTCTCGTTTC-AATGTCGATAC
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTA-GCCGAT-G
* * *
21761353 CATGTCTCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCAATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGTAGCCGATG
21761400 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
21761424 AGCACACACA
Statistics
Matches: 247, Mismatches: 40, Indels: 36
0.76 0.12 0.11
Matches are distributed among these distances:
44 10 0.04
45 20 0.08
46 94 0.38
47 51 0.21
48 45 0.18
49 3 0.01
50 24 0.10
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTAGCCGATG
Found at i:21761278 original size:94 final size:93
Alignment explanation
Indices: 21761071--21761426 Score: 402
Period size: 94 Copynumber: 3.8 Consensus size: 93
21761061 AGGCTGACGC
* * ** *
21761071 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-GTTGATGCCATGTCCTAGACAT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTGGCCGATG-CATGTCCCAGACAT
* * * * *
21761135 GGTCTTACACT-G-ACACATCTC-GTAGCCGATG
62 -GTCTTACACTAGCTCTCGTCTCAAT-GTCGATG
* **
21761166 CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAAGCCGATGCATGTCCCAGACATGT
1 CATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCCAGACATGT
*
21761228 CTTACAATAGCTCTCGTCTCAATGTCGATG
64 CTTACACTAGCTCTCGTCTCAATGTCGATG
*
21761258 TCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACTTGTC
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTC
* *
21761323 TTACACTAGCTCTCGTTTCAATGTCGATAC
65 TTACACTAGCTCTCGTCTCAATGTCGAT-G
* *
21761353 CATGTCTCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCCAGACATGTCT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCT
21761418 TACACTAGC
66 TACACTAGC
21761427 ACACACACAT
Statistics
Matches: 228, Mismatches: 23, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
90 9 0.04
91 16 0.07
92 18 0.08
93 16 0.07
94 153 0.67
95 16 0.07
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCT
TACACTAGCTCTCGTCTCAATGTCGATG
Found at i:21761307 original size:140 final size:140
Alignment explanation
Indices: 21761071--21761329 Score: 344
Period size: 140 Copynumber: 1.8 Consensus size: 140
21761061 AGGCTGACGC
* ** * *
21761071 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGTTGATGCCATGTCCTAGACATG
1 CATGTCCCAGACATGGTCTTACAATAGCTCT-ACATATCAATGTCGATGCCATGTCCCAGACATG
21761136 GTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCT
65 GTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCT
21761201 CGAAGCCGATG
130 CGAAGCCGATG
* * *
21761212 CATGTCCCAGACAT-GTCTTACAATAGCTCT-CGTCTCAATGTCGATGTCATGTCCCAGACATGG
1 CATGTCCCAGACATGGTCTTACAATAGCTCTACATATCAATGTCGATGCCATGTCCCAGACATGG
* * * * *
21761275 TCTTACACTGGCTC-TCATAATGTGGCCGATGCATGTCCCAGACTTGTCTTACACT
66 TCTTACACTGACACATC-T--CGTAGCCGATGCATGTCCCAGACATGTCTTACACT
21761330 AGCTCTCGTT
Statistics
Matches: 102, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
137 2 0.02
138 39 0.38
140 47 0.46
141 14 0.14
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACAATAGCTCTACATATCAATGTCGATGCCATGTCCCAGACATGG
TCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTC
GAAGCCGATG
Found at i:21770866 original size:6 final size:7
Alignment explanation
Indices: 21770848--21770873 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21770838 ATGAAATAAT
21770848 ATTTTTA
1 ATTTTTA
21770855 ATTTTTA
1 ATTTTTA
21770862 ATTTTTA
1 ATTTTTA
21770869 ATTTT
1 ATTTT
21770874 CATATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTTTA
Found at i:21771421 original size:131 final size:130
Alignment explanation
Indices: 21771109--21771506 Score: 421
Period size: 131 Copynumber: 3.0 Consensus size: 130
21771099 TGAAATTCAT
* * *
21771109 GTTCGATTCCTTTCTTACTCACATTTGTATTTTTTATTTCAT-ATGCTTTAAGCTTTTTAAAATT
1 GTTCGATTCTTTTC-TACTCACATTTGTATTTTTTATTTCATGTTGCTTTAA-CTTTTTTAAATT
* * *
21771173 TTAATT-A-ATTTTTTATCATATTAGTTTTTTTGTTAGATAGTTAGATAATTGTAATTACATATT
64 TTAATTAATATTTTTTAACATATTAGTTTTTTCGTTAGATGGTTAGATAATTGTAATTAC-----
21771236 TAAGTCTCAA
124 --A-TCTCAA
* * * * *
21771246 GGTT-GATTTCTCTCCTACTCATATGTGTATTTTTTATTTCATGTTACTTTAACTTTTTTAAATT
1 -GTTCGA-TTCTTTTCTACTCACATTTGTATTTTTTATTTCATGTTGCTTTAACTTTTTTAAATT
* * * *
21771310 TTGAATTAATATTTTTTAACATTTTAG-TTTTTCCTTAGATGGTTAAATAGTTGTAATTACATCT
64 TT-AATTAATATTTTTTAACATATTAGTTTTTTCGTTAGATGGTTAGATAATTGTAATTACATCT
21771374 CAA
128 CAA
* * * * *
21771377 GTTCGATTCTTTTACTAATCACATTTGTATTTTTTATTTTATGTTGCTTTAATTATTTTTTTATT
1 GTTCGATTCTTTT-CTACTCACATTTGTATTTTTTATTTCATGTTGCTTTAA--CTTTTTTAAAT
21771442 TTTAATTAATA-TTTTTAACATATTAGTTTATTTCGTTAGATGGTTAGATAATTGTAATTACATC
63 TTTAATTAATATTTTTTAACATATTAGTTT-TTTCGTTAGATGGTTAGATAATTGTAATTACATC
21771506 T
127 T
21771507 TTAAGACTAA
Statistics
Matches: 220, Mismatches: 29, Indels: 27
0.80 0.11 0.10
Matches are distributed among these distances:
130 8 0.04
131 55 0.25
132 11 0.05
133 43 0.20
137 40 0.18
138 19 0.09
139 29 0.13
140 15 0.07
ACGTcount: A:0.27, C:0.10, G:0.09, T:0.54
Consensus pattern (130 bp):
GTTCGATTCTTTTCTACTCACATTTGTATTTTTTATTTCATGTTGCTTTAACTTTTTTAAATTTT
AATTAATATTTTTTAACATATTAGTTTTTTCGTTAGATGGTTAGATAATTGTAATTACATCTCAA
Found at i:21771621 original size:26 final size:27
Alignment explanation
Indices: 21771581--21771646 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
21771571 TCAAGCTCTT
*
21771581 TTATTTTTAATTATTTT-TATAAGCATA
1 TTATTATTAATTATTTTATATAAGCA-A
**
21771608 TTATTATT-ATTATTTTATATTTGCAA
1 TTATTATTAATTATTTTATATAAGCAA
21771634 TTATTATTTAATT
1 TTATTA-TTAATT
21771647 TTATAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
26 15 0.45
27 15 0.45
28 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (27 bp):
TTATTATTAATTATTTTATATAAGCAA
Found at i:21779549 original size:16 final size:16
Alignment explanation
Indices: 21779511--21779581 Score: 81
Period size: 16 Copynumber: 4.4 Consensus size: 16
21779501 ATTTGGTTTA
21779511 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
* *
21779527 CTCTAATGAAATAGAG
1 CTGTAATGGAATAGAG
* * *
21779543 TTGTAATTGAATAGAA
1 CTGTAATGGAATAGAG
21779559 CTGTAATGGAATAG-G
1 CTGTAATGGAATAGAG
21779574 ACTGTAAT
1 -CTGTAAT
21779582 AAGTAATTCA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:21779850 original size:17 final size:17
Alignment explanation
Indices: 21779828--21779860 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21779818 AATAATTATT
21779828 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
21779845 AAATATAATTTAATAA
1 AAATATAATTTAATAA
21779861 CATTCATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:21780037 original size:20 final size:18
Alignment explanation
Indices: 21780008--21780049 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 18
21779998 TGAAAAATAA
21780008 TTTTTTGAAAATGATTTAC
1 TTTTTTG-AAATGATTTAC
21780027 TTTTTTAGAAATGATTTAC
1 TTTTTT-GAAATGATTTAC
21780046 TTTT
1 TTTT
21780050 ATGATGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 21 0.95
20 1 0.05
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.57
Consensus pattern (18 bp):
TTTTTTGAAATGATTTAC
Found at i:21784828 original size:18 final size:19
Alignment explanation
Indices: 21784791--21784827 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
21784781 TAAAGTAAAG
21784791 TAAACAATAATACTATATA
1 TAAACAATAATACTATATA
21784810 TAAA-AAT-ATA-TATATA
1 TAAACAATAATACTATATA
21784826 TA
1 TA
21784828 TGTGTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.44
17 3 0.17
18 3 0.17
19 4 0.22
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAACAATAATACTATATA
Found at i:21785209 original size:3 final size:3
Alignment explanation
Indices: 21785196--21785281 Score: 63
Period size: 3 Copynumber: 28.3 Consensus size: 3
21785186 GAGGGCATAT
**
21785196 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GGA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA ATA
* *
21785243 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
21785282 AACAAAGCTC
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
2 8 0.12
3 48 0.73
4 9 0.14
5 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:21785220 original size:12 final size:12
Alignment explanation
Indices: 21785196--21785278 Score: 71
Period size: 12 Copynumber: 6.8 Consensus size: 12
21785186 GAGGGCATAT
21785196 ATAATAT-AATA
1 ATAATATAAATA
21785207 ATAATATAAATA
1 ATAATATAAATA
21785219 ATAATATATACATGA
1 ATAATATA-A-AT-A
**
21785234 GGAATA-ATAATA
1 ATAATATA-AATA
21785246 ATAATATAAATA
1 ATAATATAAATA
* *
21785258 ATAGTAAAAATA
1 ATAATATAAATA
*
21785270 ATAAAATAA
1 ATAATATAA
21785279 TAAAACAAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
11 7 0.12
12 37 0.64
13 4 0.07
14 5 0.09
15 5 0.09
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:21785269 original size:27 final size:27
Alignment explanation
Indices: 21785196--21785282 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 27
21785186 GAGGGCATAT
* *
21785196 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* * * *
21785222 AT-ATATACAT--GAGGAATAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
21785246 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
21785273 A-AATAATAAA
1 ATAAT-ATAAA
21785283 ACAAAGCTCT
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
24 11 0.24
25 11 0.24
26 7 0.15
27 17 0.37
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:21785612 original size:25 final size:25
Alignment explanation
Indices: 21785582--21785629 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
21785572 AAAACTAGCA
*
21785582 TTTCC-AAGAAACAAAAATAACCTTT
1 TTTCCAAAAAAACAAAAA-AACCTTT
21785607 TTTCCAAAAAAACAAAAAAACCT
1 TTTCCAAAAAAACAAAAAAACCT
21785630 CCTCCAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.54, C:0.21, G:0.02, T:0.23
Consensus pattern (25 bp):
TTTCCAAAAAAACAAAAAAACCTTT
Found at i:21785827 original size:4 final size:4
Alignment explanation
Indices: 21785818--21785848 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
21785808 GGCCAAGGTT
21785818 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
21785849 GTGTTTGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:21794843 original size:47 final size:47
Alignment explanation
Indices: 21794734--21794844 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
21794724 CCGGGATAAG
*
21794734 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
21794781 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
21794828 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
21794845 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:21795614 original size:4 final size:4
Alignment explanation
Indices: 21795600--21795633 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
21795590 AAATTTCCCT
*
21795600 TTTC TTTTC TTTC TTTC TTTC CTTC TTTC TTTC T
1 TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
21795634 CACGTTTGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:21798061 original size:12 final size:12
Alignment explanation
Indices: 21798044--21798092 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
21798034 TTTTTTAATA
21798044 AAATTTAATATT
1 AAATTTAATATT
*
21798056 AAATTTAAT-CT
1 AAATTTAATATT
21798067 AATATTT-ATATT
1 AA-ATTTAATATT
21798079 -AATTTAATATT
1 AAATTTAATATT
21798090 AAA
1 AAA
21798093 GTGATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 4 0.13
11 11 0.35
12 16 0.52
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (12 bp):
AAATTTAATATT
Found at i:21798071 original size:17 final size:18
Alignment explanation
Indices: 21798049--21798092 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
21798039 TAATAAAATT
21798049 TAATATTAAAT-TTAATC
1 TAATATTAAATATTAATC
* *
21798066 TAATATT-TATATTAATT
1 TAATATTAAATATTAATC
21798083 TAATATTAAA
1 TAATATTAAA
21798093 GTGATTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.09
17 19 0.86
18 1 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATATTAAATATTAATC
Found at i:21813278 original size:25 final size:25
Alignment explanation
Indices: 21813244--21813302 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
21813234 GGCAAACAAA
**
21813244 ATCACAACACA-GATCGGAGGAATTT
1 ATCA-AACACAGGATCAAAGGAATTT
21813269 ATCATAACACAGGATCAAAGGAATTT
1 ATCA-AACACAGGATCAAAGGAATTT
21813295 ATCAAACA
1 ATCAAACA
21813303 AAATCCAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (25 bp):
ATCAAACACAGGATCAAAGGAATTT
Found at i:21821610 original size:2 final size:2
Alignment explanation
Indices: 21821605--21821630 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21821595 AAAAATTACA
21821605 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
21821631 TTACAATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21821686 original size:29 final size:28
Alignment explanation
Indices: 21821632--21821686 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
21821622 TATATATATT
* *
21821632 TACAATTTGAGTTCTAAAAAATAATTTA
1 TACAAATTGAGTTCTAAAAAAAAATTTA
21821660 TACAAATTGAGTT-TGAAAAAGAAAATT
1 TACAAATTGAGTTCT-AAAAA-AAAATT
21821687 GTGGTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 1 0.04
28 17 0.74
29 5 0.22
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (28 bp):
TACAAATTGAGTTCTAAAAAAAAATTTA
Found at i:21829341 original size:33 final size:33
Alignment explanation
Indices: 21829303--21829366 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
21829293 CTGAGTGGGA
21829303 GTGTTTGGTTGCTGGACAGGAGCTGGAATGTGG
1 GTGTTTGGTTGCTGGACAGGAGCTGGAATGTGG
*
21829336 GTGTTTTGTTGCTGGACAGGAGCTGGAATGT
1 GTGTTTGGTTGCTGGACAGGAGCTGGAATGT
21829367 CAAGAAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.16, C:0.09, G:0.42, T:0.33
Consensus pattern (33 bp):
GTGTTTGGTTGCTGGACAGGAGCTGGAATGTGG
Found at i:21831790 original size:189 final size:189
Alignment explanation
Indices: 21831470--21832036 Score: 1107
Period size: 189 Copynumber: 3.0 Consensus size: 189
21831460 GTAGATGAAA
21831470 TCTTAGTCTTGATTTCATAGATTTGAGCAGCATCTTGAACTTTAGAATAAGTCTGTTTCACAGCT
1 TCTTAGTCTTGATTTCATAGATTTGAGCAGCATCTTGAACTTTAGAATAAGTCTGTTTCACAGCT
*
21831535 TCCCATATTTCTTAGGATGTGTTAAGAAACATGCATGTATCACTGATTTATGGCATCATAGAGTT
66 TCCCATATTTCTTTGGATGTGTTAAGAAACATGCATGTATCACTGATTTATGGCATCATAGAGTT
21831600 CCATAACCAAGACATTACCATAGAGTCTTGTTCATCCCAAGCATCAAAATTAGGATCTC
131 CCATAACCAAGACATTACCATAGAGTCTTGTTCATCCCAAGCATCAAAATTAGGATCTC
21831659 TCTTAGTCTTGATTTCATAGATTTGAGCAGCATCTTGAACTTTAGAATAAGTCTGTTTCACAGCT
1 TCTTAGTCTTGATTTCATAGATTTGAGCAGCATCTTGAACTTTAGAATAAGTCTGTTTCACAGCT
*
21831724 TCTCATATTTCTTTGGATGTGTTAAGAAACATGCATGTATCACTGATTTATGGCATCATAGAGTT
66 TCCCATATTTCTTTGGATGTGTTAAGAAACATGCATGTATCACTGATTTATGGCATCATAGAGTT
21831789 CCATAACCAAGACATTACCATAGAGTCTTGTTCATCCCAAGCATCAAAATTAGGATCTC
131 CCATAACCAAGACATTACCATAGAGTCTTGTTCATCCCAAGCATCAAAATTAGGATCTC
*
21831848 TCTTAGTCTTGATTTCATAGATTTGAGCAGCATCTCGAACTTTAGAATAAGTCTGTTTCACAGCT
1 TCTTAGTCTTGATTTCATAGATTTGAGCAGCATCTTGAACTTTAGAATAAGTCTGTTTCACAGCT
21831913 TCCCATATTTCTTTGGATGTGTTAAGAAACATGCATGTATCACTGATTTATGGCATCATAGAGTT
66 TCCCATATTTCTTTGGATGTGTTAAGAAACATGCATGTATCACTGATTTATGGCATCATAGAGTT
21831978 CCATAACCAAGACATTACCATAGAGTCTTGTTCATCCCAAGCATCAAAATTAGGATCTC
131 CCATAACCAAGACATTACCATAGAGTCTTGTTCATCCCAAGCATCAAAATTAGGATCTC
21832037 CTTCTTTAGG
Statistics
Matches: 374, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
189 374 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (189 bp):
TCTTAGTCTTGATTTCATAGATTTGAGCAGCATCTTGAACTTTAGAATAAGTCTGTTTCACAGCT
TCCCATATTTCTTTGGATGTGTTAAGAAACATGCATGTATCACTGATTTATGGCATCATAGAGTT
CCATAACCAAGACATTACCATAGAGTCTTGTTCATCCCAAGCATCAAAATTAGGATCTC
Found at i:21835354 original size:43 final size:43
Alignment explanation
Indices: 21835272--21835373 Score: 120
Period size: 43 Copynumber: 2.3 Consensus size: 43
21835262 CAATGTGTTT
*
21835272 GCAAAACTGAGAAGATATAAGAAAAGGAAAACCTGTAGATG-C
1 GCAAAACTGAGAAGATATAAGAAAAGGAAAACCTATAGATGTC
* *
21835314 GCAAAACTGAGATGATAATAAGAACAA-GAAAACAC-ATAGATGTTT
1 GCAAAACTGAGAAGAT-ATAAGAA-AAGGAAAAC-CTATAGATG-TC
21835359 GCAAAACTGAGAAGA
1 GCAAAACTGAGAAGA
21835374 ACATATTGGC
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
42 15 0.29
43 19 0.37
44 3 0.06
45 14 0.27
ACGTcount: A:0.51, C:0.12, G:0.22, T:0.16
Consensus pattern (43 bp):
GCAAAACTGAGAAGATATAAGAAAAGGAAAACCTATAGATGTC
Found at i:21836496 original size:102 final size:102
Alignment explanation
Indices: 21836320--21836519 Score: 382
Period size: 102 Copynumber: 2.0 Consensus size: 102
21836310 ACATCAAGAA
*
21836320 TGTTTCTCATAGTAATGATCTAGAGGAGCCAATAAGCATTACCGGTCTTGAGACATTTTCCTTGA
1 TGTTTCTCATAGTAATGATCTAGAGGAACCAATAAGCATTACCGGTCTTGAGACATTTTCCTTGA
21836385 GCTATAAGGTGGGCTTTTTTTTTTTTTTTTTTTTTTT
66 GCTATAAGGTGGGCTTTTTTTTTTTTTTTTTTTTTTT
*
21836422 TGTTTCTCATAGTAATGATCTAGAGGAACCAATAAGCATTACTGGTCTTGAGACATTTTCCTTGA
1 TGTTTCTCATAGTAATGATCTAGAGGAACCAATAAGCATTACCGGTCTTGAGACATTTTCCTTGA
21836487 GCTATAAGGTGGGCTTTTTTTTTTTTTTTTTTT
66 GCTATAAGGTGGGCTTTTTTTTTTTTTTTTTTT
21836520 GTAGTTACTG
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 96 1.00
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.47
Consensus pattern (102 bp):
TGTTTCTCATAGTAATGATCTAGAGGAACCAATAAGCATTACCGGTCTTGAGACATTTTCCTTGA
GCTATAAGGTGGGCTTTTTTTTTTTTTTTTTTTTTTT
Found at i:21837199 original size:129 final size:129
Alignment explanation
Indices: 21836969--21837226 Score: 401
Period size: 129 Copynumber: 2.0 Consensus size: 129
21836959 AGGGGCCCTC
* * *
21836969 AATTCAAGTCAAATATAAACTGTTAAATTAAAATAAAAACAAGAGTCTAAGTGTCTGTTCACTGA
1 AATTCAAGTCAAATATAAACAGTTAAATTAAAATAAAAACAACAGTCTAAGTGCCTGTTCACTGA
* ** * * *
21837034 ATGGCTTCAGTGTTTTGGGAATTCATTCTCTTCTCA-TTCTCCCAACGCTAGGGTCATGCAACA
66 ATGGCTTCAGTGTATTGGGAATTCATTCTCACCTCATTTCCCCCAACACTAGAGTCATGCAACA
**
21837097 AATTCAAGTCAAATATAAACAGTTAAATTAAAATAGAAAACAACAGTCTAAGTGCCTGTTCTGTG
1 AATTCAAGTCAAATATAAACAGTTAAATTAAAATA-AAAACAACAGTCTAAGTGCCTGTTCACTG
21837162 AATGGCTTCAGTGTATTGGGAATTCATTCTCACCTCATTTCCCCCAACACTAGAGTCATGCAACA
65 AATGGCTTCAGTGTATTGGGAATTCATTCTCACCTCATTTCCCCCAACACTAGAGTCATGCAACA
21837227 GATGAGGCCT
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
128 34 0.29
129 59 0.50
130 24 0.21
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (129 bp):
AATTCAAGTCAAATATAAACAGTTAAATTAAAATAAAAACAACAGTCTAAGTGCCTGTTCACTGA
ATGGCTTCAGTGTATTGGGAATTCATTCTCACCTCATTTCCCCCAACACTAGAGTCATGCAACA
Found at i:21840094 original size:28 final size:28
Alignment explanation
Indices: 21840062--21840153 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
21840052 ATTTCTTTTA
21840062 AAAAATTATAAATTTGTAAAAAATTATT
1 AAAAATTATAAATTTGTAAAAAATTATT
* *
21840090 AAAAATTATAAA-ATGTTAAATAAAAT-TT
1 AAAAATTATAAATTTG-TAAA-AAATTATT
* * * * *
21840118 AAAAATAAAAAATTTATTAAAAATCATT
1 AAAAATTATAAATTTGTAAAAAATTATT
21840146 CAAAAATT
1 -AAAAATT
21840154 TAATTTTAGA
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
27 5 0.10
28 33 0.67
29 11 0.22
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAAATTATAAATTTGTAAAAAATTATT
Found at i:21840690 original size:31 final size:31
Alignment explanation
Indices: 21840650--21840710 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
21840640 TAAAACTTTT
*
21840650 TATAGTTTAAAAAAATCTTCTTGAATGAATA
1 TATAATTTAAAAAAATCTTCTTGAATGAATA
21840681 TATAATTTAAAAAAATCTTCTTGAATGAAT
1 TATAATTTAAAAAAATCTTCTTGAATGAAT
21840711 TTGGACATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (31 bp):
TATAATTTAAAAAAATCTTCTTGAATGAATA
Found at i:21841160 original size:27 final size:27
Alignment explanation
Indices: 21841130--21841205 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
21841120 GACTAATCGA
*
21841130 GCCTTTCTCTGAGGCGCAAATGATTGT
1 GCCTATCTCTGAGGCGCAAATGATTGT
*
21841157 GCCTATCT-TAGAGGCGCAAATGGTTGT
1 GCCTATCTCT-GAGGCGCAAATGATTGT
* **
21841184 GCCTATCCCAAAGGCGCAAATG
1 GCCTATCTCTGAGGCGCAAATG
21841206 GTGGGGCCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 41 0.98
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (27 bp):
GCCTATCTCTGAGGCGCAAATGATTGT
Found at i:21841206 original size:27 final size:27
Alignment explanation
Indices: 21841141--21841207 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
21841131 CCTTTCTCTG
* ** *
21841141 AGGCGCAAATGATTGTGCCTATCTTAG
1 AGGCGCAAATGGTTGTGCCTATCCCAA
21841168 AGGCGCAAATGGTTGTGCCTATCCCAA
1 AGGCGCAAATGGTTGTGCCTATCCCAA
21841195 AGGCGCAAATGGT
1 AGGCGCAAATGGT
21841208 GGGGCCCACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (27 bp):
AGGCGCAAATGGTTGTGCCTATCCCAA
Found at i:21846292 original size:25 final size:25
Alignment explanation
Indices: 21846252--21846307 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
21846242 ATATATTTTT
21846252 AAATATTTTTAATAAAAATA-AAAAAA
1 AAAT-TTTTTAATAAAAA-ACAAAAAA
* *
21846278 TAATTTTTTATTAAAAAACAAAAAA
1 AAATTTTTTAATAAAAAACAAAAAA
21846303 AAATT
1 AAATT
21846308 AATATAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 22 0.85
26 3 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
AAATTTTTTAATAAAAAACAAAAAA
Found at i:21846293 original size:24 final size:25
Alignment explanation
Indices: 21846252--21846307 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
21846242 ATATATTTTT
*
21846252 AAAT-ATTTTTAATAAAAATA-AAA
1 AAATAATTTTTAATAAAAAAACAAA
* *
21846275 AAATAATTTTTTATTAAAAAACAAA
1 AAATAATTTTTAATAAAAAAACAAA
*
21846300 AAAAAATT
1 AAATAATT
21846308 AATATAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 4 0.15
24 13 0.48
25 10 0.37
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
AAATAATTTTTAATAAAAAAACAAA
Done.