Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 59 of 141
Found at i:19204143 original size:126 final size:126
Alignment explanation
Indices: 19203918--19204161 Score: 427
Period size: 126 Copynumber: 1.9 Consensus size: 126
19203908 TAGGGAAACG
* * *
19203918 ACAAAAGAGGAATAAAGTCGGAAATTGCATTTATGAAAATGAAACAATAGAGAAAGGAATTGAAC
1 ACAAAAGAGGAATAAAGTCGGAAATTGCAATTATGAAAACGAAACAAAAGAGAAAGGAATTGAAC
* *
19203983 AGGGGAAAAACGAACGAGGGAGTTTACATAATTTTTAAAGAGAAAGGAAATGAACAAGTTT
66 AGGGGAAAAACGAAAGAGGGAGTTTACAGAATTTTTAAAGAGAAAGGAAATGAACAAGTTT
19204044 ACAAAAGAGGAATAAAGTTC-GAAATTGCAATTATGAAAACGAAACAAAAGAGAAAGGAATTGAA
1 ACAAAAGAGGAATAAAG-TCGGAAATTGCAATTATGAAAACGAAACAAAAGAGAAAGGAATTGAA
19204108 CAGGGGAAAAACGAAAGAGGGAGTTTACAGAATTTTTAAAGAGAAAGGAAATGA
65 CAGGGGAAAAACGAAAGAGGGAGTTTACAGAATTTTTAAAGAGAAAGGAAATGA
19204162 GCATGGGAAA
Statistics
Matches: 112, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
126 110 0.98
127 2 0.02
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (126 bp):
ACAAAAGAGGAATAAAGTCGGAAATTGCAATTATGAAAACGAAACAAAAGAGAAAGGAATTGAAC
AGGGGAAAAACGAAAGAGGGAGTTTACAGAATTTTTAAAGAGAAAGGAAATGAACAAGTTT
Found at i:19210131 original size:21 final size:23
Alignment explanation
Indices: 19210107--19210159 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 23
19210097 TAAAAAAAAC
19210107 AAAATAATACAT-TATG-AAA-TT
1 AAAATAATA-ATATATGAAAACTT
19210128 AAAAT-ATAATATATGAAAAACTT
1 AAAATAATAATATATG-AAAACTT
19210151 AAAATAATA
1 AAAATAATA
19210160 TTACATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.07
20 7 0.26
21 5 0.19
22 3 0.11
23 7 0.26
24 3 0.11
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (23 bp):
AAAATAATAATATATGAAAACTT
Found at i:19211455 original size:21 final size:21
Alignment explanation
Indices: 19211418--19211457 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19211408 TGCTGCCTTC
*
19211418 AGCTTTAATCTGCTCCACTTT
1 AGCTTTAATCTACTCCACTTT
*
19211439 AGCTTTAATCTATTCCACT
1 AGCTTTAATCTACTCCACT
19211458 GCAACGCCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.28, G:0.07, T:0.42
Consensus pattern (21 bp):
AGCTTTAATCTACTCCACTTT
Found at i:19211494 original size:72 final size:72
Alignment explanation
Indices: 19211363--19211508 Score: 168
Period size: 72 Copynumber: 2.0 Consensus size: 72
19211353 GATTCGCTAC
* ** * ** *
19211363 CTTTAGCTTTAATCTATTCCACTGTAGGGCCAAAGAGATCAGATTTGCTGCCTTCAGCTTTAATC
1 CTTTAGCTTTAATCTATTCCACTGCAACGCCAAAGAGAACAGATTCACTACCTTCAGCTTTAATC
*
19211428 TGCTCCA
66 AGCTCCA
** *
19211435 CTTTAGCTTTAATCTATTCCACTGCAACGCCAGGGA-AACAAGATTCACTACCTTTAGCTTTAAT
1 CTTTAGCTTTAATCTATTCCACTGCAACGCCAAAGAGAAC-AGATTCACTACCTTCAGCTTTAAT
*
19211499 CAGTTCCA
65 CAGCTCCA
19211507 CT
1 CT
19211509 GCAACGCAAG
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
71 2 0.03
72 59 0.97
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (72 bp):
CTTTAGCTTTAATCTATTCCACTGCAACGCCAAAGAGAACAGATTCACTACCTTCAGCTTTAATC
AGCTCCA
Found at i:19211919 original size:24 final size:24
Alignment explanation
Indices: 19211891--19211948 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
19211881 CGGATTGCCC
*
19211891 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
*
19211915 CCACTGTAATCTTTAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
19211939 CCACTGTAAT
1 CCACTGTAAT
19211949 TTCGGGACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:19227108 original size:39 final size:43
Alignment explanation
Indices: 19227054--19227162 Score: 127
Period size: 39 Copynumber: 2.6 Consensus size: 43
19227044 TTTCCTTATG
* *
19227054 CTATTACACCTCTATTCCATT-C-AACCAAAC-ACAAGAATA-
1 CTATTACGCCTCTATTCCATTACGAACCAAACAAAAAGAATAC
*
19227093 CTATTACGCCTCTATTCCATTAGAGCGAACCAAACAAAAAGATTAC
1 CTATTACGCCTCTATTCCATT--A-CGAACCAAACAAAAAGAATAC
*
19227139 CTATTACGTCTCTATTCCATTACG
1 CTATTACGCCTCTATTCCATTACG
19227163 CCTCTATTCC
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
39 20 0.34
43 3 0.05
44 9 0.15
45 7 0.12
46 20 0.34
ACGTcount: A:0.36, C:0.28, G:0.07, T:0.28
Consensus pattern (43 bp):
CTATTACGCCTCTATTCCATTACGAACCAAACAAAAAGAATAC
Found at i:19227162 original size:16 final size:16
Alignment explanation
Indices: 19227141--19227176 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
19227131 AAGATTACCT
*
19227141 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
19227157 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
19227173 ATTA
1 ATTA
19227177 TAGCGAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:19229831 original size:67 final size:70
Alignment explanation
Indices: 19229725--19229858 Score: 220
Period size: 67 Copynumber: 2.0 Consensus size: 70
19229715 TCTAATCACA
*
19229725 AACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATTTAAACCATAAACCCTAA
1 AACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAA
19229790 CCCCT
66 CCCCT
* *
19229795 AACCCCTAAACCTTA-TT-A-ATATAAATTAAAACACACTAATTAATCTAAACCCTAAACCCTAA
1 AACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAA
19229857 CC
66 CC
19229859 TAACACCAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
67 43 0.70
68 1 0.02
69 2 0.03
70 15 0.25
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (70 bp):
AACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAA
CCCCT
Found at i:19230027 original size:14 final size:14
Alignment explanation
Indices: 19230008--19230041 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
19229998 CTAAATTAAT
19230008 CATATACCCCAAAC
1 CATATACCCCAAAC
*
19230022 CATATACCCTAAAC
1 CATATACCCCAAAC
19230036 CATATA
1 CATATA
19230042 AATTAAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (14 bp):
CATATACCCCAAAC
Found at i:19230414 original size:41 final size:41
Alignment explanation
Indices: 19230369--19230468 Score: 182
Period size: 41 Copynumber: 2.4 Consensus size: 41
19230359 AAATGTTTTT
19230369 GCGGCGCTTTTTCAAAAACGACGCTAAAGCCCCTAGCATTA
1 GCGGCGCTTTTTCAAAAACGACGCTAAAGCCCCTAGCATTA
* *
19230410 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCTAGCATTA
1 GCGGCGCTTTTTCAAAAACGACGCTAAAGCCCCTAGCATTA
19230451 GCGGCGCTTTTTCAAAAA
1 GCGGCGCTTTTTCAAAAA
19230469 TGCAGCTAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGACGCTAAAGCCCCTAGCATTA
Found at i:19230477 original size:41 final size:41
Alignment explanation
Indices: 19230369--19230483 Score: 178
Period size: 41 Copynumber: 2.8 Consensus size: 41
19230359 AAATGTTTTT
19230369 GCGGCGCTTTTTCAAAAACG-ACGCTAAAGCCCCTAGCATTA
1 GCGGCGCTTTTTCAAAAACGCA-GCTAAAGCCCCTAGCATTA
* *
19230410 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCTAGCATTA
1 GCGGCGCTTTTTCAAAAACGCAGCTAAAGCCCCTAGCATTA
* *
19230451 GCGGCGCTTTTTCAAAAATGCAGCTAAATCCCC
1 GCGGCGCTTTTTCAAAAACGCAGCTAAAGCCCC
19230484 GAAAGGTCAG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCAGCTAAAGCCCCTAGCATTA
Found at i:19233278 original size:13 final size:13
Alignment explanation
Indices: 19233260--19233294 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
19233250 CTCAAAATTT
19233260 TCAAAAGCACTTC
1 TCAAAAGCACTTC
* *
19233273 TCAAAAGTACTTT
1 TCAAAAGCACTTC
19233286 TCAAAAGCA
1 TCAAAAGCA
19233295 ATAAAAAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:19243181 original size:32 final size:32
Alignment explanation
Indices: 19243140--19243208 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
19243130 GCCACACGGG
*
19243140 CGTGTGGGCCTTACGCGGGTGAATCACAAGGA
1 CGTGTGGGCCTTACACGGGTGAATCACAAGGA
* *
19243172 CGTGTGGGCCTTACACGGGTGAATCACATGGG
1 CGTGTGGGCCTTACACGGGTGAATCACAAGGA
19243204 CGTGT
1 CGTGT
19243209 TGGAATATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.19, C:0.22, G:0.38, T:0.22
Consensus pattern (32 bp):
CGTGTGGGCCTTACACGGGTGAATCACAAGGA
Found at i:19245019 original size:19 final size:19
Alignment explanation
Indices: 19244997--19245088 Score: 62
Period size: 19 Copynumber: 4.8 Consensus size: 19
19244987 TTTAGTATTA
19244997 CACCACATAATTAATAGTT
1 CACCACATAATTAATAGTT
*
19245016 CACCACATAA-TAATATTGT
1 CACCACATAATTAATAGT-T
*** * * * *
19245035 CAAGTGCATATTTAGTACTA
1 C-ACCACATAATTAATAGTT
* *
19245055 CACCATATAATTGATAGTT
1 CACCACATAATTAATAGTT
19245074 CACCACATAA-TAATA
1 CACCACATAATTAATA
19245089 TTGTCCAAGT
Statistics
Matches: 51, Mismatches: 19, Indels: 7
0.66 0.25 0.09
Matches are distributed among these distances:
18 10 0.20
19 30 0.59
20 6 0.12
21 5 0.10
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (19 bp):
CACCACATAATTAATAGTT
Found at i:19245043 original size:58 final size:59
Alignment explanation
Indices: 19244968--19245118 Score: 236
Period size: 58 Copynumber: 2.6 Consensus size: 59
19244958 TGATAACTAC
*
19244968 AATATTGTCCAAGTGCATATTTAGTATTACACCACATAATTAATAGTTCACCACATAAT
1 AATATTGTCCAAGTGCATATTTAGTACTACACCACATAATTAATAGTTCACCACATAAT
* *
19245027 AATATTGT-CAAGTGCATATTTAGTACTACACCATATAATTGATAGTTCACCACATAAT
1 AATATTGTCCAAGTGCATATTTAGTACTACACCACATAATTAATAGTTCACCACATAAT
19245085 AATATTGTCCAAGTG-A-ATTACTAGTACTACACCA
1 AATATTGTCCAAGTGCATATT--TAGTACTACACCA
19245119 TATTAAAACA
Statistics
Matches: 86, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
57 3 0.03
58 56 0.65
59 27 0.31
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (59 bp):
AATATTGTCCAAGTGCATATTTAGTACTACACCACATAATTAATAGTTCACCACATAAT
Found at i:19246071 original size:16 final size:16
Alignment explanation
Indices: 19246038--19246101 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
19246028 ATTCTACATT
*
19246038 AATAATTTACATTATC
1 AATAATTTACAATATC
19246054 AATAATTT-CAATATTC
1 AATAATTTACAATA-TC
* * *
19246070 AACAAGTTTAAAACAT-
1 AATAA-TTTACAATATC
19246086 AATAATTT-CAATATC
1 AATAATTTACAATATC
19246101 A
1 A
19246102 GTATCCAACC
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
14 4 0.11
15 8 0.22
16 18 0.49
17 4 0.11
18 3 0.08
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (16 bp):
AATAATTTACAATATC
Found at i:19277720 original size:12 final size:10
Alignment explanation
Indices: 19277694--19277753 Score: 75
Period size: 11 Copynumber: 5.5 Consensus size: 10
19277684 AACTAAATTC
19277694 TTTCTCTCAA
1 TTTCTCTCAA
19277704 TTTCTCTCTAA
1 TTTCTCTC-AA
19277715 TATTCTCTCAA
1 T-TTCTCTCAA
19277726 TTTCCTCTCAA
1 TTT-CTCTCAA
19277737 TTTCCTCTCAAA
1 TTT-CTCTC-AA
19277749 TTTCT
1 TTTCT
19277754 ATTTAAAAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.22
11 24 0.52
12 12 0.26
ACGTcount: A:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:19279147 original size:25 final size:23
Alignment explanation
Indices: 19279102--19279177 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 23
19279092 AAAATATAAC
*
19279102 AATATATTTACATATACATATATAT
1 AATAAATTTACATAT--ATATATAT
19279127 AATAAATCTGTACATATATATATA-
1 AATAAAT-T-TACATATATATATAT
*
19279151 AA-ATATTTACATATATATATAT
1 AATAAATTTACATATATATATAT
19279173 -ATAAA
1 AATAAA
19279178 AATAATGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
21 15 0.34
22 3 0.07
23 3 0.07
24 2 0.05
25 13 0.30
26 1 0.02
27 7 0.16
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (23 bp):
AATAAATTTACATATATATATAT
Found at i:19279170 original size:21 final size:22
Alignment explanation
Indices: 19279116--19279173 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
19279106 TATTTACATA
*
19279116 TACATATATATA-ATAAATCTG
1 TACATATATATATATAAATATG
*
19279137 TACATATATATATA-AAATATT
1 TACATATATATATATAAATATG
19279158 TACATATATATATATA
1 TACATATATATATATA
19279174 TAAAAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (22 bp):
TACATATATATATATAAATATG
Found at i:19279178 original size:25 final size:25
Alignment explanation
Indices: 19279105--19279178 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
19279095 ATATAACAAT
*
19279105 ATATTTACATATACATATATATAATA
1 ATATTTACATATATATATATATAA-A
* * *
19279131 A-ATCT--GTACATATATATATAAA
1 ATATTTACATATATATATATATAAA
19279153 ATATTTACATATATATATATATAAA
1 ATATTTACATATATATATATATAAA
19279178 A
1 A
19279179 ATAATGATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
22 2 0.05
23 16 0.42
25 19 0.50
26 1 0.03
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (25 bp):
ATATTTACATATATATATATATAAA
Found at i:19280786 original size:44 final size:45
Alignment explanation
Indices: 19280728--19280843 Score: 135
Period size: 45 Copynumber: 2.6 Consensus size: 45
19280718 CTAATCCACT
* * *
19280728 CCACTACAACTTTAGGGAGATAGGATTTG-TTTATTTAGTCTACC
1 CCACTACAACTTTAGGGAGATAAGACTTGCTTTATTGAGTCTACC
* * * * *
19280772 CCACTGCAATTTTAGGGGGATAAGACTTGCTTTCTTGAGTCTGCC
1 CCACTACAACTTTAGGGAGATAAGACTTGCTTTATTGAGTCTACC
* *
19280817 TCACTACAACTTCAGGGAGATAAGACT
1 CCACTACAACTTTAGGGAGATAAGACT
19280844 GGATGCGATC
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
44 24 0.41
45 34 0.59
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
CCACTACAACTTTAGGGAGATAAGACTTGCTTTATTGAGTCTACC
Found at i:19280938 original size:44 final size:43
Alignment explanation
Indices: 19280890--19281188 Score: 218
Period size: 44 Copynumber: 6.9 Consensus size: 43
19280880 AATCTGTGGT
* *
19280890 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGC
* *
19280934 TTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATT-TGCC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC
* *
19280976 ATCTTCAATCTGC-CTCATTGCAACTTCA-GGAGGATAAGACT-T-GC
1 -T-TT-AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC
* * * * * *
19281020 TTACTTAGTCTGCTTCACTGCAACTTTAAGGAGATAAGACTA--GA
1 -T--TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC
* * * * * * ** *
19281064 TGTGAGCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAAGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGC
* * *
19281107 TTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTATTGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTA-TGGC
*
19281151 TTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
19281189 CGCCATTGCA
Statistics
Matches: 200, Mismatches: 41, Indels: 28
0.74 0.15 0.10
Matches are distributed among these distances:
40 20 0.10
41 7 0.04
42 2 0.01
43 11 0.05
44 127 0.63
45 33 0.17
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC
Found at i:19281001 original size:45 final size:43
Alignment explanation
Indices: 19280946--19281060 Score: 124
Period size: 45 Copynumber: 2.6 Consensus size: 43
19280936 TAATCTGTTC
*
19280946 CACTGCAACTTCAGGGAGATAAGATTTGCCAT-CTTCAATCTGCCT
1 CACTGCAACTTCA-GGAGATAAGACTTG-CATACTT-AATCTGCCT
* * * *
19280991 CATTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTT
1 CACTGCAACTTCAGGA-GATAAGACTTGCATACTTAATCTGCCT
*
19281035 CACTGCAACTTTAAGGAGATAAGACT
1 CACTGCAAC-TTCAGGAGATAAGACT
19281061 AGATGTGAGC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
44 29 0.48
45 31 0.52
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (43 bp):
CACTGCAACTTCAGGAGATAAGACTTGCATACTTAATCTGCCT
Found at i:19281123 original size:217 final size:218
Alignment explanation
Indices: 19280789--19281194 Score: 616
Period size: 217 Copynumber: 1.9 Consensus size: 218
19280779 AATTTTAGGG
* * * *
19280789 GGATAAGACTTGCTTTCTTGAGTCTGCCTCACTACAACTTCAGGGAGATAAGACTGGATGCGATC
1 GGATAAGACTTGCTTACTTGAGTCTGCCTCACTACAACTTCAAGGAGATAAGACTAGATGCGAGC
* * * ****
19280854 TGCTCTCTGTAACTTTAGATAGATAAAATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
66 TGCTCTCTGCAACTTCAGAGAGATAAAATCCAAAGTTTTAATCCGCTCCACTGCAACTTCAGGGA
* * *
19280919 GATAGGATTATCGGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
131 GATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCCATCTTCAA
19280984 TCTGCCTCATTGCAACTTCAGGA
196 TCTGCCTCATTGCAACTTCAGGA
* * * *
19281007 GGATAAGACTTGCTTACTT-AGTCTGCTTCACTGCAACTTTAAGGAGATAAGACTAGATGTGAGC
1 GGATAAGACTTGCTTACTTGAGTCTGCCTCACTACAACTTCAAGGAGATAAGACTAGATGCGAGC
* *
19281071 TGCTCTCTGCAACTTCAGAGAGATAAGATCCAAAGTTTTAATCCGTTCCACTGCAACTTCAGGGA
66 TGCTCTCTGCAACTTCAGAGAGATAAAATCCAAAGTTTTAATCCGCTCCACTGCAACTTCAGGGA
*
19281136 GATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCCAT
131 GATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCCAT
19281195 TGCAATTTGA
Statistics
Matches: 167, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
217 149 0.89
218 18 0.11
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (218 bp):
GGATAAGACTTGCTTACTTGAGTCTGCCTCACTACAACTTCAAGGAGATAAGACTAGATGCGAGC
TGCTCTCTGCAACTTCAGAGAGATAAAATCCAAAGTTTTAATCCGCTCCACTGCAACTTCAGGGA
GATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCCATCTTCAA
TCTGCCTCATTGCAACTTCAGGA
Found at i:19281623 original size:9 final size:9
Alignment explanation
Indices: 19281609--19281684 Score: 82
Period size: 9 Copynumber: 8.4 Consensus size: 9
19281599 TTAGTGATTC
19281609 AATTCGGTT
1 AATTCGGTT
19281618 AATTCGAG-T
1 AATTCG-GTT
*
19281627 AATTCGGGT
1 AATTCGGTT
*
19281636 AATCCGGTT
1 AATTCGGTT
*
19281645 AGTTCGGTT
1 AATTCGGTT
*
19281654 AATTCGGGT
1 AATTCGGTT
* *
19281663 AATTTGATT
1 AATTCGGTT
19281672 AATTCGGTT
1 AATTCGGTT
19281681 AATT
1 AATT
19281685 TTTAACCAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
8 1 0.02
9 52 0.96
10 1 0.02
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:19281645 original size:27 final size:27
Alignment explanation
Indices: 19281613--19281684 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
19281603 TGATTCAATT
19281613 CGGTTAATTCGAG-TAATTCGGGTAATC
1 CGGTTAATTCG-GTTAATTCGGGTAATC
* *
19281640 CGGTTAGTTCGGTTAATTCGGGTAATT
1 CGGTTAATTCGGTTAATTCGGGTAATC
* *
19281667 TGATTAATTCGGTTAATT
1 CGGTTAATTCGGTTAATT
19281685 TTTAACCAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.24, C:0.11, G:0.25, T:0.40
Consensus pattern (27 bp):
CGGTTAATTCGGTTAATTCGGGTAATC
Found at i:19282452 original size:88 final size:88
Alignment explanation
Indices: 19282296--19282517 Score: 309
Period size: 88 Copynumber: 2.5 Consensus size: 88
19282286 TGATGTCTTC
* * * *
19282296 GATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTACTCCACTACTGCTC
1 GATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTACAGCCC
**
19282361 AGGGAGACAAGGCTGGAGTTTTT
66 AGGGAGACAAGGCTGGAGTCCTT
* * * * *
19282384 GATCTGCTTCACTGCCGGTATAGGAAGGCAAGCTCTGCTATTTTTAACCTACTCCGCTGCAGCCC
1 GATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTACAGCCC
* *
19282449 AGGGAGGCAAGGCTGGTGTCCTT
66 AGGGAGACAAGGCTGGAGTCCTT
* *
19282472 GATCTGCTTCACTGCCGGTACAGGAAGGCAAAATCTGCTATCTTCA
1 GATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATTTTCA
19282518 TTGATTTGTT
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 116 1.00
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (88 bp):
GATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTACAGCCC
AGGGAGACAAGGCTGGAGTCCTT
Found at i:19286268 original size:12 final size:12
Alignment explanation
Indices: 19286251--19286285 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
19286241 CCCTTGACAT
19286251 TCCATCATTTTG
1 TCCATCATTTTG
19286263 TCCATCATTTTG
1 TCCATCATTTTG
*
19286275 TCTATCATTTT
1 TCCATCATTTT
19286286 TTGCTGCTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.17, C:0.23, G:0.06, T:0.54
Consensus pattern (12 bp):
TCCATCATTTTG
Found at i:19288323 original size:14 final size:14
Alignment explanation
Indices: 19288304--19288331 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19288294 TTATATAAAC
19288304 AAATAAATCAATAA
1 AAATAAATCAATAA
19288318 AAATAAATCAATAA
1 AAATAAATCAATAA
19288332 CATGCAAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAATCAATAA
Found at i:19288764 original size:19 final size:22
Alignment explanation
Indices: 19288723--19288772 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 22
19288713 TTACATATAC
19288723 ATATATATAATAAATCTGAACAT
1 ATATATATAATAAATCT-AACAT
19288746 ATATATATAAT-AAT-T-ACAT
1 ATATATATAATAAATCTAACAT
19288765 ATATATAT
1 ATATATAT
19288773 CAAAATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 12 0.44
21 1 0.04
22 3 0.11
23 11 0.41
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (22 bp):
ATATATATAATAAATCTAACAT
Found at i:19288802 original size:25 final size:25
Alignment explanation
Indices: 19288752--19288805 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
19288742 ACATATATAT
**
19288752 ATAATAATTACATATATATATCAAA
1 ATAATAATTACATATATATAAAAAA
*
19288777 ATAATATTTACACTATAT-TAAAAAA
1 ATAATAATTACA-TATATATAAAAAA
19288802 ATAA
1 ATAA
19288806 ATATGCGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (25 bp):
ATAATAATTACATATATATAAAAAA
Found at i:19292221 original size:18 final size:18
Alignment explanation
Indices: 19292190--19292233 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
19292180 ATGCCAGGTG
* * *
19292190 TGTATTCTAGCCCTTTTA
1 TGTATCCTAACCCTTATA
19292208 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
19292226 TGTTTCCT
1 TGTATCCT
19292234 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.18, C:0.25, G:0.09, T:0.48
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:19292520 original size:21 final size:21
Alignment explanation
Indices: 19292474--19292532 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
19292464 CTAACACCGA
* *
19292474 CAACCAG-ATCCCCTACCGGAG
1 CAACCAGAATCCCC-GCCAGAG
*
19292495 GAACCAGAATCCCCGCCAGAG
1 CAACCAGAATCCCCGCCAGAG
* *
19292516 CAACCACAACCCCCGCC
1 CAACCAGAATCCCCGCC
19292533 GAAAGCTGGA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 25 0.81
22 6 0.19
ACGTcount: A:0.31, C:0.47, G:0.17, T:0.05
Consensus pattern (21 bp):
CAACCAGAATCCCCGCCAGAG
Found at i:19292686 original size:34 final size:34
Alignment explanation
Indices: 19292647--19292711 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
19292637 GAATATTTTG
*
19292647 ATATTATTTGATGTAATAAAATAGAAATTTATCT
1 ATATTATTTCATGTAATAAAATAGAAATTTATCT
*
19292681 ATATTATTTCATGTACTAAAATAGAAATTTA
1 ATATTATTTCATGTAATAAAATAGAAATTTA
19292712 CTTATACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.43
Consensus pattern (34 bp):
ATATTATTTCATGTAATAAAATAGAAATTTATCT
Found at i:19296115 original size:126 final size:126
Alignment explanation
Indices: 19295890--19296306 Score: 717
Period size: 126 Copynumber: 3.3 Consensus size: 126
19295880 CAAAACATAC
*
19295890 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAACAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
*
19295955 GCTTAAAGCGTTTTTGACACTATTTGCTCGGAAACGTCTACTCGAAATTATTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCGGAAACGTCTACTCGAAATTATTTTTTCAGTA
** *
19296016 GCTACTGTAGTAAAAGCGCGTCCATGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAACAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
19296081 GCTTAAAGCGTTTTTGACACTATTTGCTCGGAAACGTCTACTCGAAATTATTTTTTCAGTA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCGGAAACGTCTACTCGAAATTATTTTTTCAGTA
* *
19296142 GCTACTGTAACAAAAGTGCGTCCACGTGGGGGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAACAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
** ** *
19296207 GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAATTTTTACTCGAAATTATTTTTTCAGTA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCGGAAACGTCTACTCGAAATTATTTTTTCAGTA
*
19296268 GCTACTGTAACAAAAGTGCGTCCACGTGGGAGCTTCTTT
1 GCTACTGTAACAAAAGCGCGTCCACGTGGGAGCTTCTTT
19296307 AAATTAACAA
Statistics
Matches: 277, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 277 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (126 bp):
GCTACTGTAACAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
GCTTAAAGCGTTTTTGACACTATTTGCTCGGAAACGTCTACTCGAAATTATTTTTTCAGTA
Found at i:19296482 original size:95 final size:94
Alignment explanation
Indices: 19296335--19296637 Score: 313
Period size: 96 Copynumber: 3.2 Consensus size: 94
19296325 ATTAACCCTA
* *
19296335 AACCCCAAACCCTAATTTATTTGAGTTTTTAC-TTAAAAACTCTAAACACTAAACCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGA-TTTTT-CTTTAAAAACACTAAACACTAAACCTAATCTAAT
*
19296399 TTTATAAAAATTTATAATTAATTTACTCAAGT
64 TTT-TAAAATTTTATAATTAATTTACTCAAGT
* * * * *
19296431 AACCCTGAACCATAATTTATTTGATTTTTCTTTAAAAACCCTTAACTCTAAACCCTAATCTAATT
1 AACCCTAAACCCTAATTTATTTGATTTTTCTTTAAAAACACTAAACACTAAA-CCTAATCTAATT
* * **
19296496 TTTAAATTTTTTTTAATTAAACTACTCAAGT
65 TTTAAA-ATTTTATAATTAATTTACTCAAGT
* * * * * *
19296527 AACCCTAAACCCTAATTTAATTAT-TTTTTTCTTAAAAAACAATAAACACGAAACCTAATCCAAA
1 AACCCTAAACCCTAATTT-ATT-TGATTTTTCTTTAAAAACACTAAACACTAAACCTAATCTAAT
* * ** **
19296591 TTTGAAAATTTTATAATTAATTTAATTGACA
64 TTTTAAAATTTTATAATTAATTTACTCAAGT
19296622 AACCCTAAACCCTAAT
1 AACCCTAAACCCTAAT
19296638 CTCTTATTTA
Statistics
Matches: 170, Mismatches: 32, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
94 1 0.01
95 58 0.34
96 85 0.50
97 25 0.15
98 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (94 bp):
AACCCTAAACCCTAATTTATTTGATTTTTCTTTAAAAACACTAAACACTAAACCTAATCTAATTT
TTAAAATTTTATAATTAATTTACTCAAGT
Found at i:19296696 original size:28 final size:27
Alignment explanation
Indices: 19296664--19296720 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
19296654 TTTTTCCTAA
19296664 AACCCTAAACTTAA-AACACCAAAACCCT
1 AACCCTAAAC-TAATAAC-CCAAAACCCT
19296692 AACCCTAAACTAATAACCCAAAACCCT
1 AACCCTAAACTAATAACCCAAAACCCT
19296719 AA
1 AA
19296721 TCGCAAACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 15 0.54
28 13 0.46
ACGTcount: A:0.51, C:0.35, G:0.00, T:0.14
Consensus pattern (27 bp):
AACCCTAAACTAATAACCCAAAACCCT
Found at i:19302959 original size:20 final size:21
Alignment explanation
Indices: 19302927--19302965 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
19302917 GAAGCTAGTC
19302927 GGATAGACAAACA-ATGACTG
1 GGATAGACAAACATATGACTG
19302947 GGATAGATC-AACATATGAC
1 GGATAGA-CAAACATATGAC
19302966 ATGAAGAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (21 bp):
GGATAGACAAACATATGACTG
Found at i:19305303 original size:21 final size:21
Alignment explanation
Indices: 19305279--19305345 Score: 107
Period size: 21 Copynumber: 3.1 Consensus size: 21
19305269 TAATGATAAA
19305279 TATTTTAATGTAAAATATTAT
1 TATTTTAATGTAAAATATTAT
19305300 TATTTTAATGTAAAATATTAT
1 TATTTTAATGTAAAATATTAT
*
19305321 TATTTTAATAGTATAAACATTAT
1 TATTTTAAT-GTA-AAATATTAT
19305344 TA
1 TA
19305346 AAAATAANNN
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
21 30 0.70
22 3 0.07
23 10 0.23
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (21 bp):
TATTTTAATGTAAAATATTAT
Found at i:19316628 original size:6 final size:6
Alignment explanation
Indices: 19316617--19316644 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
19316607 GGATCTCTAT
19316617 TAAAAA TAAAAA TAAAAA TAAAAA TAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAA
19316645 CCTGATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:19320530 original size:211 final size:211
Alignment explanation
Indices: 19320292--19320715 Score: 778
Period size: 211 Copynumber: 2.0 Consensus size: 211
19320282 TAGTTCTTTC
*
19320292 ATTTGTTTATTAATTTGTGTTTTCATTTATATTATTTTACTCGTTTATTTAATACTTTGC-TTGT
1 ATTTGTTTATTAATTTGTGTTTTCATTTATATTATTTTACTCGTTTATTTAATACCTTGCATT-T
* * *
19320356 CATTGTTTATTTTTTTATGTATATTCGTTTCATTTATTTATTTGTATACATTATTTCTATGCCAT
65 CATTGTTTATTTTTTCATGGATATTAGTTTCATTTATTTATTTGTATACATTATTTCTATGCCAT
19320421 TGTTATATTTATTATTTTTGTATTTATTATTGTGGCATATATATATTATAATATTACGCCATCTT
130 TGTTATATTTATTATTTTTGTATTTATTATTGTGGCATATATATATTATAATATTACGCCATCTT
19320486 TTTACTCGATTTTAAAA
195 TTTACTCGATTTTAAAA
*
19320503 ATTTGTTTATTAATTTGTGTTTTCATTTATATTATTTTGCTCGTTTATTTAATACCTTGCATTTC
1 ATTTGTTTATTAATTTGTGTTTTCATTTATATTATTTTACTCGTTTATTTAATACCTTGCATTTC
19320568 ATTGTTTATTTTTTCATGGATATTAGTTTCATTTATTTATTTGTATACATTATTTCTATGCCATT
66 ATTGTTTATTTTTTCATGGATATTAGTTTCATTTATTTATTTGTATACATTATTTCTATGCCATT
*
19320633 GTTATATTTATTATTTTTGTATTTATTATTGTGGCATATATATATTATAATATTACGTCATCTTT
131 GTTATATTTATTATTTTTGTATTTATTATTGTGGCATATATATATTATAATATTACGCCATCTTT
19320698 TTACTCGATTTTAAAA
196 TTACTCGATTTTAAAA
19320714 AT
1 AT
19320716 AGAACTTTTC
Statistics
Matches: 206, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
211 204 0.99
212 2 0.01
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.58
Consensus pattern (211 bp):
ATTTGTTTATTAATTTGTGTTTTCATTTATATTATTTTACTCGTTTATTTAATACCTTGCATTTC
ATTGTTTATTTTTTCATGGATATTAGTTTCATTTATTTATTTGTATACATTATTTCTATGCCATT
GTTATATTTATTATTTTTGTATTTATTATTGTGGCATATATATATTATAATATTACGCCATCTTT
TTACTCGATTTTAAAA
Found at i:19332698 original size:87 final size:87
Alignment explanation
Indices: 19332584--19332922 Score: 540
Period size: 87 Copynumber: 3.9 Consensus size: 87
19332574 GATTGCAAGT
*
19332584 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATTTCCCTAAGCAGTAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
19332649 TGGAGCAGATCGAAGTCCCCAG
66 TGGAGCAGATCGAAGTCCCCAG
* * * *
19332671 CCTTATCTCTCTGAGCAGCAGTAGAGTAGGTTGAAAATTACAGATTTTTTCTCCCTAAGCAGTAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
19332736 TGGAGCAGATCGAAGTCCCCAG
66 TGGAGCAGATCGAAGTCCCCAG
*
19332758 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAATAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
*
19332823 TGGAGCATATCGAAGTCCCCAG
66 TGGAGCAGATCGAAGTCCCCAG
* * ***
19332845 CCTTATC-CCC-GAGCA-CAGCGGAGCAGACCGAAGAATTACAGATCTTATCTCCCTAAGCAGTA
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAA-AATTACAGATCTTATCTCCCTAAGCAGTA
19332907 GTGGAGCAGATCGAAG
65 GTGGAGCAGATCGAAG
19332923 ATGGCAGATC
Statistics
Matches: 233, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
84 12 0.05
85 48 0.21
86 3 0.01
87 170 0.73
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (87 bp):
CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGTCCCCAG
Found at i:19332949 original size:44 final size:44
Alignment explanation
Indices: 19332585--19333205 Score: 303
Period size: 44 Copynumber: 14.2 Consensus size: 44
19332575 ATTGCAAGTC
* * * * * *
19332585 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGAT
* ** *
19332629 CTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAG-TCCCCAG-C
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT-TACAGAT
* * * * * * * *
19332672 CTTATCTCTCTGAGCAGCAGTAGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGAT
* * ** *
19332716 TTTTTCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-TCCCCAG-C
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT-TACAGAT
* * * * * *
19332759 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGAT
* * ** *
19332803 CTTATCTCCCTAAGCAATAGTGGAGCATATCGAAG-TCCCCAG-C
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT-TACAGAT
* * * *
19332846 CTTATC-CCC-GAGCA-CAGCGGAGCAGACCGAAGAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-ATTACAGAT
**
19332888 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGAT
* * **
19332932 CTTATCTCCCTAAGCAGTAGTAGAGCAGATTG-AG--GCCAGTAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAG--AT
* ** * * * *
19332975 CCTATCTCCCTAA--AGTTACAGTGGAGTGGAT-TAAAATAAAAAGAT
1 CTTATCTCCCTAAGCAG-T--AGTGGAGCAGATCGAAGAT-TACAGAT
** *** * ** * * *
19333020 CTTATCTCTTTGAAATTGCAGTAAAGTAGATCG--CATT--AGGT
1 CTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATTACAGAT
* * *
19333061 CTTATCTCCCTGAGCAGCA-TCGGAGCAGACCGAAGAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGT-GGAGCAGATCGAAG-ATTACAGAT
* * * *
19333106 TTTATCTCCCTAAGCAGTAGTGGAGCAGATTGATGATTGCAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGAT
* * * *
19333150 CTTATCTCCCTAAACAGTAGTGGAGCAAGATTGAAGATGGA-AAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGC-AGATCGAAGAT-TACAGAT
19333195 CTTATCTCCCT
1 CTTATCTCCCT
19333206 GAGGTTACAG
Statistics
Matches: 422, Mismatches: 120, Indels: 69
0.69 0.20 0.11
Matches are distributed among these distances:
39 1 0.00
40 25 0.06
41 25 0.06
42 11 0.03
43 90 0.21
44 176 0.42
45 88 0.21
46 3 0.01
47 2 0.00
48 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGAT
Found at i:19332987 original size:172 final size:173
Alignment explanation
Indices: 19332584--19332964 Score: 437
Period size: 174 Copynumber: 2.2 Consensus size: 173
19332574 GATTGCAAGT
* * * * * * * *
19332584 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATTTCCCTAAGCAGTAG
1 CCTTATCTCCCTAAGCAGCAGTAGAGCAGATTGAAAAGTA-AGATCCTATCTCCCTAAGCAATAG
* * * ***
19332649 TGGAGCAGATCGAAGTCCCCAGCCTTATCTCTCTGAGCAGCAGTAGAGTAGGTTGAAAATTACAG
65 TGGAGCAGATCGAAGTCCCCAGCCTTATCTCTCCGAGCAGCAGCAGAGCAGACCGAAAATTACAG
* *
19332714 ATTTTTTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCAG
130 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCAG
* * * * * *
19332758 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAATAG
1 CCTTATCTCCCTAAGCAGCAGTAGAGCAGATTGAAAAGTA-AGATCCTATCTCCCTAAGCAATAG
* *
19332823 TGGAGCATATCGAAGTCCCCAGCCTTATC-C-CCGAGCA-CAGCGGAGCAGACCGAAGAATTACA
65 TGGAGCAGATCGAAGTCCCCAGCCTTATCTCTCCGAGCAGCAGCAGAGCAGACCGAA-AATTACA
**
19332885 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT-GGCAG
129 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-TCCCCAG
* *
19332930 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATTGA
1 -CCTTATCTCCCTAAGCAGCAGTAGAGCAGATTGA
19332965 GGCCAGTAAT
Statistics
Matches: 184, Mismatches: 20, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
171 11 0.06
172 52 0.28
173 30 0.16
174 91 0.49
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (173 bp):
CCTTATCTCCCTAAGCAGCAGTAGAGCAGATTGAAAAGTAAGATCCTATCTCCCTAAGCAATAGT
GGAGCAGATCGAAGTCCCCAGCCTTATCTCTCCGAGCAGCAGCAGAGCAGACCGAAAATTACAGA
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCAG
Found at i:19333197 original size:45 final size:44
Alignment explanation
Indices: 19333107--19333205 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 44
19333097 ATTACAGATT
* * * * *
19333107 TTATCTCCCTAAGCAGTAGTGGAGCAGATTGATGATTGCAGATC
1 TTATCTCCCTAAACAGTAGTGGAGCAGATTGAAGATGGAAAATC
19333151 TTATCTCCCTAAACAGTAGTGGAGCAAGATTGAAGATGGAAAATC
1 TTATCTCCCTAAACAGTAGTGGAGC-AGATTGAAGATGGAAAATC
19333196 TTATCTCCCT
1 TTATCTCCCT
19333206 GAGGTTACAG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 24 0.49
45 25 0.51
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
TTATCTCCCTAAACAGTAGTGGAGCAGATTGAAGATGGAAAATC
Found at i:19333289 original size:44 final size:44
Alignment explanation
Indices: 19333192--19333312 Score: 118
Period size: 44 Copynumber: 2.8 Consensus size: 44
19333182 GAAGATGGAA
* * *
19333192 AATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAACCAAG
* * * * *
19333236 AATCCTATCTCCTTGAGGTTACTGCGGAGCGGATTAAAACCACG
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAACCAAG
* * * * *
19333280 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGAT
19333313 CGCATCTAAC
Statistics
Matches: 60, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
43 7 0.12
44 53 0.88
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAACCAAG
Found at i:19335354 original size:15 final size:15
Alignment explanation
Indices: 19335334--19335368 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
19335324 TTTCTATGCC
19335334 ATTGTTATATTTATT
1 ATTGTTATATTTATT
*
19335349 ATTGTTGTATTTATT
1 ATTGTTATATTTATT
19335364 ATTGT
1 ATTGT
19335369 GGCATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
ATTGTTATATTTATT
Found at i:19346666 original size:122 final size:123
Alignment explanation
Indices: 19346448--19346796 Score: 411
Period size: 123 Copynumber: 2.8 Consensus size: 123
19346438 CGTTTCCTTA
* * * *
19346448 AAAAT-GCCGCAAAAAATAAGT-ACTAGTGGCGCTTTTAGCAAAAATGCCGCAAA-ATTATAAAA
1 AAAATCGCCGCAAAAAATAA-TCATTAGTGGCGTTTTTTGAAAAAATGCCGCAAATA-T-TAAAA
* * *
19346510 CCCAATGGCGTCGTTTGGTGGCCTTTCGGGGGATTTAGTGGAGCATCAGC-GACGTTACACT
63 GCCAACGGCGTCGTTTGGTGACCTTTCGGGGGATTTAGTGGAGCATCAGCAG-CGTTACACT
**
19346571 AAAATCGCCGCAAAAAA-AATCATTAGTGGCGTTTTTTGGGAAAATGCCGCAAATATTAAAAGCC
1 AAAATCGCCGCAAAAAATAATCATTAGTGGCGTTTTTTGAAAAAATGCCGCAAATATTAAAAGCC
* * * * * **
19346635 AACGACGTCGTTTGGTGCCCTTTCGGGGGATTTAGTGGAGCATTAGCAGTGTTCCTTT
66 AACGGCGTCGTTTGGTGACCTTTCGGGGGATTTAGTGGAGCATCAGCAGCGTTACACT
* * * * * *
19346693 AAAATCGCTGCAAAAAATAACCATTAGTGGAGTTTTTTGAAAAAACGCTGCAAATAATAAAAGCC
1 AAAATCGCCGCAAAAAATAATCATTAGTGGCGTTTTTTGAAAAAATGCCGCAAATATTAAAAGCC
*
19346758 AACGGCGTCGTTTGGTGACCTTTCGGGGGGAATTAGTGG
66 AACGGCGTCGTTTGGTGACCTTTC-GGGGGATTTAGTGG
19346797 CGTTTTTATT
Statistics
Matches: 195, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
122 72 0.37
123 98 0.50
124 25 0.13
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (123 bp):
AAAATCGCCGCAAAAAATAATCATTAGTGGCGTTTTTTGAAAAAATGCCGCAAATATTAAAAGCC
AACGGCGTCGTTTGGTGACCTTTCGGGGGATTTAGTGGAGCATCAGCAGCGTTACACT
Found at i:19346933 original size:41 final size:42
Alignment explanation
Indices: 19346851--19346940 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 42
19346841 TTATAAATAT
* * *
19346851 GCGCCGCTAATGCTCGGGGTTTTTAGTGGCATTTTTTATGAA
1 GCGCCGCTAATGCTAGGGGTTTTTAGCGGCATTTTTGATGAA
* * *
19346893 TCGCCGCTAATTCTAGGGG-TTTTAGCGGCGTTTTTGATGAA
1 GCGCCGCTAATGCTAGGGGTTTTTAGCGGCATTTTTGATGAA
19346934 GCGCCGC
1 GCGCCGC
19346941 AAAAACAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 25 0.61
42 16 0.39
ACGTcount: A:0.16, C:0.20, G:0.30, T:0.34
Consensus pattern (42 bp):
GCGCCGCTAATGCTAGGGGTTTTTAGCGGCATTTTTGATGAA
Found at i:19348110 original size:36 final size:37
Alignment explanation
Indices: 19348070--19348141 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 37
19348060 TATGGATTTA
* * *
19348070 GGGTTTGGGATATAAGGGTTGGAGGTT-AGGGGTTAT
1 GGGTTTAGGATATAAAGGTTAGAGGTTAAGGGGTTAT
*
19348106 GGGTTTAGGATTTAAAGGTTAGAGGTTAAGGGGTTA
1 GGGTTTAGGATATAAAGGTTAGAGGTTAAGGGGTTA
19348142 ATGATTTAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 23 0.74
37 8 0.26
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (37 bp):
GGGTTTAGGATATAAAGGTTAGAGGTTAAGGGGTTAT
Found at i:19348333 original size:14 final size:13
Alignment explanation
Indices: 19348317--19348342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19348307 TAATTAGTTT
19348317 TTTTAAAAATTTA
1 TTTTAAAAATTTA
19348330 TTTTAAAAATTTA
1 TTTTAAAAATTTA
19348343 ATCTAAACCA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTTAAAAATTTA
Found at i:19349137 original size:270 final size:270
Alignment explanation
Indices: 19348605--19349286 Score: 861
Period size: 270 Copynumber: 2.5 Consensus size: 270
19348595 TAGTTAAACT
*** * * * * *
19348605 TTTAGTGGCGTTTTTTTTAAAACACCGCAAATATTGGATGCATTAGTGGCGTTTTTACAAG-AAA
1 TTTAGTGGCGTTTTTAGGAAAACGCCGAAAAT-TTGGAAGCAATAGCGGCGTTTTTAC-AGTAAA
* * * ** * * * *
19348669 CGCCGCAAAAGTGTCTTAAAATTTTGAGTAAACGACGTCGTTTCTCTCCACGATTTTTAACTTAT
64 CGCCGCAAAAGGGTATTAAAGTAATGAGTAAACGACGCCGTTTCTGTACACGATTTTTAACTTAG
* * * **
19348734 AAAAAGTTCAGAATTATTTACTTAAAACATTACCGTTTGGCTTAAAGTACGTTAAGTATTAGTGG
129 AAAAATTTTAGAATTATTTACTTAAAACATCACCGTTTGGCTTAAAGTAAATTAAGTATTAGTGG
* * * **
19348799 CGTTTTAACATAAAACGCCAGAAACAATGCAATTTGAGAGTAGCAAAACGACGTCGTTTCTGTTT
194 CGTTTTAACATAAAACGCCAGAAACAATGCAATTTGAGACTAACAAAACGACGCCGTTTCCCTTT
19348864 ACAACTTTTAATA
259 ACAAC-TTTAATA
*
19348877 TTT-GTGGCGTTTTT-GGCAAAACG-C-AAGAACTTTGGAAGCAATAGCGGCGTTTGTACAGTAA
1 TTTAGTGGCGTTTTTAGG-AAAACGCCGAA-AA-TTTGGAAGCAATAGCGGCGTTTTTACAGTAA
** * *
19348938 ACGCCGCAAAAGGGTATTAAAGTAATGTCTAAACGACACCGTTTCTGTACACGATTTTTAACGTA
63 ACGCCGCAAAAGGGTATTAAAGTAATGAGTAAACGACGCCGTTTCTGTACACGATTTTTAACTTA
* *
19349003 GAAAAATTTTAGAATTATTTATTTAAAACATCACCGTTTGGGTTAAAGTAAATTAAGTATTAGTG
128 GAAAAATTTTAGAATTATTTACTTAAAACATCACCGTTTGGCTTAAAGTAAATTAAGTATTAGTG
* * *
19349068 GCGTTTTTACATAAAACGCCAGAAATAATGCAATTTGAGACTAACAAAACGGCGCCGTTTCCCTT
193 GCGTTTTAACATAAAACGCCAGAAACAATGCAATTTGAGACTAACAAAACGACGCCGTTTCCCTT
19349133 TACAACTTTAATA
258 TACAACTTTAATA
* *
19349146 TTTAGTGGCGTTTTTAGGAAAACGCCGAAAATGTGGAAGCAATAGCAGCGTTTTTACAGTAAACG
1 TTTAGTGGCGTTTTTAGGAAAACGCCGAAAATTTGGAAGCAATAGCGGCGTTTTTACAGTAAACG
* * ** * **
19349211 CCGCAAAAGGGTATTAGAGTAATGGGTAAACGGTGCCATTTCTGTGTACGATTTTTAACTTAGAA
66 CCGCAAAAGGGTATTAAAGTAATGAGTAAACGACGCCGTTTCTGTACACGATTTTTAACTTAGAA
19349276 AAATTTTAGAA
131 AAATTTTAGAA
19349287 ATCAAGTATT
Statistics
Matches: 353, Mismatches: 49, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
269 13 0.04
270 313 0.89
271 22 0.06
272 5 0.01
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (270 bp):
TTTAGTGGCGTTTTTAGGAAAACGCCGAAAATTTGGAAGCAATAGCGGCGTTTTTACAGTAAACG
CCGCAAAAGGGTATTAAAGTAATGAGTAAACGACGCCGTTTCTGTACACGATTTTTAACTTAGAA
AAATTTTAGAATTATTTACTTAAAACATCACCGTTTGGCTTAAAGTAAATTAAGTATTAGTGGCG
TTTTAACATAAAACGCCAGAAACAATGCAATTTGAGACTAACAAAACGACGCCGTTTCCCTTTAC
AACTTTAATA
Found at i:19349467 original size:233 final size:233
Alignment explanation
Indices: 19349052--19349519 Score: 706
Period size: 233 Copynumber: 2.0 Consensus size: 233
19349042 GGGTTAAAGT
* *
19349052 AAATTAAGTATTAGTGGCGTTTTTACATAAAACGCCAGAAATAATGCAATTTGAGACTAACAAAA
1 AAATCAAGTATTAGTGGCGTTTTTACATAAAACGCCAGAAAAAATGCAATTTGAGACTAACAAAA
*
19349117 CGGCGCCGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAATGTGG
66 CGGCGCCGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACACCGAAAATGTGG
* * * * **
19349182 AAGCAATAGCAGCGTTTTTACAGTAAACGCCGCAAAAGGGTATTAGAGTAATGGGTAAACGGTGC
131 AAGCAATAGCAGCGTTTGTACAGAAAACGCCGCAAAAGGGTATTAAAGTAATGGCTAAACGACGC
**
19349247 CA-TTTCTGTGTACGATTTTTAACTTAGAAAAATTTTAG
196 CATTTTC-GTAAACGATTTTTAACTTAGAAAAATTTTAG
* *
19349285 AAATCAAGTATTAGTGGCGTTTTTACGTAAAATGCCAGAAAAAATGCAATTTGAGACTAACAAAA
1 AAATCAAGTATTAGTGGCGTTTTTACATAAAACGCCAGAAAAAATGCAATTTGAGACTAACAAAA
*
19349350 CGGCGCCG-TTCCTCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACACCGTAAATGTG
66 CGGCGCCGTTTCC-CTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACACCGAAAATGTG
* * * * * * *
19349414 TAAGCAATAGCGGCGTTTGTACCGAAAATGCGGTAAAAGGGTATTAAAGTAATGGCTAAATGACG
130 GAAGCAATAGCAGCGTTTGTACAGAAAACGCCGCAAAAGGGTATTAAAGTAATGGCTAAACGACG
*
19349479 CCGTTTTCGTAAACGATTTTTAACTTAGAAAAATTTTAG
195 CCATTTTCGTAAACGATTTTTAACTTAGAAAAATTTTAG
19349518 AA
1 AA
19349520 TTATTTATTT
Statistics
Matches: 211, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
232 4 0.02
233 203 0.96
234 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (233 bp):
AAATCAAGTATTAGTGGCGTTTTTACATAAAACGCCAGAAAAAATGCAATTTGAGACTAACAAAA
CGGCGCCGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACACCGAAAATGTGG
AAGCAATAGCAGCGTTTGTACAGAAAACGCCGCAAAAGGGTATTAAAGTAATGGCTAAACGACGC
CATTTTCGTAAACGATTTTTAACTTAGAAAAATTTTAG
Found at i:19350328 original size:60 final size:60
Alignment explanation
Indices: 19350256--19350379 Score: 214
Period size: 60 Copynumber: 2.1 Consensus size: 60
19350246 GCGAATTTTG
* * *
19350256 TGAATTTTGGTTACAGTGTGTGAGGGATTTAGGTATAAGTTGTTTATTTAGCTGTTGCCC
1 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
19350316 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
1 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
19350376 -GAAT
1 TGAAT
19350380 GAATTTTGTG
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
59 4 0.07
60 57 0.93
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.42
Consensus pattern (60 bp):
TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
Found at i:19350444 original size:13 final size:13
Alignment explanation
Indices: 19350420--19350460 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
19350410 ATTTTGCGAG
*
19350420 ATTTTCTAAATGA
1 ATTTTCTTAATGA
19350433 ATTTT-TTGAATGA
1 ATTTTCTT-AATGA
19350446 ATTTTCTTAATGA
1 ATTTTCTTAATGA
19350459 AT
1 AT
19350461 ATAGTAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.88
14 2 0.08
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (13 bp):
ATTTTCTTAATGA
Found at i:19352167 original size:9 final size:9
Alignment explanation
Indices: 19352153--19352295 Score: 138
Period size: 9 Copynumber: 16.3 Consensus size: 9
19352143 NNNNNNNNNN
19352153 ACTTACATA
1 ACTTACATA
19352162 ACTTACATA
1 ACTTACATA
* *
19352171 AATTAAATA
1 ACTTACATA
19352180 ACTTACATA
1 ACTTACATA
19352189 ACTTACATA
1 ACTTACATA
* *
19352198 AATTAAATA
1 ACTTACATA
* *
19352207 TCTTACGTA
1 ACTTACATA
19352216 ACTTACATA
1 ACTTACATA
*
19352225 AATTA-AGTA
1 ACTTACA-TA
19352234 ACTTACATA
1 ACTTACATA
*
19352243 ACTTACATT
1 ACTTACATA
19352252 ACTTACAGT-
1 ACTTACA-TA
19352261 ACTTACAGT-
1 ACTTACA-TA
19352270 ACTTACATA
1 ACTTACATA
19352279 A--TACATA
1 ACTTACATA
19352286 A--TACATA
1 ACTTACATA
19352293 ACT
1 ACT
19352296 GGCGTTTTAA
Statistics
Matches: 113, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
7 14 0.12
8 2 0.02
9 95 0.84
10 2 0.02
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.34
Consensus pattern (9 bp):
ACTTACATA
Found at i:19352267 original size:27 final size:27
Alignment explanation
Indices: 19352153--19352250 Score: 169
Period size: 27 Copynumber: 3.6 Consensus size: 27
19352143 NNNNNNNNNN
19352153 ACTTACATAACTTACATAAATTAAATA
1 ACTTACATAACTTACATAAATTAAATA
19352180 ACTTACATAACTTACATAAATTAAATA
1 ACTTACATAACTTACATAAATTAAATA
* * *
19352207 TCTTACGTAACTTACATAAATTAAGTA
1 ACTTACATAACTTACATAAATTAAATA
19352234 ACTTACATAACTTACAT
1 ACTTACATAACTTACAT
19352251 TACTTACAGT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (27 bp):
ACTTACATAACTTACATAAATTAAATA
Found at i:19358018 original size:42 final size:44
Alignment explanation
Indices: 19357845--19358065 Score: 219
Period size: 43 Copynumber: 5.2 Consensus size: 44
19357835 CGCCAAACAA
* * * **
19357845 TAGCGGC-ATTTTTGGAAAAAGCACCGCTAAA-AGTTATGACCTT
1 TAGCGGCGATTTGTGGGAAAAGCGCCGCTAAAGA-ACATGACCTT
*
19357888 TAGCGGCG-TTTGTGGGAAAAGTGCCGCTAAAGAACATGACCTT
1 TAGCGGCGATTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTT
* ** *
19357931 TAGGGGCGATTT-TGGGAAAAGCGCATCTAAAGAACATGACTTT
1 TAGCGGCGATTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTT
* *
19357974 TAGCGG-GATTTGTGGG-AAAGCGCCGCTAATGAACTTGACCTT
1 TAGCGGCGATTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTT
* *
19358016 TAGCGGCGTTTTTATGGTG----GCGCCGCTAAAGAACATGACCTT
1 TAGCGGCG-ATTTGTGG-GAAAAGCGCCGCTAAAGAACATGACCTT
19358058 TAGCGGCG
1 TAGCGGCG
19358066 TTGTCAATAG
Statistics
Matches: 150, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
42 61 0.41
43 78 0.52
44 10 0.07
45 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (44 bp):
TAGCGGCGATTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTT
Found at i:19358066 original size:42 final size:40
Alignment explanation
Indices: 19357910--19358067 Score: 140
Period size: 42 Copynumber: 3.8 Consensus size: 40
19357900 TGGGAAAAGT
* *
19357910 GCCGCTAAAGAACATGACCTTTAGGGGCG-ATTTTGGGAAAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTGGG----GC
** * * *
19357953 GCATCTAAAGAACATGACTTTTAGCGG-GATTTGTGGGAAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTGGG---GC
* *
19357995 GCCGCTAATGAACTTGACCTTTAGCGGCGTTTTTATGGTGGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTTT-TGG-GGC
19358037 GCCGCTAAAGAACATGACCTTTAGCGGCGTT
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTT
19358068 GTCAATAGCG
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 59 0.61
43 33 0.34
44 3 0.03
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTGGGGC
Found at i:19363113 original size:17 final size:18
Alignment explanation
Indices: 19363078--19363115 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
19363068 ATTGCAATTC
*
19363078 AAAAACAATGCACTGGAA
1 AAAAACAATGCACTCGAA
*
19363096 AAAAATAATGCA-TCGAA
1 AAAAACAATGCACTCGAA
19363113 AAA
1 AAA
19363116 TCTGGTCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (18 bp):
AAAAACAATGCACTCGAA
Found at i:19373851 original size:43 final size:43
Alignment explanation
Indices: 19373785--19374147 Score: 338
Period size: 43 Copynumber: 8.4 Consensus size: 43
19373775 TTTTAGAAAT
* * *
19373785 AAACGCCGCTAAAGGTCATGACCTTTAGCAGCGCTTCTCCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
19373828 AAACGTCGCTATAGATCACGACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* *** * ** * *
19373871 AAATGTTTCTATAGATCAAT-ACCTTTAGCGATGTTTTTCCCAG
1 AAACGCCGCTAAAGATC-ATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
19373914 AAACGCCGCTATAGATCATGACTTTTAGCAGCGCTTTTACCTA-
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTT-CCCAC
* * * * * *
19373957 ACATGCCGCTATAGATCATGACTTTTAGCGGCACTTCTT-TCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTT-TTCCCAC
*
19374000 AAACACCGCTAAAGGA-CATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAA-GATCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
19374043 AAACGCCTCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
19374086 AAACGTCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCAT
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* *
19374129 AAACACCGCTAAAGGTCAT
1 AAACGCCGCTAAAGATCAT
19374148 AAAAATAAAA
Statistics
Matches: 263, Mismatches: 49, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
42 7 0.03
43 248 0.94
44 8 0.03
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:19375031 original size:23 final size:22
Alignment explanation
Indices: 19375005--19375324 Score: 227
Period size: 23 Copynumber: 13.9 Consensus size: 22
19374995 AATGGAAAGT
19375005 AGCACTTTAACACTTCAATTTAC
1 AGCA-TTTAACACTTCAATTTAC
*
19375028 AGCATTTAAACACTTCAATTTGC
1 AGCATTT-AACACTTCAATTTAC
*
19375051 AGCACTTTAACA-TATCAATTAAC
1 AGCA-TTTAACACT-TCAATTTAC
* * * *
19375074 AACATTTATAAACCTCAA-TAAC
1 AGCATTTA-ACACTTCAATTTAC
** *
19375096 AGCGATAAAACA-TCTCAATTTGC
1 AGC-ATTTAACACT-TCAATTTAC
* * *
19375119 AGCAACTAAACACTTCAATTTGC
1 AGC-ATTTAACACTTCAATTTAC
*
19375142 AGCACTTAAACACTTCAATTTAC
1 AGCA-TTTAACACTTCAATTTAC
**
19375165 AGCATTTAAACACTTCAATTTGTGG
1 AGCATTT-AACACTTCAA-TT-TAC
* *
19375190 AGTACTTTAACACTTCAAGTTAC
1 AGCA-TTTAACACTTCAATTTAC
* *
19375213 AACATTTAAACACTTCAATTTGC
1 AGCATTT-AACACTTCAATTTAC
19375236 AGCACTTTAACA-TATCAATTTAC
1 AGCA-TTTAACACT-TCAATTTAC
* *
19375259 AACATTTAAACACTTCAATTTGC
1 AGCATTT-AACACTTCAATTTAC
19375282 AGCACTTTAACA-TATCAATTTAC
1 AGCA-TTTAACACT-TCAATTTAC
*
19375305 AACATTTAAACACTTCAATT
1 AGCATTT-AACACTTCAATT
19375325 ACTTGTAATT
Statistics
Matches: 238, Mismatches: 36, Indels: 46
0.74 0.11 0.14
Matches are distributed among these distances:
22 34 0.14
23 172 0.72
24 15 0.06
25 14 0.06
26 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (22 bp):
AGCATTTAACACTTCAATTTAC
Found at i:19375080 original size:46 final size:45
Alignment explanation
Indices: 19375005--19375324 Score: 376
Period size: 46 Copynumber: 6.9 Consensus size: 45
19374995 AATGGAAAGT
*
19375005 AGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGC
1 AGCACTTTAACA-TTCAATTTACAACATTTAAACACTTCAATTTGC
* * **
19375051 AGCACTTTAACATATCAATTAACAACATTTATAA-ACCTCAA-TAAC
1 AGCACTTTAACAT-TCAATTTACAACATTTA-AACACTTCAATTTGC
** * * **
19375096 AGCGA-TAAAACATCTCAATTTGCAGCAACTAAACACTTCAATTTGC
1 AGC-ACTTTAACAT-TCAATTTACAACATTTAAACACTTCAATTTGC
* * *
19375142 AGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGTGG
1 AGCACTTTAACA-TTCAATTTACAACATTTAAACACTTCAA-TT-TGC
* *
19375190 AGTACTTTAACACTTCAAGTTACAACATTTAAACACTTCAATTTGC
1 AGCACTTTAACA-TTCAATTTACAACATTTAAACACTTCAATTTGC
19375236 AGCACTTTAACATATCAATTTACAACATTTAAACACTTCAATTTGC
1 AGCACTTTAACAT-TCAATTTACAACATTTAAACACTTCAATTTGC
19375282 AGCACTTTAACATATCAATTTACAACATTTAAACACTTCAATT
1 AGCACTTTAACAT-TCAATTTACAACATTTAAACACTTCAATT
19375325 ACTTGTAATT
Statistics
Matches: 236, Mismatches: 28, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
44 2 0.01
45 32 0.14
46 156 0.66
47 7 0.03
48 39 0.17
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (45 bp):
AGCACTTTAACATTCAATTTACAACATTTAAACACTTCAATTTGC
Found at i:19377035 original size:42 final size:41
Alignment explanation
Indices: 19376874--19377117 Score: 296
Period size: 41 Copynumber: 5.9 Consensus size: 41
19376864 CCTACCTTTC
* *
19376874 GGGTCTTTAGCGGCGTTTTATTAAGAAGCGCCGCTAATGCTGT
1 GGGTCTTTAGCGGCGTTTT-TGAAAAAGCGCCGCTAATGCT-T
* * *
19376917 AGG-CTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATTCTAT
1 GGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT-T
*
19376958 GGG-CTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTT
1 GGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
* *
19376998 TGGCCTTTAGCGGCGTTTTGTGAAAAAGCGCCGCTAATGC-T
1 GGGTCTTTAGCGGCGTTTT-TGAAAAAGCGCCGCTAATGCTT
* *
19377039 GGGTCTTTAGCGGCGTTTTCTGGAAAAGCGCCGCTAATGCTG
1 GGGTCTTTAGCGGCGTTTT-TGAAAAAGCGCCGCTAATGCTT
* * *
19377081 GGGTATTTAGCAGCGTTTTATGGAAAAGCGCCGCTAA
1 GGGTCTTTAGCGGCGTTTT-TGAAAAAGCGCCGCTAA
19377118 GGACATTTTA
Statistics
Matches: 179, Mismatches: 19, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
40 3 0.02
41 106 0.59
42 68 0.38
43 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.31
Consensus pattern (41 bp):
GGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
Found at i:19377078 original size:83 final size:81
Alignment explanation
Indices: 19376874--19377117 Score: 305
Period size: 83 Copynumber: 2.9 Consensus size: 81
19376864 CCTACCTTTC
19376874 GGGTCTTTAGCGGCGTTTTAT-TAAGAAGCGCCGCTAATGCTGTAGGCTTTAGCGGCGTTTTTGA
1 GGGTCTTTAGCGGCGTTTT-TGTAA-AAGCGCCGCTAATGCT-TAGGCTTTAGCGGCGTTTTTGA
* *
19376938 ATAAGCGCCGCTAATTCTAT
63 AAAAGCGCCGCTAATGC-AT
*
19376958 GGG-CTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTTTGGCCTTTAGCGGCGTTTTGTGAA
1 GGGTCTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTTAGG-CTTTAGCGGCGTTTT-TGAA
19377022 AAAGCGCCGCTAATGC-T
64 AAAGCGCCGCTAATGCAT
* ** * * *
19377039 GGGTCTTTAGCGGCGTTTTCTGGAAAAGCGCCGCTAATGCTGGGGTATTTAGCAGCGTTTTATGG
1 GGGTCTTTAGCGGCGTTTT-TGTAAAAGCGCCGCTAATGCTTAGG-CTTTAGCGGCGTTTT-TGA
19377104 AAAAGCGCCGCTAA
63 AAAAGCGCCGCTAA
19377118 GGACATTTTA
Statistics
Matches: 144, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
81 7 0.05
82 47 0.33
83 87 0.60
84 3 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.31
Consensus pattern (81 bp):
GGGTCTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTTAGGCTTTAGCGGCGTTTTTGAAAA
AGCGCCGCTAATGCAT
Found at i:19379062 original size:429 final size:430
Alignment explanation
Indices: 19378484--19379321 Score: 1511
Period size: 429 Copynumber: 2.0 Consensus size: 430
19378474 ATTTAATTTT
* * * *
19378484 GGCAATTACGCAGGACCACATTATAAGGAAAAAAAAAACATTAGTGGCGTTTGCATAGAACCGCC
1 GGCAATTACGCAGGACCACATTATAAGGAAAAAAAAAACATTAGCGGCGTTTGCAAAAAAACGCC
19378549 GCAACTATGTACCCATTTTTTTCAAAACGACGTCGTTCGCATTTAGAAATTTAATTTAATTTGTG
66 GCAACTATGTACCCATTTTTTTCAAAACGACGTCGTTCGCATTTAGAAATTTAATTTAATTTGTG
19378614 GCATTTTTCGGGAAAACGCCGTAAATATGTATTATAATTTCTCAGAACGGCACCATTTCAGAAGA
131 GCATTTTTCGGGAAAACGCCGTAAATATGTATTATAATTTCTCAGAACGGCACCATTTCAGAAGA
19378679 AGAGTGTAACCTATTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTTTTAATGTTTTTCAAA
196 AGAGTGTAACCTATTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTTTTAATGTTTTTCAAA
* *
19378744 ACGTTACCGTTTCTCTTTAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAACGCCAGAACTAT
261 ACGTCACCGTTTCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAACGCCAGAACTAT
19378809 AGATTAAAGTTTCTTAAAACGGCACCGTTTCTATTCAGTAAGGTAATTTTTAGTGGCGTTTTTGC
326 AGATTAAAGTTTCTTAAAACGGCACCGTTTCTATTCAGTAAGGTAATTTTTAGTGGCGTTTTTGC
19378874 TAAAAACGCCGCAAATATACATTTAAGGTTCTTAAAACGG
391 TAAAAACGCCGCAAATATACATTTAAGGTTCTTAAAACGG
19378914 GGCAATTACGCAGGACCACATTATAAGG-AAAAAAAAACATTAGCGGCGTTTG-AGAAAAAACGC
1 GGCAATTACGCAGGACCACATTATAAGGAAAAAAAAAACATTAGCGGCGTTTGCA-AAAAAACGC
* *
19378977 CGCAACTATGTTCCCATTTTTTTCAAAACGGCGTCGTATC-CATTTAGAAATTTAATTTAATTTG
65 CGCAACTATGTACCCATTTTTTTCAAAACGACGTCGT-TCGCATTTAGAAATTTAATTTAATTTG
* * *
19379041 TGGCGTTTTTTGGGAAAACGCCGTAAATATGTATTATAATTTCTCAGAACGGCACCGTTTCAGAA
129 TGGCATTTTTCGGGAAAACGCCGTAAATATGTATTATAATTTCTCAGAACGGCACCATTTCAGAA
* *
19379106 GAGGAGTGTAATCTATTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTTTTAATGTTTTTCA
194 GAAGAGTGTAACCTATTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTTTTAATGTTTTTCA
19379171 AAACGTCACCGTTTCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAACGCCAGAACT
259 AAACGTCACCGTTTCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAACGCCAGAACT
*
19379236 ATGGATTAAAGTTTCTTAAAACGGCACCGTTTCTATTCAGTAAGGTAATTTTTAGTGGCGTTTTT
324 ATAGATTAAAGTTTCTTAAAACGGCACCGTTTCTATTCAGTAAGGTAATTTTTAGTGGCGTTTTT
19379301 GCTAAAAACGCCGCAAATATA
389 GCTAAAAACGCCGCAAATATA
19379322 NNNNNNNNNN
Statistics
Matches: 392, Mismatches: 14, Indels: 5
0.95 0.03 0.01
Matches are distributed among these distances:
428 1 0.00
429 361 0.92
430 30 0.08
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (430 bp):
GGCAATTACGCAGGACCACATTATAAGGAAAAAAAAAACATTAGCGGCGTTTGCAAAAAAACGCC
GCAACTATGTACCCATTTTTTTCAAAACGACGTCGTTCGCATTTAGAAATTTAATTTAATTTGTG
GCATTTTTCGGGAAAACGCCGTAAATATGTATTATAATTTCTCAGAACGGCACCATTTCAGAAGA
AGAGTGTAACCTATTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTTTTAATGTTTTTCAAA
ACGTCACCGTTTCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAACGCCAGAACTAT
AGATTAAAGTTTCTTAAAACGGCACCGTTTCTATTCAGTAAGGTAATTTTTAGTGGCGTTTTTGC
TAAAAACGCCGCAAATATACATTTAAGGTTCTTAAAACGG
Found at i:19379309 original size:83 final size:83
Alignment explanation
Indices: 19379121--19379316 Score: 211
Period size: 83 Copynumber: 2.4 Consensus size: 83
19379111 GTGTAATCTA
* * ** * *
19379121 TTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTTTTAATGTTTTTCAAAACGTCACCGTTTC
1 TTAGTGGCGTTTTTGCTAAAAACGCCGCAACTATGGATTAAAGTTTTTCAAAACGGCACCGTTTC
* * *
19379186 TCTTCAGGACTTGAAATT
66 TATTCAGAACGTGAAATT
**
19379204 TTAGTGGCGTTTTT-CGGGAAAACGCCAG-AACTATGGATTAAAGTTTCTT-AAAACGGCACCGT
1 TTAGTGGCGTTTTTGC-TAAAAACGCC-GCAACTATGGATTAAAGTTT-TTCAAAACGGCACCGT
* *
19379266 TTCTATTCAGTAAGGT-AATTT
63 TTCTATTCAG-AACGTGAAATT
19379287 TTAGTGGCGTTTTTGCTAAAAACGCCGCAA
1 TTAGTGGCGTTTTTGCTAAAAACGCCGCAA
19379317 ATATANNNNN
Statistics
Matches: 92, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
82 2 0.02
83 84 0.91
84 6 0.07
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (83 bp):
TTAGTGGCGTTTTTGCTAAAAACGCCGCAACTATGGATTAAAGTTTTTCAAAACGGCACCGTTTC
TATTCAGAACGTGAAATT
Found at i:19389571 original size:43 final size:43
Alignment explanation
Indices: 19389187--19389565 Score: 496
Period size: 43 Copynumber: 8.8 Consensus size: 43
19389177 AAGAGAAGGG
* * * *
19389187 TCTTTAGCGGCGTTTGTGTAGAAAACGCCGCTAAAGATAAGGA
1 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATCAGGT
* *
19389230 TCTTTTGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGAT-AGGGG
1 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATCA-GGT
* * * * *
19389273 TCTTTTGCGGTGTTTGTAGAGAAAGCGCCGCTAAAGACCAGAT
1 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATCAGGT
19389316 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGCA-CAGGT
1 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAG-ATCAGGT
* *
19389359 TCTTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGATCAGGT
1 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATCAGGT
* *
19389402 TCTTTAGCGGCGTTTGTGGAGAAAGCGTCACTAAAGATCAGGT
1 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATCAGGT
* *
19389445 TCTTTAGCGGCATTTGTGGAGAAAGCACCGCTAAAGATCAGGT
1 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATCAGGT
* * ** *
19389488 TCTTTAGCGGCGTTTGTGG-GAAAAGAGCCGCTAAAGGTCCTGC
1 TCTTTAGCGGCGTTTGTGGAG-AAAGCGCCGCTAAAGATCAGGT
19389531 TCTTTAGCGGCGTTTGT-GAGAAAAGCGCCGCTAAA
1 TCTTTAGCGGCGTTTGTGGAG-AAAGCGCCGCTAAA
19389566 AGTCCTCGTG
Statistics
Matches: 299, Mismatches: 31, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
42 4 0.01
43 293 0.98
44 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATCAGGT
Found at i:19389611 original size:43 final size:42
Alignment explanation
Indices: 19389187--19389611 Score: 145
Period size: 43 Copynumber: 9.9 Consensus size: 42
19389177 AAGAGAAGGG
** * *** *
19389187 TCTTTAGCGGCGTTTGTGTAGAAAACGCCGCTAAAGATAAGGA
1 TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAG-TCCTGC
* ** * * *** *
19389230 TCTTTTGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATAGGGG
1 TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAG-TCCTGC
* * * * * * * *
19389273 TCTTTTGCGGTGTTTGTAGAGAAAGCGCCGCTAAAGACCAGAT
1 TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAGTCCTG-C
** * * * *
19389316 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAG-CACAGGT
1 TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAGTC-C-TGC
* ** * ** *
19389359 TCTTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGATCAGGT
1 TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAG-TCCTGC
** * * * * ** *
19389402 TCTTTAGCGGCGTTTGTGGAGAAAGCGTCACTAAAGATCAGGT
1 TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAG-TCCTGC
* ** * * * ** *
19389445 TCTTTAGCGGCATTTGTGGAGAAAGCACCGCTAAAGATCAGGT
1 TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAG-TCCTGC
** *
19389488 TCTTTAGCGGCGTTTGTGGGAAAAGA-GCCGCTAAAGGTCCTGC
1 TCTTTAGCGGCGTTTGT-AAAAAAAACGCCGCTAAA-GTCCTGC
* * *
19389531 TCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCCT-C
1 TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCT-AAAGTCCTGC
* *
19389573 GTGTTTAGCGGCGTTTTTAATAAAAAACGCCGCTAAAGT
1 -TCTTTAGCGGCGTTTGTAA-AAAAAACGCCGCTAAAGT
19389612 TAGCGACGCC
Statistics
Matches: 327, Mismatches: 44, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
42 7 0.02
43 298 0.91
44 21 0.06
45 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (42 bp):
TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAGTCCTGC
Found at i:19391859 original size:7 final size:7
Alignment explanation
Indices: 19391849--19391890 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
19391839 ATAAACCTTA
19391849 AACCCCT
1 AACCCCT
19391856 AACCCCT
1 AACCCCT
*
19391863 AACCTCT
1 AACCCCT
19391870 AACCCCT
1 AACCCCT
19391877 AACCCCT
1 AACCCCT
19391884 AACCCCT
1 AACCCCT
19391891 CATTTACAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.29, C:0.55, G:0.00, T:0.17
Consensus pattern (7 bp):
AACCCCT
Found at i:19392021 original size:14 final size:14
Alignment explanation
Indices: 19392004--19392049 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
19391994 CACTAACTCT
* *
19392004 TAACCTTTAACCTC
1 TAACCCTTAACCCC
19392018 TAACCCTTAACCCC
1 TAACCCTTAACCCC
*
19392032 AAACCCTTAACCCC
1 TAACCCTTAACCCC
19392046 TAAC
1 TAAC
19392050 TACTAACCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.24
Consensus pattern (14 bp):
TAACCCTTAACCCC
Found at i:19392180 original size:74 final size:75
Alignment explanation
Indices: 19392043--19392185 Score: 225
Period size: 74 Copynumber: 1.9 Consensus size: 75
19392033 AACCCTTAAC
* *
19392043 CCCTAACTACTAACCCATAAACCTTATTTAATAAATAAATTAAAAAACATTAATTAATCTAAACC
1 CCCTAACCACTAACCCATAAACATTATTTAAT-AATAAATTAAAAAACATTAATTAATCTAAACC
19392108 CTAACCCGAAT
65 CTAACCCGAAT
* * *
19392119 CCCTAACCCCTAACCCCTAAACATTATTTAAT-ATAAATTAAAACACATTAATTAATCTAAACCC
1 CCCTAACCACTAACCCATAAACATTATTTAATAATAAATTAAAAAACATTAATTAATCTAAACCC
19392183 TAA
66 TAA
19392186 ACCCTAACTT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 34 0.55
76 28 0.45
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (75 bp):
CCCTAACCACTAACCCATAAACATTATTTAATAATAAATTAAAAAACATTAATTAATCTAAACCC
TAACCCGAAT
Found at i:19392383 original size:14 final size:14
Alignment explanation
Indices: 19392364--19392397 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
19392354 CTAAATTAAT
19392364 CATATACCCTAAAC
1 CATATACCCTAAAC
19392378 CATATACCCTAAAC
1 CATATACCCTAAAC
19392392 CATATA
1 CATATA
19392398 TATTAAACCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (14 bp):
CATATACCCTAAAC
Found at i:19392687 original size:20 final size:19
Alignment explanation
Indices: 19392656--19392701 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
19392646 ATTAAATTTT
19392656 AATT-AATATAAATAAACA
1 AATTAAATATAAATAAACA
*
19392674 AATTAAATAGTAAATAGACA
1 AATTAAATA-TAAATAAACA
*
19392694 AATAAAAT
1 AATTAAAT
19392702 GTTTTTGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 16 0.67
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (19 bp):
AATTAAATATAAATAAACA
Found at i:19392796 original size:41 final size:41
Alignment explanation
Indices: 19392710--19392983 Score: 277
Period size: 41 Copynumber: 6.7 Consensus size: 41
19392700 ATGTTTTTGA
* * *
19392710 GGCGCTTTTTTAAAAACGCCGCTAAAG-CCAAAGCATTAGC
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGC
* ** * * *
19392750 GGCGCTTCCTGGAAAACGTCGCTAAAGCTCTGAGCATTAGC
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGC
* * *
19392791 GGCGCTTT-TGAAAAAACGCTGCTAGAG-CCTCAAGCATTAGC
1 GGCGCTTTCT-CAAAAACGCCGCTAAAGCCCT-AAGCATTAGC
* * * * ** *
19392832 GGCACTTTTTTAAAAAAGCCGCTAAAGCCCCGAGCATTAGT
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGC
* *
19392873 GGCGCTTTCTCAAAAACGCCGCTAAATCCCTAAGCATTAGT
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGC
* **
19392914 GGCGCATTT-TCAAAAACGCCGCGAAAGCCCCGAGCATTAGC
1 GGCGC-TTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGC
19392955 GGCGCTTTCTCAAAAACGCCGCTAAAGCC
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCC
19392984 TCGAAAGGTC
Statistics
Matches: 190, Mismatches: 37, Indels: 13
0.79 0.15 0.05
Matches are distributed among these distances:
40 28 0.15
41 156 0.82
42 6 0.03
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (41 bp):
GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGC
Found at i:19392855 original size:82 final size:81
Alignment explanation
Indices: 19392710--19392983 Score: 325
Period size: 82 Copynumber: 3.4 Consensus size: 81
19392700 ATGTTTTTGA
* * * ** ** *
19392710 GGCGCTTTTTTAAAAACGCCGCTAAAGCCAAAGCATTAGCGGCGCTTCCTGGAAAACGTCGCTAA
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCAAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
* *
19392775 AGCTCTGAGCATTAGC
66 AGCCCCGAGCATTAGC
* * * * * *
19392791 GGCGCTTT-TGAAAAAACGCTGCTAGAGCCTCAAGCATTAGCGGCACTTTTTTAAAAAAGCCGCT
1 GGCGCTTTCT-CAAAAACGCCGCTAAAGCC-CAAGCATTAGCGGCGCTTTTTCAAAAACGCCGCT
*
19392855 AAAGCCCCGAGCATTAGT
64 AAAGCCCCGAGCATTAGC
* * * *
19392873 GGCGCTTTCTCAAAAACGCCGCTAAATCCCTAAGCATTAGTGGCGCATTTTCAAAAACGCCGCGA
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCCC-AAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTA
19392938 AAGCCCCGAGCATTAGC
65 AAGCCCCGAGCATTAGC
19392955 GGCGCTTTCTCAAAAACGCCGCTAAAGCC
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCC
19392984 TCGAAAGGTC
Statistics
Matches: 163, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 25 0.15
82 136 0.83
83 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (81 bp):
GGCGCTTTCTCAAAAACGCCGCTAAAGCCCAAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
AGCCCCGAGCATTAGC
Found at i:19392932 original size:123 final size:123
Alignment explanation
Indices: 19392714--19392983 Score: 328
Period size: 123 Copynumber: 2.2 Consensus size: 123
19392704 TTTTGAGGCG
** *
19392714 CTTTTTTAAAAACGCCGCTAAAG-CCAAAGCATTAGCGGCGCTTCCTGGAAAACGTCGCTAAAGC
1 CTTTTTTAAAAACGCCGCTAAAGCCCAAAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGC
* * * * * *
19392778 TCTGAGCATTAGCGGCGCTTTTGAAAAAACGCTGCTAGAGCCTCAAGCATTAGCGGCA
66 CCTAAGCATTAGCGGCGCTTTTGAAAAAACGCCGCGAAAGCCCCAAGCATTAGCGGCA
* ** * * *
19392836 CTTTTTTAAAAAAGCCGCTAAAGCCCCGAGCATTAGTGGCGCTTTCTCAAAAACGCCGCTAAATC
1 CTTTTTTAAAAACGCCGCTAAAGCCCAAAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGC
* * * *
19392901 CCTAAGCATTAGTGGCGCATTTT-CAAAAACGCCGCGAAAGCCCCGAGCATTAGCGGCG
66 CCTAAGCATTAGCGGCGC-TTTTGAAAAAACGCCGCGAAAGCCCCAAGCATTAGCGGCA
* *
19392959 CTTTCTCAAAAACGCCGCTAAAGCC
1 CTTTTTTAAAAACGCCGCTAAAGCC
19392984 TCGAAAGGTC
Statistics
Matches: 124, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
122 22 0.18
123 98 0.79
124 4 0.03
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (123 bp):
CTTTTTTAAAAACGCCGCTAAAGCCCAAAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGC
CCTAAGCATTAGCGGCGCTTTTGAAAAAACGCCGCGAAAGCCCCAAGCATTAGCGGCA
Found at i:19393138 original size:12 final size:12
Alignment explanation
Indices: 19393121--19393146 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19393111 TTTTTTATCC
19393121 AAATGCCACTAA
1 AAATGCCACTAA
19393133 AAATGCCACTAA
1 AAATGCCACTAA
19393145 AA
1 AA
19393147 GCCTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.23, G:0.08, T:0.15
Consensus pattern (12 bp):
AAATGCCACTAA
Found at i:19398018 original size:16 final size:16
Alignment explanation
Indices: 19397997--19398031 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19397987 GAAAAAATAA
**
19397997 CCCCAAATCGTGAAAT
1 CCCCAAATCACGAAAT
19398013 CCCCAAATCACGAAAT
1 CCCCAAATCACGAAAT
19398029 CCC
1 CCC
19398032 TAAAAACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.40, G:0.09, T:0.14
Consensus pattern (16 bp):
CCCCAAATCACGAAAT
Found at i:19398125 original size:30 final size:30
Alignment explanation
Indices: 19398089--19398148 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
19398079 TCTACATCCT
19398089 TAATCCCTTATTCCCAAATCATGAAATCTC
1 TAATCCCTTATTCCCAAATCATGAAATCTC
* *
19398119 TAATCCCTTATTCTCAAATCGTGAAATCTC
1 TAATCCCTTATTCCCAAATCATGAAATCTC
19398149 ATAAACTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (30 bp):
TAATCCCTTATTCCCAAATCATGAAATCTC
Found at i:19406723 original size:3 final size:3
Alignment explanation
Indices: 19406715--19406767 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
19406705 TGTAGACTGC
19406715 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19406763 TAT TA
1 TAT TA
19406768 GTCAATTTCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:19418891 original size:27 final size:27
Alignment explanation
Indices: 19418860--19418919 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
19418850 TTGGACTATT
19418860 TTTA-TTGGACTTTTGATTTTAATTTTA
1 TTTATTTGG-CTTTTGATTTTAATTTTA
* *
19418887 TTTATTTGGCTTTTTATTTTTA-TTTA
1 TTTATTTGGCTTTTGATTTTAATTTTA
*
19418913 CTTATTT
1 TTTATTT
19418920 TTTTATATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 10 0.34
27 15 0.52
28 4 0.14
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.68
Consensus pattern (27 bp):
TTTATTTGGCTTTTGATTTTAATTTTA
Found at i:19419255 original size:50 final size:49
Alignment explanation
Indices: 19419186--19419411 Score: 173
Period size: 50 Copynumber: 4.5 Consensus size: 49
19419176 TGATGTCGGA
* * *
19419186 GAAGCAAGATTCGCCATTGTGGCTTTAATCTGTTCCACTGCACCGCCAGG
1 GAAGCAAGATTCACGA-TGTGGCTTTAATCTGTTCAACTGCACCGCCAGG
* * * * * * ** * *
19419236 GAAGTAAGATTCACTATTGTAGCTTTAATCTTTTTAACCGCAATGTCGGG
1 GAAGCAAGATTCACGA-TGTGGCTTTAATCTGTTCAACTGCACCGCCAGG
* * *
19419286 GAAGCGAGATTCACCGATGTGGCTTTAATCTGCTCTACTGCACCGCCAGG
1 GAAGCAAGATTCA-CGATGTGGCTTTAATCTGTTCAACTGCACCGCCAGG
* * * * * ** * *
19419336 GAAGTAGGATTCGCCGATGTGGCTTTAATCTTTTTAACTGCAATGTCGGG
1 GAAGCAAGATTC-ACGATGTGGCTTTAATCTGTTCAACTGCACCGCCAGG
*
19419386 GAAGCAAAATTCACCGATGTGGCTTT
1 GAAGCAAGATTCA-CGATGTGGCTTT
19419412 GACCTGCTCC
Statistics
Matches: 132, Mismatches: 41, Indels: 6
0.74 0.23 0.03
Matches are distributed among these distances:
50 130 0.98
51 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (49 bp):
GAAGCAAGATTCACGATGTGGCTTTAATCTGTTCAACTGCACCGCCAGG
Found at i:19419296 original size:100 final size:100
Alignment explanation
Indices: 19419178--19419445 Score: 355
Period size: 100 Copynumber: 2.7 Consensus size: 100
19419168 CTTAACTGTG
* * *
19419178 ATGTCGGAGAAGCAAGATTCGCC-ATTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTA
1 ATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTA
*
19419242 AGATTC-ACTATTGTAGCTTTAATCTTTTTAACCGCA
65 AGATTCGACGA-TGTAGCTTTAATCTTTTTAACCGCA
* * *
19419278 ATGTCGGGGAAGCGAGATTCACCGATGTGGCTTTAATCTGCTCTACTGCACCGCCAGGGAAGTAG
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAA
* * *
19419343 GATTCGCCGATGTGGCTTTAATCTTTTTAACTGCA
66 GATTCGACGATGTAGCTTTAATCTTTTTAACCGCA
* * * *
19419378 ATGTCGGGGAAGCAAAATTCACCGATGTGGCTTTGACCTGCTCCACTGTACCG-CAGGG-AGATA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGGAAG-TA
19419441 AGATT
65 AGATT
19419446 TCTGGTTTCA
Statistics
Matches: 148, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
98 2 0.01
99 11 0.07
100 132 0.89
101 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (100 bp):
ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAA
GATTCGACGATGTAGCTTTAATCTTTTTAACCGCA
Found at i:19420014 original size:44 final size:44
Alignment explanation
Indices: 19419946--19420045 Score: 173
Period size: 44 Copynumber: 2.3 Consensus size: 44
19419936 NNNNNNNNNN
* *
19419946 GGAGATAAGATTTCTGGCTTCAATCTGCTCTACTGTAACCTCAG
1 GGAGATAAGATTTCTGGCTCCAATCTGCTCCACTGTAACCTCAG
*
19419990 GGAGATAAGATTTCTGGCTCCAATCTGCTCCATTGTAACCTCAG
1 GGAGATAAGATTTCTGGCTCCAATCTGCTCCACTGTAACCTCAG
19420034 GGAGATAAGATT
1 GGAGATAAGATT
19420046 CACCATTTTC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (44 bp):
GGAGATAAGATTTCTGGCTCCAATCTGCTCCACTGTAACCTCAG
Found at i:19420370 original size:130 final size:130
Alignment explanation
Indices: 19420194--19420979 Score: 967
Period size: 130 Copynumber: 6.0 Consensus size: 130
19420184 TAGGATTATC
* * *
19420194 GGCTTCAATCTGTTTCCCTACTCCTGGGGAAGATAATATTCGCCGCTTAGATCTGCTTCCCCACT
1 GGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGCTTAGATCTGCTTCCCTACT
* * *
19420259 CCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCATGGAGATAGGACTAGT
66 CCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGACATAGGACTTGT
* *
19420324 GGCTTAAATCTGTTTCCCTAC-CCTTGGGGAAGATAAGATTCACCGCTTAGATCTGTTTCCCTAC
1 GGCTTAAATCTGTTTCCCTACTCC-TGGGGAAGATAAGATTCGCCGCTTAGATCTGCTTCCCTAC
19420388 TCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGACATAGGACTTG
65 TCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGACATAGGACTTG
19420453 T
130 T
** * * *
19420454 GGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTTACCGCTTAGATATGTTTCCCTAAT
1 GGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGCTTAGATCTGCTTCCCTACT
* *
19420519 CCTGGGGAAGATAAGATCCATAATCTTCAACCTATCCCACTACTGACCAGGGACATAGGACTTGT
66 CCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGACATAGGACTTGT
* * *
19420584 GGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTAC-TCCACTA
1 GGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCG-CTTAGATCTGCTTCC-CTA
* * * * * *
19420648 TTGCTTAGGG-AGATAAGATCTGTAAT-TTCCAACCTATTCCACTGCTGGCCAGGGACATAGGAC
64 CT-CCTGGGGAAGATAAGATCCGTAATCTT-CAACCTATCCCACTGCTGACCAGGGACATAGGAC
19420711 TTGT
127 TTGT
* * *
19420715 GGCTTAAATCTGTTTCCCTACTCCTGGGGAAGAAAAGATTCGCCGTCTTCGATCTAC-TCCACTA
1 GGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCG-CTTAGATCTGCTTCC-CTA
* * * * * * * *
19420779 TTGCCTAGGG-AGATAAGATCTGTAGT-TTCCCAACCTATTCCACTACTGGCCAGGGATATAGGA
64 CT-CCTGGGGAAGATAAGATCCGTAATCTT--CAACCTATCCCACTGCTGACCAGGGACATAGGA
19420842 CTTGT
126 CTTGT
* * *
19420847 GGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCATCTTCGATCTGCTTCACTAT
1 GGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCC-GCTTAGATCTGCTTCCCTA-
* * * ** * * * * *
19420912 TTCCTAGGG-AGACAAGATTTGTAGTTTCTCAACCTATTCCACTGCTGGCCAGGGATATAGGACT
64 CTCCTGGGGAAGATAAGATCCGTAATCT-TCAACCTATCCCACTGCTGACCAGGGACATAGGACT
19420976 TGT
128 TGT
19420979 G
1 G
19420980 ATTTGACCGA
Statistics
Matches: 603, Mismatches: 41, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
129 2 0.00
130 288 0.48
131 150 0.25
132 157 0.26
133 5 0.01
134 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (130 bp):
GGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGCTTAGATCTGCTTCCCTACT
CCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAGGGACATAGGACTTGT
Found at i:19422240 original size:7 final size:7
Alignment explanation
Indices: 19422221--19422269 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
19422211 TTAGCCTCTC
19422221 CATTTTT
1 CATTTTT
19422228 -ACTTTTT
1 CA-TTTTT
19422235 CATTTTTT
1 CA-TTTTT
19422243 CATTTTT
1 CATTTTT
19422250 CA-TTTT
1 CATTTTT
19422256 CATTTTT
1 CATTTTT
*
19422263 AATTTTT
1 CATTTTT
19422270 TTAACTCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
6 7 0.19
7 22 0.59
8 8 0.22
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:19422255 original size:13 final size:13
Alignment explanation
Indices: 19422239--19422268 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19422229 CTTTTTCATT
*
19422239 TTTTCATTTTTCA
1 TTTTCATTTTTAA
19422252 TTTTCATTTTTAA
1 TTTTCATTTTTAA
19422265 TTTT
1 TTTT
19422269 TTTAACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCATTTTTAA
Found at i:19423208 original size:6 final size:6
Alignment explanation
Indices: 19423199--19423224 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
19423189 GACCTTGACC
19423199 TTGATT TTGATT TTGATT TTGATT TT
1 TTGATT TTGATT TTGATT TTGATT TT
19423225 TCTTGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (6 bp):
TTGATT
Found at i:19423248 original size:7 final size:7
Alignment explanation
Indices: 19423236--19423265 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
19423226 CTTGTTTTTG
19423236 TTTATTT
1 TTTATTT
19423243 TTTATTT
1 TTTATTT
19423250 TTTATTT
1 TTTATTT
19423257 TTTATTT
1 TTTATTT
19423264 TT
1 TT
19423266 GGATCTGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTATTT
Found at i:19427474 original size:13 final size:12
Alignment explanation
Indices: 19427456--19427485 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
19427446 AAATTAACTA
19427456 ATATATTAATACT
1 ATATATTAAT-CT
19427469 ATATATTAATCT
1 ATATATTAATCT
19427481 ATATA
1 ATATA
19427486 AGTAGTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATATTAATCT
Found at i:19427511 original size:17 final size:17
Alignment explanation
Indices: 19427485--19427518 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19427475 TAATCTATAT
*
19427485 AAGTAGTATATAGAAAA
1 AAGTAATATATAGAAAA
*
19427502 AAGTAATATATATAAAA
1 AAGTAATATATAGAAAA
19427519 TGGAGAACTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (17 bp):
AAGTAATATATAGAAAA
Found at i:19427867 original size:15 final size:14
Alignment explanation
Indices: 19427843--19427882 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 14
19427833 AAAGAGGAAT
19427843 TTTAAAATAACTAA
1 TTTAAAATAACTAA
19427857 TTTAAAGATAACTAAA
1 TTTAAA-ATAACT-AA
19427873 TTTTAAAATA
1 -TTTAAAATA
19427883 TCATATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.26
15 6 0.26
16 5 0.22
17 6 0.26
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (14 bp):
TTTAAAATAACTAA
Found at i:19428905 original size:21 final size:23
Alignment explanation
Indices: 19428857--19428908 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
19428847 AAGGCAGTGG
**
19428857 GCGTGGCGTGTACGGAGGTGCGA
1 GCGTGGCACGTACGGAGGTGCGA
*
19428880 ACGTGGCACGTACGGA-G-GCGA
1 GCGTGGCACGTACGGAGGTGCGA
19428901 GCGTGGCA
1 GCGTGGCA
19428909 GTGTGTGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 11 0.44
22 1 0.04
23 13 0.52
ACGTcount: A:0.17, C:0.21, G:0.48, T:0.13
Consensus pattern (23 bp):
GCGTGGCACGTACGGAGGTGCGA
Found at i:19429115 original size:27 final size:27
Alignment explanation
Indices: 19429085--19429136 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
19429075 TTGGACTGTT
19429085 TTTATTAGACTTTTGATTTTAATTTTA
1 TTTATTAGACTTTTGATTTTAATTTTA
* * * *
19429112 TTTATTTGGCTTTTTATTTTTATTT
1 TTTATTAGACTTTTGATTTTAATTT
19429137 ACTTGTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.19, C:0.04, G:0.08, T:0.69
Consensus pattern (27 bp):
TTTATTAGACTTTTGATTTTAATTTTA
Found at i:19429147 original size:22 final size:22
Alignment explanation
Indices: 19429101--19429150 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
19429091 AGACTTTTGA
* *
19429101 TTTTAATTTTATTTATTTGGCT
1 TTTTATTTTTATTTACTTGGCT
**
19429123 TTTTATTTTTATTTACTTGTTT
1 TTTTATTTTTATTTACTTGGCT
19429145 TTTTAT
1 TTTTAT
19429151 ATGCATGTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.74
Consensus pattern (22 bp):
TTTTATTTTTATTTACTTGGCT
Found at i:19429408 original size:21 final size:22
Alignment explanation
Indices: 19429358--19429409 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
19429348 TAGTAAATAC
* *
19429358 ATCAAAAATTAAACTTACCATT
1 ATCAATAATTAAACTTAACATT
**
19429380 A-CCTTAATTAAACTTAAC-TT
1 ATCAATAATTAAACTTAACATT
19429400 ATCAATAATT
1 ATCAATAATT
19429410 TAAATATAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
20 3 0.13
21 19 0.83
22 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (22 bp):
ATCAATAATTAAACTTAACATT
Found at i:19429590 original size:23 final size:23
Alignment explanation
Indices: 19429564--19429654 Score: 119
Period size: 23 Copynumber: 4.0 Consensus size: 23
19429554 CATCACTAAT
*
19429564 TTGCACCAAAGTGCCACTGTCAA
1 TTGCACCAAAGTGCCACTTTCAA
*
19429587 TTGCACCAGAGTGCCACTTTCAA
1 TTGCACCAAAGTGCCACTTTCAA
* * **
19429610 TTGCATCGAAGTGTTACTTTCAA
1 TTGCACCAAAGTGCCACTTTCAA
*
19429633 TTGCACCGAAGTGCCACTTTCA
1 TTGCACCAAAGTGCCACTTTCA
19429655 GTTTGCGCTT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (23 bp):
TTGCACCAAAGTGCCACTTTCAA
Found at i:19432566 original size:11 final size:11
Alignment explanation
Indices: 19432544--19432600 Score: 60
Period size: 11 Copynumber: 4.8 Consensus size: 11
19432534 ATTTGCTTTA
19432544 ATTAATTAAAAT
1 ATTAA-TAAAAT
19432556 ATTAATAAAATAT
1 ATTAAT-AAA-AT
19432569 ATTTAATAAAAT
1 A-TTAATAAAAT
*
19432581 ATTATTAAAAT
1 ATTAATAAAAT
*
19432592 ATTATTAAA
1 ATTAATAAA
19432601 TAATTTTATC
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
11 19 0.46
12 11 0.27
13 6 0.15
14 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATTAATAAAAT
Found at i:19432576 original size:14 final size:13
Alignment explanation
Indices: 19432544--19432588 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
19432534 ATTTGCTTTA
*
19432544 ATTAATTAAA-AT
1 ATTAATAAAATAT
19432556 ATTAATAAAATAT
1 ATTAATAAAATAT
19432569 ATTTAATAAAATATT
1 A-TTAATAAAATA-T
19432584 ATTAA
1 ATTAA
19432589 AATATTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 9 0.31
13 3 0.10
14 15 0.52
15 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTAATAAAATAT
Found at i:19432580 original size:25 final size:26
Alignment explanation
Indices: 19432545--19432603 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
19432535 TTTGCTTTAA
19432545 TTAATTAAAATATTAATAAAATA-TAT
1 TTAA-TAAAATATTAATAAAATATTAT
*
19432571 TTAATAAAATATTATTAAAATATTAT
1 TTAATAAAATATTAATAAAATATTAT
*
19432597 TAAATAA
1 TTAATAA
19432604 TTTTATCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
TTAATAAAATATTAATAAAATATTAT
Found at i:19433969 original size:29 final size:29
Alignment explanation
Indices: 19433925--19433983 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
19433915 GTTTTCATAG
* * *
19433925 TTTTAGATTAGGTTTTCTTTTTGTTTTTT
1 TTTTAGAATAGATTTTCTTTTTGTTGTTT
19433954 TTTTAGAATAGATTTTCTTTTTGTTGTTT
1 TTTTAGAATAGATTTTCTTTTTGTTGTTT
19433983 T
1 T
19433984 CTTTCTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.14, C:0.03, G:0.14, T:0.69
Consensus pattern (29 bp):
TTTTAGAATAGATTTTCTTTTTGTTGTTT
Found at i:19439319 original size:50 final size:52
Alignment explanation
Indices: 19439193--19439324 Score: 141
Period size: 50 Copynumber: 2.6 Consensus size: 52
19439183 ATGAACAAAT
* *
19439193 GAGTTACTTAATGCA-AGACTTAATTTAATGATGCAGACTTAAACTAACATTG
1 GAGTTACATAATGCATA-ACTTTATTTAATGATGCAGACTTAAACTAACATTG
* *
19439245 GAGTTACATAATGCATGTAA--TTATTT-ATGATGCATACTT-AACTAGCA-TG
1 GAGTTACATAATGCA--TAACTTTATTTAATGATGCAGACTTAAACTAACATTG
*
19439294 GAAGTTACATAATGCATAACTTTATTAAATG
1 G-AGTTACATAATGCATAACTTTATTTAATG
19439325 TAGAACACAC
Statistics
Matches: 68, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
48 3 0.04
49 3 0.04
50 26 0.38
51 15 0.22
52 19 0.28
54 1 0.01
55 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (52 bp):
GAGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATTG
Found at i:19442845 original size:17 final size:15
Alignment explanation
Indices: 19442823--19442866 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
19442813 GGGTGTTTTG
19442823 ATAAATTAAAATAGTT
1 ATAAATTAAAATA-TT
19442839 AATAAATTAATAATATT
1 -ATAAATTAA-AATATT
*
19442856 ATAAGTTAAAA
1 ATAAATTAAAA
19442867 ACATAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 8 0.32
17 11 0.44
18 4 0.16
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (15 bp):
ATAAATTAAAATATT
Found at i:19443922 original size:20 final size:20
Alignment explanation
Indices: 19443819--19443970 Score: 96
Period size: 20 Copynumber: 7.6 Consensus size: 20
19443809 TGCTTTCGTA
* *
19443819 CTCCTGTTAGCATTACGGTG
1 CTCCTGTTAGCACTACGATG
*
19443839 CTCCTTTTAGCACTAC-ACTG
1 CTCCTGTTAGCACTACGA-TG
* *
19443859 CTCTTGATAGCAC-ACTCG-TG
1 CTCCTGTTAGCACTA--CGATG
* * * * * *
19443879 CTACTGTTGGAACTATGGTT
1 CTCCTGTTAGCACTACGATG
*
19443899 CTCCTGTTACCACTACGATG
1 CTCCTGTTAGCACTACGATG
**
19443919 CTCCTACTAGCACTAC-AGTG
1 CTCCTGTTAGCACTACGA-TG
*
19443939 CTCCTGTTAGCACTACGGTG
1 CTCCTGTTAGCACTACGATG
*
19443959 CTCCTGATAGCA
1 CTCCTGTTAGCA
19443971 TATTTATGCT
Statistics
Matches: 97, Mismatches: 27, Indels: 16
0.69 0.19 0.11
Matches are distributed among these distances:
19 3 0.03
20 92 0.95
21 2 0.02
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.32
Consensus pattern (20 bp):
CTCCTGTTAGCACTACGATG
Found at i:19443970 original size:40 final size:40
Alignment explanation
Indices: 19443819--19443970 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 40
19443809 TGCTTTCGTA
* ** *
19443819 CTCCTGTTAGCATTACGGTGCTCCTTTTAGCACTACACTG
1 CTCCTGTTAGCACTACGGTGCTCCTGATAGCACTACAGTG
* * * * * * * ** *
19443859 CTCTTGATAGCAC-ACTCGTGCTACTGTTGGAACTATGGTT
1 CTCCTGTTAGCACTAC-GGTGCTCCTGATAGCACTACAGTG
* *
19443899 CTCCTGTTACCACTACGATGCTCCT-ACTAGCACTACAGTG
1 CTCCTGTTAGCACTACGGTGCTCCTGA-TAGCACTACAGTG
19443939 CTCCTGTTAGCACTACGGTGCTCCTGATAGCA
1 CTCCTGTTAGCACTACGGTGCTCCTGATAGCA
19443971 TATTTATGCT
Statistics
Matches: 82, Mismatches: 26, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
39 2 0.02
40 77 0.94
41 3 0.04
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.32
Consensus pattern (40 bp):
CTCCTGTTAGCACTACGGTGCTCCTGATAGCACTACAGTG
Found at i:19444069 original size:20 final size:19
Alignment explanation
Indices: 19444006--19444070 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
19443996 ATACCCTGAC
19444006 TGCACATTT-GTGCCA-GTTA
1 TGCAC-TTTGGTGCCATG-TA
* * *
19444025 TGCACTCTGGTGCCCTGTT
1 TGCACTTTGGTGCCATGTA
19444044 TGCACTTTGGTGCTCATGTA
1 TGCACTTTGGTGC-CATGTA
19444064 TGCACTT
1 TGCACTT
19444071 CCATGCCTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 2 0.05
19 23 0.62
20 12 0.32
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (19 bp):
TGCACTTTGGTGCCATGTA
Found at i:19444395 original size:20 final size:20
Alignment explanation
Indices: 19444245--19444396 Score: 92
Period size: 20 Copynumber: 7.6 Consensus size: 20
19444235 TGCTTTCATA
* *
19444245 CTCCTGTTAGCATTACGGTG
1 CTCCTGATAGCACTACGGTG
* * *
19444265 CACCTGTTAGCACTACAGTG
1 CTCCTGATAGCACTACGGTG
* **
19444285 CTCTTGATAGCAC-ACTCATG
1 CTCCTGATAGCACTAC-GGTG
* * * * * *
19444305 CTACTGTTGGAACTATGGTT
1 CTCCTGATAGCACTACGGTG
* *
19444325 CTCCTGTTACCACTACGGTG
1 CTCCTGATAGCACTACGGTG
* *
19444345 CTCCT-ACTAGCACTTCAGTG
1 CTCCTGA-TAGCACTACGGTG
*
19444365 CTCCTGTTAGCACTACGGTG
1 CTCCTGATAGCACTACGGTG
*
19444385 CTCTTGATAGCA
1 CTCCTGATAGCA
19444397 TATTTATACT
Statistics
Matches: 96, Mismatches: 32, Indels: 8
0.71 0.24 0.06
Matches are distributed among these distances:
19 2 0.02
20 93 0.97
21 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (20 bp):
CTCCTGATAGCACTACGGTG
Found at i:19447857 original size:21 final size:21
Alignment explanation
Indices: 19447833--19447873 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19447823 CCATTTTAGG
*
19447833 ATTTTAAATTAGTTCTATTTT
1 ATTTTAAAATAGTTCTATTTT
*
19447854 ATTTTAAAATAGTTTTATTT
1 ATTTTAAAATAGTTCTATTT
19447874 CTTGTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
ATTTTAAAATAGTTCTATTTT
Found at i:19455830 original size:15 final size:15
Alignment explanation
Indices: 19455791--19455842 Score: 77
Period size: 15 Copynumber: 3.3 Consensus size: 15
19455781 AATCTCAGAT
19455791 TTTGATACCCATATC
1 TTTGATACCCATATC
*
19455806 TTTCTGATACCTATATC
1 -TT-TGATACCCATATC
19455823 TTTGATACCCATATC
1 TTTGATACCCATATC
19455838 TTTGA
1 TTTGA
19455843 CTTTATCAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
15 17 0.52
16 4 0.12
17 12 0.36
ACGTcount: A:0.25, C:0.23, G:0.08, T:0.44
Consensus pattern (15 bp):
TTTGATACCCATATC
Found at i:19459162 original size:17 final size:17
Alignment explanation
Indices: 19459140--19459189 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
19459130 TCTCAGATTT
19459140 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
19459157 TGATACCTATATCTTTC
1 TGATACCCATATCTTTC
19459174 TGATACCCATATCTTT
1 TGATACCCATATCTTT
19459190 GACTTTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:19462374 original size:6 final size:6
Alignment explanation
Indices: 19462363--19462413 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
19462353 TCTTAGGAAA
* *
19462363 TTTATG TTTATG TTTATG TTTAGG TTTACTG -TTAT- TTTAGTT TTTATG
1 TTTATG TTTATG TTTATG TTTATG TTTA-TG TTTATG TTTA-TG TTTATG
19462411 TTT
1 TTT
19462414 TATTTTTCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 4 0.11
6 29 0.76
7 5 0.13
ACGTcount: A:0.16, C:0.02, G:0.16, T:0.67
Consensus pattern (6 bp):
TTTATG
Found at i:19462389 original size:18 final size:17
Alignment explanation
Indices: 19462363--19462419 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
19462353 TCTTAGGAAA
*
19462363 TTTATGTTTATGTTTAT
1 TTTAGGTTTATGTTTAT
19462380 GTTTAGGTTTACTG-TTAT
1 -TTTAGGTTTA-TGTTTAT
*
19462398 TTTAGTTTTTATGTTTTAT
1 TTTAG-GTTTATG-TTTAT
19462417 TTT
1 TTT
19462420 TCTTGTCGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
17 7 0.21
18 17 0.52
19 9 0.27
ACGTcount: A:0.16, C:0.02, G:0.14, T:0.68
Consensus pattern (17 bp):
TTTAGGTTTATGTTTAT
Found at i:19466811 original size:50 final size:50
Alignment explanation
Indices: 19466686--19466879 Score: 190
Period size: 50 Copynumber: 3.8 Consensus size: 50
19466676 ATTTGGGTAA
* *
19466686 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
19466742 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * * * *
19466792 TGAGGTCCCTTGTAAGACCATGTCCGGGACATGGAATGGGTACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
19466842 AGAACTCCCATGTAAGACCATATCTGGGATATGACATT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATT
19466880 TGTAGTACAA
Statistics
Matches: 115, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 72 0.63
53 3 0.03
55 1 0.01
56 39 0.34
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:19470399 original size:51 final size:50
Alignment explanation
Indices: 19470272--19470454 Score: 154
Period size: 51 Copynumber: 3.6 Consensus size: 50
19470262 AAAGTGATGG
** *
19470272 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGGTAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACACGTACCGGAATGGTAGA
* * ** * * *
19470322 TCTCATGTGTAGTACTATGTATAGGCTACTATACGTACCGG-ATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACACGTACCGGAAT-G-GTAGA
** ** * *
19470373 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-TTGAATAGTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACACGTACCGGAATGGT-A-GA
* *
19470424 TCACATGTGTAGTACTATGTGCAGCCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
19470455 TGTGAACCGA
Statistics
Matches: 103, Mismatches: 25, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
49 3 0.03
50 36 0.35
51 64 0.62
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACACGTACCGGAATGGTAGA
Found at i:19470516 original size:45 final size:45
Alignment explanation
Indices: 19470460--19470554 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
19470450 TACTATGTGA
* *
19470460 ACCGAACATCATTGATTAGTAAAGTGGTTGTTATATGCTGAATCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATATGCTGAATCC
* * *
19470505 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATATGCTGAATCC
19470550 ACCGA
1 ACCGA
19470555 GTATCTATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAAGTGGTTGCTATATGCTGAATCC
Found at i:19496665 original size:50 final size:50
Alignment explanation
Indices: 19496584--19496768 Score: 171
Period size: 50 Copynumber: 3.7 Consensus size: 50
19496574 GGTAAAGAGA
* * **
19496584 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * *
19496634 TCCCCCGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * * * * * * *
19496684 TCCCATGCAAGACCATATCTGGGATATGGCATTTGTA--GTACAAGA-AAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAAC
* *
19496732 ATCTCATGTAAGACCATGTCTGGGACATGGC-TTGGCA
1 -TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
19496769 TGTTATTATC
Statistics
Matches: 110, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
48 8 0.07
49 30 0.27
50 72 0.65
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
Found at i:19497685 original size:11 final size:11
Alignment explanation
Indices: 19497669--19497713 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
19497659 GTTATAACAC
19497669 CATATGAAAAT
1 CATATGAAAAT
19497680 CATATGAAAAT
1 CATATGAAAAT
* *
19497691 --TAT-AACAC
1 CATATGAAAAT
19497699 CATATGAAAAT
1 CATATGAAAAT
19497710 CATA
1 CATA
19497714 CAATGAGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
8 3 0.11
9 3 0.11
10 3 0.11
11 18 0.67
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (11 bp):
CATATGAAAAT
Found at i:19501640 original size:22 final size:24
Alignment explanation
Indices: 19501588--19501645 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 24
19501578 TTTGAAATGT
*
19501588 TTAGAAACTAAATAATTGAAACAA
1 TTAGAAACTAAATAATTGAAAAAA
* *
19501612 -CATAAA-TAAATAATT-AAAAAA
1 TTAGAAACTAAATAATTGAAAAAA
*
19501633 TTAGAAATTAAAT
1 TTAGAAACTAAAT
19501646 TAGAAATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
21 5 0.19
22 13 0.48
23 9 0.33
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (24 bp):
TTAGAAACTAAATAATTGAAAAAA
Found at i:19501645 original size:12 final size:12
Alignment explanation
Indices: 19501630--19501658 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
19501620 AATAATTAAA
19501630 AAATTAGAAATT
1 AAATTAGAAATT
19501642 AAATTAGAAATT
1 AAATTAGAAATT
19501654 AAATT
1 AAATT
19501659 CGGATTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (12 bp):
AAATTAGAAATT
Done.