Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 344 of 410
Found at i:106174598 original size:54 final size:54
Alignment explanation
Indices: 106174457--106174600 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
106174447 GTGATGGAGT
* *
106174457 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
106174511 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
106174565 CACCAGATCAGATAATCGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
106174601 GCTTCCTCCA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 81 0.94
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:106174730 original size:26 final size:27
Alignment explanation
Indices: 106174701--106174776 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
106174691 CAAAATTAAC
*
106174701 CCTAGGGGTATAACAGTAATTTTGC-A
1 CCTAGGGGTATAACAGTAATTTTCCAA
106174727 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAACAGTAATTTTCCA-A
* * *
106174755 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
106174777 AGCTGCTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.55
28 20 0.45
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCCAA
Found at i:106176249 original size:26 final size:26
Alignment explanation
Indices: 106176218--106176325 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
106176208 TGAAATGCCC
*
106176218 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
106176244 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
106176270 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
106176296 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
106176322 ATCA
1 ATCA
106176326 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:106181595 original size:26 final size:27
Alignment explanation
Indices: 106181559--106181716 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
106181549 GCGAGGCTGC
*
106181559 CAGATATTGT-G-ATGAGTCACCAGATA
1 CAGATATTGTGGCA-GAGCCACCAGATA
106181585 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
106181611 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
106181638 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
106181665 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
106181692 CAGATAATTATGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
106181717 GACGCTTCCT
Statistics
Matches: 116, Mismatches: 7, Indels: 17
0.83 0.05 0.12
Matches are distributed among these distances:
26 20 0.17
27 91 0.78
28 5 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:106181717 original size:54 final size:54
Alignment explanation
Indices: 106181576--106181719 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
106181566 TGTGATGAGT
* *
106181576 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
106181630 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
106181684 CACCAGATCAGATAATTATGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
106181720 GCTTCCTCCA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 81 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:106181849 original size:26 final size:27
Alignment explanation
Indices: 106181820--106181895 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
106181810 CAAAATTAAC
*
106181820 CCTAGGGGTATAACAGTAATTTTGC-A
1 CCTAGGGGTATAACAGTAATTTTCCAA
106181846 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAACAGTAATTTTCCA-A
* * *
106181874 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
106181896 AGCTGCTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.55
28 20 0.45
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCCAA
Found at i:106183359 original size:26 final size:26
Alignment explanation
Indices: 106183328--106183431 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
106183318 TGAAATGCCC
106183328 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
106183354 ATCATGGAACATTTA--T-AACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
106183377 ATCATGGAATA-TTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
106183402 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
106183428 ATCA
1 ATCA
106183432 ATTTGTACCA
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
22 3 0.04
23 17 0.24
24 2 0.03
25 16 0.23
26 32 0.46
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:106183401 original size:48 final size:51
Alignment explanation
Indices: 106183328--106183431 Score: 160
Period size: 48 Copynumber: 2.1 Consensus size: 51
106183318 TGAAATGCCC
106183328 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTA-TAA-CCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACTAACCCATT
* *
106183377 ATCATGGAATA-TTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTA-CTAACCCATT
106183428 ATCA
1 ATCA
106183432 ATTTGTACCA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
48 28 0.56
49 10 0.20
50 3 0.06
51 9 0.18
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.33
Consensus pattern (51 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACTAACCCATT
Found at i:106184854 original size:55 final size:54
Alignment explanation
Indices: 106184667--106184922 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
106184657 ACACGGGTAC
* * * * *
106184667 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* *
106184716 CTTACCATTGCCATGTCTTGACATGGTCTTACATCGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * * * *
106184769 CTCATCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AA
* * *
106184824 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-AAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
*
106184877 CCTTACCAATTGCCATG-CATTGGCATGGTCTTACATGGTATCCTTG
1 -CTTACCAA-TGCCATGTC-TTGACATGGTCTTACATGGTATCCTTG
106184923 AACCCTAATG
Statistics
Matches: 174, Mismatches: 21, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
49 39 0.22
52 4 0.02
53 44 0.25
54 10 0.06
55 75 0.43
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
Found at i:106184864 original size:108 final size:110
Alignment explanation
Indices: 106184714--106184914 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
106184704 ATCCTTTTGA
* ** *
106184714 AACTTACCATTGCCATGTCTTGACATGGTCTTACATCGTATCCTTGCCTTATGAA-CTCATCAA-
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATCGTATCCTTGCCTTAAAAACCTCACCAAT
*
106184777 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
66 TGCCATGCATTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* *
106184822 AACTTATCAATGCCATGTCTTGACATGGTCTTACAT-GATATCCTTGCCTTAAAAACCTTACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATCG-TATCCTTGCCTTAAAAACCTCACCAA
106184886 TTGCCATGCATTGGCATGGTCTTACATGG
65 TTGCCATGCATTGGCATGGTCTTACATGG
106184915 TATCCTTGAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.59
109 6 0.07
110 27 0.33
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATCGTATCCTTGCCTTAAAAACCTCACCAAT
TGCCATGCATTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:106186624 original size:25 final size:27
Alignment explanation
Indices: 106186583--106186637 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
106186573 AGTCAAACAT
106186583 GTATTTAGGTCAATTTAAC-CCTAGGG
1 GTATTTAGGTCAATTTAACTCCTAGGG
* *
106186609 GTATTTTGGT-AATTTATCTCCTAGGG
1 GTATTTAGGTCAATTTAACTCCTAGGG
106186635 GTA
1 GTA
106186638 AAACTGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.40
Consensus pattern (27 bp):
GTATTTAGGTCAATTTAACTCCTAGGG
Found at i:106188159 original size:26 final size:26
Alignment explanation
Indices: 106188123--106188230 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
106188113 TGAAATTCCA
106188123 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCTATT
106188149 ATCATGGAACATTTACCTAA-CTCATT
1 ATCATGGAACATTTACCTAACCT-ATT
* *
106188175 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCTATT
106188201 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCTATT
106188227 ATCA
1 ATCA
106188231 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 2 0.03
26 73 0.96
27 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCTATT
Found at i:106192063 original size:72 final size:72
Alignment explanation
Indices: 106191946--106192088 Score: 261
Period size: 72 Copynumber: 2.0 Consensus size: 72
106191936 GGATTTGATG
106191946 GGCATTCATCAAAAACATGATCTTCTCTGCAGTAAACACATGCTAACTAGGATACTTTCATTTCC
1 GGCATTCATCAAAAACATGATCTTCTCTGCAGTAAACACATGCTAACTAGGATACTTTCATTTCC
106192011 TGCACTA
66 TGCACTA
*
106192018 GGCATTCATCAAAAACATGATCTTCT-TCGCAGTAAACACATGCTAACTAGGATACTTTTATTTC
1 GGCATTCATCAAAAACATGATCTTCTCT-GCAGTAAACACATGCTAACTAGGATACTTTCATTTC
106192082 CTGCACT
65 CTGCACT
106192089 GCAGTTGGTA
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
71 1 0.01
72 68 0.99
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (72 bp):
GGCATTCATCAAAAACATGATCTTCTCTGCAGTAAACACATGCTAACTAGGATACTTTCATTTCC
TGCACTA
Found at i:106198746 original size:25 final size:25
Alignment explanation
Indices: 106198717--106198764 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
106198707 TTATAATATG
* * *
106198717 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
106198742 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
106198765 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:106198815 original size:9 final size:9
Alignment explanation
Indices: 106198803--106198859 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
106198793 TTTGATAAAC
106198803 ATGATATGT
1 ATGATATGT
*
106198812 ATGATATGCAC
1 ATGATATG--T
*
106198823 ATGACATGT
1 ATGATATGT
*
106198832 ATGATATGCAC
1 ATGATATG--T
106198843 ATGATATGT
1 ATGATATGT
106198852 ATGATATG
1 ATGATATG
106198860 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:106198826 original size:20 final size:20
Alignment explanation
Indices: 106198801--106198863 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
106198791 ATTTTGATAA
106198801 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
106198821 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
106198841 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
106198861 ACA
1 ACA
106198864 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:106198996 original size:23 final size:24
Alignment explanation
Indices: 106198917--106199058 Score: 236
Period size: 24 Copynumber: 6.0 Consensus size: 24
106198907 GAGGAAGTGC
106198917 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
106198941 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
106198965 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
106198989 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
106199012 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
106199035 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
106199059 ATGATAAAGC
Statistics
Matches: 113, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
23 42 0.37
24 63 0.56
25 8 0.07
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:106199011 original size:47 final size:47
Alignment explanation
Indices: 106198917--106199037 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
106198907 GAGGAAGTGC
106198917 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
106198965 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
106199012 AAAAGGGCTT-TGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
106199038 AGAGGCTAGG
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
46 16 0.22
47 33 0.45
48 24 0.33
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:106199055 original size:71 final size:71
Alignment explanation
Indices: 106198918--106199058 Score: 241
Period size: 71 Copynumber: 2.0 Consensus size: 71
106198908 AGGAAGTGCA
*
106198918 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCA
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTAGGCCCCA
106198983 GTTATT
66 GTTATT
106198989 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTC
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTAGGCC-C
106199052 CAGTTAT
64 CAGTTAT
106199059 ATGATAAAGC
Statistics
Matches: 67, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
70 23 0.34
71 44 0.66
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (71 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTAGGCCCCA
GTTATT
Found at i:106199282 original size:31 final size:31
Alignment explanation
Indices: 106199247--106199310 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
106199237 CGTTTACAGT
106199247 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
106199278 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
106199309 AA
1 AA
106199311 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:106205514 original size:25 final size:25
Alignment explanation
Indices: 106205485--106205532 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
106205475 TTATAATATG
* * *
106205485 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
106205510 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
106205533 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:106205583 original size:9 final size:9
Alignment explanation
Indices: 106205571--106205627 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
106205561 TTTGATAAAC
106205571 ATGATATGT
1 ATGATATGT
*
106205580 ATGATATGCAC
1 ATGATATG--T
*
106205591 ATGACATGT
1 ATGATATGT
*
106205600 ATGATATGCAC
1 ATGATATG--T
106205611 ATGATATGT
1 ATGATATGT
106205620 ATGATATG
1 ATGATATG
106205628 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:106205594 original size:20 final size:20
Alignment explanation
Indices: 106205569--106205631 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
106205559 ATTTTGATAA
106205569 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
106205589 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
106205609 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
106205629 ACA
1 ACA
106205632 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:106205725 original size:24 final size:24
Alignment explanation
Indices: 106205685--106205827 Score: 195
Period size: 24 Copynumber: 6.0 Consensus size: 24
106205675 GAGGAAGTGC
106205685 AAAAGGGC-TATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
106205708 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
106205732 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
106205756 -AAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
106205779 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
106205804 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
106205828 ATGATAAAGC
Statistics
Matches: 108, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
23 35 0.32
24 44 0.41
25 20 0.19
26 9 0.08
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:106205755 original size:48 final size:49
Alignment explanation
Indices: 106205685--106205827 Score: 197
Period size: 47 Copynumber: 3.0 Consensus size: 49
106205675 GAGGAAGTGC
106205685 AAAAGGGC-TATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT-
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTA
* *
106205732 AAAAGGGCTTATGCCCCAATTATT-AAAGGGCTTATGCCCTAGTTATTAA
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT-A
*
106205781 AAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCC-CCAGTTAT
106205828 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
47 30 0.35
48 26 0.31
49 19 0.22
50 10 0.12
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (49 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTA
Found at i:106206054 original size:31 final size:31
Alignment explanation
Indices: 106206019--106206082 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
106206009 CGTTTACAGT
106206019 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
106206050 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
106206081 AA
1 AA
106206083 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:106215132 original size:22 final size:24
Alignment explanation
Indices: 106215107--106215152 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
106215097 ATTCTATGCT
106215107 AATTGATAA-AGAT-TAA-TATATA
1 AATT-ATAATAGATATAATTATATA
106215129 AATTATAATAGATATAATTATATA
1 AATTATAATAGATATAATTATATA
106215153 TTAAAGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 3 0.14
24 6 0.29
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (24 bp):
AATTATAATAGATATAATTATATA
Found at i:106215358 original size:29 final size:30
Alignment explanation
Indices: 106215301--106215358 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
106215291 TTTTTGAAAA
* * **
106215301 TATTTACAAAAAGAGGCATCTAGTTTTTAT
1 TATTTACAAAAAGAGGCAACCAAATTTTAT
106215331 TATTTACAAAAAGA-GCAACCAAATTTTA
1 TATTTACAAAAAGAGGCAACCAAATTTTA
106215359 AAAATGGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACCAAATTTTAT
Found at i:106220916 original size:26 final size:26
Alignment explanation
Indices: 106220880--106220989 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
106220870 CATGAAATTC
106220880 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
106220906 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
106220932 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
106220958 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
106220984 TTATCA
1 TTATCA
106220990 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:106221454 original size:37 final size:37
Alignment explanation
Indices: 106221397--106221566 Score: 191
Period size: 37 Copynumber: 4.6 Consensus size: 37
106221387 ATCCAACCAA
* * *
106221397 AACACGCCAAACGCTTATAAAAGCTAATCCATCTGAT
1 AACATGCCAAATGCTCATAAAAGCTAATCCATCTGAT
**
106221434 AACATGCCAAATGCTCATAAAAGCTAATCCAGATGAT
1 AACATGCCAAATGCTCATAAAAGCTAATCCATCTGAT
* * * * *
106221471 AACATGCTAAGTGCTCATAAGAGCTATTCCAACTGAT
1 AACATGCCAAATGCTCATAAAAGCTAATCCATCTGAT
* * *
106221508 AACACGCTAAATGCTCA-AAAAGATAATCCAATC-GAT
1 AACATGCCAAATGCTCATAAAAGCTAATCC-ATCTGAT
*
106221544 AACATGCCAAATGCTTATAAAAG
1 AACATGCCAAATGCTCATAAAAG
106221567 TTATACATCC
Statistics
Matches: 111, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
36 26 0.23
37 85 0.77
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.22
Consensus pattern (37 bp):
AACATGCCAAATGCTCATAAAAGCTAATCCATCTGAT
Found at i:106221520 original size:74 final size:73
Alignment explanation
Indices: 106221413--106221566 Score: 202
Period size: 73 Copynumber: 2.1 Consensus size: 73
106221403 CCAAACGCTT
* * *
106221413 ATAAAAGCTAATCCATCTGATAACATGCCAAATGCTCATAAAAGCTAATCCAGAT-GATAACATG
1 ATAAAAGCTAATCCAACTGATAACACGCCAAATGCTCA-AAAAGATAATCCA-ATCGATAACATG
106221477 CTAAGTGCTC
64 CTAAGTGCTC
* * * *
106221487 ATAAGAGCTATTCCAACTGATAACACGCTAAATGCTCAAAAAGATAATCCAATCGATAACATGCC
1 ATAAAAGCTAATCCAACTGATAACACGCCAAATGCTCAAAAAGATAATCCAATCGATAACATGCT
* *
106221552 AAATGCTT
66 AAGTGCTC
106221560 ATAAAAG
1 ATAAAAG
106221567 TTATACATCC
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
72 2 0.03
73 34 0.49
74 33 0.48
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.23
Consensus pattern (73 bp):
ATAAAAGCTAATCCAACTGATAACACGCCAAATGCTCAAAAAGATAATCCAATCGATAACATGCT
AAGTGCTC
Found at i:106222019 original size:22 final size:24
Alignment explanation
Indices: 106221976--106222020 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
106221966 AATTAGCTTG
*
106221976 CATTTTATATTCCTATTTACTTTA
1 CATTTTATATCCCTATTTACTTTA
106222000 CATTTTATA-CCCT-TTTACTTT
1 CATTTTATATCCCTATTTACTTT
106222021 TTAAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 3 0.15
24 9 0.45
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.58
Consensus pattern (24 bp):
CATTTTATATCCCTATTTACTTTA
Found at i:106226280 original size:12 final size:13
Alignment explanation
Indices: 106226244--106226281 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
106226234 AAATATTTGA
106226244 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
106226257 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
106226271 CTTG-TCTTAAT
1 CTTGTTCTTAAT
106226282 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:106230479 original size:49 final size:49
Alignment explanation
Indices: 106230407--106230504 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
106230397 AGGTTGATAA
106230407 ATCTAAAATTGAAACCATTGAAAAACTACCTCCCCCTAATTCGATTAAG
1 ATCTAAAATTGAAACCATTGAAAAACTACCTCCCCCTAATTCGATTAAG
106230456 ATCTAAAATTGAAACCATTGAAAAACTACCTCCCCCTAATTCGATTAAG
1 ATCTAAAATTGAAACCATTGAAAAACTACCTCCCCCTAATTCGATTAAG
106230505 GCTATTAGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (49 bp):
ATCTAAAATTGAAACCATTGAAAAACTACCTCCCCCTAATTCGATTAAG
Found at i:106235511 original size:12 final size:13
Alignment explanation
Indices: 106235475--106235512 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
106235465 AAATATTTGA
106235475 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
106235488 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
106235502 CTTG-TCTTAAT
1 CTTGTTCTTAAT
106235513 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:106236725 original size:18 final size:18
Alignment explanation
Indices: 106236702--106236756 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
106236692 GGACTTTCAT
106236702 ACTGATTACTGTTACTGC
1 ACTGATTACTGTTACTGC
*
106236720 ACTGATTACTGTTACTAC
1 ACTGATTACTGTTACTGC
* *
106236738 TCTGTTTACTGTTACTGC
1 ACTGATTACTGTTACTGC
106236756 A
1 A
106236757 ATGGGCCAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.42
Consensus pattern (18 bp):
ACTGATTACTGTTACTGC
Found at i:106238647 original size:37 final size:37
Alignment explanation
Indices: 106238589--106238670 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
106238579 TTAGTGCCGA
*
106238589 GGCGTGTTATTGGTTGTATTAGCTCTCATAAGCATTT
1 GGCGTGTTATTGGTTGGATTAGCTCTCATAAGCATTT
* * *
106238626 GGTGTGTTATTGGTTGGATTAGCTCTTATGAGCATTT
1 GGCGTGTTATTGGTTGGATTAGCTCTCATAAGCATTT
106238663 GGCGTGTT
1 GGCGTGTT
106238671 TCGATTGGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.16, C:0.11, G:0.29, T:0.44
Consensus pattern (37 bp):
GGCGTGTTATTGGTTGGATTAGCTCTCATAAGCATTT
Found at i:106254524 original size:40 final size:40
Alignment explanation
Indices: 106254469--106254544 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
106254459 AAAAAGTGCT
*
106254469 ATGTGGTGGTATTTTAGTGATCCACATGTATTGCCATATG
1 ATGTGGTAGTATTTTAGTGATCCACATGTATTGCCATATG
106254509 ATGTGGTAGTATTTTAGTGATCCACATGTATTGCCA
1 ATGTGGTAGTATTTTAGTGATCCACATGTATTGCCA
106254545 CATCATGCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (40 bp):
ATGTGGTAGTATTTTAGTGATCCACATGTATTGCCATATG
Found at i:106254972 original size:21 final size:21
Alignment explanation
Indices: 106254946--106254998 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
106254936 AAACTATATT
106254946 TTAAATATTTA-AATATA-ATCA
1 TTAAATATTTATAAT-TAGAT-A
106254967 TTAAATATTTATAATTAGATA
1 TTAAATATTTATAATTAGATA
106254988 TTAACATATTT
1 TTAA-ATATTT
106254999 GCATTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (21 bp):
TTAAATATTTATAATTAGATA
Found at i:106255742 original size:30 final size:30
Alignment explanation
Indices: 106255664--106255743 Score: 74
Period size: 30 Copynumber: 2.6 Consensus size: 30
106255654 AAAATATAAA
* *
106255664 ATTGGTATCTAAATTTGTCCATTTATTTTAG
1 ATTGGTATCTAAATTT-TTCATTTATTTAAG
* *
106255695 ATTGGTATTTTATATTTTTCATTT-TTTCAAG
1 ATTGGTA-TCTAAATTTTTCATTTATTT-AAG
106255726 -TTGGTATCTGAAATTTTT
1 ATTGGTATCT-AAATTTTT
106255744 TTTGTCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
29 2 0.05
30 16 0.40
31 15 0.38
32 7 0.17
ACGTcount: A:0.24, C:0.07, G:0.12, T:0.56
Consensus pattern (30 bp):
ATTGGTATCTAAATTTTTCATTTATTTAAG
Found at i:106260127 original size:21 final size:23
Alignment explanation
Indices: 106260103--106260151 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
106260093 TTAAAGTGAG
*
106260103 AATTAAATT-AATAAGTCAA-TA
1 AATTAAATTGAATAAGACAATTA
*
106260124 AATT-TATTGAATAAGACAATTA
1 AATTAAATTGAATAAGACAATTA
106260146 AATTAA
1 AATTAA
106260152 TTTCCTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
20 3 0.14
21 13 0.59
22 6 0.27
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (23 bp):
AATTAAATTGAATAAGACAATTA
Found at i:106260924 original size:160 final size:160
Alignment explanation
Indices: 106260636--106260961 Score: 528
Period size: 160 Copynumber: 2.0 Consensus size: 160
106260626 ATACTCATAG
* *
106260636 TTTTCAATTTATTGGGAGAATTAACTTTCCCATTGAAAATTAAGAAAAAAAAATATTTTGTGCAC
1 TTTTCAATTTATAGAGAGAATTAACTTTCCCATTGAAAATTAAG-AAAAAAAATATTTTGTGCAC
* * * *
106260701 TTGTTTCAATTTGTTTGAATCCCCACTCAAAAAAATTTGGGATTTGAGGATAACTAGTAAGATCG
65 TTGGTTCAATTTGTTTGAATCCCCACTCAAAAAAATTTGGGATTCGAGGATAACGACTAAGATCG
106260766 ACCAGTTGAAAGTTGGGAAATGACCTAGACCA
130 ACCAGTTGAAAGTTGGGAAATGACC-AGACCA
* * * *
106260798 TTTTCAGTTTATAGAGAGAATTAACTTTCTCGTTGAAAGTTAAG-AAAAAAATATTTTGTGCACT
1 TTTTCAATTTATAGAGAGAATTAACTTTCCCATTGAAAATTAAGAAAAAAAATATTTTGTGCACT
*
106260862 TGGTTCAATTTGTTTGAATCCCCACTCAAAGAAATTTGGGATTCGAGGATAACGACTAAGATCGA
66 TGGTTCAATTTGTTTGAATCCCCACTCAAAAAAATTTGGGATTCGAGGATAACGACTAAGATCGA
106260927 CCAGTTGAAAGTTGGGAAATGACCAGACCA
131 CCAGTTGAAAGTTGGGAAATGACCAGACCA
106260957 TTTTC
1 TTTTC
106260962 TTACTAAACA
Statistics
Matches: 153, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
159 11 0.07
160 104 0.68
162 38 0.25
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (160 bp):
TTTTCAATTTATAGAGAGAATTAACTTTCCCATTGAAAATTAAGAAAAAAAATATTTTGTGCACT
TGGTTCAATTTGTTTGAATCCCCACTCAAAAAAATTTGGGATTCGAGGATAACGACTAAGATCGA
CCAGTTGAAAGTTGGGAAATGACCAGACCA
Found at i:106278278 original size:28 final size:28
Alignment explanation
Indices: 106278230--106278297 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
106278220 TTTAAAACTC
* *
106278230 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCAGTAATTTTGCTCTT
106278257 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCAGTAATTTTGCTCTT
106278285 TAGGGGTAATTTC
1 TAGGGGTAATTTC
106278298 GTGATCTACG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.21, C:0.10, G:0.25, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCAGTAATTTTGCTCTT
Found at i:106282787 original size:55 final size:55
Alignment explanation
Indices: 106282663--106282807 Score: 152
Period size: 55 Copynumber: 2.6 Consensus size: 55
106282653 ATGCTACATG
* * *
106282663 ACCGTGGTCGAACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGTTGAGGA
1 ACCGTGGTCGAACCTGTCAAAACAACACGGGCGTGCGACAAGCCCGTGTTGAGAA
* * * * *
106282718 A-CGATGGACAAACCTGTTAAAACAGCATGGGCGTGCGACAAGCCCGTGTCT-A-AA
1 ACCG-TGGTCGAACCTGTCAAAACAACACGGGCGTGCGACAAGCCCGTGT-TGAGAA
**
106282772 ACCCGTGGTCGAACCTGTCAAATTAACACGGGCGTG
1 A-CCGTGGTCGAACCTGTCAAAACAACACGGGCGTG
106282808 GGGCTTGAAC
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
54 4 0.06
55 64 0.90
56 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (55 bp):
ACCGTGGTCGAACCTGTCAAAACAACACGGGCGTGCGACAAGCCCGTGTTGAGAA
Found at i:106283343 original size:26 final size:26
Alignment explanation
Indices: 106283307--106283360 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
106283297 CATTCTTTTG
106283307 TCATTCACATGCCATTATTATGCCCA
1 TCATTCACATGCCATTATTATGCCCA
106283333 TCATTCACATGCCATTATTATGCCCA
1 TCATTCACATGCCATTATTATGCCCA
106283359 TC
1 TC
106283361 CTCATGCCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.31, G:0.07, T:0.35
Consensus pattern (26 bp):
TCATTCACATGCCATTATTATGCCCA
Found at i:106283366 original size:23 final size:24
Alignment explanation
Indices: 106283311--106283368 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 24
106283301 CTTTTGTCAT
106283311 TCACATGCCATTATTATGCCCATC
1 TCACATGCCATTATTATGCCCATC
106283335 ATTCACATGCCATTATTATGCCCATC
1 --TCACATGCCATTATTATGCCCATC
*
106283361 -CTCATGCC
1 TCACATGCC
106283369 CTTACAATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 7 0.23
26 24 0.77
ACGTcount: A:0.24, C:0.34, G:0.09, T:0.33
Consensus pattern (24 bp):
TCACATGCCATTATTATGCCCATC
Found at i:106283424 original size:19 final size:19
Alignment explanation
Indices: 106283400--106283437 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
106283390 GCTGTCAAAA
106283400 AGAATTTTGTTGGTTGAGT
1 AGAATTTTGTTGGTTGAGT
106283419 AGAATTTTGTTGGTTGAGT
1 AGAATTTTGTTGGTTGAGT
106283438 TTGGTTCATA
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:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (19 bp):
AGAATTTTGTTGGTTGAGT
Found at i:106284499 original size:28 final size:27
Alignment explanation
Indices: 106284466--106284529 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
106284456 TTTAGAAATA
*
106284466 TTTATTTTACTA-TTTTATGTTTTTAATT
1 TTTATTTTACTACTTTT-TATTTTT-ATT
**
106284494 TTTATTCAAACTACTTTTTATTTTTATT
1 TTTATT-TTACTACTTTTTATTTTTATT
106284522 TTTATTTT
1 TTTATTTT
106284530 TTAGCAGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
28 15 0.52
29 10 0.34
30 4 0.14
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (27 bp):
TTTATTTTACTACTTTTTATTTTTATT
Found at i:106291195 original size:96 final size:96
Alignment explanation
Indices: 106291031--106291238 Score: 281
Period size: 96 Copynumber: 2.2 Consensus size: 96
106291021 ATACGGTGCC
** * * * *
106291031 GCTCACACAAGATGATGAGTATCCGCAACAAATGCTGAAACTTAGCCATCGGTAAGACATTTAGG
1 GCTCACACAAGATGACAAGTATCCGCAACAAATGCCGAAACTTAGCCATCAGTAAGACATTCAAG
*
106291096 ACCAGCACTCGAAACATGGTAACCTGAGTCT
66 ACCAGCACCCGAAACATGGTAACCTGAGTCT
* * * * *
106291127 GCTCACACAAGCTGACAAGTATTCGTAACAAATGCCGAAACTTAGCCATTAGTAGGACATTCAAG
1 GCTCACACAAGATGACAAGTATCCGCAACAAATGCCGAAACTTAGCCATCAGTAAGACATTCAAG
* *
106291192 ACCAGCACCCGAAACATGGTAACCTGGGTTT
66 ACCAGCACCCGAAACATGGTAACCTGAGTCT
*
106291223 GCTCACACAAGTTGAC
1 GCTCACACAAGATGAC
106291239 GGTCAAAATG
Statistics
Matches: 97, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (96 bp):
GCTCACACAAGATGACAAGTATCCGCAACAAATGCCGAAACTTAGCCATCAGTAAGACATTCAAG
ACCAGCACCCGAAACATGGTAACCTGAGTCT
Found at i:106305013 original size:13 final size:13
Alignment explanation
Indices: 106304995--106305020 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106304985 TACATTGAAA
106304995 ACAAAAAGATAAT
1 ACAAAAAGATAAT
106305008 ACAAAAAGATAAT
1 ACAAAAAGATAAT
106305021 GTCGAAACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (13 bp):
ACAAAAAGATAAT
Found at i:106306258 original size:20 final size:20
Alignment explanation
Indices: 106306211--106306249 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
106306201 TAATAAATTT
* *
106306211 AAAATATA-ATATATAATAA
1 AAAATATATTTATAGAATAA
106306230 AAAATATATTTATAGAATAA
1 AAAATATATTTATAGAATAA
106306250 TAATTATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAATATATTTATAGAATAA
Found at i:106306788 original size:18 final size:17
Alignment explanation
Indices: 106306752--106306884 Score: 185
Period size: 18 Copynumber: 7.5 Consensus size: 17
106306742 AATCATATCT
106306752 TCTAAGATTGTATATCATA
1 TCTAAGATTG-A-ATCATA
106306771 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
106306789 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
106306806 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
106306824 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
106306841 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
* *
106306859 TTTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
106306876 TCTAAGATT
1 TCTAAGATT
106306885 ACATATCATT
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
17 46 0.44
18 47 0.45
19 11 0.11
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (17 bp):
TCTAAGATTGAATCATA
Found at i:106306810 original size:35 final size:35
Alignment explanation
Indices: 106306752--106306893 Score: 239
Period size: 35 Copynumber: 4.0 Consensus size: 35
106306742 AATCATATCT
106306752 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
106306789 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
106306824 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
106306859 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
106306894 TGAAGATTAT
Statistics
Matches: 102, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
35 87 0.85
36 5 0.05
37 10 0.10
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:106307433 original size:83 final size:83
Alignment explanation
Indices: 106307280--106307630 Score: 616
Period size: 83 Copynumber: 4.2 Consensus size: 83
106307270 TTCGATTTGT
* * *
106307280 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
*
106307345 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
106307363 AA-GATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCG
106307427 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
*
106307446 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
106307511 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
106307529 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
106307594 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
106307612 AA-GATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
106307631 GATCTGCTTC
Statistics
Matches: 259, Mismatches: 7, Indels: 5
0.96 0.03 0.02
Matches are distributed among these distances:
82 22 0.08
83 231 0.89
84 6 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:106308150 original size:119 final size:119
Alignment explanation
Indices: 106307555--106308147 Score: 1080
Period size: 119 Copynumber: 5.0 Consensus size: 119
106307545 CTTGAGTCTG
* * * * *
106307555 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAG-ATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
106307619 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
106307673 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
106307738 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
106307792 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
106307857 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
106307911 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
106307976 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
106308030 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
106308095 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
106308148 CTTCGATCTG
Statistics
Matches: 460, Mismatches: 14, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
118 54 0.12
119 406 0.88
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:106308187 original size:44 final size:44
Alignment explanation
Indices: 106308139--106308318 Score: 195
Period size: 44 Copynumber: 4.1 Consensus size: 44
106308129 TGAAGGTTAG
106308139 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
*
106308183 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAA
** * * * * * * *
106308225 ATGCTGAAATCTTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAA
* * *
106308271 ATCTACTATCTTTGATCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
106308315 ATCT
1 ATCT
106308319 TTTTCTTTGA
Statistics
Matches: 109, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
42 2 0.02
43 13 0.12
44 80 0.73
45 12 0.11
46 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:106309217 original size:21 final size:20
Alignment explanation
Indices: 106309193--106309250 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
106309183 CCTCTCCATC
106309193 TTTTTCTTTTTTCTCTTTATT
1 TTTTTCTTTTTTCT-TTTATT
* *
106309214 TTTTTCACTTTTTCTTTTCTT
1 TTTTTC-TTTTTTCTTTTATT
*
106309235 TTTTTATTTTTT-TTTT
1 TTTTTCTTTTTTCTTTT
106309251 GAAATAGAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.12
20 5 0.16
21 16 0.50
22 7 0.22
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTCTTTTTTCTTTTATT
Found at i:106309224 original size:29 final size:29
Alignment explanation
Indices: 106309192--106309247 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
106309182 GCCTCTCCAT
106309192 CTTTTTCTTTT-TTCTCTTTATTTTTTTCA
1 CTTTTTCTTTTCTT-TCTTTATTTTTTTCA
*
106309221 CTTTTTCTTTTCTTTTTTTATTTTTTT
1 CTTTTTCTTTTCTTTCTTTATTTTTTT
106309248 TTTGAAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.80
Consensus pattern (29 bp):
CTTTTTCTTTTCTTTCTTTATTTTTTTCA
Found at i:106309238 original size:13 final size:12
Alignment explanation
Indices: 106309191--106309250 Score: 50
Period size: 14 Copynumber: 4.8 Consensus size: 12
106309181 GGCCTCTCCA
106309191 TCTTTTTCTTTTT
1 TCTTTTT-TTTTT
106309204 TCTCTTTATTTTTT
1 TCT-TTT-TTTTTT
* *
106309218 TCACTTTTTCTTT
1 TC-TTTTTTTTTT
*
106309231 TCTTTTTTTATT
1 TCTTTTTTTTTT
106309243 T-TTTTTTT
1 TCTTTTTTT
106309251 GAAATAGAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
11 7 0.18
12 8 0.21
13 10 0.26
14 13 0.33
15 1 0.03
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:106315078 original size:17 final size:17
Alignment explanation
Indices: 106315019--106315078 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
106315009 TAATAAATTT
106315019 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
106315038 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
106315052 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
106315070 AAAATATAA
1 AAAATATAA
106315079 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:106315559 original size:22 final size:21
Alignment explanation
Indices: 106315534--106315581 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
106315524 TACAAATTAA
106315534 ATCTCCAAGATTATAAAATCAT
1 ATCTCCAAGATTAT-AAATCAT
* * *
106315556 ATCTTCTAAGATTGTATATCAT
1 ATC-TCCAAGATTATAAATCAT
106315578 ATCT
1 ATCT
106315582 AAGATTGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.05
22 12 0.55
23 9 0.41
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.40
Consensus pattern (21 bp):
ATCTCCAAGATTATAAATCAT
Found at i:106315613 original size:17 final size:18
Alignment explanation
Indices: 106315560--106315691 Score: 182
Period size: 17 Copynumber: 7.5 Consensus size: 18
106315550 AATCATATCT
*
106315560 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
106315579 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
106315597 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
106315614 TCTAAGATTGCAAT-ATA
1 TCTAAGATTGCTATCATA
106315631 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
106315648 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
106315666 TTTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
106315683 TCTAAGATT
1 TCTAAGATT
106315692 ACATATCATT
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
16 2 0.02
17 56 0.55
18 33 0.33
19 10 0.10
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:106315618 original size:35 final size:35
Alignment explanation
Indices: 106315560--106315700 Score: 230
Period size: 35 Copynumber: 4.0 Consensus size: 35
106315550 AATCATATCT
106315560 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
106315597 TCTAAGATTGTATCATATCTAAGATTGCAAT-ATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
106315631 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
106315666 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
106315701 TGAAGATTAT
Statistics
Matches: 100, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
34 34 0.34
35 51 0.51
36 5 0.05
37 10 0.10
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:106315658 original size:69 final size:70
Alignment explanation
Indices: 106315560--106315691 Score: 239
Period size: 69 Copynumber: 1.9 Consensus size: 70
106315550 AATCATATCT
106315560 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGC
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGC
106315625 AATATA
65 AATATA
*
106315631 TCTAAGATTG-TATCATATCTAAGATTGCAATCATATTTAAGATTGTATCATATCTAAGATT
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATT
106315692 ACATATCATT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
69 50 0.83
71 10 0.17
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.39
Consensus pattern (70 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCA
ATATA
Found at i:106318852 original size:2 final size:2
Alignment explanation
Indices: 106318834--106318877 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
106318824 ACCCTCAAAC
* *
106318834 AT AT GT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
106318876 AT
1 AT
106318878 CATTCATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:106319617 original size:24 final size:24
Alignment explanation
Indices: 106319585--106319645 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
106319575 AAACCAGCAT
* * *
106319585 ACATAGTGCCAATCGATTTCGCAC
1 ACATAGTGCCAATCAAATACGCAC
*
106319609 ACATAGTGCCATTCAAATACGCAC
1 ACATAGTGCCAATCAAATACGCAC
*
106319633 ACTTAGTGCCAAT
1 ACATAGTGCCAAT
106319646 GTTGGCTCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (24 bp):
ACATAGTGCCAATCAAATACGCAC
Found at i:106325237 original size:13 final size:14
Alignment explanation
Indices: 106325219--106325251 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
106325209 AAATTACAAG
106325219 TATAATGT-AAATT
1 TATAATGTCAAATT
*
106325232 TATAATTTCAAATT
1 TATAATGTCAAATT
106325246 TATAAT
1 TATAAT
106325252 TCATCTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (14 bp):
TATAATGTCAAATT
Found at i:106328196 original size:20 final size:20
Alignment explanation
Indices: 106328164--106328219 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
106328154 AATACTATGA
*
106328164 ACCACTCCATTTACTTTCTT
1 ACCATTCCATTTACTTTCTT
*
106328184 ACCATTCCGTTTACTTTCTT
1 ACCATTCCATTTACTTTCTT
* *
106328204 TCCATTTCATTTACTT
1 ACCATTCCATTTACTT
106328220 AGCATGAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.18, C:0.30, G:0.02, T:0.50
Consensus pattern (20 bp):
ACCATTCCATTTACTTTCTT
Found at i:106339261 original size:2 final size:2
Alignment explanation
Indices: 106339254--106339283 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
106339244 GAGACTAGTC
106339254 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
106339284 GTCATGATAC
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:106340504 original size:67 final size:64
Alignment explanation
Indices: 106340365--106340549 Score: 205
Period size: 67 Copynumber: 2.9 Consensus size: 64
106340355 CATATAGTTC
* * * * * *
106340365 AGCTCTCTTGTAC-ACATGGTGAACAC-TCAGTACCACCCATGTGACCTAGCCA-ATTTATCTCG
1 AGCTCTCTTGT-CTACATGGTGTACACAT-AGAACCACCCATGCGACCTAGCTACATATATCCCG
106340427 T
64 T
* * *
106340428 AGCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACATATATCCC
1 AGCTCTCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATATATCCC
106340493 GT
63 GT
* *
106340495 AGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 AGCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
106340550 CATAATGTCT
Statistics
Matches: 103, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.18
64 29 0.28
66 23 0.22
67 31 0.30
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (64 bp):
AGCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGT
Found at i:106342908 original size:79 final size:81
Alignment explanation
Indices: 106342772--106342954 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
106342762 TTGAATGATG
* *
106342772 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
106342836 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
106342851 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
106342913 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
106342931 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
106342955 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:106342970 original size:40 final size:40
Alignment explanation
Indices: 106342773--106342956 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
106342763 TGAATGATGT
* * * *
106342773 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
106342813 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
106342853 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
106342891 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
106342932 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
106342957 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:106342978 original size:79 final size:79
Alignment explanation
Indices: 106342825--106342989 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
106342815 GGACTAAGAT
* **
106342825 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
106342890 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
106342904 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
106342967 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
106342983 CCGAAGG
1 CCGAAGG
106342990 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:106344599 original size:30 final size:30
Alignment explanation
Indices: 106344565--106344625 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
106344555 TCCTTAACTC
106344565 AAACTTTGGCAAAGTTACAATTTTGCCCCT
1 AAACTTTGGCAAAGTTACAATTTTGCCCCT
* * * * *
106344595 AAACTTTTGCATATTTATACTTTTGCCCCT
1 AAACTTTGGCAAAGTTACAATTTTGCCCCT
106344625 A
1 A
106344626 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAGTTACAATTTTGCCCCT
Found at i:106348873 original size:55 final size:53
Alignment explanation
Indices: 106348814--106348937 Score: 142
Period size: 53 Copynumber: 2.3 Consensus size: 53
106348804 AGGTAAGGAT
* *
106348814 ACCATGTCAAGACATGGCATTGATAAGTTACTATAAGACAAAGG-TCCCATGTAAG
1 ACCATGTCAAGACATGGCATTGATAAGTT-C-ATAAGAC-AAGGATACCACGTAAG
* * * * *
106348869 ACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCACGTAAG
1 ACCATGTCAAGACATGGCATTGATAAGTTCATAAGACAAGGATACCACGTAAG
*
106348922 ACCATGTCGAGACATG
1 ACCATGTCAAGACATG
106348938 AAAATGGTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
52 4 0.07
53 28 0.48
54 1 0.02
55 25 0.43
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (53 bp):
ACCATGTCAAGACATGGCATTGATAAGTTCATAAGACAAGGATACCACGTAAG
Found at i:106350552 original size:2 final size:2
Alignment explanation
Indices: 106350545--106350582 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
106350535 GCTTCGCCAC
106350545 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
106350583 CTGTTCTGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:106351621 original size:16 final size:16
Alignment explanation
Indices: 106351600--106351630 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
106351590 ATAAATTTGA
106351600 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
106351616 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
106351631 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:106356726 original size:32 final size:33
Alignment explanation
Indices: 106356671--106356733 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
106356661 ATGACTACTA
*
106356671 GATACATCTTCTCTAAATACATTCATCAAAATG
1 GATACATCTACTCTAAATACATTCATCAAAATG
* *
106356704 GATACATCTACT-TTAATACATTCATTAAAA
1 GATACATCTACTCTAAATACATTCATCAAAA
106356734 ATAAATACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.35
Consensus pattern (33 bp):
GATACATCTACTCTAAATACATTCATCAAAATG
Found at i:106356735 original size:33 final size:33
Alignment explanation
Indices: 106356671--106356735 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
106356661 ATGACTACTA
* *
106356671 GATACATCTTCTCTAAATACATTCATCAAAATG
1 GATACATCTACTCTAAATACATTCATAAAAATG
*
106356704 GATACATCTACT-TTAATACATTCATTAAAAAT
1 GATACATCTACTCTAAATACATTCA-TAAAAAT
106356736 AAATACATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.35
Consensus pattern (33 bp):
GATACATCTACTCTAAATACATTCATAAAAATG
Found at i:106356742 original size:33 final size:33
Alignment explanation
Indices: 106356672--106356743 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
106356662 TGACTACTAG
* * **
106356672 ATACATCTTCTCTAAATACATTCATCAAAATGG
1 ATACATCTACTCTAAATACATTCATAAAAATAA
*
106356705 ATACATCTACT-TTAATACATTCATTAAAAATAA
1 ATACATCTACTCTAAATACATTCA-TAAAAATAA
106356738 ATACAT
1 ATACAT
106356744 TCAAGTAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
32 11 0.33
33 22 0.67
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.35
Consensus pattern (33 bp):
ATACATCTACTCTAAATACATTCATAAAAATAA
Found at i:106361068 original size:32 final size:33
Alignment explanation
Indices: 106361005--106361070 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
106360995 ATGCATGACT
*
106361005 ACTAGATACATCTTCTCTAAATACATTCATTAA
1 ACTAGATACATCTACTCTAAATACATTCATTAA
106361038 ACTAGATACATCTACTCTAAA-ACATTCATTAA
1 ACTAGATACATCTACTCTAAATACATTCATTAA
106361070 A
1 A
106361071 TATAAATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.33
Consensus pattern (33 bp):
ACTAGATACATCTACTCTAAATACATTCATTAA
Found at i:106361080 original size:33 final size:33
Alignment explanation
Indices: 106361010--106361081 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
106361000 TGACTACTAG
* * *
106361010 ATACATCTTCTCTAAATACATTCATTAAACTAG
1 ATACATCTACTCTAAATACATTCATTAAAATAA
106361043 ATACATCTACTCTAAA-ACATTCATTAAATATAA
1 ATACATCTACTCTAAATACATTCATTAAA-ATAA
106361076 ATACAT
1 ATACAT
106361082 GCAAGTAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 12 0.34
33 23 0.66
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.35
Consensus pattern (33 bp):
ATACATCTACTCTAAATACATTCATTAAAATAA
Found at i:106364927 original size:19 final size:19
Alignment explanation
Indices: 106364903--106364941 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
106364893 ACCTCAATTG
106364903 TTTAGTGTCTTTTTACCCT
1 TTTAGTGTCTTTTTACCCT
106364922 TTTAGTGTCTTTTTACCCT
1 TTTAGTGTCTTTTTACCCT
106364941 T
1 T
106364942 CTTTTTGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.21, G:0.10, T:0.59
Consensus pattern (19 bp):
TTTAGTGTCTTTTTACCCT
Found at i:106370965 original size:29 final size:29
Alignment explanation
Indices: 106370923--106370981 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
106370913 TATGGTTTAC
106370923 TTAGTTTTTCATTAATAGTTAGTAATGAA
1 TTAGTTTTTCATTAATAGTTAGTAATGAA
106370952 TTAGTTTTTCATTAATAGTTAGTAATGAA
1 TTAGTTTTTCATTAATAGTTAGTAATGAA
106370981 T
1 T
106370982 AAAAAAGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (29 bp):
TTAGTTTTTCATTAATAGTTAGTAATGAA
Found at i:106374193 original size:35 final size:35
Alignment explanation
Indices: 106374075--106374199 Score: 111
Period size: 29 Copynumber: 3.7 Consensus size: 35
106374065 AGTTATTGAT
** * *
106374075 ATTCTAATTTACATGTTAAACATGTTA-ATATTCTG
1 ATTCTAATTCGCATGTTAAGCATGTCATAT-TTCTG
* * *
106374110 ATGATCCAATTCGCAAGTTAAGCATGCCATATTTCTG
1 AT--TCTAATTCGCATGTTAAGCATGTCATATTTCTG
106374147 ------ATTCGCATGTTAAGCATGTCATATTTCTG
1 ATTCTAATTCGCATGTTAAGCATGTCATATTTCTG
106374176 ATTCTAATTCGCATGTTAAGCATG
1 ATTCTAATTCGCATGTTAAGCATG
106374200 CCACTGTGAT
Statistics
Matches: 72, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
29 27 0.38
35 20 0.28
37 23 0.32
38 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (35 bp):
ATTCTAATTCGCATGTTAAGCATGTCATATTTCTG
Found at i:106376717 original size:5 final size:5
Alignment explanation
Indices: 106376707--106376764 Score: 52
Period size: 5 Copynumber: 11.6 Consensus size: 5
106376697 ATACTTAAGT
106376707 ATATA ATATA ATAATA A-ATTA ATAT- A-ATA ATATA ATA-A TATAATA
1 ATATA ATATA AT-ATA ATA-TA ATATA ATATA ATATA ATATA -AT-ATA
106376752 ATATA ATATA ATA
1 ATATA ATATA ATA
106376765 AAACATAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
3 2 0.04
4 4 0.09
5 30 0.67
6 8 0.18
7 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:106376728 original size:24 final size:21
Alignment explanation
Indices: 106376695--106376765 Score: 81
Period size: 24 Copynumber: 3.1 Consensus size: 21
106376685 TATTTATACT
106376695 TAATACTTAAGTATATAATATAA
1 TAATA-TTAA-TATATAATATAA
106376718 TAATAAATTAATATAATAATATAA
1 TAAT--ATTAATAT-ATAATATAA
106376742 TAATA-TAATAATATAATATAA
1 TAATATTAAT-ATATAATATAA
106376763 TAA
1 TAA
106376766 AACATAAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
21 16 0.36
22 3 0.07
23 7 0.16
24 17 0.39
25 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (21 bp):
TAATATTAATATATAATATAA
Found at i:106376765 original size:8 final size:8
Alignment explanation
Indices: 106376709--106376759 Score: 86
Period size: 8 Copynumber: 6.4 Consensus size: 8
106376699 ACTTAAGTAT
106376709 ATAATATA
1 ATAATATA
106376717 ATAATA-A
1 ATAATATA
106376724 ATTAATATA
1 A-TAATATA
106376733 ATAATATA
1 ATAATATA
106376741 ATAATATA
1 ATAATATA
106376749 ATAATATA
1 ATAATATA
106376757 ATA
1 ATA
106376760 TAATAAAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
7 2 0.05
8 37 0.90
9 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATAATATA
Found at i:106376775 original size:16 final size:15
Alignment explanation
Indices: 106376709--106376765 Score: 82
Period size: 16 Copynumber: 3.8 Consensus size: 15
106376699 ACTTAAGTAT
106376709 ATAATATAATAATAA
1 ATAATATAATAATAA
106376724 ATTAATATAATAATATA
1 A-TAATATAATAATA-A
106376741 ATAATATAATAAT--
1 ATAATATAATAATAA
106376754 ATAATATAATAA
1 ATAATATAATAA
106376766 AACATAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
13 12 0.30
15 1 0.03
16 25 0.62
17 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAATATAATAATAA
Found at i:106376775 original size:21 final size:21
Alignment explanation
Indices: 106376707--106376775 Score: 79
Period size: 21 Copynumber: 3.1 Consensus size: 21
106376697 ATACTTAAGT
106376707 ATATAATATAATAATAAATTAA
1 ATATAATATAATAATAAA-TAA
106376729 TATAATAATATAATAATATAAT-A
1 -AT-ATAATATAATAATA-AATAA
106376752 ATATAATATAATAA-AACATAA
1 ATATAATATAATAATAA-ATAA
106376773 ATA
1 ATA
106376776 AACTAAAGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 16 0.38
22 2 0.05
23 3 0.07
24 15 0.36
25 2 0.05
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (21 bp):
ATATAATATAATAATAAATAA
Found at i:106388731 original size:28 final size:28
Alignment explanation
Indices: 106388699--106388768 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
106388689 AATGAGATTG
106388699 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
106388727 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
106388755 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
106388769 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:106405965 original size:28 final size:28
Alignment explanation
Indices: 106405933--106406002 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
106405923 AATGAGATTG
106405933 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
106405961 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
106405989 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
106406003 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:106414671 original size:12 final size:12
Alignment explanation
Indices: 106414650--106414693 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
106414640 ATTGAGTCCA
*
106414650 TTTATCTTTATG
1 TTTATTTTTATG
*
106414662 TTTATTTTTATT
1 TTTATTTTTATG
106414674 TTTATTTTTTATG
1 TTTA-TTTTTATG
106414687 TTTATTT
1 TTTATTT
106414694 AATCTTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 17 0.61
13 11 0.39
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (12 bp):
TTTATTTTTATG
Found at i:106414682 original size:7 final size:6
Alignment explanation
Indices: 106414650--106414693 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
106414640 ATTGAGTCCA
* * *
106414650 TTTATC TTTATG TTTATT TTTATT TTTATTT TTTATG TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTA-TT TTTATT TTTATT T
106414694 AATCTTTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:106414707 original size:25 final size:25
Alignment explanation
Indices: 106414656--106414707 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
106414646 TCCATTTATC
* *
106414656 TTTATGTTTATTTTTATTTTTATTT
1 TTTATGTTTATTTTAATCTTTATTT
*
106414681 TTTATGTTTA-TTTAATCTTTATAT
1 TTTATGTTTATTTTAATCTTTATTT
106414705 TTT
1 TTT
106414708 GACCTCTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTATGTTTATTTTAATCTTTATTT
Found at i:106415918 original size:16 final size:16
Alignment explanation
Indices: 106415897--106415928 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
106415887 AAGCCCTATT
106415897 ACAACCCTTTAAAGAC
1 ACAACCCTTTAAAGAC
106415913 ACAACCCTTTAAAGAC
1 ACAACCCTTTAAAGAC
106415929 TGTTTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.31, G:0.06, T:0.19
Consensus pattern (16 bp):
ACAACCCTTTAAAGAC
Found at i:106419545 original size:41 final size:41
Alignment explanation
Indices: 106419500--106419617 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
106419490 TGAAAGATAA
106419500 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
106419541 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
106419571 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
106419612 ATGTAG
1 ATGTAG
106419618 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:106419556 original size:71 final size:71
Alignment explanation
Indices: 106419468--106419631 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
106419458 GAGATGTATC
106419468 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
106419533 AGGACA
66 AGGACA
106419539 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
106419604 AGGACA
66 AGGACA
106419610 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
106419632 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:106422346 original size:8 final size:8
Alignment explanation
Indices: 106422306--106422340 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
106422296 ACTTAAGTAT
106422306 ATAATATA
1 ATAATATA
106422314 ATAATA-A
1 ATAATATA
106422321 ATTAATATA
1 A-TAATATA
106422330 ATAATATA
1 ATAATATA
106422338 ATA
1 ATA
106422341 TAATAAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 2 0.08
8 21 0.84
9 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATAATATA
Found at i:106422356 original size:16 final size:14
Alignment explanation
Indices: 106422306--106422357 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 14
106422296 ACTTAAGTAT
106422306 ATAATATAATAATAA
1 ATAATATAATAA-AA
*
106422321 ATTAATATAAT-AAT
1 A-TAATATAATAAAA
106422335 ATAATATAATAAAA
1 ATAATATAATAAAA
106422349 CATAA-ATAA
1 -ATAATATAA
106422358 ACTAAAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
13 9 0.28
14 8 0.25
15 6 0.19
16 9 0.28
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATATAATAAAA
Found at i:106425451 original size:13 final size:13
Alignment explanation
Indices: 106425433--106425457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106425423 CATCCAGGAA
106425433 TTGTAAATAACAT
1 TTGTAAATAACAT
106425446 TTGTAAATAACA
1 TTGTAAATAACA
106425458 ATTACAAATA
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:0.08, T:0.36
Consensus pattern (13 bp):
TTGTAAATAACAT
Found at i:106425824 original size:14 final size:14
Alignment explanation
Indices: 106425787--106425817 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
106425777 CTAGAAAAGT
106425787 AAATCATTTTTCAG
1 AAATCATTTTTCAG
*
106425801 AAATCATTTTTCGG
1 AAATCATTTTTCAG
106425815 AAA
1 AAA
106425818 ATATTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:106428433 original size:26 final size:24
Alignment explanation
Indices: 106428397--106428445 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
106428387 CAACTCAATC
106428397 AACAATATTATTATATACAAATATAT
1 AACAATATTA-TATA-ACAAATATAT
*
106428423 AACAATTTTATATAACAAATATA
1 AACAATATTATATAACAAATATA
106428446 CTTAATAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 4 0.18
26 9 0.41
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (24 bp):
AACAATATTATATAACAAATATAT
Found at i:106432830 original size:23 final size:23
Alignment explanation
Indices: 106432795--106432838 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
106432785 GCTACAATAT
* *
106432795 ATTGTTGTTTTTACTTGGTATTA
1 ATTGTTATATTTACTTGGTATTA
*
106432818 ATTGTTATATTTACTTTGTAT
1 ATTGTTATATTTACTTGGTAT
106432839 AATATACAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.05, G:0.14, T:0.61
Consensus pattern (23 bp):
ATTGTTATATTTACTTGGTATTA
Found at i:106433176 original size:42 final size:42
Alignment explanation
Indices: 106433117--106433202 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
106433107 ATACCAGTAG
106433117 TTAGTCTAAATACTTTACTCTGATTCAAATGTTTATGTGAAT
1 TTAGTCTAAATACTTTACTCTGATTCAAATGTTTATGTGAAT
106433159 TTAGTCTAAATACTTTACTCTGATTCAAATGTTTATGTGAAT
1 TTAGTCTAAATACTTTACTCTGATTCAAATGTTTATGTGAAT
106433201 TT
1 TT
106433203 TAAGAATTGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (42 bp):
TTAGTCTAAATACTTTACTCTGATTCAAATGTTTATGTGAAT
Found at i:106433798 original size:23 final size:24
Alignment explanation
Indices: 106433767--106433811 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
106433757 TCATTTAAGT
106433767 TAAACAAAACATGTTAGTGAACAA
1 TAAACAAAACATGTTAGTGAACAA
*
106433791 TAAA-AAAACATGTTTGTGAAC
1 TAAACAAAACATGTTAGTGAAC
106433812 TAATTGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.24
Consensus pattern (24 bp):
TAAACAAAACATGTTAGTGAACAA
Found at i:106436975 original size:20 final size:20
Alignment explanation
Indices: 106436950--106436996 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
106436940 AGTGCAATGT
106436950 AATAAAACGTATTAAAGTGA
1 AATAAAACGTATTAAAGTGA
* *
106436970 AATAAAACGTATTACATTGA
1 AATAAAACGTATTAAAGTGA
106436990 AATAAAA
1 AATAAAA
106436997 TGGCCACCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (20 bp):
AATAAAACGTATTAAAGTGA
Found at i:106440755 original size:27 final size:27
Alignment explanation
Indices: 106440725--106440799 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
106440715 AAAAATACAA
106440725 AAAATTCAAAAAATATTTTTAAAA-ATT
1 AAAATTCAAAAAATATTTTTAAAATA-T
* * *
106440752 AAAAATCATTAAAAT-TATTTAAAATAT
1 AAAATTCA-AAAAATATTTTTAAAATAT
*
106440779 AAAATTATAAAAAATATTTTT
1 AAAATT-CAAAAAATATTTTT
106440800 TAACATTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
27 26 0.70
28 11 0.30
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (27 bp):
AAAATTCAAAAAATATTTTTAAAATAT
Found at i:106440792 original size:17 final size:17
Alignment explanation
Indices: 106440761--106440795 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
106440751 TAAAAATCAT
**
106440761 TAAAATTATTTAAAATA
1 TAAAATTATAAAAAATA
106440778 TAAAATTATAAAAAATA
1 TAAAATTATAAAAAATA
106440795 T
1 T
106440796 TTTTTAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAATTATAAAAAATA
Found at i:106448343 original size:17 final size:18
Alignment explanation
Indices: 106448318--106448351 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
106448308 ATGACTTGAG
*
106448318 ATGGTAATGAT-TTGAAA
1 ATGGCAATGATATTGAAA
106448335 ATGGCAATGATATTGAA
1 ATGGCAATGATATTGAA
106448352 TAGCAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.32
Consensus pattern (18 bp):
ATGGCAATGATATTGAAA
Found at i:106457526 original size:36 final size:37
Alignment explanation
Indices: 106457470--106457572 Score: 100
Period size: 36 Copynumber: 2.8 Consensus size: 37
106457460 TGTATAACTT
* * * * **
106457470 TTATAAGCATTTGGCATGTTATCGATTGGATTCTCTC
1 TTATGAGCATTTAGCGTGTTATCGATTGGAATAGCTC
* * *
106457507 TT-TGAGCATTTAGCGTGTTATCGTTTAGAATAGCTT
1 TTATGAGCATTTAGCGTGTTATCGATTGGAATAGCTC
* *
106457543 TTATGAGCACTTAGCGTGTTATCGGTTGGA
1 TTATGAGCATTTAGCGTGTTATCGATTGGA
106457573 GCATTTGGCG
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
36 27 0.51
37 26 0.49
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (37 bp):
TTATGAGCATTTAGCGTGTTATCGATTGGAATAGCTC
Found at i:106457621 original size:61 final size:60
Alignment explanation
Indices: 106457510--106457632 Score: 138
Period size: 61 Copynumber: 2.0 Consensus size: 60
106457500 TTCTCTCTTT
*** *
106457510 GAGCATTTAGCGTGTTATCGTTTAGAATAGCTTTTATGAGCACTTAGCGTGTTATCGGTTG
1 GAGCATTTAGCGTGTTATCAAATAGAATAGCTCTTATGAGCACTTAGCGTGTT-TCGGTTG
* * * ** * *
106457571 GAGCATTTGGCGTGTTATCAAATGGATTAGCTCTTATGAGCGTTTGGCGTGTTTTGGTTG
1 GAGCATTTAGCGTGTTATCAAATAGAATAGCTCTTATGAGCACTTAGCGTGTTTCGGTTG
106457631 GA
1 GA
106457633 TTACTTGTGT
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
60 8 0.16
61 43 0.84
ACGTcount: A:0.20, C:0.12, G:0.29, T:0.39
Consensus pattern (60 bp):
GAGCATTTAGCGTGTTATCAAATAGAATAGCTCTTATGAGCACTTAGCGTGTTTCGGTTG
Found at i:106458402 original size:34 final size:34
Alignment explanation
Indices: 106458364--106458435 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
106458354 GTATAAGTGT
106458364 GTATATTGGTTAGACACTTAAGATGATTGAAATA
1 GTATATTGGTTAGACACTTAAGATGATTGAAATA
*
106458398 GTATATTGGTTAGGCACTTAAGATGATTGAAATA
1 GTATATTGGTTAGACACTTAAGATGATTGAAATA
106458432 GTAT
1 GTAT
106458436 GATTTGAGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (34 bp):
GTATATTGGTTAGACACTTAAGATGATTGAAATA
Found at i:106464949 original size:28 final size:26
Alignment explanation
Indices: 106464917--106464973 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
106464907 AGTGTTACAT
*
106464917 ATTTAATATAACAAGATGCATACAATAA
1 ATTT-ATACAACAAGA-GCATACAATAA
*
106464945 A-TT-TACGACAAGAGCATACAATAA
1 ATTTATACAACAAGAGCATACAATAA
106464969 ATTTA
1 ATTTA
106464974 CGACAAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
24 12 0.48
25 10 0.40
27 2 0.08
28 1 0.04
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (26 bp):
ATTTATACAACAAGAGCATACAATAA
Found at i:106464965 original size:24 final size:25
Alignment explanation
Indices: 106464927--106464980 Score: 101
Period size: 24 Copynumber: 2.2 Consensus size: 25
106464917 ATTTAATATA
106464927 ACAAGATGCATACAATAAATTTACG
1 ACAAGATGCATACAATAAATTTACG
106464952 ACAAGA-GCATACAATAAATTTACG
1 ACAAGATGCATACAATAAATTTACG
106464976 ACAAG
1 ACAAG
106464981 TTATACTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (25 bp):
ACAAGATGCATACAATAAATTTACG
Found at i:106465310 original size:13 final size:14
Alignment explanation
Indices: 106465292--106465329 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
106465282 AAGAAGTTTT
106465292 AAAATTT-ATAAAA
1 AAAATTTAATAAAA
106465305 AAAATTTGAATAAAA
1 AAAATTT-AATAAAA
106465320 AAAATATTAA
1 AAAAT-TTAA
106465330 ATGGTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.32
15 13 0.59
16 2 0.09
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
AAAATTTAATAAAA
Found at i:106465724 original size:4 final size:4
Alignment explanation
Indices: 106465717--106465741 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
106465707 AATGAAAATT
106465717 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
106465742 AAAGAATGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:106466114 original size:28 final size:28
Alignment explanation
Indices: 106466077--106466136 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
106466067 CCATATTAAT
106466077 GGGTATAGGAAGAGTTTTATAATTTATG
1 GGGTATAGGAAGAGTTTTATAATTTATG
106466105 GGGTATAGGAAGAGTTTTATAATTTATG
1 GGGTATAGGAAGAGTTTTATAATTTATG
106466133 GGGT
1 GGGT
106466137 TGATAATGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.32, T:0.38
Consensus pattern (28 bp):
GGGTATAGGAAGAGTTTTATAATTTATG
Found at i:106466411 original size:36 final size:36
Alignment explanation
Indices: 106466363--106466439 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
106466353 AAAATAGCTA
* *
106466363 AAAAATTATAAAAATAAAAAATTATACTTTTTTAAT
1 AAAAATTATAAAAATAAAAAATTATACATTTTTAAG
*
106466399 AAAAA-TACTAAAAATAAGAAATTATACATTTTTAAG
1 AAAAATTA-TAAAAATAAAAAATTATACATTTTTAAG
106466435 AAAAA
1 AAAAA
106466440 GTTAAAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 2 0.05
36 35 0.95
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (36 bp):
AAAAATTATAAAAATAAAAAATTATACATTTTTAAG
Found at i:106470859 original size:21 final size:21
Alignment explanation
Indices: 106470833--106470883 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
106470823 GCGGTGGCGA
* *
106470833 TGAGATTAGTTACTGTAGCGG
1 TGAGATTAGATACTGTAGCAG
106470854 TGAGATTAGATACTGTAGCAG
1 TGAGATTAGATACTGTAGCAG
106470875 TGAGATTAG
1 TGAGATTAG
106470884 GAATAATGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.08, G:0.31, T:0.31
Consensus pattern (21 bp):
TGAGATTAGATACTGTAGCAG
Done.