Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 54 of 211
Found at i:14418735 original size:11 final size:11
Alignment explanation
Indices: 14418721--14418797 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
14418711 TTAAATATGG
14418721 ATTTGAGAGAA
1 ATTTGAGAGAA
*
14418732 ATTTG-GAAGGA
1 ATTTGAG-AGAA
14418743 ATTTGAGAGCAA
1 ATTTGAGAG-AA
14418755 A-TTGAGAGGAA
1 ATTTGAGA-GAA
*
14418766 A-TTAAGAGGAA
1 ATTTGAGA-GAA
*
14418777 A-TTAAGAGGAA
1 ATTTGAGA-GAA
14418788 ATTTGAGAGA
1 ATTTGAGAGA
14418798 GGATTAGTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
10 1 0.02
11 47 0.82
12 9 0.16
ACGTcount: A:0.45, C:0.01, G:0.30, T:0.23
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:14418764 original size:22 final size:21
Alignment explanation
Indices: 14418721--14418797 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 21
14418711 TTAAATATGG
14418721 ATTTGAGAGAAATTTG-GAAGGA
1 ATTTGAGAGAAA-TTGAG-AGGA
14418743 ATTTGAGAGCAAATTGAGAGGA
1 ATTTGAGAG-AAATTGAGAGGA
* * *
14418765 AATTAAGAGGAAATTAAGAGGAA
1 ATTTGAGA-GAAATTGAGAGG-A
14418788 ATTTGAGAGA
1 ATTTGAGAGA
14418798 GGATTAGTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
22 34 0.74
23 12 0.26
ACGTcount: A:0.45, C:0.01, G:0.30, T:0.23
Consensus pattern (21 bp):
ATTTGAGAGAAATTGAGAGGA
Found at i:14422727 original size:3 final size:3
Alignment explanation
Indices: 14422719--14422790 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
14422709 AACACTTAAG
14422719 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
14422767 GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA
14422791 AATAACATCT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:14423837 original size:20 final size:18
Alignment explanation
Indices: 14423790--14423838 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
14423780 GTAGATAAAC
14423790 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
14423807 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
14423827 ATTAAATTAATA
1 ATTAAATTAATA
14423839 AAATAGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:14432272 original size:21 final size:22
Alignment explanation
Indices: 14432225--14432321 Score: 110
Period size: 22 Copynumber: 4.3 Consensus size: 22
14432215 ACAAATCCTA
14432225 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
*
14432247 TCTCAATTTCCTTCTAAAATCTC
1 TCTCAATTTCCTTCCAAAATC-C
14432270 TCAAACGTCAATTTCCTTCC-AAATCC
1 T----C-TCAATTTCCTTCCAAAATCC
14432296 TCTCAA-TTCCTTCCAAAAT-C
1 TCTCAATTTCCTTCCAAAATCC
14432316 TCTCAA
1 TCTCAA
14432322 ATCCATATTA
Statistics
Matches: 66, Mismatches: 2, Indels: 16
0.79 0.02 0.19
Matches are distributed among these distances:
20 15 0.23
21 8 0.12
22 21 0.32
23 2 0.03
26 2 0.03
27 6 0.09
28 12 0.18
ACGTcount: A:0.29, C:0.34, G:0.01, T:0.36
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:14432318 original size:48 final size:50
Alignment explanation
Indices: 14432227--14432322 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 50
14432217 AAATCCTATC
*
14432227 TCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCTAAAATCTCTCAAACG
1 TCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAATCTCTCAAACG
14432277 TCAATTTCCTTCC-AAATCCTCTCAA-TTCCTTCCAAAATCTCTCAAA
1 TCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAATCTCTCAAA
14432323 TCCATATTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 20 0.44
49 12 0.27
50 13 0.29
ACGTcount: A:0.30, C:0.33, G:0.01, T:0.35
Consensus pattern (50 bp):
TCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAATCTCTCAAACG
Found at i:14432391 original size:31 final size:32
Alignment explanation
Indices: 14432355--14432421 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
14432345 CCTCAATTTC
14432355 ATTTTTT-AAAATAATTTTA-ATTTTTTTTAT
1 ATTTTTTAAAAATAATTTTATATTTTTTTTAT
14432385 ATTTTTTAAAAATAATTTTATATTTTTTTTAT
1 ATTTTTTAAAAATAATTTTATATTTTTTTTAT
14432417 ATTTT
1 ATTTT
14432422 CATCAATGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 7 0.20
31 12 0.34
32 16 0.46
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (32 bp):
ATTTTTTAAAAATAATTTTATATTTTTTTTAT
Found at i:14434798 original size:30 final size:30
Alignment explanation
Indices: 14434760--14435171 Score: 451
Period size: 30 Copynumber: 13.2 Consensus size: 30
14434750 AAACCCTAAC
14434760 CCCT-AACCCTAACCTAATTTAATTAAAAA
1 CCCTAAACCCTAACCTAATTTAATTAAAAA
*
14434789 CCCTAAACCCTAACTTAATTTAATTAAAAA
1 CCCTAAACCCTAACCTAATTTAATTAAAAA
*
14434819 CCTTAAACCCTAACCTTAACCTAATTTAATTAAAAA
1 CCCTAAA--C---CC-TAACCTAATTTAATTAAAAA
*
14434855 CCCTAAACCCTAACTTAATTTAATTAAAAA
1 CCCTAAACCCTAACCTAATTTAATTAAAAA
14434885 CCCT-AACCCTAACCTAATTTAATTTAATTAAAAA
1 CCCTAAACCCTAACC-----TAATTTAATTAAAAA
*
14434919 CCCTAAACCCTAACCTAATTTAATTTAAAA
1 CCCTAAACCCTAACCTAATTTAATTAAAAA
*
14434949 CCCT-AACCCTAACTTAATTTAATTAAAAA
1 CCCTAAACCCTAACCTAATTTAATTAAAAA
*
14434978 CTCTAAACCCTAACCCTAACCTAATCTAATTAAAAA
1 CCCTAAACCCTAA-CCTAA--T--T-TAATTAAAAA
* *
14435014 CTCTAAACCCTAACCTAATTTTATTAAAAA
1 CCCTAAACCCTAACCTAATTTAATTAAAAA
* *
14435044 CCTTAAACCCTAACCCTAACCTAATTTAAGTAAAAA
1 CCCT--A----AACCCTAACCTAATTTAATTAAAAA
* *
14435080 CCTTAAACCCTAACTTAATTTAATTAAAAA
1 CCCTAAACCCTAACCTAATTTAATTAAAAA
14435110 CCCT-AA--C-AACCTAATTTAATTAAAAA
1 CCCTAAACCCTAACCTAATTTAATTAAAAA
*
14435136 CCCTAAACCCTAACTTAATTTAATTAAAAA
1 CCCTAAACCCTAACCTAATTTAATTAAAAA
14435166 CCCTAA
1 CCCTAA
14435172 CCATTAACAA
Statistics
Matches: 332, Mismatches: 21, Indels: 59
0.81 0.05 0.14
Matches are distributed among these distances:
26 22 0.07
27 3 0.01
29 42 0.13
30 140 0.42
31 7 0.02
32 2 0.01
33 2 0.01
34 21 0.06
35 18 0.05
36 75 0.23
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.29
Consensus pattern (30 bp):
CCCTAAACCCTAACCTAATTTAATTAAAAA
Found at i:14434839 original size:66 final size:63
Alignment explanation
Indices: 14434736--14435171 Score: 476
Period size: 66 Copynumber: 6.9 Consensus size: 63
14434726 TAATAAAAAT
*
14434736 CCTAATTTAATTAAAAACCCTAACCCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA-CCTAA--TAATTTAATTAAAAACCCTAAACCCTA
14434801 A
63 A
* *
14434802 CTTAATTTAATTAAAAACCTTAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAAACCCTA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACC-TAA--TAATTTAATTAAAAACCCTAAACCCTA
14434867 A
63 A
*
14434868 CTTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAA--TAATTTAATTAAAAACCCTAAACCCTAA
* *
14434932 CCTAATTTAATTTAAAACCCT-AACCCTAA-CT--TAATTTAATTAAAAACTCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATAATTTAATTAAAAACCCTAAACCCTAA
* *
14434991 CCCTAACCTAATCTAATTAAAAACTCTAAACCCTAACCTAAT--TTT-ATTAAAAACCTTAAACC
1 -CCTAA--T--T-TAATTAAAAACCCTAAACCCTAACCTAATAATTTAATTAAAAACCCT--A--
14435053 CTAACCCTAA
56 --AACCCTAA
* *
14435063 CCTAATTTAAGTAAAAACCTTAAACCCTAA-CT--TAATTTAATTAAAAACCCT-AA--C-AA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATAATTTAATTAAAAACCCTAAACCCTAA
14435119 CCTAATTTAATTAAAAACCCTAAACCCTAA-CT--TAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATAATTTAATTAAAAACCCTAA
14435172 CCATTAACAA
Statistics
Matches: 330, Mismatches: 19, Indels: 51
0.82 0.05 0.13
Matches are distributed among these distances:
56 51 0.15
57 2 0.01
59 29 0.09
60 5 0.02
62 1 0.00
63 3 0.01
64 59 0.18
65 29 0.09
66 129 0.39
67 6 0.02
68 1 0.00
69 2 0.01
71 5 0.02
72 8 0.02
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.29
Consensus pattern (63 bp):
CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATAATTTAATTAAAAACCCTAAACCCTAA
Found at i:14434965 original size:24 final size:23
Alignment explanation
Indices: 14434923--14434970 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
14434913 TAAAAACCCT
*
14434923 AAACCCTAACCTAATTTAATTTA
1 AAACCCTAACCTAACTTAATTTA
14434946 AAACCCTAACCCTAACTTAATTTA
1 AAACCCTAA-CCTAACTTAATTTA
14434970 A
1 A
14434971 TTAAAAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (23 bp):
AAACCCTAACCTAACTTAATTTA
Found at i:14435134 original size:56 final size:56
Alignment explanation
Indices: 14435061--14435172 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
14435051 CCCTAACCCT
*
14435061 AACCTAATTTAAGTAAAAACCTTAAACCCTAACTTAATTTAATTAAAAACCCTAAC
1 AACCTAATTTAAGTAAAAACCCTAAACCCTAACTTAATTTAATTAAAAACCCTAAC
*
14435117 AACCTAATTTAATTAAAAACCCTAAACCCTAACTTAATTTAATTAAAAACCCTAAC
1 AACCTAATTTAAGTAAAAACCCTAAACCCTAACTTAATTTAATTAAAAACCCTAAC
14435173 CATTAACAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.48, C:0.22, G:0.01, T:0.29
Consensus pattern (56 bp):
AACCTAATTTAAGTAAAAACCCTAAACCCTAACTTAATTTAATTAAAAACCCTAAC
Found at i:14435154 original size:25 final size:26
Alignment explanation
Indices: 14435099--14435155 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
14435089 CTAACTTAAT
*
14435099 TTAATTAAAAACCCTAACAACCTAAT
1 TTAATTAAAAACCCTAACAACCTAAC
*
14435125 TTAATTAAAAACCCTAA-ACCCTAAC
1 TTAATTAAAAACCCTAACAACCTAAC
14435150 TTAATT
1 TTAATT
14435156 TAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 12 0.41
26 17 0.59
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (26 bp):
TTAATTAAAAACCCTAACAACCTAAC
Found at i:14435246 original size:56 final size:56
Alignment explanation
Indices: 14435168--14435325 Score: 307
Period size: 56 Copynumber: 2.8 Consensus size: 56
14435158 ATTAAAAACC
14435168 CTAACCATTAACAAAAGTTTTTGGGCTTAATAATTTTACATAGTTTGATAATTTTA
1 CTAACCATTAACAAAAGTTTTTGGGCTTAATAATTTTACATAGTTTGATAATTTTA
14435224 CTAACCATTAACAAAAGTTTTTGGGCTTAATAATTTTACATAGTTTGATAATTTTA
1 CTAACCATTAACAAAAGTTTTTGGGCTTAATAATTTTACATAGTTTGATAATTTTA
*
14435280 CTAACTATTAACAAAAGTTTTTGGGCTTAATAATTTTACATAGTTT
1 CTAACCATTAACAAAAGTTTTTGGGCTTAATAATTTTACATAGTTT
14435326 TACATAATGT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 101 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (56 bp):
CTAACCATTAACAAAAGTTTTTGGGCTTAATAATTTTACATAGTTTGATAATTTTA
Found at i:14438641 original size:124 final size:124
Alignment explanation
Indices: 14438421--14438700 Score: 474
Period size: 124 Copynumber: 2.3 Consensus size: 124
14438411 CCACGAGGGC
*
14438421 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCA
14438486 AAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAACATCCTGGTAGAA
66 AAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAACATCCTGGTAGAA
*
14438545 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATGACCAACTGTAGCA
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCA
* *
14438610 AAATTC-CGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
66 AAA-TCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAACATCCTGGTAGAA
* *
14438669 ACGATTTTATACTATATGAC-CAGAAACGTCAA
1 GCGATTTTATACTATTTG-CTCAGAAACGTCAA
14438701 CTCGAAATAA
Statistics
Matches: 148, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
124 145 0.98
125 3 0.02
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (124 bp):
GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCA
AAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAACATCCTGGTAGAA
Found at i:14454371 original size:28 final size:27
Alignment explanation
Indices: 14454338--14454395 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
14454328 TCAAAATAAT
14454338 TTTTTCAAAACACATCATGCCAAATTTA
1 TTTTTCAAAAC-CATCATGCCAAATTTA
* * * *
14454366 TTTTTCATATCCATCTTGTCAAATTTA
1 TTTTTCAAAACCATCATGCCAAATTTA
14454393 TTT
1 TTT
14454396 CTTCCGAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (27 bp):
TTTTTCAAAACCATCATGCCAAATTTA
Found at i:14455525 original size:15 final size:17
Alignment explanation
Indices: 14455495--14455526 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
14455485 TTAAATAAAA
14455495 ATTTTATATAGTTTTTT
1 ATTTTATATAGTTTTTT
14455512 ATTTTAT-T-GTTTTTT
1 ATTTTATATAGTTTTTT
14455527 TTAAATAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (17 bp):
ATTTTATATAGTTTTTT
Found at i:14456493 original size:22 final size:22
Alignment explanation
Indices: 14456467--14456508 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14456457 TTTCTCACAT
* *
14456467 TCTCAAATCTCTCTCAAATTTA
1 TCTCAAATCCCTCTAAAATTTA
*
14456489 TCTCAATTCCCTCTAAAATT
1 TCTCAAATCCCTCTAAAATT
14456509 CTCATTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (22 bp):
TCTCAAATCCCTCTAAAATTTA
Found at i:14462596 original size:73 final size:73
Alignment explanation
Indices: 14462477--14462627 Score: 232
Period size: 73 Copynumber: 2.1 Consensus size: 73
14462467 GGAAGCGTAC
* * * *
14462477 CAGAATTCATGAATTCCTTGAAATTTTTCCAGATATTGGGGATTTGATCTTCCAAATTAGCATAT
1 CAGAATCCATGAATTCCTTGAAATTTTTCCAGATATTGAGGATTTGATCTTCCAAATTAGCACAC
14462542 AAGAAATT
66 AAGAAATT
* *
14462550 CAGAATCCATGAATTCCTT-AAATTTTTTCCAGATCTTGAGGATTTGATCTTCCAAATTAGTACA
1 CAGAATCCATGAATTCCTTGAAA-TTTTTCCAGATATTGAGGATTTGATCTTCCAAATTAGCACA
14462614 CAAGAAATT
65 CAAGAAATT
14462623 CAGAA
1 CAGAA
14462628 AATATTTGCT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
72 3 0.04
73 68 0.96
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (73 bp):
CAGAATCCATGAATTCCTTGAAATTTTTCCAGATATTGAGGATTTGATCTTCCAAATTAGCACAC
AAGAAATT
Found at i:14463411 original size:29 final size:31
Alignment explanation
Indices: 14463375--14463438 Score: 114
Period size: 29 Copynumber: 2.1 Consensus size: 31
14463365 TTTAAACCAA
14463375 AAAAATATATATAGATTTTTATAT-AA-TTT
1 AAAAATATATATAGATTTTTATATAAACTTT
14463404 AAAAATATATATAGATTTTTATATAAACTTT
1 AAAAATATATATAGATTTTTATATAAACTTT
14463435 AAAA
1 AAAA
14463439 TTTTAAACCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 24 0.73
30 2 0.06
31 7 0.21
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (31 bp):
AAAAATATATATAGATTTTTATATAAACTTT
Found at i:14464700 original size:92 final size:84
Alignment explanation
Indices: 14464574--14464759 Score: 237
Period size: 85 Copynumber: 2.1 Consensus size: 84
14464564 GTATTATTTT
* * * *
14464574 AAATTATAAACTCTTAAATTTATACGATTTTAACTATCATAAATTTTTTTTAAAAAATTAAGTTA
1 AAATCATAAACTCTTAAATTAATACGAATTTAACTATCATAAA------TTAAAAAA-AAAGTTA
14464639 ATTACTTAACTTTTCATTTGATCACA
59 ATTACTTAACTTTTCATTTGATCACA
* * *
14464665 AAATCATAAACTTTTAAAATTAATATGAATTTAACTATCATAAATTAAAAAAAAAGTTAATTATT
1 AAATCATAAACTCTT-AAATTAATACGAATTTAACTATCATAAATTAAAAAAAAAGTTAATTACT
14464730 TAACTTTTCATTTGATCACA
65 TAACTTTTCATTTGATCACA
14464750 AAATCATAAA
1 AAATCATAAA
14464760 GTATAAACTT
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
85 41 0.47
86 8 0.09
91 13 0.15
92 25 0.29
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (84 bp):
AAATCATAAACTCTTAAATTAATACGAATTTAACTATCATAAATTAAAAAAAAAGTTAATTACTT
AACTTTTCATTTGATCACA
Found at i:14469346 original size:60 final size:60
Alignment explanation
Indices: 14469259--14469371 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
14469249 GTACACTTCC
* *
14469259 GTGTCCTTGATCGTATGGTTTTATACCACAAACACTGAGTTACACT-GCCTGGGCACTCCA
1 GTGTCCTTGATCATATGGTCTTATACCACAAACACTGAGTTACA-TAGCCTGGGCACTCCA
* * * *
14469319 GTGTCCTTGGTCATGTGGTCTTGTACCACAAACAGTGAGTTACATAGCCTGGG
1 GTGTCCTTGATCATATGGTCTTATACCACAAACACTGAGTTACATAGCCTGGG
14469372 TACACGCTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 1 0.02
60 45 0.98
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (60 bp):
GTGTCCTTGATCATATGGTCTTATACCACAAACACTGAGTTACATAGCCTGGGCACTCCA
Found at i:14470392 original size:3 final size:3
Alignment explanation
Indices: 14470384--14470425 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
14470374 ATGTGTACTC
14470384 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14470426 AGTTTGTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14471333 original size:15 final size:15
Alignment explanation
Indices: 14471311--14471349 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
14471301 AACTAAACCC
14471311 CAAA-AACCCAAAAA
1 CAAAGAACCCAAAAA
*
14471325 CAAAGAACCCGAAAA
1 CAAAGAACCCAAAAA
14471340 CAAAGAACCC
1 CAAAGAACCC
14471350 TCAAAACGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.62, C:0.31, G:0.08, T:0.00
Consensus pattern (15 bp):
CAAAGAACCCAAAAA
Found at i:14471355 original size:16 final size:15
Alignment explanation
Indices: 14471311--14471356 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
14471301 AACTAAACCC
*
14471311 CAAA-AACCCAAAAA
1 CAAAGAACCCCAAAA
*
14471325 CAAAGAACCCGAAAA
1 CAAAGAACCCCAAAA
14471340 CAAAGAACCCTCAAAA
1 CAAAGAACCC-CAAAA
14471356 C
1 C
14471357 GTAAACACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 4 0.14
15 19 0.68
16 5 0.18
ACGTcount: A:0.61, C:0.30, G:0.07, T:0.02
Consensus pattern (15 bp):
CAAAGAACCCCAAAA
Found at i:14471485 original size:24 final size:24
Alignment explanation
Indices: 14471458--14471509 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
14471448 TTAGTAGGTA
*
14471458 AAATAAACTATGCAAATAAATACT
1 AAATAAACTATACAAATAAATACT
* * *
14471482 AAATATATTATACAAATATATACT
1 AAATAAACTATACAAATAAATACT
14471506 AAAT
1 AAAT
14471510 CTTTTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATAAACTATACAAATAAATACT
Found at i:14472148 original size:6 final size:6
Alignment explanation
Indices: 14472137--14472178 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
14472127 TTTTAACAGG
* *
14472137 ACCAAT ACCAAT ACCAAT ACCAAT ACCAAT ACTACT ACCAAT
1 ACCAAT ACCAAT ACCAAT ACCAAT ACCAAT ACCAAT ACCAAT
14472179 TACCTTACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (6 bp):
ACCAAT
Found at i:14473581 original size:16 final size:16
Alignment explanation
Indices: 14473560--14473628 Score: 120
Period size: 16 Copynumber: 4.3 Consensus size: 16
14473550 TTGGTTCGCT
14473560 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
14473576 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGGC
*
14473592 GTAATGGAATAAAGGC
1 GTAATGGAATAGAGGC
14473608 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
14473624 GTAAT
1 GTAAT
14473629 AGCAATTCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.20
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:14473796 original size:21 final size:20
Alignment explanation
Indices: 14473772--14473858 Score: 53
Period size: 19 Copynumber: 4.5 Consensus size: 20
14473762 AATAAGATTA
14473772 TTAATATAAATAATAAATAAT
1 TTAATATAAATAA-AAATAAT
* *
14473793 TTAATAATAATTTAAAATAA-
1 TTAAT-ATAAATAAAAATAAT
* *
14473813 TT-AT-T-ATTAAATATAAT
1 TTAATATAAATAAAAATAAT
*
14473830 TTAATA-AAA-AATATATAAT
1 TTAATATAAATAA-AAATAAT
14473849 TTAATA-AAAT
1 TTAATATAAAT
14473859 TCTTAATAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
16 9 0.17
17 3 0.06
18 4 0.07
19 19 0.35
20 2 0.04
21 11 0.20
22 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAATATAAATAAAAATAAT
Found at i:14473801 original size:11 final size:11
Alignment explanation
Indices: 14473782--14473814 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
14473772 TTAATATAAA
14473782 TAATAAATAATT
1 TAAT-AATAATT
14473794 TAATAATAATT
1 TAATAATAATT
14473805 TAA-AATAATT
1 TAATAATAATT
14473815 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 10 0.48
12 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATT
Found at i:14473835 original size:24 final size:21
Alignment explanation
Indices: 14473759--14473871 Score: 70
Period size: 21 Copynumber: 5.1 Consensus size: 21
14473749 GTTATTAAAT
14473759 TTTAATAAGATTATTAATATAA
1 TTTAATAA-ATTATTAATATAA
* *
14473781 -ATAATAAATAATTTAATAATAA
1 TTTAATAAATTA-TTAAT-ATAA
14473803 TTTAAAATAATTATTATTAAATATAA
1 TTT--AATAA--ATTATT-AATATAA
* *
14473829 TTTAATAAA-AAAT-ATATAA
1 TTTAATAAATTATTAATATAA
* *
14473848 TTTAATAAAATTCTTAATAAAA
1 TTTAAT-AAATTATTAATATAA
14473870 TT
1 TT
14473872 ATTCTTATAT
Statistics
Matches: 70, Mismatches: 10, Indels: 22
0.69 0.10 0.22
Matches are distributed among these distances:
19 12 0.17
20 6 0.09
21 14 0.20
22 12 0.17
23 1 0.01
24 5 0.07
25 5 0.07
26 9 0.13
27 6 0.09
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (21 bp):
TTTAATAAATTATTAATATAA
Found at i:14473838 original size:29 final size:31
Alignment explanation
Indices: 14473805--14473879 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 31
14473795 AATAATAATT
*
14473805 TAAAATAATTATTATTAAATATAA-T-TTAA
1 TAAAATAATTATTATTAAATAAAATTCTTAA
* *
14473834 TAAAA-AATATATAATTTAATAAAATTCTTAA
1 TAAAATAAT-TATTATTAAATAAAATTCTTAA
* *
14473865 TAAAATTATTCTTAT
1 TAAAATAATTATTAT
14473880 ATTAATTTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
28 3 0.08
29 17 0.47
30 1 0.03
31 13 0.36
32 2 0.06
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
TAAAATAATTATTATTAAATAAAATTCTTAA
Found at i:14473848 original size:56 final size:57
Alignment explanation
Indices: 14473772--14473900 Score: 149
Period size: 56 Copynumber: 2.3 Consensus size: 57
14473762 AATAAGATTA
14473772 TTAATATAAATAATAAATAATTTAATAATAA-T-TTAA-AATAATTATTATTAAATATAAT
1 TTAATA-AAATAATAAATAATTTAATAA-AATTCTTAATAA-AATTATTATTAAAT-TAAT
* * *
14473830 TTAATAAAA-AATATATAATTTAATAAAATTCTTAATAAAATTATTCTTATATTAAT
1 TTAATAAAATAATAAATAATTTAATAAAATTCTTAATAAAATTATTATTAAATTAAT
* *
14473886 TTACTAAAATCATAA
1 TTAATAAAATAATAA
14473901 TATATAAGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
55 2 0.03
56 29 0.48
57 22 0.36
58 8 0.13
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (57 bp):
TTAATAAAATAATAAATAATTTAATAAAATTCTTAATAAAATTATTATTAAATTAAT
Found at i:14474277 original size:77 final size:77
Alignment explanation
Indices: 14474150--14474311 Score: 297
Period size: 77 Copynumber: 2.1 Consensus size: 77
14474140 ATTTTTTGTC
* *
14474150 CACTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
1 CACTTTAATAATTAAACTTGACAATTAGATATATTTCAATCTTTGAACTTGAAATATATAAAATT
*
14474215 TTATTGACATAA
66 TTATTAACATAA
14474227 CACTTTAATAATTAAACTTGACAATTAGATATATTTCAATCTTTGAACTTGAAATATATAAAATT
1 CACTTTAATAATTAAACTTGACAATTAGATATATTTCAATCTTTGAACTTGAAATATATAAAATT
14474292 TTATTAACATAA
66 TTATTAACATAA
14474304 CACTTTAA
1 CACTTTAA
14474312 GATTGTCTCA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 82 1.00
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (77 bp):
CACTTTAATAATTAAACTTGACAATTAGATATATTTCAATCTTTGAACTTGAAATATATAAAATT
TTATTAACATAA
Found at i:14476212 original size:94 final size:94
Alignment explanation
Indices: 14476051--14476240 Score: 380
Period size: 94 Copynumber: 2.0 Consensus size: 94
14476041 TACCTTTACA
14476051 GCTCGCCAATGATCTAAACATTCCCGATGTACATATTTTGATGTTCCTTTGCACTTGCAAGGAGC
1 GCTCGCCAATGATCTAAACATTCCCGATGTACATATTTTGATGTTCCTTTGCACTTGCAAGGAGC
14476116 AATAAAATCTCTACCTGAGGAAAACAATT
66 AATAAAATCTCTACCTGAGGAAAACAATT
14476145 GCTCGCCAATGATCTAAACATTCCCGATGTACATATTTTGATGTTCCTTTGCACTTGCAAGGAGC
1 GCTCGCCAATGATCTAAACATTCCCGATGTACATATTTTGATGTTCCTTTGCACTTGCAAGGAGC
14476210 AATAAAATCTCTACCTGAGGAAAACAATT
66 AATAAAATCTCTACCTGAGGAAAACAATT
14476239 GC
1 GC
14476241 ACATTGAACT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 96 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (94 bp):
GCTCGCCAATGATCTAAACATTCCCGATGTACATATTTTGATGTTCCTTTGCACTTGCAAGGAGC
AATAAAATCTCTACCTGAGGAAAACAATT
Found at i:14476309 original size:31 final size:31
Alignment explanation
Indices: 14476274--14476335 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
14476264 AGTTCCTTCA
14476274 AACAACACCTTTA-ACAACAAAAATTAAGTTT
1 AACAACACCTTTAGA-AACAAAAATTAAGTTT
14476305 AACAACACCTTTAGAAACAAAAATTAAGTTT
1 AACAACACCTTTAGAAACAAAAATTAAGTTT
14476336 TCTTTTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.52, C:0.18, G:0.05, T:0.26
Consensus pattern (31 bp):
AACAACACCTTTAGAAACAAAAATTAAGTTT
Found at i:14477578 original size:108 final size:108
Alignment explanation
Indices: 14477446--14477648 Score: 379
Period size: 108 Copynumber: 1.9 Consensus size: 108
14477436 CCAATTAGGG
*
14477446 AACTAAACATGCTGTTAGAATTTAGGTCACACAACTGTAATAGTTATTACAGTATTTCGAGAAAA
1 AACTAAACATGCTGTTAGAATTTAGGTCACACAACTGTAATAGTTATTACAGCATTTCGAGAAAA
14477511 CACACAAATATTATTTATTTATATAATTTTAGCCAATACACCC
66 CACACAAATATTATTTATTTATATAATTTTAGCCAATACACCC
*
14477554 AACTAAACATGCTGTTAGAATTTAGGTCACACAATTGTAATAGTTATTACAGCATTTCGAGAAAA
1 AACTAAACATGCTGTTAGAATTTAGGTCACACAACTGTAATAGTTATTACAGCATTTCGAGAAAA
*
14477619 CATACAAATATTATTTATTTATATAATTTT
66 CACACAAATATTATTTATTTATATAATTTT
14477649 TTGTTAATTG
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 92 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.35
Consensus pattern (108 bp):
AACTAAACATGCTGTTAGAATTTAGGTCACACAACTGTAATAGTTATTACAGCATTTCGAGAAAA
CACACAAATATTATTTATTTATATAATTTTAGCCAATACACCC
Found at i:14497935 original size:42 final size:42
Alignment explanation
Indices: 14497888--14498009 Score: 140
Period size: 42 Copynumber: 2.9 Consensus size: 42
14497878 GAGTTTCAAT
*
14497888 TTAACCC-TATTGGGTTTCCGTTCAGCTCTTTTGAGCTTTAGC
1 TTAACCCTTA-TGGGTTTCCGTTCAGCTCTTATGAGCTTTAGC
* **
14497930 TTAACCCTTATGGGTTTCCTTTCAGCTCTTATGAGCTTCCG-
1 TTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTTAGC
* * * *
14497971 TTAAACCCTTATGGGTTTCTGTTTAGCACTTATGTGCTT
1 TT-AACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTT
14498010 CTGTATAGCC
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.03
42 65 0.94
43 2 0.03
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (42 bp):
TTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTTAGC
Found at i:14497962 original size:21 final size:21
Alignment explanation
Indices: 14497932--14497989 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
14497922 GCTTTAGCTT
* *
14497932 AACCCTTATGGGTTTCCTTTC
1 AACCCTTATGGGTTTCCGTTA
* * * *
14497953 AGCTCTTATGAGCTTCCGTTA
1 AACCCTTATGGGTTTCCGTTA
14497974 AACCCTTATGGGTTTC
1 AACCCTTATGGGTTTC
14497990 TGTTTAGCAC
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCGTTA
Found at i:14498002 original size:21 final size:21
Alignment explanation
Indices: 14497978--14498018 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14497968 CCGTTAAACC
* *
14497978 CTTATGGGTTTCTGTTTAGCA
1 CTTATGGGCTTCTGTATAGCA
*
14497999 CTTATGTGCTTCTGTATAGC
1 CTTATGGGCTTCTGTATAGC
14498019 CTTCGGGCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (21 bp):
CTTATGGGCTTCTGTATAGCA
Found at i:14502272 original size:25 final size:25
Alignment explanation
Indices: 14502244--14502293 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
14502234 GGGAAGATCT
*
14502244 TTCGAGCCATATAGTGAGAAGCTCA
1 TTCGAGCCATATAATGAGAAGCTCA
** *
14502269 TTCGAGCTGTATAATGGGAAGCTCA
1 TTCGAGCCATATAATGAGAAGCTCA
14502294 AAAGAGCTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (25 bp):
TTCGAGCCATATAATGAGAAGCTCA
Found at i:14502300 original size:25 final size:24
Alignment explanation
Indices: 14502278--14502426 Score: 77
Period size: 24 Copynumber: 6.0 Consensus size: 24
14502268 ATTCGAGCTG
14502278 TATAAT-GGGAAGCTCAAAAGAGC
1 TATAATCGGGAAGCTCAAAAGAGC
* ** *
14502301 TATAATCGGGAAGTTCAAGCGGGC
1 TATAATCGGGAAGCTCAAAAGAGC
* ***
14502325 CA-ATATCGGGAAGCTCCGGAGAGC
1 TATA-ATCGGGAAGCTCAAAAGAGC
* *
14502349 TATTAATCGAGAAGCTCATGAAAAAGCC
1 TA-TAATCGGGAAGCTCA--AAAGAG-C
* ***
14502377 TTTAATCGGGAAGCTCTGGAGAGC
1 TATAATCGGGAAGCTCAAAAGAGC
* * *
14502401 TATATATCGGGATGATCATAAGAGC
1 TATA-ATCGGGAAGCTCAAAAGAGC
14502426 T
1 T
14502427 GCGGTGTGTC
Statistics
Matches: 90, Mismatches: 28, Indels: 14
0.68 0.21 0.11
Matches are distributed among these distances:
23 7 0.08
24 34 0.38
25 30 0.33
26 1 0.01
27 16 0.18
28 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (24 bp):
TATAATCGGGAAGCTCAAAAGAGC
Found at i:14502547 original size:25 final size:24
Alignment explanation
Indices: 14502519--14502566 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14502509 ATAACGGGAA
*
14502519 GCTCGTGAGAGCCAAATATCAGGAT
1 GCTCATGAGAG-CAAATATCAGGAT
* *
14502544 GCTCATGATAGCTAATATCAGGA
1 GCTCATGAGAGCAAATATCAGGA
14502567 CACCCTTTCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (24 bp):
GCTCATGAGAGCAAATATCAGGAT
Found at i:14512042 original size:4 final size:4
Alignment explanation
Indices: 14512033--14512069 Score: 58
Period size: 4 Copynumber: 9.2 Consensus size: 4
14512023 GTGAAAGAAT
14512033 AATA AATA AATA AATA AATAA AATA AAT- AATA AATA A
1 AATA AATA AATA AATA AAT-A AATA AATA AATA AATA A
14512070 CATCAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 3 0.10
4 24 0.77
5 4 0.13
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:14512054 original size:16 final size:15
Alignment explanation
Indices: 14512030--14512069 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 15
14512020 GAAGTGAAAG
14512030 AATAATAAATAAATA
1 AATAATAAATAAATA
*
14512045 AATAA-ATA-AAATA
1 AATAATAAATAAATA
14512058 AATAATAAATAA
1 AATAATAAATAA
14512070 CATCAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
13 10 0.48
14 4 0.19
15 7 0.33
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AATAATAAATAAATA
Found at i:14512153 original size:74 final size:73
Alignment explanation
Indices: 14512062--14512244 Score: 188
Period size: 73 Copynumber: 2.5 Consensus size: 73
14512052 AAAATAAATA
*
14512062 ATAAATAACA-TCAAATTTAAATGTTTAAAAAGTAAAAGAAAAAACAAACAAACAAATAAACAGA
1 ATAAATAACATTC-AATTTAAATATTTAAAAAGTAAAAG-AAAAACAAACAAACAAATAAACAGA
14512126 TAAAACACAT
64 TAAAACACAT
* * * * * ** * * *
14512136 ATAAATAACATTCAATTTAAGTATTTAAAAGGTAATAGAATAATAAGTAAATAGATAAATAGATA
1 ATAAATAACATTCAATTTAAATATTTAAAAAGTAAAAGAAAAACAAACAAACAAATAAACAGATA
* **
14512201 AAGCTGAT
66 AAACACAT
* * *
14512209 ATAAATAAGATTAAATTTAGATATTTAAAAAGTAAA
1 ATAAATAACATTCAATTTAAATATTTAAAAAGTAAA
14512245 GAATAATAAA
Statistics
Matches: 88, Mismatches: 20, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
73 55 0.62
74 31 0.35
75 2 0.02
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (73 bp):
ATAAATAACATTCAATTTAAATATTTAAAAAGTAAAAGAAAAACAAACAAACAAATAAACAGATA
AAACACAT
Found at i:14514793 original size:101 final size:101
Alignment explanation
Indices: 14514617--14514879 Score: 332
Period size: 101 Copynumber: 2.6 Consensus size: 101
14514607 CAATTATTCA
* * * *
14514617 AACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGGTCATAGCTGGGCTAAGGCATT
1 AACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGATCATAGTTGGGCTATGGCATT
* * * *
14514682 CTAATGATAAGATCATATCTAGGTTTTGGCACTATG
66 CTAATGATAAGACCATAACTAGGTTATGGCACTACG
*
14514718 GACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGATCATAGTTGGGCTATGGCATT
1 AACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGATCATAGTTGGGCTATGGCATT
* *
14514783 CTGATGATAAGACCATAACTGGGTTATGGCACTACG
66 CTAATGATAAGACCATAACTAGGTTATGGCACTACG
* ** * * * * * *
14514819 AATGTAAGACCATGGCAGGGCCATGATAATG--CATATGTAAGACCATAGTTGGACTATGGCA
1 AACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGATCATAGTTGGGCTATGGCA
14514880 CAAAGGAAAC
Statistics
Matches: 141, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
99 27 0.19
101 114 0.81
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (101 bp):
AACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGATCATAGTTGGGCTATGGCATT
CTAATGATAAGACCATAACTAGGTTATGGCACTACG
Found at i:14526963 original size:59 final size:60
Alignment explanation
Indices: 14526886--14527002 Score: 164
Period size: 60 Copynumber: 2.0 Consensus size: 60
14526876 TTGGATAACT
* * * * *
14526886 ATTTTGTAACTTTTCATAGTT-GGTGGCTAAAAAAGGAATTTACTAATAGTTGGGTGATC
1 ATTTTGTAACTTTCCATAGTTAGGTGACCAAAAAAGAAATTCACTAATAGTTGGGTGATC
* *
14526945 ATTTTGTAACTTTCCATAGTTAGGTGACCAAAAAAGAAATTCATTGATAGTTGGGTGA
1 ATTTTGTAACTTTCCATAGTTAGGTGACCAAAAAAGAAATTCACTAATAGTTGGGTGA
14527003 CTACTAGTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
59 20 0.40
60 30 0.60
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.37
Consensus pattern (60 bp):
ATTTTGTAACTTTCCATAGTTAGGTGACCAAAAAAGAAATTCACTAATAGTTGGGTGATC
Found at i:14547498 original size:24 final size:24
Alignment explanation
Indices: 14547451--14547495 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
14547441 ACATTTTTAG
14547451 AAAAATATAAGAAATATATATTAT
1 AAAAATATAAGAAATATATATTAT
14547475 AAAAATA-AA-AAATAT-TATTAT
1 AAAAATATAAGAAATATATATTAT
14547496 TATGAATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 6 0.29
23 2 0.10
24 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAAATATAAGAAATATATATTAT
Found at i:14552893 original size:20 final size:21
Alignment explanation
Indices: 14552868--14552911 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
14552858 TTTTCTAAAA
*
14552868 TTTTAACTATAT-TTTTATTT
1 TTTTAACTATATATTTAATTT
*
14552888 TTTTAATTATATATTTAATTT
1 TTTTAACTATATATTTAATTT
14552909 TTT
1 TTT
14552912 GAATTTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTAACTATATATTTAATTT
Found at i:14552910 original size:21 final size:20
Alignment explanation
Indices: 14552868--14552916 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
14552858 TTTTCTAAAA
* *
14552868 TTTTAACTATATTTTTATTT
1 TTTTAATTATATTTTAATTT
14552888 TTTTAATTATATATTTAATTT
1 TTTTAATTATAT-TTTAATTT
*
14552909 TTTGAATT
1 TTTTAATT
14552917 TTTGTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTAATTATATTTTAATTT
Found at i:14556399 original size:5 final size:5
Alignment explanation
Indices: 14556389--14556421 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
14556379 ATTTTCTCTC
14556389 CTTCT CTTCT CTTCT CTTTCT CTTCT CTTCT CT
1 CTTCT CTTCT CTTCT C-TTCT CTTCT CTTCT CT
14556422 GTAAAACCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (5 bp):
CTTCT
Found at i:14556409 original size:16 final size:16
Alignment explanation
Indices: 14556385--14556421 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
14556375 CACCATTTTC
*
14556385 TCTCCTTCTCTTCTCT
1 TCTCTTTCTCTTCTCT
14556401 TCTCTTTCTCTTCTCT
1 TCTCTTTCTCTTCTCT
14556417 TCTCT
1 TCTCT
14556422 GTAAAACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (16 bp):
TCTCTTTCTCTTCTCT
Found at i:14558747 original size:126 final size:126
Alignment explanation
Indices: 14558522--14558775 Score: 499
Period size: 126 Copynumber: 2.0 Consensus size: 126
14558512 TTTTAGTTGA
*
14558522 GCTTGGAGTAGCCACACATTTTTCTAGACTGGGCTTGAGGTCTGGTTACCATCAGACTAGAATGT
1 GCTTGGAGTAGCCACACATTTTTCTAGACTGGGCTTGAGGTCTGGTTACCATCAGACTAGAATGC
14558587 GGGTCAAGGATGTTCACAAAACATCTAAAACTCATGAGGGGCATTATGATTTCTTGGTCAT
66 GGGTCAAGGATGTTCACAAAACATCTAAAACTCATGAGGGGCATTATGATTTCTTGGTCAT
14558648 GCTTGGAGTAGCCACACATTTTTCTAGACTGGGCTTGAGGTCTGGTTACCATCAGACTAGAATGC
1 GCTTGGAGTAGCCACACATTTTTCTAGACTGGGCTTGAGGTCTGGTTACCATCAGACTAGAATGC
14558713 GGGTCAAGGATGTTCACAAAACATCTAAAACTCATGAGGGGCATTATGATTTCTTGGTCAT
66 GGGTCAAGGATGTTCACAAAACATCTAAAACTCATGAGGGGCATTATGATTTCTTGGTCAT
14558774 GC
1 GC
14558776 CCTTTGGTTT
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (126 bp):
GCTTGGAGTAGCCACACATTTTTCTAGACTGGGCTTGAGGTCTGGTTACCATCAGACTAGAATGC
GGGTCAAGGATGTTCACAAAACATCTAAAACTCATGAGGGGCATTATGATTTCTTGGTCAT
Found at i:14568396 original size:21 final size:22
Alignment explanation
Indices: 14568357--14568401 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
14568347 AAGCATTATA
*
14568357 TTCTTCTCTTATTTTTCTT-TT
1 TTCTTCTCTTATTTCTCTTCTT
14568378 TTCTTCT-TTATTTACTCTTCTT
1 TTCTTCTCTTATTT-CTCTTCTT
14568400 TT
1 TT
14568402 TAATTAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 11 0.52
22 4 0.19
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (22 bp):
TTCTTCTCTTATTTCTCTTCTT
Found at i:14570909 original size:16 final size:16
Alignment explanation
Indices: 14570888--14570919 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14570878 TCAGCTCATG
*
14570888 TCATTTCAGCTTTGAA
1 TCATTTAAGCTTTGAA
14570904 TCATTTAAGCTTTGAA
1 TCATTTAAGCTTTGAA
14570920 CCCTTATCGG
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:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (16 bp):
TCATTTAAGCTTTGAA
Found at i:14576225 original size:15 final size:15
Alignment explanation
Indices: 14576205--14576234 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14576195 AAGTATATTA
14576205 AAAATATAATATAAT
1 AAAATATAATATAAT
*
14576220 AAAATATAGTATAAT
1 AAAATATAATATAAT
14576235 CATTAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AAAATATAATATAAT
Found at i:14577574 original size:21 final size:20
Alignment explanation
Indices: 14577536--14577574 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14577526 TAAGACATGG
*
14577536 AATTAATTAGAAATTAAATC
1 AATTAATTAGAAAATAAATC
*
14577556 AATTAGATTATAAAATAAA
1 AATTA-ATTAGAAAATAAA
14577575 CAGTATAGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
AATTAATTAGAAAATAAATC
Found at i:14579381 original size:20 final size:20
Alignment explanation
Indices: 14579356--14579414 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
14579346 CAGCTGCACG
*
14579356 AAGGAGAAGAAAGAAAAAGA
1 AAGGAGAAGAAAGAAGAAGA
14579376 AAGGAGAAG-AAGAAGAAG-
1 AAGGAGAAGAAAGAAGAAGA
*
14579394 AAGAAGAAGAAGAGAAGAAGA
1 AAGGAGAAGAA-AGAAGAAGA
14579415 GGGCGGTGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 8 0.24
19 9 0.26
20 17 0.50
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (20 bp):
AAGGAGAAGAAAGAAGAAGA
Found at i:14579388 original size:3 final size:3
Alignment explanation
Indices: 14579355--14579414 Score: 68
Period size: 3 Copynumber: 19.7 Consensus size: 3
14579345 TCAGCTGCAC
* * *
14579355 GAA GGA GAA GAAA GAA AAA GAAA GGA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA G-AA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA
14579402 GAA G-A GAA GAA GA
1 GAA GAA GAA GAA GA
14579415 GGGCGGTGCC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.83
4 6 0.12
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:14579482 original size:20 final size:20
Alignment explanation
Indices: 14579445--14579483 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14579435 AAGTAAAAGA
*
14579445 GAGAAAGAGAATAGAGAAAC
1 GAGAAAGAGAAGAGAGAAAC
14579465 GAGAAAGA-AAGAGAAGAAA
1 GAGAAAGAGAAGAG-AGAAA
14579484 AAAATAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.64, C:0.03, G:0.31, T:0.03
Consensus pattern (20 bp):
GAGAAAGAGAAGAGAGAAAC
Found at i:14582873 original size:49 final size:49
Alignment explanation
Indices: 14582791--14582884 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
14582781 TCAAGTAGGG
* * *
14582791 ATAAATAGTGATAAGAGTGTAGACAGTGAAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGCAGACAATGAAAGACCAAGTTTAGCAATGT
* *
14582840 ATAAATAGTGATAAGAGTGCGGACAATGGAAGACCAAGTTTAGCA
1 ATAAATAGTGATAAGAGTGCAGACAATGAAAGACCAAGTTTAGCA
14582885 TAGCATAGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.43, C:0.09, G:0.26, T:0.23
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGCAGACAATGAAAGACCAAGTTTAGCAATGT
Found at i:14583806 original size:23 final size:23
Alignment explanation
Indices: 14583780--14583854 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 23
14583770 TTGGTGGAAG
*
14583780 CATTCTAACACTACGGTGCAATT
1 CATTCTAACACTACAGTGCAATT
* *
14583803 CATTCTAGCACTATAGTGCAATT
1 CATTCTAACACTACAGTGCAATT
** ** *
14583826 CATTCTGGCGTTATAGTGCAATT
1 CATTCTAACACTACAGTGCAATT
14583849 CATTCT
1 CATTCT
14583855 GGCACTTTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (23 bp):
CATTCTAACACTACAGTGCAATT
Found at i:14583855 original size:23 final size:23
Alignment explanation
Indices: 14583795--14583860 Score: 105
Period size: 23 Copynumber: 2.9 Consensus size: 23
14583785 TAACACTACG
*
14583795 GTGCAATTCATTCTAGCACTATA
1 GTGCAATTCATTCTGGCACTATA
**
14583818 GTGCAATTCATTCTGGCGTTATA
1 GTGCAATTCATTCTGGCACTATA
14583841 GTGCAATTCATTCTGGCACT
1 GTGCAATTCATTCTGGCACT
14583861 TTGATGCGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (23 bp):
GTGCAATTCATTCTGGCACTATA
Found at i:14590117 original size:68 final size:69
Alignment explanation
Indices: 14590030--14590191 Score: 186
Period size: 68 Copynumber: 2.4 Consensus size: 69
14590020 ATAGTTTTAT
* * * * * *
14590030 ACCTTATAATCTCCATGTTTATTGTCCCGATGGACTTTGTTGGTCGCTATAG-CGGAGCTATGGT
1 ACCTTGTAATCTTCGTGTTTATTGTCCCGACGGACTTTGTTAGTCGCCATAGTC-GAGCTATGGT
14590094 C-TAC
65 CTTAC
* * * *
14590098 ACCTTGTAATCTTCGTGTTTACTGTCCCGGCGGGCTTTGTTAGTTGCCATAGTCGAGCTATGGTC
1 ACCTTGTAATCTTCGTGTTTATTGTCCCGACGGACTTTGTTAGTCGCCATAGTCGAGCTATGGTC
14590163 TTAC
66 TTAC
*
14590167 ACCTCGTAATACTT-GTGTTTATTGT
1 ACCTTGTAAT-CTTCGTGTTTATTGT
14590192 TCTGATAGAC
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
68 53 0.67
69 23 0.29
70 3 0.04
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (69 bp):
ACCTTGTAATCTTCGTGTTTATTGTCCCGACGGACTTTGTTAGTCGCCATAGTCGAGCTATGGTC
TTAC
Found at i:14595885 original size:43 final size:43
Alignment explanation
Indices: 14595819--14595933 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
14595809 AGTTTGTACA
* ** * * * *
14595819 ATGCCAACGTCCCAGGCCTGGTCTTACATGTGATCAC-CGATTG
1 ATGCCAACGTCCCAGACAGGGTCTTACACGTAAACACAAG-TTG
14595862 ATGCC-ACTGTCCCAGACAGGGTCTTACACGTAAACACAAGTTG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGTAAACACAAGTTG
* *
14595905 ATGCCAACGTCCTAGACATGGTCTTACAC
1 ATGCCAACGTCCCAGACAGGGTCTTACAC
14595934 AAAATCACAT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 2 0.03
43 55 0.92
44 3 0.05
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGTAAACACAAGTTG
Found at i:14600638 original size:25 final size:25
Alignment explanation
Indices: 14600577--14600639 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
14600567 GGAATTTTAG
*
14600577 AATCTGTATTCTAGATTGTATATTC
1 AATCTGTATTCTGGATTGTATATTC
*
14600602 AAGT-TGTATTCTGGATTGTATGTTC
1 AA-TCTGTATTCTGGATTGTATATTC
*
14600627 AATCTGTCTTCTG
1 AATCTGTATTCTG
14600640 CTTAGTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 1 0.03
25 31 0.94
26 1 0.03
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (25 bp):
AATCTGTATTCTGGATTGTATATTC
Found at i:14600811 original size:30 final size:30
Alignment explanation
Indices: 14600775--14600835 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
14600765 AATGAAAATA
14600775 TTTGGGAATTAGTTCCCCTTCTTTAATCAG
1 TTTGGGAATTAGTTCCCCTTCTTTAATCAG
14600805 TTTGGGAATTAGTTCCCCTTCTTTAATCAG
1 TTTGGGAATTAGTTCCCCTTCTTTAATCAG
14600835 T
1 T
14600836 CTCATAGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (30 bp):
TTTGGGAATTAGTTCCCCTTCTTTAATCAG
Found at i:14602925 original size:38 final size:37
Alignment explanation
Indices: 14602855--14602927 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
14602845 TTTTCATAAT
* *
14602855 TTCACTTTTTTACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTTCACTTTTAATCAATATTCAATTCAAAA
14602892 TTCACTTTTTCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTTCACTTTT-AA-TCAATATTCAATTCAA
14602928 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.19, G:0.01, T:0.48
Consensus pattern (37 bp):
TTCACTTTTTCACTTTTAATCAATATTCAATTCAAAA
Found at i:14603108 original size:45 final size:45
Alignment explanation
Indices: 14603028--14603349 Score: 432
Period size: 45 Copynumber: 7.2 Consensus size: 45
14603018 AATAATAACA
* * * *
14603028 GTACACGGTGG-ATCAGCACACAGC-ACCACCCTTATAGTCAATG
1 GTACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* * *
14603071 ATACTCGGTGTAATCAGCACATGGCAACCACCTTTATAATCAATG
1 GTACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* *
14603116 GTACCCGGTGGAATCAACACATAGCAACCACCTTTATAATCAATG
1 GTACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* * *
14603161 GTACCCGGTAGAATCAGCACATAACAACCACCTTTATAATCAATG
1 GTACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* *
14603206 GTACCCGGTAGAATCAGCACATAGCAACCACCTTTATAATCAATG
1 GTACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* *
14603251 GTACTTGGTGGAATCAACACATAGCAACCACCTTTATAATCAATG
1 GTACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* * * * *
14603296 GTATTCAGTGGAATCAGTACATAGCAACCACCGTTACAATCAATG
1 GTACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
*
14603341 ATACTCGGT
1 GTACTCGGT
14603350 ACACGTAGTA
Statistics
Matches: 247, Mismatches: 30, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
43 8 0.03
44 11 0.04
45 228 0.92
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (45 bp):
GTACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
Found at i:14607943 original size:29 final size:30
Alignment explanation
Indices: 14607884--14607941 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
14607874 TCCGAGCCTT
*
14607884 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
14607914 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
14607942 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:14608171 original size:13 final size:13
Alignment explanation
Indices: 14608153--14608184 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
14608143 TTTCCAGAAA
14608153 TTATGAATTTATT
1 TTATGAATTTATT
14608166 TTATGAATTTATT
1 TTATGAATTTATT
*
14608179 TGATGA
1 TTATGA
14608185 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:14608392 original size:50 final size:50
Alignment explanation
Indices: 14608279--14608520 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
14608269 ATTTGGGTAA
* * *
14608279 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
14608335 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
14608385 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
14608435 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
14608485 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
14608521 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:14608468 original size:100 final size:103
Alignment explanation
Indices: 14608279--14608528 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
14608269 ATTTGGGTAA
14608279 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
14608344 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
14608385 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
14608447 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
14608485 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
14608529 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:14613101 original size:32 final size:32
Alignment explanation
Indices: 14613060--14613124 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
14613050 CTGAAGAAAA
14613060 GAATCTGATATGGATAATTATAGGAGTTAGTG
1 GAATCTGATATGGATAATTATAGGAGTTAGTG
14613092 GAATCTGATATGGATAATTATAGGAGTTAGTG
1 GAATCTGATATGGATAATTATAGGAGTTAGTG
14613124 G
1 G
14613125 GTAGGTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (32 bp):
GAATCTGATATGGATAATTATAGGAGTTAGTG
Found at i:14613818 original size:34 final size:35
Alignment explanation
Indices: 14613756--14613829 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 35
14613746 GCACAGTTGA
* ** *
14613756 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATTAGTG
1 ACAGTCTTGGGCCTAAGCCCATCACAGTATCAGTG
*
14613791 ACAGT-TTGGGCCTTAGCCCATCACAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCACAGTATCAGTG
*
14613825 GCAGT
1 ACAGT
14613830 AATAGTTATG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 28 0.85
35 5 0.15
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (35 bp):
ACAGTCTTGGGCCTAAGCCCATCACAGTATCAGTG
Found at i:14617912 original size:8 final size:8
Alignment explanation
Indices: 14617901--14617930 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
14617891 TATTTTAAAA
14617901 TTTTTAAT
1 TTTTTAAT
14617909 TTTTTAAT
1 TTTTTAAT
14617917 TTTTTAAT
1 TTTTTAAT
14617925 TTTTTA
1 TTTTTA
14617931 TATATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTAAT
Found at i:14617941 original size:21 final size:19
Alignment explanation
Indices: 14617915--14617965 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
14617905 TAATTTTTTA
*
14617915 ATTTTTTAATTTTTTATATAT
1 ATTTTTTAA-ATTTTATA-AT
*
14617936 ATTTTTTAGAATTTTCTAAT
1 ATTTTTTA-AATTTTATAAT
14617956 ATTTTTTAAA
1 ATTTTTTAAA
14617966 AAAAATACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 2 0.07
20 10 0.37
21 14 0.52
22 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTTTTTAAATTTTATAAT
Found at i:14620307 original size:6 final size:6
Alignment explanation
Indices: 14620293--14620324 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
14620283 CGGCTGATAC
*
14620293 CGCCTT CGCCAT CGCCAT CGCCAT CGCCAT CG
1 CGCCAT CGCCAT CGCCAT CGCCAT CGCCAT CG
14620325 TCATGTCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.12, C:0.50, G:0.19, T:0.19
Consensus pattern (6 bp):
CGCCAT
Found at i:14628784 original size:14 final size:14
Alignment explanation
Indices: 14628765--14628804 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
14628755 TTGATTGGTA
14628765 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
14628779 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
14628793 GGAAAATGTTTT
1 GTAAAATGTTTT
14628805 ACTTTTTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:14631777 original size:18 final size:17
Alignment explanation
Indices: 14631754--14631787 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
14631744 TTTGCAACAC
14631754 AAGGGGAAGGGAGAAGGG
1 AAGGGGAAGGGA-AAGGG
14631772 AAGGGGAAGGGAAAGG
1 AAGGGGAAGGGAAAGG
14631788 TTAAAGGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (17 bp):
AAGGGGAAGGGAAAGGG
Found at i:14633201 original size:27 final size:27
Alignment explanation
Indices: 14633163--14633231 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
14633153 GAGGAGGGTA
*
14633163 TCCCATGGGCGGCACCAAAGGTGCCTT
1 TCCCATGGGCGGCACCAAAGGTGCCAT
* * *
14633190 TCCCATAGGCGGCACCGATGGTGCCAT
1 TCCCATGGGCGGCACCAAAGGTGCCAT
*
14633217 TCCCATGGGCAGCAC
1 TCCCATGGGCGGCAC
14633232 TGCCCATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.19, C:0.35, G:0.29, T:0.17
Consensus pattern (27 bp):
TCCCATGGGCGGCACCAAAGGTGCCAT
Found at i:14633301 original size:4 final size:4
Alignment explanation
Indices: 14633284--14633426 Score: 65
Period size: 4 Copynumber: 36.2 Consensus size: 4
14633274 GAAGGAGAGG
*
14633284 GAAA G-AA G-AA GAAA GAAA GAAA G-AA -AAA GAAA GAAAA GGAAA GGAGAG
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA -GA-AA
* *
14633332 GAAA GAAA G-AA -AAA GAAG GAAA GAAAA GGAAA G-GA GAAGA GAAA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA
* * * *
14633379 AAAA GAAA G-AA G-AA GAAGA GGGAA GGAA GGAA -AAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAA-A -GAAA GAAA GAAA GAAA GAAA GAAA GAAA
14633426 G
1 G
14633427 GTAATTTTTT
Statistics
Matches: 113, Mismatches: 9, Indels: 34
0.72 0.06 0.22
Matches are distributed among these distances:
3 27 0.24
4 58 0.51
5 23 0.20
6 5 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:14633336 original size:38 final size:38
Alignment explanation
Indices: 14633283--14633425 Score: 150
Period size: 38 Copynumber: 3.7 Consensus size: 38
14633273 AGAAGGAGAG
* *
14633283 GGAAAGAAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAA
1 GGAAAGGAGAGGAAAGAAAGAAAGAAAAAGAAAGAAAA
*
14633321 GGAAAGGAGAGGAAAGAAAGAAA-AAGAAGGAAAGAAAA
1 GGAAAGGAGAGGAAAGAAAGAAAGAA-AAAGAAAGAAAA
* *
14633359 GGAAAGGAGAAGAGAAA-AAAAAAAGAAAGAAG-AAGAAGA
1 GGAAAGGAG-AG-GAAAGAAAGAAAGAAA-AAGAAAGAAAA
*
14633398 GGGAAGGA-AGGAAAAAGAAAGAAAGAAA
1 GGAAAGGAGAGG--AAAGAAAGAAAGAAA
14633426 GGTAATTTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 15
0.79 0.07 0.13
Matches are distributed among these distances:
36 1 0.01
37 4 0.04
38 44 0.49
39 32 0.36
40 8 0.09
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (38 bp):
GGAAAGGAGAGGAAAGAAAGAAAGAAAAAGAAAGAAAA
Found at i:14633421 original size:10 final size:10
Alignment explanation
Indices: 14633284--14633421 Score: 72
Period size: 10 Copynumber: 13.8 Consensus size: 10
14633274 GAAGGAGAGG
*
14633284 GAAAGAAGAA
1 GAAAGAAAAA
14633294 GAAAG--AAA
1 GAAAGAAAAA
14633302 GAAAGAAAAA
1 GAAAGAAAAA
*
14633312 GAAAGAAAAG
1 GAAAGAAAAA
14633322 GAAAGGAGAGGAAA
1 GAAA-GA-A--AAA
14633336 GAAAGAAAAA
1 GAAAGAAAAA
* *
14633346 GAAGGAAAGA
1 GAAAGAAAAA
* *
14633356 -AAAGGAAAG
1 GAAAGAAAAA
*
14633365 GAGAAG-AGAA
1 GA-AAGAAAAA
14633375 -AAA-AAAAA
1 GAAAGAAAAA
*
14633383 GAAAGAAGAA
1 GAAAGAAAAA
** *
14633393 GAAGAGGGAAG
1 GAA-AGAAAAA
*
14633404 GAAGGAAAAA
1 GAAAGAAAAA
14633414 GAAAGAAA
1 GAAAGAAA
14633422 GAAAGGTAAT
Statistics
Matches: 94, Mismatches: 22, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
8 12 0.13
9 9 0.10
10 52 0.55
11 11 0.12
12 2 0.02
13 2 0.02
14 6 0.06
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
GAAAGAAAAA
Found at i:14634281 original size:158 final size:160
Alignment explanation
Indices: 14633751--14634310 Score: 582
Period size: 158 Copynumber: 3.5 Consensus size: 160
14633741 TATTTAATAA
* * * *
14633751 ATTTCAAACATAATACATTGAAATAAAGTAAAATTATAAAATTAGAAATTATGATA-TTTT-TT-
1 ATTTCAAACAAAATACACTGAAATAAAGTAAAATAATAAAATTAGAAATAATGATATTTTTATTG
* * * *
14633813 AAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGACCGAAGTAAGAGTGTTTTACTAAAAT
66 AAAATAATAAAATTCAG-GAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTAAATT
14633878 TTTTAAAAATTCAGAAATAATTAATACAAAT
130 TTTTAAAAATTCAGAAATAATTAATACAAAT
** * *
14633909 ATTTCAAACAAAATGTACTGAAATAATA-TAAAATAATAAAATACAAAAATAAT-ATATTTTTAT
1 ATTTCAAACAAAATACACTGAAATAA-AGTAAAATAATAAAAT-TAGAAATAATGATATTTTTAT
* * * * * * * * *
14633972 TGAAAGTAATAAAATTC-GGAAAAATAATATGAGCAGAGGGCAGGAA-TACGGGTTTTTTACACT
64 TGAAAATAATAAAATTCAGGAAAAA-AATACGAACAAATGGC-CGAAGTAAGAGTGTTTT--ACT
* * **
14634035 AAATTAATTTAAAAATACA-CTA-AATTAAT---AA-
125 AAATT-TTTTAAAAATTCAGAAATAATTAATACAAAT
* * * *
14634066 ATTTCAAACATAATACATTGAAATAAAGTAAAATTATAAAATTAGAAATTATGATA-TTTT-TT-
1 ATTTCAAACAAAATACACTGAAATAAAGTAAAATAATAAAATTAGAAATAATGATATTTTTATTG
*
14634128 AAAATAATAAAATACAGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTAAATT
66 AAAATAATAAAATTCAG-GAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTAAATT
14634193 TTTTAAAAATTCAGAAATAATTAATACAAAT
130 TTTTAAAAATTCAGAAATAATTAATACAAAT
**
14634224 ATTTCAAACAAAATGTACTGAAATAATA-TAAAATAATAAAA-TACGAAAATAAT-ATATTTTTA
1 ATTTCAAACAAAATACACTGAAATAA-AGTAAAATAATAAAATTA-G-AAATAATGATATTTTTA
*
14634286 TTGAAAGTAATAAAATTCAGGAAAA
63 TTGAAAATAATAAAATTCAGGAAAA
14634311 TAAGAAATTA
Statistics
Matches: 321, Mismatches: 54, Indels: 52
0.75 0.13 0.12
Matches are distributed among these distances:
152 11 0.03
153 9 0.03
154 23 0.07
155 24 0.07
156 18 0.06
157 42 0.13
158 78 0.24
159 29 0.09
160 30 0.09
161 38 0.12
162 8 0.02
163 11 0.03
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (160 bp):
ATTTCAAACAAAATACACTGAAATAAAGTAAAATAATAAAATTAGAAATAATGATATTTTTATTG
AAAATAATAAAATTCAGGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTAAATTT
TTTAAAAATTCAGAAATAATTAATACAAAT
Found at i:14636063 original size:6 final size:6
Alignment explanation
Indices: 14636054--14636092 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
14636044 GCCGAGCAGG
* * *
14636054 AGCCCC AGCCAC AGCCAC AGCCAC AGCCAG AGCCCC AGC
1 AGCCAC AGCCAC AGCCAC AGCCAC AGCCAC AGCCAC AGC
14636093 TAGATCCGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.28, C:0.51, G:0.21, T:0.00
Consensus pattern (6 bp):
AGCCAC
Found at i:14639673 original size:39 final size:37
Alignment explanation
Indices: 14639624--14639746 Score: 122
Period size: 39 Copynumber: 3.1 Consensus size: 37
14639614 GCTAACACAA
14639624 TAACAATAATAATAGTTTTATACTCAAAATAATACTAAC
1 TAACAATAATAATAGTTTT-TACT-AAAATAATACTAAC
*
14639663 TAACAATAATAATTAGGGTTTTACTAAAAATAATAACTAAC
1 TAACAATAATAA-TA-GTTTTTACT-AAAATAAT-ACTAAC
* * * *
14639704 -CATAATAATACTAGTTTTTTACTAACAATAATACTAAG
1 TAACAATAATAATAG-TTTTTACTAA-AATAATACTAAC
14639742 TAACA
1 TAACA
14639747 TCTAAACCCT
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
38 8 0.12
39 29 0.42
40 22 0.32
41 10 0.14
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (37 bp):
TAACAATAATAATAGTTTTTACTAAAATAATACTAAC
Found at i:14639709 original size:37 final size:38
Alignment explanation
Indices: 14639654--14639740 Score: 106
Period size: 37 Copynumber: 2.3 Consensus size: 38
14639644 TACTCAAAAT
*
14639654 AATACTAACTAACAATAATAAT-TAGGGTTTTACTAAA
1 AATAATAACTAACAATAATAATATAGGGTTTTACTAAA
* ** *
14639691 AATAATAACTAACCATAATAATACTAGTTTTTTACTAAC
1 AATAATAACTAACAATAATAATA-TAGGGTTTTACTAAA
14639730 AATAAT-ACTAA
1 AATAATAACTAA
14639741 GTAACATCTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 20 0.47
38 5 0.12
39 18 0.42
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (38 bp):
AATAATAACTAACAATAATAATATAGGGTTTTACTAAA
Found at i:14646087 original size:19 final size:18
Alignment explanation
Indices: 14646052--14646090 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
14646042 TACTTTTTTA
14646052 TAATTTTTATTTAATATT
1 TAATTTTTATTTAATATT
14646070 TAATTTTTGAATTT-ATATT
1 TAATTTTT--ATTTAATATT
14646089 TA
1 TA
14646091 TTAAATGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 7 0.37
20 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TAATTTTTATTTAATATT
Found at i:14646788 original size:30 final size:30
Alignment explanation
Indices: 14646752--14646811 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
14646742 ACTTAACAAG
14646752 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
14646782 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
14646812 TAATAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:14646867 original size:14 final size:14
Alignment explanation
Indices: 14646848--14646874 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14646838 CAAACAATAA
14646848 CAACATAATAGTAT
1 CAACATAATAGTAT
14646862 CAACATAATAGTA
1 CAACATAATAGTA
14646875 AAATGGTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (14 bp):
CAACATAATAGTAT
Found at i:14653096 original size:25 final size:24
Alignment explanation
Indices: 14653057--14653122 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
14653047 CTTTGCGCAG
**
14653057 CTCTGTTCTATTTTGTTATGCTCTA
1 CTCTGTTCTGCTTTGTT-TGCTCTA
*
14653082 CTCTGTTCTGCTTTGCTTTGCTCTG
1 CTCTGTTCTGCTTTG-TTTGCTCTA
* *
14653107 CTCTATTTTGCTTTGT
1 CTCTGTTCTGCTTTGT
14653123 CCTATTCTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 1 0.03
25 32 0.91
26 2 0.06
ACGTcount: A:0.06, C:0.23, G:0.15, T:0.56
Consensus pattern (24 bp):
CTCTGTTCTGCTTTGTTTGCTCTA
Found at i:14653105 original size:20 final size:20
Alignment explanation
Indices: 14653082--14653121 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14653072 TTATGCTCTA
* *
14653082 CTCTGTTCTGCTTTGCTTTG
1 CTCTGCTCTACTTTGCTTTG
*
14653102 CTCTGCTCTATTTTGCTTTG
1 CTCTGCTCTACTTTGCTTTG
14653122 TCCTATTCTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.25, G:0.17, T:0.55
Consensus pattern (20 bp):
CTCTGCTCTACTTTGCTTTG
Found at i:14658965 original size:9 final size:9
Alignment explanation
Indices: 14658953--14658984 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
14658943 AAAAAGGTAT
14658953 TAAAAATTA
1 TAAAAATTA
14658962 T-AAAATTA
1 TAAAAATTA
14658970 TAAAAATTA
1 TAAAAATTA
14658979 TAAAAA
1 TAAAAA
14658985 AATTATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:14658968 original size:8 final size:8
Alignment explanation
Indices: 14658951--14658983 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
14658941 CAAAAAAGGT
14658951 ATTA-AAA
1 ATTATAAA
14658958 ATTATAAA
1 ATTATAAA
14658966 ATTATAAAA
1 ATTAT-AAA
14658975 ATTATAAA
1 ATTATAAA
14658983 A
1 A
14658984 AAATTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 4 0.17
8 12 0.50
9 8 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
ATTATAAA
Found at i:14663955 original size:36 final size:36
Alignment explanation
Indices: 14663908--14663979 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
14663898 AATTGTGCCT
*
14663908 TCATTTCCATTTCCATCACCACCAAATACATAAAAA
1 TCATTTCCATTTCCATCACCACCAAATAAATAAAAA
14663944 TCATTTCCATTTCCATCACCACCAAATAAATAAAAA
1 TCATTTCCATTTCCATCACCACCAAATAAATAAAAA
14663980 CTTTTAGTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.28
Consensus pattern (36 bp):
TCATTTCCATTTCCATCACCACCAAATAAATAAAAA
Found at i:14664999 original size:2 final size:2
Alignment explanation
Indices: 14664950--14664980 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14664940 GAGCTTATAT
14664950 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
14664981 GGACAAGAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:14670294 original size:39 final size:39
Alignment explanation
Indices: 14670246--14670349 Score: 104
Period size: 39 Copynumber: 2.7 Consensus size: 39
14670236 TATAAAGATG
* * * *
14670246 TTTTAGAGTATTGTGGTATATGCTTGAA-TGTTATGTGA
1 TTTTAGAGTATTGTGATATATGCTTGAAGCGTCATGAGA
* *
14670284 TTTTACGAGTATTATGACATATGCTT-AAGCGTCATGAGA
1 TTTTA-GAGTATTGTGATATATGCTTGAAGCGTCATGAGA
* *
14670323 TTATATGAGTATGGTGATATATGCTTG
1 TTTTA-GAGTATTGTGATATATGCTTG
14670350 TATCTTAGGT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
38 7 0.13
39 45 0.87
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.42
Consensus pattern (39 bp):
TTTTAGAGTATTGTGATATATGCTTGAAGCGTCATGAGA
Found at i:14674183 original size:69 final size:69
Alignment explanation
Indices: 14674110--14674490 Score: 276
Period size: 69 Copynumber: 5.5 Consensus size: 69
14674100 TATGCTTGCG
** *
14674110 AGCCTTAATATGGCAGTTAGGAGCTTTGCTCTCGCTAACTGTATTTGAAACTGTAACTCTTCGCC
1 AGCCTTAATATAACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAAACTGTAACTCTTCGCC
*
14674175 TGTA
66 TGCA
* * * * *
14674179 AGCCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTCGGAAGCTGTGACTCTTCGCC
1 AGCCTTAATATAACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAAACTGTAACTCTTCGCC
*
14674244 TGCG
66 TGCA
* * ** ** ***
14674248 AGCTTTAGTATAACAACTAGGAGCTTTGCTCTCGCTAACTGTATTGGAGGCTGCGGCTCTTCGCC
1 AGCCTTAATATAACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAAACTGTAACTCTTCGCC
* **
14674313 AGTG
66 TGCA
* * * ** * ** * * * * * *
14674317 AGCCTTAATATAATAGCTGGGAGCTTTATTCTCGATAACTGCGTTAGAGACTGTGATTCTTTGCA
1 AGCCTTAATATAACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAAACTGTAACTCTTCGCC
* *
14674382 TACG
66 TGCA
* * * * ** ** *
14674386 AGCCTTAATATGACAGTTGGGAGCTTTGCTCTTGCTAACTGCATTGGAGGCTGTGGCTCTTTGCC
1 AGCCTTAATATAACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAAACTGTAACTCTTCGCC
*
14674451 TGCG
66 TGCA
* * * * * *
14674455 AGCTTTAATATGATAGTTGGGAGCTTTACTGTCGCT
1 AGCCTTAATATAACAGTTAGGAGCTTTGCTCTCGCT
14674491 GACTCTGCTA
Statistics
Matches: 251, Mismatches: 61, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
69 251 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (69 bp):
AGCCTTAATATAACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAAACTGTAACTCTTCGCC
TGCA
Found at i:14674503 original size:138 final size:139
Alignment explanation
Indices: 14674108--14674603 Score: 450
Period size: 138 Copynumber: 3.6 Consensus size: 139
14674098 TCTATGCTTG
* * ** **
14674108 CGAGCCTTAATATGGCAGTTAGGAGCTTTGCTCTCGCTAACTGTATTTGAAACTGTAACTCTTCG
1 CGAGCCTTAATATGACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAGGCTGTGGCTCTTCG
* * * * *
14674173 CCTGTAAGCCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTCG-GAAGCTGTGACT
66 CCTGTGAGCCTTAATATAATAGTTGGGAGCTTTACTCTCGCTAACTCTGTAGAGAAGCTGTGACT
* *
14674237 CTTCGCCTG
131 CTTCGCATA
* * * ** *
14674246 CGAGCTTTAGTATAACAACTAGGAGCTTTGCTCTCGCTAACTGTATTGGAGGCTGCGGCTCTTCG
1 CGAGCCTTAATATGACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAGGCTGTGGCTCTTCG
* * * *
14674311 CCAGTGAGCCTTAATATAATAGCTGGGAGCTTTATTCTCGATAACTGC-GTTAGAG-A-CTGTGA
66 CCTGTGAGCCTTAATATAATAGTTGGGAGCTTTACTCTCGCTAACT-CTG-TAGAGAAGCTGTGA
* *
14674373 TTCTTTGCATA
129 CTCTTCGCATA
* * * *
14674384 CGAGCCTTAATATGACAGTTGGGAGCTTTGCTCTTGCTAACTGCATTGGAGGCTGTGGCTCTTTG
1 CGAGCCTTAATATGACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAGGCTGTGGCTCTTCG
* * * * * * *
14674449 CCTGCGAGCTTTAATATGATAGTTGGGAGCTTTACTGTCGCTGACTCTGCTAGAG--GTTGTGGC
66 CCTGTGAGCCTTAATATAATAGTTGGGAGCTTTACTCTCGCTAACTCTG-TAGAGAAGCTGTGAC
* *
14674512 TTTTCGTC-TG
130 TCTTCG-CATA
* * * * * * * * **
14674522 CTAACCTTAATACGATAGTT-GGAAGCTTTGCTCTCACTAACTGTGTTAGAGGTTACGGCTCTTC
1 CGAGCCTTAATATGACAGTTAGG-AGCTTTGCTCTCGCTAACTGTATTGGAGGCTGTGGCTCTTC
*
14674586 GCTTGTGAGCCTTAATAT
65 GCCTGTGAGCCTTAATAT
14674604 GACACGAATT
Statistics
Matches: 284, Mismatches: 67, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
137 3 0.01
138 276 0.97
139 4 0.01
140 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (139 bp):
CGAGCCTTAATATGACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAGGCTGTGGCTCTTCG
CCTGTGAGCCTTAATATAATAGTTGGGAGCTTTACTCTCGCTAACTCTGTAGAGAAGCTGTGACT
CTTCGCATA
Found at i:14674510 original size:69 final size:68
Alignment explanation
Indices: 14674035--14674605 Score: 225
Period size: 69 Copynumber: 8.3 Consensus size: 68
14674025 GTGTCTAAAT
* * * ** * * * * *
14674035 CTGCGAGCCGTAATATGATAGATGGGAGTTTTTGCTCTCTTTAACTGTGTTATAGGCTGCGAG-T
1 CTGCGAGCCTTAATATGATAGTTGGGAG-CTTTGCTCTCGCT-ACTCTGCTAGAGGTTGTG-GCT
*
14674099 CTATGC
63 CTTTGC
* ** * * ** * *** **
14674105 TTGCGAGCCTTAATATGGCAGTTAGGAGCTTTGCTCTCGCTAACTGTATTTGAAACTGTAACTCT
1 CTGCGAGCCTTAATATGATAGTTGGGAGCTTTGCTCTCGCT-ACTCTGCTAGAGGTTGTGGCTCT
*
14674170 TCGC
65 TTGC
** * * * * * * *
14674174 CTGTAAGCCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGTG-TCGGAAGCTGTGACTC
1 CTGCGAGCCTTAATATGATAGTTGGGAGCTTTGCTCTCGCT-ACTCTGCT-AGAGGTTGTGGCTC
*
14674238 TTCGC
64 TTTGC
* * * * ** * * ** * * *
14674243 CTGCGAGCTTTAGTATAACAACTAGGAGCTTTGCTCTCGCTAACTGTATTGGAGGCTGCGGCTCT
1 CTGCGAGCCTTAATATGATAGTTGGGAGCTTTGCTCTCGCT-ACTCTGCTAGAGGTTGTGGCTCT
*
14674308 TCGC
65 TTGC
* * * * ** * * ** **
14674312 CAGTGAGCCTTAATATAATAGCTGGGAGCTTTATTCTCGATAACTGC-GTTAGAGACTGTGATTC
1 CTGCGAGCCTTAATATGATAGTTGGGAGCTTTGCTCTCGCT-ACT-CTGCTAGAGGTTGTGGCTC
14674376 TTTGC
64 TTTGC
* * * * * * *
14674381 ATACGAGCCTTAATATGACAGTTGGGAGCTTTGCTCTTGCTA-ACTGCATTGGAGGCTGTGGCTC
1 CTGCGAGCCTTAATATGATAGTTGGGAGCTTTGCTCTCGCTACTCTGC--TAGAGGTTGTGGCTC
14674445 TTTGC
64 TTTGC
* * *
14674450 CTGCGAGCTTTAATATGATAGTTGGGAGCTTTACTGTCGCTGACTCTGCTAGAGGTTGTGGCT-T
1 CTGCGAGCCTTAATATGATAGTTGGGAGCTTTGCTCTCGCT-ACTCTGCTAGAGGTTGTGGCTCT
*
14674514 TTCGT
65 TT-GC
* * * * * * * **
14674519 CTGCTAACCTTAATACGATAGTTGGAAGCTTTGCTCTCACTAACTGTGTTAGAGGTTACGGCTCT
1 CTGCGAGCCTTAATATGATAGTTGGGAGCTTTGCTCTCGCT-ACTCTGCTAGAGGTTGTGGCTCT
*
14674584 TCGC
65 TTGC
* *
14674588 TTGTGAGCCTTAATATGA
1 CTGCGAGCCTTAATATGA
14674606 CACGAATTTT
Statistics
Matches: 384, Mismatches: 106, Indels: 23
0.75 0.21 0.04
Matches are distributed among these distances:
66 1 0.00
67 1 0.00
68 5 0.01
69 347 0.90
70 26 0.07
71 4 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (68 bp):
CTGCGAGCCTTAATATGATAGTTGGGAGCTTTGCTCTCGCTACTCTGCTAGAGGTTGTGGCTCTT
TGC
Found at i:14674572 original size:207 final size:207
Alignment explanation
Indices: 14674179--14674572 Score: 450
Period size: 207 Copynumber: 1.9 Consensus size: 207
14674169 TTCGCCTGTA
**
14674179 AGCCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTCGGAAGCTGTGACTCTTCGCC
1 AGCCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGCATCGGAAGCTGTGACTCTTCGCC
* * * * *
14674244 TGCGAGCTTTAGTATAACAACTAGGAGCTTTGCTCTCGCTAACTGTATTGGAGGCTGCGGCTCTT
66 TGCGAGCTTTAATATAACAACTAGGAGCTTTACTCTCGCTAACTCTACTAGAGGCTGCGGCTCTT
* * * *
14674309 CGCCAGTGAGCCTTAATATAATAGCTGGGAGCTTTATTCTCGATAACTGCGTTAGAGACTGTGAT
131 CGCCAGTGAACCTTAATACAATAGCTGGAAGCTTTACTCTCGATAACTGCGTTAGAGACTGTGAT
14674374 TCTTTGCATACG
196 TCTTTGCATACG
* * * * * *
14674386 AGCCTTAATATGACAGTTGGGAGCTTTGCTCTTGCTAACTGCATTGGAGGCTGTGGCTCTTTGCC
1 AGCCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGCATCGGAAGCTGTGACTCTTCGCC
* * ** * * * * * * *
14674451 TGCGAGCTTTAATATGATAGTTGGGAGCTTTACTGTCGCTGACTCTGCTAGAGGTTGTGGCTTTT
66 TGCGAGCTTTAATATAACAACTAGGAGCTTTACTCTCGCTAACTCTACTAGAGGCTGCGGCTCTT
* * * * * *
14674516 CGTCTGCT-AACCTTAATACGATAGTTGGAAGCTTTGCTCTC-ACTAACTGTGTTAGAG
131 CGCCAG-TGAACCTTAATACAATAGCTGGAAGCTTTACTCTCGA-TAACTGCGTTAGAG
14674573 GTTACGGCTC
Statistics
Matches: 151, Mismatches: 34, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
206 1 0.01
207 149 0.99
208 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (207 bp):
AGCCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGCATCGGAAGCTGTGACTCTTCGCC
TGCGAGCTTTAATATAACAACTAGGAGCTTTACTCTCGCTAACTCTACTAGAGGCTGCGGCTCTT
CGCCAGTGAACCTTAATACAATAGCTGGAAGCTTTACTCTCGATAACTGCGTTAGAGACTGTGAT
TCTTTGCATACG
Found at i:14682898 original size:26 final size:26
Alignment explanation
Indices: 14682858--14682910 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
14682848 TTTTTTCTTA
14682858 TTCAGATTTTCAGATAACTCAAATTG
1 TTCAGATTTTCAGATAACTCAAATTG
*
14682884 TTCAGATTTTTAGATAACTCAAATTG
1 TTCAGATTTTCAGATAACTCAAATTG
14682910 T
1 T
14682911 GTAATTCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (26 bp):
TTCAGATTTTCAGATAACTCAAATTG
Found at i:14688350 original size:39 final size:38
Alignment explanation
Indices: 14688307--14688381 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 38
14688297 TTTTTAATTT
* *
14688307 TTAAAAAT-TTAAAATTATTATAAAAAGTATTTTTAAGAG
1 TTAAAAATATCAAAAATATTA-AAAAA-TATTTTTAAGAG
14688346 TTAAAAATAATCAAAAATATTAAAAAATATTTTTAA
1 TTAAAAAT-ATCAAAAATATTAAAAAATATTTTTAA
14688382 AATTTCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
39 17 0.53
40 5 0.16
41 10 0.31
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (38 bp):
TTAAAAATATCAAAAATATTAAAAAATATTTTTAAGAG
Found at i:14691494 original size:31 final size:31
Alignment explanation
Indices: 14691456--14691554 Score: 91
Period size: 31 Copynumber: 3.3 Consensus size: 31
14691446 TTTGGTCTGG
14691456 GTACCAAATTAAACATTAAAGCCAAACTCAA
1 GTACCAAATTAAACATTAAAGCCAAACTCAA
**
14691487 GTACCAAATTGAAA-A--AAA-AAAAACTC-A
1 GTACCAAATT-AAACATTAAAGCCAAACTCAA
* * *
14691514 GATACCAAATTGAACATTGAAGCCAGACTCAA
1 G-TACCAAATTAAACATTAAAGCCAAACTCAA
*
14691546 GTACGAAAT
1 GTACCAAAT
14691555 GTTATGGTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
27 4 0.08
28 16 0.30
29 3 0.06
30 2 0.04
31 23 0.43
32 5 0.09
ACGTcount: A:0.52, C:0.19, G:0.11, T:0.18
Consensus pattern (31 bp):
GTACCAAATTAAACATTAAAGCCAAACTCAA
Found at i:14692779 original size:30 final size:30
Alignment explanation
Indices: 14692714--14692780 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
14692704 TTATTACACT
* * *
14692714 CAAATAAGTCCTTCACCCTTCATTTGTATC
1 CAAATAAGTCCTCCAACCTTCATTTATATC
14692744 CAAATAAGT-CTCCAACCTTCAATTTATA-C
1 CAAATAAGTCCTCCAACCTTC-ATTTATATC
14692773 CTAAATAA
1 C-AAATAA
14692781 ACCCTTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (30 bp):
CAAATAAGTCCTCCAACCTTCATTTATATC
Found at i:14698742 original size:62 final size:63
Alignment explanation
Indices: 14698627--14698758 Score: 232
Period size: 62 Copynumber: 2.1 Consensus size: 63
14698617 TTTGACAAAA
* *
14698627 CTTAT-ATATTTTGGTACTTAAGAGTAACAATGTTAACTTTTTTTTTTGTCTTTATTTTGGGT
1 CTTATGATATTTTGGTACTTAAGAGTAACAATGCTAACTTTTTTTTTAGTCTTTATTTTGGGT
14698689 CTTATGATATTTTGGTACTTAAGAGTAACAATGCTAAC-TTTTTTTTAGTCTTTATTTTGGGT
1 CTTATGATATTTTGGTACTTAAGAGTAACAATGCTAACTTTTTTTTTAGTCTTTATTTTGGGT
14698751 CTTATGAT
1 CTTATGAT
14698759 TAATGAAATT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
62 36 0.54
63 31 0.46
ACGTcount: A:0.23, C:0.09, G:0.15, T:0.52
Consensus pattern (63 bp):
CTTATGATATTTTGGTACTTAAGAGTAACAATGCTAACTTTTTTTTTAGTCTTTATTTTGGGT
Found at i:14699725 original size:195 final size:196
Alignment explanation
Indices: 14699358--14699735 Score: 564
Period size: 195 Copynumber: 1.9 Consensus size: 196
14699348 TATCACGGTA
* * * *
14699358 TTGTTATCAATCTTTAATTAGTGTCGAGTTAACTTGTGGCATCAACTCAATCAAATACATTAATA
1 TTGTTATCAATCTTTAATCAGTGTCAAGTTAACTTGTGACACCAACTCAATCAAATACATTAATA
* * * *
14699423 TAGATAATATACAATTGATGAATGTAATAAAGTGTGCATAATGAAAATTGATATGTTCAAAAAGA
66 TAGATAATATACAATTGATGAAGGTAATAAAGTGTGCATAATAAAAATTGAAATGTACAAAAAGA
* *
14699488 TCAAAACAAAGTTTTAGTTGAGTGGTAAATTAAAGATTTTACTAATGTAATTGGTCCGGGTTGGT
131 TCAAAACAAAATTTTAGTTGAGTGGTAAATTAAAGATTTTACTAAAGTAATTGGTCCGGGTTGGT
14699553 G
196 G
* *
14699554 TTGTTATCAATCTTTAGTCGGTGTCAAGTTAACTTGTGACACCAACTCAATCAAATACATTAATA
1 TTGTTATCAATCTTTAATCAGTGTCAAGTTAACTTGTGACACCAACTCAATCAAATACATTAATA
*
14699619 TAGAT-ATATACAATTGATTG-AGGTAATAAAGTGTGCATAATAAAAATTGAAATGTACAAAAAT
66 TAGATAATATACAATTGA-TGAAGGTAATAAAGTGTGCATAATAAAAATTGAAATGTACAAAAAG
* * * *
14699682 ATTAAAATAAAATTTTATTTGAGTGTTAAATTAAATG-TTTTACTAAAGTAATTG
130 ATCAAAACAAAATTTTAGTTGAGTGGTAAATTAAA-GATTTTACTAAAGTAATTG
14699736 TTCTTGGTTC
Statistics
Matches: 163, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
195 96 0.59
196 67 0.41
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.36
Consensus pattern (196 bp):
TTGTTATCAATCTTTAATCAGTGTCAAGTTAACTTGTGACACCAACTCAATCAAATACATTAATA
TAGATAATATACAATTGATGAAGGTAATAAAGTGTGCATAATAAAAATTGAAATGTACAAAAAGA
TCAAAACAAAATTTTAGTTGAGTGGTAAATTAAAGATTTTACTAAAGTAATTGGTCCGGGTTGGT
G
Found at i:14702613 original size:25 final size:24
Alignment explanation
Indices: 14702583--14702643 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
14702573 AAAATATAAT
* *
14702583 TAAAAATATTTTATATTAATATTAAA
1 TAAAAATA-ATTATATCAAT-TTAAA
14702609 TAAAAATAATTATATCAATTTAAA
1 TAAAAATAATTATATCAATTTAAA
14702633 TAAAAA-AATTA
1 TAAAAATAATTA
14702644 CGTCTCCGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 5 0.15
24 11 0.33
25 9 0.27
26 8 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TAAAAATAATTATATCAATTTAAA
Found at i:14702642 original size:23 final size:25
Alignment explanation
Indices: 14702575--14702643 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
14702565 ACACCATTAA
* * *
14702575 AATA-TAATTAAAAATATTTTATATT
1 AATATTAAATAAAAATA-ATTATATC
14702600 AATATTAAATAAAAATAATTATATC
1 AATATTAAATAAAAATAATTATATC
14702625 AAT-TTAAATAAAAA-AATTA
1 AATATTAAATAAAAATAATTA
14702644 CGTCTCCGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.12
24 11 0.28
25 13 0.32
26 11 0.28
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (25 bp):
AATATTAAATAAAAATAATTATATC
Found at i:14712227 original size:37 final size:37
Alignment explanation
Indices: 14712186--14712268 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
14712176 AGCCATTGGT
* *
14712186 GTGTTATC-AGGTGGATTGGCTCTTATGAGCATCTGGC
1 GTGTTATCGA-GTAGATTAGCTCTTATGAGCATCTGGC
*
14712223 GTGTTATCGAGTAGATTAGCTCTTATGAGCATTTGGC
1 GTGTTATCGAGTAGATTAGCTCTTATGAGCATCTGGC
14712260 GTGTT-TCGA
1 GTGTTATCGA
14712269 TTGGAATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 4 0.10
37 37 0.88
38 1 0.02
ACGTcount: A:0.18, C:0.14, G:0.30, T:0.37
Consensus pattern (37 bp):
GTGTTATCGAGTAGATTAGCTCTTATGAGCATCTGGC
Found at i:14720097 original size:16 final size:16
Alignment explanation
Indices: 14720076--14720110 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14720066 TGAATTACTG
14720076 ATTACAG-CTCTATTCC
1 ATTACAGCCT-TATTCC
14720092 ATTACAGCCTTATTCC
1 ATTACAGCCTTATTCC
14720108 ATT
1 ATT
14720111 CCAATAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACAGCCTTATTCC
Found at i:14727074 original size:59 final size:57
Alignment explanation
Indices: 14727008--14727196 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
14726998 ATTTTATTAA
14727008 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
14727067 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTA-ATTA--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
14727128 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
14727187 ATCATATATT
1 ATCATATATT
14727197 ATGATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 22 0.22
60 4 0.04
61 12 0.12
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:14727093 original size:130 final size:124
Alignment explanation
Indices: 14726957--14727294 Score: 462
Period size: 120 Copynumber: 2.7 Consensus size: 124
14726947 TTAAATTGTA
* *
14726957 TAAATTCATATAAGAAAATTTATTAGTTATAATTATTTTA-AATTTTATTAAATCATATATTTTA
1 TAAATTCATATAAG--AA--TATTAG-T-TAATTA-TTAAGAATTTTATTAAATTATATATTTTA
* * *
14727021 ATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTTTATAGTATCATATATTATGATTTT
59 ATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTATCATATATTATGATTTG
14727085 AG
123 AG
*
14727087 TAAATTCATATAAG-A-A-TA-TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAA
1 TAAATTCATATAAGAATATTAGTTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
*
14727148 TATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
66 TATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAG
14727207 TAAATTCATATAAGAATATT-G---ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
1 TAAATTCATATAAGAATATTAGTTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
14727268 TATATTTAATAATAATTATGTTTAAAT
66 TATATTTAATAATAATTATG-TTAAAT
14727295 ATGATTAAAT
Statistics
Matches: 192, Mismatches: 9, Indels: 23
0.86 0.04 0.10
Matches are distributed among these distances:
119 3 0.02
120 160 0.83
121 9 0.05
122 1 0.01
123 3 0.02
124 1 0.01
127 1 0.01
130 14 0.07
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (124 bp):
TAAATTCATATAAGAATATTAGTTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
TATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAG
Found at i:14727105 original size:66 final size:64
Alignment explanation
Indices: 14727035--14727233 Score: 177
Period size: 66 Copynumber: 3.2 Consensus size: 64
14727025 AAATATATTT
14727035 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAA
14727100 G
64 G
* * * * * **
14727101 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTA-ATTA-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAG
* * *
14727155 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAA
14727220 G
64 G
*
14727221 AATATTGATTATT
1 AATATTAATTATT
14727234 AAGAATTTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 29
0.68 0.13 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 12 0.12
60 4 0.04
61 11 0.11
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.27
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAG
Found at i:14727122 original size:120 final size:120
Alignment explanation
Indices: 14726997--14727294 Score: 508
Period size: 120 Copynumber: 2.5 Consensus size: 120
14726987 AATTATTTTA
* * *
14726997 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
*
14727061 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
14727117 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
14727182 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
14727237 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
14727295 ATGATTAAAT
Statistics
Matches: 167, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
120 160 0.96
121 7 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:14727137 original size:61 final size:61
Alignment explanation
Indices: 14727070--14727257 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
14727060 TTATAGTATC
14727070 ATATATTATGATTTTAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
14727131 ATATATTTTAATTATAATATATTTA-ATAATAATTATGTTAA-T-TT-A-TATTTTA-TAGTATC
1 ATATATTATGATTTTAGTAAATTCATATAAGAA-TA--TTAATTATTAAGAATTTTATTA-AATT
* *
14727190 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
14727251 ATATATT
1 ATATATT
14727258 TTAATTAAAA
Statistics
Matches: 95, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
57 3 0.03
58 3 0.03
59 30 0.32
60 14 0.15
61 38 0.40
62 3 0.03
63 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTTAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:14727157 original size:15 final size:15
Alignment explanation
Indices: 14727122--14727173 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
14727112 TTAAGAATTT
*
14727122 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14727136 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14727150 TATTTAATAATAAT-
1 TATTTAATTATAATA
14727164 TATGTTAATT
1 TAT-TTAATT
14727174 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14727254 original size:59 final size:58
Alignment explanation
Indices: 14727071--14727254 Score: 155
Period size: 59 Copynumber: 3.1 Consensus size: 58
14727061 TATAGTATCA
*
14727071 TATATTATGATTTTAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
* * * * * *
14727130 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 TATATTATGATTTAAGTA-AAT-TCATATAAGAAT-ATTA--TT-ATTAAGAATTTTATTA-AAT
*
14727189 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
14727250 TATAT
1 TATAT
14727255 ATTTTAATTA
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
56 6 0.06
57 12 0.13
58 9 0.09
59 19 0.20
60 8 0.08
61 14 0.15
62 9 0.09
63 12 0.13
64 6 0.06
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (58 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAAT
Found at i:14727266 original size:18 final size:17
Alignment explanation
Indices: 14727238--14727272 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14727228 ATTATTAAGA
*
14727238 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14727255 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14727273 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Done.