Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 65 of 136
Found at i:21630062 original size:17 final size:18
Alignment explanation
Indices: 21630025--21630062 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
21630015 ATTGCTTCTC
* *
21630025 AAAAGTGCTTTTGGGCTA
1 AAAAGTACTTTTGAGCTA
21630043 AAAAGTACTTTTGAGC-A
1 AAAAGTACTTTTGAGCTA
21630060 AAA
1 AAA
21630063 GCTAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (18 bp):
AAAAGTACTTTTGAGCTA
Found at i:21644892 original size:18 final size:19
Alignment explanation
Indices: 21644869--21644915 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
21644859 AAAAACAAAC
21644869 TTAATTTAAT-ATATATTT
1 TTAATTTAATAATATATTT
*
21644887 TTAATTATTTATAATATATTT
1 TTAA-T-TTAATAATATATTT
*
21644908 ATAATTTA
1 TTAATTTA
21644916 TGATATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 4 0.17
19 3 0.13
20 5 0.22
21 11 0.48
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTAATTTAATAATATATTT
Found at i:21644908 original size:11 final size:11
Alignment explanation
Indices: 21644879--21644912 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
21644869 TTAATTTAAT
*
21644879 ATATATTTTTA
1 ATATATTTATA
21644890 AT-TATTTATA
1 ATATATTTATA
21644900 ATATATTTATA
1 ATATATTTATA
21644911 AT
1 AT
21644913 TTATGATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATATTTATA
Found at i:21644916 original size:18 final size:19
Alignment explanation
Indices: 21644870--21644923 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
21644860 AAAACAAACT
*
21644870 TAATTTAATATATATTTTTAA
1 TAATTT-ATA-ATATATTTAA
*
21644891 TTATTTATAATATATTT-A
1 TAATTTATAATATATTTAA
*
21644909 TAATTTATGATATAT
1 TAATTTATAATATAT
21644924 AAACTAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 14 0.48
19 7 0.24
20 3 0.10
21 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TAATTTATAATATATTTAA
Found at i:21649680 original size:20 final size:22
Alignment explanation
Indices: 21649655--21649697 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
21649645 TAGCACATTT
21649655 TTGAC-AATTC-TAAGAAAAAA
1 TTGACAAATTCATAAGAAAAAA
*
21649675 TTGACAAATTCATAATAAAAAA
1 TTGACAAATTCATAAGAAAAAA
21649697 T
1 T
21649698 AAAATAGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 5 0.25
22 10 0.50
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (22 bp):
TTGACAAATTCATAAGAAAAAA
Found at i:21655060 original size:436 final size:437
Alignment explanation
Indices: 21654238--21655110 Score: 1739
Period size: 436 Copynumber: 2.0 Consensus size: 437
21654228 TATCAAGAAA
21654238 ATATCTCAATTGTCAATAAAATTTTAAATTATGAAATTAGTTAAAAAACATATATATAATTATAT
1 ATATCTCAATTGTCAATAAAATTTTAAATTATGAAATTAGTTAAAAAACATATATATAATTATAT
21654303 TTTAAGAACAAAATATATATTAAAATTAAAAACACTATTTTTATTGTATAAAAAATGATTTCTTA
66 TTTAAGAACAAAATATATATTAAAATTAAAAACACTATTTTTATTGTATAAAAAATGATTTCTTA
21654368 AACTTAAATAATGTATAGGTGTGTTTGGAAAGCCATAGGATAATTAGATTTGAGTGTATTGTTTG
131 AACTTAAATAATGTATAGGTGTGTTTGGAAAGCCATAGGATAATTAGATTTGAGTGTATTGTTTG
21654433 TAATTATTCAAATTCTCACTCTCCCTCTAAGAATTGGAGAGTGTAATTGGAGTGCTTGAATTACA
196 TAATTATTCAAATTCTCACTCTCCCTCTAAGAATTGGAGAGTGTAATTGGAGTGCTTGAATTACA
21654498 CTCAATTCAATGAGACTCACTATAACAATGATTACCTAAACATGTCACATATATGTTATTACAAG
261 CTCAATTCAATGAGACTCACTATAACAATGATTACCTAAACATGTCACATATATGTTATTACAAG
21654563 CAAATACACTCGATTAATCCAATTACTAGTGACTTTTTAAACACATCCGTAGCTTGTAACGAAAC
326 CAAATACACTCGATTAATCCAATTACTAGTGACTTTTTAAACACATCCGTAGCTTGTAACGAAAC
21654628 TCTAATAATTATTACTTTTAAATACCCTTTATTTTTATTATGTGATT
391 TCTAATAATTATTACTTTTAAATACCCTTTATTTTTATTATGTGATT
21654675 ATATCTCAA-TGTCAATAAAATTTTAAATTATGAAATTAGTTAAAAAACATATATATAATTATAT
1 ATATCTCAATTGTCAATAAAATTTTAAATTATGAAATTAGTTAAAAAACATATATATAATTATAT
21654739 TTTAAGAACAAAATATATATTAAAATTAAAAACACTATTTTTATTGTATAAAAAATGATTTCTTA
66 TTTAAGAACAAAATATATATTAAAATTAAAAACACTATTTTTATTGTATAAAAAATGATTTCTTA
21654804 AACTTAAATAATGTATAGGTGTGTTTGGAAAGCCATAGGATAATTAGATTTGAGTGTATTGTTTG
131 AACTTAAATAATGTATAGGTGTGTTTGGAAAGCCATAGGATAATTAGATTTGAGTGTATTGTTTG
21654869 TAATTATTCAAATTCTCACTCTCCCTCTAAGAATTGGAGAGTGTAATTGGAGTGCTTGAATTACA
196 TAATTATTCAAATTCTCACTCTCCCTCTAAGAATTGGAGAGTGTAATTGGAGTGCTTGAATTACA
21654934 CTCAATTCAATGAGACTCACTATAACAATGATTACCTAAACATGTCACATATATGTTATTACAAG
261 CTCAATTCAATGAGACTCACTATAACAATGATTACCTAAACATGTCACATATATGTTATTACAAG
21654999 CAAATACACTCGATTAATCCAATTACTAGTGACTTTTTAAACACATCCGTAGCTTGTAACGAAAC
326 CAAATACACTCGATTAATCCAATTACTAGTGACTTTTTAAACACATCCGTAGCTTGTAACGAAAC
21655064 TCTAATAATTATTACTTTTAAATACCCTTTATTTTTATTATGTGATT
391 TCTAATAATTATTACTTTTAAATACCCTTTATTTTTATTATGTGATT
21655111 TAAAAAAGAT
Statistics
Matches: 436, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
436 427 0.98
437 9 0.02
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.38
Consensus pattern (437 bp):
ATATCTCAATTGTCAATAAAATTTTAAATTATGAAATTAGTTAAAAAACATATATATAATTATAT
TTTAAGAACAAAATATATATTAAAATTAAAAACACTATTTTTATTGTATAAAAAATGATTTCTTA
AACTTAAATAATGTATAGGTGTGTTTGGAAAGCCATAGGATAATTAGATTTGAGTGTATTGTTTG
TAATTATTCAAATTCTCACTCTCCCTCTAAGAATTGGAGAGTGTAATTGGAGTGCTTGAATTACA
CTCAATTCAATGAGACTCACTATAACAATGATTACCTAAACATGTCACATATATGTTATTACAAG
CAAATACACTCGATTAATCCAATTACTAGTGACTTTTTAAACACATCCGTAGCTTGTAACGAAAC
TCTAATAATTATTACTTTTAAATACCCTTTATTTTTATTATGTGATT
Found at i:21658155 original size:23 final size:23
Alignment explanation
Indices: 21658120--21658172 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
21658110 AATTGAATTG
*
21658120 ATTT-TTTTCTATT-TTTTAATA
1 ATTTATTTTATATTCTTTTAATA
*
21658141 TTTTCATTTTATATTCTTTTAATA
1 ATTT-ATTTTATATTCTTTTAATA
21658165 ATTTATTT
1 ATTTATTT
21658173 GATTAAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.12
23 12 0.46
24 11 0.42
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (23 bp):
ATTTATTTTATATTCTTTTAATA
Found at i:21663844 original size:34 final size:35
Alignment explanation
Indices: 21663800--21663866 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
21663790 CAGTAAAATG
* *
21663800 TTTTCCGTAAAATGATTT-TTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
21663834 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
21663867 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:21663870 original size:14 final size:15
Alignment explanation
Indices: 21663794--21663870 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
21663784 GATTGCCAGT
* *
21663794 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
21663808 AAAATGATTTT-TGG
1 AAAATGATTTTCTGG
*
21663822 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
21663842 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
21663857 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
21663871 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 4 0.08
20 8 0.16
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:21663969 original size:20 final size:20
Alignment explanation
Indices: 21663944--21663995 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
21663934 GAAAAAGTTG
21663944 TTTTTACATATATTAATAAT-
1 TTTTTACATATATTAA-AATA
* *
21663964 TTTTT--ATATTTTAAATTA
1 TTTTTACATATATTAAAATA
21663982 TTTTTACATATATT
1 TTTTTACATATATT
21663996 GCAATGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 2 0.08
18 13 0.50
20 11 0.42
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTACATATATTAAAATA
Found at i:21670274 original size:60 final size:60
Alignment explanation
Indices: 21670173--21670301 Score: 179
Period size: 60 Copynumber: 2.1 Consensus size: 60
21670163 ACTAATATTA
* * * *
21670173 TTTGTACTTCGGTGTCTCTGTATACACTTTGGTGTCTCTATTTGCACATCTGTGCCCCTG
1 TTTGCACTTCGGTGTCTCTGTATACACTTCGGTGTCCCTATTTGCACATCTATGCCCCTG
* *
21670233 TTTGCACTTCGGTGGTCT-TGTATACACTTCGGTGTCCCTATTTGCACGTCTATGGCCCTG
1 TTTGCACTTCGGT-GTCTCTGTATACACTTCGGTGTCCCTATTTGCACATCTATGCCCCTG
*
21670293 TTCGCACTT
1 TTTGCACTT
21670302 TGGTACCCCT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 57 0.93
61 4 0.07
ACGTcount: A:0.12, C:0.26, G:0.21, T:0.41
Consensus pattern (60 bp):
TTTGCACTTCGGTGTCTCTGTATACACTTCGGTGTCCCTATTTGCACATCTATGCCCCTG
Found at i:21671680 original size:18 final size:17
Alignment explanation
Indices: 21671647--21671685 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
21671637 TTTTATAAAT
21671647 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
21671665 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
21671682 TGTG
1 TGTG
21671686 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:21671937 original size:23 final size:23
Alignment explanation
Indices: 21671911--21671963 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
21671901 AGTGTTATTG
*
21671911 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
21671934 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
21671957 ATCAGTG
1 ATCAGTG
21671964 TGGCACTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:21673739 original size:23 final size:23
Alignment explanation
Indices: 21673709--21673756 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
21673699 ATTTAGATTG
21673709 TGAAATTCTTTTCACGATATGAA
1 TGAAATTCTTTTCACGATATGAA
21673732 TGAAATTCTTTTCACGATATGAA
1 TGAAATTCTTTTCACGATATGAA
21673755 TG
1 TG
21673757 TGTAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (23 bp):
TGAAATTCTTTTCACGATATGAA
Found at i:21681030 original size:22 final size:23
Alignment explanation
Indices: 21681005--21681062 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
21680995 AATGTTGAAG
21681005 TGTCTTGAGACGTTAAAGTC-CA
1 TGTCTTGAGACGTTAAAGTCTCA
** *
21681027 TGTCTCAAGAC--TAAAGTCTTCT
1 TGTCTTGAGACGTTAAAGTC-TCA
21681049 TGTCTTGAGACGTT
1 TGTCTTGAGACGTT
21681063 TTTTTCCTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
20 7 0.26
22 19 0.70
24 1 0.04
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (23 bp):
TGTCTTGAGACGTTAAAGTCTCA
Found at i:21685555 original size:21 final size:21
Alignment explanation
Indices: 21685530--21685579 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
21685520 GTAAATAAAC
21685530 AAATAAAACTGAAGCATAT-AA-
1 AAATAAAA-TGAA-CATATGAAT
21685551 AAATAATAATGAACATATGAAT
1 AAATAA-AATGAACATATGAAT
21685573 AAATAAA
1 AAATAAA
21685580 TAAATAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 5 0.19
21 13 0.50
22 8 0.31
ACGTcount: A:0.64, C:0.06, G:0.08, T:0.22
Consensus pattern (21 bp):
AAATAAAATGAACATATGAAT
Found at i:21685978 original size:6 final size:7
Alignment explanation
Indices: 21685950--21685977 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
21685940 ATGTGTATGT
21685950 ATGAAAA
1 ATGAAAA
21685957 ATGAAAA
1 ATGAAAA
21685964 ATGAAAA
1 ATGAAAA
21685971 ATGAAAA
1 ATGAAAA
21685978 TATATTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
ATGAAAA
Found at i:21687993 original size:44 final size:44
Alignment explanation
Indices: 21687719--21688007 Score: 180
Period size: 44 Copynumber: 6.6 Consensus size: 44
21687709 TCATTGTGTT
* * * *
21687719 AATCTGCTCCACTGCAACTTCAAGGAGGTAGGATTAGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
* * * *
21687763 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGA-TTAATAGCTTC
* * * * *
21687807 AACCCGCTTCACTGCGACTTTAGGGAGATAAGG-TTAATTA-CTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGAT-AGGATTAA-TAGCTTC
* * ** * * *
21687851 AACCTACTTTACTGCAACTTCAGAGAGATAAGGTTTGATA---T-
1 AATCTGCTCCACTGCAACTTCAGGGAGAT-AGGATTAATAGCTTC
* * * * * * * * *
21687892 GATCTGCTCTACTGCAACTTTAGAGG-TATATGATTCATCGTTTT
1 AATCTGCTCCACTGCAACTTCAG-GGAGATAGGATTAATAGCTTC
** *
21687936 AATCCACTTCACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
*
21687980 AGTCTGCTCCACTGCAACTTCAGGGAGA
1 AATCTGCTCCACTGCAACTTCAGGGAGA
21688008 CAAGACTCGC
Statistics
Matches: 186, Mismatches: 48, Indels: 22
0.73 0.19 0.09
Matches are distributed among these distances:
40 6 0.03
41 20 0.11
42 2 0.01
43 5 0.03
44 144 0.77
45 9 0.05
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
Found at i:21688040 original size:45 final size:44
Alignment explanation
Indices: 21687945--21688048 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 44
21687935 TAATCCACTT
* * * *
21687945 CACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAGTCTGCTC
1 CACTGCAACTTCAGGGAGACAAGATCAATAGCTTCAGTCTGCCC
** * *
21687989 CACTGCAACTTCAGGGAGACAAGACTCGCTATCTTCAGTTTGCCC
1 CACTGCAACTTCAGGGAGACAAGA-TCAATAGCTTCAGTCTGCCC
21688034 CACTGCAACTTCAGG
1 CACTGCAACTTCAGG
21688049 AGGATAAGAC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 22 0.43
45 29 0.57
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGACAAGATCAATAGCTTCAGTCTGCCC
Found at i:21688239 original size:50 final size:50
Alignment explanation
Indices: 21688182--21688682 Score: 376
Period size: 50 Copynumber: 10.0 Consensus size: 50
21688172 CTGTAATGTT
* * * *
21688182 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCC
1 AGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTCACTGCAATGCC
* * * * * * *
21688232 AGAGAAGTAAGACTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC
1 AGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTCACTGCAATGCC
* * * * *
21688282 GGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTACACCT-CC
1 AGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTCACTGCA-ATGCC
* * * * * * * * *
21688332 AGGGAATTAAAACTCGCCGTTGTGGCTTCAATATTTTTAATTGCAATGTC
1 AGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTCACTGCAATGCC
** * * ** *
21688382 AGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTATATTGCC
1 AGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTCACTGCAATGCC
* * * * * **
21688432 AGGGAAGTAAGACTT-GCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTT
1 AGGGAAGTAAGA-TTCGCCGTTGTAGCTTCAATCTGTTTCACTGCAATGCC
** * * * **
21688482 AGGGAAACAAGATTCGCTGTTGTAGCTTCAATTTGTTCCACTGCACCGCC
1 AGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTCACTGCAATGCC
* * * * * * *
21688532 AGGGAAGTAAGATTCACCTTTGTGGCTTCAATCTTTTTAATTGCAATGTC
1 AGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTCACTGCAATGCC
* * * * ** **
21688582 GGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTTCACTATACCGCC
1 AGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTCACTGCAATGCC
* * * * *
21688632 AGGGAAGTAAGATTCGCTGTTGTGGCTTCAATCTTTTTAATTGCAATGCC
1 AGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTCACTGCAATGCC
21688682 A
1 A
21688683 AAGAGATATG
Statistics
Matches: 333, Mismatches: 114, Indels: 8
0.73 0.25 0.02
Matches are distributed among these distances:
49 3 0.01
50 327 0.98
51 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (50 bp):
AGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTTCACTGCAATGCC
Found at i:21688295 original size:100 final size:100
Alignment explanation
Indices: 21688176--21688679 Score: 722
Period size: 100 Copynumber: 5.0 Consensus size: 100
21688166 AATTGACTGT
* * *
21688176 AATGTTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCCAGAGAAGTA
1 AATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCCAGGGAAGTA
21688241 AGACTCGCCGTTGTGGCTTCAATCTTTTTAATTGC
66 AGACTCGCCGTTGTGGCTTCAATCTTTTTAATTGC
* * *
21688276 AATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTACACCT-CCAGGGAATT
1 AATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACA-CTGCCAGGGAAGT
* *
21688340 AAAACTCGCCGTTGTGGCTTCAATATTTTTAATTGC
65 AAGACTCGCCGTTGTGGCTTCAATCTTTTTAATTGC
* * * * *
21688376 AATGTCAGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTATATTGCCAGGGAAGTA
1 AATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCCAGGGAAGTA
* *
21688441 AGACTTGCCGTTGTGGCTTCAATCTTTTTAATTGT
66 AGACTCGCCGTTGTGGCTTCAATCTTTTTAATTGC
* * * * *
21688476 AATGTTAGGGAAACAAGATTCGCTGTTGTAGCTTCAATTTGTTCCACTGCACCGCCAGGGAAGTA
1 AATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCCAGGGAAGTA
* * *
21688541 AGATTCACCTTTGTGGCTTCAATCTTTTTAATTGC
66 AGACTCGCCGTTGTGGCTTCAATCTTTTTAATTGC
* * * * *
21688576 AATGTCGGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTTCACTATACCGCCAGGGAAGTA
1 AATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCCAGGGAAGTA
* *
21688641 AGATTCGCTGTTGTGGCTTCAATCTTTTTAATTGC
66 AGACTCGCCGTTGTGGCTTCAATCTTTTTAATTGC
21688676 AATG
1 AATG
21688680 CCAAAGAGAT
Statistics
Matches: 360, Mismatches: 42, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
99 1 0.00
100 357 0.99
101 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (100 bp):
AATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCCAGGGAAGTA
AGACTCGCCGTTGTGGCTTCAATCTTTTTAATTGC
Found at i:21695771 original size:16 final size:15
Alignment explanation
Indices: 21695746--21695783 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
21695736 GTAAAATATA
21695746 AAAATAAAACAAAAC
1 AAAATAAAACAAAAC
21695761 AAAATATAAAC-AAA-
1 AAAATA-AAACAAAAC
21695775 AAAATAAAA
1 AAAATAAAA
21695784 AATAATAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 6 0.27
15 9 0.41
16 4 0.18
ACGTcount: A:0.82, C:0.08, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAATAAAACAAAAC
Found at i:21697801 original size:44 final size:44
Alignment explanation
Indices: 21697753--21698678 Score: 373
Period size: 44 Copynumber: 21.4 Consensus size: 44
21697743 CACTCTACTA
* *
21697753 CAACTTTAGGGAGATAGGCTTGGTTTCTTTTGTCTGCTCCACTG
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTG
* * * * * * *
21697797 CAACTTTAGGGAGATAAGACTGGATGC----GATCTGATTCACTG
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTG-TCTGCTCCACTG
* * ** *
21697838 CAACTTCAGGGAGATAAGATCT-GTGGT-TTTAATCCGCTCCACTG
1 CAACTTCAGGGAGATAGGAT-TGGT-TTCTTTTGTCTGCTCCACTG
* * * *
21697882 TAACTTCAGAGTGATAGGATTGGTTTCTTCTGTCTGCTCCACTG
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTG
* * * * * *
21697926 CAACTTCGGGGAGATAAGAATGGATGCGATTTG-CT-CT--ACTG
1 CAACTTCAGGGAGATAGGATTGGTTTC-TTTTGTCTGCTCCACTG
* * * * * **
21697967 CAACTTTAGAGAGATAAGATTTGTGGT-TTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAGGATTGGT-TTCTTTTGTCTGCTCCACTG
* * *
21698011 TAACTTCAGGGAGATAGGATTGATTTTTTTTGTCTGCTCCACTG
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTG
* * * * *
21698055 CAACTTCAGGGAGATAAGACTGGATGC----GATCTGCTCTACTG
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTG-TCTGCTCCACTG
* * * ** *
21698096 CAACTTTAGAGAGATAAGATCT-GTTGT-TTTAATCCGCTCCACTG
1 CAACTTCAGGGAGATAGGAT-TGGTT-TCTTTTGTCTGCTCCACTG
*
21698140 -ATACTTTAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTG
1 CA-ACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTG
* * * * *
21698184 CAACTTCAGGGAGATAAGACTGGATAC----GATCTGCTCTACTG
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTG-TCTGCTCCACTG
* * * * ** * * *
21698225 CAACTTTAGAGAGATAAGATAT-GTGGT-TTTAATCCGCTCTACTA
1 CAACTTCAGGGAGATAGGAT-TGGT-TTCTTTTGTCTGCTCCACTG
* * * * **
21698269 TAACTTTAGGGAGATAGGATTAGTTTCTTTTATCTGCTCCGTTG
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTG
* * * * * * *
21698313 CAACTTCAGGAAGATAAGACTGG----ATGTGATCTGCTCTACTA
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTG-TCTGCTCCACTG
* * ** **
21698354 CAACTTCAGAGAGATAAGATCT-GTGGCTTTCATCCT-CTCCACTG
1 CAACTTCAGGGAGATAGGAT-TGGTTTCTTTTGT-CTGCTCCACTG
* * * * *
21698398 TAACTTCAGGGAGATAGGATTGGCTTCTTTTTTCTTCTCAACTG
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTG
* * * * * * *
21698442 TAACATCAGGGAGATAAGACTGG----ATGTGATCTGCTCTACTG
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTG-TCTGCTCCACTG
* * * ** *
21698483 TAACTTCAGAGAGATAAGATCTGTGGTTT-TAAT-CCT-CTCCACTG
1 CAACTTCAGGGAGATAGGA--T-TGGTTTCTTTTGTCTGCTCCACTG
* *
21698527 CAACTTCAGGGAGATAGGATTCGTTTCTTTTGTCTATCTGTTCCACTG
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTG----TCTGCTCCACTG
* * *
21698575 TAACTTTAGAGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTG
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTG
* ** * ** *
21698619 CAACTTAAAAGAGATAGGATCT-GTGGT-TTTAATCCGCTCCACTG
1 CAACTTCAGGGAGATAGGAT-TGGT-TTCTTTTGTCTGCTCCACTG
21698663 CAACTTCAGGGAGATA
1 CAACTTCAGGGAGATA
21698679 AGACTGGATG
Statistics
Matches: 650, Mismatches: 171, Indels: 122
0.69 0.18 0.13
Matches are distributed among these distances:
40 9 0.01
41 170 0.26
42 9 0.01
43 13 0.02
44 400 0.62
45 11 0.02
47 3 0.00
48 35 0.05
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (44 bp):
CAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTG
Found at i:21697817 original size:129 final size:129
Alignment explanation
Indices: 21697530--21698678 Score: 1410
Period size: 129 Copynumber: 8.9 Consensus size: 129
21697520 GTCAACAGTT
* * * *
21697530 TGCTCCACTACATCTTTAGGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGAGAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGA
* * * * * * * *
21697595 TAAGTTTTGTGGTTTTAAT-CACTCTACTACAACTTCAGGGAGGTAGAATTGGCTTT-TTCTGTC
66 TAAGATCTGTGGTTTTAATCCGCTCCACTATAACTTCAGGGAGATAGGATTGG-TTTCTTTTGTC
* * *
21697658 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGAT-TAGCTCTACTGCAATTTCAGATAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCT-GCTCTACTGCAACTTCAGAGAG
* * * * * *
21697722 ATAAGATCTGTGATTTTAATCCACTCTACTACAACTTTAGGGAGATAGGCTTGGTTTCTTTTGTC
65 ATAAGATCTGTGGTTTTAATCCGCTCCACTATAACTTCAGGGAGATAGGATTGGTTTCTTTTGTC
* * *
21697787 TGCTCCACTGCAACTTTAGGGAGATAAGACTGGATGCGATCTGAT-TCACTGCAACTTCAGGGAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCT-ACTGCAACTTCAGAGAG
* * * *
21697851 ATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGAGTGATAGGATTGGTTTCTTCTGTC
65 ATAAGATCTGTGGTTTTAATCCGCTCCACTATAACTTCAGGGAGATAGGATTGGTTTCTTTTGTC
* * * *
21697916 TGCTCCACTGCAACTTCGGGGAGATAAGAATGGATGCGATTTGCTCTACTGCAACTTTAGAGAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGA
* * * * *
21697981 TAAGATTTGTGGTTTTAATCTGCTCCACTGTAACTTCAGGGAGATAGGATTGATTTTTTTTGTC
66 TAAGATCTGTGGTTTTAATCCGCTCCACTATAACTTCAGGGAGATAGGATTGGTTTCTTTTGTC
*
21698045 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTTAGAGAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGA
* *
21698110 TAAGATCTGTTGTTTTAATCCGCTCCACTGAT-ACTTTAGGGAGATAGGATTGGTTTCTTTTGTC
66 TAAGATCTGTGGTTTTAATCCGCTCCACT-ATAACTTCAGGGAGATAGGATTGGTTTCTTTTGTC
* *
21698174 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTTAGAGAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGA
* * * * *
21698239 TAAGATATGTGGTTTTAATCCGCTCTACTATAACTTTAGGGAGATAGGATTAGTTTCTTTTATC
66 TAAGATCTGTGGTTTTAATCCGCTCCACTATAACTTCAGGGAGATAGGATTGGTTTCTTTTGTC
** * * *
21698303 TGCTCCGTTGCAACTTCAGGAAGATAAGACTGGATGTGATCTGCTCTACTACAACTTCAGAGAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGA
* * * * * *
21698368 TAAGATCTGTGGCTTTCATCCTCTCCACTGTAACTTCAGGGAGATAGGATTGGCTTCTTTTTTC
66 TAAGATCTGTGGTTTTAATCCGCTCCACTATAACTTCAGGGAGATAGGATTGGTTTCTTTTGTC
* * * * * *
21698432 TTCTCAACTGTAACATCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGTAACTTCAGAGAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGA
* ** *
21698497 TAAGATCTGTGGTTTTAATCCTCTCCACTGCAACTTCAGGGAGATAGGATTCGTTTCTTTTGTCT
66 TAAGATCTGTGGTTTTAATCCGCTCCACTATAACTTCAGGGAGATAGGATTGGTTTCTTTTG---
21698562 ATC
128 -TC
* * * * * * * * * * *
21698565 TGTTCCACTGTAACTTTAGAGAGATAGGATTGGTTTCTTTTG-TCTGCTCCACTGCAACTTAAAA
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGC----GATCTGCTCTACTGCAACTTCAGA
* **
21698629 GAGATAGGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
62 GAGATAAGATCTGTGGTTTTAATCCGCTCCACTATAACTTCAGGGAGATA
21698679 AGACTGGATG
Statistics
Matches: 897, Mismatches: 108, Indels: 24
0.87 0.10 0.02
Matches are distributed among these distances:
127 1 0.00
128 80 0.09
129 718 0.80
130 3 0.00
133 28 0.03
136 66 0.07
137 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (129 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGA
TAAGATCTGTGGTTTTAATCCGCTCCACTATAACTTCAGGGAGATAGGATTGGTTTCTTTTGTC
Found at i:21697842 original size:85 final size:85
Alignment explanation
Indices: 21697753--21698796 Score: 317
Period size: 85 Copynumber: 12.1 Consensus size: 85
21697743 CACTCTACTA
* * * *
21697753 CAACTTTAGGGAGATAGGCTTGGTTTCTTTTGTCTGCTCCACTGCAACTTTAGGGAGATAAGACT
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTGCAACTTCAGAGAGATAAGACT
* *
21697818 GGATGCGATCTGATTCACTG
66 GGATGCGATCTGCTCCACTG
* * ** * * * *
21697838 CAACTTCAGGGAGATAAGATCT-GTGGT-TTTAATCCGCTCCACTGTAACTTCAGAGTGATAGGA
1 CAACTTCAGGGAGATAGGAT-TGGT-TTCTTTTGTCTGCTCCACTGCAACTTCAGAGAGATAAGA
* * *
21697901 TTGGTTTCTTCTG-TCTGCTCCACTG
64 CTGG---ATGC-GATCTGCTCCACTG
* * * * * * *
21697926 CAACTTCGGGGAGATAAGAATGGATGCGATTTG-CT-CT--ACTGCAACTTTAGAGAGATAAGAT
1 CAACTTCAGGGAGATAGGATTGGTTTC-TTTTGTCTGCTCCACTGCAACTTCAGAGAGATAAGA-
* * ***
21697987 TTGTGGTTTTAATCTGCTCCACTG
64 --CTGGATGCGATCTGCTCCACTG
* * * *
21698011 TAACTTCAGGGAGATAGGATTGATTTTTTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTGCAACTTCAGAGAGATAAGACT
*
21698076 GGATGCGATCTGCTCTACTG
66 GGATGCGATCTGCTCCACTG
* * * ** * * * *
21698096 CAACTTTAGAGAGATAAGATCT-GTTGT-TTTAATCCGCTCCACTG-ATACTTTAGGGAGATAGG
1 CAACTTCAGGGAGATAGGAT-TGGTT-TCTTTTGTCTGCTCCACTGCA-ACTTCAGAGAGATAAG
* * *
21698158 ATTGGTTTCTTTTG-TCTGCTCCACTG
63 ACTGGATGC----GATCTGCTCCACTG
* * * * * *
21698184 CAACTTCAGGGAGATAAGACTGGATAC----GATCTGCTCTACTGCAACTTTAGAGAGATAAGAT
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTG-TCTGCTCCACTGCAACTTCAGAGAGATAAG--
* * *** * * *
21698245 ATGTGGTTTTAATCCGCTCTACTA
63 A-CTGGATGCGATCTGCTCCACTG
* * * * **
21698269 TAACTTTAGGGAGATAGGATTAGTTTCTTTTATCTGCTCCGTTGCAACTTCAG-GAAGATAAGAC
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTGCAACTTCAGAG-AGATAAGAC
* * *
21698333 TGGATGTGATCTGCTCTACTA
65 TGGATGCGATCTGCTCCACTG
* * ** ** * * *
21698354 CAACTTCAGAGAGATAAGATCT-GTGGCTTTCATCCT-CTCCACTGTAACTTCAGGGAGATAGGA
1 CAACTTCAGGGAGATAGGAT-TGGTTTCTTTTGT-CTGCTCCACTGCAACTTCAGAGAGATAAGA
* * * ** * *
21698417 TTGGCTTCTTTTTTCTTCTCAACTG
64 CTGGATGC---GATCTGCTCCACTG
* * * * * * * *
21698442 TAACATCAGGGAGATAAGACTGG----ATGTGATCTGCTCTACTGTAACTTCAGAGAGATAAGAT
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTG-TCTGCTCCACTGCAACTTCAGAGAGATAAGA-
* ***
21698503 CTGTGGTTTTAATCCT-CTCCACTG
64 C--TGGATGCGAT-CTGCTCCACTG
* * * * *
21698527 CAACTTCAGGGAGATAGGATTCGTTTCTTTTGTCTATCTGTTCCACTGTAACTTTAGAGAGATAG
1 CAACTTCAGGGAGATAGGATTGGTTTCTTTTG----TCTGCTCCACTGCAACTTCAGAGAGATAA
* * *
21698592 GATTGGTTTCTTTTG-TCTGCTCCACTG
62 GACTGGATGC----GATCTGCTCCACTG
* ** * ** * *
21698619 CAACTTAAAAGAGATAGGATCT-GTGGT-TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGA
1 CAACTTCAGGGAGATAGGAT-TGGT-TTCTTTTGTCTGCTCCACTGCAACTTCAGAGAGATAAGA
* * *
21698682 CTGGATGCGATCTTCTCTACAG
64 CTGGATGCGATCTGCTCCACTG
* ** * * ** ** * * *
21698704 CAAGTTCAAAGAGATAAGATCT-GTGGT-TTTAATCCACTCCACTACAACTTCAGGGAGATAGGA
1 CAACTTCAGGGAGATAGGAT-TGGT-TTCTTTTGTCTGCTCCACTGCAACTTCAGAGAGATAAGA
* * *
21698767 CTGGATACGATCTGTTCTACTG
64 CTGGATGCGATCTGCTCCACTG
21698789 CAACTTCA
1 CAACTTCA
21698797 AAGAGATAAG
Statistics
Matches: 716, Mismatches: 178, Indels: 130
0.70 0.17 0.13
Matches are distributed among these distances:
84 9 0.01
85 433 0.60
86 14 0.02
87 7 0.01
88 177 0.25
89 13 0.02
91 2 0.00
92 59 0.08
93 2 0.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (85 bp):
CAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTGCAACTTCAGAGAGATAAGACT
GGATGCGATCTGCTCCACTG
Found at i:21698797 original size:85 final size:85
Alignment explanation
Indices: 21698615--21698817 Score: 309
Period size: 85 Copynumber: 2.4 Consensus size: 85
21698605 TGTCTGCTCC
* * * *
21698615 ACTGCAACTTAAAAGAGATAGGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAAAGAGATAAGATCTGTGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAA
*
21698680 GACTGGATGCGATCTTCTCT
66 GACTGGATACGATCTTCTCT
* * *
21698700 ACAGCAAGTTCAAAGAGATAAGATCTGTGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAG
1 ACTGCAACTTCAAAGAGATAAGATCTGTGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAA
21698765 GACTGGATACGATCTGT-TCT
66 GACTGGATACGATCT-TCTCT
*
21698785 ACTGCAACTTCAAAGAGATAAGATTTGTGGTTT
1 ACTGCAACTTCAAAGAGATAAGATCTGTGGTTT
21698818 ATAGCTTTAA
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 105 0.99
86 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (85 bp):
ACTGCAACTTCAAAGAGATAAGATCTGTGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAA
GACTGGATACGATCTTCTCT
Found at i:21698950 original size:100 final size:100
Alignment explanation
Indices: 21698821--21699442 Score: 809
Period size: 100 Copynumber: 6.2 Consensus size: 100
21698811 GTGGTTTATA
* * * * *
21698821 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCTATTGTTGCTTCAATCTGCTCC
1 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCC
* *
21698886 ACTGCACCGCCAAGGAAGTAAGATTCGTCGTTGTG
66 ACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTG
* * *
21698921 GCTTCAATCTTTTTAATTGTAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCC
* *
21698986 ACTGCACCGCCAGGGAAGTAAGATTCACCGTTGCG
66 ACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTG
* * * * * *
21699021 GCTACAATCTTTTTAATTACAATGTCGGGGAAGCAATATTCACTGTTATAGCTTCAATCTGTCCC
1 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCC
* * * *
21699086 ACTGTACCGCAAGGGAAGTAAGACTCGCCATTGTG
66 ACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTG
** * *
21699121 GCTTCAATCTTTTTAATTGCAATGTTAGGGAAACAAGATTCG-TCGTTGTAGCTTCAATTTGTTC
1 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCT-GTTGTAGCTTCAATCTGTTC
*
21699185 CACTGCACCGTCAGGGAAGTAAGATTCGCCGTTGTG
65 CACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTG
* * * * *
21699221 GCTTCAATCTTTCTAATTGCAATGTCGGGGAAACAAGATTTG-TCGTTGTTGCTTCAATATGTTC
1 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCT-GTTGTAGCTTCAATCTGTTC
* * *
21699285 CACTACACTGCCAGGGTAGTAAGACTT-GCCGTTGTG
65 CACTGCACCGCCAGGGAAGTAAGA-TTCGCCGTTGTG
* * * *
21699321 GCTTCAACCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTTAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCC
* * *
21699386 ATTGCACCGCCAGGGAAGTAAGATTCACCATTGTG
66 ACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTG
*
21699421 GCTTTAATCTTTTTAATTGCAA
1 GCTTCAATCTTTTTAATTGCAA
21699443 CCTCAGGGGT
Statistics
Matches: 451, Mismatches: 67, Indels: 8
0.86 0.13 0.02
Matches are distributed among these distances:
99 3 0.01
100 446 0.99
101 2 0.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (100 bp):
GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCC
ACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTG
Found at i:21699440 original size:50 final size:50
Alignment explanation
Indices: 21698821--21699441 Score: 393
Period size: 50 Copynumber: 12.4 Consensus size: 50
21698811 GTGGTTTATA
* * * * * ** *
21698821 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCTATTGTT
1 GCTTCAATCTTTTTAATTGCACTGTCAGGGAAGTAAGATTCGCCGTTGTG
** ** * * * * *
21698871 GCTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAGATTCGTCGTTGTG
1 GCTTCAATCTTTTTAATTGCACTGTCAGGGAAGTAAGATTCGCCGTTGTG
* * * * * *
21698921 GCTTCAATCTTTTTAATTGTAATGTCGGGGAAGCAAGATTCACCGTTGTA
1 GCTTCAATCTTTTTAATTGCACTGTCAGGGAAGTAAGATTCGCCGTTGTG
* ** * * * * *
21698971 GCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTTGCG
1 GCTTCAATCTTTTTAATTGCACTGTCAGGGAAGTAAGATTCGCCGTTGTG
* * * * * * * * * *
21699021 GCTACAATCTTTTTAATTACAATGTCGGGGAAGCAATATTCACTGTTATA
1 GCTTCAATCTTTTTAATTGCACTGTCAGGGAAGTAAGATTCGCCGTTGTG
* *** * * * * *
21699071 GCTTCAATCTGTCCCACTGTACCG-CAAGGGAAGTAAGACTCGCCATTGTG
1 GCTTCAATCTTTTTAATTGCACTGTC-AGGGAAGTAAGATTCGCCGTTGTG
* * ** * *
21699121 GCTTCAATCTTTTTAATTGCAATGTTAGGGAAACAAGATTCGTCGTTGTA
1 GCTTCAATCTTTTTAATTGCACTGTCAGGGAAGTAAGATTCGCCGTTGTG
** * *
21699171 GCTTCAAT-TTGTTCCACTGCACCGTCAGGGAAGTAAGATTCGCCGTTGTG
1 GCTTCAATCTT-TTTAATTGCACTGTCAGGGAAGTAAGATTCGCCGTTGTG
* * * ** * * *
21699221 GCTTCAATCTTTCTAATTGCAATGTCGGGGAAACAAGATTTGTCGTTGTT
1 GCTTCAATCTTTTTAATTGCACTGTCAGGGAAGTAAGATTCGCCGTTGTG
* * ** * * * *
21699271 GCTTCAATATGTTCCACTACACTGCCAGGGTAGTAAGACTT-GCCGTTGTG
1 GCTTCAATCTTTTTAATTGCACTGTCAGGGAAGTAAGA-TTCGCCGTTGTG
* * * *
21699321 GCTTCAACCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTA
1 GCTTCAATCTTTTTAATTGCACTGTCAGGGAAGTAAGATTCGCCGTTGTG
* * ** * * * *
21699371 GCTTTAATCTGTTCCATTGCACCGCCAGGGAAGTAAGATTCACCATTGTG
1 GCTTCAATCTTTTTAATTGCACTGTCAGGGAAGTAAGATTCGCCGTTGTG
*
21699421 GCTTTAATCTTTTTAATTGCA
1 GCTTCAATCTTTTTAATTGCA
21699442 ACCTCAGGGG
Statistics
Matches: 409, Mismatches: 156, Indels: 12
0.71 0.27 0.02
Matches are distributed among these distances:
49 5 0.01
50 400 0.98
51 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (50 bp):
GCTTCAATCTTTTTAATTGCACTGTCAGGGAAGTAAGATTCGCCGTTGTG
Found at i:21700352 original size:7 final size:7
Alignment explanation
Indices: 21700340--21700367 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
21700330 TATAAATATA
21700340 TTTTCAT
1 TTTTCAT
21700347 TTTTCAT
1 TTTTCAT
21700354 TTTTCAT
1 TTTTCAT
21700361 TTTTCAT
1 TTTTCAT
21700368 ACATACACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:21706037 original size:50 final size:50
Alignment explanation
Indices: 21705978--21706901 Score: 481
Period size: 50 Copynumber: 18.7 Consensus size: 50
21705968 GCAATTAAAA
* * * *
21705978 AGATTGAAGCCACAACAGCGAGTCTTACTTCTCTGGCAGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* * * ** * * * * * ** *
21706028 AGATTGAAGCTATAACGGCAAATTTTGTTTCCCCGACATTGTAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* * * *
21706078 AGATTGAAGCCACAACGGCGAGTCTTACTTCCCTGGCGGTACAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* ** * * * * ** *
21706128 AGATTGAAGCTACAACGACGAATCTTGTTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* * * * ** *
21706178 AGATTGAAGCCACAATGGCGAGTCTTACTTCCCTAGTGGTGTAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* * *
21706228 AAATTGAAGCTACAACGACG-A----A--T-CCTGGC-GATGCAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCAG-TGCAGTGGAAC
* * * * * * * ** *
21706270 AGATTAAAGCTACAACGGCAAATCTTA-TTTCCTCGACATTGTAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCT-GGCAGTGCAGTGGAAC
** ** *
21706320 AGATTGAA-C-ACATAACGATGAATCTTACTTCCCTGGTGGTGCACTGGAAC
1 AGATTGAAGCTAC--AACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* * ** * * * * * ** *
21706370 AGATTGAAGCTACAACTGTGAATCTTGTTTCCCCGACATTGTAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* * * * * *
21706420 AGATTGATGCCACAACAGCGAGTCTTACTTCCCCGGCAGTACAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* * * * * * ** *
21706470 AGATTGAAGCTACAACGGTGAATCTT-GTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* * * *
21706519 AGATTGAAGCCACAACGGTGAGTCTTACTTCCCTGGCAGTGCAGTGGGAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* * * * * * ** *
21706569 AGATTGAAGCTACAACGACAAATTTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* * * *
21706619 AGATTGAAGCCACAATGGGGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* * * ** * * ** *
21706669 AGATTGAAGCTACAACGGCGTATCTT-GTTTCCTCGATATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCT-GGCAGTGCAGTGGAAC
* * * * *
21706719 ATATTGAAGCCACAACGGCAAATCTTACTTCCCTGGCAGTGTAGTGGAGC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* * *** * ** *
21706769 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCAACATTGCAGTTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* ** * * * **
21706819 AGATTGAAGCTACAACAGTAAATCTGACTTCCCTGGCGGTGTAGAAGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
* * * *
21706869 TGATTGAAGCTACAACAGTGAATCTTGCTTCCC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCC
21706902 CGACATTGCA
Statistics
Matches: 617, Mismatches: 239, Indels: 36
0.69 0.27 0.04
Matches are distributed among these distances:
41 1 0.00
42 29 0.05
43 2 0.00
45 1 0.00
47 1 0.00
48 3 0.00
49 48 0.08
50 519 0.84
51 11 0.02
52 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
Found at i:21706393 original size:142 final size:142
Alignment explanation
Indices: 21706109--21706385 Score: 376
Period size: 142 Copynumber: 2.0 Consensus size: 142
21706099 GTCTTACTTC
* * * *
21706109 CCTGGCGGTACAGTGGAACAGATTGAAGCTACAACGACGAATCTTGTTTCCCCGACATTGCAATT
1 CCTGGCGATACAGTGGAACAGATTAAAGCTACAACGACAAATCTTATTTCCCCGACATTGCAATT
* * * * *
21706174 AAAAAGATTGAAGCCACAATGGCGAGTCTTACTTCCCTAGTGGTGTAGTGGAACAAATTGAAGCT
66 AAAAAGATTGAAGCCACAACGACGAATCTTACTTCCCTAGTGGTGCACTGGAACAAATTGAAGCT
21706239 ACAACGACGAAT
131 ACAACGACGAAT
* * * * *
21706251 CCTGGCGATGCAGTGGAATAGATTAAAGCTACAACGGCAAATCTTATTTCCTCGACATTGTAATT
1 CCTGGCGATACAGTGGAACAGATTAAAGCTACAACGACAAATCTTATTTCCCCGACATTGCAATT
* * * *
21706316 AAAAAGATTGAA-CACATAACGATGAATCTTACTTCCCTGGTGGTGCACTGGAACAGATTGAAGC
66 AAAAAGATTGAAGC-CACAACGACGAATCTTACTTCCCTAGTGGTGCACTGGAACAAATTGAAGC
21706380 TACAAC
130 TACAAC
21706386 TGTGAATCTT
Statistics
Matches: 116, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
141 1 0.01
142 115 0.99
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (142 bp):
CCTGGCGATACAGTGGAACAGATTAAAGCTACAACGACAAATCTTATTTCCCCGACATTGCAATT
AAAAAGATTGAAGCCACAACGACGAATCTTACTTCCCTAGTGGTGCACTGGAACAAATTGAAGCT
ACAACGACGAAT
Found at i:21706443 original size:242 final size:242
Alignment explanation
Indices: 21706017--21706486 Score: 683
Period size: 242 Copynumber: 1.9 Consensus size: 242
21706007 TCTCTGGCAG
* * * *
21706017 TGCAGTGGAACAGATTGAAGCTATAACGGCAAATTTTGTTTCCCCGACATTGTAATTAAAAAGAT
1 TGCAGTGGAACAGATTAAAGCTACAACGGCAAATCTTATTTCCCCGACATTGTAATTAAAAAGAT
* * *
21706082 TGAAGCCACAACGGCGAGTCTTACTTCCCTGGCGGTACAGTGGAACAGATTGAAGCTACAACGAC
66 TGAAGCCACAACGACGAATCTTACTTCCCTGGCGGTACACTGGAACAGATTGAAGCTACAACGAC
** *
21706147 GAATCTTGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAATGGCGAGTCTTACTTCCCT
131 GAATCTTGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACAGCGAGTCTTACTTCCCC
** **
21706212 AGTGGTGTAGTGGAACAAATTGAAGCTACAACGACGAATCCTGGCGA
196 AGCAGTACAGTGGAACAAATTGAAGCTACAACGACGAATCCTGGCGA
* *
21706259 TGCAGTGGAATAGATTAAAGCTACAACGGCAAATCTTATTTCCTCGACATTGTAATTAAAAAGAT
1 TGCAGTGGAACAGATTAAAGCTACAACGGCAAATCTTATTTCCCCGACATTGTAATTAAAAAGAT
* * * *
21706324 TGAA-CACATAACGATGAATCTTACTTCCCTGGTGGTGCACTGGAACAGATTGAAGCTACAACTG
66 TGAAGC-CACAACGACGAATCTTACTTCCCTGGCGGTACACTGGAACAGATTGAAGCTACAAC-G
* * *
21706388 -TGAATCTTGTTTCCCCGACATTGTAATTAAAAAGATTGATGCCACAACAGCGAGTCTTACTTCC
129 ACGAATCTTGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACAGCGAGTCTTACTTCC
* *
21706452 CCGGCAGTACAGTGGAACAGATTGAAGCTACAACG
194 CCAGCAGTACAGTGGAACAAATTGAAGCTACAACG
21706487 GTGAATCTTG
Statistics
Matches: 201, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
241 1 0.00
242 199 0.99
243 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (242 bp):
TGCAGTGGAACAGATTAAAGCTACAACGGCAAATCTTATTTCCCCGACATTGTAATTAAAAAGAT
TGAAGCCACAACGACGAATCTTACTTCCCTGGCGGTACACTGGAACAGATTGAAGCTACAACGAC
GAATCTTGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACAGCGAGTCTTACTTCCCC
AGCAGTACAGTGGAACAAATTGAAGCTACAACGACGAATCCTGGCGA
Found at i:21706930 original size:100 final size:100
Alignment explanation
Indices: 21706251--21706928 Score: 779
Period size: 100 Copynumber: 6.8 Consensus size: 100
21706241 AACGACGAAT
* * * * ** * *
21706251 CCTGGC-GATGCAGTGGAATAGATTAAAGCTACAACGGCAAATCTTATTTCCTCGACATTGTAAT
1 CCTGGCAG-TGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAAT
* **
21706315 TAAAAAGATTGAA-CACATAACGATGAATCTTACTTC
65 TAAAAAGATTGAAGC-CACAACGGCGAATCTTACTTC
** * * * * *
21706351 CCTGGTGGTGCACTGGAACAGATTGAAGCTACAACTGTGAATCTTGTTTCCCCGACATTGTAATT
1 CCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAATT
* * *
21706416 AAAAAGATTGATGCCACAACAGCGAGTCTTACTTC
66 AAAAAGATTGAAGCCACAACGGCGAATCTTACTTC
* * * *
21706451 CCCGGCAGTACAGTGGAACAGATTGAAGCTACAACGGTGAATCTTG-TTCCCCGACATTGCAATT
1 CCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAATT
* *
21706515 AAAAAGATTGAAGCCACAACGGTGAGTCTTACTTC
66 AAAAAGATTGAAGCCACAACGGCGAATCTTACTTC
* * * * *
21706550 CCTGGCAGTGCAGTGGGACAGATTGAAGCTACAAC-GACAAATTTTACTTCCCTGACATTGCAAT
1 CCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACAG-CGAATCTTGCTTCCCCGACATTGCAAT
* *
21706614 TAAAAAGATTGAAGCCACAATGGGGAATCTTACTTC
65 TAAAAAGATTGAAGCCACAACGGCGAATCTTACTTC
* * * * * *
21706650 CCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGTATCTTGTTTCCTCGATATTGCAATT
1 CCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAATT
* *
21706715 AAAAATATTGAAGCCACAACGGCAAATCTTACTTC
66 AAAAAGATTGAAGCCACAACGGCGAATCTTACTTC
* * * *
21706750 CCTGGCAGTGTAGTGGAGCAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCAACATTGCAGTT
1 CCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAATT
* * ** *
21706815 AAAAAGATTGAAGCTACAACAGTAAATCTGACTTC
66 AAAAAGATTGAAGCCACAACGGCGAATCTTACTTC
* * ** * *
21706850 CCTGGCGGTGTAGAAGAACTGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAATT
1 CCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAATT
*
21706915 AAAAAGATTAAAGC
66 AAAAAGATTGAAGC
21706929 TATAAACCAC
Statistics
Matches: 499, Mismatches: 74, Indels: 10
0.86 0.13 0.02
Matches are distributed among these distances:
98 1 0.00
99 86 0.17
100 409 0.82
101 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (100 bp):
CCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAATT
AAAAAGATTGAAGCCACAACGGCGAATCTTACTTC
Found at i:21707243 original size:85 final size:84
Alignment explanation
Indices: 21707153--21707567 Score: 291
Period size: 85 Copynumber: 4.8 Consensus size: 84
21707143 CTACAGATCT
* * * *
21707153 TATCTCTCTGAAATTGCAGTAGAGCAGATCACATCCAGTTTTATCTCCCTGAAGTTGCAGTGGAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAG
*
21707218 CAGACAAAAGAAACCAATCC
66 CAGAC-AAAGAATCCAATCC
*** * * * ** **
21707238 TATCTCCCTGAAGTCATAGTAGAGCGGATTAAAACCACAGATCTTATCTCTTTGAAGTTGCAGCA
1 TATCTCCCTGAAGTTGCAGTAGAGCAGA-TCAAATC-CAG-TCTTATCTCCCTGAAGTTGCAGTG
* * *
21707303 GAGCAGATC---GCATCCAGTCT
63 GAGCAGA-CAAAGAATCCAATCC
* * * * *
21707323 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAAGAAACCAATCCTATCTCCCTAAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATC---A-AATCCAGTCTTATCTCCCTGAAGTTGCAGT
** ** *
21707387 GGAGTGGATTAA-AATCACATATCT
62 GGAGCAGACAAAGAATC-CA-ATCC
* * * * *
21707411 TATCTCTCTGAAGTTACAGTAGAGCAGATCACATCTAGTCTTATCTCCTTGAAGTTGCAGTGGAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAG
*
21707476 CAGACAGAAGAAGCCAATCC
66 CAGACA-AAGAATCCAATCC
* * * * * * *
21707496 TACCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTAGAGCAGA-TCAAATC-CAG-TCTTATCTCCCTGAAGTTGCAGTG
21707561 GAGCAGA
63 GAGCAGA
21707568 TCGTATCTAG
Statistics
Matches: 246, Mismatches: 65, Indels: 35
0.71 0.19 0.10
Matches are distributed among these distances:
85 131 0.53
86 19 0.08
87 13 0.05
88 81 0.33
89 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAG
CAGACAAAGAATCCAATCC
Found at i:21707251 original size:44 final size:43
Alignment explanation
Indices: 21707149--21707567 Score: 241
Period size: 44 Copynumber: 9.7 Consensus size: 43
21707139 AAAACTACAG
* * * *
21707149 ATCTTATCTCTCTGAAATTGCAGTAGAGCAGATC--A-CATCCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGAATCCA
* * *
21707190 GTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGAATCCA
* *** * * ** *
21707234 ATCCTATCTCCCTGAAGTCATAGTAGAGCGGATTAA-AACCACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAGAATC-CA
** ** *
21707277 GATCTTATCTCTTTGAAGTTGCAGCAGAGCAGATC---GCATCCA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGAATCCA
* *
21707319 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AAAGAATCCA
* * ** **
21707363 ATCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAA-AATCACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAGAATC-CA
* * * * *
21707406 TATCTTATCTCTCTGAAGTTACAGTAGAGCAGATC--A-CATCTA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGAATCCA
* * *
21707448 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACAGAAGAAGCCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA-AAGAATCCA
* * ** *
21707492 ATCCTACCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AACCACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAGAATC-CA
* * *
21707535 GATCTTATCTCTCTAAAGTTGCAGTAGAGCAGA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
21707568 TCGTATCTAG
Statistics
Matches: 283, Mismatches: 74, Indels: 39
0.71 0.19 0.10
Matches are distributed among these distances:
40 3 0.01
41 81 0.29
42 12 0.04
43 20 0.07
44 167 0.59
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAGAATCCA
Found at i:21707318 original size:129 final size:129
Alignment explanation
Indices: 21706983--21707609 Score: 816
Period size: 129 Copynumber: 4.9 Consensus size: 129
21706973 TCGCATCTAG
* * * * * *
21706983 TCCTATCTTCCTGAAATTACAGTAGAGCGGGTTAAAACCACAGATCTTATCTCTTTGAAGTTACA
1 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCA
* * * * * * *
21707048 GTATAGCATATCGCATTCAGTTTTATCTCTCTAAAGTTGCAGTGGAGCAGACAAAAGAAACAAA
66 GTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAA
* * *
21707112 TTCTATCTCCCT---G---CAGTGGAGCGGATTAAAACTACAGATCTTATCTCTCTGAAATTGCA
1 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCA
* *
21707171 GTAGAGCAGATCACATCCAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAA
66 GTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAA
* * * *
21707235 TCCTATCTCCCTGAAGTCATAGTAGAGCGGATTAAAACCACAGATCTTATCTCTTTGAAGTTGCA
1 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCA
*
21707300 GCAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAA
66 GTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAA
* * * * * *
21707364 TCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAATCACATATCTTATCTCTCTGAAGTTACA
1 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCA
* * * * *
21707429 GTAGAGCAGATCACATCTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACAGAAGAAGCCAA
66 GTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAA
* * * *
21707493 TCCTACCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCA
1 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCA
* * * * * *
21707558 GTAGAGCAGATCGTATCTAGTCTTATCTCCCTAAAGATGTAGTGGAACAGAC
66 GTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
21707610 TATTGATAGC
Statistics
Matches: 436, Mismatches: 56, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
123 108 0.25
126 1 0.00
129 327 0.75
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (129 bp):
TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCA
GTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAA
Found at i:21709419 original size:11 final size:11
Alignment explanation
Indices: 21709405--21709432 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
21709395 TATTAAATTA
21709405 TATTTTAAAAG
1 TATTTTAAAAG
21709416 TATTTTAAAAG
1 TATTTTAAAAG
21709427 TATTTT
1 TATTTT
21709433 TTGTCCAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (11 bp):
TATTTTAAAAG
Found at i:21710008 original size:16 final size:15
Alignment explanation
Indices: 21709979--21710016 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
21709969 AACTATTATT
21709979 TTTTA-TTT-TTTTG
1 TTTTATTTTGTTTTG
21709992 TTTATATTTTGTTTTG
1 TTT-TATTTTGTTTTG
21710008 TTTTATTTT
1 TTTTATTTT
21710017 TATATTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 2 0.09
15 9 0.41
16 8 0.36
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.82
Consensus pattern (15 bp):
TTTTATTTTGTTTTG
Found at i:21710017 original size:16 final size:16
Alignment explanation
Indices: 21709987--21710016 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21709977 TTTTTTATTT
21709987 TTTTGTTTATATTTTG
1 TTTTGTTTATATTTTG
21710003 TTTTGTTT-TATTTT
1 TTTTGTTTATATTTT
21710017 TATATTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (16 bp):
TTTTGTTTATATTTTG
Found at i:21722498 original size:41 final size:40
Alignment explanation
Indices: 21722453--21722537 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
21722443 AAATAGGCTT
21722453 TTAGCGGC-ATTTGGATAAAAAATGCCACTAAAAATCAAGCA
1 TTAGCGGCGATTT-GAT-AAAAATGCCACTAAAAATCAAGCA
* ** * *
21722494 TTAGCGGCGCTTTTCTAAAAATGCCACTAAAGATCGAGCA
1 TTAGCGGCGATTTGATAAAAATGCCACTAAAAATCAAGCA
21722534 TTAG
1 TTAG
21722538 TTGGAAAACG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
40 26 0.68
41 9 0.24
42 3 0.08
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (40 bp):
TTAGCGGCGATTTGATAAAAATGCCACTAAAAATCAAGCA
Found at i:21726001 original size:19 final size:20
Alignment explanation
Indices: 21725977--21726020 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
21725967 CGGATACATG
21725977 TTTATTTTT-GATCTCATAA
1 TTTATTTTTGGATCTCATAA
21725996 TTTATTTTTGGATCTCATAA
1 TTTATTTTTGGATCTCATAA
21726016 TTTAT
1 TTTAT
21726021 CCTTTCACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTATTTTTGGATCTCATAA
Found at i:21726483 original size:25 final size:25
Alignment explanation
Indices: 21726410--21726483 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 25
21726400 TTCCTGAAAC
21726410 TTGTTCTCCTTGTTGATGTCAAAAA
1 TTGTTCTCCTTGTTGATGTCAAAAA
* * * *
21726435 TTGTCCTCCTTG-CG-T-T--TAAC
1 TTGTTCTCCTTGTTGATGTCAAAAA
*
21726455 TTGTTCTCCTTGTTGATGTCAAAAT
1 TTGTTCTCCTTGTTGATGTCAAAAA
21726480 TTGT
1 TTGT
21726484 CTTCATGAGT
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
20 13 0.36
21 1 0.03
22 2 0.06
23 2 0.06
24 1 0.03
25 17 0.47
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (25 bp):
TTGTTCTCCTTGTTGATGTCAAAAA
Found at i:21733442 original size:42 final size:42
Alignment explanation
Indices: 21733396--21733526 Score: 110
Period size: 42 Copynumber: 3.1 Consensus size: 42
21733386 AAGAACGGAA
* *
21733396 CTTTTAGTAGCGTTTT-CGATAAAAGCGTCGCTAAAGGTCATG-
1 CTTTTAGCAGC-TTTTGCGATAAAAGCG-CGCTAAAGATCATGT
* *
21733438 CTTTTAGCGGCTTTTGTGATAAAAGCGCGCTAAAGATCATGT
1 CTTTTAGCAGCTTTTGCGATAAAAGCGCGCTAAAGATCATGT
* * *
21733480 C-TTTAGCGGCATTTTTG-GGT-AAAGCGCCGCTAAAGGTCATGTT
1 CTTTTAGCAGC--TTTTGCGATAAAAGCG-CGCTAAAGATCATG-T
21733523 CTTT
1 CTTT
21733527 AGCGACGTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
41 32 0.42
42 35 0.46
43 7 0.09
44 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (42 bp):
CTTTTAGCAGCTTTTGCGATAAAAGCGCGCTAAAGATCATGT
Found at i:21733485 original size:41 final size:43
Alignment explanation
Indices: 21733408--21733530 Score: 148
Period size: 41 Copynumber: 2.9 Consensus size: 43
21733398 TTTAGTAGCG
* *
21733408 TTTTCGATAAAAGCGTCGCTAAAGGTCATG-CTTTTAGCGGC--
1 TTTTGGATAAAAGCGCCGCTAAAGGTCATGTC-TTTAGCGGCAT
*
21733449 TTTTGTGATAAAAGCG-CGCTAAAGATCATGTCTTTAGCGGCAT
1 TTTTG-GATAAAAGCGCCGCTAAAGGTCATGTCTTTAGCGGCAT
*
21733492 TTTTGGGT-AAAGCGCCGCTAAAGGTCATGTTCTTTAGCG
1 TTTTGGATAAAAGCGCCGCTAAAGGTCATG-TCTTTAGCG
21733531 ACGTTTTTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
41 32 0.44
42 26 0.36
43 14 0.19
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
TTTTGGATAAAAGCGCCGCTAAAGGTCATGTCTTTAGCGGCAT
Found at i:21733822 original size:11 final size:11
Alignment explanation
Indices: 21733806--21733830 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21733796 ATTTGGGAGT
21733806 AAAATGAGTGA
1 AAAATGAGTGA
21733817 AAAATGAGTGA
1 AAAATGAGTGA
21733828 AAA
1 AAA
21733831 TCGGAAAATC
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:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (11 bp):
AAAATGAGTGA
Found at i:21734942 original size:7 final size:7
Alignment explanation
Indices: 21734930--21734988 Score: 56
Period size: 7 Copynumber: 8.9 Consensus size: 7
21734920 TAATTTAGCC
21734930 ATTTTTA
1 ATTTTTA
21734937 ATTTTTA
1 ATTTTTA
21734944 A--TTTA
1 ATTTTTA
*
21734949 ATATTTTT
1 AT-TTTTA
21734957 ATTTTTA
1 ATTTTTA
21734964 A--TTTA
1 ATTTTTA
21734969 ATTTTT-
1 ATTTTTA
21734975 ATATTTTA
1 AT-TTTTA
21734983 ATTTTT
1 ATTTTT
21734989 TGTTTGTTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
5 10 0.23
6 2 0.05
7 24 0.56
8 7 0.16
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTTTTA
Found at i:21734960 original size:20 final size:18
Alignment explanation
Indices: 21734930--21734986 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 18
21734920 TAATTTAGCC
21734930 ATTTTTAATTTTTAATTTAA
1 ATTTTT-ATTTTTAATTT-A
21734950 TATTTTTATTTTTAATTTA
1 -ATTTTTATTTTTAATTTA
21734969 ATTTTTATATTTTAATTT
1 ATTTTTAT-TTTTAATTT
21734987 TTTGTTTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.23
19 10 0.29
20 11 0.31
21 6 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTTTATTTTTAATTTA
Found at i:21737838 original size:16 final size:16
Alignment explanation
Indices: 21737817--21737847 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21737807 TCCCAACCCC
*
21737817 ATGCAGTATGTCATGT
1 ATGCAGTATGCCATGT
21737833 ATGCAGTATGCCATG
1 ATGCAGTATGCCATG
21737848 CTCAGAATCA
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:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGCAGTATGCCATGT
Found at i:21739666 original size:171 final size:171
Alignment explanation
Indices: 21739381--21739692 Score: 615
Period size: 171 Copynumber: 1.8 Consensus size: 171
21739371 CCTAGATTTC
*
21739381 CTCCTCCTAATCACCCAACTACCAACCACATCCCCTGGTTCTCTCCTCATTGACCAATTCAAACC
1 CTCCTCCAAATCACCCAACTACCAACCACATCCCCTGGTTCTCTCCTCATTGACCAATTCAAACC
21739446 TTATCCAGTAGAGTTTTAGCCAAACTCCACCTCTCTCACCACAAAGAAATAAAATAAATATCCTT
66 TTATCCAGTAGAGTTTTAGCCAAACTCCACCTCTCTCACCACAAAGAAATAAAATAAATATCCTT
21739511 TTGCATTCCATTTTGAATTCCTAGATTTCCTCCTCCTAATT
131 TTGCATTCCATTTTGAATTCCTAGATTTCCTCCTCCTAATT
21739552 CTCCTCCAAATCACCCAACTACCAACCACATCCCCTGGTTCTCTCCTCATTGACCAATTCAAACC
1 CTCCTCCAAATCACCCAACTACCAACCACATCCCCTGGTTCTCTCCTCATTGACCAATTCAAACC
21739617 TTATCCAGTAGAGTTTTAGCCAAACTCCACCTCTCTCACCACAAAGAAATAAAATAAATATCCTT
66 TTATCCAGTAGAGTTTTAGCCAAACTCCACCTCTCTCACCACAAAGAAATAAAATAAATATCCTT
21739682 TTGCATTCCAT
131 TTGCATTCCAT
21739693 GAGATTCGAA
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
171 140 1.00
ACGTcount: A:0.30, C:0.34, G:0.06, T:0.29
Consensus pattern (171 bp):
CTCCTCCAAATCACCCAACTACCAACCACATCCCCTGGTTCTCTCCTCATTGACCAATTCAAACC
TTATCCAGTAGAGTTTTAGCCAAACTCCACCTCTCTCACCACAAAGAAATAAAATAAATATCCTT
TTGCATTCCATTTTGAATTCCTAGATTTCCTCCTCCTAATT
Found at i:21741491 original size:12 final size:12
Alignment explanation
Indices: 21741476--21741514 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
21741466 TTATATTTTA
*
21741476 TTTGTTTTTGTT
1 TTTGTTTTTATT
21741488 TTTGTTTTTATT
1 TTTGTTTTTATT
*
21741500 TTTATTTTTTATT
1 TTT-GTTTTTATT
21741513 TT
1 TT
21741515 ATTATGCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTGTTTTTATT
Found at i:21741507 original size:18 final size:18
Alignment explanation
Indices: 21741459--21741517 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
21741449 AGTGATCTCA
* *
21741459 TTTAGTTTTATATTTTA-
1 TTTATTTTTATTTTTTAT
* *
21741476 TTTGTTTTTGTTTTTGT-T
1 TTTATTTTTATTTTT-TAT
21741494 TTTATTTTTATTTTTTAT
1 TTTATTTTTATTTTTTAT
21741512 TTTATT
1 TTTATT
21741518 ATGCACTGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
17 12 0.36
18 21 0.64
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.80
Consensus pattern (18 bp):
TTTATTTTTATTTTTTAT
Found at i:21743214 original size:21 final size:21
Alignment explanation
Indices: 21743188--21743240 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
21743178 CAATTTTCAT
* *
21743188 ACGGGCATGTGCCTTGGCCAC
1 ACGGGCATGTGCCCTAGCCAC
* *
21743209 ACGGGCGTGTCCCCTAGCCAC
1 ACGGGCATGTGCCCTAGCCAC
*
21743230 ATGGGCATGTG
1 ACGGGCATGTG
21743241 AGATTTCTAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.32, G:0.34, T:0.19
Consensus pattern (21 bp):
ACGGGCATGTGCCCTAGCCAC
Found at i:21753252 original size:45 final size:44
Alignment explanation
Indices: 21753194--21753574 Score: 178
Period size: 44 Copynumber: 8.6 Consensus size: 44
21753184 GTTTTAATCC
* * **
21753194 GCTCCACTGCAACTTTAGGGAGATAGGA-TTAGTTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTT-GTTA-CTTCAAACT
21753239 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTTACTTCAAACT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTTACTTCAAACT
* * * *
21753283 GCCCCACTGCAACTTCAAGGG-GATAAG-GTTCGTCACTTCAACCT
1 GCTCCACTGCAACTTC-AGGGAGATAAGACTT-GTTACTTCAAACT
* * * * * ** ** *
21753327 ACTCTA-TGCAACTTTAGAGAAATAAGGTTTGTGGCTTTAATA-T
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTTACTTCAA-ACT
* * * * *
21753370 ACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTTA--CTTCAAACT
* * * * *
21753416 GAC-CTACAGCAACTTCAGAGG-TATAGGATTCATTGTT--TT-AATCT
1 G-CTCCACTGCAACTTCAG-GGAGATAAGA--C-TTGTTACTTCAAACT
* ** **
21753460 GCTCCACTGCAACTTCAAGGAGA-AAGGA-TTAATAGCTTCAATTT
1 GCTCCACTGCAACTTCAGGGAGATAA-GACTTGTTA-CTTCAAACT
* ** *
21753504 GCTCCACTGCTACTTCAGGGAGATAAGA-TTGACATCTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTTA-CTTCAAACT
*
21753548 GCTTCACTGCAACTTCA-GGACGATAAG
1 GCTCCACTGCAACTTCAGGGA-GATAAG
21753575 GTTTGTGGTT
Statistics
Matches: 259, Mismatches: 53, Indels: 49
0.72 0.15 0.14
Matches are distributed among these distances:
40 3 0.01
42 3 0.01
43 37 0.14
44 144 0.56
45 38 0.15
46 25 0.10
47 3 0.01
48 1 0.00
49 5 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTTGTTACTTCAAACT
Found at i:21753942 original size:45 final size:45
Alignment explanation
Indices: 21753886--21754332 Score: 413
Period size: 45 Copynumber: 10.0 Consensus size: 45
21753876 GTTTCTTCGA
*
21753886 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* * *
21753931 TTTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGTTACCTTCAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* * * * *
21753976 TCTACTTCACTGTCAGTACAGGAAGGCAAG-GCTGGTGTCTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* * * * *
21754019 ATCTACTTCACTGTTAGTATAGGAAGACAAGATCTGTTATCTTCAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* ** * * *
21754065 TCTGCTTCACTGTCAGTGTAGGAAGGCAAG-GCTGATGTCTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* ** * *
21754108 ATCTGCTTCGCTATCAGTACAGGAATACAAGATTTGTTATCTTTAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* * * * * *
21754154 TCTACTTTGTTGTCAGTACAGGAAGGCAAG-GCTGGTGTCTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* *
21754197 ATCTGCTTTGCTGTCAGTATAGGAAGGCAAGATCTGTTATCTTCAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* * ** * * * *
21754243 GCTGCTTCGCTGTCAGTGCAAAAAGGCAAG-GCTGATGTCTTCAA
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
* * * *
21754287 TCTACTTCACTGTCAGTACAGGAATGTAAGATCTGTTATCTTCAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
21754332 T
1 T
21754333 GATCTGTTCT
Statistics
Matches: 317, Mismatches: 75, Indels: 20
0.77 0.18 0.05
Matches are distributed among these distances:
43 3 0.01
44 134 0.42
45 177 0.56
46 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (45 bp):
TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAG
Found at i:21754055 original size:89 final size:89
Alignment explanation
Indices: 21753890--21754332 Score: 521
Period size: 89 Copynumber: 5.0 Consensus size: 89
21753880 CTTCGATCTG
* * * * *
21753890 CTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTC-AGTTTGCTCCGCTGTCAGTACAGGA
1 CTTCGCTGTCAGTACAGGAAGGCAAG-GCTGATGTCTTCGA-TCTGCTTCGCTGTCAGTACAGGA
* *
21753954 AGGCAAGATCTGTTACCTTCAGTCTA
64 AGACAAGATCTGTTATCTTCAGTCTA
* * * * * *
21753980 CTTCACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTACTTCACTGTTAGTATAGGAAG
1 CTTCGCTGTCAGTACAGGAAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAG
*
21754045 ACAAGATCTGTTATCTTCAGTCTG
66 ACAAGATCTGTTATCTTCAGTCTA
* ** * *
21754069 CTTCACTGTCAGTGTAGGAAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTATCAGTACAGGAAT
1 CTTCGCTGTCAGTACAGGAAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAG
* *
21754134 ACAAGATTTGTTATCTTTAGTCTA
66 ACAAGATCTGTTATCTTCAGTCTA
* * * * *
21754158 CTTTGTTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCAGTATAGGAAG
1 CTTCGCTGTCAGTACAGGAAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAG
* * *
21754223 GCAAGATCTGTTATCTTCAGGCTG
66 ACAAGATCTGTTATCTTCAGTCTA
* ** * * *
21754247 CTTCGCTGTCAGTGCAAAAAGGCAAGGCTGATGTCTTCAATCTACTTCACTGTCAGTACAGGAAT
1 CTTCGCTGTCAGTACAGGAAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCAGTACAGGAA-
*
21754312 G-TAAGATCTGTTATCTTCAGT
65 GACAAGATCTGTTATCTTCAGT
21754333 GATCTGTTCT
Statistics
Matches: 298, Mismatches: 53, Indels: 5
0.84 0.15 0.01
Matches are distributed among these distances:
89 271 0.91
90 27 0.09
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (89 bp):
CTTCGCTGTCAGTACAGGAAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAG
ACAAGATCTGTTATCTTCAGTCTA
Found at i:21754186 original size:178 final size:177
Alignment explanation
Indices: 21753886--21754332 Score: 606
Period size: 178 Copynumber: 2.5 Consensus size: 177
21753876 GTTTCTTCGA
* * * * * *
21753886 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTTTGCTCCGCTGTCAGTACA
1 TCTGCTTCGCTGTCAGTGCAGGAAGGCAAG-GCTGATGTCTTCA-TCTGCTTCGCTGTCAGTACA
* *
21753951 GGAAGGCAAGATCTGTTACCTTCAGTCTACTTCACTGTCAGTACAGGAAGGCAAGGCTGGTGTCT
64 GGAATGCAAGATCTGTTATCTTCAGTCTACTTCACTGTCAGTACAGGAAGGCAAGGCTGGTGTCT
*
21754016 TCGATCTACTTCACTGTTAGTATAGGAAGACAAGATCTGTTATCTTCAG
129 TCGATCTACTTCACTGTCAGTATAGGAAGACAAGATCTGTTATCTTCAG
* * *
21754065 TCTGCTTCACTGTCAGTGTAGGAAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTATCAGTACAG
1 TCTGCTTCGCTGTCAGTGCAGGAAGGCAAGGCTGATGTCTTC-ATCTGCTTCGCTGTCAGTACAG
* * * ***
21754130 GAATACAAGATTTGTTATCTTTAGTCTACTTTGTTGTCAGTACAGGAAGGCAAGGCTGGTGTCTT
65 GAATGCAAGATCTGTTATCTTCAGTCTACTTCACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTT
* ** *
21754195 CGATCTGCTTTGCTGTCAGTATAGGAAGGCAAGATCTGTTATCTTCAG
130 CGATCTACTTCACTGTCAGTATAGGAAGACAAGATCTGTTATCTTCAG
* ** * *
21754243 GCTGCTTCGCTGTCAGTGCAAAAAGGCAAGGCTGATGTCTTCAATCTACTTCACTGTCAGTACAG
1 TCTGCTTCGCTGTCAGTGCAGGAAGGCAAGGCTGATGTCTTC-ATCTGCTTCGCTGTCAGTACAG
*
21754308 GAATGTAAGATCTGTTATCTTCAGT
65 GAATGCAAGATCTGTTATCTTCAGT
21754333 GATCTGTTCT
Statistics
Matches: 232, Mismatches: 35, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
178 204 0.88
179 28 0.12
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (177 bp):
TCTGCTTCGCTGTCAGTGCAGGAAGGCAAGGCTGATGTCTTCATCTGCTTCGCTGTCAGTACAGG
AATGCAAGATCTGTTATCTTCAGTCTACTTCACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTC
GATCTACTTCACTGTCAGTATAGGAAGACAAGATCTGTTATCTTCAG
Found at i:21765330 original size:16 final size:16
Alignment explanation
Indices: 21765309--21765345 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
21765299 AAATAATAAT
21765309 AAAAAATCAAAATCAA
1 AAAAAATCAAAATCAA
*
21765325 AAAAAATCAAAGTCAA
1 AAAAAATCAAAATCAA
21765341 AAAAA
1 AAAAA
21765346 GGAGAACAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.76, C:0.11, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAAATCAAAATCAA
Found at i:21766197 original size:13 final size:14
Alignment explanation
Indices: 21766179--21766212 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
21766169 AGTCAAACAA
21766179 AAAAATGAAAAA-T
1 AAAAATGAAAAAGT
21766192 AAAAATGAAAAAGT
1 AAAAATGAAAAAGT
21766206 AAAAATG
1 AAAAATG
21766213 GAGAGGCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.15
Consensus pattern (14 bp):
AAAAATGAAAAAGT
Found at i:21767512 original size:50 final size:50
Alignment explanation
Indices: 21767434--21768275 Score: 516
Period size: 50 Copynumber: 16.9 Consensus size: 50
21767424 ATTGCAATTC
* ** * *
21767434 AAAAGATTGAAGCTACAACAGTAAATCTCACCTCCCTGGCGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGATGCAGCGG
* * * ****
21767484 AATAGATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC-ATTGCAATTC
1 AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGA-TGCAGCGG
* * **
21767534 AAAAGATTGAAGCTACAACAGCGAATCTCACCTCCTTGGCGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGATGCAGCGG
* * * * ****
21767584 AACAGATTGAAGCTACAATGGTGAATCTCACTTCCCCGAC-ATTGCAATTT
1 AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGA-TGCAGCGG
* * * * *
21767634 AAAAGATTGAAGCTACAACAGCAAATCTCACCTCCCTGGTGATGCAGC-G
1 AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGATGCAGCGG
* * * ***
21767683 AAACAGATCGAAGCTACAACGGCGAATCTCACTTCCCTGAC-ATTGCA-ATT
1 AAA-AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGA-TGCAGCGG
* * * * **
21767733 CAAAGATTGAAGCCACAACGGTGAATCTTAC-TCCTAGGCGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGATGCAGCGG
** * * * ****
21767782 AGCAGATTGAAGCTATAACGGCAAATCTCACTTCCCCGAC-ATTGCAATTC
1 AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGA-TGCAGCGG
* * * * * * *
21767832 AAAAGATTTAAGCCACAACGGTGAATCTTACTTTCCAGGCGATGTAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGATGCAGCGG
** * * * * ****
21767882 AGTAGATTGAAGATGCAACGGTGAATCTCACTTCCCCGAC-ATTGCAATTC
1 AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGA-TGCAGCGG
* * * * *
21767932 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGTGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGATGCAGCGG
** * * * ** ****
21767982 AGCAGACTGAAGCTACAACGGTGAATTTCACTTCCCCAAC-ATTGCAATTC
1 AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGA-TGCAGCGG
* * *
21768032 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGATGCAGCGG
** * * ****
21768082 AGCAGATTGAAGCTACAACGGCGAATCTCACTTCCTCGAC-ATTGCAATTC
1 AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGA-TGCAGCGG
* * * * * *
21768132 AAAAGATTTAAGCCACAACGGTGAATCTTACTTCCCAGGTGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGATGCAGCGG
** * * * * * ****
21768182 AGCAGATTGAAACTACAACGGTGAATCTCACTTCCTCGACAATGCAATTC
1 AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGATGCAGCGG
* * *
21768232 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGATG
21768276 TAGTGGAATA
Statistics
Matches: 571, Mismatches: 203, Indels: 36
0.70 0.25 0.04
Matches are distributed among these distances:
48 9 0.02
49 58 0.10
50 498 0.87
51 6 0.01
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (50 bp):
AAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGGCGATGCAGCGG
Found at i:21768321 original size:100 final size:100
Alignment explanation
Indices: 21767424--21768275 Score: 1186
Period size: 100 Copynumber: 8.5 Consensus size: 100
21767414 AAAACCATAG
* * * * * * **
21767424 ATTGCAATTCAAAAGATTGAAGCTACAACAGTAAATCTCACCTCCCTGGCGATGCAGCGGAATAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
*
21767489 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * * ** *
21767524 ATTGCAATTCAAAAGATTGAAGCTACAACAGCGAATCTCACCTCCTTGGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
* *
21767589 ATTGAAGCTACAATGGTGAATCTCACTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * ** * * * * * *
21767624 ATTGCAATTTAAAAGATTGAAGCTACAACAGCAAATCTCACCTCCCTGGTGATGCAGCGAAACAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
* *
21767689 ATCGAAGCTACAACGGCGAATCTCACTTCCCTGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
*
21767724 ATTGCAATTC-AAAGATTGAAGCCACAACGGTGAATCTTAC-TCCTAGGCGATGCAGCGGAGCAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
* *
21767787 ATTGAAGCTATAACGGCAAATCTCACTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * *
21767822 ATTGCAATTCAAAAGATTTAAGCCACAACGGTGAATCTTACTTTCCAGGCGATGTAGCGGAGTAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
* * *
21767887 ATTGAAGATGCAACGGTGAATCTCACTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
*
21767922 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGTGATGCAGCGGAGCAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
* * * *
21767987 ACTGAAGCTACAACGGTGAATTTCACTTCCCCAAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
*
21768022 ATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
*
21768087 ATTGAAGCTACAACGGCGAATCTCACTTCCTCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* *
21768122 ATTGCAATTCAAAAGATTTAAGCCACAACGGTGAATCTTACTTCCCAGGTGATGCAGCGGAGCAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
* * *
21768187 ATTGAAACTACAACGGTGAATCTCACTTCCTCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* *
21768222 AATGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATG
21768276 TAGTGGAATA
Statistics
Matches: 683, Mismatches: 67, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
98 59 0.09
99 54 0.08
100 570 0.83
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (100 bp):
ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAG
ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
Found at i:21768751 original size:13 final size:13
Alignment explanation
Indices: 21768733--21768757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21768723 TCTAGCCCGA
21768733 CGCCGCCTCCATG
1 CGCCGCCTCCATG
21768746 CGCCGCCTCCAT
1 CGCCGCCTCCAT
21768758 CAGTGCAAGT
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:0.56, G:0.20, T:0.16
Consensus pattern (13 bp):
CGCCGCCTCCATG
Found at i:21768815 original size:6 final size:6
Alignment explanation
Indices: 21768804--21768830 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21768794 CCCACTTGCT
21768804 CCATCA CCATCA CCATCA CCATCA CCA
1 CCATCA CCATCA CCATCA CCATCA CCA
21768831 CTTGCCTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.00, T:0.15
Consensus pattern (6 bp):
CCATCA
Found at i:21770099 original size:24 final size:25
Alignment explanation
Indices: 21770071--21770121 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
21770061 ATATATTTTG
21770071 TAATTTACGTATACATACATAT-TA
1 TAATTTACGTATACATACATATATA
* * *
21770095 TAATTTATGTCTATATACATATATA
1 TAATTTACGTATACATACATATATA
21770120 TA
1 TA
21770122 TCCCTCTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (25 bp):
TAATTTACGTATACATACATATATA
Found at i:21773848 original size:46 final size:46
Alignment explanation
Indices: 21773781--21774328 Score: 801
Period size: 46 Copynumber: 11.8 Consensus size: 46
21773771 GACTAGAAGC
21773781 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
*
21773827 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATTGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
*
21773873 AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
*
21773919 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * *
21773965 AGCAGATCTTGCCTTCCTGTATTTGGCAGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * * *
21774011 GGCAGATCTTATCTTCCTGTATTTGGCAGTGGACTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * *
21774057 AGCAGATCTTGTCTTCCTGTATTTGGCAACAGAGTAGATCTAAGAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATC-GA-AGAT
* * *
21774105 AGCAGATCTTATCTTCCTGTATTTGGCAGCAGAGTAGATCTAAGATAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAG--AT
*
21774153 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGAGCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * * *
21774199 AGCAGATCTTATCTTCCTGTATTTGGCAGTGAACTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* *
21774245 AGCAGATCTTATCTTCCTGTATTTGGCAGCAGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * * * *
21774291 AGCAGATCTTATCTTCTTGTA-CTGGCAGTGGAGCAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGAT
21774329 TGAAAGCACC
Statistics
Matches: 456, Mismatches: 42, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
45 13 0.03
46 357 0.78
47 2 0.00
48 84 0.18
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (46 bp):
AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
Found at i:21774368 original size:88 final size:92
Alignment explanation
Indices: 21773796--21774392 Score: 445
Period size: 92 Copynumber: 6.5 Consensus size: 92
21773786 ATCTTGTCTT
* * * * * * *
21773796 CCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG
1 CCTGTATGTAGCAGCGGAGTAGATCGAAGATAGCAGATCTTATCTTCCTGTATCTGGCAGTGAAC
* * * * * *
21773861 TAGATTGAAGATAGCAGATCTTGTCTT
66 TAGATCGAAGACACCAGACCTTATCTC
* * * * * *
21773888 CCTGTATTTGGCAGTGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAG-CAGA
1 CCTGTATGTAGCAGCGGAGTAGATCGAAGATAGCAGATCTTATCTTCCTGTATCTGGCAGTGA-A
* * * * ** *
21773952 GTAGATCGAAGATAGCAGATCTTGCCTT
65 CTAGATCGAAGACACCAGACCTTATCTC
* * * * * * *
21773980 CCTGTATTTGGCAGTGAAGTAGATCGAAGATGGCAGATCTTATCTTCCTGTATTTGGCAGTGGAC
1 CCTGTATGTAGCAGCGGAGTAGATCGAAGATAGCAGATCTTATCTTCCTGTATCTGGCAGTGAAC
* * * * *
21774045 TAGATCGAAGATAGCAGATCTTGTCTT
66 TAGATCGAAGACACCAGACCTTATCTC
* * * * * * *
21774072 CCTGTATTTGGCAACAGAGTAGATCTAAGAGATAGCAGATCTTATCTTCCTGTATTTGGCAG-CA
1 CCTGTATGTAGCAGCGGAGTAGATC-GA-AGATAGCAGATCTTATCTTCCTGTATCTGGCAGTGA
* * * * * * *
21774136 GAGTAGATCTAAGATATAGCAGATCTTGTCTT
64 -ACTAGATCGAAG--ACACCAGACCTTATCTC
* * * *
21774168 CCTGTATTTGGCAGCGGAGTAGAGCGAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGTGAAC
1 CCTGTATGTAGCAGCGGAGTAGATCGAAGATAGCAGATCTTATCTTCCTGTATCTGGCAGTGAAC
* * * *
21774233 TAGATCGAAGATAGCAGATCTTATCTT
66 TAGATCGAAGACACCAGACCTTATCTC
* * * * *
21774260 CCTGTATTTGGCAGCAGAGTAGATCGAAGATAGCAGATCTTATCTTCTTGTA-CTGGCAGTGGAG
1 CCTGTATGTAGCAGCGGAGTAGATCGAAGATAGCAGATCTTATCTTCCTGTATCTGGCAGT-GAA
*
21774324 C-AGATTGAA-AGCACCAG-CCTTATCTC
65 CTAGATCGAAGA-CACCAGACCTTATCTC
* * *
21774350 CCTG-A-GTAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCT
1 CCTGTATGTAGCAGCGGAGTAGATCGAAGATAGCAGATCTTATCT
21774393 CCCTAAGGAG
Statistics
Matches: 449, Mismatches: 46, Indels: 24
0.87 0.09 0.05
Matches are distributed among these distances:
88 32 0.07
89 1 0.00
90 12 0.03
91 18 0.04
92 259 0.58
93 1 0.00
94 85 0.19
95 2 0.00
96 39 0.09
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (92 bp):
CCTGTATGTAGCAGCGGAGTAGATCGAAGATAGCAGATCTTATCTTCCTGTATCTGGCAGTGAAC
TAGATCGAAGACACCAGACCTTATCTC
Found at i:21774606 original size:19 final size:19
Alignment explanation
Indices: 21774582--21774621 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
21774572 GGCAGCAGTG
21774582 GAATAGATTGAAGATTACA
1 GAATAGATTGAAGATTACA
21774601 GAATAGATTGAAGATTACA
1 GAATAGATTGAAGATTACA
21774620 GA
1 GA
21774622 TCTTATCTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.23, T:0.25
Consensus pattern (19 bp):
GAATAGATTGAAGATTACA
Found at i:21774825 original size:43 final size:44
Alignment explanation
Indices: 21774775--21774882 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 44
21774765 CTAAGATTAC
* *
21774775 AGTGGAGTACATTGAAGCCGGTAG-TCCTATCTCCCTAAGTAGT
1 AGTGGAGTACATTGAAGACGGTAGATCCTATCTCCCTAAGCAGT
** ** *
21774818 AGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTACATTGAAGACGGTAGATCCTATCTCCCTAAGCAGT
* * *
21774862 AGTGGAGCAGATCGAAGACGG
1 AGTGGAGTACATTGAAGACGG
21774883 CGAATCTTAT
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
43 19 0.37
44 33 0.63
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (44 bp):
AGTGGAGTACATTGAAGACGGTAGATCCTATCTCCCTAAGCAGT
Found at i:21774958 original size:43 final size:43
Alignment explanation
Indices: 21774930--21775338 Score: 211
Period size: 43 Copynumber: 9.6 Consensus size: 43
21774920 AAGCCACTAG
21774930 CCTTATCTCCCTAAGTAGTAGTGGAGCAGACAAAAGAAACTGA
1 CCTTATCTCCCTAAGTAGTAGTGGAGCAGACAAAAGAAACTGA
* * * * **
21774973 TCTTATCTCCCTAAGCAGTAGTGGAGCGGATC-ACATCAA--G-
1 CCTTATCTCCCTAAGTAGTAGTGGAGCAGA-CAAAAGAAACTGA
* * * *
21775013 TCTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGA
1 CCTTATCTCCCTAAGTAGTAGTGGAGCAGACAAAAGAAACTGA
* * * * * **
21775056 TCTTATTTCCCTAAGCAGTAGTGGAGCGGATC-ACATCAA--G-
1 CCTTATCTCCCTAAGTAGTAGTGGAGCAGA-CAAAAGAAACTGA
* *
21775096 TCTTATCTCCCTAAGCACTAAGCAATAGTGGAGCAGACAAAAGAAACCGA
1 CCTTATCTCCCTAAG---T-AG---TAGTGGAGCAGACAAAAGAAACTGA
* * * * * **
21775146 TCTTATCTCCCTAAGCAGTAGTGAAGCGGATC-ACATCAA--G-
1 CCTTATCTCCCTAAGTAGTAGTGGAGCAGA-CAAAAGAAACTGA
* * * *
21775186 TCTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGA
1 CCTTATCTCCCTAAGTAGTAGTGGAGCAGACAAAAGAAACTGA
* * * * * **
21775229 TCTTATCTCCCTAAGCAGTAGTGAAGCGGATC-ACATCAA--G-
1 CCTTATCTCCCTAAGTAGTAGTGGAGCAGA-CAAAAGAAACTGA
* * * *
21775269 TCTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGA
1 CCTTATCTCCCTAAGTAGTAGTGGAGCAGACAAAAGAAACTGA
** *
21775312 TTTTATCTCCCTAAGCAGTAGTGGAGC
1 CCTTATCTCCCTAAGTAGTAGTGGAGC
21775339 GGATCACATC
Statistics
Matches: 290, Mismatches: 49, Indels: 54
0.74 0.12 0.14
Matches are distributed among these distances:
39 3 0.01
40 108 0.37
41 4 0.01
42 3 0.01
43 132 0.46
44 6 0.02
46 3 0.01
47 15 0.05
49 1 0.00
50 15 0.05
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.22
Consensus pattern (43 bp):
CCTTATCTCCCTAAGTAGTAGTGGAGCAGACAAAAGAAACTGA
Found at i:21775035 original size:83 final size:83
Alignment explanation
Indices: 21774931--21775390 Score: 785
Period size: 83 Copynumber: 5.5 Consensus size: 83
21774921 AGCCACTAGC
* * *
21774931 CTTATCTCCCTAAGTAGTAGTGGAGCAGACAAAAGAAACTGATCTTATCTCCCTAAGCAGTAGTG
1 CTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTG
21774996 GAGCGGATCACATCAAGT
66 GAGCGGATCACATCAAGT
*
21775014 CTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTATTTCCCTAAGCAGTAGTG
1 CTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTG
21775079 GAGCGGATCACATCAAGT
66 GAGCGGATCACATCAAGT
21775097 CTTATCTCCCTAAGCACTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAGC
1 CTTATCT--C----C-CTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAGC
*
21775162 AGTAGTGAAGCGGATCACATCAAGT
59 AGTAGTGGAGCGGATCACATCAAGT
21775187 CTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTG
1 CTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTG
*
21775252 AAGCGGATCACATCAAGT
66 GAGCGGATCACATCAAGT
*
21775270 CTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGATTTTATCTCCCTAAGCAGTAGTG
1 CTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTG
21775335 GAGCGGATCACATCAAGT
66 GAGCGGATCACATCAAGT
*
21775353 CTTATCTCCCTAAGCAATAGTGGAGCAGACGAAAGAAA
1 CTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAA
21775391 ATGATGAATC
Statistics
Matches: 361, Mismatches: 9, Indels: 14
0.94 0.02 0.04
Matches are distributed among these distances:
83 278 0.77
84 1 0.00
85 1 0.00
88 1 0.00
89 1 0.00
90 79 0.22
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (83 bp):
CTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTG
GAGCGGATCACATCAAGT
Found at i:21775150 original size:173 final size:166
Alignment explanation
Indices: 21774931--21775390 Score: 785
Period size: 173 Copynumber: 2.7 Consensus size: 166
21774921 AGCCACTAGC
* * *
21774931 CTTATCTCCCTAAGTAGTAGTGGAGCAGACAAAAGAAACTGATCTTATCTCCCTAAGCAGTAGTG
1 CTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTG
21774996 GAGCGGATCACATCAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTA
66 GAGCGGATCACATCAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTA
* *
21775061 TTTCCCTAAGCAGTAGTGGAGCGGATCACATCAAGT
131 TCTCCCTAAGCAGTAGTGAAGCGGATCACATCAAGT
21775097 CTTATCTCCCTAAGCACTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAGC
1 CTTATCT--C----C-CTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAGC
*
21775162 AGTAGTGAAGCGGATCACATCAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACC
59 AGTAGTGGAGCGGATCACATCAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACC
21775227 GATCTTATCTCCCTAAGCAGTAGTGAAGCGGATCACATCAAGT
124 GATCTTATCTCCCTAAGCAGTAGTGAAGCGGATCACATCAAGT
*
21775270 CTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGATTTTATCTCCCTAAGCAGTAGTG
1 CTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTG
*
21775335 GAGCGGATCACATCAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGACGAAAGAAA
66 GAGCGGATCACATCAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAA
21775391 ATGATGAATC
Statistics
Matches: 278, Mismatches: 9, Indels: 14
0.92 0.03 0.05
Matches are distributed among these distances:
166 116 0.42
167 1 0.00
168 1 0.00
171 1 0.00
172 1 0.00
173 158 0.57
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (166 bp):
CTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTG
GAGCGGATCACATCAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAACCGATCTTA
TCTCCCTAAGCAGTAGTGAAGCGGATCACATCAAGT
Found at i:21777960 original size:16 final size:16
Alignment explanation
Indices: 21777922--21777965 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
21777912 TTACATACTT
* *
21777922 ATACATATATGTATAT
1 ATACATATATATATAC
* *
21777938 TTTCATATATATATAC
1 ATACATATATATATAC
21777954 ATACATATATAT
1 ATACATATATAT
21777966 TTACTTACTC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.45
Consensus pattern (16 bp):
ATACATATATATATAC
Found at i:21779926 original size:45 final size:44
Alignment explanation
Indices: 21779856--21780196 Score: 230
Period size: 45 Copynumber: 7.6 Consensus size: 44
21779846 TAAAATCTGT
* * *
21779856 CACTGGGCTGTGGATACACAACAAAAATTCTCAGATTAAACTTGC
1 CACTAGGCTGTGGATACACAGCAAAAATTCT-AGATGAAACTTGC
* * *
21779901 CACT-GGACTGTGGGTACATAGC-AAAATATCATAGATAAAAGC-TGC
1 CACTAGG-CTGTGGATACACAGCAAAAAT-TC-TAGATGAAA-CTTGC
* * *
21779946 CACTAGGCTATAGATACACAGCAAAAATTCATAGATGAAACCTGC
1 CACTAGGCTGTGGATACACAGCAAAAATTC-TAGATGAAACTTGC
* * * * *
21779991 CACT-GGACTGTGGATGCACAACAAAATATTGCT-GATAAAATTTGT
1 CACTAGG-CTGTGGATACACAGCAAAA-ATT-CTAGATGAAACTTGC
* * * *
21780036 CACTAGGCTATGGATACATAGTAAAAATTCGTAGATGATACTTGC
1 CACTAGGCTGTGGATACACAGCAAAAATTC-TAGATGAAACTTGC
* * * * *
21780081 CACTAGACTATTGG-TACACAAC-AAAATATCACAGAT-AAAATATGC
1 CACTAGGCT-GTGGATACACAGCAAAAAT-TC-TAGATGAAACT-TGC
* * * *
21780126 CATTAGGTTGTGGATACACAGCAAAAATTCGCAGATGAAACTTGT
1 CACTAGGCTGTGGATACACAGCAAAAATTC-TAGATGAAACTTGC
* *
21780171 CACTAGGCTGTGGGTACACAACAAAA
1 CACTAGGCTGTGGATACACAGCAAAA
21780197 TATCGAAGAT
Statistics
Matches: 230, Mismatches: 47, Indels: 38
0.73 0.15 0.12
Matches are distributed among these distances:
43 1 0.00
44 25 0.11
45 176 0.77
46 27 0.12
47 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (44 bp):
CACTAGGCTGTGGATACACAGCAAAAATTCTAGATGAAACTTGC
Found at i:21780127 original size:135 final size:133
Alignment explanation
Indices: 21779843--21780210 Score: 345
Period size: 135 Copynumber: 2.7 Consensus size: 133
21779833 CTAATTTTAT
* * *
21779843 AGATAAAATCTGTCACTGGGCTGTGGATACACAACAAAAATT-CTCAGATTAAACTTGCCACT-G
1 AGATAAAATCTGCCACT-GGCTGTGGATACACAACAAAAATTGCT--GATAAAACTTGTCACTAG
* * *
21779906 GACTGTGGGTACATAGCAAAATATCATAGATAAAAGCTGCCACTAGGCTATAGATACACAGCAAA
63 G-CTGTGGGTACATAGAAAAATATCATAGATAAAAGCTGCCACTAGACTATAGATACACAACAAA
*
21779971 AATTCAT
127 AATTCAC
* * * *
21779978 AGATGAAACCTGCCACTGGACTGTGGATGCACAACAAAATATTGCTGATAAAATTTGTCACTAGG
1 AGATAAAATCTGCCACTGG-CTGTGGATACACAACAAAA-ATTGCTGATAAAACTTGTCACTAGG
* * * * * * *
21780043 CTATGGATACATAGTAAAAAT-TCGTAGATGATA-CTTGCCACTAGACTATTGGTACACAAC-AA
64 CTGTGGGTACATAG-AAAAATATCATAGATAAAAGC-TGCCACTAGACTATAGATACACAACAAA
21780105 AATATCAC
127 AAT-TCAC
* * * * * *
21780113 AGATAAAATATGCCATTAGGTTGTGGATACACAGCAAAAATTCGCAGATGAAACTTGTCACTAGG
1 AGATAAAATCTGCCACT-GGCTGTGGATACACAACAAAAATT-GCTGATAAAACTTGTCACTAGG
*
21780178 CTGTGGGTACACA-ACAAAATATCGA-AGATAAAA
64 CTGTGGGTACATAGA-AAAATATC-ATAGATAAAA
21780211 TCTGTCATTG
Statistics
Matches: 187, Mismatches: 34, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
133 1 0.01
134 16 0.09
135 156 0.83
136 12 0.06
137 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (133 bp):
AGATAAAATCTGCCACTGGCTGTGGATACACAACAAAAATTGCTGATAAAACTTGTCACTAGGCT
GTGGGTACATAGAAAAATATCATAGATAAAAGCTGCCACTAGACTATAGATACACAACAAAAATT
CAC
Found at i:21780226 original size:90 final size:90
Alignment explanation
Indices: 21779843--21780217 Score: 421
Period size: 90 Copynumber: 4.2 Consensus size: 90
21779833 CTAATTTTAT
* * * *
21779843 AGATAAAATCTGTCACTGGGCTGTGGATACACAACAAAAATTCTCAGATTAAACTTGCCACTGGA
1 AGATAAAATCTGTCACTAGGCTGTGGATACACAGCAAAAATTCGCAGATGAAACTTGCCACTGGA
* * *
21779908 CTGTGGGTACATAGCAAAATATCAT
66 CTGTGGGTACACAACAAAATATCAC
* * * * ** *
21779933 AGATAAAAGCTGCCACTAGGCTATAGATACACAGCAAAAATTCATAGATGAAACCTGCCACTGGA
1 AGATAAAATCTGTCACTAGGCTGTGGATACACAGCAAAAATTCGCAGATGAAACTTGCCACTGGA
* * **
21779998 CTGTGGATGCACAACAAAATATTGC
66 CTGTGGGTACACAACAAAATATCAC
* * * * * * * *
21780023 TGATAAAATTTGTCACTAGGCTATGGATACATAGTAAAAATTCGTAGATGATACTTGCCACTAGA
1 AGATAAAATCTGTCACTAGGCTGTGGATACACAGCAAAAATTCGCAGATGAAACTTGCCACTGGA
* *
21780088 CTATTGGTACACAACAAAATATCAC
66 CTGTGGGTACACAACAAAATATCAC
* * * * *
21780113 AGATAAAATATGCCATTAGGTTGTGGATACACAGCAAAAATTCGCAGATGAAACTTGTCACTAGG
1 AGATAAAATCTGTCACTAGGCTGTGGATACACAGCAAAAATTCGCAGATGAAACTTGCCACT-GG
21780178 -CTGTGGGTACACAACAAAATATCGA-
65 ACTGTGGGTACACAACAAAATATC-AC
21780203 AGATAAAATCTGTCA
1 AGATAAAATCTGTCA
21780218 TTGGGTTGTA
Statistics
Matches: 233, Mismatches: 50, Indels: 4
0.81 0.17 0.01
Matches are distributed among these distances:
90 231 0.99
91 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (90 bp):
AGATAAAATCTGTCACTAGGCTGTGGATACACAGCAAAAATTCGCAGATGAAACTTGCCACTGGA
CTGTGGGTACACAACAAAATATCAC
Found at i:21780236 original size:45 final size:45
Alignment explanation
Indices: 21780095--21780238 Score: 141
Period size: 45 Copynumber: 3.2 Consensus size: 45
21780085 AGACTATTGG
* *
21780095 TACACAACAAAATATC-ACAGATAAAATATGCCATTAGGTTGTGGA
1 TACACAACAAAATATCGA-AGATAAAATCTGTCATTAGGTTGTGGA
* * * * * *
21780140 TACACAGCAAAA-ATTCGCAGATGAAA-CTTGTCACTAGGCTGTGGG
1 TACACAACAAAATA-TCGAAGATAAAATC-TGTCATTAGGTTGTGGA
* *
21780185 TACACAACAAAATATCGAAGATAAAATCTGTCATTGGGTTGTAGA
1 TACACAACAAAATATCGAAGATAAAATCTGTCATTAGGTTGTGGA
*
21780230 TGCACAACA
1 TACACAACA
21780239 TATTTGTAGG
Statistics
Matches: 77, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
44 1 0.01
45 74 0.96
46 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (45 bp):
TACACAACAAAATATCGAAGATAAAATCTGTCATTAGGTTGTGGA
Found at i:21780833 original size:28 final size:28
Alignment explanation
Indices: 21780785--21781001 Score: 226
Period size: 28 Copynumber: 7.8 Consensus size: 28
21780775 AATTTTGAGC
21780785 AAAACTATAAAATCTAAAAAAATAGGGGA
1 AAAACTATAAAATCT-AAAAAATAGGGGA
*
21780814 AAAACTATAAAATCTAAAAAATAGGGGC
1 AAAACTATAAAATCTAAAAAATAGGGGA
* *
21780842 AAAATTATAAAATCTAAAAAA-ATGGGA
1 AAAACTATAAAATCTAAAAAATAGGGGA
* ** * *
21780869 AAAATTATAAAATCTAAAAGTTAAGGGT
1 AAAACTATAAAATCTAAAAAATAGGGGA
* *
21780897 AAAACTATAAAATCTAGAAAATATGGGA
1 AAAACTATAAAATCTAAAAAATAGGGGA
* * * *
21780925 AAAATTGTAAAAT-TAAAAAAAAGGAG-
1 AAAACTATAAAATCTAAAAAATAGGGGA
* *
21780951 AAAACTGTAAAATTTAAAAAATA-GGGA
1 AAAACTATAAAATCTAAAAAATAGGGGA
* *
21780978 CAAAATTATAAAATCTGAAAAATA
1 -AAAACTATAAAATCTAAAAAATA
21781002 AGAAACATAC
Statistics
Matches: 157, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
26 14 0.09
27 40 0.25
28 88 0.56
29 15 0.10
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.22
Consensus pattern (28 bp):
AAAACTATAAAATCTAAAAAATAGGGGA
Found at i:21780884 original size:55 final size:56
Alignment explanation
Indices: 21780783--21781001 Score: 259
Period size: 55 Copynumber: 3.9 Consensus size: 56
21780773 AAAATTTTGA
*
21780783 GCAAAACTATAAAATCTAAAAAAATAGGGGAAAAACTATAAAATCTAAAAAATAGGG
1 GCAAAACTATAAAATCTAAAAAAATA-GGGAAAAATTATAAAATCTAAAAAATAGGG
* ** *
21780840 GCAAAATTATAAAATCTAAAAAAAT-GGGAAAAATTATAAAATCTAAAAGTTAAGG
1 GCAAAACTATAAAATCTAAAAAAATAGGGAAAAATTATAAAATCTAAAAAATAGGG
* * * * *
21780895 GTAAAACTATAAAATCT-AGAAAATATGGGAAAAATTGTAAAAT-TAAAAAAAAGGA
1 GCAAAACTATAAAATCTAAAAAAATA-GGGAAAAATTATAAAATCTAAAAAATAGGG
* * *
21780950 G-AAAACTGTAAAAT-TTAAAAAATAGGGACAAAATTATAAAATCTGAAAAATA
1 GCAAAACTATAAAATCTAAAAAAATAGGGA-AAAATTATAAAATCTAAAAAATA
21781002 AGAAACATAC
Statistics
Matches: 138, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
53 5 0.04
54 37 0.27
55 56 0.41
56 16 0.12
57 24 0.17
ACGTcount: A:0.59, C:0.06, G:0.13, T:0.21
Consensus pattern (56 bp):
GCAAAACTATAAAATCTAAAAAAATAGGGAAAAATTATAAAATCTAAAAAATAGGG
Found at i:21780918 original size:83 final size:84
Alignment explanation
Indices: 21780785--21781001 Score: 255
Period size: 83 Copynumber: 2.6 Consensus size: 84
21780775 AATTTTGAGC
* *
21780785 AAAACTATAAAATCTAAAAAAATAGGGGAAAAACTATAAAATCTAAAAAATAGGGGCAAAATTAT
1 AAAACTATAAAATCTAAAAAAATAAGGGAAAAACTATAAAATCTAAAAAATAGGGGAAAAATTAT
*
21780850 AAAATCTAAAAAAATGG-GA
66 AAAAT-TAAAAAAAAGGAGA
* ** * * * *
21780869 AAAATTATAAAATCT-AAAAGTTAAGGGTAAAACTATAAAATCTAGAAAATATGGGAAAAATTGT
1 AAAACTATAAAATCTAAAAAAATAAGGGAAAAACTATAAAATCTAAAAAATAGGGGAAAAATTAT
21780933 AAAATTAAAAAAAAGGAG-
66 AAAATTAAAAAAAAGGAGA
* * * *
21780951 AAAACTGTAAAAT-TTAAAAAAT-AGGGACAAAATTATAAAATCTGAAAAATA
1 AAAACTATAAAATCTAAAAAAATAAGGGA-AAAACTATAAAATCTAAAAAATA
21781002 AGAAACATAC
Statistics
Matches: 112, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
81 5 0.04
82 46 0.41
83 47 0.42
84 14 0.12
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.22
Consensus pattern (84 bp):
AAAACTATAAAATCTAAAAAAATAAGGGAAAAACTATAAAATCTAAAAAATAGGGGAAAAATTAT
AAAATTAAAAAAAAGGAGA
Found at i:21786876 original size:12 final size:12
Alignment explanation
Indices: 21786853--21786887 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
21786843 ACTTTAATCT
21786853 TTTTTATTATTG
1 TTTTTATTATTG
21786865 TTATTT-TTATTG
1 TT-TTTATTATTG
21786877 TTTTTATTATT
1 TTTTTATTATT
21786888 ACTTTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.14
12 15 0.71
13 3 0.14
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (12 bp):
TTTTTATTATTG
Found at i:21786895 original size:11 final size:10
Alignment explanation
Indices: 21786865--21786915 Score: 54
Period size: 9 Copynumber: 5.2 Consensus size: 10
21786855 TTTATTATTG
21786865 TTATT-TTTA
1 TTATTCTTTA
*
21786874 TTGTT-TTTA
1 TTATTCTTTA
21786883 TTATTACTTTA
1 TTATT-CTTTA
21786894 TTATTC-TTA
1 TTATTCTTTA
21786903 TTATTCTTGTA
1 TTATTCTT-TA
21786914 TT
1 TT
21786916 TCTTACTAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
9 21 0.58
10 2 0.06
11 13 0.36
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.71
Consensus pattern (10 bp):
TTATTCTTTA
Found at i:21786895 original size:20 final size:20
Alignment explanation
Indices: 21786870--21786907 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21786860 TATTGTTATT
* *
21786870 TTTATTGTTTTTATTATTAC
1 TTTATTATTCTTATTATTAC
21786890 TTTATTATTCTTATTATT
1 TTTATTATTCTTATTATT
21786908 CTTGTATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTATTATTCTTATTATTAC
Found at i:21786960 original size:3 final size:3
Alignment explanation
Indices: 21786952--21786981 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
21786942 ATTAGGTTTC
21786952 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21786982 CGTATTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:21788499 original size:12 final size:12
Alignment explanation
Indices: 21788479--21788520 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
21788469 TATTTCATGT
*
21788479 TTATGTTTATTG
1 TTATTTTTATTG
21788491 TTATTTTTA--G
1 TTATTTTTATTG
*
21788501 TTCTTTTTATTG
1 TTATTTTTATTG
21788513 TTATTTTT
1 TTATTTTT
21788521 TTAGACTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
10 9 0.36
12 16 0.64
ACGTcount: A:0.14, C:0.02, G:0.10, T:0.74
Consensus pattern (12 bp):
TTATTTTTATTG
Found at i:21794016 original size:21 final size:20
Alignment explanation
Indices: 21793991--21794061 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
21793981 AGTTTATTTC
21793991 ATTAAGCTTATTTATATTTTA
1 ATTAAGCTTATTT-TATTTTA
* * *
21794012 ATTAATCATGTTTTAGTTTTA
1 ATTAAGCTTATTTTA-TTTTA
* * *
21794033 ATTAATCTTAATTTA-CTTA
1 ATTAAGCTTATTTTATTTTA
21794052 ATTAAGCTTA
1 ATTAAGCTTA
21794062 ATTGTTAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 12 0.29
20 2 0.05
21 27 0.66
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.54
Consensus pattern (20 bp):
ATTAAGCTTATTTTATTTTA
Found at i:21794475 original size:57 final size:57
Alignment explanation
Indices: 21794406--21794517 Score: 179
Period size: 57 Copynumber: 2.0 Consensus size: 57
21794396 TTACGTTATT
**
21794406 TGAGAATTTACAATTCTGAAAGTTAGAATATGAAAGTTTAACTATTCAAAAATCATA
1 TGAGAATTTACAATTCTGAAAAATAGAATATGAAAGTTTAACTATTCAAAAATCATA
* * *
21794463 TGAGAATTTACAATTTTGAAAAATAGAATATGAAAGTTTTACTGTTCAAAAATCA
1 TGAGAATTTACAATTCTGAAAAATAGAATATGAAAGTTTAACTATTCAAAAATCA
21794518 AGGACTAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (57 bp):
TGAGAATTTACAATTCTGAAAAATAGAATATGAAAGTTTAACTATTCAAAAATCATA
Found at i:21794515 original size:29 final size:29
Alignment explanation
Indices: 21794429--21794515 Score: 74
Period size: 29 Copynumber: 3.0 Consensus size: 29
21794419 TTCTGAAAGT
*
21794429 TAGAATATGAAAGTTTAACTATTCAAAAA
1 TAGAATATGAAAGTTTTACTATTCAAAAA
* * *
21794458 T--CATATGAGAA--TTTACAATTTTGAAAAA
1 TAGAATATGA-AAGTTTTAC--TATTCAAAAA
*
21794486 TAGAATATGAAAGTTTTACTGTTCAAAAA
1 TAGAATATGAAAGTTTTACTATTCAAAAA
21794515 T
1 T
21794516 CAAGGACTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
26 4 0.09
27 6 0.14
28 11 0.25
29 12 0.27
30 6 0.14
31 5 0.11
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.34
Consensus pattern (29 bp):
TAGAATATGAAAGTTTTACTATTCAAAAA
Found at i:21794945 original size:37 final size:37
Alignment explanation
Indices: 21794902--21794972 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
21794892 TTGGATAATG
* *
21794902 ATTTTCTTTAGTAATTTATTTTCCACCAAACAAAATA
1 ATTTTCTTTAATAATTCATTTTCCACCAAACAAAATA
21794939 ATTTTCTTTAATAATTCATTTTCCACCAAACAAA
1 ATTTTCTTTAATAATTCATTTTCCACCAAACAAA
21794973 CATACCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.18, G:0.01, T:0.42
Consensus pattern (37 bp):
ATTTTCTTTAATAATTCATTTTCCACCAAACAAAATA
Found at i:21795459 original size:25 final size:26
Alignment explanation
Indices: 21795405--21795459 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
21795395 CGGCCCGTTT
* *
21795405 TTAATTAAAATTAAAATTAAATTTTT
1 TTAATTAAAATTAAAACTAAATTTTA
21795431 TTAA-TAAAATTAAAACT-AATTGTTA
1 TTAATTAAAATTAAAACTAAATT-TTA
21795456 TTAA
1 TTAA
21795460 AATTAATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
TTAATTAAAATTAAAACTAAATTTTA
Found at i:21795478 original size:16 final size:16
Alignment explanation
Indices: 21795441--21795480 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
21795431 TTAATAAAAT
* *
21795441 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
21795457 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
21795473 TAAAATTA
1 TAAAATTA
21795481 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:21795553 original size:66 final size:67
Alignment explanation
Indices: 21795469--21795611 Score: 252
Period size: 68 Copynumber: 2.1 Consensus size: 67
21795459 AAATTAATTG
*
21795469 TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
21795533 GA
66 GA
*
21795535 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
21795600 TGA
65 TGA
21795603 TTAGTAAAA
1 TTAGTAAAA
21795612 CAAACTTGAT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
66 26 0.36
68 46 0.64
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (67 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
GA
Found at i:21795565 original size:9 final size:9
Alignment explanation
Indices: 21795553--21795580 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
21795543 TTTATCAAAT
21795553 TATTAATTG
1 TATTAATTG
21795562 TATTAATTG
1 TATTAATTG
21795571 TATTAATTG
1 TATTAATTG
21795580 T
1 T
21795581 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:21800138 original size:18 final size:18
Alignment explanation
Indices: 21800105--21800140 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21800095 TTACTTGACT
*
21800105 TGCCCGTGTGATCACACA
1 TGCCCGTGTGACCACACA
*
21800123 TGCCCGTGTGCCCACACA
1 TGCCCGTGTGACCACACA
21800141 AACTACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.39, G:0.22, T:0.19
Consensus pattern (18 bp):
TGCCCGTGTGACCACACA
Found at i:21802581 original size:49 final size:50
Alignment explanation
Indices: 21802522--21802626 Score: 151
Period size: 49 Copynumber: 2.1 Consensus size: 50
21802512 CGTGGCCGTA
* * *
21802522 TGGGCCACACGGGCTAGGCCAGAT-TGGGCGTGTAGG-GCACACAGGCATG
1 TGGGCCACACGGGCAAGGCCA-ATCTGGGCGTGTAGGCCCACACAAGCATG
*
21802571 TGGGCTACACGGGCAAGGCCAATCTGGGCGTGTAGGCCCACACAAGCATG
1 TGGGCCACACGGGCAAGGCCAATCTGGGCGTGTAGGCCCACACAAGCATG
21802621 TGGGCC
1 TGGGCC
21802627 CAAAATTTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
48 2 0.04
49 31 0.63
50 16 0.33
ACGTcount: A:0.21, C:0.27, G:0.38, T:0.14
Consensus pattern (50 bp):
TGGGCCACACGGGCAAGGCCAATCTGGGCGTGTAGGCCCACACAAGCATG
Found at i:21809705 original size:32 final size:32
Alignment explanation
Indices: 21809651--21809733 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
21809641 TGAGTGTGGC
* * *
21809651 CGTGT-GGCCACACAGGCTAGGCCAGAT-TTAG
1 CGTGTGGGCCACACGGGCAAGGCCA-ATCTCAG
* *
21809682 CGTGTGGGCCACATGGGCAAGGCCAATCTCGG
1 CGTGTGGGCCACACGGGCAAGGCCAATCTCAG
21809714 CGTGTGGGCACACACGGGCA
1 CGTGTGGGC-CACACGGGCA
21809734 TGTTGGCCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
31 7 0.16
32 27 0.63
33 9 0.21
ACGTcount: A:0.20, C:0.28, G:0.36, T:0.16
Consensus pattern (32 bp):
CGTGTGGGCCACACGGGCAAGGCCAATCTCAG
Found at i:21811127 original size:40 final size:40
Alignment explanation
Indices: 21811072--21811195 Score: 203
Period size: 40 Copynumber: 3.1 Consensus size: 40
21811062 TGTTATACTC
21811072 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* * *
21811112 TCTGTCTAGTGTGTTTCAGTTGGATTAGCTCCTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* *
21811152 TCTGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCA
1 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
21811192 TCTG
1 TCTG
21811196 GTGTGTTTTG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.12, C:0.17, G:0.28, T:0.43
Consensus pattern (40 bp):
TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
Found at i:21811203 original size:36 final size:36
Alignment explanation
Indices: 21811076--21811209 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 36
21811066 ATACTCTCTG
*
21811076 TCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
1 TCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCA
* * *
21811112 TCTGTCTAGTGTGTTTCAGTTGGATTAGCTCCTATGAGCTTCTG
1 TCTG----GTGTGTTTCGGTTGGATTAGCTCTTATGAG---C-A
*
21811156 TCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCA
1 TCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCA
*
21811192 TCTGGTGTGTTTTGGTTG
1 TCTGGTGTGTTTCGGTTG
21811210 ATCTGACGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
36 21 0.26
37 1 0.01
40 55 0.67
43 1 0.01
44 4 0.05
ACGTcount: A:0.11, C:0.15, G:0.30, T:0.44
Consensus pattern (36 bp):
TCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCA
Found at i:21812015 original size:32 final size:32
Alignment explanation
Indices: 21811979--21812041 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
21811969 GTGTGGGTCG
*
21811979 CACGGGCT-AGGCCAGAT-TGGGTGGGTGGGCCA
1 CACGGG-TAAGGCCA-ATCTGGGTAGGTGGGCCA
*
21812011 CACGGGTAAGGCCAATCTGGGTATGTGGGCC
1 CACGGGTAAGGCCAATCTGGGTAGGTGGGCC
21812042 CGTAATTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 3 0.11
32 24 0.89
ACGTcount: A:0.17, C:0.22, G:0.43, T:0.17
Consensus pattern (32 bp):
CACGGGTAAGGCCAATCTGGGTAGGTGGGCCA
Found at i:21822631 original size:15 final size:16
Alignment explanation
Indices: 21822611--21822644 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
21822601 GGTAATTGAC
21822611 AAAAAAAGA-AAAAAG
1 AAAAAAAGAGAAAAAG
*
21822626 AAAAAAAGAGAGAAAG
1 AAAAAAAGAGAAAAAG
21822642 AAA
1 AAA
21822645 TAAATGGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAGAAAAAG
Found at i:21822641 original size:16 final size:16
Alignment explanation
Indices: 21822611--21822662 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
21822601 GGTAATTGAC
*
21822611 AAAAAAAGA-AAAAAG
1 AAAAAAAGAGAGAAAG
21822626 AAAAAAAGAGAGAAAG
1 AAAAAAAGAGAGAAAG
* *
21822642 AAATAAATG-GAGACAG
1 AAA-AAAAGAGAGAAAG
21822658 AAAAA
1 AAAAA
21822663 TAAAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 11 0.34
16 17 0.53
17 4 0.12
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (16 bp):
AAAAAAAGAGAGAAAG
Found at i:21823111 original size:34 final size:34
Alignment explanation
Indices: 21823051--21823116 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
21823041 TCCTATAAAT
* *
21823051 AATCCTTATTATAATAAAGTCCAATTAGCATAGA
1 AATCCTTATTATAAAAAAATCCAATTAGCATAGA
*
21823085 AATCCTTA-TACTAAAAAAATCTAATTAGCATA
1 AATCCTTATTA-TAAAAAAATCCAATTAGCATA
21823117 AATTGTAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 2 0.07
34 26 0.93
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (34 bp):
AATCCTTATTATAAAAAAATCCAATTAGCATAGA
Found at i:21826698 original size:63 final size:64
Alignment explanation
Indices: 21826581--21826703 Score: 167
Period size: 63 Copynumber: 1.9 Consensus size: 64
21826571 GCTGTGTGTT
* *
21826581 AGGCTGTGTAACTCACTATTTTGGAATTAGAGTCACACAGGCTAGAAACACAGG-CATGTGTCC
1 AGGCCGTGTAACTCACTATTTTGGAATTAGAGTCACACAGGCCAGAAACACAGGCCATGTGTCC
* ** ** *
21826644 AGGCCGTGTGACTCACTATTTTGGAATTAGAGTCACATGGGCCAGCCACCCAGGCCATGT
1 AGGCCGTGTAACTCACTATTTTGGAATTAGAGTCACACAGGCCAGAAACACAGGCCATGT
21826704 CAATCCACAC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
63 46 0.90
64 5 0.10
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (64 bp):
AGGCCGTGTAACTCACTATTTTGGAATTAGAGTCACACAGGCCAGAAACACAGGCCATGTGTCC
Found at i:21827077 original size:76 final size:76
Alignment explanation
Indices: 21826948--21827096 Score: 271
Period size: 76 Copynumber: 2.0 Consensus size: 76
21826938 TAAGGTATGT
*
21826948 TGTTGACACTATTTTTTGATAAAACGGGGTCAACTTGGGTTTTGAAAAATGAAAACGAAAGTGGG
1 TGTTGACACCATTTTTTGATAAAACGGGGTCAACTTGGGTTTTGAAAAATGAAAACGAAAGTGGG
21827013 AGTCGCCAAGC
66 AGTCGCCAAGC
* *
21827024 TGTTGACACCATTTTTTGATAAAACGGGGTCGACTTGGGTTTTGAAAATTGAAAACGAAAGTGGG
1 TGTTGACACCATTTTTTGATAAAACGGGGTCAACTTGGGTTTTGAAAAATGAAAACGAAAGTGGG
21827089 AGTCGCCA
66 AGTCGCCA
21827097 CCAATCCTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (76 bp):
TGTTGACACCATTTTTTGATAAAACGGGGTCAACTTGGGTTTTGAAAAATGAAAACGAAAGTGGG
AGTCGCCAAGC
Found at i:21827538 original size:109 final size:109
Alignment explanation
Indices: 21827365--21827703 Score: 556
Period size: 109 Copynumber: 3.1 Consensus size: 109
21827355 TGGATTAAGA
* *
21827365 TTTAAGAGGATATTTGGCTATTTGGTCGAACGAG--AAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCAAGCACATTAGGGCACGT
* *
21827428 TTTCTCGAATTTCCAAACGTAAAACATTGCCTTATTGTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* *
21827472 TTTAAAAGGATATTTGACTATTTGGTCGAACGAGAAAAATCGAAACCTAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCAAGCACATTAGGGCACGT
21827537 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* * *
21827581 TTTAAAACGATATTTGGCTATTTGGTCGAATGAGAAAAATCGAAACCAAGCATATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCAAGCACATTAGGGCACGT
* * *
21827646 TTTCTCGAATTTTCAAACGCAAAATATTGCCTTATTTTAAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
21827690 TTTAAAAGGATATT
1 TTTAAAAGGATATT
21827704 AGTATGCATA
Statistics
Matches: 216, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
107 32 0.15
109 184 0.85
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (109 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCAAGCACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
Found at i:21834554 original size:76 final size:76
Alignment explanation
Indices: 21834463--21834624 Score: 315
Period size: 76 Copynumber: 2.1 Consensus size: 76
21834453 CTTCCCCAGT
21834463 GGAGTCGCCAAGCTGTTGACACCATTTTTTGATAAAACGGGGTCGACTTGGGTTTTGAAAAATGA
1 GGAGTCGCCAAGCTGTTGACACCATTTTTTGATAAAACGGGGTCGACTTGGGTTTTGAAAAATGA
21834528 AAACGAAAGTG
66 AAACGAAAGTG
21834539 GGAGTCGCCAAGCTGTTGACACCATTTTTTGATAAAACGGGGTCGACTTGGGTTTTGAAAAATGA
1 GGAGTCGCCAAGCTGTTGACACCATTTTTTGATAAAACGGGGTCGACTTGGGTTTTGAAAAATGA
21834604 AAACGAAAGTG
66 AAACGAAAGTG
*
21834615 GAAGTCGCCA
1 GGAGTCGCCA
21834625 CTAATCCTTT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 85 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (76 bp):
GGAGTCGCCAAGCTGTTGACACCATTTTTTGATAAAACGGGGTCGACTTGGGTTTTGAAAAATGA
AAACGAAAGTG
Found at i:21835869 original size:26 final size:26
Alignment explanation
Indices: 21835840--21835890 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
21835830 AATAAAGAAA
21835840 TGTAAAGGATTAAATTGTGACACGCG
1 TGTAAAGGATTAAATTGTGACACGCG
*
21835866 TGTAAAGGATTAAATTTTGACACGC
1 TGTAAAGGATTAAATTGTGACACGC
21835891 ACAAAAGGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (26 bp):
TGTAAAGGATTAAATTGTGACACGCG
Found at i:21837726 original size:26 final size:26
Alignment explanation
Indices: 21837694--21837753 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
21837684 TCTTCTATTT
21837694 TGTTATACGATCGTTATGAAAATCTA
1 TGTTATACGATCGTTATGAAAATCTA
*
21837720 TGTTATACGATCGTTATGAAAATCTC
1 TGTTATACGATCGTTATGAAAATCTA
*
21837746 TGTGATAC
1 TGTTATAC
21837754 TCTGATTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (26 bp):
TGTTATACGATCGTTATGAAAATCTA
Found at i:21852802 original size:21 final size:22
Alignment explanation
Indices: 21852767--21852819 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
21852757 TCAAATAAAA
* *
21852767 TAATAATATTTATATTTATTAT
1 TAATAATATTAATATATATTAT
*
21852789 TAAT-ATATTAATATATATTTT
1 TAATAATATTAATATATATTAT
21852810 TCAATAATAT
1 T-AATAATAT
21852820 ATTAAGAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 15 0.58
22 7 0.27
23 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAATATTAATATATATTAT
Found at i:21852956 original size:13 final size:15
Alignment explanation
Indices: 21852922--21852958 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
21852912 TGTATATTTA
*
21852922 ATAATATTGAATATT
1 ATAATATTTAATATT
21852937 ATAATATTTAAT-TT
1 ATAATATTTAATATT
21852951 -TAATATTT
1 ATAATATTT
21852959 TAACATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.38
14 2 0.10
15 11 0.52
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
ATAATATTTAATATT
Found at i:21852957 original size:21 final size:19
Alignment explanation
Indices: 21852931--21852974 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
21852921 AATAATATTG
*
21852931 AATATTATAATATTTAATTTT
1 AATATTATAACATTT--TTTT
*
21852952 AATATTTTAACATTTTTTT
1 AATATTATAACATTTTTTT
21852971 AATA
1 AATA
21852975 AAATATCTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
21 13 0.62
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
AATATTATAACATTTTTTT
Found at i:21854862 original size:114 final size:114
Alignment explanation
Indices: 21854730--21855102 Score: 457
Period size: 114 Copynumber: 3.3 Consensus size: 114
21854720 CGTTTTTAAA
* *
21854730 AAAACGCCGTAAAAGAACA-TCATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCA
1 AAAACGCCGCAAAAGAACAGT-ATTAGTGGCGTTTATTTATAAGCGCCGCAAAATACCTTAACCA
* * *
21854794 AAACGCAGCGTTTCGTTTTGAGGTATATTAGAATTCGTGGCGTTTACGAT
65 AAACGCAACGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
* ** * *
21854844 AAAACGCCGCAAAAGAACAGTATTAGCGGCGTATTA-CAAAAAGCGCCGC-AAATATCTTAACCA
1 AAAACGCCGCAAAAGAACAGTATTAGTGGCGT-TTATTTATAAGCGCCGCAAAATACCTTAACCA
* * * ** * *** *
21854907 AAACGCACCGTTTGGTCTTGAGGTAGATTAGTGTTTGTGGCGTTTTTAAA
65 AAACGCAACGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
* * *
21854957 AAAACGCCGTAAAAGAACA-TCGTTAGTGGCGTTTATTTTTAAGCGCCGCAAAATACCTTAACCA
1 AAAACGCCGCAAAAGAACAGT-ATTAGTGGCGTTTATTTATAAGCGCCGCAAAATACCTTAACCA
*
21855021 AAACGCAACGTTTGGTTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
65 AAACGCAACGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
* *
21855071 AAAACGCCACTAAAGAACAGTATTAGTGGCGT
1 AAAACGCCGCAAAAGAACAGTATTAGTGGCGT
21855103 ATTACAAAAA
Statistics
Matches: 212, Mismatches: 41, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
112 4 0.02
113 88 0.42
114 115 0.54
115 5 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (114 bp):
AAAACGCCGCAAAAGAACAGTATTAGTGGCGTTTATTTATAAGCGCCGCAAAATACCTTAACCAA
AACGCAACGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
Found at i:21854961 original size:113 final size:114
Alignment explanation
Indices: 21854714--21855193 Score: 456
Period size: 113 Copynumber: 4.2 Consensus size: 114
21854704 CCCGAACAAC
* ****
21854714 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGCAAAAGAACATCATTAGTGGCGTTTATCAAAAAGCGCCGC
* * *
21854779 AAAATACCTTAACCAAAACGCAGCGTTTCGTTTTGAGGTATATTAGAAT
66 AAAATACCTTAACCAAAACGCACCGTTTGGTTTTGAGGTAGATTAGAAT
* *** * *
21854828 TCGTGGCGTTTACGATAAAACGCCGCAAAAGAACAGT-ATTAGCGGCGTATTA-CAAAAAGCGCC
1 TAGTGGCGTTTTTAAAAAAACGCCGCAAAAGAACA-TCATTAGTGGCGT-TTATCAAAAAGCGCC
* * **
21854891 GC-AAATATCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGTGT
64 GCAAAATACCTTAACCAAAACGCACCGTTTGGTTTTGAGGTAGATTAGAAT
* * * ****
21854941 TTGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCGTTAGTGGCGTTTATTTTTAAGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGCAAAAGAACATCATTAGTGGCGTTTATCAAAAAGCGCCGC
* * *
21855006 AAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAAAAT
66 AAAATACCTTAACCAAAACGCACCGTTTGGTTTTGAGGTAGATTAGAAT
*** * * *
21855055 TAGTGGCGTTTACGATAAAACGCCACTAAAGAACAGT-ATTAGTGGCGTATTA-CAAAAAGCGCC
1 TAGTGGCGTTTTTAAAAAAACGCCGCAAAAGAACA-TCATTAGTGGCGT-TTATCAAAAAGCGCC
* ** * * **
21855118 AC-AAATATCGGT-ACTAAAACGCACCGTTTGGTGTTGAGG-AGGATTAGTGT
64 GCAAAATA-CCTTAACCAAAACGCACCGTTTGGTTTTGAGGTA-GATTAGAAT
*
21855168 TAGTGGCGCTTATT-AAAAAACGCCGC
1 TAGTGGCG-TTTTTAAAAAAACGCCGC
21855194 CAAATATCGG
Statistics
Matches: 291, Mismatches: 65, Indels: 21
0.77 0.17 0.06
Matches are distributed among these distances:
112 5 0.02
113 140 0.48
114 138 0.47
115 8 0.03
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (114 bp):
TAGTGGCGTTTTTAAAAAAACGCCGCAAAAGAACATCATTAGTGGCGTTTATCAAAAAGCGCCGC
AAAATACCTTAACCAAAACGCACCGTTTGGTTTTGAGGTAGATTAGAAT
Found at i:21855111 original size:227 final size:227
Alignment explanation
Indices: 21854714--21855192 Score: 775
Period size: 227 Copynumber: 2.1 Consensus size: 227
21854704 CCCGAACAAC
21854714 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCCGC
* * *
21854779 AAAATACCTTAACCAAAACGCAGCGTTTCGTTTTGAGGTATATTAGAATTCGTGGCGTTTACGAT
66 AAAATACCTTAACCAAAACGCAACGTTTCGTTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
* * *
21854844 AAAACGCCGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCGCAAATATC-TTAACCAA
131 AAAACGCCACAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCACAAATATCGGT-ACCAA
21854908 AACGCACCGTTTGGTCTTGAGGTA-GATTAGTGT
195 AACGCACCGTTTGGTCTTGAGG-AGGATTAGTGT
* * *
21854941 TTGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCGTTAGTGGCGTTTATTTTTAAGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCCGC
*
21855006 AAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
66 AAAATACCTTAACCAAAACGCAACGTTTCGTTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
* * *
21855071 AAAACGCCACTAAAGAACAGTATTAGTGGCGTATTACAAAAAGCGCCACAAATATCGGTACTAAA
131 AAAACGCCACAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCACAAATATCGGTACCAAA
*
21855136 ACGCACCGTTTGGTGTTGAGGAGGATTAGTGT
196 ACGCACCGTTTGGTCTTGAGGAGGATTAGTGT
*
21855168 TAGTGGCGCTTATT-AAAAAACGCCG
1 TAGTGGCG-TTTTTAAAAAAACGCCG
21855193 CCAAATATCG
Statistics
Matches: 233, Mismatches: 16, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
226 1 0.00
227 227 0.97
228 5 0.02
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (227 bp):
TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCCGC
AAAATACCTTAACCAAAACGCAACGTTTCGTTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
AAAACGCCACAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCACAAATATCGGTACCAAA
ACGCACCGTTTGGTCTTGAGGAGGATTAGTGT
Found at i:21857873 original size:23 final size:23
Alignment explanation
Indices: 21857829--21857874 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21857819 GCCCGATTCT
*
21857829 TCGTATTTATAAATTGGGTTTTG
1 TCGTATTTATAAATTGGATTTTG
* * *
21857852 TCGTATTTTTAATTTTGATTTTG
1 TCGTATTTATAAATTGGATTTTG
21857875 CTTTCTTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.04, G:0.17, T:0.59
Consensus pattern (23 bp):
TCGTATTTATAAATTGGATTTTG
Found at i:21858061 original size:44 final size:45
Alignment explanation
Indices: 21857984--21858077 Score: 172
Period size: 44 Copynumber: 2.1 Consensus size: 45
21857974 GCTTCTATTA
21857984 TTGTTCATTACTGTTTTTTTTGAATGGTTTAGGGTGTTAGGAACT
1 TTGTTCATTACTGTTTTTTTTGAATGGTTTAGGGTGTTAGGAACT
21858029 TTGTTCATTACTG-TTTTTTTGAATGGTTTAGGGTGTTAGGAACT
1 TTGTTCATTACTGTTTTTTTTGAATGGTTTAGGGTGTTAGGAACT
*
21858073 GTGTT
1 TTGTT
21858078 TAACTATTGT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 35 0.73
45 13 0.27
ACGTcount: A:0.17, C:0.06, G:0.26, T:0.51
Consensus pattern (45 bp):
TTGTTCATTACTGTTTTTTTTGAATGGTTTAGGGTGTTAGGAACT
Found at i:21858091 original size:44 final size:44
Alignment explanation
Indices: 21857992--21858093 Score: 150
Period size: 44 Copynumber: 2.3 Consensus size: 44
21857982 TATTGTTCAT
* * *
21857992 TACTGTTTTTTTTGAATGGTTTAGGGTGTTAGGAACTTTGTTCAT
1 TACTG-TTTTTTTGAATGGTTTAGGGTGTTAGGAACTGTGTTAAC
21858037 TACTGTTTTTTTGAATGGTTTAGGGTGTTAGGAACTGTGTTTAAC
1 TACTGTTTTTTTGAATGGTTTAGGGTGTTAGGAACTGTG-TTAAC
*
21858082 TATTGTTTTTTT
1 TACTGTTTTTTT
21858094 TNNNNNNNNN
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 33 0.63
45 19 0.37
ACGTcount: A:0.18, C:0.06, G:0.24, T:0.53
Consensus pattern (44 bp):
TACTGTTTTTTTGAATGGTTTAGGGTGTTAGGAACTGTGTTAAC
Found at i:21859512 original size:9 final size:9
Alignment explanation
Indices: 21859498--21859695 Score: 140
Period size: 9 Copynumber: 23.4 Consensus size: 9
21859488 NNNNNNTTAA
21859498 ATAACTTAC
1 ATAACTTAC
21859507 ATAACTTAC
1 ATAACTTAC
21859516 ATAACTTAC
1 ATAACTTAC
* *
21859525 ATAAATTAA
1 ATAACTTAC
*
21859534 ATTACTTAC
1 ATAACTTAC
*
21859543 ACAACTTAC
1 ATAACTTAC
*
21859552 ATTA--TAC
1 ATAACTTAC
21859559 ATAACCTT-C
1 ATAA-CTTAC
*
21859568 TTAACTTAC
1 ATAACTTAC
*
21859577 ATTA-TT-C
1 ATAACTTAC
* *
21859584 ACAACTCAC
1 ATAACTTAC
21859593 ATAA-TTA-
1 ATAACTTAC
21859600 AT-A-TTAAC
1 ATAACTT-AC
*
21859608 ACAACTTAC
1 ATAACTTAC
21859617 ATAA--TAC
1 ATAACTTAC
*
21859624 ATTACTTAC
1 ATAACTTAC
21859633 ATAACTTAC
1 ATAACTTAC
*
21859642 ATTACTTAC
1 ATAACTTAC
21859651 AGT-ACTTAC
1 A-TAACTTAC
21859660 ATAA--TAC
1 ATAACTTAC
21859667 ATAA--TAC
1 ATAACTTAC
21859674 ATAACTTAC
1 ATAACTTAC
*
21859683 ATTACTTAC
1 ATAACTTAC
21859692 ATAA
1 ATAA
21859696 TACATAAAAA
Statistics
Matches: 148, Mismatches: 25, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
6 3 0.02
7 32 0.22
8 10 0.07
9 99 0.67
10 4 0.03
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.35
Consensus pattern (9 bp):
ATAACTTAC
Found at i:21859681 original size:32 final size:33
Alignment explanation
Indices: 21859630--21859702 Score: 112
Period size: 32 Copynumber: 2.2 Consensus size: 33
21859620 ATACATTACT
*
21859630 TACATAACTTACATTACTTACAGTACTTACATAA
1 TACATAAC-TACATAACTTACAGTACTTACATAA
*
21859664 TACATAA-TACATAACTTACATTACTTACATAA
1 TACATAACTACATAACTTACAGTACTTACATAA
21859696 TACATAA
1 TACATAA
21859703 AAATGTATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 30 0.81
34 7 0.19
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.34
Consensus pattern (33 bp):
TACATAACTACATAACTTACAGTACTTACATAA
Found at i:21865879 original size:42 final size:42
Alignment explanation
Indices: 21865749--21866030 Score: 270
Period size: 42 Copynumber: 6.7 Consensus size: 42
21865739 NNNNNNNNNT
* * *
21865749 GCCGCTAAAGACCAT-GTTCTTTAGCGGCGCTTAGAAAAAAGAC
1 GCCGCTAAAGAACATGGTT-TTTAGAGGCGCTTAGAAACAA-AC
* * ***** *
21865792 GCCGCTAAAGACCAT-GTTCTTTAGCGGCG-TTTTTTTCTAAGC
1 GCCGCTAAAGAACATGGTT-TTTAGAGGCGCTTAGAAAC-AAAC
* *
21865834 GCCGCTAAAGAACATGGTTTTTAGAGGCGCTTGGAAACACAC
1 GCCGCTAAAGAACATGGTTTTTAGAGGCGCTTAGAAACAAAC
* * *
21865876 GCCGCCAAAGAAC-TTGTTCTTTAGAGGCGCTTAGAAAAAAAC
1 GCCGCTAAAGAACATGGTT-TTTAGAGGCGCTTAGAAACAAAC
*
21865918 GCCGCTAAAGAACATGTTTTTTAGAGGCGCTTAGAAACAAAC
1 GCCGCTAAAGAACATGGTTTTTAGAGGCGCTTAGAAACAAAC
* *
21865960 GCCGCCAAAGAAC-TTGTTCTTTAGAGGCGCTTAGGAAA-AAAC
1 GCCGCTAAAGAACATGGTT-TTTAGAGGCGCTTA-GAAACAAAC
* *
21866002 GCCGCTAAAGAACATGGTCTTTAGCGGCG
1 GCCGCTAAAGAACATGGTTTTTAGAGGCG
21866031 TTTTTGTTTG
Statistics
Matches: 199, Mismatches: 32, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
41 7 0.04
42 145 0.73
43 47 0.24
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (42 bp):
GCCGCTAAAGAACATGGTTTTTAGAGGCGCTTAGAAACAAAC
Found at i:21865921 original size:84 final size:84
Alignment explanation
Indices: 21865749--21866030 Score: 350
Period size: 84 Copynumber: 3.3 Consensus size: 84
21865739 NNNNNNNNNT
* * * * * *
21865749 GCCGCTAAAGACCAT-GTTCTTTAGCGGCGCTTAGAAAAAAGACGCCGCTAAAGACCATGTTCTT
1 GCCGCTAAAGAACATGGTT-TTTAGAGGCGCTTAGAAACAA-ACGCCGCCAAAGAACTTGTTCTT
* * ****** *
21865813 TAGCGGCGTTTTTTTCTAAGC
64 TAGAGGCGCTTAGAAAAAAAC
* *
21865834 GCCGCTAAAGAACATGGTTTTTAGAGGCGCTTGGAAACACACGCCGCCAAAGAACTTGTTCTTTA
1 GCCGCTAAAGAACATGGTTTTTAGAGGCGCTTAGAAACAAACGCCGCCAAAGAACTTGTTCTTTA
21865899 GAGGCGCTTAGAAAAAAAC
66 GAGGCGCTTAGAAAAAAAC
*
21865918 GCCGCTAAAGAACATGTTTTTTAGAGGCGCTTAGAAACAAACGCCGCCAAAGAACTTGTTCTTTA
1 GCCGCTAAAGAACATGGTTTTTAGAGGCGCTTAGAAACAAACGCCGCCAAAGAACTTGTTCTTTA
*
21865983 GAGGCGCTTAGGAAAAAAC
66 GAGGCGCTTAGAAAAAAAC
* *
21866002 GCCGCTAAAGAACATGGTCTTTAGCGGCG
1 GCCGCTAAAGAACATGGTTTTTAGAGGCG
21866031 TTTTTGTTTG
Statistics
Matches: 172, Mismatches: 24, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
84 138 0.80
85 31 0.18
86 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (84 bp):
GCCGCTAAAGAACATGGTTTTTAGAGGCGCTTAGAAACAAACGCCGCCAAAGAACTTGTTCTTTA
GAGGCGCTTAGAAAAAAAC
Found at i:21865983 original size:126 final size:127
Alignment explanation
Indices: 21865749--21866030 Score: 356
Period size: 126 Copynumber: 2.2 Consensus size: 127
21865739 NNNNNNNNNT
* *
21865749 GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAGACGCCGCTAAAGACCATGTTCTTT
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAGACGCCGCTAAAGAACATGTTCTTT
* ***** * * *
21865814 AGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTTTTTAGAGGCGCTT-GGAAACACAC
66 AGAGGCGTTAGAAACTAAACGCCGCCAAAGAACATGGTTTTTAGAGGCGCTTAGGAAA-AAAC
* * * *
21865876 GCCGCCAAAGAACTTGTTCTTTAGAGGCGCTTAGAAAAAA-ACGCCGCTAAAGAACATGTTTTTT
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAGACGCCGCTAAAGAACATGTTCTTT
*
21865940 AGAGGCGCTTAGAAAC-AAACGCCGCCAAAGAAC-TTGTTCTTTAGAGGCGCTTAGGAAAAAAC
66 AGAGGCG-TTAGAAACTAAACGCCGCCAAAGAACATGGTT-TTTAGAGGCGCTTAGGAAAAAAC
*
21866002 GCCGCTAAAGAACATGGTCTTTAGCGGCG
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG
21866031 TTTTTGTTTG
Statistics
Matches: 132, Mismatches: 20, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
125 4 0.03
126 84 0.64
127 44 0.33
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (127 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAGACGCCGCTAAAGAACATGTTCTTT
AGAGGCGTTAGAAACTAAACGCCGCCAAAGAACATGGTTTTTAGAGGCGCTTAGGAAAAAAC
Done.