Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 29 of 54
Found at i:12117564 original size:28 final size:27
Alignment explanation
Indices: 12117528--12117580 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
12117518 AGAGCGACGG
* * *
12117528 CAGCTTTGAGGGGGAGAGACCCGATCAA
1 CAGCCTTGAGGGAGA-AAACCCGATCAA
12117556 CAGCCTTGAGGGAGAAAACCCGATC
1 CAGCCTTGAGGGAGAAAACCCGATC
12117581 GGCGCTGCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.30, C:0.25, G:0.32, T:0.13
Consensus pattern (27 bp):
CAGCCTTGAGGGAGAAAACCCGATCAA
Found at i:12119092 original size:11 final size:11
Alignment explanation
Indices: 12119066--12119108 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
12119056 AAATAAAATG
*
12119066 AAAATAATAAT
1 AAAATAATAAA
*
12119077 TAAATAATAAA
1 AAAATAATAAA
* *
12119088 AAAATGACAAA
1 AAAATAATAAA
12119099 AAAATAATAA
1 AAAATAATAA
12119109 TATAGATAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (11 bp):
AAAATAATAAA
Found at i:12131217 original size:37 final size:38
Alignment explanation
Indices: 12131132--12131813 Score: 808
Period size: 38 Copynumber: 17.9 Consensus size: 38
12131122 CAAAAAAGAA
* * *
12131132 AAAAGGTTTCGTTACCTCAGTTTTGAAGAGTTCATTTTT
1 AAAA-GTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* *
12131171 AAAAGTTTCGGTACCTCAGCTTTGAGGAGTTCA-TTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
12131208 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* * *
12131246 AAAAGTTTCATTGCCTCGGCTTTGAGCAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
*
12131284 AAAAGTTTCATTGCCTCAGCTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* * * *
12131322 AAAAGTTTTGTTACCTCAACTTTGAGGAG-TCACATTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCA-TTTTT
*
12131360 AAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
*
12131398 AGAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* * *
12131436 -AAAGTCTCGTTGCCTCAGTTTTAAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
*
12131473 -AAAGTCTT-GTTGCCTCAGTTTTGAGGAGTTCA-TTTT
1 AAAAGT-TTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* *
12131509 AAAAG-TTCGTTACCTCAACTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
** *
12131546 AAAAGTGGCATTGCCTCAGCTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
*
12131584 AAAAGTTTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* * ** *
12131622 AAACGTCTCGTTGCCTCAATTTTGAGGAGTTTA-TTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* *
12131659 AAAAG-TTCATTGCCTCAGCTTTAAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* * * *
12131696 AGAAGTTTCATTGCCTTAGCTTTGGGGAGTTTCATTTCTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAG-TTCA--T-TTTT
* * * **
12131738 AAAAAAATTTCATAGCCTCAATTTTGAGGAGTTCATTTTT
1 --AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
** *
12131778 -AAAGTTTCGTTGCCTCAAATTTGAGAAGTCTCATTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGT-TCATTT
12131814 AAAAAAAAAC
Statistics
Matches: 559, Mismatches: 67, Indels: 35
0.85 0.10 0.05
Matches are distributed among these distances:
35 2 0.00
36 46 0.08
37 152 0.27
38 312 0.56
39 11 0.02
40 4 0.01
41 2 0.00
42 4 0.01
43 4 0.01
44 22 0.04
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.42
Consensus pattern (38 bp):
AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
Found at i:12131845 original size:12 final size:11
Alignment explanation
Indices: 12131814--12131856 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
12131804 AGTCTCATTT
12131814 AAAAAAAAACA
1 AAAAAAAAACA
* *
12131825 CACAAAAAAATA
1 -AAAAAAAAACA
12131837 AAAACAAAAACA
1 AAAA-AAAAACA
12131849 AAAAAAAA
1 AAAAAAAA
12131857 CTTGGTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:12131853 original size:22 final size:22
Alignment explanation
Indices: 12131813--12131856 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
12131803 AAGTCTCATT
*
12131813 TAAAAAAAAACACACAAAAAAA
1 TAAAAAAAAACACAAAAAAAAA
12131835 TAAAAACAAAA-ACAAAAAAAAA
1 TAAAAA-AAAACACAAAAAAAAA
12131857 CTTGGTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.84, C:0.11, G:0.00, T:0.05
Consensus pattern (22 bp):
TAAAAAAAAACACAAAAAAAAA
Found at i:12131857 original size:16 final size:17
Alignment explanation
Indices: 12131814--12131857 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
12131804 AGTCTCATTT
12131814 AAAAAAAAACACACAAA
1 AAAAAAAAACACACAAA
12131831 AAAATAAAAACA-A-AAA
1 AAAA-AAAAACACACAAA
12131847 CAAAAAAAAAC
1 -AAAAAAAAAC
12131858 TTGGTAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 9 0.36
17 9 0.36
18 7 0.28
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (17 bp):
AAAAAAAAACACACAAA
Found at i:12140267 original size:15 final size:16
Alignment explanation
Indices: 12140242--12140273 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
12140232 CTACAGTAAA
12140242 ACTTCGATAAATTAAT
1 ACTTCGATAAATTAAT
12140258 ACTT-GATAAATTAAT
1 ACTTCGATAAATTAAT
12140273 A
1 A
12140274 ATATCAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (16 bp):
ACTTCGATAAATTAAT
Found at i:12141126 original size:16 final size:16
Alignment explanation
Indices: 12141095--12141164 Score: 63
Period size: 16 Copynumber: 4.2 Consensus size: 16
12141085 TTAATTTTTT
12141095 ATTAATTAATGT-ATAA
1 ATTAATTAAT-TAATAA
*
12141111 ATTAATAAATTAAT-A
1 ATTAATTAATTAATAA
*
12141126 ATTTATTAATTAAATAA
1 ATTAATTAATT-AATAA
12141143 TATCTCAATTAATTAATAA
1 -AT-T-AATTAATTAATAA
12141162 ATT
1 ATT
12141165 TTCATGATCC
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
15 11 0.25
16 14 0.32
17 2 0.05
18 4 0.09
19 6 0.14
20 7 0.16
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (16 bp):
ATTAATTAATTAATAA
Found at i:12150171 original size:10 final size:10
Alignment explanation
Indices: 12150156--12150181 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
12150146 CTTTAGTAAA
12150156 AAAAAAAAAT
1 AAAAAAAAAT
12150166 AAAAAAAAAT
1 AAAAAAAAAT
12150176 AAAAAA
1 AAAAAA
12150182 TGAGAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:12152041 original size:2 final size:2
Alignment explanation
Indices: 12152034--12152058 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12152024 TAATATTATG
12152034 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
12152059 TCTTTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12152834 original size:3 final size:3
Alignment explanation
Indices: 12152826--12152865 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
12152816 ATCACACACG
* *
12152826 TAA TAA TAA TAA TAA TAT TAA TAA AAA TAA TTAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
12152866 ATCCCTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:12166327 original size:22 final size:19
Alignment explanation
Indices: 12166302--12166350 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 19
12166292 ATTAATATTT
12166302 ATTTTATTTTGACTTTTAAAAA
1 ATTTTATTTT-A-TTTT-AAAA
*
12166324 ATTTTATTTTATTTTAATA
1 ATTTTATTTTATTTTAAAA
12166343 ATTTTATT
1 ATTTTATT
12166351 ATATAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 11 0.42
20 4 0.15
21 1 0.04
22 10 0.38
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTTTATTTTATTTTAAAA
Found at i:12171480 original size:5 final size:6
Alignment explanation
Indices: 12171465--12171489 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
12171455 AAATATAATG
12171465 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
12171490 TTCTTCCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:12172201 original size:54 final size:54
Alignment explanation
Indices: 12172134--12172236 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
12172124 TATTTCTCTC
* * * *
12172134 TCAACTCTTTGAACTGTTTCAACTCTGTCAACTCTCTGTTGAGCACCATTGTCA
1 TCAACTCTCTGAACTATATCAACTCTGTCAACTCTCTGTTAAGCACCATTGTCA
* *
12172188 TCAACTCTCTGAACTATATGAGCTCTGTCAACTCTCTGTTAAGCACCAT
1 TCAACTCTCTGAACTATATCAACTCTGTCAACTCTCTGTTAAGCACCAT
12172237 CATCATTGGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (54 bp):
TCAACTCTCTGAACTATATCAACTCTGTCAACTCTCTGTTAAGCACCATTGTCA
Found at i:12172613 original size:31 final size:31
Alignment explanation
Indices: 12172575--12172652 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
12172565 TTGTAGTCAT
* *
12172575 TGGCGTGTTATAACATTTTACGTTATCTGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
*
12172606 TGGCGTGTTACAACATTTTATGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
12172637 TGGCGTGTTACAACAT
1 TGGCGTGTTACAACAT
12172653 GACTGACAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (31 bp):
TGGCGTGTTACAACATTTTACGTTATATGCA
Found at i:12176591 original size:31 final size:31
Alignment explanation
Indices: 12176520--12176593 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
12176510 ACGCCCCATC
* *
12176520 TTGTGGTGACACGCTGAGTGGAAGCAGATAG
1 TTGTGGTGACACGCTAAGTGCAAGCAGATAG
* * **
12176551 TTG-GCGTGACACGTTAAGTGCATGCAGATTT
1 TTGTG-GTGACACGCTAAGTGCAAGCAGATAG
12176582 TTGTGGTGACAC
1 TTGTGGTGACAC
12176594 ATTGACTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 1 0.03
31 33 0.94
32 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.28
Consensus pattern (31 bp):
TTGTGGTGACACGCTAAGTGCAAGCAGATAG
Found at i:12176657 original size:118 final size:118
Alignment explanation
Indices: 12176448--12176914 Score: 550
Period size: 118 Copynumber: 4.0 Consensus size: 118
12176438 GCTGACGCGC
* * * * *
12176448 TGAGTGCATTCAGATTTCTGTGGTGACAGGCTGACCTT-TTGCATTA-TGTGGGGTGACATGGCA
1 TGAGTGCATGCAGATTTCTGTGGTGACACGCTGA-CTTCTTGCAGTATTGTGGGGTGACACGGAA
*
12176511 CGCCCCATCTTGTGGTGACACGCTGAGTGGAAGCAGATAGTTGGCGTGACACGT
65 CGCCCCATCTTGTGGTGACACACTGAGTGGAAGCAGATAGTTGGCGTGACACGT
* * ** * *
12176565 TAAGTGCATGCAGATTTTTGTGGTGACACATTGACTTATTGTAGTATTGTGGGGTGACACGGAAC
1 TGAGTGCATGCAGATTTCTGTGGTGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACGGAAC
* * * *
12176630 ACCCCATCTTGTGGTGACACATTGAGTGGAAGCAGATAGTTAGCGTGACATGT
66 GCCCCATCTTGTGGTGACACACTGAGTGGAAGCAGATAGTTGGCGTGACACGT
* * * *
12176683 TGATTGCATGCAGATTTATGTGGTGACACGTTGACTTCTTGCAGTATTGTGGGATGACAC-GACA
1 TGAGTGCATGCAGATTTCTGTGGTGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACGGA-A
* *
12176747 CGCCCCATTTTGTGGTGACACACTGAGTGGAAGCAGATAGTTGGCATGACAC--
65 CGCCCCATCTTGTGGTGACACACTGAGTGGAAGCAGATAGTTGGCGTGACACGT
* ** * * * * *
12176799 TGAGTGCATGCAGATTTCTATGGCAACACGCTGACTTCTTACTGTATTATGGGGTGACACGGCAT
1 TGAGTGCATGCAGATTTCTGTGGTGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACGGAAC
* * * * * *
12176864 GCCCCA-ATTGTGGTGACACGCTGAGTGGAACCAGATACTTGGTGTGGCACG
66 GCCCCATCTTGTGGTGACACACTGAGTGGAAGCAGATAGTTGGCGTGACACG
12176915 CTGACTTGTT
Statistics
Matches: 298, Mismatches: 47, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
115 37 0.12
116 60 0.20
117 37 0.12
118 164 0.55
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (118 bp):
TGAGTGCATGCAGATTTCTGTGGTGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACGGAAC
GCCCCATCTTGTGGTGACACACTGAGTGGAAGCAGATAGTTGGCGTGACACGT
Found at i:12185715 original size:37 final size:36
Alignment explanation
Indices: 12185665--12185783 Score: 168
Period size: 37 Copynumber: 3.2 Consensus size: 36
12185655 AATGCAATAT
*
12185665 CATCATCACGTGTGCATTCCTTACTCGCACACTTCAA
1 CATCATCATGTGTGCATTCC-TACTCGCACACTTCAA
*
12185702 CATCATCATGTGTGCAGTCCCTACTCGCACAC-TCTAA
1 CATCATCATGTGTGCA-TTCCTACTCGCACACTTC-AA
*
12185739 CACCATCATGTGTGCACTTCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCA-TTCCTACTCGCACACTTCAA
12185776 CATCATCA
1 CATCATCA
12185784 CACAACATTA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
36 2 0.03
37 66 0.90
38 5 0.07
ACGTcount: A:0.25, C:0.36, G:0.11, T:0.28
Consensus pattern (36 bp):
CATCATCATGTGTGCATTCCTACTCGCACACTTCAA
Found at i:12189259 original size:34 final size:35
Alignment explanation
Indices: 12189193--12189260 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
12189183 AACCACTTTG
12189193 GGTTTTAGTTGAGCCCGTGAAAAACCAGTGTAAAA
1 GGTTTTAGTTGAGCCCGTGAAAAACCAGTGTAAAA
* * * *
12189228 GGTTTTGGTTGAG-CCTTGAAAAGCCATTGTAAA
1 GGTTTTAGTTGAGCCCGTGAAAAACCAGTGTAAA
12189261 GCTTGGTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (35 bp):
GGTTTTAGTTGAGCCCGTGAAAAACCAGTGTAAAA
Found at i:12189625 original size:31 final size:31
Alignment explanation
Indices: 12189587--12189922 Score: 361
Period size: 31 Copynumber: 10.5 Consensus size: 31
12189577 GTTAACCCTT
*
12189587 AATGTGGTAGCACGCCATGCATATAACGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
* * *
12189618 AATGTGGTAACATGCCATACATATAACATAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
* * *
12189649 AATGTGGTGACACGCTATGCATATAATGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
* *
12189680 AATGTTGTAACACGCCATGCATAAAACGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
* * * *
12189711 AATGTTGTAACACACCATGCATATAATGTAT
1 AATGTGGTAACACGCCATGCATATAACGTAA
* *
12189742 AATGTGGTAACACACCATGCATATAATGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
*
12189773 AATGTGGTAACATGCCATGCATATAACGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
* *
12189804 AATATTGTAACACGCCATGCATATAACGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
*
12189835 AATGTTGTGAAATGTTGTAACACACCATGCATATAACGTAA
1 AA-----TG---TG--GTAACACGCCATGCATATAACGTAA
* *
12189876 AATGT-GTAACACGCCATGCGTATCAA-GTCA
1 AATGTGGTAACACGCCATGCATAT-AACGTAA
*
12189906 AATGTTGTAACACGCCA
1 AATGTGGTAACACGCCA
12189923 ACACTGATAT
Statistics
Matches: 260, Mismatches: 33, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
30 24 0.09
31 205 0.79
33 1 0.00
36 3 0.01
39 1 0.00
41 26 0.10
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (31 bp):
AATGTGGTAACACGCCATGCATATAACGTAA
Found at i:12189813 original size:41 final size:38
Alignment explanation
Indices: 12189767--12189884 Score: 106
Period size: 41 Copynumber: 3.2 Consensus size: 38
12189757 CATGCATATA
*
12189767 ATGTAAAATGTGGTAACATGCCATGCATATAACGT-AAA-
1 ATGT-AAATGT-GTAACACGCCATGCATATAACGTAAAAT
12189805 A--T--AT-TGTAACACGCCATGCATATAACGTAAAAT
1 ATGTAAATGTGTAACACGCCATGCATATAACGTAAAAT
* *
12189838 GTTGTGAAATGTTGTAACACACCATGCATATAACGTAAAAT
1 -ATGT-AAATG-TGTAACACGCCATGCATATAACGTAAAAT
*
12189879 GTGTAA
1 ATGTAA
12189885 CACGCCATGC
Statistics
Matches: 66, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
31 22 0.33
32 4 0.06
33 2 0.03
36 2 0.03
38 1 0.02
39 4 0.06
40 3 0.05
41 28 0.42
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (38 bp):
ATGTAAATGTGTAACACGCCATGCATATAACGTAAAAT
Found at i:12189885 original size:30 final size:31
Alignment explanation
Indices: 12189844--12189918 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 31
12189834 AAATGTTGTG
12189844 AAATGTTGTAACACACCATGCATAT-AACGTA
1 AAATGTTGTAACACACCATGCATATCAA-GTA
* * *
12189875 AAATG-TGTAACACGCCATGCGTATCAAGTC
1 AAATGTTGTAACACACCATGCATATCAAGTA
12189905 AAATGTTGTAACAC
1 AAATGTTGTAACAC
12189919 GCCAACACTG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
30 24 0.62
31 15 0.38
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (31 bp):
AAATGTTGTAACACACCATGCATATCAAGTA
Found at i:12190661 original size:47 final size:48
Alignment explanation
Indices: 12190605--12190908 Score: 228
Period size: 47 Copynumber: 6.5 Consensus size: 48
12190595 GAGTCTAACA
* * * *
12190605 AACTCTGAACCCT-GCAGTGTCACAAACTCCCTCCATGGCATATCACG
1 AACTTTGAACGCTGGCAGTGTCACAAATTCCCTCCATGGCATGTCACG
* * * *
12190652 AACTTTGAACGCTGGC-GTGTAATAGATTCCCTCCATGG-AGTGTCACA
1 AACTTTGAACGCTGGCAGTGTCACAAATTCCCTCCATGGCA-TGTCACG
* * *
12190699 AACTTTGAACGCTGGCA-TGTCATAGATTCCCTCCATGGCGTGTCACG
1 AACTTTGAACGCTGGCAGTGTCACAAATTCCCTCCATGGCATGTCACG
* * ** *
12190746 AACTTTGAACGCTGG-TGTGCCACAAATTCCCTCCATGGTGTGTTACG
1 AACTTTGAACGCTGGCAGTGTCACAAATTCCCTCCATGGCATGTCACG
* * * * * * ** *
12190793 AACTCTGAATGCTGAC-GTGTCATAGATTCCCTCAATGGTGTGTCACC
1 AACTTTGAACGCTGGCAGTGTCACAAATTCCCTCCATGGCATGTCACG
* * * * *** *
12190840 AACTCTGAACTCTGGC-GTGTCACAGATTTCCTCCATGTTGTGTCACA
1 AACTTTGAACGCTGGCAGTGTCACAAATTCCCTCCATGGCATGTCACG
* *
12190887 AACTCTAAACGCTGGCA-TGTCA
1 AACTTTGAACGCTGGCAGTGTCA
12190909 TAGCTGTGTC
Statistics
Matches: 214, Mismatches: 36, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
46 1 0.00
47 211 0.99
48 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
AACTTTGAACGCTGGCAGTGTCACAAATTCCCTCCATGGCATGTCACG
Found at i:12190749 original size:94 final size:94
Alignment explanation
Indices: 12190588--12190911 Score: 371
Period size: 94 Copynumber: 3.4 Consensus size: 94
12190578 TGTCACGGAT
* * * * * * * *
12190588 CTCCATGGAGTCTAACAAACTCTGAACCCT-GCAGTGTCACAAACTCCCTCCATGGCATATCACG
1 CTCCATGGAGTGTCACAAACTCTGAACGCTGGCA-TGTCATAGATTCCCTCCATGGCGTGTCACG
* *
12190652 AACTTTGAACGCTGGCGTGTAATAGATTCC
65 AACTTTGAACGCTGGCGTGTCACAGATTCC
*
12190682 CTCCATGGAGTGTCACAAACTTTGAACGCTGGCATGTCATAGATTCCCTCCATGGCGTGTCACGA
1 CTCCATGGAGTGTCACAAACTCTGAACGCTGGCATGTCATAGATTCCCTCCATGGCGTGTCACGA
* * *
12190747 ACTTTGAACGCTGGTGTGCCACAAATTCC
66 ACTTTGAACGCTGGCGTGTCACAGATTCC
* * * * * * * * *
12190776 CTCCATGGTGTGTTACGAACTCTGAATGCTGACGTGTCATAGATTCCCTCAATGGTGTGTCACCA
1 CTCCATGGAGTGTCACAAACTCTGAACGCTGGCATGTCATAGATTCCCTCCATGGCGTGTCACGA
* * *
12190841 ACTCTGAACTCTGGCGTGTCACAGATTTC
66 ACTTTGAACGCTGGCGTGTCACAGATTCC
** *
12190870 CTCCATGTTGTGTCACAAACTCTAAACGCTGGCATGTCATAG
1 CTCCATGGAGTGTCACAAACTCTGAACGCTGGCATGTCATAG
12190912 CTGTGTCACA
Statistics
Matches: 192, Mismatches: 37, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
94 189 0.98
95 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (94 bp):
CTCCATGGAGTGTCACAAACTCTGAACGCTGGCATGTCATAGATTCCCTCCATGGCGTGTCACGA
ACTTTGAACGCTGGCGTGTCACAGATTCC
Found at i:12190812 original size:141 final size:141
Alignment explanation
Indices: 12190588--12190901 Score: 358
Period size: 141 Copynumber: 2.2 Consensus size: 141
12190578 TGTCACGGAT
* * * * * ** *
12190588 CTCCATGGAGTCTAACAAACTCTGAACCCTGCAGTGTCACAAACTCCCTCCATGGCATATCACGA
1 CTCCATGGCGTGTCACAAACTCTAAACGCTGGTGTGCCACAAACTCCCTCCATGGCATATCACGA
* * * *
12190653 ACTTTGAACGCTGGCGTGTAATAGATTCCCTCCATGGAGTGTCACAAACTTTGAACGCTGGCATG
66 ACTCTGAACGCTGACGTGTAATAGATTCCCTCAATGGAGTGTCACAAACTCTGAACGCTGGCATG
*
12190718 TCATAGATTCC
131 TCACAGATTCC
* * * * ** * *
12190729 CTCCATGGCGTGTCACGAACTTTGAACGCTGGTGTGCCACAAATTCCCTCCATGGTGTGTTACGA
1 CTCCATGGCGTGTCACAAACTCTAAACGCTGGTGTGCCACAAACTCCCTCCATGGCATATCACGA
* * * * * *
12190794 ACTCTGAATGCTGACGTGTCATAGATTCCCTCAATGGTGTGTCACCAACTCTGAACTCTGGCGTG
66 ACTCTGAACGCTGACGTGTAATAGATTCCCTCAATGGAGTGTCACAAACTCTGAACGCTGGCATG
*
12190859 TCACAGATTTC
131 TCACAGATTCC
**
12190870 CTCCATGTTGTGTCACAAACTCTAAACGCTGG
1 CTCCATGGCGTGTCACAAACTCTAAACGCTGG
12190902 CATGTCATAG
Statistics
Matches: 142, Mismatches: 31, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
141 142 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (141 bp):
CTCCATGGCGTGTCACAAACTCTAAACGCTGGTGTGCCACAAACTCCCTCCATGGCATATCACGA
ACTCTGAACGCTGACGTGTAATAGATTCCCTCAATGGAGTGTCACAAACTCTGAACGCTGGCATG
TCACAGATTCC
Found at i:12190946 original size:58 final size:57
Alignment explanation
Indices: 12190856--12191076 Score: 192
Period size: 58 Copynumber: 3.8 Consensus size: 57
12190846 GAACTCTGGC
* * * * * * *
12190856 GTGTCACAGATTTCCTCCATGTTGTGTCACAAACTCTAAACGCTGGCATGTCATAGCT
1 GTGTCACACATTCCCACCATGTCGTGTCACAAACTCTAAACCCTGCCATGTCACAG-T
* ** *
12190914 GTGTCACACATTCCCACCATGGCGTGTCACAAACTCTAAAATCTGCCTTGTCACAGT
1 GTGTCACACATTCCCACCATGTCGTGTCACAAACTCTAAACCCTGCCATGTCACAGT
* * * * ***
12190971 CGTATCATACATT-CCAGCCATGTCGTGTCATAAATTCTAAACCCTGTTGTGTCACAGTT
1 -GTGTCACACATTCCCA-CCATGTCGTGTCACAAACTCTAAACCCTGCCATGTCACAG-T
* * * * *
12191030 GTGTCACACATTCCTAACATGCCATTTCACAAACTCTAAACCCTGCC
1 GTGTCACACATTCCCACCATGTCGTGTCACAAACTCTAAACCCTGCC
12191077 CTACCACAAC
Statistics
Matches: 128, Mismatches: 31, Indels: 8
0.77 0.19 0.05
Matches are distributed among these distances:
57 4 0.03
58 121 0.95
59 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (57 bp):
GTGTCACACATTCCCACCATGTCGTGTCACAAACTCTAAACCCTGCCATGTCACAGT
Found at i:12197185 original size:26 final size:26
Alignment explanation
Indices: 12197156--12197207 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
12197146 AACATTATTC
* *
12197156 TGTATCATTTCCATTTTATTCTTTGT
1 TGTATCATTTACATATTATTCTTTGT
12197182 TGTATCATTTACATATTATTCTTTGT
1 TGTATCATTTACATATTATTCTTTGT
12197208 ATTCATTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.13, G:0.08, T:0.60
Consensus pattern (26 bp):
TGTATCATTTACATATTATTCTTTGT
Found at i:12197207 original size:23 final size:23
Alignment explanation
Indices: 12197149--12197214 Score: 64
Period size: 26 Copynumber: 2.8 Consensus size: 23
12197139 TAACATTAAC
*
12197149 ATTATTC--TGTATCATTTCCAT
1 ATTATTCTTTGTATCATTTACAT
*
12197170 TTTATTCTTTGTTGTATCATTTACAT
1 ATTATTC--T-TTGTATCATTTACAT
12197196 ATTATTCTTTGTATTCATT
1 ATTATTCTTTGTA-TCATT
12197215 CATGTGATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
21 6 0.17
23 5 0.14
24 6 0.17
26 19 0.53
ACGTcount: A:0.21, C:0.14, G:0.06, T:0.59
Consensus pattern (23 bp):
ATTATTCTTTGTATCATTTACAT
Found at i:12197878 original size:23 final size:22
Alignment explanation
Indices: 12197792--12197883 Score: 67
Period size: 23 Copynumber: 4.0 Consensus size: 22
12197782 TATTCTAAAA
* * *
12197792 TCGCGTGAGTAGAAAAATGGAG
1 TCGCGTGACTAGATATATGGAG
*
12197814 TCGCGTGACTAGATATTATGGAA
1 TCGCGTGACTAGATA-TATGGAG
* * * **
12197837 TTGCGTTACCATTTGATATGGAG
1 TCGCGTGACTAGAT-ATATGGAG
*
12197860 TCGCGTGAGTAGTATATATGGAG
1 TCGCGTGACTAG-ATATATGGAG
12197883 T
1 T
12197884 GACGTTACGA
Statistics
Matches: 51, Mismatches: 16, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
22 13 0.25
23 36 0.71
24 2 0.04
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.30
Consensus pattern (22 bp):
TCGCGTGACTAGATATATGGAG
Found at i:12197938 original size:23 final size:23
Alignment explanation
Indices: 12197908--12197961 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
12197898 TTATTGAATC
*
12197908 GCGTGACTAGTTGAGCTTGCAAT
1 GCGTGACTAATTGAGCTTGCAAT
* *
12197931 GCGTGACTAATTGCGCTTGCATT
1 GCGTGACTAATTGAGCTTGCAAT
12197954 GCGTGACT
1 GCGTGACT
12197962 CACCTATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (23 bp):
GCGTGACTAATTGAGCTTGCAAT
Found at i:12199952 original size:23 final size:23
Alignment explanation
Indices: 12199906--12199959 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
12199896 TTATTGAATT
*
12199906 GCGTGACTAGATGATATGGGATC
1 GCGTGACTAGATGATATGGCATC
* * *
12199929 GCGTGACTAGTTGATCTTGCATC
1 GCGTGACTAGATGATATGGCATC
*
12199952 GTGTGACT
1 GCGTGACT
12199960 CACCTATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (23 bp):
GCGTGACTAGATGATATGGCATC
Found at i:12205715 original size:111 final size:111
Alignment explanation
Indices: 12205421--12205837 Score: 575
Period size: 111 Copynumber: 3.7 Consensus size: 111
12205411 TATGTCATGT
* * * *
12205421 AATATATAAAAACTAGTAATGCAATCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATG
1 AATATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATG
* *
12205486 AATTGCACAAGTCACGTGCCACCACTCTCGCAATACATAACAACAGGTCACGC
66 AATTGCACAAGTCACGTGCCACCA--CT--C-ACAC-T-ACAACAGGTAACGC
* *
12205539 AATATATAAAAACCAGTCACACAAG-CTAAAAAACTACTGAACAAAAGCCTCTAAACAACACATG
1 AATATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATG
* *
12205603 AATTGCAAAAGTCACGTGCCACCACTCACACTACAATAGGTAACGC
66 AATTGCACAAGTCACGTGCCACCACTCACACTACAACAGGTAACGC
* * *
12205649 AATATATAAAAACCAATCATGCAAGCCAAAAAAACTACTGAACAAAAGCCTCAAAACAACACATG
1 AATATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATG
* * * * *
12205714 AATTGCACAAGTCATGCGCCGCCACTCTCGCTACAACAGGTAACGC
66 AATTGCACAAGTCACGTGCCACCACTCACACTACAACAGGTAACGC
* *
12205760 AATATATAAAAACCAGTCACGCACTGCCTAAAAAACTATTGAACAAAAGCCTCAAAACAACACAT
1 AATATATAAAAACCAGTCACGCA-AGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACAT
12205825 GAATTGCACAAGT
65 GAATTGCACAAGT
12205838 TAGTCATGCA
Statistics
Matches: 270, Mismatches: 27, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
110 34 0.13
111 98 0.36
112 54 0.20
113 1 0.00
115 2 0.01
117 61 0.23
118 20 0.07
ACGTcount: A:0.46, C:0.26, G:0.11, T:0.17
Consensus pattern (111 bp):
AATATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATG
AATTGCACAAGTCACGTGCCACCACTCACACTACAACAGGTAACGC
Found at i:12207148 original size:48 final size:48
Alignment explanation
Indices: 12207089--12207350 Score: 295
Period size: 48 Copynumber: 5.8 Consensus size: 48
12207079 TACAAACAGG
* * *
12207089 TCACGCCATGCTTAACAAATATTCAGTCACATAATGCCTATAAAGAAC
1 TCACGCAATGCTCAACAAATATTCAGTCACGTAATGCCTATAAAGAAC
* *
12207137 TCACGCAATGCTCAACAAATATTCAGTCACGTATTACC--T---G---
1 TCACGCAATGCTCAACAAATATTCAGTCACGTAATGCCTATAAAGAAC
* *
12207177 TCACGCAACGCTCAACATATATTCAGTCACGTAATGCCTATAAAGAAC
1 TCACGCAATGCTCAACAAATATTCAGTCACGTAATGCCTATAAAGAAC
* *
12207225 TCACGCAATGCTCAACAAATATTCAGTCACGTATTACC--T---G---
1 TCACGCAATGCTCAACAAATATTCAGTCACGTAATGCCTATAAAGAAC
* *
12207265 TCACACAATGCTCAACATATATTCAGTCACGTAATGCCTATAAAGAAC
1 TCACGCAATGCTCAACAAATATTCAGTCACGTAATGCCTATAAAGAAC
* *
12207313 TCACGCAATGCTCAACAAATATTCAGGCACCTAATGCC
1 TCACGCAATGCTCAACAAATATTCAGTCACGTAATGCC
12207351 AAATAAACAG
Statistics
Matches: 177, Mismatches: 21, Indels: 32
0.77 0.09 0.14
Matches are distributed among these distances:
40 68 0.38
42 2 0.01
43 2 0.01
45 2 0.01
46 2 0.01
48 101 0.57
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (48 bp):
TCACGCAATGCTCAACAAATATTCAGTCACGTAATGCCTATAAAGAAC
Found at i:12207192 original size:40 final size:40
Alignment explanation
Indices: 12207137--12207297 Score: 196
Period size: 40 Copynumber: 3.8 Consensus size: 40
12207127 TATAAAGAAC
12207137 TCACGCAATGCTCAACAAATATTCAGTCACGTATTACCTG
1 TCACGCAATGCTCAACAAATATTCAGTCACGTATTACCTG
* * * *
12207177 TCACGCAACGCTCAACATATATTCAGTCACGTAATGCCTATAAAG
1 TCACGCAATGCTCAACAAATATTCAGTCACGTATTACC--T---G
12207222 AACTCACGCAATGCTCAACAAATATTCAGTCACGTATTACCTG
1 ---TCACGCAATGCTCAACAAATATTCAGTCACGTATTACCTG
* *
12207265 TCACACAATGCTCAACATATATTCAGTCACGTA
1 TCACGCAATGCTCAACAAATATTCAGTCACGTA
12207298 ATGCCTATAA
Statistics
Matches: 103, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
40 65 0.63
42 1 0.01
43 1 0.01
45 1 0.01
46 1 0.01
48 34 0.33
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (40 bp):
TCACGCAATGCTCAACAAATATTCAGTCACGTATTACCTG
Found at i:12207237 original size:88 final size:88
Alignment explanation
Indices: 12207088--12207338 Score: 448
Period size: 88 Copynumber: 2.9 Consensus size: 88
12207078 CTACAAACAG
* * * *
12207088 GTCACGCCATGCTTAACAAATATTCAGTCACATAATGCCTATAAAGAACTCACGCAATGCTCAAC
1 GTCACGCAATGCTCAACATATATTCAGTCACGTAATGCCTATAAAGAACTCACGCAATGCTCAAC
12207153 AAATATTCAGTCACGTATTACCT
66 AAATATTCAGTCACGTATTACCT
*
12207176 GTCACGCAACGCTCAACATATATTCAGTCACGTAATGCCTATAAAGAACTCACGCAATGCTCAAC
1 GTCACGCAATGCTCAACATATATTCAGTCACGTAATGCCTATAAAGAACTCACGCAATGCTCAAC
12207241 AAATATTCAGTCACGTATTACCT
66 AAATATTCAGTCACGTATTACCT
*
12207264 GTCACACAATGCTCAACATATATTCAGTCACGTAATGCCTATAAAGAACTCACGCAATGCTCAAC
1 GTCACGCAATGCTCAACATATATTCAGTCACGTAATGCCTATAAAGAACTCACGCAATGCTCAAC
12207329 AAATATTCAG
66 AAATATTCAG
12207339 GCACCTAATG
Statistics
Matches: 156, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 156 1.00
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (88 bp):
GTCACGCAATGCTCAACATATATTCAGTCACGTAATGCCTATAAAGAACTCACGCAATGCTCAAC
AAATATTCAGTCACGTATTACCT
Found at i:12215756 original size:25 final size:29
Alignment explanation
Indices: 12215707--12215758 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
12215697 CAATCATTAC
12215707 CAAAAGAAAAAAACATAAAGAGGAAATCA
1 CAAAAGAAAAAAACATAAAGAGGAAATCA
12215736 CAAAA-AAAAAAA-A-AAAG-GGAAAT
1 CAAAAGAAAAAAACATAAAGAGGAAAT
12215759 GTGTGTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 6 0.26
26 4 0.17
27 1 0.04
28 7 0.30
29 5 0.22
ACGTcount: A:0.73, C:0.08, G:0.13, T:0.06
Consensus pattern (29 bp):
CAAAAGAAAAAAACATAAAGAGGAAATCA
Found at i:12215998 original size:20 final size:20
Alignment explanation
Indices: 12215948--12216009 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
12215938 TTATGTTTAA
* *
12215948 ATATTTATTTTAAGTTA-AT
1 ATATTTATTTTATGTTATTT
12215967 A-ATGTTAGTTTTATGTTATTT
1 ATAT-TTA-TTTTATGTTATTT
*
12215988 ATATTTATTTTATATT-TTT
1 ATATTTATTTTATGTTATTT
12216007 ATA
1 ATA
12216010 GGAGTAGGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 2 0.06
19 10 0.28
20 17 0.47
21 5 0.14
22 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (20 bp):
ATATTTATTTTATGTTATTT
Found at i:12216440 original size:19 final size:20
Alignment explanation
Indices: 12216413--12216457 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
12216403 TTCATTTTCT
12216413 TTTCC-TTATTTTCGTT-C-C
1 TTTCCTTTATTTTC-TTACTC
12216431 TTTCCTTTATTTTCTTACTC
1 TTTCCTTTATTTTCTTACTC
12216451 TTTCCTT
1 TTTCCTT
12216458 CTCCTAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.29
19 9 0.38
20 8 0.33
ACGTcount: A:0.07, C:0.27, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTCCTTTATTTTCTTACTC
Found at i:12217447 original size:55 final size:55
Alignment explanation
Indices: 12217365--12217525 Score: 234
Period size: 55 Copynumber: 2.9 Consensus size: 55
12217355 TGATGACGGG
* * *
12217365 TGATTCTAGCTATGTGTGGTGTAGGAGTGCACATGAGCTGATGATCT-GTGGGTGA
1 TGATTCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGA-CTGGTGGATGA
*
12217420 TGATTCTAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATGACTGGTGGATGA
1 TGATTCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACTGGTGGATGA
* * * *
12217475 TGATTCCAGCTATGTGCGGTGCGGGAGTGCACATGAGCTAATGACCGGTGG
1 TGATTCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACTGGTGG
12217526 TTGTATACAT
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 2 0.02
55 94 0.98
ACGTcount: A:0.20, C:0.14, G:0.37, T:0.29
Consensus pattern (55 bp):
TGATTCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACTGGTGGATGA
Found at i:12219539 original size:42 final size:42
Alignment explanation
Indices: 12219377--12219539 Score: 200
Period size: 42 Copynumber: 3.9 Consensus size: 42
12219367 GTAATGATAT
* * * * *
12219377 TGACCCAGCTATGTGCGAGTAGTAGTGTGCATAAGCTGATGC
1 TGACCCAGCTATGTGCGAGTGGGAGTGCGCATAAGCCGCTGC
* * * *
12219419 TGACCCGGCTATGTGCAAATGGGAGTGCGCATAAGCCACTGC
1 TGACCCAGCTATGTGCGAGTGGGAGTGCGCATAAGCCGCTGC
* * *
12219461 TGACTCGGCTATGTGTGAGTGGGAGTGCGCATAAGCCGCTGC
1 TGACCCAGCTATGTGCGAGTGGGAGTGCGCATAAGCCGCTGC
* *
12219503 TGACCCAGCTCTGTGCGAGTGGGAGTGTGCATAAGCC
1 TGACCCAGCTATGTGCGAGTGGGAGTGCGCATAAGCC
12219540 AATGCATATG
Statistics
Matches: 102, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 102 1.00
ACGTcount: A:0.21, C:0.23, G:0.34, T:0.23
Consensus pattern (42 bp):
TGACCCAGCTATGTGCGAGTGGGAGTGCGCATAAGCCGCTGC
Found at i:12223580 original size:11 final size:10
Alignment explanation
Indices: 12223564--12223628 Score: 58
Period size: 11 Copynumber: 6.0 Consensus size: 10
12223554 CCCTTTTTTT
12223564 AATTAATAACA
1 AATTAATAA-A
12223575 AATTAATTAAAA
1 AATTAA-T-AAA
12223587 AATTAATAAA
1 AATTAATAAA
*
12223597 AATTATATAAT
1 AATTA-ATAAA
* *
12223608 AATAAATTTAA
1 AATTAA-TAAA
12223619 AATTAATAAA
1 AATTAATAAA
12223629 GGGTAAAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
10 12 0.27
11 22 0.50
12 8 0.18
13 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (10 bp):
AATTAATAAA
Found at i:12223625 original size:15 final size:16
Alignment explanation
Indices: 12223579--12223628 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
12223569 ATAACAAATT
*
12223579 AATTAAAAAATTAATAAA
1 AATTATAAAATTAAT--A
*
12223597 AATTATATAA-TAATA
1 AATTATAAAATTAATA
12223612 AATT-TAAAATTAATA
1 AATTATAAAATTAATA
12223627 AA
1 AA
12223629 GGGTAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 4 0.14
15 12 0.43
17 4 0.14
18 8 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATTATAAAATTAATA
Found at i:12223965 original size:17 final size:18
Alignment explanation
Indices: 12223943--12223977 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
12223933 ATAATACAAA
*
12223943 AATATAAACATA-AAAAT
1 AATATAAAAATATAAAAT
12223960 AATATAAAAATATAAAAT
1 AATATAAAAATATAAAAT
12223978 GACAAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AATATAAAAATATAAAAT
Found at i:12223973 original size:8 final size:8
Alignment explanation
Indices: 12223929--12223976 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
12223919 TAAGGTTAAT
*
12223929 TATAATAA
1 TATAAAAA
*
12223937 TACAAAAA
1 TATAAAAA
*
12223945 TATAAACA
1 TATAAAAA
*
12223953 TAAAAATAA
1 TATAAA-AA
12223962 TATAAAAA
1 TATAAAAA
12223970 TATAAAA
1 TATAAAA
12223977 TGACAAACTT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
8 26 0.81
9 6 0.19
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (8 bp):
TATAAAAA
Found at i:12232051 original size:77 final size:76
Alignment explanation
Indices: 12231919--12232091 Score: 260
Period size: 77 Copynumber: 2.3 Consensus size: 76
12231909 TGCCATTTAC
* * *
12231919 TTTT-ATTTTGGGTGATTCGTAAAAATAGAAAATTGTTTCCTACTTTAAAAGAAATTCCTAAAAT
1 TTTTAATTTTGGGTAATTCATAAAAATAGAAAATTGTTTCCTACATTAAAAGAAATTCCTAAAAT
12231983 TAAGGATAGAA
66 TAAGGATAGAA
* *
12231994 TTTTAATTTTTGGTAATTCATAAAGAATAGGAAATTGTTTCCTACATTAAAAGAAATTCCTAAAA
1 TTTTAATTTTGGGTAATTCATAAA-AATAGAAAATTGTTTCCTACATTAAAAGAAATTCCTAAAA
*
12232059 TTAAGGATAGCA
65 TTAAGGATAGAA
*
12232071 TTTTAA-TTTGGGAAATTCATA
1 TTTTAATTTTGGGTAATTCATA
12232092 GGAAATAGTT
Statistics
Matches: 88, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
75 4 0.05
76 29 0.33
77 55 0.62
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (76 bp):
TTTTAATTTTGGGTAATTCATAAAAATAGAAAATTGTTTCCTACATTAAAAGAAATTCCTAAAAT
TAAGGATAGAA
Found at i:12234769 original size:63 final size:63
Alignment explanation
Indices: 12234670--12234827 Score: 289
Period size: 63 Copynumber: 2.5 Consensus size: 63
12234660 TCATAGTCGA
*
12234670 CATGTGCACTGCCCACTCAGCACATGCACGGTCGTAATTGTCACAACATTGTCATTCAACCGG
1 CATGTGCACTGCCCACTCCGCACATGCACGGTCGTAATTGTCACAACATTGTCATTCAACCGG
12234733 CATGTGCACTGCCCACTCCGCACATGCACGGTCGTAATTGTCACAACATTGTCATTCAACCGG
1 CATGTGCACTGCCCACTCCGCACATGCACGGTCGTAATTGTCACAACATTGTCATTCAACCGG
* *
12234796 CATGTGCACTGCCCACTCCACACAAGCACGGT
1 CATGTGCACTGCCCACTCCGCACATGCACGGT
12234828 TACATCAATT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 92 1.00
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (63 bp):
CATGTGCACTGCCCACTCCGCACATGCACGGTCGTAATTGTCACAACATTGTCATTCAACCGG
Found at i:12239020 original size:10 final size:10
Alignment explanation
Indices: 12239000--12239034 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
12238990 AAAAGAGATG
12239000 AAAGAAAAAA
1 AAAGAAAAAA
12239010 AATAGAAAAAA
1 AA-AGAAAAAA
12239021 AAAGAAAAAA
1 AAAGAAAAAA
12239031 AAAG
1 AAAG
12239035 TCAAAGCGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:12250124 original size:12 final size:12
Alignment explanation
Indices: 12250107--12250135 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
12250097 TTAAAAATAA
12250107 AAAATCAAAATC
1 AAAATCAAAATC
12250119 AAAATCAAAATC
1 AAAATCAAAATC
12250131 AAAAT
1 AAAAT
12250136 AATAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAATCAAAATC
Found at i:12250146 original size:18 final size:18
Alignment explanation
Indices: 12250100--12250146 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
12250090 CTCTCTTTTA
12250100 AAAATAAAAAATCAAAATC
1 AAAAT-AAAAATCAAAATC
*
12250119 AAAATCAAAATCAAAAT-
1 AAAATAAAAATCAAAATC
12250136 AATAATAAAAA
1 AA-AATAAAAA
12250147 AAAACAATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.08
18 18 0.72
19 5 0.20
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAATAAAAATCAAAATC
Found at i:12264945 original size:15 final size:15
Alignment explanation
Indices: 12264921--12264968 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
12264911 AAGGATGAAC
12264921 AATGCTTTTATATTG
1 AATGCTTTTATATTG
* * *
12264936 AATGCCTTTATTTTT
1 AATGCTTTTATATTG
*
12264951 CATGCTTTTATATTG
1 AATGCTTTTATATTG
12264966 AAT
1 AAT
12264969 ATTTTTATTG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.54
Consensus pattern (15 bp):
AATGCTTTTATATTG
Found at i:12267741 original size:21 final size:21
Alignment explanation
Indices: 12267709--12267773 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
12267699 AAATTGCTTT
12267709 AATGATCTTTGAACTTGTTTG
1 AATGATCTTTGAACTTGTTTG
* *
12267730 AGTGATCCTTGAAC-TGTTTG
1 AATGATCTTTGAACTTGTTTG
* *
12267750 AATGATTTTTGAAGTTGTTTG
1 AATGATCTTTGAACTTGTTTG
12267771 AAT
1 AAT
12267774 ATGTTTTTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 16 0.43
21 21 0.57
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.46
Consensus pattern (21 bp):
AATGATCTTTGAACTTGTTTG
Found at i:12268017 original size:21 final size:21
Alignment explanation
Indices: 12267993--12268035 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12267983 CTATGTGAAA
12267993 AGTTTCAAAATTACTTGAATG
1 AGTTTCAAAATTACTTGAATG
** *
12268014 AGTTTTGAAATTGCTTGAATG
1 AGTTTCAAAATTACTTGAATG
12268035 A
1 A
12268036 TTTTTTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.40
Consensus pattern (21 bp):
AGTTTCAAAATTACTTGAATG
Found at i:12268040 original size:21 final size:21
Alignment explanation
Indices: 12268000--12268060 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
12267990 AAAAGTTTCA
*
12268000 AAATTACTTGAATGAGTTTTG
1 AAATTGCTTGAATGAGTTTTG
* *
12268021 AAATTGCTTGAATGATTTTTT
1 AAATTGCTTGAATGAGTTTTG
* *
12268042 AATTTGTTTGAAT-AGTTTT
1 AAATTGCTTGAATGAGTTTT
12268061 TAAAACTTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 5 0.15
21 29 0.85
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (21 bp):
AAATTGCTTGAATGAGTTTTG
Found at i:12268236 original size:21 final size:20
Alignment explanation
Indices: 12268188--12268269 Score: 103
Period size: 20 Copynumber: 4.0 Consensus size: 20
12268178 AATGGTTCTG
*
12268188 TCCAAAGTGTAT-GCATACAT
1 TCCAAAATGTATCG-ATACAT
*
12268208 TCCAAAATGTATGGATACATT
1 TCCAAAATGTATCGATACA-T
* *
12268229 TTCAAAATGCATCGATACAT
1 TCCAAAATGTATCGATACAT
12268249 TCCAAAATGTATCGATACAT
1 TCCAAAATGTATCGATACAT
12268269 T
1 T
12268270 ATGTCTAGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
20 36 0.67
21 18 0.33
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (20 bp):
TCCAAAATGTATCGATACAT
Found at i:12268696 original size:36 final size:36
Alignment explanation
Indices: 12268650--12268718 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
12268640 ATGTATGTTC
* * *
12268650 GATCCGTAAAAGGCATTGTGTTGAAAGGTTGTGCTT
1 GATCCATAAAAGGCATTATATTGAAAGGTTGTGCTT
*
12268686 GATCCATAAAAGGCATTATATTGAGAGGTTGTG
1 GATCCATAAAAGGCATTATATTGAAAGGTTGTG
12268719 TGTCAAACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.32
Consensus pattern (36 bp):
GATCCATAAAAGGCATTATATTGAAAGGTTGTGCTT
Found at i:12273315 original size:38 final size:40
Alignment explanation
Indices: 12273264--12273366 Score: 138
Period size: 38 Copynumber: 2.6 Consensus size: 40
12273254 ATAGTGCCTG
* * *
12273264 TGTGCACGATGTGGGGGGGTGTACACGATGGCACTGA-T-
1 TGTGCACGATGTGGGGGGATGTACACGAGGGCACCGACTA
* **
12273302 TGTGCACGATGTGGGGGGATGCACACGAGGGTGCCGACTA
1 TGTGCACGATGTGGGGGGATGTACACGAGGGCACCGACTA
12273342 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
12273367 TGAGCTGGGT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 31 0.55
39 1 0.02
40 24 0.43
ACGTcount: A:0.19, C:0.17, G:0.43, T:0.21
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGAGGGCACCGACTA
Found at i:12276581 original size:23 final size:22
Alignment explanation
Indices: 12276540--12276588 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
12276530 TTCAAATGAT
*
12276540 TTTCCTTTCTTCTTCTTTTTTC
1 TTTCCTTTCTTCTTCTTTTCTC
12276562 TTTCCTTTTCTTTCTT-TTTTCTC
1 TTTCC-TTTC-TTCTTCTTTTCTC
12276585 TTTC
1 TTTC
12276589 GCTCCCACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 14 0.58
24 5 0.21
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTCCTTTCTTCTTCTTTTCTC
Found at i:12276582 original size:17 final size:18
Alignment explanation
Indices: 12276539--12276587 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
12276529 TTTCAAATGA
* *
12276539 TTTTCCTTTCT-TCTTCT
1 TTTTTCTTTCTCTTTTCT
12276556 TTTTTCTTTC-CTTTTCT
1 TTTTTCTTTCTCTTTTCT
12276573 TTCTTT-TTTCTCTTT
1 TT-TTTCTTTCTCTTT
12276588 CGCTCCCACC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 20 0.74
18 7 0.26
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTCTTTCTCTTTTCT
Found at i:12277755 original size:30 final size:30
Alignment explanation
Indices: 12277721--12277778 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
12277711 GTTTTAAGGG
12277721 CTTATTTAGTTCAAAATCAAAA-TATAAAAA
1 CTTATTTAGTTCAAAAT-AAAAGTATAAAAA
* *
12277751 CTTATTTGGTTCAAAGTAAAAGTATAAA
1 CTTATTTAGTTCAAAATAAAAGTATAAA
12277779 GGTTTAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (30 bp):
CTTATTTAGTTCAAAATAAAAGTATAAAAA
Found at i:12280310 original size:20 final size:21
Alignment explanation
Indices: 12280285--12280324 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
12280275 ATGTTGACAT
*
12280285 TGGATGCTGACAT-ATCATAA
1 TGGATGATGACATGATCATAA
*
12280305 TGGATGATTACATGATCATA
1 TGGATGATGACATGATCATA
12280325 TGGTATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (21 bp):
TGGATGATGACATGATCATAA
Found at i:12280513 original size:33 final size:33
Alignment explanation
Indices: 12280471--12280539 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
12280461 AAAATAAGAA
*
12280471 TTTATTTAAAAATTTTTAAACAATTTGAGGAGT
1 TTTATTTAAAAATTTTTAAACAATTTGAGGACT
12280504 TTTATTTAAAAATTTTTAAACAATTTGAGGACT
1 TTTATTTAAAAATTTTTAAACAATTTGAGGACT
12280537 TTT
1 TTT
12280540 TAAAGTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (33 bp):
TTTATTTAAAAATTTTTAAACAATTTGAGGACT
Found at i:12285961 original size:22 final size:22
Alignment explanation
Indices: 12285933--12285984 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
12285923 GCTATAGTAA
*
12285933 CTTTCTCGATACGGCAAGAATG
1 CTTTCTCGATACGACAAGAATG
* *
12285955 CTTTCTCGCTACGACGAGAATG
1 CTTTCTCGATACGACAAGAATG
*
12285977 CATTCTCG
1 CTTTCTCG
12285985 TTGCAGCGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (22 bp):
CTTTCTCGATACGACAAGAATG
Found at i:12286319 original size:42 final size:42
Alignment explanation
Indices: 12286273--12286396 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 42
12286263 CATATGGCTG
* *
12286273 GGTCAGTATCGGCTTATGCGCACTCCTACTCGCACATAG-TT
1 GGTCAGCATCGGCTTATGCGCACTCTTACTCGCACATAGCTT
* * *
12286314 AGGTCAGCATCGGCTTATGTGCAAT-TTCACTTGCACATAGCTT
1 -GGTCAGCATCGGCTTATGCGCACTCTT-ACTCGCACATAGCTT
* *
12286357 GATCAGCATCGGCTTATGCACACTCTTACTCGCACATAGC
1 GGTCAGCATCGGCTTATGCGCACTCTTACTCGCACATAGC
12286397 CGGGTCAATA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 64 0.93
43 4 0.06
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (42 bp):
GGTCAGCATCGGCTTATGCGCACTCTTACTCGCACATAGCTT
Found at i:12288346 original size:17 final size:16
Alignment explanation
Indices: 12288324--12288355 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
12288314 TTAAAATTGA
12288324 AATTTTTAAAAATAAAT
1 AATTTTT-AAAATAAAT
12288341 AATTTTTAAAATAAA
1 AATTTTTAAAATAAA
12288356 CCAAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTTTTAAAATAAAT
Found at i:12289980 original size:87 final size:87
Alignment explanation
Indices: 12289821--12289999 Score: 288
Period size: 87 Copynumber: 2.1 Consensus size: 87
12289811 GATAGGAATA
*
12289821 CCAAGAAAGTCTTTGACAATCATTTGCAATGTGGAATACTTTATCCCATTTATCTTCCACCAAGT
1 CCAATAAAGTCTTTGACAATCATTTGCAATGTGGAATACTTTATCCCATTTATCTTCCACCAAGT
* *
12289886 CAGAATATATATATAAA-AAAAC
66 CACAATATAT-TAAAAATAAAAC
* *
12289908 CCAATAAAGTCTTTGACAATCATTTGCAATGTGGAATACTTTATCCCATTTGTCTTCCACCAATT
1 CCAATAAAGTCTTTGACAATCATTTGCAATGTGGAATACTTTATCCCATTTATCTTCCACCAAGT
*
12289973 TACAATATATTAAAAATAAAAC
66 CACAATATATTAAAAATAAAAC
12289995 CCAAT
1 CCAAT
12290000 GCATAGAAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
86 5 0.06
87 80 0.94
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (87 bp):
CCAATAAAGTCTTTGACAATCATTTGCAATGTGGAATACTTTATCCCATTTATCTTCCACCAAGT
CACAATATATTAAAAATAAAAC
Found at i:12290726 original size:30 final size:30
Alignment explanation
Indices: 12290690--12290750 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
12290680 TCATCCTGTT
12290690 AGCTTTAAAATGATTATAGTTTTGATTATG
1 AGCTTTAAAATGATTATAGTTTTGATTATG
*
12290720 AGCTTTAAAATGATTATATTTTTGATTATG
1 AGCTTTAAAATGATTATAGTTTTGATTATG
12290750 A
1 A
12290751 CAAAATGATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.15, T:0.48
Consensus pattern (30 bp):
AGCTTTAAAATGATTATAGTTTTGATTATG
Found at i:12290733 original size:18 final size:17
Alignment explanation
Indices: 12290689--12290737 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 17
12290679 ATCATCCTGT
12290689 TAGCTTTAAAATGATTA
1 TAGCTTTAAAATGATTA
12290706 TAG-TTT----TGATTA
1 TAGCTTTAAAATGATTA
12290718 TGAGCTTTAAAATGATTA
1 T-AGCTTTAAAATGATTA
12290736 TA
1 TA
12290738 TTTTTGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
12 7 0.27
13 2 0.08
14 3 0.12
16 3 0.12
17 4 0.15
18 7 0.27
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (17 bp):
TAGCTTTAAAATGATTA
Found at i:12292242 original size:19 final size:19
Alignment explanation
Indices: 12292198--12292235 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
12292188 CCATTTGACT
*
12292198 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
12292217 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
12292236 GTTTAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:12304718 original size:43 final size:43
Alignment explanation
Indices: 12304657--12304747 Score: 155
Period size: 43 Copynumber: 2.1 Consensus size: 43
12304647 CTCTACGGCA
12304657 GGTCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTG
1 GGTCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTG
* * *
12304700 GGTCATCATCAGCTCATGTGCACTCCCACATCGTACATAGCTG
1 GGTCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTG
12304743 GGTCA
1 GGTCA
12304748 ACATTATCAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (43 bp):
GGTCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTG
Found at i:12306110 original size:15 final size:16
Alignment explanation
Indices: 12306092--12306121 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
12306082 AACCACTTTT
12306092 TGTAAAA-CTTTGCAA
1 TGTAAAACCTTTGCAA
12306107 TGTAAAACCTTTGCA
1 TGTAAAACCTTTGCA
12306122 TGAGGTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (16 bp):
TGTAAAACCTTTGCAA
Found at i:12307217 original size:21 final size:22
Alignment explanation
Indices: 12307186--12307244 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
12307176 CTTTTTTGTT
12307186 TTTCTTC-TTTCTTCCTTT-TCC
1 TTTCTTCTTTTCTT-CTTTCTCC
*
12307207 TTTC-TCTTTTCATCTTTCTCC
1 TTTCTTCTTTTCTTCTTTCTCC
12307228 TTTCTTCTTTTC-TCTTT
1 TTTCTTCTTTTCTTCTTT
12307245 TTGCTTCCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 6 0.18
21 21 0.62
22 7 0.21
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTCTTCTTTTCTTCTTTCTCC
Found at i:12307223 original size:14 final size:14
Alignment explanation
Indices: 12307185--12307245 Score: 63
Period size: 14 Copynumber: 4.3 Consensus size: 14
12307175 CCTTTTTTGT
12307185 TTTTCTTCTTTCTTCC
1 TTTTCTTCTTTC-T-C
12307201 TTTTC--CTTTCTC
1 TTTTCTTCTTTCTC
*
12307213 TTTTCATCTTTCTC
1 TTTTCTTCTTTCTC
*
12307227 CTTTCTTCTTTTCTC
1 TTTTCTTC-TTTCTC
12307242 TTTT
1 TTTT
12307246 TGCTTCCAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 6 0.15
13 1 0.03
14 18 0.46
15 9 0.23
16 5 0.13
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTCTTTCTC
Found at i:12310408 original size:13 final size:13
Alignment explanation
Indices: 12310390--12310414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12310380 TTCCAAAAAA
12310390 TTTATAAAATCAT
1 TTTATAAAATCAT
12310403 TTTATAAAATCA
1 TTTATAAAATCA
12310415 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:12312307 original size:29 final size:30
Alignment explanation
Indices: 12312241--12312314 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
12312231 ATGTGCTAGT
*
12312241 TATTATGGATATTCAATATGTCTTGTTTGCC
1 TATTATGGATATT-AATATATCTTGTTTGCC
* *
12312272 TACTATGGATATT-GTATATCTTGTTTAG-C
1 TATTATGGATATTAATATATCTTGTTT-GCC
12312301 TATTATGGATATTA
1 TATTATGGATATTA
12312315 TAAATATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 24 0.65
30 1 0.03
31 12 0.32
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.49
Consensus pattern (30 bp):
TATTATGGATATTAATATATCTTGTTTGCC
Found at i:12334229 original size:2 final size:2
Alignment explanation
Indices: 12334222--12334263 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
12334212 GCTACACATG
12334222 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12334264 AACACGAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12334430 original size:63 final size:63
Alignment explanation
Indices: 12334322--12334486 Score: 197
Period size: 63 Copynumber: 2.6 Consensus size: 63
12334312 ATATCATTAT
* * *
12334322 CGGCATGTGCACTGCCCACTCCGCACATGCACAGTTGCAAGTGTCACAACATTGTCATTCGAC
1 CGGCATATGCACTGCCCACTCCGCACATGCACAGTTGCAAGTGTCACAACATCGTCATTCAAC
* ** * * *
12334385 CGGCATATGCACTGCCCATTCCGCATGTGCACGGTTG-TAGTTGTCACAACATCGTCATTCAAT
1 CGGCATATGCACTGCCCACTCCGCACATGCACAGTTGCAAG-TGTCACAACATCGTCATTCAAC
* * * *
12334448 CAGCATATGCATTGCCCACTCTGCACATGCACAATTGCA
1 CGGCATATGCACTGCCCACTCCGCACATGCACAGTTGCA
12334487 TCAATTACAC
Statistics
Matches: 82, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
62 2 0.02
63 80 0.98
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (63 bp):
CGGCATATGCACTGCCCACTCCGCACATGCACAGTTGCAAGTGTCACAACATCGTCATTCAAC
Found at i:12339496 original size:41 final size:43
Alignment explanation
Indices: 12339451--12339539 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 43
12339441 ACAACTAATC
*
12339451 CATCA-TGT-GCTCCCCCACATTGCGCACATAGGCAATATCAT
1 CATCATTGTCGCTCCCCCACATCGCGCACATAGGCAATATCAT
*
12339492 CATCATTGTGCGCTCCCCCACATCGGGCACATAGGCAATATCAT
1 CATCATTGT-CGCTCCCCCACATCGCGCACATAGGCAATATCAT
12339536 CATC
1 CATC
12339540 CACACTCCCG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
41 5 0.12
42 3 0.07
44 35 0.81
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.24
Consensus pattern (43 bp):
CATCATTGTCGCTCCCCCACATCGCGCACATAGGCAATATCAT
Found at i:12340193 original size:20 final size:19
Alignment explanation
Indices: 12340163--12340213 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
12340153 ATGGGAGAAA
12340163 GAAAAATAAGAACCTGCTG
1 GAAAAATAAGAACCTGCTG
* *
12340182 GAAAAATAAAGAAGCTGTTG
1 GAAAAAT-AAGAACCTGCTG
* *
12340202 GAGAAATGAGAA
1 GAAAAATAAGAA
12340214 ATTTATAGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.51, C:0.08, G:0.25, T:0.16
Consensus pattern (19 bp):
GAAAAATAAGAACCTGCTG
Found at i:12344416 original size:35 final size:35
Alignment explanation
Indices: 12344367--12344579 Score: 309
Period size: 35 Copynumber: 6.1 Consensus size: 35
12344357 ATAGCCGAAG
* *
12344367 TCATTGTGTGCACTCCCTACTCGCACACTTCAACA
1 TCATCGTGTGCACTCCCTACTCGCACACATCAACA
* * *
12344402 TCATCTTGTGCACTCTCTACTCGCACACCTCAACA
1 TCATCGTGTGCACTCCCTACTCGCACACATCAACA
*
12344437 TCATCGTGTACACTCCCTACTCGCACACATCAACA
1 TCATCGTGTGCACTCCCTACTCGCACACATCAACA
* * * *
12344472 TCATCGTGTGAACTCCCTATTCTCACACCTCAACA
1 TCATCGTGTGCACTCCCTACTCGCACACATCAACA
* *
12344507 TCATCGTGTGCACTCCCTACTCACACATATCAACA
1 TCATCGTGTGCACTCCCTACTCGCACACATCAACA
*
12344542 TCATCGTGTGCACTCCCTACTCGCACACATCAATA
1 TCATCGTGTGCACTCCCTACTCGCACACATCAACA
12344577 TCA
1 TCA
12344580 CTATCCACAC
Statistics
Matches: 157, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 157 1.00
ACGTcount: A:0.26, C:0.38, G:0.09, T:0.27
Consensus pattern (35 bp):
TCATCGTGTGCACTCCCTACTCGCACACATCAACA
Found at i:12345314 original size:22 final size:22
Alignment explanation
Indices: 12345276--12345319 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
12345266 ACTTCCATCA
12345276 AACACTTTCTAAGTTTACATGT
1 AACACTTTCTAAGTTTACATGT
*
12345298 AACACTATTCTCA-TTTACATGT
1 AACACT-TTCTAAGTTTACATGT
12345320 TGCCACCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (22 bp):
AACACTTTCTAAGTTTACATGT
Found at i:12350732 original size:43 final size:44
Alignment explanation
Indices: 12350670--12350793 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 44
12350660 ATTAACTCAA
* * *
12350670 CTATGTGCGAGTAAGGAGTGTGCATAAGCTGAG-GATGACCCGG
1 CTATGTGCGAGTAGGGAGTGCGCATAAGCTGAGTGATGACCCAG
* * * *
12350713 TTATGTGCGAGTAGGGAGTGCACATAACCCG-GTGATGACCCAG
1 CTATGTGCGAGTAGGGAGTGCGCATAAGCTGAGTGATGACCCAG
* *
12350756 CCATGTGCGAGTAGGGAGTGCGCATGAGCT-AGTGATGA
1 CTATGTGCGAGTAGGGAGTGCGCATAAGCTGAGTGATGA
12350794 TGATGATGGG
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
42 1 0.02
43 65 0.98
ACGTcount: A:0.25, C:0.18, G:0.36, T:0.21
Consensus pattern (44 bp):
CTATGTGCGAGTAGGGAGTGCGCATAAGCTGAGTGATGACCCAG
Found at i:12351245 original size:60 final size:59
Alignment explanation
Indices: 12351138--12351292 Score: 168
Period size: 60 Copynumber: 2.6 Consensus size: 59
12351128 CTGCAGCAAA
* * * * ** **
12351138 ATTCATTCTCGTTGCAGCGAGAAACTTTCTGTTTTTGGGTTGCAATTTCACTACAGCGAG
1 ATTCAATCTCGCTGCAGCGAAAAACTTTCT-TTTCTAAGTTATAATTTCACTACAGCGAG
* * * *
12351198 ATTCAATCTCGCTGTAGC-AAGAAACTTTCTATTTCTAAGTTATAATTTCGCTGCAGGGAG
1 ATTCAATCTCGCTGCAGCGAA-AAACTTTCT-TTTCTAAGTTATAATTTCACTACAGCGAG
12351258 ATTCAATCTCGCTGCAGCGAAAAACTTTCTTTTCT
1 ATTCAATCTCGCTGCAGCGAAAAACTTTCTTTTCT
12351293 CCTATCTTGT
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
59 6 0.08
60 71 0.90
61 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (59 bp):
ATTCAATCTCGCTGCAGCGAAAAACTTTCTTTTCTAAGTTATAATTTCACTACAGCGAG
Found at i:12353363 original size:18 final size:18
Alignment explanation
Indices: 12353340--12353378 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
12353330 TTTAATTTTT
12353340 TTGAAATTTAGAGATTCA
1 TTGAAATTTAGAGATTCA
12353358 TTGAAATTTAGAGATTCA
1 TTGAAATTTAGAGATTCA
12353376 TTG
1 TTG
12353379 TTAAAATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (18 bp):
TTGAAATTTAGAGATTCA
Found at i:12355360 original size:22 final size:22
Alignment explanation
Indices: 12355325--12355373 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
12355315 TAGTGGTATT
*
12355325 AGAGCCTTTGGTTTTAAAGAAC
1 AGAGCCTTTAGTTTTAAAGAAC
* *
12355347 AGAGCTTTTAGTTTTAAAGATC
1 AGAGCCTTTAGTTTTAAAGAAC
12355369 AGAGC
1 AGAGC
12355374 ACAGAGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (22 bp):
AGAGCCTTTAGTTTTAAAGAAC
Found at i:12359627 original size:21 final size:21
Alignment explanation
Indices: 12359581--12359628 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
12359571 ACCCTAGGTG
*
12359581 GAAAAATTCAAGGGAAAAGTA
1 GAAAAATTCAAGGAAAAAGTA
*
12359602 TAAAAATTCAAGGAAACAAGT-
1 GAAAAATTCAAGGAAA-AAGTA
12359623 GAAAAA
1 GAAAAA
12359629 AAGGTAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.60, C:0.06, G:0.19, T:0.15
Consensus pattern (21 bp):
GAAAAATTCAAGGAAAAAGTA
Found at i:12359629 original size:22 final size:21
Alignment explanation
Indices: 12359582--12359622 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
12359572 CCCTAGGTGG
*
12359582 AAAAATTCAAGGGAAAAGTAT
1 AAAAATTCAAGGAAAAAGTAT
12359603 AAAAATTCAAGGAAACAAGT
1 AAAAATTCAAGGAAA-AAGT
12359623 GAAAAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.59, C:0.07, G:0.17, T:0.17
Consensus pattern (21 bp):
AAAAATTCAAGGAAAAAGTAT
Found at i:12370850 original size:18 final size:18
Alignment explanation
Indices: 12370827--12370861 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12370817 CCATAGTCTT
12370827 TTTTCCCTTGGTTGGTGG
1 TTTTCCCTTGGTTGGTGG
*
12370845 TTTTCCCTTTGTTGGTG
1 TTTTCCCTTGGTTGGTG
12370862 CTGCAGTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.29, T:0.54
Consensus pattern (18 bp):
TTTTCCCTTGGTTGGTGG
Found at i:12380398 original size:2 final size:2
Alignment explanation
Indices: 12380383--12380429 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
12380373 TATTGGTGTT
* * *
12380383 TA TA TA TG TG TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12380425 TA TA T
1 TA TA T
12380430 GTTTATTGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:12391308 original size:2 final size:2
Alignment explanation
Indices: 12391301--12391363 Score: 94
Period size: 2 Copynumber: 32.0 Consensus size: 2
12391291 TAACCTGCGA
*
12391301 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ANG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
12391344 A- AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
12391364 GAATTCACAA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
1 2 0.04
2 53 0.95
3 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:12392015 original size:2 final size:2
Alignment explanation
Indices: 12392010--12392037 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12392000 AAAAATAAAA
12392010 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
12392038 TACTACTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12394284 original size:3 final size:3
Alignment explanation
Indices: 12394276--12394305 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
12394266 AGCCAAAGAG
12394276 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
12394306 GAGAAACAGA
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:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:12394330 original size:17 final size:17
Alignment explanation
Indices: 12394308--12394341 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12394298 TTCTTCTTGA
12394308 GAAACAGAGACAAAGAG
1 GAAACAGAGACAAAGAG
12394325 GAAACAGAGACAAAGAG
1 GAAACAGAGACAAAGAG
12394342 AGAGAGAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.12, G:0.29, T:0.00
Consensus pattern (17 bp):
GAAACAGAGACAAAGAG
Found at i:12396951 original size:2 final size:2
Alignment explanation
Indices: 12396944--12396969 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12396934 AAGATTGTGA
12396944 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
12396970 GTATTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12397705 original size:2 final size:2
Alignment explanation
Indices: 12397698--12397727 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12397688 TTCAACATGC
12397698 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12397728 TAGACAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12406857 original size:2 final size:2
Alignment explanation
Indices: 12406850--12406955 Score: 72
Period size: 2 Copynumber: 53.0 Consensus size: 2
12406840 ATACAAACAA
* * * * * *
12406850 AT AT AT AT TT TT AT AT AT GT AT AT AA AT AT AT AT AC AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
12406892 GT AT AT AT AT AT TT AT AGT -T AT AT AC AT GT AT -T ACT AT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT
* *
12406934 AC AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
12406956 TTATCATATT
Statistics
Matches: 78, Mismatches: 22, Indels: 8
0.72 0.20 0.07
Matches are distributed among these distances:
1 2 0.03
2 73 0.94
3 3 0.04
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12407627 original size:22 final size:21
Alignment explanation
Indices: 12407585--12407627 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
12407575 ACAACCCGTA
*
12407585 GCACGCAACAAGGTAGATTGT
1 GCACGCAACAAGCTAGATTGT
* *
12407606 GCACAGCAACGAGCTAGCTTGT
1 GCAC-GCAACAAGCTAGATTGT
12407628 AGCCCTGCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (21 bp):
GCACGCAACAAGCTAGATTGT
Found at i:12410460 original size:43 final size:43
Alignment explanation
Indices: 12410390--12410495 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
12410380 TATTAACTCG
* * * * **
12410390 GCTATGTGCAAGTAGGGAGTGCGCATAAGCCGAG-GATGACCTG
1 GCTATGTGCGAGTAGGGAGTACCCATAA-CCCAGTGATGACCCA
*
12410433 GTTATGTGCGAGTAGGGAGTACCCATAACCCAGTGATGACCCA
1 GCTATGTGCGAGTAGGGAGTACCCATAACCCAGTGATGACCCA
*
12410476 GCCATGTGCGAGTAGGGAGT
1 GCTATGTGCGAGTAGGGAGT
12410496 GCCATGAGCT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 4 0.08
43 49 0.92
ACGTcount: A:0.25, C:0.20, G:0.35, T:0.20
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTACCCATAACCCAGTGATGACCCA
Found at i:12410566 original size:26 final size:23
Alignment explanation
Indices: 12410510--12410569 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
12410500 TGAGCTGGTG
12410510 ATGATGATGATGGGATGGTGTGC
1 ATGATGATGATGGGATGGTGTGC
*
12410533 ATGATGATGATGGGATTGTGTGC
1 ATGATGATGATGGGATGGTGTGC
* *
12410556 ATAATGGTGATGGG
1 ATGATGATGATGGG
12410570 TATATGTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.23, C:0.03, G:0.42, T:0.32
Consensus pattern (23 bp):
ATGATGATGATGGGATGGTGTGC
Found at i:12412062 original size:13 final size:13
Alignment explanation
Indices: 12412044--12412068 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12412034 TTTCAGAAAA
12412044 TTTATAAAATCAT
1 TTTATAAAATCAT
12412057 TTTATAAAATCA
1 TTTATAAAATCA
12412069 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:12414761 original size:21 final size:21
Alignment explanation
Indices: 12414735--12414775 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
12414725 AAGTCGATTC
*
12414735 TAGTGCATAGAGGGTTAATCT
1 TAGTGCATAGAGGGTCAATCT
12414756 TAGTGCATAGAGGGTCAATC
1 TAGTGCATAGAGGGTCAATC
12414776 CTATGAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (21 bp):
TAGTGCATAGAGGGTCAATCT
Found at i:12415932 original size:19 final size:19
Alignment explanation
Indices: 12415908--12415945 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12415898 CCATTTGACT
12415908 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
12415927 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
12415946 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:12417197 original size:13 final size:13
Alignment explanation
Indices: 12417179--12417203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12417169 GGAGAAATTG
12417179 TGATTTTATAAAA
1 TGATTTTATAAAA
12417192 TGATTTTATAAA
1 TGATTTTATAAA
12417204 TTTTTTGGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:12423941 original size:16 final size:16
Alignment explanation
Indices: 12423920--12423950 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12423910 AAGCATCACA
*
12423920 AAAATATTTAGCTTTG
1 AAAATATCTAGCTTTG
12423936 AAAATATCTAGCTTT
1 AAAATATCTAGCTTT
12423951 TACAAAACAA
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:0.39, C:0.10, G:0.10, T:0.42
Consensus pattern (16 bp):
AAAATATCTAGCTTTG
Found at i:12427408 original size:14 final size:14
Alignment explanation
Indices: 12427386--12427436 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
12427376 GTCATAAATT
*
12427386 TTAAATGATGAATG
1 TTAATTGATGAATG
12427400 TTAATTGATGAATG
1 TTAATTGATGAATG
* *
12427414 TTACTTGATGTATG
1 TTAATTGATGAATG
12427428 TTAA-TGATG
1 TTAATTGATG
12427437 TAGTTGATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
13 5 0.15
14 28 0.85
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (14 bp):
TTAATTGATGAATG
Found at i:12440969 original size:13 final size:13
Alignment explanation
Indices: 12440951--12440975 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12440941 ATTAAATATG
12440951 AAATAATTATTCC
1 AAATAATTATTCC
12440964 AAATAATTATTC
1 AAATAATTATTC
12440976 AAACTTGAAA
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:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATAATTATTCC
Found at i:12448480 original size:37 final size:36
Alignment explanation
Indices: 12448426--12448547 Score: 190
Period size: 37 Copynumber: 3.3 Consensus size: 36
12448416 TGATGATGGG
*
12448426 TGATGATGTTGAGGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGATGA-GTGTGCGAGTAGGGAGTGCACACA
12448463 TGATGATGATAGAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGAT-GAGTGTGCGAGTAGGGAGTGCACACA
* *
12448500 TGACGAGGATGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGATG-AGTGTGCGAGTAGGGAGTGCACACA
12448537 TGATGATGATG
1 TGATGATGATG
12448548 TATGTATATG
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
36 1 0.01
37 75 0.96
38 2 0.03
ACGTcount: A:0.28, C:0.11, G:0.39, T:0.22
Consensus pattern (36 bp):
TGATGATGATGAGTGTGCGAGTAGGGAGTGCACACA
Found at i:12448834 original size:30 final size:30
Alignment explanation
Indices: 12448795--12448870 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
12448785 CCAGAATTGG
* *
12448795 TTCTTGCTGCAGCGAGGAAGTTATTGTAGC
1 TTCTCGCTGCAGCGAGGAAGTTATTATAGC
*
12448825 TTCTCGCTGCAGTGAGGAAGTTATTATAGC
1 TTCTCGCTGCAGCGAGGAAGTTATTATAGC
12448855 TTCTCGCTGCAGCGAG
1 TTCTCGCTGCAGCGAG
12448871 AAACTTTTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.32
Consensus pattern (30 bp):
TTCTCGCTGCAGCGAGGAAGTTATTATAGC
Found at i:12456565 original size:63 final size:63
Alignment explanation
Indices: 12456466--12456634 Score: 293
Period size: 63 Copynumber: 2.7 Consensus size: 63
12456456 AATTGATGCA
*
12456466 ACCGTGCATGTGCGGAGTGGGAAGTGCAATGTCAGTTGAATGACAAAGGATGTGATAATTACG
1 ACCGTGCATGTGCGGAGTGGGAAGTGCAATGCCAGTTGAATGACAAAGGATGTGATAATTACG
12456529 ACCGTGCATGTGCGGAGTGGGAAGTGCAATGCCAGTTGAATGACAAAGGATGTGATAATTACG
1 ACCGTGCATGTGCGGAGTGGGAAGTGCAATGCCAGTTGAATGACAAAGGATGTGATAATTACG
* * * *
12456592 ACCGTGCATGTGCAGAGTGAGAAGTGCAATGCCGGTTTAATGA
1 ACCGTGCATGTGCGGAGTGGGAAGTGCAATGCCAGTTGAATGA
12456635 TACAGGTTGT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 101 1.00
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (63 bp):
ACCGTGCATGTGCGGAGTGGGAAGTGCAATGCCAGTTGAATGACAAAGGATGTGATAATTACG
Found at i:12464546 original size:27 final size:29
Alignment explanation
Indices: 12464511--12464564 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
12464501 CGGAGTATAG
*
12464511 GGGCAAAATC-GTAATTTTTTCACTCCGA
1 GGGCAAAATCGGTAAATTTTTCACTCCGA
12464539 GGGC-AAATCGGTAAATTTTTCACTCC
1 GGGCAAAATCGGTAAATTTTTCACTCC
12464565 AGCACTTGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (29 bp):
GGGCAAAATCGGTAAATTTTTCACTCCGA
Found at i:12465850 original size:42 final size:42
Alignment explanation
Indices: 12465784--12465871 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
12465774 TGTTGATTTG
*
12465784 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
12465826 GACCCGACTATGTGTGAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
12465868 GACC
1 GACC
12465872 AGGCTATACG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.22, C:0.24, G:0.33, T:0.22
Consensus pattern (42 bp):
GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:12465944 original size:29 final size:29
Alignment explanation
Indices: 12465899--12465967 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
12465889 GCCGTTGCAT
*
12465899 ATGA-GATGATGATGATGGGATGGTGTGC
1 ATGATGATGATGATGATGGGATGATGTGC
12465927 ATGATGATGATGATGATGGGATGATGTGC
1 ATGATGATGATGATGATGGGATGATGTGC
*
12465956 ATGTTGATGATG
1 ATGATGATGATG
12465968 GGTATATGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 4 0.11
29 34 0.89
ACGTcount: A:0.26, C:0.03, G:0.39, T:0.32
Consensus pattern (29 bp):
ATGATGATGATGATGATGGGATGATGTGC
Found at i:12465964 original size:20 final size:20
Alignment explanation
Indices: 12465903--12465952 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 20
12465893 TTGCATATGA
*
12465903 GATGATGATGATGGGATGGTGTG
1 GATGATGATGAT--GATGATG-G
*
12465926 CATGATGATGATGATGATGG
1 GATGATGATGATGATGATGG
12465946 GATGATG
1 GATGATG
12465953 TGCATGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
23 11 0.46
ACGTcount: A:0.26, C:0.02, G:0.42, T:0.30
Consensus pattern (20 bp):
GATGATGATGATGATGATGG
Found at i:12470404 original size:12 final size:12
Alignment explanation
Indices: 12470389--12470415 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
12470379 AAAAGAGAAG
12470389 TTTTAACTAGGT
1 TTTTAACTAGGT
12470401 TTTTAACTAGGT
1 TTTTAACTAGGT
12470413 TTT
1 TTT
12470416 CTTTGAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (12 bp):
TTTTAACTAGGT
Found at i:12478422 original size:36 final size:36
Alignment explanation
Indices: 12478357--12478455 Score: 110
Period size: 36 Copynumber: 2.8 Consensus size: 36
12478347 CTCACCCAAC
* * * * *
12478357 TCATGTGCACTCCCACACCGCACATAGCTAGA-GTCA
1 TCATGTGCACCCCCACATCGCGCACAGCTA-ATGCCA
* *
12478393 TCATGTGCAGCCCCACATTGCGCACAGCTAATGCCA
1 TCATGTGCACCCCCACATCGCGCACAGCTAATGCCA
*
12478429 TCATGTGCTCCCCCACATCGCGCACAG
1 TCATGTGCACCCCCACATCGCGCACAG
12478456 GCAATATCAT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
35 1 0.02
36 51 0.98
ACGTcount: A:0.24, C:0.38, G:0.18, T:0.19
Consensus pattern (36 bp):
TCATGTGCACCCCCACATCGCGCACAGCTAATGCCA
Found at i:12478467 original size:36 final size:36
Alignment explanation
Indices: 12478357--12478468 Score: 102
Period size: 36 Copynumber: 3.1 Consensus size: 36
12478347 CTCACCCAAC
* * * * *
12478357 TCATGTGCACTCCCACACCGCACATAGCTAGA-GTCA
1 TCATGTGCACCCCCACATCGCGCACAGCTA-ATATCA
* * **
12478393 TCATGTGCAGCCCCACATTGCGCACAGCTAATGCCA
1 TCATGTGCACCCCCACATCGCGCACAGCTAATATCA
*
12478429 TCATGTGCTCCCCCACATCGCGCACAGGC-AATATCA
1 TCATGTGCACCCCCACATCGCGCACA-GCTAATATCA
12478465 TCAT
1 TCAT
12478469 TCACACTCCC
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
35 1 0.02
36 59 0.95
37 2 0.03
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.21
Consensus pattern (36 bp):
TCATGTGCACCCCCACATCGCGCACAGCTAATATCA
Found at i:12482469 original size:49 final size:49
Alignment explanation
Indices: 12482397--12482491 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 49
12482387 TGAGGCCTAT
*
12482397 TCAATCCACTTTATAACAAAATCATGGGAAGTGGAGACCTACTTAACAC
1 TCAATCCACTTTACAACAAAATCATGGGAAGTGGAGACCTACTTAACAC
* *
12482446 TCAATCCACTTTACCACAAAATCATGGGAAGTTGAGACCTACTTAA
1 TCAATCCACTTTACAACAAAATCATGGGAAGTGGAGACCTACTTAA
12482492 TCCACTTTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (49 bp):
TCAATCCACTTTACAACAAAATCATGGGAAGTGGAGACCTACTTAACAC
Found at i:12482509 original size:42 final size:41
Alignment explanation
Indices: 12482444--12482581 Score: 168
Period size: 42 Copynumber: 3.3 Consensus size: 41
12482434 CCTACTTAAC
*
12482444 ACTCAATCCACTTTACCACAAAATCATGGGAAGTTGAGACCT
1 ACTCAATCCACTTTACC-CAAAATCATGGGAAGTAGAGACCT
* * *
12482486 ACTTAATCCACTTTACCCTAAAATCATTGGAAGTAGAGACAT
1 ACTCAATCCACTTTACCC-AAAATCATGGGAAGTAGAGACCT
* * *
12482528 ACTCAATCTACTTTACAACAAAATCATGGGAATGTGGAGACCT
1 ACTCAATCCACTTTAC-CCAAAATCATGGGAA-GTAGAGACCT
*
12482571 TCTCAATCCAC
1 ACTCAATCCAC
12482582 ATCACAACAC
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.01
42 62 0.77
43 18 0.22
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (41 bp):
ACTCAATCCACTTTACCCAAAATCATGGGAAGTAGAGACCT
Found at i:12483749 original size:16 final size:16
Alignment explanation
Indices: 12483728--12483758 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12483718 ATTTGGATTC
12483728 AATAAAAATATAAAAA
1 AATAAAAATATAAAAA
*
12483744 AATAAAAATCTAAAA
1 AATAAAAATATAAAA
12483759 GAATCATAAT
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:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AATAAAAATATAAAAA
Found at i:12488098 original size:80 final size:80
Alignment explanation
Indices: 12488012--12488290 Score: 350
Period size: 80 Copynumber: 3.5 Consensus size: 80
12488002 ATCATCATAG
* *
12488012 TTAGCCCATAGTGTATATGACTATCTCAACACATAAATCTCATGGCATACATTTCATAATCTCAT
1 TTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATGGCATACATTTCATAGTCTCAT
12488077 AAATCACTTACATGC
66 AAATCACTTACATGC
* * * *
12488092 TTAGCCCATAATGTATATGACTATCTCAACACATACATCTCATGGCGTACATTTCACAGTCTTAT
1 TTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATGGCATACATTTCATAGTCTCAT
*
12488157 GAATCACTTACATGC
66 AAATCACTTACATGC
* ** * * * * *
12488172 TTAACGTATAGTTTATATGACTATATCAACATATACATCTCATGACATACATTTCATAGCCTCAT
1 TTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATGGCATACATTTCATAGTCTCAT
*
12488237 AAAT--C--ACATGT
66 AAATCACTTACATGC
* * * *
12488248 TTATCCCATAGTGCATATGACTATCTCAACATATACATTTCAT
1 TTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCAT
12488291 AAATGGAACT
Statistics
Matches: 171, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
76 41 0.24
78 1 0.01
80 129 0.75
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (80 bp):
TTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATGGCATACATTTCATAGTCTCAT
AAATCACTTACATGC
Found at i:12489609 original size:16 final size:16
Alignment explanation
Indices: 12489584--12489615 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12489574 ATAAAAATAT
12489584 CAAAAAAATCAAAATC
1 CAAAAAAATCAAAATC
*
12489600 CAAAAGAATCAAAATC
1 CAAAAAAATCAAAATC
12489616 TAAATTTGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.19, G:0.03, T:0.12
Consensus pattern (16 bp):
CAAAAAAATCAAAATC
Done.