Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 50 of 325
Found at i:18381797 original size:28 final size:27
Alignment explanation
Indices: 18381724--18381799 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 27
18381714 GATGTTGATG
*
18381724 ATATT-TTATAATTATTTAATTGAGATAA
1 ATATTATTTTAATTATTTAA-TGAGAT-A
18381752 ATATTATTTTAATT-TTTAATGAGAT-
1 ATATTATTTTAATTATTTAATGAGATA
*
18381777 ATTTTATTATTAATTTATTTAAT
1 ATATTATT-TTAA-TTATTTAAT
18381800 ATATAAGGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
25 7 0.17
26 4 0.10
27 8 0.19
28 16 0.38
29 7 0.17
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (27 bp):
ATATTATTTTAATTATTTAATGAGATA
Found at i:18383526 original size:40 final size:40
Alignment explanation
Indices: 18383441--18383551 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 40
18383431 CTCGAGAATA
* *
18383441 TAAAGTGAATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGAATAGGATTTGTTCCTGATTCACTATAATAACT
* * * ** *
18383481 CAAAGTGGATAAGATTTGTTCCTGATTCACTATGGTAATT
1 TAAAGTGAATAGGATTTGTTCCTGATTCACTATAATAACT
* *
18383521 TAAAGTGAATAGGATTTATTCCTAATTCACT
1 TAAAGTGAATAGGATTTGTTCCTGATTCACT
18383552 GCGGTAACTT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.37
Consensus pattern (40 bp):
TAAAGTGAATAGGATTTGTTCCTGATTCACTATAATAACT
Found at i:18383558 original size:40 final size:40
Alignment explanation
Indices: 18383441--18383578 Score: 114
Period size: 40 Copynumber: 3.5 Consensus size: 40
18383431 CTCGAGAATA
* ** * *** *
18383441 TAAAGTGAATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTATTCCTAATTCACTACGGTAACT
* * * * * *
18383481 CAAAGTGGATAAGATTTGTTCCTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTATTCCTAATTCACTACGGTAACT
* *
18383521 TAAAGTGAATAGGATTTATTCCTAATTCACTGCGGTAACT
1 TAAAGTGGATAGGATTTATTCCTAATTCACTACGGTAACT
* *
18383561 TAAGGCGGATAGGATTTA
1 TAAAGTGGATAGGATTTA
18383579 ACCTGAAAAG
Statistics
Matches: 79, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.35
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTATTCCTAATTCACTACGGTAACT
Found at i:18383644 original size:79 final size:79
Alignment explanation
Indices: 18383556--18383774 Score: 287
Period size: 79 Copynumber: 2.8 Consensus size: 79
18383546 TTCACTGCGG
* * * * *
18383556 TAACTTAAGGCGGATAGGATTTAACCTGAAAAGGGTAATCCTGATTCGCTACGGTTACATGATAT
1 TAACCTAAGGTGGATAGGATTTGACCTGAAAAAGGTAATCCTGATTCGCTACGGTTACATGATAC
*
18383621 ATGATTCATTATGG
66 ATGATTCATTATGA
* *
18383635 TAGCCTAAGGTGGATAGGATTTGACCTGAAAAAGGTAATCCTGATTCGCTACGGTTACACGATAC
1 TAACCTAAGGTGGATAGGATTTGACCTGAAAAAGGTAATCCTGATTCGCTACGGTTACATGATAC
*
18383700 ATGATTCCTTATGA
66 ATGATTCATTATGA
* * * * * * *
18383714 TAACTTAAGATGGGTAGGATTTGACCT-AAAAAGGAAATCCTGATTCACTACAGCTACATGA
1 TAACCTAAGGTGGATAGGATTTGACCTGAAAAAGGTAATCCTGATTCGCTACGGTTACATGA
18383775 GATGTGACTC
Statistics
Matches: 122, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
78 29 0.24
79 93 0.76
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (79 bp):
TAACCTAAGGTGGATAGGATTTGACCTGAAAAAGGTAATCCTGATTCGCTACGGTTACATGATAC
ATGATTCATTATGA
Found at i:18384326 original size:57 final size:54
Alignment explanation
Indices: 18384143--18384327 Score: 142
Period size: 57 Copynumber: 3.3 Consensus size: 54
18384133 GTAAACGAAT
* * *
18384143 TTGAAATG-CATTGAAGTGAATTGTGTGTAATTGGTATAATCTTATTGG-TTGATAAG
1 TTGATATGTCATTGAAATGAATTATGT-TAATTGGTATAATCTTA-TGGATTGAT--G
* * * *
18384199 TTGATATGTCATTGAAATGAATTATGTTCAAATGGTATAACCTTATAGATTGATAA
1 TTGATATGTCATTGAAATGAATTATGTT-AATTGGTATAATCTTATGGATTGAT-G
* * **
18384255 TGGGATATTTCATTGAAATGTGTTAAT-TATAATTGGTATAATCTTATGGATTGATG
1 T-TGATATGTCATTGAAATGAATT-ATGT-TAATTGGTATAATCTTATGGATTGATG
*
18384311 TTAGAATATGACATTGA
1 TT-G-ATATGTCATTGA
18384328 GGTAAGCTAT
Statistics
Matches: 103, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
56 14 0.14
57 86 0.83
58 3 0.03
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.41
Consensus pattern (54 bp):
TTGATATGTCATTGAAATGAATTATGTTAATTGGTATAATCTTATGGATTGATG
Found at i:18388699 original size:2 final size:2
Alignment explanation
Indices: 18388694--18388720 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18388684 AAATATATAT
18388694 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
18388721 AAACACCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18408148 original size:12 final size:12
Alignment explanation
Indices: 18408131--18408156 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18408121 TTTAAACTTC
18408131 AATAAATATTCA
1 AATAAATATTCA
18408143 AATAAATATTCA
1 AATAAATATTCA
18408155 AA
1 AA
18408157 CTTTAATTAA
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AATAAATATTCA
Found at i:18409914 original size:14 final size:14
Alignment explanation
Indices: 18409875--18409903 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18409865 TAGCTAAAAC
18409875 TACCACTTATCACT
1 TACCACTTATCACT
18409889 TACCACTTATCACT
1 TACCACTTATCACT
18409903 T
1 T
18409904 GTCACTGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (14 bp):
TACCACTTATCACT
Found at i:18409950 original size:37 final size:37
Alignment explanation
Indices: 18409899--18409983 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
18409889 TACCACTTAT
*
18409899 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTGATCAGATAAGTGTAGCTAAAGCTAC
*
18409936 CACTTATCATTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTGATCAGATAAGTGTAGCTAAAGCTAC
18409973 CACTTATCACT
1 CACTTATCACT
18409984 TGTCACTGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.29
Consensus pattern (37 bp):
CACTTATCACTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:18427870 original size:23 final size:25
Alignment explanation
Indices: 18427823--18427871 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
18427813 AATTACATGT
*
18427823 ATTATAAAATAACTACAAATTTATTA
1 ATTATAAAATAAC-ACAAATATATTA
18427849 ATTATAAAA-AA-ACAAATATATTA
1 ATTATAAAATAACACAAATATATTA
18427872 TAAGTTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 11 0.50
25 2 0.09
26 9 0.41
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (25 bp):
ATTATAAAATAACACAAATATATTA
Found at i:18434913 original size:29 final size:29
Alignment explanation
Indices: 18434871--18434930 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
18434861 TTGACTGTAT
*
18434871 TGCAGTTTATTGTTCATAAACCCTTTAAA
1 TGCAGTTTATTGTTCATAAACCCTTCAAA
18434900 TGCAGTTTATTGTTCATAAACCCTTCAAA
1 TGCAGTTTATTGTTCATAAACCCTTCAAA
18434929 TG
1 TG
18434931 ATGAAAATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (29 bp):
TGCAGTTTATTGTTCATAAACCCTTCAAA
Found at i:18438736 original size:28 final size:28
Alignment explanation
Indices: 18438702--18438762 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
18438692 AATGTTTATC
18438702 TTCTTTTCTTAATTGTTCCTTAAATTTA
1 TTCTTTTCTTAATTGTTCCTTAAATTTA
18438730 TTCTTTTCTTAATTGTTCCTTAAATTTA
1 TTCTTTTCTTAATTGTTCCTTAAATTTA
18438758 TTCTT
1 TTCTT
18438763 AAATATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.20, C:0.15, G:0.03, T:0.62
Consensus pattern (28 bp):
TTCTTTTCTTAATTGTTCCTTAAATTTA
Found at i:18445913 original size:20 final size:20
Alignment explanation
Indices: 18445888--18445925 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18445878 TTAAACCGTC
*
18445888 GTTTATTATTTTATTATTCG
1 GTTTATCATTTTATTATTCG
18445908 GTTTATCATTTTATTATT
1 GTTTATCATTTTATTATT
18445926 ATTTGTGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (20 bp):
GTTTATCATTTTATTATTCG
Found at i:18446440 original size:42 final size:42
Alignment explanation
Indices: 18446394--18446481 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
18446384 GCGACAGCCT
**
18446394 TGATGACGATCAACTCCAAGGCAGCGACAGCCATAATGACGA
1 TGATGACGATCAACTCCAAAACAGCGACAGCCATAATGACGA
* * * * *
18446436 TGATGACGATCTACTCCAAAACAGCGACTGGCATGATGACGG
1 TGATGACGATCAACTCCAAAACAGCGACAGCCATAATGACGA
18446478 TGAT
1 TGAT
18446482 CATGATTGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (42 bp):
TGATGACGATCAACTCCAAAACAGCGACAGCCATAATGACGA
Found at i:18450956 original size:19 final size:21
Alignment explanation
Indices: 18450912--18450958 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
18450902 ATTGAGTGGT
18450912 TAATTAGACTTTAATTAAGTA
1 TAATTAGACTTTAATTAAGTA
*
18450933 AAATTAG-C-TTAATTAAG-A
1 TAATTAGACTTTAATTAAGTA
18450951 GTAATTAG
1 -TAATTAG
18450959 TGGAAAGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 1 0.04
21 6 0.26
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (21 bp):
TAATTAGACTTTAATTAAGTA
Found at i:18451139 original size:21 final size:22
Alignment explanation
Indices: 18451115--18451155 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
18451105 TTTAATTATT
*
18451115 ATATTGTAAT-TTATATTAATG
1 ATATTATAATATTATATTAATG
*
18451136 ATATTATAATATTATTTTAA
1 ATATTATAATATTATATTAA
18451156 CAATTGTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (22 bp):
ATATTATAATATTATATTAATG
Found at i:18451211 original size:24 final size:23
Alignment explanation
Indices: 18451183--18451230 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
18451173 TAAATACATG
*
18451183 TGTAATA-AATTAAATACATATACT
1 TGTAATACAACTAAATA-AT-TACT
18451207 TGTAATACAACTAAATAATTACT
1 TGTAATACAACTAAATAATTACT
18451230 T
1 T
18451231 AAAATATAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 5 0.23
24 9 0.41
25 8 0.36
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (23 bp):
TGTAATACAACTAAATAATTACT
Found at i:18451272 original size:5 final size:5
Alignment explanation
Indices: 18451248--18451303 Score: 67
Period size: 5 Copynumber: 10.6 Consensus size: 5
18451238 AAGAAATTGT
* *
18451248 TATTA TATGA TATTA TTATTA TATTA TAGTA TATTA TATTATA TATTA
1 TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TA-T-TA TATTA
18451296 TATTA TAT
1 TATTA TAT
18451304 AAATAAGTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 33 0.75
6 7 0.16
7 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:18451294 original size:12 final size:12
Alignment explanation
Indices: 18451251--18451304 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
18451241 AAATTGTTAT
*
18451251 TATATGATATTA
1 TATATTATATTA
18451263 T-TATTATATTATA
1 TATATTATA-T-TA
18451276 GTATATTATATTA
1 -TATATTATATTA
18451289 TATATTATATTA
1 TATATTATATTA
18451301 TATA
1 TATA
18451305 AATAAGTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 6 0.16
12 18 0.49
13 4 0.11
14 2 0.05
15 7 0.19
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (12 bp):
TATATTATATTA
Found at i:18451369 original size:13 final size:13
Alignment explanation
Indices: 18451351--18451376 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18451341 AACGAAACAG
18451351 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
18451364 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
18451377 GGGAGAAAAG
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:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGAAA
Found at i:18452648 original size:18 final size:19
Alignment explanation
Indices: 18452627--18452665 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
18452617 ATATATATAT
18452627 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
18452645 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
18452664 AT
1 AT
18452666 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:18452652 original size:2 final size:2
Alignment explanation
Indices: 18452602--18452634 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
18452592 TGAATTGGCG
*
18452602 TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18452635 TGAATATTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:18452999 original size:39 final size:39
Alignment explanation
Indices: 18452889--18453023 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 39
18452879 GACCTCGAGT
* * * *
18452889 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
* ** ** * *
18452930 CAATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
18452968 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
18453007 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
18453024 CTATATTGGT
Statistics
Matches: 71, Mismatches: 21, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
38 17 0.24
39 35 0.49
40 4 0.06
41 15 0.21
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:18453178 original size:13 final size:13
Alignment explanation
Indices: 18453138--18453184 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
18453128 GCTATTGGAA
18453138 TGAAA-TGAGAAAT
1 TGAAATTGAG-AAT
18453151 TG-AATTGAGAAT
1 TGAAATTGAGAAT
*
18453163 TGAAATTGAGATT
1 TGAAATTGAGAAT
*
18453176 TGAGATTGA
1 TGAAATTGA
18453185 AAACATGAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 7 0.23
13 23 0.77
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.32
Consensus pattern (13 bp):
TGAAATTGAGAAT
Found at i:18456755 original size:24 final size:24
Alignment explanation
Indices: 18456728--18456811 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 24
18456718 CATATTTAAC
18456728 TGTTATATGTTCCTGACTAGAACA
1 TGTTATATGTTCCTGACTAGAACA
* ** *
18456752 TGTTATAATATTTTTTGCACATATTTAAC-
1 TGTTAT-AT-GTTCCTG-AC-TA--GAACA
18456781 TGTTATATGTTCCTGACTAGAACA
1 TGTTATATGTTCCTGACTAGAACA
18456805 TGTTATA
1 TGTTATA
18456812 ATATTTTTCG
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
23 3 0.07
24 13 0.29
25 4 0.09
26 6 0.13
27 6 0.13
28 4 0.09
29 6 0.13
30 3 0.07
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (24 bp):
TGTTATATGTTCCTGACTAGAACA
Found at i:18456776 original size:53 final size:53
Alignment explanation
Indices: 18456714--18456819 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
18456704 TATTTACTAA
18456714 TGCACATATTTAACTGTTATATGTTCCTGACTAGAACATGTTATAATATTTTT
1 TGCACATATTTAACTGTTATATGTTCCTGACTAGAACATGTTATAATATTTTT
18456767 TGCACATATTTAACTGTTATATGTTCCTGACTAGAACATGTTATAATATTTTT
1 TGCACATATTTAACTGTTATATGTTCCTGACTAGAACATGTTATAATATTTTT
18456820 CGAAATCATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.45
Consensus pattern (53 bp):
TGCACATATTTAACTGTTATATGTTCCTGACTAGAACATGTTATAATATTTTT
Found at i:18457861 original size:3 final size:3
Alignment explanation
Indices: 18457855--18458051 Score: 134
Period size: 3 Copynumber: 65.7 Consensus size: 3
18457845 AATGAAAACG
* * * *
18457855 ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA GTG GTA A-A A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
18457901 ATA ATA CTA ATG ATA ATA ATA AGA ATA TTA ATA ATA GTA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
18457949 ATG ATA ATA GTA ATA GAAA ATA AAA ATA AAA ATA AT- ATA GTA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
18457994 GTA ATA ATA ATG GTA ATA ATAA ATA AGT- ATA ATA ACA ATA ATA CA-A
1 ATA ATA ATA ATA ATA ATA AT-A ATA A-TA ATA ATA ATA ATA ATA -ATA
18458040 ATA ATAA ATA AT
1 ATA AT-A ATA AT
18458052 CTAAAGTTTG
Statistics
Matches: 148, Mismatches: 37, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
2 8 0.05
3 130 0.88
4 10 0.07
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:18458238 original size:14 final size:14
Alignment explanation
Indices: 18458213--18458248 Score: 63
Period size: 14 Copynumber: 2.5 Consensus size: 14
18458203 GAAAGAAAAT
18458213 ATAATAATAATAGTA
1 ATAAT-ATAATAGTA
18458228 ATAATATAATAGTA
1 ATAATATAATAGTA
18458242 ATAATAT
1 ATAATAT
18458249 TAAGAAGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (14 bp):
ATAATATAATAGTA
Found at i:18458360 original size:3 final size:3
Alignment explanation
Indices: 18458213--18458345 Score: 67
Period size: 3 Copynumber: 44.3 Consensus size: 3
18458203 GAAAGAAAAT
* * * * *
18458213 ATA ATA ATA ATA GTA ATA AT- ATA ATA GTA ATA ATA TTA AGA AGGGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA
* * * * *
18458259 ATA ATA AT- ATA TTA GATA GTAA ATA TTA ATA ATA ATA ATA ACA GTA
1 ATA ATA ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
18458305 ATA A-A A-A ATG ATA ATA GTG ATA TTA GTA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18458346 CAATGTATTA
Statistics
Matches: 96, Mismatches: 27, Indels: 14
0.70 0.20 0.10
Matches are distributed among these distances:
2 8 0.08
3 81 0.84
4 4 0.04
5 3 0.03
ACGTcount: A:0.57, C:0.01, G:0.10, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18459053 original size:125 final size:126
Alignment explanation
Indices: 18458886--18459144 Score: 308
Period size: 128 Copynumber: 2.0 Consensus size: 126
18458876 TCCAATACGG
* **
18458886 AATATTACCTCATTTTAATTTAAGAAAACATAGATGAAATTTCAAAAGGATATTTTGA-ACTTT-
1 AATATTACCTCATTTTAATTTAAGAAAACATAGACGAAATTTCAAAAGGATA-TTCCATA-TTTC
* * * * *
18458949 TGTCGAATG-AAAAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACAA
64 AGTAGAATGAAAAAATCAAAACCAAACACGATTGGGCACGATCTCTCAAACTCCCAAACACAA
* * ** * * *
18459011 AATATTGCCTCGTTTTAATTTAAGAAAAGGTGGACGAAATTTCACAAGGGTATTCCATATTTCAG
1 AATATTACCTCATTTTAATTTAAGAAAACATAGACGAAATTTCAAAAGGATATTCCATATTTCAG
* *
18459076 TAGAATGAAAAAAAATCAAAACCAAACACGATTGGGCACGATCTCTCAAACTTCCAAACACGA
66 TAGAATG--AAAAAATCAAAACCAAACACGATTGGGCACGATCTCTCAAACTCCCAAACACAA
18459139 AATATT
1 AATATT
18459145 TCCTTATGTT
Statistics
Matches: 112, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
124 6 0.05
125 52 0.46
128 54 0.48
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (126 bp):
AATATTACCTCATTTTAATTTAAGAAAACATAGACGAAATTTCAAAAGGATATTCCATATTTCAG
TAGAATGAAAAAATCAAAACCAAACACGATTGGGCACGATCTCTCAAACTCCCAAACACAA
Found at i:18459560 original size:12 final size:12
Alignment explanation
Indices: 18459540--18459596 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
18459530 TAGAAATAGT
*
18459540 AATAATAATGTA
1 AATAATAATGAA
* *
18459552 AATAGTAATAAA
1 AATAATAATGAA
*
18459564 AATAATAACGAA
1 AATAATAATGAA
* *
18459576 AATAGTAATGAT
1 AATAATAATGAA
18459588 AATAATAAT
1 AATAATAAT
18459597 ATCTAATAGT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (12 bp):
AATAATAATGAA
Found at i:18459567 original size:24 final size:24
Alignment explanation
Indices: 18459540--18459596 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
18459530 TAGAAATAGT
*
18459540 AATAATAATGTAAATAGTAATAAA
1 AATAATAATGAAAATAGTAATAAA
* * *
18459564 AATAATAACGAAAATAGTAATGAT
1 AATAATAATGAAAATAGTAATAAA
18459588 AATAATAAT
1 AATAATAAT
18459597 ATCTAATAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (24 bp):
AATAATAATGAAAATAGTAATAAA
Found at i:18480027 original size:101 final size:101
Alignment explanation
Indices: 18479852--18480053 Score: 386
Period size: 101 Copynumber: 2.0 Consensus size: 101
18479842 TGAACAGTGT
*
18479852 AAGAAATTTAACATTTACTTAAGTCATATAATAATCATAGTAACTTGTAAATCACTAAATAATAA
1 AAGAAATTTAACATTTACTTAAGTCATATAATAATCATAGTAACTTATAAATCACTAAATAATAA
*
18479917 TAGTTGTCATTCATATATATACATTCGAGCTTTAAA
66 TACTTGTCATTCATATATATACATTCGAGCTTTAAA
18479953 AAGAAATTTAACATTTACTTAAGTCATATAATAATCATAGTAACTTATAAATCACTAAATAATAA
1 AAGAAATTTAACATTTACTTAAGTCATATAATAATCATAGTAACTTATAAATCACTAAATAATAA
18480018 TACTTGTCATTCATATATATACATTCGAGCTTTAAA
66 TACTTGTCATTCATATATATACATTCGAGCTTTAAA
18480054 CTTTAACTTC
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (101 bp):
AAGAAATTTAACATTTACTTAAGTCATATAATAATCATAGTAACTTATAAATCACTAAATAATAA
TACTTGTCATTCATATATATACATTCGAGCTTTAAA
Found at i:18481834 original size:13 final size:13
Alignment explanation
Indices: 18481816--18481840 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18481806 TTCTTTCCTT
18481816 TTTCTTTATTTCA
1 TTTCTTTATTTCA
18481829 TTTCTTTATTTC
1 TTTCTTTATTTC
18481841 TTTTGTTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTTTATTTCA
Found at i:18481921 original size:19 final size:19
Alignment explanation
Indices: 18481897--18481935 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18481887 AATACTTATT
*
18481897 TATTATTTA-TACATGTGTA
1 TATTA-TTAGTACATATGTA
18481916 TATTATTAGTACATATGTA
1 TATTATTAGTACATATGTA
18481935 T
1 T
18481936 CCATATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAGTACATATGTA
Found at i:18481985 original size:15 final size:14
Alignment explanation
Indices: 18481959--18481989 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
18481949 TACACTTGTC
18481959 TTTTATTTATTATA
1 TTTTATTTATTATA
18481973 TTTTATATTATTATA
1 TTTTAT-TTATTATA
18481988 TT
1 TT
18481990 AATATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTATTTATTATA
Found at i:18482431 original size:16 final size:16
Alignment explanation
Indices: 18482410--18482447 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18482400 ATTTGAAATG
18482410 ATGTAAAAAGATATATA
1 ATGTAAAAA-ATATATA
*
18482427 A-GTAAATAATATATA
1 ATGTAAAAAATATATA
18482442 ATGTAA
1 ATGTAA
18482448 GTGAGGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 10 0.53
17 1 0.05
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (16 bp):
ATGTAAAAAATATATA
Found at i:18482507 original size:3 final size:3
Alignment explanation
Indices: 18482495--18482724 Score: 147
Period size: 3 Copynumber: 77.3 Consensus size: 3
18482485 AATAGGTAAA
* * *
18482495 AAT AAT -AT AAT AAT -AT AAT AGT AAT AAT AAC AAT -AT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
18482540 AAT AAA AAT AAT AGT AAT AAT AAT AAT AAT -AT ATT TAT AAT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
18482587 AAT AGTT AAT GAT AAT AAA AAT AAT AGT AA- AGAA AAGT AA- AGT AA-
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA-T AAT AAT AAT
* * *
18482632 AATT AAT AAC GAT AAT AACG AAT -AT AAGT AAT AAT AAT AAT AAT AAT
1 AA-T AAT AAT AAT AAT AA-T AAT AAT AA-T AAT AAT AAT AAT AAT AAT
* *
18482679 AAT AAT GAA- AAT AA- AAGT AAT AAT AAT AGT GAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
18482724 A
1 A
18482725 TATTAAATTA
Statistics
Matches: 172, Mismatches: 37, Indels: 36
0.70 0.15 0.15
Matches are distributed among these distances:
2 18 0.10
3 138 0.80
4 16 0.09
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18482627 original size:22 final size:22
Alignment explanation
Indices: 18482584--18482627 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18482574 TTATAATTAT
* *
18482584 AATAATAGTTAATGATAATAAA
1 AATAATAGTTAAAGAAAATAAA
18482606 AATAATAG-TAAAGAAAAGTAAA
1 AATAATAGTTAAAGAAAA-TAAA
18482628 GTAAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (22 bp):
AATAATAGTTAAAGAAAATAAA
Found at i:18484469 original size:1 final size:1
Alignment explanation
Indices: 18484463--18484487 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
18484453 CATATTCCTC
18484463 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
18484488 ACGGATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:18501962 original size:23 final size:23
Alignment explanation
Indices: 18501932--18501975 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
18501922 GTCTCATATA
* *
18501932 TTATTTATTTTACATTGTTTTAT
1 TTATTTATTTTAAATTCTTTTAT
18501955 TTATTTATTTTAAATTCTTTT
1 TTATTTATTTTAAATTCTTTT
18501976 TATATGTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (23 bp):
TTATTTATTTTAAATTCTTTTAT
Found at i:18501985 original size:23 final size:23
Alignment explanation
Indices: 18501928--18502010 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 23
18501918 AATTGTCTCA
* *
18501928 TATATTATTTATTTTACATTGTTT
1 TATA-TATTTATTTTAAATTCTTT
*
18501952 TATTTATTTATTTTAAATTCTTT
1 TATATATTTATTTTAAATTCTTT
* *
18501975 T-TATATGTTATTTCTGAATTGTTAT
1 TATATAT-TTATTT-TAAATTCTT-T
*
18502000 TATAAATTTAT
1 TATATATTTAT
18502011 ATATATGGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
22 4 0.08
23 24 0.50
24 10 0.21
25 6 0.12
26 4 0.08
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.64
Consensus pattern (23 bp):
TATATATTTATTTTAAATTCTTT
Found at i:18501994 original size:24 final size:23
Alignment explanation
Indices: 18501951--18502003 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
18501941 TTACATTGTT
18501951 TTATT-TAT-TTATTTTAAATTC
1 TTATTATATGTTATTTTAAATTC
* * *
18501972 TTTTTATATGTTATTTCTGAATTG
1 TTATTATATGTTATTT-TAAATTC
18501996 TTATTATA
1 TTATTATA
18502004 AATTTATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 4 0.16
22 3 0.12
23 6 0.24
24 12 0.48
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (23 bp):
TTATTATATGTTATTTTAAATTC
Found at i:18502030 original size:25 final size:25
Alignment explanation
Indices: 18502003--18502093 Score: 92
Period size: 25 Copynumber: 3.5 Consensus size: 25
18501993 TTGTTATTAT
* *
18502003 AAATTTATATATATGGTTTATTCTTA
1 AAATTTTTATATATTGTTTATT-TTA
* * *
18502029 AAATTTTTTTATAGATTATTTATTTTC
1 AAA--TTTTTATATATTGTTTATTTTA
18502056 AAATTTTTATATATTGTTTATTTTA
1 AAATTTTTATATATTGTTTATTTTA
*
18502081 AACACTTTTATAT
1 AA-ATTTTTATAT
18502094 TTTTACATAT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
25 21 0.40
26 12 0.23
27 5 0.09
28 15 0.28
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (25 bp):
AAATTTTTATATATTGTTTATTTTA
Found at i:18504224 original size:8 final size:8
Alignment explanation
Indices: 18504211--18504241 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
18504201 ATTTAAGTAA
18504211 ATATTATT
1 ATATTATT
18504219 ATATTATT
1 ATATTATT
*
18504227 AAATTATT
1 ATATTATT
18504235 ATATTAT
1 ATATTAT
18504242 ATTAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
ATATTATT
Found at i:18504259 original size:49 final size:48
Alignment explanation
Indices: 18504170--18504262 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 48
18504160 ATAATATACA
* *
18504170 TATATTAGTAAATATTATATATTTACTTATAATTTAAGTAAATATTAT
1 TATATTAGTAAATATTATATATTTAATTATAATTAAAGTAAATATTAT
*
18504218 TATATTATTAAATTATTATATTATATTAATTA-AA-TAAAGTAAATA
1 TATATTAGTAAA-TATTATA-TAT-TTAATTATAATTAAAGTAAATA
18504263 AAATAAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
48 11 0.28
49 17 0.44
50 5 0.13
51 6 0.15
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.48
Consensus pattern (48 bp):
TATATTAGTAAATATTATATATTTAATTATAATTAAAGTAAATATTAT
Found at i:18504431 original size:5 final size:4
Alignment explanation
Indices: 18504383--18504476 Score: 52
Period size: 4 Copynumber: 22.8 Consensus size: 4
18504373 ATAATAAACA
* *
18504383 AAAG AAAC ATAAG AAAG AAAA AAAG -AAG -AAG AACAG AATAG AAACG
1 AAAG AAAG A-AAG AAAG AAAG AAAG AAAG AAAG AA-AG AA-AG AAA-G
* **
18504429 AAAG AAA- ACAGG GGAG AAAG AAAG AAAGG AAA- AAGAG AAAG AAAG AAA
1 AAAG AAAG A-AAG AAAG AAAG AAAG AAA-G AAAG AA-AG AAAG AAAG AAA
18504477 AGGGAGAAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
3 9 0.13
4 40 0.57
5 21 0.30
ACGTcount: A:0.69, C:0.04, G:0.24, T:0.02
Consensus pattern (4 bp):
AAAG
Found at i:18504471 original size:25 final size:24
Alignment explanation
Indices: 18504393--18504476 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 24
18504383 AAAGAAACAT
* *
18504393 AAGAAAGAAAAAAAGAAGAAGA-A
1 AAGAAAGAAAGAAAGAAAAAGAGA
* *
18504416 CAGAATAGAAACGAAAGAAAACAG-GG
1 AAGAA-AGAAA-GAAAGAAAA-AGAGA
*
18504442 GAGAAAGAAAGAAAGGAAAAAGAGA
1 AAGAAAGAAAGAAA-GAAAAAGAGA
18504467 AAGAAAGAAA
1 AAGAAAGAAA
18504477 AGGGAGAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
23 4 0.08
24 11 0.23
25 27 0.56
26 6 0.12
ACGTcount: A:0.69, C:0.04, G:0.26, T:0.01
Consensus pattern (24 bp):
AAGAAAGAAAGAAAGAAAAAGAGA
Found at i:18505439 original size:40 final size:40
Alignment explanation
Indices: 18505341--18505456 Score: 157
Period size: 40 Copynumber: 2.9 Consensus size: 40
18505331 CCTTCTCGAG
*
18505341 AATTAAAAGTGAATAGGATTTATTCCTGATTCACTA-AAGA
1 AATT-AAAGTGGATAGGATTTATTCCTGATTCACTATAAGA
18505381 AATTAAAGT-GAGTAGGATTTATTCCTGATTCACTATAA-A
1 AATTAAAGTGGA-TAGGATTTATTCCTGATTCACTATAAGA
* *
18505420 TATATAAAGTGGATAGGATTTGTTCCTGATTCACTAT
1 AAT-TAAAGTGGATAGGATTTATTCCTGATTCACTAT
18505457 GGTAACTCAA
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
38 1 0.01
39 31 0.45
40 35 0.51
41 2 0.03
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (40 bp):
AATTAAAGTGGATAGGATTTATTCCTGATTCACTATAAGA
Found at i:18505476 original size:40 final size:38
Alignment explanation
Indices: 18505346--18505480 Score: 153
Period size: 40 Copynumber: 3.4 Consensus size: 38
18505336 TCGAGAATTA
* *
18505346 AAAGTGAATAGGATTTATTCCTGATTCACTAAAGAAATT
1 AAAGTGAATAGGATTTATTCCTGATTCACTATAGTAA-T
* *
18505385 AAAGTGAGTAGGATTTATTCCTGATTCACTATAAATATAT
1 AAAGTGAATAGGATTTATTCCTGATTCACTAT-AGTA-AT
* * *
18505425 AAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
1 AAAGTGAATAGGATTTATTCCTGATTCACTATAGTAA-T
*
18505464 CAAGGTGAATAGGATTT
1 -AAAGTGAATAGGATTT
18505481 TCCCTAAATG
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.41
40 46 0.57
41 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (38 bp):
AAAGTGAATAGGATTTATTCCTGATTCACTATAGTAAT
Found at i:18512542 original size:25 final size:22
Alignment explanation
Indices: 18512514--18512622 Score: 67
Period size: 25 Copynumber: 4.5 Consensus size: 22
18512504 TTAAATAAGA
18512514 ATAAGACAAGTTTAAAATAATATAT
1 ATAAGA-AA-TTTAAAATAA-ATAT
18512539 ATAAAGAAATTTAAAATAAATAT
1 AT-AAGAAATTTAAAATAAATAT
*** *
18512562 -TAAGAGGCTCAAAATAATAATATGT
1 ATAAGAAATTTAAAAT-A-AATA--T
*
18512587 AAAAGAAATTTAAAATAAATAATGT
1 ATAAGAAATTTAAAATAAAT-A--T
18512612 ATAAGAAATTT
1 ATAAGAAATTT
18512623 TAAAGTGAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
21 10 0.15
22 2 0.03
23 8 0.12
24 13 0.19
25 20 0.30
26 14 0.21
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.30
Consensus pattern (22 bp):
ATAAGAAATTTAAAATAAATAT
Found at i:18512555 original size:24 final size:23
Alignment explanation
Indices: 18512524--18512622 Score: 85
Period size: 24 Copynumber: 4.1 Consensus size: 23
18512514 ATAAGACAAG
*
18512524 TTTAAAATAATATATATAAAGAAA
1 TTTAAAATAA-ATATGTAAAGAAA
**
18512548 TTTAAAATAAATAT-T-AAGAGG
1 TTTAAAATAAATATGTAAAGAAA
* *
18512569 CTCAAAATAATAATATGTAAAAGAAA
1 TTTAAAAT-A-AATATGT-AAAGAAA
18512595 TTTAAAATAAATAATGTATAAGAAA
1 TTTAAAATAAAT-ATGTA-AAGAAA
18512620 TTT
1 TTT
18512623 TAAAGTGAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
21 10 0.17
22 2 0.03
23 9 0.15
24 15 0.25
25 14 0.23
26 10 0.17
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (23 bp):
TTTAAAATAAATATGTAAAGAAA
Found at i:18512561 original size:21 final size:21
Alignment explanation
Indices: 18512532--18512607 Score: 53
Period size: 21 Copynumber: 3.4 Consensus size: 21
18512522 AGTTTAAAAT
*
18512532 AATATATATAAAGAAATTTAA
1 AATAAATATAAAGAAATTTAA
* *** *
18512553 AATAAATATTAAGAGGCTCAA
1 AATAAATATAAAGAAATTTAA
18512574 AATAATAATATGTAAAAGAAATTTAA
1 AAT-A-AATA--T-AAAGAAATTTAA
18512600 AATAAATA
1 AATAAATA
18512608 ATGTATAAGA
Statistics
Matches: 39, Mismatches: 11, Indels: 7
0.68 0.19 0.12
Matches are distributed among these distances:
21 18 0.46
22 1 0.03
23 4 0.10
24 4 0.10
25 2 0.05
26 10 0.26
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (21 bp):
AATAAATATAAAGAAATTTAA
Found at i:18512601 original size:26 final size:26
Alignment explanation
Indices: 18512524--18512767 Score: 73
Period size: 26 Copynumber: 9.5 Consensus size: 26
18512514 ATAAGACAAG
*
18512524 TTTAAAATAAT-ATATAT-AAAGAAA
1 TTTAAAATAATAATATGTAAAAGAAA
**
18512548 TTTAAAAT-A-AATAT-T--AAGAGG
1 TTTAAAATAATAATATGTAAAAGAAA
* *
18512569 CTCAAAATAATAATATGTAAAAGAAA
1 TTTAAAATAATAATATGTAAAAGAAA
*
18512595 TTTAAAAT-A-AATAATGTATAAGAAA
1 TTTAAAATAATAAT-ATGTAAAAGAAA
* * * *
18512620 TTTTAAAGTGAATAACATGCAAAA-TAA
1 -TTTAAAAT-AATAATATGTAAAAGAAA
** ** * *
18512647 TTTAAACCAAGTAATACATATAA-AAC
1 TTTAAAATAA-TAATATGTAAAAGAAA
* **
18512673 TTTAAAATAGATGATATACACAAAG--A
1 TTTAAAATA-ATAATATGTA-AAAGAAA
* *
18512699 TTTAAAATAAATCATATGTAAAAAAAAAAA
1 TTTAAAAT-AATAATATGT---AAAAGAAA
* *
18512729 CTTAAAATAATTAATATGTAAAAGTAA
1 TTTAAAATAA-TAATATGTAAAAGAAA
* *
18512756 TATAAAAAAATA
1 TTTAAAATAATA
18512768 CATAATATAT
Statistics
Matches: 157, Mismatches: 41, Indels: 42
0.65 0.17 0.17
Matches are distributed among these distances:
21 10 0.06
22 2 0.01
23 10 0.06
24 12 0.08
25 14 0.09
26 60 0.38
27 19 0.12
28 10 0.06
29 5 0.03
30 15 0.10
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (26 bp):
TTTAAAATAATAATATGTAAAAGAAA
Found at i:18513259 original size:14 final size:14
Alignment explanation
Indices: 18513242--18513284 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
18513232 ATGATGATGG
*
18513242 TAATAGTAATAATA
1 TAATAATAATAATA
18513256 TAATAATAATAATA
1 TAATAATAATAATA
*
18513270 -AATAA-AATAAAA
1 TAATAATAATAATA
18513282 TAA
1 TAA
18513285 GTAGTTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 6 0.23
13 7 0.27
14 13 0.50
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:18516988 original size:44 final size:44
Alignment explanation
Indices: 18516917--18517239 Score: 162
Period size: 44 Copynumber: 7.3 Consensus size: 44
18516907 ATCCACCCAA
* * * *
18516917 TCTTATCTCCCAGAAGTTGC-AGTAGAGCAGATTGAAGCTATTAG
1 TCTTATCTCCCTGAGGTAGCAAG-AGAGCAGATTGAAGATATTAG
* **
18516961 CCTTATCTCCCTGAGGTAGCAAGAGAGCAGGCTGAAGAT-TGTAG
1 TCTTATCTCCCTGAGGTAGCAAGAGAGCAGATTGAAGATAT-TAG
* * * *
18517005 TCTTATCTTCCTGAGGTAGCAAG-GAAGTAGACTGAAGAT-TGAAG
1 TCTTATCTCCCTGAGGTAGCAAGAG-AGCAGATTGAAGATAT-TAG
* * * * ** *
18517049 ATCTTATCTCCCTGAGATAGC-AGTGGAGTAGATCGAAGATAGCGAA
1 -TCTTATCTCCCTGAGGTAGCAAG-AGAGCAGATTGAAGATA-TTAG
** * * * ** **
18517095 TCTTATCTTTAC-GAGCTAGCAGGGGAGCAGATT-ATAGCCACCAG
1 TCTTATC-TCCCTGAGGTAGCAAGAGAGCAGATTGA-AGATATTAG
* * *
18517139 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT-TGTAG
1 TCTTATCTCCCTGAGGTAGCAAGAGAGCAGATTGAAGATAT-TAG
* * *
18517183 TCTTATCTTCCTGAGGTAGCAAG-GAAACAGACTGAAGAT-TGTAG
1 TCTTATCTCCCTGAGGTAGCAAGAG-AGCAGATTGAAGATAT-TAG
18517227 ATCTTATCTCCCT
1 -TCTTATCTCCCT
18517240 AAGCAGTAGT
Statistics
Matches: 216, Mismatches: 47, Indels: 31
0.73 0.16 0.11
Matches are distributed among these distances:
43 5 0.02
44 137 0.63
45 69 0.32
46 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGGTAGCAAGAGAGCAGATTGAAGATATTAG
Found at i:18517070 original size:45 final size:44
Alignment explanation
Indices: 18516962--18517239 Score: 174
Period size: 44 Copynumber: 6.2 Consensus size: 44
18516952 AGCTATTAGC
* *
18516962 CTTATCTCCCTGAGGTAGCAAGAGAGCAGGCTGAAGATTGTAGT
1 CTTATCTCCCTGAGGTAGCAAGAGAGCAGACTGAAGATTGAAGT
* *
18517006 CTTATCTTCCTGAGGTAGCAAG-GAAGTAGACTGAAGATTGAAGAT
1 CTTATCTCCCTGAGGTAGCAAGAG-AGCAGACTGAAGATTGAAG-T
* * * *
18517051 CTTATCTCCCTGAGATAGC-AGTGGAGTAGA-TCGAAGATAGCGAA-T
1 CTTATCTCCCTGAGGTAGCAAG-AGAGCAGACT-GAAGAT--TGAAGT
** * * * * ***** *
18517096 CTTATCTTTAC-GAGCTAGCAGGGGAGCAGA-TTATAGCCACCAGC
1 CTTATC-TCCCTGAGGTAGCAAGAGAGCAGACTGA-AGATTGAAGT
* ** *
18517140 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGT
1 CTTATCTCCCTGAGGTAGCAAGAGAGCAGACTGAAGATTGAAGT
* * *
18517184 CTTATCTTCCTGAGGTAGCAAG-GAAACAGACTGAAGATTGTAGAT
1 CTTATCTCCCTGAGGTAGCAAGAG-AGCAGACTGAAGATTGAAG-T
18517229 CTTATCTCCCT
1 CTTATCTCCCT
18517240 AAGCAGTAGT
Statistics
Matches: 181, Mismatches: 38, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
43 5 0.03
44 102 0.56
45 67 0.37
46 4 0.02
47 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAGGTAGCAAGAGAGCAGACTGAAGATTGAAGT
Found at i:18517070 original size:89 final size:89
Alignment explanation
Indices: 18516962--18517239 Score: 269
Period size: 89 Copynumber: 3.1 Consensus size: 89
18516952 AGCTATTAGC
*
18516962 CTTATCTCCCTGAGGTAGCAAGAGAGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAA
1 CTTATCTCCCTGAGGTAGCAAGAGAGCAGGATGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAA
*
18517027 GGAAGTAGACTGAAGATTGAAGAT
66 GGAAGCAGACTGAAGATTGAAGAT
* * * * * * * *
18517051 CTTATCTCCCTGAGATAGC-AGTGGAGTA-GATCGAAGATAGCGAATCTTATCTTTAC-GAGCTA
1 CTTATCTCCCTGAGGTAGCAAG-AGAGCAGGAT-GAAGATTG-TAGTCTTATC-TTCCTGAGGTA
* * * ***** *
18517113 GCAGGGGAGCAGA-TTATAGCCACCAG-C
62 GCAAGGAAGCAGACTGA-AGATTGAAGAT
* *
18517140 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAA
1 CTTATCTCCCTGAGGTAGCAAGAGAGCAGGATGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAA
* *
18517205 GGAAACAGACTGAAGATTGTAGAT
66 GGAAGCAGACTGAAGATTGAAGAT
18517229 CTTATCTCCCT
1 CTTATCTCCCT
18517240 AAGCAGTAGT
Statistics
Matches: 139, Mismatches: 40, Indels: 20
0.70 0.20 0.10
Matches are distributed among these distances:
87 3 0.02
88 31 0.22
89 71 0.51
90 31 0.22
91 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (89 bp):
CTTATCTCCCTGAGGTAGCAAGAGAGCAGGATGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAA
GGAAGCAGACTGAAGATTGAAGAT
Found at i:18517359 original size:130 final size:130
Alignment explanation
Indices: 18517214--18517944 Score: 984
Period size: 130 Copynumber: 5.6 Consensus size: 130
18517204 AGGAAACAGA
** * * * *
18517214 CTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACAATGAATCTTGTC
1 CTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATC
*
18517279 TCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCTTATCTCCCTAAGCAGTAGTGGAGTAGG
66 TCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGG
* * *
18517344 CTGAAGATTACAGATCTAATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGACGAATTTTATC
1 CTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATC
* * * *
18517409 TCCTTAAGCAATAGTGGATCAGATTTAAGCCACCATCCTATCTCTCTAAGCAGTAGTGGAGTAGG
66 TCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGG
* * * *
18517474 CTGAAGATTACAGATCTTATTTTCCTAAGCAGTAGTGGAGCAAATCGAAGACGGA-GAATCTTTT
1 CTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-GACGAATCTTAT
* * * * * *
18517538 CTCTCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTAACTCTCTAAACAGTAGTGGAATAT
65 CTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAG
18517603 G
130 G
* * * *
18517604 ATAAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGACGAATTTTATC
1 CTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATC
* * * *
18517669 TCCCTAAGCAGTAGTGGAGTAGATTTAAGCTACCATCCTATCTCCCTAAGTAGTAGTGAAGTAGG
66 TCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGG
*
18517734 CTGAAGATTACAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGAC-ATCGAATCTTAT
1 CTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA-CGAATCTTAT
* * ** * *
18517798 CTCCCTAAACAGTAGTAGAATAGATTTAAGCCATCATCCTATCTCCCTAAGCAGTAGTGGAGTAT
65 CTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAG
18517863 G
130 G
* * * * ** * * *
18517864 TTGAAGATTGCAAATCTTATCTCCCTAAGCAGTAGTGGAACAGATTTAAGCCAAC--ATCCTATC
1 CTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATC
18517927 TCCCTAAGCAGTAGTGGA
66 TCCCTAAGCAGTAGTGGA
18517945 ACAGGTTGAA
Statistics
Matches: 526, Mismatches: 71, Indels: 10
0.87 0.12 0.02
Matches are distributed among these distances:
128 23 0.04
129 3 0.01
130 497 0.94
131 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (130 bp):
CTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATC
TCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGG
Found at i:18517968 original size:86 final size:86
Alignment explanation
Indices: 18517227--18517973 Score: 489
Period size: 86 Copynumber: 8.6 Consensus size: 86
18517217 AAGATTGTAG
* * * *
18517227 ATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGA-CAATGAATCTTGTCTCCCTAAGCAGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCAACG-ATCTTATCTCCCTAAGCAGT
* *
18517291 AGTGGAGCAGATTTAAGCCACC
65 AGTGGAGCAGATTGAAGCCAAC
* ** * *
18517313 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGAT-TACAGATCTAATCTCCCTAAGCAGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCAAC-GATCTTATCTCCCTAAGCAGT
* * * *
18517377 AGTGGAGTAGATCGAAGACGAC
65 AGTGGAGCAGATTGAAGCCAAC
* * * * * * * * *
18517399 GAATTTTATCTCCTTAAGCAATAGTGGATCAGATTTAAG--CCACCATCCTATCTCTCTAAGCAG
1 --ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCAACGATCTTATCTCCCTAAGCAG
* ** ** *
18517462 TAGTGGAGTAGGCTGAAGATTACAG
64 TAGTGGAGCAGATTGAAG-CCA-AC
* * * * * * *
18517487 ATCTTATTTTCCTAAGCAGTAGTGGAGCAAATCGAAGA-CGGA-GAATCTTTTCTCTCTAAGCAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATC-AACG-ATCTTATCTCCCTAAGCAG
* *
18517550 TAGTGGAGCAGATTTAAGCCACC
64 TAGTGGAGCAGATTGAAGCCAAC
* * * * ** * * *
18517573 ATCCTAACTCTCTAAACAGTAGTGGAATATGA-TAAAGAT-TACAGATCTTATCTCCCTAAGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCA-GATTGAAGATCAAC-GATCTTATCTCCCTAAGCAG
* * *
18517636 TAGTGGAGCAGATCGAAGACGAC
64 TAGTGGAGCAGATTGAAGCCAAC
* * * * * * *
18517659 GAATTTTATCTCCCTAAGCAGTAGTGGAGTAGATTTAAG--CTACCATCCTATCTCCCTAAGTAG
1 --ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCAACGATCTTATCTCCCTAAGCAG
* * ** ** *
18517722 TAGTGAAGTAGGCTGAAGATTACAG
64 TAGTGGAGCAGATTGAAG-CCA-AC
* * * *
18517747 ATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGA-CATCGAATCTTATCTCCCTAAACAGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCAACG-ATCTTATCTCCCTAAGCAGT
* ** * *
18517811 AGTAGAATAGATTTAAGCCATC
65 AGTGGAGCAGATTGAAGCCAAC
* *
18517833 ATCCTATCTCCCTAAGCAGTAGTGGAGTATG-TTGAAGATTGCAA--ATCTTATCTCCCTAAGCA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCA-GATTGAAGA-T-CAACGATCTTATCTCCCTAAGCA
* *
18517895 GTAGTGGAACAGATTTAAGCCAAC
63 GTAGTGGAGCAGATTGAAGCCAAC
* * *
18517919 ATCCTATCTCCCTAAGCAGTAGTGGAACAGGTTGAA-ATCAACGATTCTTATCTCC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCAACGA-TCTTATCTCC
18517974 TTAAAGTTTC
Statistics
Matches: 505, Mismatches: 126, Indels: 60
0.73 0.18 0.09
Matches are distributed among these distances:
83 3 0.01
84 1 0.00
85 4 0.01
86 361 0.71
87 16 0.03
88 118 0.23
89 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (86 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATCAACGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATTGAAGCCAAC
Found at i:18518101 original size:44 final size:44
Alignment explanation
Indices: 18518053--18518626 Score: 230
Period size: 44 Copynumber: 12.7 Consensus size: 44
18518043 AGCCAAAAAC
* *
18518053 CTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAATTA-CAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTAGCAA-T
* * * * * * *
18518097 CTTATCTTCTTGAAGTTGCAATGGAGCGGACTGAAGA-CACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTAGCAAT
* ** *
18518141 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATTATTAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTAGCAAT
* * *
18518185 CTTATCT-CTTGAAGTTGCAGTGGAGCAGACTGAAGA-TAGTGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTAG-CAAT
* * *
18518229 CTCATCTCCCTGAAGTTGCAGTGG-GTCAGATTAAAGCTACAAATCA-CAAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAG-CAGATT---G----AAATTAGCAA-T
* * *
18518280 CTTATCTCCCTGAAGTTGCAGTAGAGCAGGTT-AAAGTTA-CGAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TTAGC-AAT
* * * * *
18518324 CTTATCTCTCTGAAGTTGCAATGGAGTAGACT-AAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TTAGC-AAT
* * * * * **
18518369 CTTATCTCTCTGAAGTTGCAGTAGAACCGATT-AAAGCTAAAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TTAGCAAT
* * * * * * *
18518413 CCTATAC-CTCTAAAGTTGCAGTAGG-TCAGA-TCAAACCTACCATGGTGAAT
1 CTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAA--T----TAG-CAAT
* * * *** *
18518463 CTTATCTCCTTGAAGTTGTAGTGGAGTAGATTGAAGCCA-CAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTAGC-AAT
* *
18518507 CTTATC-CCCGTGAAGTTGCAGTGGGGCA-AGTTGAAGTTA-CAAGT
1 CTTATCTCCC-TGAAGTTGCAGTGGAGCAGA-TTGAAATTAGCAA-T
* * *
18518551 CTTATCTCCCTGAAGTTACTGTGGAGCAGATTGAAGA-AAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTAGCA-AT
* *
18518596 CTTATCTCCTTGAAGTTGCAATGGAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
18518627 CAAGCTATGA
Statistics
Matches: 395, Mismatches: 94, Indels: 81
0.69 0.16 0.14
Matches are distributed among these distances:
43 36 0.09
44 199 0.50
45 96 0.24
46 1 0.00
48 1 0.00
49 4 0.01
50 23 0.06
51 31 0.08
52 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTAGCAAT
Found at i:18518148 original size:88 final size:88
Alignment explanation
Indices: 18518053--18518263 Score: 266
Period size: 88 Copynumber: 2.4 Consensus size: 88
18518043 AGCCAAAAAC
* * *
18518053 CTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAATTA-CAAGTCTTATCTTCTTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATTATCAA-CCTTATC-TCTTGAAGTTGCA
*
18518117 ATGGAGCGGACTGAAGACA-CCAAT
64 ATGGAGCAGACTGAAGACAGCCAAT
* * *
18518141 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATTATTAACCTTATCTCTTGAAGTTGCAGT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATTATCAACCTTATCTCTTGAAGTTGCAAT
* **
18518206 GGAGCAGACTGAAGATAGTGAAT
66 GGAGCAGACTGAAGACAGCCAAT
* *
18518229 CTCATCTCCCTGAAGTTGCAGT-GGGTCAGATTAAA
1 CTTATCTCCCTGAAGTTGCAGTAGAG-CAGATTAAA
18518264 GCTACAAATC
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
87 31 0.29
88 75 0.69
89 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (88 bp):
CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATTATCAACCTTATCTCTTGAAGTTGCAAT
GGAGCAGACTGAAGACAGCCAAT
Found at i:18518311 original size:227 final size:224
Alignment explanation
Indices: 18518042--18518626 Score: 596
Period size: 227 Copynumber: 2.6 Consensus size: 224
18518032 GAGTGACTCG
*
18518042 AAGCCAAAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAATTACAAGTCTTATCTTCT
1 AAGCCACAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAATTACAAGTCTTATCTTCT
* *
18518107 TGAAGTTGCAATGGAGCGGACTGAAGACACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
66 TGAAGTTGCAATGGAGCAGACTGAAGAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* ** * * * *
18518172 TAAAATTATTAA-CCT-TATCTCTTGAAGTTGCAGT-GG-AG-CAGA-CTGAAGATAGTGAATCT
131 TAAAACTAAAAATCCTATACCTC-TAAAGTTGCAGTAGGCAGACAAACCT-AACATAGTGAATCT
18518231 CATCTCCCTGAAGTTGCAGTGG-GTCAGATTA
194 CATCTCCCTGAAGTTGCAGTGGAGT-AGATTA
*
18518262 AAGCTACAAATCACAAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTT-AAAGTTACGAGTCT
1 AAGC--C--A-CA-AA-CCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAA-TTACAAGTCT
* * * * *
18518326 TATC-TCTCTGAAGTTGCAATGGAGTAGACTAAAGATAGCAAATCTTATCTCTCTGAAGTTGCAG
58 TATCTTCT-TGAAGTTGCAATGGAGCAGACTGAAGA-AACCAATCTTATCTCCCTGAAGTTGCAG
* * * * *
18518390 TAGAACCGATTAAAGCTAAAAATCCTATACCTCTAAAGTTGCAGTAGGTCAGATCAAACCTACCA
121 TGGAGCAGATTAAAACTAAAAATCCTATACCTCTAAAGTTGCAGTAGG-CAGA-CAAACCTAACA
* * * * *
18518455 TGGTGAATCTTATCTCCTTGAAGTTGTAGTGGAGTAGATTG
184 TAGTGAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTA
* * * * *
18518496 AAGCCACAAACCTTATC-CCCGTGAAGTTGCAGTGGGGCAAGTTGAAGTTACAAGTCTTATCTCC
1 AAGCCACAAACCTTATCTCCC-TGAAGTTGCAGTAGAGCAGGTTGAAATTACAAGTCTTATCTTC
* * ** * * * *
18518560 CTGAAGTTACTGTGGAGCAGATTGAAGAAAGCAGATCTTATCTCCTTGAAGTTGCAATGGAGCAG
65 TTGAAGTTGCAATGGAGCAGACTGAAGAAACCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
18518625 AT
129 AT
18518627 CAAGCTATGA
Statistics
Matches: 294, Mismatches: 48, Indels: 39
0.77 0.13 0.10
Matches are distributed among these distances:
220 4 0.01
222 1 0.00
224 1 0.00
225 1 0.00
226 13 0.04
227 157 0.53
228 44 0.15
229 16 0.05
230 8 0.03
232 3 0.01
234 42 0.14
235 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (224 bp):
AAGCCACAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAATTACAAGTCTTATCTTCT
TGAAGTTGCAATGGAGCAGACTGAAGAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
TAAAACTAAAAATCCTATACCTCTAAAGTTGCAGTAGGCAGACAAACCTAACATAGTGAATCTCA
TCTCCCTGAAGTTGCAGTGGAGTAGATTA
Found at i:18518401 original size:140 final size:139
Alignment explanation
Indices: 18518141--18518413 Score: 366
Period size: 140 Copynumber: 2.0 Consensus size: 139
18518131 AGACACCAAT
* ** *
18518141 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATTATTAACCTTATCTCTTGAAGTTGCAGT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATTACGAACCTTATCTCTTGAAGTTGCAAT
* ** * ** *
18518206 GGAGCAGACTGAAGATAGTGAATCTCATCTCCCTGAAGTTGCAGTGGGTCAGATTAAAGCTACAA
66 GGAGCAGACTAAAGATAGCAAATCTCATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTAAAA
18518271 ATCACAAGC
131 ATCACAAGC
* * **
18518280 CTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTAAAGTTACGAGTCTTATCTCTCTGAAGTTGCAA
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATTACGAACCTTATCTCT-TGAAGTTGCAA
* * * *
18518345 TGGAGTAGACTAAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAACCGATTAAAGCTAAA
65 TGGAGCAGACTAAAGATAGCAAATCTCATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTAAA
18518410 AATC
130 AATC
18518414 CTATACCTCT
Statistics
Matches: 114, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
139 46 0.40
140 68 0.60
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (139 bp):
CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATTACGAACCTTATCTCTTGAAGTTGCAAT
GGAGCAGACTAAAGATAGCAAATCTCATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTAAAA
ATCACAAGC
Found at i:18520357 original size:23 final size:24
Alignment explanation
Indices: 18520327--18520375 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
18520317 GTCTTATATA
*
18520327 TTATTTATTTTACATT-ATTTTAT
1 TTATTTATTTTAAATTCATTTTAT
*
18520350 TTATTTATTTTAAATTCCTTTTAT
1 TTATTTATTTTAAATTCATTTTAT
18520374 TT
1 TT
18520376 GTTATTTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (24 bp):
TTATTTATTTTAAATTCATTTTAT
Found at i:18520389 original size:24 final size:24
Alignment explanation
Indices: 18520331--18520382 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
18520321 TATATATTAT
* * *
18520331 TTATTTTACATT-ATTTTATTTAT
1 TTATTTTAAATTCCTTTTATTTAG
18520354 TTATTTTAAATTCCTTTTATTT-G
1 TTATTTTAAATTCCTTTTATTTAG
18520377 TTATTT
1 TTATTT
18520383 CTGAATTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (24 bp):
TTATTTTAAATTCCTTTTATTTAG
Found at i:18520428 original size:27 final size:26
Alignment explanation
Indices: 18520391--18520478 Score: 81
Period size: 27 Copynumber: 3.4 Consensus size: 26
18520381 TTCTGAATTG
* * *
18520391 TTATTATAAATTTATATATATATGGT
1 TTATTTTAAATTTTTATATATATGAT
* * *
18520417 TTATTCTTAAATTTTTTTATAGATTAT
1 TTATT-TTAAATTTTTATATATATGAT
18520444 TTATTTTCAAATTTTTATATAT-TG-T
1 TTATTTT-AAATTTTTATATATATGAT
*
18520469 CTATTTTAAA
1 TTATTTTAAA
18520479 CACTTTTATA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
24 3 0.06
25 7 0.14
26 8 0.16
27 32 0.64
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (26 bp):
TTATTTTAAATTTTTATATATATGAT
Found at i:18520473 original size:25 final size:26
Alignment explanation
Indices: 18520430--18520489 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
18520420 TTCTTAAATT
* * *
18520430 TTTTTATAGATTATTTATTTTCAA-A
1 TTTTTATATATTATCTATTTTAAACA
*
18520455 TTTTTATATATTGTCTATTTTAAACA
1 TTTTTATATATTATCTATTTTAAACA
*
18520481 CTTTTATAT
1 TTTTTATAT
18520490 TTTTACATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (26 bp):
TTTTTATATATTATCTATTTTAAACA
Found at i:18523414 original size:131 final size:131
Alignment explanation
Indices: 18523241--18523487 Score: 431
Period size: 131 Copynumber: 1.9 Consensus size: 131
18523231 TCATTCAAAA
* * * *
18523241 ATTCTTCAAAACGAAGGCGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGG
1 ATTCTCCAAAACGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTTGG
*
18523306 GTTGCAATTTCGCGTTTGTTCGAAATAATCGAATATCACTTCAAAATTTCATTCATGTCTTTTAA
66 GTTGCAATTTCGCGTTTGTTCAAAATAATCGAATATCACTTCAAAATTTCATTCATGTCTTTTAA
18523371 G
131 G
18523372 ATTCTCCAAAACGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTTGG
1 ATTCTCCAAAACGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTTGG
* *
18523437 GTTGCAATTTCGCGTTTGTTCAAAATAATCGAGTATCCCTTCAAAATTTCA
66 GTTGCAATTTCGCGTTTGTTCAAAATAATCGAATATCACTTCAAAATTTCA
18523488 ATAATTTAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
131 109 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (131 bp):
ATTCTCCAAAACGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTTGG
GTTGCAATTTCGCGTTTGTTCAAAATAATCGAATATCACTTCAAAATTTCATTCATGTCTTTTAA
G
Found at i:18528859 original size:141 final size:141
Alignment explanation
Indices: 18528604--18528889 Score: 520
Period size: 141 Copynumber: 2.0 Consensus size: 141
18528594 TAGGTGAGAG
18528604 GGTTCTTGTTTGGCGGCTTATACTTTAATAACATTTCCAGGTTTTTTCTCTTCTTTTTTGGCTGT
1 GGTTCTTGTTTGGCGGCTTATACTTTAATAACATTTCCAGGTTTTTTCTCTTCTTTTTTGGCTGT
*
18528669 CCCACTGCTAACTGCTTAATTAGTCGGTCAGCTCCTTTCTAAAATAAGATATATAGAAGATGTAA
66 CCCACTGCTAACTACTTAATTAGTCGGTCAGCTCCTTTCTAAAATAAGATATATAGAAGATGTAA
18528734 TAAAAAATTTT
131 TAAAAAATTTT
* *
18528745 AGGTTCTTGTTTGGCGGCTTATACTTTTATAACATTTCCAGGTTTTTT-TGTTCTTTTTTGGCTG
1 -GGTTCTTGTTTGGCGGCTTATACTTTAATAACATTTCCAGGTTTTTTCTCTTCTTTTTTGGCTG
*
18528809 TCCCACTGCTAACTACTTAATTAGTCGGTCAGCTCCTTTCTAAAATAAGATATATAGAGGATGTA
65 TCCCACTGCTAACTACTTAATTAGTCGGTCAGCTCCTTTCTAAAATAAGATATATAGAAGATGTA
18528874 ATAAAAAATTTT
130 ATAAAAAATTTT
18528886 GGTT
1 GGTT
18528890 GGTTAAAATT
Statistics
Matches: 140, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
140 4 0.03
141 90 0.64
142 46 0.33
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (141 bp):
GGTTCTTGTTTGGCGGCTTATACTTTAATAACATTTCCAGGTTTTTTCTCTTCTTTTTTGGCTGT
CCCACTGCTAACTACTTAATTAGTCGGTCAGCTCCTTTCTAAAATAAGATATATAGAAGATGTAA
TAAAAAATTTT
Found at i:18528966 original size:16 final size:16
Alignment explanation
Indices: 18528928--18528969 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
18528918 TAAGTAAAAA
18528928 TGTAATTTTATTATTT
1 TGTAATTTTATTATTT
*
18528944 TAATAATTTATATT-TTT
1 T-GTAATTT-TATTATTT
18528961 TGTAATTTT
1 TGTAATTTT
18528970 TAAAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
15 1 0.05
16 7 0.32
17 10 0.45
18 4 0.18
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (16 bp):
TGTAATTTTATTATTT
Found at i:18529353 original size:28 final size:27
Alignment explanation
Indices: 18529322--18529439 Score: 84
Period size: 28 Copynumber: 4.3 Consensus size: 27
18529312 CATAAAAATG
18529322 TTATAAAAAATTAAAAATATATATAAA
1 TTATAAAAAATTAAAAATATATATAAA
** *
18529349 CTTATAAAACCTATAAAAAT-TATAAAAA
1 -TTATAAAAAAT-TAAAAATATATATAAA
*
18529377 CTTATAATAAATTATACAAATAGTA-A-AAA
1 -TTATAAAAAATTA-A-AAATA-TATATAAA
*
18529406 --ATAAAACATATTAAAAATATTTATAAA
1 TTATAAAA-A-ATTAAAAATATATATAAA
18529433 TTATAAA
1 TTATAAA
18529440 TATTATAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
25 1 0.01
26 11 0.15
27 7 0.10
28 30 0.42
29 19 0.27
30 1 0.01
31 2 0.03
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (27 bp):
TTATAAAAAATTAAAAATATATATAAA
Found at i:18529367 original size:10 final size:10
Alignment explanation
Indices: 18529341--18529392 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
18529331 ATTAAAAATA
*
18529341 TATATAAACT
1 TATAAAAACT
*
18529351 TAT-AAAACC
1 TATAAAAACT
18529360 TATAAAAA-T
1 TATAAAAACT
18529369 TATAAAAACT
1 TATAAAAACT
18529379 TATAATAAA-T
1 TATAA-AAACT
18529389 TATA
1 TATA
18529393 CAAATAGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 15 0.42
10 18 0.50
11 3 0.08
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (10 bp):
TATAAAAACT
Found at i:18529372 original size:9 final size:9
Alignment explanation
Indices: 18529305--18529517 Score: 105
Period size: 9 Copynumber: 22.9 Consensus size: 9
18529295 ATTTCCTCAT
*
18529305 TAAAAATCA
1 TAAAAATTA
18529314 TAAAAATGTTA
1 TAAAAA--TTA
*
18529325 TAAAAAAT-
1 TAAAAATTA
18529333 TAAAAATATA
1 TAAAAAT-TA
*
18529343 TATAAACTTA
1 TA-AAAATTA
**
18529353 TAAAACCTA
1 TAAAAATTA
18529362 TAAAAATTA
1 TAAAAATTA
18529371 TAAAAACTTA
1 TAAAAA-TTA
18529381 TAATAAATTA
1 TAA-AAATTA
*
18529391 TACAAA-TA
1 TAAAAATTA
18529399 GTAAAAA--A
1 -TAAAAATTA
18529407 TAAAACA-TA
1 TAAAA-ATTA
*
18529416 TTAAAAATATT
1 -TAAAAAT-TA
*
18529427 TATAAATTA
1 TAAAAATTA
*
18529436 TAAATATTA
1 TAAAAATTA
* *
18529445 TAAAAAATC
1 TAAAAATTA
** *
18529454 TAGTAA-TC
1 TAAAAATTA
*
18529462 TAATAATTA
1 TAAAAATTA
*
18529471 TCAATAATTA
1 T-AAAAATTA
*
18529481 TAAAACTTA
1 TAAAAATTA
18529490 TAAAAATTA
1 TAAAAATTA
*
18529499 GAAGAAATTA
1 TAA-AAATTA
18529509 TGAAAAATT
1 T-AAAAATT
18529518 GTAACTTTAT
Statistics
Matches: 161, Mismatches: 26, Indels: 33
0.73 0.12 0.15
Matches are distributed among these distances:
7 5 0.03
8 17 0.11
9 73 0.45
10 48 0.30
11 18 0.11
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:18529435 original size:17 final size:16
Alignment explanation
Indices: 18529415--18529448 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
18529405 AATAAAACAT
18529415 ATTAAAAATATTTATAA
1 ATTAAAAATA-TTATAA
*
18529432 ATTATAAATATTATAA
1 ATTAAAAATATTATAA
18529448 A
1 A
18529449 AAATCTAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTAAAAATATTATAA
Found at i:18530036 original size:17 final size:17
Alignment explanation
Indices: 18530011--18530053 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
18530001 TTAACTACCT
18530011 TTTTATAATTTCTAATG
1 TTTTATAATTTCTAATG
* * *
18530028 TTTTCTAATTTTTAATAA
1 TTTTATAATTTCTAAT-G
18530046 TTTTATAA
1 TTTTATAA
18530054 GTTTTTATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTATAATTTCTAATG
Found at i:18530099 original size:19 final size:17
Alignment explanation
Indices: 18530075--18530118 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
18530065 ATTTAATAGA
18530075 AATTTTTGTAAGTTTATAT
1 AATTTTT-TAAGTTT-TAT
18530094 AATTTTATT-AGTTTTAT
1 AATTTT-TTAAGTTTTAT
18530111 AATTTTTT
1 AATTTTTT
18530119 TAAGATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 2 0.08
17 9 0.38
18 5 0.21
19 7 0.29
20 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (17 bp):
AATTTTTTAAGTTTTAT
Found at i:18533208 original size:24 final size:24
Alignment explanation
Indices: 18533176--18533222 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
18533166 ATTTACTTTT
*
18533176 CCTTGATAAATTTTTTGTAATATA
1 CCTTGATAAACTTTTTGTAATATA
18533200 CCTTGATAAACTTTTTGTAATAT
1 CCTTGATAAACTTTTTGTAATAT
18533223 TGAAACCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.49
Consensus pattern (24 bp):
CCTTGATAAACTTTTTGTAATATA
Found at i:18536270 original size:22 final size:19
Alignment explanation
Indices: 18536242--18536291 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 19
18536232 AATTTTTAAT
18536242 TTTTTAAATATAAAGTTTAGAA
1 TTTTTAAA-A-AAA-TTTAGAA
*
18536264 TTTTTAAAAATATTTAGAA
1 TTTTTAAAAAAATTTAGAA
18536283 -TTTTAAAAA
1 TTTTTAAAAA
18536292 TTATTTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 9 0.33
19 7 0.26
20 2 0.07
21 1 0.04
22 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (19 bp):
TTTTTAAAAAAATTTAGAA
Found at i:18536281 original size:19 final size:20
Alignment explanation
Indices: 18536257--18536303 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
18536247 AAATATAAAG
18536257 TTTAGAATTTTTAAAAA-TA
1 TTTAGAATTTTTAAAAATTA
18536276 TTTAGAA-TTTTAAAAATTA
1 TTTAGAATTTTTAAAAATTA
*
18536295 TTTTGAATT
1 TTTAGAATT
18536304 ATTTTATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 9 0.36
19 15 0.60
20 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (20 bp):
TTTAGAATTTTTAAAAATTA
Found at i:18537832 original size:17 final size:18
Alignment explanation
Indices: 18537799--18537833 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
18537789 TATTTGATTC
*
18537799 TAAAATATAAAATATATT
1 TAAAATATAAAAAATATT
18537817 TAAAATA-AAAAAATATT
1 TAAAATATAAAAAATATT
18537834 AAAGATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAATATAAAAAATATT
Found at i:18539684 original size:11 final size:11
Alignment explanation
Indices: 18539668--18539698 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
18539658 AGGTATAGGT
18539668 AGGTATGGGAA
1 AGGTATGGGAA
*
18539679 AGGTATGGGCA
1 AGGTATGGGAA
18539690 AGGTATGGG
1 AGGTATGGG
18539699 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:18543771 original size:18 final size:18
Alignment explanation
Indices: 18543745--18543800 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
18543735 CCAACTACTG
* *
18543745 TATACGTGAACAGTACCA
1 TATACGTGAATAGTATCA
* *
18543763 TATATGTGAATAGTATCG
1 TATACGTGAATAGTATCA
18543781 TATACGTGAATAGTATCA
1 TATACGTGAATAGTATCA
18543799 TA
1 TA
18543801 AACGGTCATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (18 bp):
TATACGTGAATAGTATCA
Found at i:18547414 original size:3 final size:3
Alignment explanation
Indices: 18547408--18547441 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
18547398 ATTATTATTA
18547408 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG -TTG TTG
18547442 ATGATTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:18549978 original size:43 final size:43
Alignment explanation
Indices: 18549930--18550017 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
18549920 ATAAAAAAAA
18549930 TCCATGTCTCGAGACTAGATCTCGAGACCAACCTCTCATGTTT
1 TCCATGTCTCGAGACTAGATCTCGAGACCAACCTCTCATGTTT
18549973 TCCATGTCTCGAGACTAGATCTCGAGACCAACCTCTCATGTTT
1 TCCATGTCTCGAGACTAGATCTCGAGACCAACCTCTCATGTTT
18550016 TC
1 TC
18550018 TTATTTTAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.31
Consensus pattern (43 bp):
TCCATGTCTCGAGACTAGATCTCGAGACCAACCTCTCATGTTT
Found at i:18551985 original size:23 final size:23
Alignment explanation
Indices: 18551932--18551996 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
18551922 TGAGTGCCGT
*
18551932 TCTAGTGTGTTTGGGTGGATTAC
1 TCTAGTGTGTTTGGTTGGATTAC
*
18551955 TCTGGTGTGTTTGGTTGGATTA-
1 TCTAGTGTGTTTGGTTGGATTAC
*
18551977 TTTCAGTGTGTTTGGTTGGA
1 TCT-AGTGTGTTTGGTTGGA
18551997 ATCCGTGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 2 0.05
23 35 0.95
ACGTcount: A:0.11, C:0.06, G:0.35, T:0.48
Consensus pattern (23 bp):
TCTAGTGTGTTTGGTTGGATTAC
Found at i:18553401 original size:4 final size:4
Alignment explanation
Indices: 18553392--18553433 Score: 75
Period size: 4 Copynumber: 10.5 Consensus size: 4
18553382 ATTCAATTTT
*
18553392 TACA TACA TACA CACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
18553434 AGATTCAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
TACA
Found at i:18559979 original size:27 final size:27
Alignment explanation
Indices: 18559856--18559978 Score: 183
Period size: 27 Copynumber: 4.6 Consensus size: 27
18559846 AGTACCCTCA
* *
18559856 ATTTATAGAATTATTGTTTTACCATTG
1 ATTTATAGAATTACTGTTTTACCCTTG
* * *
18559883 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTATAGAATTACTGTTTTACCCTTG
18559910 ATTTATAGAATTACTGTTTTACCCTTG
1 ATTTATAGAATTACTGTTTTACCCTTG
*
18559937 ATTTATAGAATTACTATTTTACCCTTG
1 ATTTATAGAATTACTGTTTTACCCTTG
*
18559964 ATTTATAAAATTACT
1 ATTTATAGAATTACT
18559979 AAAATACCCT
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (27 bp):
ATTTATAGAATTACTGTTTTACCCTTG
Found at i:18559986 original size:27 final size:27
Alignment explanation
Indices: 18559902--18560288 Score: 216
Period size: 27 Copynumber: 14.3 Consensus size: 27
18559892 ATTACCGTTT
* * ****
18559902 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTTGATTTATAAAATTACTAAAA
* ***
18559929 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTTGATTTATAAAATTACTAAAA
18559956 TACCCTTGATTTATAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* *
18559983 TACCCTT-AGTTTACAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACTAAAA
* * *
18560010 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTTGATTTA-TAAAATTACTAAAA
* * *
18560037 TACCCTAG-TTTGTAAAATTGCTAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * **
18560063 TACCCCT-AGTTTGTAAAATTACCGAAA
1 TACCCTTGA-TTTATAAAATTACTAAAA
** * * *
18560090 TACCCTCAATTTGTAAAATGACCAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * *
18560117 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACTAAAA
*
18560144 TACCAC-TGATTTGTAAAATTA-TCAAAA
1 TACC-CTTGATTTATAAAATTACT-AAAA
** *
18560171 TACCCTCAATTTGTAAAATTAGC-AAAA
1 TACCCTTGATTTATAAAATTA-CTAAAA
* * * *
18560198 TACCCCTGATTTACAAAGTTACAAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* *
18560225 TACCCTTGACTTTCTAAAAATTA-TGGAAA
1 TACCCTTGA-TTTAT-AAAATTACT-AAAA
* * * * *
18560254 TACCATTGGTTTACAAAATTATTGAAA
1 TACCCTTGATTTATAAAATTACTAAAA
18560281 TACCCTTG
1 TACCCTTG
18560289 GTTTGTAGAT
Statistics
Matches: 293, Mismatches: 48, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
26 23 0.08
27 243 0.83
28 11 0.04
29 16 0.05
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACTAAAA
Found at i:18559987 original size:54 final size:54
Alignment explanation
Indices: 18559875--18560042 Score: 160
Period size: 54 Copynumber: 3.1 Consensus size: 54
18559865 ATTATTGTTT
* * * ****
18559875 TACCATTGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACTAAAA
* * *
18559929 TACCCTTGATTTATAGAATTACTATTTTACCCTTGATTTATAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACTAAAA
* *** * *
18559983 TACCCTT-AGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAGAATTACCATTTTACCCTCGATTTA-TAAAATTACTAAAA
18560037 TACCCT
1 TACCCT
18560043 AGTTTGTAAA
Statistics
Matches: 93, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
53 3 0.03
54 90 0.97
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (54 bp):
TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACTAAAA
Found at i:18560172 original size:81 final size:80
Alignment explanation
Indices: 18559969--18560230 Score: 325
Period size: 81 Copynumber: 3.2 Consensus size: 80
18559959 CCTTGATTTA
** * **
18559969 TAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCA
1 TAAAATTACTAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCA
18560034 AAATA-CCCTAGTTTG
65 AAATACCCCTAGTTTG
* * *
18560049 TAAAATTGCTAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATGACCA
1 TAAAATTACTAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCA
18560114 AAATACCCCTAGTTTG
65 AAATACCCCTAGTTTG
* * *
18560130 TAAAATTACCAAAATACCACT-GATTTGTAAAATTATCAAAATACCCTCAATTTGTAAAATTAGC
1 TAAAATTACTAAAATACC-CTAG-TTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACC
*
18560194 AAAATACCCCT-GATT-
64 AAAATACCCCTAGTTTG
*
18560209 TACAAAGTTACAAAAATACCCT
1 TA-AAA-TTACTAAAATACCCT
18560231 TGACTTTCTA
Statistics
Matches: 160, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
79 2 0.01
80 69 0.43
81 89 0.56
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (80 bp):
TAAAATTACTAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
AATACCCCTAGTTTG
Found at i:18560207 original size:54 final size:53
Alignment explanation
Indices: 18559964--18560229 Score: 259
Period size: 54 Copynumber: 4.9 Consensus size: 53
18559954 TTTACCCTTG
* * * ** *
18559964 ATTTATAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATA-CCCTCG
1 ATTTGTAAAATTACCAAAATACCCTGA-TTTGTAAAATTACCAAAATACCCCT-A
** * *
18560018 ATCAGTAAAATTACCAAAATACCCT-AGTTTGTAAAATTGCTAAAATACCCCTA
1 ATTTGTAAAATTACCAAAATACCCTGA-TTTGTAAAATTACCAAAATACCCCTA
* * * *
18560071 GTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATGACCAAAATACCCCTA
1 ATTTGTAAAATTACCAAAATACCCT-GATTTGTAAAATTACCAAAATACCCCTA
* *
18560125 GTTTGTAAAATTACCAAAATACCACTGATTTGTAAAATTATCAAAATA-CCCTCA
1 ATTTGTAAAATTACCAAAATACC-CTGATTTGTAAAATTACCAAAATACCCCT-A
* ** * *
18560179 ATTTGTAAAATTAGCAAAATACCCCTGATTTACAAAGTTACAAAAATACCC
1 ATTTGTAAAATTACCAAAATA-CCCTGATTTGTAAAATTACCAAAATACCC
18560230 TTGACTTTCT
Statistics
Matches: 178, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
53 43 0.24
54 128 0.72
55 7 0.04
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.29
Consensus pattern (53 bp):
ATTTGTAAAATTACCAAAATACCCTGATTTGTAAAATTACCAAAATACCCCTA
Found at i:18560410 original size:27 final size:27
Alignment explanation
Indices: 18560333--18560410 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
18560323 AAATGACTAA
*
18560333 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTATAT-GGTAAAATGACCGT
* *
18560360 AA-AGCCCCTATAGGGTAAAGTGACCGT
1 AATA-CCCCTATATGGTAAAATGACCGT
*
18560387 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTATATGGTAAAATGAC
18560411 AAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (27 bp):
AATACCCCTATATGGTAAAATGACCGT
Found at i:18561270 original size:51 final size:50
Alignment explanation
Indices: 18561211--18561335 Score: 216
Period size: 51 Copynumber: 2.5 Consensus size: 50
18561201 GAGGAAGTGC
*
18561211 AAAAGGGCTTATGCCCTAGTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
18561262 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAG-TTATTGAAAAGGGCTTTGCCCCAGTTTACCG
18561313 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
18561336 AAAGAGGCTA
Statistics
Matches: 72, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
49 5 0.07
50 8 0.11
51 43 0.60
52 16 0.22
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (50 bp):
AAAAGGGCTTATGCCCCAGTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:18561271 original size:26 final size:26
Alignment explanation
Indices: 18561211--18561332 Score: 178
Period size: 25 Copynumber: 4.8 Consensus size: 26
18561201 GAGGAAGTGC
* **
18561211 AAAAGGGCTTATGCCCTAG-TTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
18561236 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
18561262 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
18561288 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
18561313 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
18561333 ATTAAAGAGG
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
25 51 0.57
26 38 0.43
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:18561536 original size:42 final size:42
Alignment explanation
Indices: 18561477--18561568 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
18561467 TAGTCTCCCC
* * ** * *
18561477 AAATGGGCTTGTATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
18561519 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
18561561 AAATGGGC
1 AAATGGGC
18561569 CTAAGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:18561669 original size:31 final size:31
Alignment explanation
Indices: 18561592--18561670 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
18561582 CGTTTACAGT
*
18561592 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
18561623 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
18561654 AAAGGCTTTGGCCCAGT
1 AAAGGCTTCGGCCCAGT
18561671 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:18562488 original size:6 final size:6
Alignment explanation
Indices: 18562473--18562505 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
18562463 ATAGGTACTG
*
18562473 ATATAT ATATAC ATATAC ATATAC ATATAC ATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATA
18562506 ATATATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAC
Found at i:18563000 original size:27 final size:27
Alignment explanation
Indices: 18562955--18563006 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
18562945 TGTACATGAT
* * *
18562955 ATATATAATATGATGTTAAGAGTATAC
1 ATATAAAATATGATATTAAAAGTATAC
*
18562982 ATATAAAATATGGTATTAAAAGTAT
1 ATATAAAATATGATATTAAAAGTAT
18563007 GTATACGTAG
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:0.48, C:0.02, G:0.13, T:0.37
Consensus pattern (27 bp):
ATATAAAATATGATATTAAAAGTATAC
Found at i:18563130 original size:17 final size:17
Alignment explanation
Indices: 18563110--18563158 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
18563100 TAATACTTCA
18563110 TAAATATATATACATAC
1 TAAATATATATACATAC
*
18563127 TAAA-A-ATATACATAA
1 TAAATATATATACATAC
18563142 T-AATAATATATACATAC
1 TAAAT-ATATATACATAC
18563159 AAAGTACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 2 0.07
15 10 0.37
16 2 0.07
17 13 0.48
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAATATATATACATAC
Found at i:18563137 original size:15 final size:17
Alignment explanation
Indices: 18563115--18563158 Score: 65
Period size: 15 Copynumber: 2.7 Consensus size: 17
18563105 CTTCATAAAT
18563115 ATATATACATACTAA-A
1 ATATATACATACTAATA
*
18563131 A-ATATACATAATAATA
1 ATATATACATACTAATA
18563147 ATATATACATAC
1 ATATATACATAC
18563159 AAAGTACACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.50
16 3 0.12
17 9 0.38
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (17 bp):
ATATATACATACTAATA
Found at i:18563205 original size:18 final size:18
Alignment explanation
Indices: 18563179--18563213 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18563169 AATATTTAAA
18563179 AATAATAATAGTAAATAT
1 AATAATAATAGTAAATAT
* *
18563197 AATACTAATATTAAATA
1 AATAATAATAGTAAATA
18563214 AAATTAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
AATAATAATAGTAAATAT
Found at i:18565411 original size:100 final size:92
Alignment explanation
Indices: 18565114--18565538 Score: 372
Period size: 89 Copynumber: 4.6 Consensus size: 92
18565104 GTGAGCCAAA
* * * * * **
18565114 GCTCAACTCACCTCTCGCCATATGAGTTGGTCTTTTTGAAACTTAATTTG---AAAAGTAG--AT
1 GCTCAACTCACTTCTCGCAATATGAGTT-G-ATTTTTGAAACATAAATTGAAAAAAAAAAGAAAT
* * **
18565174 TTTGAAAATACCTTGTCATGTGACCCGAG
64 TTTGAAAATACCTCGACATGTGGTCCGAG
* *
18565203 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATACAAATTGAAAAAAAAAAGA
1 GCTCAACTCACTTCTCGCAATATGAGTTGA---TTTTTGAAACAT--AAATTGAAAAAAAAAAGA
* *
18565268 AA--TTGAAAACT-CCTC-AGCATGTGAG-CCAAT
61 AATTTTGAAAA-TACCTCGA-CATGTG-GTCCGAG
* *
18565298 GCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGACAAACAGAAATTTGAAAAAAAAAAGAGA
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG--AAACATAAA-TTG-AAAAAAAAA-AG-
*
18565363 AAAGGTTTTGAAAATACCTCGACATGTGGTTCGAG
60 AAA--TTTTGAAAATACCTCGACATGTGGTCCGAG
* *
18565398 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTG-AAAATAACAG--ATTT
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAAAAAAAGAAATTT
*
18565460 TGAAAATACCTCGACATGTGGTTCGAG
66 TGAAAATACCTCGACATGTGGTCCGAG
* * * *
18565487 GCTCAACTTACTTCTTGTAATATGAGTTGATTCTTGAAACATAAATTGAAAA
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAA
18565539 TACCTCAACG
Statistics
Matches: 282, Mismatches: 27, Indels: 53
0.78 0.07 0.15
Matches are distributed among these distances:
88 1 0.00
89 101 0.36
90 13 0.05
91 1 0.00
92 14 0.05
93 3 0.01
94 15 0.05
95 61 0.22
96 4 0.01
97 4 0.01
98 8 0.03
99 2 0.01
100 54 0.19
101 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (92 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAAAAAAAGAAATTT
TGAAAATACCTCGACATGTGGTCCGAG
Found at i:18565764 original size:86 final size:87
Alignment explanation
Indices: 18565532--18565787 Score: 272
Period size: 91 Copynumber: 2.9 Consensus size: 87
18565522 GAAACATAAA
* * *
18565532 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
1 TTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTT
* *
18565597 GAAACACATAAATTGAAAAGCATAAT
62 GAAACACAGAAATTGAAAAGCAGAAT
* *
18565623 TTGCAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTC-GGCAATATGAGTTGATTTTTGAAA
1 TTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* *
18565687 -AGAGAAATT-AAAA-TAGAAT
66 CACAGAAATTGAAAAGCAGAAT
* * *
18565706 TTGAAAATACCTCGGCATGTGGCCCT-AGGCTCAACTCACCTCTCGTAATATGAATTGATTTTTT
1 TTGAAAATACCTCAGCATGT---CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
* *
18565770 TAAA-ACATAAATTGAAAA
62 GAAACACAGAAATTGAAAA
18565788 AACCTCGGCA
Statistics
Matches: 142, Mismatches: 17, Indels: 15
0.82 0.10 0.09
Matches are distributed among these distances:
83 22 0.15
84 4 0.03
85 23 0.16
86 24 0.17
87 15 0.11
88 4 0.03
90 14 0.10
91 36 0.25
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (87 bp):
TTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
CACAGAAATTGAAAAGCAGAAT
Found at i:18565841 original size:251 final size:247
Alignment explanation
Indices: 18565395--18565859 Score: 594
Period size: 251 Copynumber: 1.9 Consensus size: 247
18565385 CATGTGGTTC
* *
18565395 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAATAACAGATTT
1 GAGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTTTGAAACAGAAATTGAAAAT-A-AGAATT
** * * * * *
18565460 TGAAAATACCTCGACATGTGGTTCGAGGCTCAACTTACTTCTTGTAATATGAGTTGATTCTTGAA
63 TGAAAATACCTCGACATGTGGCCCGAGGCTCAACTCACCTCTCGTAATATGAATTGATTCTTAAA
* * *** * *
18565525 ACATAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
128 ACATAAATTGAAAAAACCTCAACGTGACCCAAGGCTCAACTCACCTCTAGCAATATGAATTGATT
* *
18565590 TTTTTTTGAAACACATAAATTGAAAAGCATAATTTGCAAATACCTCAGCATGTCCT
193 TTTGTTTGAAA-ACAGAAATTGAAAAGCATAATTTGCAAATACCTCAGCATGTCCT
*
18565646 GAGGCTCAACTCAC-CTCGGCAATATGAGTTGATTTTTGAAAAGAGAAATT-AAAAT-AGAATTT
1 GAGGCTCAACTCACTCTC-GCAATATGAGTTGATTTTTG-AAACAGAAATTGAAAATAAGAATTT
* * *
18565708 GAAAATACCTCGGCATGTGGCCCTAGGCTCAACTCACCTCTCGTAATATGAATTGATTTTTTTAA
64 GAAAATACCTCGACATGTGGCCCGAGGCTCAACTCACCTCTCGTAATATGAATTGA--TTCTTAA
* * *
18565773 AACATAAATTGAAAAAACCTCGGCATGTGACCCAAGGCTCAATTCACCTCTAGCAATATGAATTG
127 AACATAAATTGAAAAAACCTC--AACGTGACCCAAGGCTCAACTCACCTCTAGCAATATGAATTG
18565838 ATTTTTGTTTGAAAACAGAAAT
190 ATTTTTGTTTGAAAACAGAAAT
18565860 AAAAACATCA
Statistics
Matches: 183, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
247 54 0.30
249 28 0.15
250 32 0.17
251 69 0.38
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (247 bp):
GAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAACAGAAATTGAAAATAAGAATTTGA
AAATACCTCGACATGTGGCCCGAGGCTCAACTCACCTCTCGTAATATGAATTGATTCTTAAAACA
TAAATTGAAAAAACCTCAACGTGACCCAAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTT
GTTTGAAAACAGAAATTGAAAAGCATAATTTGCAAATACCTCAGCATGTCCT
Found at i:18565865 original size:75 final size:74
Alignment explanation
Indices: 18565694--18565864 Score: 209
Period size: 75 Copynumber: 2.3 Consensus size: 74
18565684 AAAAGAGAAA
* * * * * * *
18565694 TTAAAATAGAATTTGAAAATACCTCGGCATGTGGCCCTAGGCTCAACTCACCTCTCGTAATATGA
1 TTAAAACAGAAATT-AAAAAACCTCGGCATGTGACCCAAGGCTCAACTCACCTCTAGCAATATGA
18565759 ATTGATTTTT
65 ATTGATTTTT
* *
18565769 TTAAAACATAAATTGAAAAAACCTCGGCATGTGACCCAAGGCTCAATTCACCTCTAGCAATATGA
1 TTAAAACAGAAATT-AAAAAACCTCGGCATGTGACCCAAGGCTCAACTCACCTCTAGCAATATGA
18565834 ATTGATTTTTGT
65 ATTGA-TTTT-T
18565846 TTGAAAACAGAAA-TAAAAA
1 TT-AAAACAGAAATTAAAAA
18565865 CATCAAAATA
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
75 61 0.73
76 9 0.11
77 4 0.05
78 9 0.11
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (74 bp):
TTAAAACAGAAATTAAAAAACCTCGGCATGTGACCCAAGGCTCAACTCACCTCTAGCAATATGAA
TTGATTTTT
Found at i:18578691 original size:17 final size:17
Alignment explanation
Indices: 18578671--18578719 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
18578661 TAATACTTAA
18578671 TAAATATATATACATAC
1 TAAATATATATACATAC
*
18578688 TAAA-A-ATATACATAA
1 TAAATATATATACATAC
18578703 T-AATAATATATACATAC
1 TAAAT-ATATATACATAC
18578720 AAAGTACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 2 0.07
15 10 0.37
16 2 0.07
17 13 0.48
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAATATATATACATAC
Found at i:18578698 original size:15 final size:17
Alignment explanation
Indices: 18578676--18578719 Score: 65
Period size: 15 Copynumber: 2.7 Consensus size: 17
18578666 CTTAATAAAT
18578676 ATATATACATACTAA-A
1 ATATATACATACTAATA
*
18578692 A-ATATACATAATAATA
1 ATATATACATACTAATA
18578708 ATATATACATAC
1 ATATATACATAC
18578720 AAAGTACACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.50
16 3 0.12
17 9 0.38
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (17 bp):
ATATATACATACTAATA
Found at i:18578780 original size:16 final size:18
Alignment explanation
Indices: 18578740--18578786 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
18578730 AATATTTAAA
* *
18578740 AATAATAATAGTAAATAT
1 AATATTAATATTAAATAT
18578758 AATATTAATATTAAATA-
1 AATATTAATATTAAATAT
18578775 AA-ATTAATATTA
1 AATATTAATATTA
18578787 CAAATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 10 0.37
17 2 0.07
18 15 0.56
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AATATTAATATTAAATAT
Found at i:18581393 original size:16 final size:16
Alignment explanation
Indices: 18581374--18581406 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18581364 ATAATTTTAA
*
18581374 TTTTT-TTAAATTAAT
1 TTTTTATTAAATAAAT
18581389 TTTTTATTAAATAAAT
1 TTTTTATTAAATAAAT
18581405 TT
1 TT
18581407 ATAAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTATTAAATAAAT
Found at i:18582595 original size:18 final size:20
Alignment explanation
Indices: 18582546--18582588 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
18582536 GGCTTCAACT
18582546 CTAACGGATCCGACCAAACC
1 CTAACGGATCCGACCAAACC
18582566 CTAACGGATCCGACCAAACC
1 CTAACGGATCCGACCAAACC
18582586 CTA
1 CTA
18582589 GGATCCGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.40, G:0.14, T:0.12
Consensus pattern (20 bp):
CTAACGGATCCGACCAAACC
Found at i:18582871 original size:5 final size:5
Alignment explanation
Indices: 18582861--18582885 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18582851 TTGCATAGTA
18582861 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
18582886 GAAAGGGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:18583564 original size:11 final size:12
Alignment explanation
Indices: 18583537--18583563 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18583527 CAAAACAGAC
18583537 TTTTAGCGGCGT
1 TTTTAGCGGCGT
18583549 TTTTAGCGGCGT
1 TTTTAGCGGCGT
18583561 TTT
1 TTT
18583564 AAAAGAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:18583747 original size:115 final size:115
Alignment explanation
Indices: 18583617--18583859 Score: 294
Period size: 115 Copynumber: 2.1 Consensus size: 115
18583607 GCGCTTTTTC
* * * *
18583617 AAAAACGCCGCTAAAA-GTTTAAGCAAGACGACGTCGTTTTACATGAGCTTCATTGGCAGTAGCG
1 AAAAACGCCGCTAAAATG-TTAAACAAAACGACGTCGTTTTACATGAGCTTCAATGACAGTAGCG
* * *
18583681 GCG-TTTTCTCAAAAACGCCGTAACAGA-TCAAACTTTAGTGGCGTTTTTAAA
65 GCGCTTTCCT-AAAAACGCCGCAACA-ACTCAAACTTTAGAGGCGTTTTTAAA
* * *
18583732 AAAAACGCCGCTAAAATGTTAAACAAAACGACGTCGTTTTATATGAGCTTCAATGACATTAGTGG
1 AAAAACGCCGCTAAAATGTTAAACAAAACGACGTCGTTTTACATGAGCTTCAATGACAGTAGCGG
* ** **
18583797 CGCTTTCCTAAAAACGCCGCAATAACTCGCACTTTAGAGGCGTTTTTGTA
66 CGCTTTCCTAAAAACGCCGCAACAACTCAAACTTTAGAGGCGTTTTTAAA
*
18583847 AAAAATGCCGCTA
1 AAAAACGCCGCTA
18583860 TAGGTCGCAT
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
114 1 0.01
115 102 0.94
116 6 0.06
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (115 bp):
AAAAACGCCGCTAAAATGTTAAACAAAACGACGTCGTTTTACATGAGCTTCAATGACAGTAGCGG
CGCTTTCCTAAAAACGCCGCAACAACTCAAACTTTAGAGGCGTTTTTAAA
Found at i:18586290 original size:28 final size:28
Alignment explanation
Indices: 18586247--18586318 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
18586237 ATATTAAAAT
*
18586247 ATAATTTTT-ATATTTTCATGCT-TTTTA
1 ATAATTTTTAAT-TTTTCATACTATTTTA
*
18586274 AGTAATTTTTAATTTTTCATATTATTTTA
1 A-TAATTTTTAATTTTTCATACTATTTTA
18586303 ATAAATTTTTAATTTT
1 AT-AATTTTTAATTTT
18586319 AAAATTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 1 0.03
28 17 0.44
29 21 0.54
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (28 bp):
ATAATTTTTAATTTTTCATACTATTTTA
Found at i:18588143 original size:22 final size:22
Alignment explanation
Indices: 18588109--18588166 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
18588099 TTTTCTTGTT
* *
18588109 ATTTTCTTTTTATTTTGCGACC
1 ATTTTATTATTATTTTGCGACC
* * *
18588131 ATTTTATTATTATGTTGCTACT
1 ATTTTATTATTATTTTGCGACC
*
18588153 ATTTTATTGTTATT
1 ATTTTATTATTATT
18588167 ATTTGAATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.10, G:0.09, T:0.62
Consensus pattern (22 bp):
ATTTTATTATTATTTTGCGACC
Found at i:18588229 original size:30 final size:31
Alignment explanation
Indices: 18588195--18588258 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
18588185 ACTTATTTTA
18588195 TTGTTAA-TTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTTGTTATTATTTTAAAGACAT
* *
18588225 TTGTTAATTTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTTGTTATTATTTTAAAGACAT
18588256 TTG
1 TTG
18588259 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 24 0.77
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (31 bp):
TTGTTAATTTTTGTTATTATTTTAAAGACAT
Found at i:18588362 original size:18 final size:20
Alignment explanation
Indices: 18588341--18588381 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
18588331 GAAATATTTA
*
18588341 TTTTGATGT-TTTTA-ATAT
1 TTTTGATGTATTATATATAT
18588359 TTTTGATGTATTATATATAT
1 TTTTGATGTATTATATATAT
18588379 TTT
1 TTT
18588382 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (20 bp):
TTTTGATGTATTATATATAT
Found at i:18595810 original size:20 final size:19
Alignment explanation
Indices: 18595757--18595812 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
18595747 CTAATTAATA
* *
18595757 TGAAAAAATATGAAGTGAAT
1 TGAAAAAA-ATAAATTGAAT
18595777 TG-AAAAAA-AAATTGAAT
1 TGAAAAAAATAAATTGAAT
18595794 TGAAAAAAGATAAATTGAA
1 TGAAAAAA-ATAAATTGAA
18595813 ATGAGACTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 9 0.29
18 6 0.19
19 6 0.19
20 10 0.32
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (19 bp):
TGAAAAAAATAAATTGAAT
Found at i:18595886 original size:16 final size:16
Alignment explanation
Indices: 18595861--18595910 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
18595851 ATATTAGGAA
18595861 AAAAATAAATTTAAATG
1 AAAAA-AAATTTAAATG
18595878 AAAAAAAA-TT-AATG
1 AAAAAAAATTTAAATG
**
18595892 AAATGAAATGTTAAATG
1 AAAAAAAAT-TTAAATG
18595909 AA
1 AA
18595911 TATGAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 10 0.36
15 2 0.07
16 5 0.18
17 11 0.39
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (16 bp):
AAAAAAAATTTAAATG
Done.