Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 69 of 196
Found at i:19767715 original size:13 final size:13
Alignment explanation
Indices: 19767697--19767757 Score: 68
Period size: 13 Copynumber: 4.7 Consensus size: 13
19767687 AGCTTTTCAT
**
19767697 TGTTTTTGGGAAG
1 TGTTTTTGAAAAG
*
19767710 TGTTTTTCAAAAG
1 TGTTTTTGAAAAG
* *
19767723 TGTTGTTGAGAAG
1 TGTTTTTGAAAAG
*
19767736 TGTTTTTTAAAAG
1 TGTTTTTGAAAAG
19767749 TGTTTTTGA
1 TGTTTTTGA
19767758 GAAATTTGAG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (13 bp):
TGTTTTTGAAAAG
Found at i:19767735 original size:26 final size:26
Alignment explanation
Indices: 19767697--19767760 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
19767687 AGCTTTTCAT
*
19767697 TGTTTTTGGGAAGTGTTTTTCAAAAG
1 TGTTTTTGAGAAGTGTTTTTCAAAAG
* *
19767723 TGTTGTTGAGAAGTGTTTTTTAAAAG
1 TGTTTTTGAGAAGTGTTTTTCAAAAG
19767749 TGTTTTTGAGAA
1 TGTTTTTGAGAA
19767761 ATTTGAGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.47
Consensus pattern (26 bp):
TGTTTTTGAGAAGTGTTTTTCAAAAG
Found at i:19768011 original size:20 final size:19
Alignment explanation
Indices: 19767986--19768032 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
19767976 ATTAATTATT
19767986 TATAAAATTTAATTAGAATA
1 TATAAAATTTAATTA-AATA
* * *
19768006 TATAAACTATATTTAAATA
1 TATAAAATTTAATTAAATA
19768025 TA-AAAATT
1 TATAAAATT
19768033 AAAAATTTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 4 0.18
19 6 0.27
20 12 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TATAAAATTTAATTAAATA
Found at i:19774943 original size:18 final size:17
Alignment explanation
Indices: 19774903--19774944 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
19774893 CACTAATTTT
*
19774903 TATATATTGAGCTTATA
1 TATATATTGAGCCTATA
*
19774920 TAATATATTGGGCCTATA
1 T-ATATATTGAGCCTATA
19774938 -ATATATT
1 TATATATT
19774945 ATTATTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 1 0.05
18 14 0.64
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (17 bp):
TATATATTGAGCCTATA
Found at i:19777136 original size:20 final size:20
Alignment explanation
Indices: 19777113--19777161 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
19777103 TTAAGGTTCA
19777113 CAAACTAACACTAAGCTTTG
1 CAAACTAACACTAAGCTTTG
19777133 CAAACTAACACTAAGCTTTG
1 CAAACTAACACTAAGCTTTG
19777153 CAAACTAAC
1 CAAACTAAC
19777162 TCTATGTTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.27, G:0.08, T:0.22
Consensus pattern (20 bp):
CAAACTAACACTAAGCTTTG
Found at i:19777259 original size:21 final size:20
Alignment explanation
Indices: 19777211--19777260 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
19777201 TGTCAAGCTC
*
19777211 TCTATGAGGACATTGTGAGG
1 TCTATGAGGACATTGTAAGG
**
19777231 TCCGTGAGGTACATTGTAAGG
1 TCTATGAGG-ACATTGTAAGG
19777252 TCTATGAGG
1 TCTATGAGG
19777261 CTCGCTAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.24, C:0.12, G:0.34, T:0.30
Consensus pattern (20 bp):
TCTATGAGGACATTGTAAGG
Found at i:19777977 original size:16 final size:16
Alignment explanation
Indices: 19777936--19777990 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
19777926 GTTTGATTCA
19777936 CTGTAATGGAATAAAG
1 CTGTAATGGAATAAAG
* *
19777952 GTATAATGGAATAAAG
1 CTGTAATGGAATAAAG
* *
19777968 CTGTAGTGGAATATAG
1 CTGTAATGGAATAAAG
*
19777984 TTGTAAT
1 CTGTAAT
19777991 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAAAG
Found at i:19779174 original size:12 final size:12
Alignment explanation
Indices: 19779159--19779192 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
19779149 ACCGTGTGCC
*
19779159 AGGCCATGTGGT
1 AGGCCGTGTGGT
19779171 AGGCCGTGTGGT
1 AGGCCGTGTGGT
19779183 AGGCCGTGTG
1 AGGCCGTGTG
19779193 TGACACATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.12, C:0.18, G:0.47, T:0.24
Consensus pattern (12 bp):
AGGCCGTGTGGT
Found at i:19780494 original size:59 final size:60
Alignment explanation
Indices: 19780415--19780574 Score: 164
Period size: 59 Copynumber: 2.6 Consensus size: 60
19780405 TTAATAGGAA
* * * * *
19780415 TATTATTAAATATAACTTAATAAAAAATAATA-AGTAATTTAATCATATT-TTAATATTAT
1 TATTATGAAATACAACTTAATAAAAAATAATATA-TAATTTAATAACATTCTTAATATAAT
* *
19780474 TATTATGAAATACAATTTAATAAAAAATAATATATAATTTAGTAACATTCTTAATATAAT
1 TATTATGAAATACAACTTAATAAAAAATAATATATAATTTAATAACATTCTTAATATAAT
* * *
19780534 TATTATTAAAATATGAA-TTAATAAAAATAAAAATATATAAT
1 TATTA-TGAAATA-CAACTTAAT-AAAA-AATAATATATAAT
19780575 ATTAGAAAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
59 41 0.48
60 15 0.18
61 11 0.13
62 6 0.07
63 12 0.14
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (60 bp):
TATTATGAAATACAACTTAATAAAAAATAATATATAATTTAATAACATTCTTAATATAAT
Found at i:19781571 original size:27 final size:27
Alignment explanation
Indices: 19781540--19781593 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
19781530 TGGACAAAAC
19781540 AAGATAATAAATATAGGAAATAATTCT
1 AAGATAATAAATATAGGAAATAATTCT
19781567 AAGATAATAAATATAGGAAATAATTCT
1 AAGATAATAAATATAGGAAATAATTCT
19781594 TACACTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.04, G:0.11, T:0.30
Consensus pattern (27 bp):
AAGATAATAAATATAGGAAATAATTCT
Found at i:19784968 original size:104 final size:106
Alignment explanation
Indices: 19784778--19784983 Score: 267
Period size: 104 Copynumber: 1.9 Consensus size: 106
19784768 AGAAAACTTC
*
19784778 GATATGTTGTTTCTTGCTCTCTGTCTCTCTCTCTTTGTAAGAAATTACACCCCAAATAGACCAAA
1 GATATGTTGTTTCTTGCTCTC-GTCTCTCTCTC-TTATAAGAAATTACACCCCAAATAGACCAAA
* * * * *
19784843 AGTAGGGATTATATGGATTTGAAAACCTCCGGGGTTAGAACAA
64 AGCAAGAATTATATCGATTTGAAAACCTCCGAGGTTAGAACAA
*
19784886 GATATGTTGTTTTTTGCTCTC-TCTCTCTCTC-TATAA-ACAATTACACCCCAAATAGACCAAAA
1 GATATGTTGTTTCTTGCTCTCGTCTCTCTCTCTTATAAGA-AATTACACCCCAAATAGACCAAAA
* *
19784948 GCAAGAATTATA-CGATTTTGAGAACCTTCGAGGTTA
65 GCAAGAATTATATCGA-TTTGAAAACCTCCGAGGTTA
19784984 AAATAACTAA
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
103 3 0.03
104 54 0.62
106 10 0.11
108 20 0.23
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (106 bp):
GATATGTTGTTTCTTGCTCTCGTCTCTCTCTCTTATAAGAAATTACACCCCAAATAGACCAAAAG
CAAGAATTATATCGATTTGAAAACCTCCGAGGTTAGAACAA
Found at i:19785422 original size:27 final size:27
Alignment explanation
Indices: 19785392--19785487 Score: 68
Period size: 27 Copynumber: 3.6 Consensus size: 27
19785382 TGGCGAACTA
19785392 GTATATGCCAACAAGTCTGGCAAGATG
1 GTATATGCCAACAAGTCTGGCAAGATG
* * * *
19785419 GTATAAT-TCAGCAAGTCAGGCAAGATA
1 GTAT-ATGCCAACAAGTCTGGCAAGATG
* * * * * *
19785446 GAATCTGCTAACAGGTCTAGCGAGATG
1 GTATATGCCAACAAGTCTGGCAAGATG
* *
19785473 GTATACGTCAACAAG
1 GTATATGCCAACAAG
19785488 ATTGATGCGA
Statistics
Matches: 47, Mismatches: 20, Indels: 4
0.66 0.28 0.06
Matches are distributed among these distances:
26 1 0.02
27 44 0.94
28 2 0.04
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GTATATGCCAACAAGTCTGGCAAGATG
Found at i:19789904 original size:23 final size:23
Alignment explanation
Indices: 19789874--19789921 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
19789864 TTGGGCACAT
19789874 AGCCGAAGTCAGGATATTAAGTA
1 AGCCGAAGTCAGGATATTAAGTA
*
19789897 AGCCGAAGTCGGGATATTAAGTA
1 AGCCGAAGTCAGGATATTAAGTA
19789920 AG
1 AG
19789922 AATTGATCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (23 bp):
AGCCGAAGTCAGGATATTAAGTA
Found at i:19792506 original size:27 final size:27
Alignment explanation
Indices: 19792463--19792599 Score: 148
Period size: 27 Copynumber: 5.0 Consensus size: 27
19792453 AATACGTTAG
**
19792463 GAAAGAAAAAGCCTTTGTGATGAACTCT
1 GAAAG-AAAAGCCTTTGTGGCGAACTCT
*
19792491 GAAAGAAAAACCTTTGTGGCGAACTCT
1 GAAAGAAAAGCCTTTGTGGCGAACTCT
* * * **
19792518 AAAAGGAAAGCCTTTGTGGTGAGTTCT
1 GAAAGAAAAGCCTTTGTGGCGAACTCT
* *
19792545 GAAAGAAGAGCCTTTATGGCGAACTCT
1 GAAAGAAAAGCCTTTGTGGCGAACTCT
* * *
19792572 AAAAGAAGAGCCTTTGTGGCGAAATCT
1 GAAAGAAAAGCCTTTGTGGCGAACTCT
19792599 G
1 G
19792600 GATGAATTGT
Statistics
Matches: 89, Mismatches: 20, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
27 84 0.94
28 5 0.06
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGCGAACTCT
Found at i:19792546 original size:54 final size:53
Alignment explanation
Indices: 19792470--19792599 Score: 170
Period size: 54 Copynumber: 2.4 Consensus size: 53
19792460 TAGGAAAGAA
* *
19792470 AAAGCCTTTGTGATGAACTCTGAAAGAAAAACCTTTGTGGCGAACTCTAAAAGG
1 AAAGCCTTTGTGGTGAACTCTGAAAGAAAAACCTTTATGGCGAACTCTAAAA-G
** * *
19792524 AAAGCCTTTGTGGTGAGTTCTGAAAGAAGAGCCTTTATGGCGAACTCTAAAAG
1 AAAGCCTTTGTGGTGAACTCTGAAAGAAAAACCTTTATGGCGAACTCTAAAAG
* *
19792577 AAGAGCCTTTGTGGCGAAATCTG
1 AA-AGCCTTTGTGGTGAACTCTG
19792600 GATGAATTGT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
53 3 0.05
54 63 0.95
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (53 bp):
AAAGCCTTTGTGGTGAACTCTGAAAGAAAAACCTTTATGGCGAACTCTAAAAG
Found at i:19793759 original size:105 final size:105
Alignment explanation
Indices: 19793577--19793784 Score: 391
Period size: 105 Copynumber: 2.0 Consensus size: 105
19793567 TCCTTTCCTT
19793577 TACTCATTTTAAATATCCAAATAAAAGAATATAATTTCCTTTCCTATCTATTCCTCTCATTTCTT
1 TACTCATTTTAAATATCCAAATAAAAGAATATAATTTCCTTTCCTATCTATTCCTCTCATTTCTT
19793642 CTTCTTTGTTTTTTTTTTCTTTTTC-TTTTTGCTTTACTGA
66 CTTCTTTG-TTTTTTTTTCTTTTTCTTTTTTGCTTTACTGA
19793682 TACTCATTTTAAATATCCAAATAAAAGAATATAATTTCCTTTCCTATCTATTCCTCTCATTTCTT
1 TACTCATTTTAAATATCCAAATAAAAGAATATAATTTCCTTTCCTATCTATTCCTCTCATTTCTT
19793747 CTTCTTTGTTTTTTTTTCTTTTTCTTTTTTTGCTTTAC
66 CTTCTTTGTTTTTTTTTCTTTTTC-TTTTTTGCTTTAC
19793785 GGACTTGAAT
Statistics
Matches: 101, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
104 16 0.16
105 73 0.72
106 12 0.12
ACGTcount: A:0.22, C:0.19, G:0.03, T:0.56
Consensus pattern (105 bp):
TACTCATTTTAAATATCCAAATAAAAGAATATAATTTCCTTTCCTATCTATTCCTCTCATTTCTT
CTTCTTTGTTTTTTTTTCTTTTTCTTTTTTGCTTTACTGA
Found at i:19797245 original size:44 final size:45
Alignment explanation
Indices: 19797182--19797345 Score: 127
Period size: 45 Copynumber: 3.7 Consensus size: 45
19797172 GCTTCAATCC
** * * *
19797182 ACTCCACTGCAATGCCAGGGAGATAGGATTTG-TTTATTCGGTCT
1 ACTCCACTGCAATTTCAGGGAGATAAGACTTGCTGTATTCGGTCT
* * * *
19797226 GC-CCTACTGCAATTTCAGGGGGATAAGACTTGCTGTCTTGGGTCT
1 ACTCC-ACTGCAATTTCAGGGAGATAAGACTTGCTGTATTCGGTCT
* * * *
19797271 ACTCCACTGCAACTTCAGGGAGATAAAACTTGCTTTCTT-GAGTCT
1 ACTCCACTGCAATTTCAGGGAGATAAGACTTGCTGTATTCG-GTCT
* * ** *
19797316 GCCCCACTGCAACCTCAGGGGGATAAGACT
1 ACTCCACTGCAATTTCAGGGAGATAAGACT
19797346 AGATGCGATT
Statistics
Matches: 97, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
43 2 0.02
44 24 0.25
45 69 0.71
46 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.28
Consensus pattern (45 bp):
ACTCCACTGCAATTTCAGGGAGATAAGACTTGCTGTATTCGGTCT
Found at i:19797282 original size:45 final size:45
Alignment explanation
Indices: 19797222--19797557 Score: 167
Period size: 45 Copynumber: 7.7 Consensus size: 45
19797212 TGTTTATTCG
* * * *
19797222 GTCTGCCCTACTGCAATTTCAGGGGGATAAGACTTGCTGTCTTGG
1 GTCTACCCCACTGCAACTTCAGGGGGATAAGACTTGCTGTCTTGA
* * * *
19797267 GTCTACTCCACTGCAACTTCAGGGAGATAAAACTTGCTTTCTTGA
1 GTCTACCCCACTGCAACTTCAGGGGGATAAGACTTGCTGTCTTGA
* * * *
19797312 GTCTGCCCCACTGCAACCTCAGGGGGATAAGACTAGATG-C--GA
1 GTCTACCCCACTGCAACTTCAGGGGGATAAGACTTGCTGTCTTGA
** * * * * * *
19797354 -T-TTGCTCTCTGCAACTGCAGAGAGATAAGA--T-CTGT-TTTA
1 GTCTACCCCACTGCAACTTCAGGGGGATAAGACTTGCTGTCTTGA
* * * * * * ** * *
19797393 ATTTGCTCCACTGCAACTTCAGGGAGATAGGA-TTATTGGCTTCA
1 GTCTACCCCACTGCAACTTCAGGGGGATAAGACTTGCTGTCTTGA
* * * * ** *
19797437 ATCTACTCCACTGCAACTTCAGGGAGATAAGA-TTCACCATCTTCA
1 GTCTACCCCACTGCAACTTCAGGGGGATAAGACTT-GCTGTCTTGA
* * *
19797482 GTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCT-TACTT-A
1 GTCTACCCCACTGCAACTTCAGGGGGATAAGACTTGCTGT-CTTGA
* * * *
19797526 GTCTGCTCCACTGCAACTTCAGAGAGATAAGA
1 GTCTACCCCACTGCAACTTCAGGGGGATAAGA
19797558 TTTGTGATTT
Statistics
Matches: 222, Mismatches: 58, Indels: 23
0.73 0.19 0.08
Matches are distributed among these distances:
37 2 0.01
39 1 0.00
40 22 0.10
41 22 0.10
42 3 0.01
43 2 0.01
44 64 0.29
45 104 0.47
46 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (45 bp):
GTCTACCCCACTGCAACTTCAGGGGGATAAGACTTGCTGTCTTGA
Found at i:19797451 original size:44 final size:44
Alignment explanation
Indices: 19797272--19797647 Score: 251
Period size: 44 Copynumber: 8.7 Consensus size: 44
19797262 CTTGGGTCTA
* * * * *
19797272 CTCCACTGCAACTTCAGGGAGATAAAACTTGCTT-TCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TT-ATTGACTTCAATCTG
* * * * * * *
19797317 CCCCACTGCAACCTCAGGGGGATAAGACTA--GA-TGCGATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGACTTCAATCTG
* * * * *
19797358 CT-CTCTGCAACTGCAGAGAGATAAGATCTGTT---TT-AATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATTGACTTCAATCTG
* * *
19797398 CTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGACTTCAATCTG
** *
19797442 CTCCACTGCAACTTCAGGGAGATAAGATTCA-CCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATT-ATTGA-CTTCAATCTG
* *
19797487 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTT-ACTT-AGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TT-ATTGACTTCAATCTG
* * * *
19797531 CTCCACTGCAACTTCAGAGAGATAAGATT-TGTGATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT-TGACTTCAATCTG
* * * * *
19797575 CTCCACTACAACTTCAAGGAGATAGGATTATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGACTTCAATCTG
19797619 CTCCACTGCAACTTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
19797648 TGTATCTTCG
Statistics
Matches: 258, Mismatches: 52, Indels: 43
0.73 0.15 0.12
Matches are distributed among these distances:
40 29 0.11
41 29 0.11
42 1 0.00
43 7 0.03
44 129 0.50
45 60 0.23
46 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATTGACTTCAATCTG
Found at i:19797631 original size:177 final size:169
Alignment explanation
Indices: 19797268--19797647 Score: 481
Period size: 177 Copynumber: 2.2 Consensus size: 169
19797258 CTGTCTTGGG
* * ** *
19797268 TCTACTCCACTGCAACTTCAGGGAGATAAAACTTGCTTTCTTGAGTCTGCCCCACTGCAACCTCA
1 TCTACTCCACTGCAACTTCAGGGAGATAAGA-TTACCATCTTCAGTCTGCCCCACTGCAACCTCA
* * * * **
19797333 GGGGGATAAGACTAGATGCGATTTGCTCTCTGCAACTGCAGAGAGATAAGATCTGTTTTAATTTG
65 GGAGGATAAGACTAGATACGATCTGCTCACTGCAACTGCAGAGAGATAAGATCTGTTTTAATCCG
* *
19797398 CTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTCAA
130 CTCCACTACAACTTCAAGGAGATAGGATTATTGGCTTCAA
* *
19797438 TCTACTCCACTGCAACTTCAGGGAGATAAGATTCACCATCTTCAGTCTGCCTCACTGCAACTTCA
1 TCTACTCCACTGCAACTTCAGGGAGATAAGATT-ACCATCTTCAGTCTGCCCCACTGCAACCTCA
* * * * *
19797503 GGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGATTT
65 GGAGGATAAGACTAG-ATAC-GA-TCTGCT-CACTGCAACTGCAGAGAGATAAGA--TCTG-TTT
*
19797568 TAATCCGCTCCACTACAACTTCAAGGAGATAGGATTATTGGCTTTAA
123 TAATCCGCTCCACTACAACTTCAAGGAGATAGGATTATTGGCTTCAA
*
19797615 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 TCTACTCCACTGCAACTTCAGGGAGATAAGATT
19797648 TGTATCTTCG
Statistics
Matches: 180, Mismatches: 22, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
169 2 0.01
170 68 0.38
171 2 0.01
172 1 0.01
173 5 0.03
174 22 0.12
176 3 0.02
177 77 0.43
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (169 bp):
TCTACTCCACTGCAACTTCAGGGAGATAAGATTACCATCTTCAGTCTGCCCCACTGCAACCTCAG
GAGGATAAGACTAGATACGATCTGCTCACTGCAACTGCAGAGAGATAAGATCTGTTTTAATCCGC
TCCACTACAACTTCAAGGAGATAGGATTATTGGCTTCAA
Found at i:19797707 original size:44 final size:44
Alignment explanation
Indices: 19797657--19798087 Score: 491
Period size: 44 Copynumber: 9.8 Consensus size: 44
19797647 TTGTATCTTC
*
19797657 GATCTACTTCATGCCAATACATGAAGACAAGATCTACTACCTTT
1 GATCTACTTCATGCCAATACATGAAGACAAGATCTTCTACCTTT
* *
19797701 GATCTACTTCATACCAATACATGAAGACAAGATCTTCTACCCTT
1 GATCTACTTCATGCCAATACATGAAGACAAGATCTTCTACCTTT
* * * *
19797745 GATCTACTTCATACCGATACATGAAGACAAGATCCGTT-T-TCTTC
1 GATCTACTTCATGCCAATACATGAAGACAAGAT-C-TTCTACCTTT
* *
19797789 GATCTACTTCACGCTAATACATGAAGACAAGATCTTCTACCTTT
1 GATCTACTTCATGCCAATACATGAAGACAAGATCTTCTACCTTT
* * * *
19797833 GATCTACTTCATGTCGATACATGAAGACAAGATCCATT-T-TCTTC
1 GATCTACTTCATGCCAATACATGAAGACAAGAT-C-TTCTACCTTT
**
19797877 GATCTACTTCATGCCAATACATGAAGACAAGATCTTCTACCAAT
1 GATCTACTTCATGCCAATACATGAAGACAAGATCTTCTACCTTT
* * * * *
19797921 GATCTACTTCATGTCGATACATGAAGAAAAGATCGGTT-T-TCTTC
1 GATCTACTTCATGCCAATACATGAAGACAAGATC--TTCTACCTTT
* *
19797965 GATCTACTTTACGCCAATACATGAAGACAAGATCTTCTACCTTT
1 GATCTACTTCATGCCAATACATGAAGACAAGATCTTCTACCTTT
* * * *
19798009 GATATACTTCATGCCGATACATGAAGACAAGATCCGTT-T-TCTTC
1 GATCTACTTCATGCCAATACATGAAGACAAGAT-C-TTCTACCTTT
*
19798053 GATCTACTTCACGCCAATACATGAAGACAAGATCT
1 GATCTACTTCATGCCAATACATGAAGACAAGATCT
19798088 GCTATCTCCA
Statistics
Matches: 325, Mismatches: 48, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
42 7 0.02
43 6 0.02
44 297 0.91
45 7 0.02
46 8 0.02
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (44 bp):
GATCTACTTCATGCCAATACATGAAGACAAGATCTTCTACCTTT
Found at i:19797808 original size:88 final size:88
Alignment explanation
Indices: 19797657--19798087 Score: 664
Period size: 88 Copynumber: 4.9 Consensus size: 88
19797647 TTGTATCTTC
* *** ** * **
19797657 GATCTACTTCATGCCAATACATGAAGACAAGATCTACTACCTTTGATCTACTTCATACCAATACA
1 GATCTACTTCATGCCGATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACA
*
19797722 TGAAGACAAGATCTTCTACCCTT
66 TGAAGACAAGATCTTCTACCTTT
* *
19797745 GATCTACTTCATACCGATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCTAATACA
1 GATCTACTTCATGCCGATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACA
19797810 TGAAGACAAGATCTTCTACCTTT
66 TGAAGACAAGATCTTCTACCTTT
* * *
19797833 GATCTACTTCATGTCGATACATGAAGACAAGATCCATTTTCTTCGATCTACTTCATGCCAATACA
1 GATCTACTTCATGCCGATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACA
**
19797898 TGAAGACAAGATCTTCTACCAAT
66 TGAAGACAAGATCTTCTACCTTT
* * * *
19797921 GATCTACTTCATGTCGATACATGAAGAAAAGATCGGTTTTCTTCGATCTACTTTACGCCAATACA
1 GATCTACTTCATGCCGATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACA
19797986 TGAAGACAAGATCTTCTACCTTT
66 TGAAGACAAGATCTTCTACCTTT
*
19798009 GATATACTTCATGCCGATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACA
1 GATCTACTTCATGCCGATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACA
19798074 TGAAGACAAGATCT
66 TGAAGACAAGATCT
19798088 GCTATCTCCA
Statistics
Matches: 312, Mismatches: 31, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 312 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (88 bp):
GATCTACTTCATGCCGATACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCACGCCAATACA
TGAAGACAAGATCTTCTACCTTT
Found at i:19814237 original size:20 final size:19
Alignment explanation
Indices: 19814214--19814255 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
19814204 TAAAGAAAGT
19814214 AAAT-AAAATGGAAAGTAATG
1 AAATGAAAAT-GAAAGTAA-G
*
19814234 AAATGCAAATGAAAGTAAG
1 AAATGAAAATGAAAGTAAG
19814253 AAA
1 AAA
19814256 ATTTGAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.62, C:0.02, G:0.19, T:0.17
Consensus pattern (19 bp):
AAATGAAAATGAAAGTAAG
Found at i:19815447 original size:30 final size:28
Alignment explanation
Indices: 19815394--19815451 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
19815384 CACGGCCTAA
* *
19815394 GACACACGCCTGTGTCTCAGCCGTGTGT
1 GACACACGCCTGTGACACAGCCGTGTGT
19815422 GACACACGGCCATGTGACACAGCCGTGTGT
1 GACACAC-GCC-TGTGACACAGCCGTGTGT
19815452 CTACTTTAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 7 0.27
29 3 0.12
30 16 0.62
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.21
Consensus pattern (28 bp):
GACACACGCCTGTGACACAGCCGTGTGT
Found at i:19818893 original size:9 final size:9
Alignment explanation
Indices: 19818879--19818936 Score: 73
Period size: 9 Copynumber: 6.4 Consensus size: 9
19818869 TTTGGTTAAA
19818879 AATTAACCG
1 AATTAACCG
19818888 AATTAACCG
1 AATTAACCG
*
19818897 AATTACCCG
1 AATTAACCG
*
19818906 AATTACCCG
1 AATTAACCG
19818915 AATT-ACTCG
1 AATTAAC-CG
*
19818924 AATTAACTG
1 AATTAACCG
19818933 AATT
1 AATT
19818937 GAATCACTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
8 1 0.02
9 41 0.93
10 2 0.05
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:19821160 original size:20 final size:20
Alignment explanation
Indices: 19821135--19821173 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
19821125 TTGGTTAATA
19821135 TTTTGATTATTTTCTTTTTC
1 TTTTGATTATTTTCTTTTTC
19821155 TTTTGATTATTTTCTTTTT
1 TTTTGATTATTTTCTTTTT
19821174 AATTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.08, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTTGATTATTTTCTTTTTC
Found at i:19824199 original size:27 final size:27
Alignment explanation
Indices: 19824161--19824215 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
19824151 TTTATATGTT
19824161 ATAACATTATTGATCTTTCTTGGAGTC
1 ATAACATTATTGATCTTTCTTGGAGTC
* *
19824188 ATAACTTTATTGATCTTTTTTGGAGTC
1 ATAACATTATTGATCTTTCTTGGAGTC
19824215 A
1 A
19824216 AGTCAAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (27 bp):
ATAACATTATTGATCTTTCTTGGAGTC
Found at i:19824537 original size:129 final size:129
Alignment explanation
Indices: 19824377--19824622 Score: 316
Period size: 129 Copynumber: 1.9 Consensus size: 129
19824367 TCGAAGCTAC
* * * * * * * *
19824377 TATACTAGCACACATAGTTCATCATCGGATAAAAC-CAAAGAAAATATACTGGCACATATAGTGC
1 TATACTAACACAAACAGTGCATCATCAGAT-AAACTCAAA-AAAATATACTGGCACACACAATGC
* *
19824441 ATCATTAGATATA-CGAAGCAAAGATACTGGCACACACAGTGTATCATCGGATATACCAAAGAAA
64 ATCATCAGATATATCGAAGCAAAGATACTGGCACACACAGTGCATCATCGGATATACCAAAGAAA
19824505 A
129 A
* * *
19824506 TATACTAACACAAACAGTGCATCATCAGATAAACTGAAAAAAATATGCTGGCAGACACAATGCAT
1 TATACTAACACAAACAGTGCATCATCAGATAAACTCAAAAAAATATACTGGCACACACAATGCAT
* * *
19824571 CATCGGATATATCGAAGCAAATATACTGGCAGACACAGTGCATCATCGGATA
66 CATCAGATATATCGAAGCAAAGATACTGGCACACACAGTGCATCATCGGATA
19824623 AACCGAAGTA
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
128 34 0.34
129 65 0.66
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (129 bp):
TATACTAACACAAACAGTGCATCATCAGATAAACTCAAAAAAATATACTGGCACACACAATGCAT
CATCAGATATATCGAAGCAAAGATACTGGCACACACAGTGCATCATCGGATATACCAAAGAAAA
Found at i:19824630 original size:43 final size:43
Alignment explanation
Indices: 19824377--19824630 Score: 249
Period size: 43 Copynumber: 5.9 Consensus size: 43
19824367 TCGAAGCTAC
* * * *
19824377 TATACTAGCACACATAGTTCATCATCGGATAAAACCAAAGAAAA
1 TATACTGGCACACACAGTGCATCATCGGAT-AAACCGAAGAAAA
* * ** * *
19824421 TATACTGGCACATATAGTGCATCATTAGATATA-CGAAGCAAA
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGAAAA
* * * *
19824463 GATACTGGCACACACAGTGTATCATCGGATATACCAAAGAAAA
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGAAAA
** * * * *
19824506 TATACTAACACAAACAGTGCATCATCAGATAAACTGAAAAAAA
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGAAAA
* * * * * *
19824549 TATGCTGGCAGACACAATGCATCATCGGATATATCGAAGCAAA
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGAAAA
*
19824592 TATACTGGCAGACACAGTGCATCATCGGATAAACCGAAG
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAG
19824631 TATAACCTGT
Statistics
Matches: 167, Mismatches: 42, Indels: 3
0.79 0.20 0.01
Matches are distributed among these distances:
42 34 0.20
43 108 0.65
44 25 0.15
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (43 bp):
TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGAAAA
Found at i:19829070 original size:15 final size:14
Alignment explanation
Indices: 19829045--19829080 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
19829035 AAAAATATGT
19829045 TATTTTTAATTTAA
1 TATTTTTAATTTAA
19829059 TATTTATTAATTTAA
1 TATTT-TTAATTTAA
*
19829074 TGTTTTT
1 TATTTTT
19829081 TTGTGAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (14 bp):
TATTTTTAATTTAA
Found at i:19829547 original size:3 final size:3
Alignment explanation
Indices: 19829539--19829578 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
19829529 AAGTTACATG
19829539 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
19829579 GGTAGTGGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19830065 original size:30 final size:30
Alignment explanation
Indices: 19830031--19830087 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
19830021 TATTTTTATA
*
19830031 TTAATTATATTAT-GAGAAAGTATGTTTTTG
1 TTAATTATATTATGGA-AAAGTAAGTTTTTG
19830061 TTAATTATATTATGGAAAAGTAAGTTT
1 TTAATTATATTATGGAAAAGTAAGTTT
19830088 ACATTTTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (30 bp):
TTAATTATATTATGGAAAAGTAAGTTTTTG
Found at i:19830733 original size:2 final size:2
Alignment explanation
Indices: 19830728--19830761 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
19830718 CCTAACCTAA
19830728 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19830762 TCCTTTTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19833927 original size:4 final size:4
Alignment explanation
Indices: 19833918--19833951 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
19833908 AAGTTTTATT
19833918 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
19833952 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:19833959 original size:22 final size:22
Alignment explanation
Indices: 19833901--19833960 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
19833891 AAGTGGCCCA
*
19833901 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
19833925 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
19833946 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
19833961 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:19839334 original size:4 final size:4
Alignment explanation
Indices: 19839325--19839358 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
19839315 AAGTTTTATT
19839325 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
19839359 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:19839366 original size:22 final size:22
Alignment explanation
Indices: 19839308--19839367 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
19839298 AAGTGGCCCA
*
19839308 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
19839332 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
19839353 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
19839368 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:19841569 original size:17 final size:18
Alignment explanation
Indices: 19841539--19841572 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
19841529 ATTTAAATTG
19841539 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
19841557 CGGTCGC-GTCGCGTTT
1 CGGTCGCGGTCGCGTTT
19841573 GTCGCGGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.00, C:0.29, G:0.38, T:0.32
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:19843394 original size:14 final size:14
Alignment explanation
Indices: 19843356--19843398 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
19843346 TAAAATGTAC
19843356 AATATAATTAAA-T
1 AATATAATTAAATT
19843369 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
19843384 AA-ATAATTTAATT
1 AATATAATTAAATT
19843397 AA
1 AA
19843399 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:19845879 original size:3 final size:3
Alignment explanation
Indices: 19845871--19845919 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
19845861 TAAAACAATT
** **
19845871 TAA TAA TAA TAA TAA TAA TGG TAA TGG TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19845919 T
1 T
19845920 GATGAAGATG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:19852683 original size:21 final size:21
Alignment explanation
Indices: 19852657--19852700 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
19852647 TTCCGTCTTC
19852657 TGATATTTTATCAACAAAAAT
1 TGATATTTTATCAACAAAAAT
19852678 TGATATTTTATCAACAAAAAT
1 TGATATTTTATCAACAAAAAT
19852699 TG
1 TG
19852701 GATCTTACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (21 bp):
TGATATTTTATCAACAAAAAT
Found at i:19854567 original size:17 final size:16
Alignment explanation
Indices: 19854523--19854584 Score: 54
Period size: 17 Copynumber: 3.8 Consensus size: 16
19854513 TTCAACAATT
19854523 AATTAATT-ATTTAAA
1 AATTAATTAATTTAAA
* **
19854538 ATTTTAAAAAATTTAAA
1 A-ATTAATTAATTTAAA
*
19854555 AATATATTTAATTTTAAA
1 AAT-TAATTAA-TTTAAA
19854573 AATTAATTAATT
1 AATTAATTAATT
19854585 GATTATGTGG
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
15 1 0.03
16 7 0.20
17 18 0.51
18 9 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTAATTAATTTAAA
Found at i:19854570 original size:18 final size:17
Alignment explanation
Indices: 19854549--19854584 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
19854539 TTTTAAAAAA
*
19854549 TTTAAAAATATATTTAAT
1 TTTAAAAAT-TAATTAAT
19854567 TTTAAAAATTAATTAAT
1 TTTAAAAATTAATTAAT
19854584 T
1 T
19854585 GATTATGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAAAAATTAATTAAT
Found at i:19857990 original size:35 final size:35
Alignment explanation
Indices: 19857897--19857996 Score: 110
Period size: 35 Copynumber: 2.8 Consensus size: 35
19857887 ATATTATCTG
* * *
19857897 ATTAACGTGTTTCGGTTTGACTTAGCTCTTATGAGC
1 ATTAGCGTGTTTCGGTTAGAC-TAACTCTTATGAGC
*
19857933 ATTAGCGTGTTTCGGTTAGACTAACTCTTATGAGT
1 ATTAGCGTGTTTCGGTTAGACTAACTCTTATGAGC
* * * * *
19857968 ATTGGCGTTTTTTGGTTGGACTATCTCTT
1 ATTAGCGTGTTTCGGTTAGACTAACTCTT
19857997 GGGAGCATAT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
35 36 0.65
36 19 0.35
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.44
Consensus pattern (35 bp):
ATTAGCGTGTTTCGGTTAGACTAACTCTTATGAGC
Found at i:19870549 original size:48 final size:47
Alignment explanation
Indices: 19870494--19870610 Score: 146
Period size: 50 Copynumber: 2.4 Consensus size: 47
19870484 CTTATTCATC
*
19870494 AATTTGGACAGCATTTATATACCAAACAA-GACAGCATTTTCACACCAA
1 AATTTGGACAGCATATATATA-C-AACAATGACAGCATTTTCACACCAA
* *
19870542 AATTTGGACAGCATATATATACAACAATTTGGGCAGCATTTTTACACCAA
1 AATTTGGACAGCATATATATACAACAA--T-GACAGCATTTTCACACCAA
*
19870592 AAATTGGACAGCATATATA
1 AATTTGGACAGCATATATA
19870611 CAAAAATTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
46 5 0.08
47 1 0.02
48 20 0.33
50 35 0.57
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (47 bp):
AATTTGGACAGCATATATATACAACAATGACAGCATTTTCACACCAA
Found at i:19870555 original size:25 final size:24
Alignment explanation
Indices: 19870494--19870605 Score: 88
Period size: 25 Copynumber: 4.6 Consensus size: 24
19870484 CTTATTCATC
*
19870494 AATTTGGACAGCATTTATATACCAA
1 AATTTGGACAGCATTT-TACACCAA
*
19870519 ACA---AGACAGCATTTTCACACCAA
1 A-ATTTGGACAGCATTTT-ACACCAA
* *
19870542 AATTTGGACAGCATATATATA-CAA
1 AATTTGGACAGCAT-TTTACACCAA
*
19870566 CAATTTGGGCAGCATTTTTACACCAA
1 -AATTTGGACAGCA-TTTTACACCAA
*
19870592 AAATTGGACAGCAT
1 AATTTGGACAGCAT
19870606 ATATACAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
22 2 0.03
23 17 0.25
24 4 0.06
25 38 0.56
26 7 0.10
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (24 bp):
AATTTGGACAGCATTTTACACCAA
Found at i:19870626 original size:23 final size:22
Alignment explanation
Indices: 19870589--19870794 Score: 130
Period size: 23 Copynumber: 8.8 Consensus size: 22
19870579 ATTTTTACAC
19870589 CAAAAATTG-GACAGCATATATA
1 CAAAAATTGAG-CAGCATATATA
* *
19870611 CAAAAATTTGAGCAGCATAAAAA
1 CAAAAA-TTGAGCAGCATATATA
* *
19870634 CAACAAATTGAGCAGCATTTTTTACA
1 CAA-AAATTGAGCAGCA---TATATA
19870660 CCAAAAATTG-GACAGCATATATA
1 -CAAAAATTGAG-CAGCATATATA
* * *
19870683 CAACAATTTGGGCAGCATAAATA
1 CAA-AAATTGAGCAGCATATATA
* * *
19870706 CAACAAATTGGGCAGCATTTAAGCA
1 CAA-AAATTGAGCAGCATAT-A-TA
*
19870731 TCAAAAATTG-GACAGCATATATG
1 -CAAAAATTGAG-CAGCATATATA
*
19870754 CAACAAATTGAGCAGTATATATA
1 CAA-AAATTGAGCAGCATATATA
*
19870777 CAACAAATTGGGCAGCAT
1 CAA-AAATTGAGCAGCAT
19870795 TTAAGCATCA
Statistics
Matches: 148, Mismatches: 20, Indels: 31
0.74 0.10 0.16
Matches are distributed among these distances:
22 12 0.08
23 92 0.62
24 9 0.06
25 15 0.10
26 17 0.11
27 3 0.02
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.23
Consensus pattern (22 bp):
CAAAAATTGAGCAGCATATATA
Found at i:19870627 original size:48 final size:49
Alignment explanation
Indices: 19870525--19870628 Score: 156
Period size: 50 Copynumber: 2.1 Consensus size: 49
19870515 CCAAACAAGA
* * *
19870525 CAGCATTTTCACACCAAAATTTGGACAGCATATATATACAACAATTTGGG
1 CAGCATTTTCACACCAAAAATTGGACAGCA-ATATATACAAAAATTTGAG
*
19870575 CAGCATTTTTACACCAAAAATTGGACAGC-ATATATACAAAAATTTGAG
1 CAGCATTTTCACACCAAAAATTGGACAGCAATATATACAAAAATTTGAG
19870623 CAGCAT
1 CAGCAT
19870629 AAAAACAACA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 23 0.46
50 27 0.54
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.27
Consensus pattern (49 bp):
CAGCATTTTCACACCAAAAATTGGACAGCAATATATACAAAAATTTGAG
Found at i:19870665 original size:72 final size:71
Alignment explanation
Indices: 19870540--19870796 Score: 349
Period size: 71 Copynumber: 3.6 Consensus size: 71
19870530 TTTTCACACC
*
19870540 AAAATTTG-GACAGCATATATATACAACAATTTGGGCAGCATTTTTACACCAAAAATTGGACAGC
1 AAAATTTGAG-CAGCATA-A-ATACAACAAATTGGGCAGCATTTTTACACCAAAAATTGGACAGC
19870604 ATATATACA
63 ATATATACA
* *
19870613 AAAATTTGAGCAGCATAAAAACAACAAATTGAGCAGCATTTTTTACACCAAAAATTGGACAGCAT
1 AAAATTTGAGCAGCATAAATACAACAAATTGGGCAGCA-TTTTTACACCAAAAATTGGACAGCAT
19870678 ATATACA
65 ATATACA
* * * *
19870685 ACAATTTGGGCAGCATAAATACAACAAATTGGGCAGCA-TTTAAGCATCAAAAATTGGACAGCAT
1 AAAATTTGAGCAGCATAAATACAACAAATTGGGCAGCATTTTTA-CACCAAAAATTGGACAGCAT
*
19870749 ATATGCA
65 ATATACA
* *
19870756 ACAAA-TTGAGCAGTATATATACAACAAATTGGGCAGCATTT
1 A-AAATTTGAGCAGCATAAATACAACAAATTGGGCAGCATTT
19870797 AAGCATCAAA
Statistics
Matches: 165, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
70 4 0.02
71 73 0.44
72 72 0.44
73 15 0.09
74 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (71 bp):
AAAATTTGAGCAGCATAAATACAACAAATTGGGCAGCATTTTTACACCAAAAATTGGACAGCATA
TATACA
Found at i:19870747 original size:120 final size:119
Alignment explanation
Indices: 19870525--19870768 Score: 296
Period size: 120 Copynumber: 2.0 Consensus size: 119
19870515 CCAAACAAGA
* ***
19870525 CAGCATTTTCACACCAAAATTTGGACAGCATATATATACAACAATTTGGGCAGCATTTTTACACC
1 CAGCATTTTCACACCAAAAATTGGACAGCA-ATATATACAACAATTTGGGCAGCATAAATACA-C
* *
19870590 AAAAATTGGACAGCATATATACAAAAATTTGAGCAGCATAAAAACAACAAATTGAG
64 AAAAATTGGACAGCATATACACAAAAATTGGAGCAGCATAAAAACAACAAATTGAG
*
19870646 CAGCATTTTTTACACCAAAAATTGGACAGC-ATATATACAACAATTTGGGCAGCATAAATACA-A
1 CAGCA-TTTTCACACCAAAAATTGGACAGCAATATATACAACAATTTGGGCAGCATAAATACACA
* * * * **
19870709 CAAATTGGGCAGCATTTAAGCATCAAAAATTGGA-CAGCATATATGCAACAAATTGAG
65 AAAATTGGACAGCATAT-A-CA-CAAAAATTGGAGCAGCATAAAAACAACAAATTGAG
19870766 CAG
1 CAG
19870769 TATATATACA
Statistics
Matches: 106, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
118 15 0.14
119 1 0.01
120 53 0.50
121 15 0.14
122 22 0.21
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (119 bp):
CAGCATTTTCACACCAAAAATTGGACAGCAATATATACAACAATTTGGGCAGCATAAATACACAA
AAATTGGACAGCATATACACAAAAATTGGAGCAGCATAAAAACAACAAATTGAG
Found at i:19871560 original size:28 final size:28
Alignment explanation
Indices: 19871520--19871589 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
19871510 GAATAAGTTT
* *
19871520 GCACACTTAGTGCTTAATAATCAATCTC
1 GCACACTTAGTGCTTAACAATCAAACTC
* *
19871548 GCACACTTAGTGCTTTACAATTAAACTC
1 GCACACTTAGTGCTTAACAATCAAACTC
19871576 GCACACTTAGTGCT
1 GCACACTTAGTGCT
19871590 AATCTCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (28 bp):
GCACACTTAGTGCTTAACAATCAAACTC
Found at i:19887130 original size:21 final size:22
Alignment explanation
Indices: 19887099--19887139 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
19887089 CATTTAATTA
* *
19887099 ATTTTTAAAAATTATAAAAACT
1 ATTTTTAAAAAATAAAAAAACT
19887121 ATTTTT-AAAAATAAAAAAA
1 ATTTTTAAAAAATAAAAAAA
19887140 TTAATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTTTTAAAAAATAAAAAAACT
Found at i:19887842 original size:22 final size:22
Alignment explanation
Indices: 19887809--19887852 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
19887799 GACCCTTCCA
19887809 AAAATTTTCAATTTAATGCTAAT
1 AAAATTTTCAATTTAAT-CTAAT
19887832 AAAA-TTTCAATTTAATCTAAT
1 AAAATTTTCAATTTAATCTAAT
19887853 CAATTTGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.24
22 12 0.57
23 4 0.19
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.43
Consensus pattern (22 bp):
AAAATTTTCAATTTAATCTAAT
Found at i:19892142 original size:68 final size:68
Alignment explanation
Indices: 19892021--19892333 Score: 304
Period size: 68 Copynumber: 4.6 Consensus size: 68
19892011 GTCCATGGGA
* * * * * *
19892021 AAACATGACATCATACTGTGTAAGACCATAACTAGGCTATGAAAACCTATGAAGTCCGCCAGGAC
1 AAACATGATATCATATTGTGTAAGACCATAGCTGGGCTATGACAACATATGAAGTCCGCCAGGAC
19892086 AGT
66 AGT
* * * * * * *
19892089 AAACACGATATCATATTATGTAATATCATAG-TAGGGTTATGGCAACATATGAAGTCTGCCAGGA
1 AAACATGATATCATATTGTGTAAGACCATAGCT-GGGCTATGACAACATATGAAGTCCGCCAGGA
19892153 CAGT
65 CAGT
* * *
19892157 AAACATGACATCATATTGTGTACGACCATAGCTGGGCTATGACAACATATGAAGTCCGTCAGGAC
1 AAACATGATATCATATTGTGTAAGACCATAGCTGGGCTATGACAACATATGAAGTCCGCCAGGAC
19892222 AGT
66 AGT
* * * * ** * * ** *
19892225 AAACATGGTATCATATTGTGTAAGACCACAACTGGGTTATGGTAACAAATAAAGTTTGTCAGGAC
1 AAACATGATATCATATTGTGTAAGACCATAGCTGGGCTATGACAACATATGAAGTCCGCCAGGAC
*
19892290 AAT
66 AGT
* * * * *
19892293 AAAACATGACATCATATTGCGTAAGACTATAGTTGAGCTAT
1 -AAACATGATATCATATTGTGTAAGACCATAGCTGGGCTAT
19892334 AACTATTGGA
Statistics
Matches: 197, Mismatches: 45, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
67 1 0.01
68 164 0.83
69 32 0.16
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (68 bp):
AAACATGATATCATATTGTGTAAGACCATAGCTGGGCTATGACAACATATGAAGTCCGCCAGGAC
AGT
Found at i:19892265 original size:136 final size:137
Alignment explanation
Indices: 19892020--19892319 Score: 388
Period size: 136 Copynumber: 2.2 Consensus size: 137
19892010 GGTCCATGGG
* *
19892020 AAAACATGACATCATACTGTGTAAGACCATAACTAGGCTATGAAAACCTATGAAGTCCGCCAGGA
1 AAAACATGACATCATATTGTGTAAGACCATAACTAGGCTATGAAAACATATGAAGTCCGCCAGGA
* * * * * *
19892085 CAGTAAACACGATATCATATTATGTAATATCATAGTAGGGTTATGGCAACATATGAAGTCTGCCA
66 CAGTAAACACGATATCATATTATGTAAGACCAAACTAGGGTTATGGCAACAAATAAAGTCTGCCA
*
19892150 GGACAGT
131 GGACAAT
* * * * *
19892157 -AAACATGACATCATATTGTGTACGACCATAGCTGGGCTATGACAACATATGAAGTCCGTCAGGA
1 AAAACATGACATCATATTGTGTAAGACCATAACTAGGCTATGAAAACATATGAAGTCCGCCAGGA
* * * * * *
19892221 CAGTAAACATGGTATCATATTGTGTAAGACCACAACT-GGGTTATGGTAACAAATAAAGTTTGTC
66 CAGTAAACACGATATCATATTATGTAAGACCA-AACTAGGGTTATGGCAACAAATAAAGTCTGCC
19892285 AGGACAAT
130 AGGACAAT
*
19892293 AAAACATGACATCATATTGCGTAAGAC
1 AAAACATGACATCATATTGTGTAAGAC
19892320 TATAGTTGAG
Statistics
Matches: 139, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
136 113 0.81
137 26 0.19
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.25
Consensus pattern (137 bp):
AAAACATGACATCATATTGTGTAAGACCATAACTAGGCTATGAAAACATATGAAGTCCGCCAGGA
CAGTAAACACGATATCATATTATGTAAGACCAAACTAGGGTTATGGCAACAAATAAAGTCTGCCA
GGACAAT
Found at i:19894531 original size:16 final size:16
Alignment explanation
Indices: 19894510--19894540 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19894500 CTATGCATGC
*
19894510 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
19894526 AAAATACAAAAGACA
1 AAAATACAAAAGACA
19894541 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:19897812 original size:41 final size:41
Alignment explanation
Indices: 19897766--19897909 Score: 182
Period size: 41 Copynumber: 3.5 Consensus size: 41
19897756 CTATGCCTAA
*
19897766 CAGGCTTCGTGCC-GACGTATTATATCAGGCTTTGTGCTTAG
1 CAGGCTTCGTGCCAG-TGTATTATATCAGGCTTTGTGCTTAG
* * * *
19897807 TAGGCTTCATGCCAGTGTATTATATCAGGCTTTATGCCTAG
1 CAGGCTTCGTGCCAGTGTATTATATCAGGCTTTGTGCTTAG
* *
19897848 CAGGCTTCGTGCCAGTGTATTATATCAGGCTTTGAGCTTGG
1 CAGGCTTCGTGCCAGTGTATTATATCAGGCTTTGTGCTTAG
** *
19897889 CAATCTTCGTGCCAATGTATT
1 CAGGCTTCGTGCCAGTGTATT
19897910 GTACCAGGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 87 0.99
42 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.35
Consensus pattern (41 bp):
CAGGCTTCGTGCCAGTGTATTATATCAGGCTTTGTGCTTAG
Found at i:19897902 original size:82 final size:82
Alignment explanation
Indices: 19897752--19897909 Score: 210
Period size: 82 Copynumber: 1.9 Consensus size: 82
19897742 ATGTTATTCG
* * *
19897752 GGCTCTATGCCTAACAGGCTTCGTGCCGACGTATTATATCAGGCTTTGTGCTTAGTAGGCTTCAT
1 GGCTCTATGCCTAACAGGCTTCGTGCCGACGTATTATATCAGGCTTTGAGCTTAGCAAGCTTCAT
*
19897817 GCCAGTGTATTATATCA
66 GCCAATGTATTATATCA
* * * * * *
19897834 GGCTTTATGCCTAGCAGGCTTCGTGCC-AGTGTATTATATCAGGCTTTGAGCTTGGCAATCTTCG
1 GGCTCTATGCCTAACAGGCTTCGTGCCGA-CGTATTATATCAGGCTTTGAGCTTAGCAAGCTTCA
19897898 TGCCAATGTATT
65 TGCCAATGTATT
19897910 GTACCAGGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 1 0.02
82 64 0.98
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (82 bp):
GGCTCTATGCCTAACAGGCTTCGTGCCGACGTATTATATCAGGCTTTGAGCTTAGCAAGCTTCAT
GCCAATGTATTATATCA
Found at i:19898375 original size:21 final size:21
Alignment explanation
Indices: 19898349--19898389 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19898339 ATATGTAAGA
19898349 AATTTA-CTTAAGTTATGGATG
1 AATTTATC-TAAGTTATGGATG
*
19898370 AATTTATCTAGGTTATGGAT
1 AATTTATCTAAGTTATGGAT
19898390 AAATACACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.44
Consensus pattern (21 bp):
AATTTATCTAAGTTATGGATG
Found at i:19902966 original size:516 final size:516
Alignment explanation
Indices: 19901994--19903029 Score: 2027
Period size: 516 Copynumber: 2.0 Consensus size: 516
19901984 TGAAAGTGGG
19901994 AAAGGATCACTATGGACTTTGTTTTAGGCTTGCCCTTAGCTTCGACAAAGAAAGATATGATATGA
1 AAAGGATCACTATGGACTTTGTTTTAGGCTTGCCCTTAGCTTCGACAAAGAAAGATATGATATGA
19902059 CTGATTGTAGATCGACTCATAAAGAGTTTGCACTTACTGGCAGTTCGTATGTGCTATACATTGCA
66 CTGATTGTAGATCGACTCATAAAGAGTTTGCACTTACTGGCAGTTCGTATGTGCTATACATTGCA
*
19902124 AAAACTAGTGGAGATATACATTGTAGAAATAATGAGACTTCATGGCGTACTGGTTTCCATTACTT
131 AAAACTAGTAGAGATATACATTGTAGAAATAATGAGACTTCATGGCGTACTGGTTTCCATTACTT
19902189 TCGGTTGAGATCCTCGTTTACTTCAAGATTCTTGAAATATTTGCAAGAATCTTTAAGGTCAAAAC
196 TCGGTTGAGATCCTCGTTTACTTCAAGATTCTTGAAATATTTGCAAGAATCTTTAAGGTCAAAAC
* *
19902254 TTAACTTCAGTACTGCTTACCATCCCTAAATAGATGGTCAATTAGTGAGGATGATACAAGTACTA
261 TTAACTTCAGTACTGCTTACCATCCCCAAATAGATGGTCAATCAGTGAGGATGATACAAGTACTA
*
19902319 GAAGACAAGCTATGAAGTTGTGTGTTAAAATTCGCAGGAAGTTGGGAGCAGTATCTACCTCTTAA
326 GAAGACAAGCTATGAAGTTGTGTGTTAAAATTCGCAGGAAGTTAGGAGCAGTATCTACCTCTTAA
19902384 TGAGTTCACGTACAACAATAGCTGCCAAGCAAGCATCCAAATGGAACTATTTGAGGTGCCGTATG
391 TGAGTTCACGTACAACAATAGCTGCCAAGCAAGCATCCAAATGGAACTATTTGAGGTGCCGTATG
19902449 GAAGAAAATGTAAAACCCCTTTGTGTTGAACACAACTAGATGAAAGGCAAATGGTTGGACC
456 GAAGAAAATGTAAAACCCCTTTGTGTTGAACACAACTAGATGAAAGGCAAATGGTTGGACC
19902510 AAAGGATCACTATGGACTTTGTTTTAGGCTTGCCCTTAGCTTCGACAAAGAAAGATATGATATGA
1 AAAGGATCACTATGGACTTTGTTTTAGGCTTGCCCTTAGCTTCGACAAAGAAAGATATGATATGA
19902575 CTGATTGTAGATCGACTCATAAAGAGTTTGCACTTACTGGCAGTTCGTATGTGCTATACATTGCA
66 CTGATTGTAGATCGACTCATAAAGAGTTTGCACTTACTGGCAGTTCGTATGTGCTATACATTGCA
19902640 AAAACTAGTAGAGATATACATTGTAGAAATAATGAGACTTCATGGCGTACTGGTTTCCATTACTT
131 AAAACTAGTAGAGATATACATTGTAGAAATAATGAGACTTCATGGCGTACTGGTTTCCATTACTT
19902705 TCGGTTGAGATCCTCGTTTACTTCAAGATTCTTGAAATATTTGCAAGAATCTTTAAGGTCAAAAC
196 TCGGTTGAGATCCTCGTTTACTTCAAGATTCTTGAAATATTTGCAAGAATCTTTAAGGTCAAAAC
*
19902770 TTAACTTCGGTACTGCTTACCATCCCCAAATAGATGGTCAATCAGTGAGGATGATACAAGTACTA
261 TTAACTTCAGTACTGCTTACCATCCCCAAATAGATGGTCAATCAGTGAGGATGATACAAGTACTA
19902835 GAAGACAAGCTATGAAGTTGTGTGTTAAAATTCGCAGGAAGTTAGGAGCAGTATCTACCTCTTAA
326 GAAGACAAGCTATGAAGTTGTGTGTTAAAATTCGCAGGAAGTTAGGAGCAGTATCTACCTCTTAA
19902900 TGAGTTCACGTACAACAATAGCTGCCAAGCAAGCATCCAAATGGAACTATTTGAGGTGCCGTATG
391 TGAGTTCACGTACAACAATAGCTGCCAAGCAAGCATCCAAATGGAACTATTTGAGGTGCCGTATG
19902965 GAAGAAAATGTAAAACCCCTTTGTGTTGAACACAACTAGATGAAAGGCAAATGGTTGGACC
456 GAAGAAAATGTAAAACCCCTTTGTGTTGAACACAACTAGATGAAAGGCAAATGGTTGGACC
19903026 AAAG
1 AAAG
19903030 TTAGTTCGCG
Statistics
Matches: 515, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
516 515 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (516 bp):
AAAGGATCACTATGGACTTTGTTTTAGGCTTGCCCTTAGCTTCGACAAAGAAAGATATGATATGA
CTGATTGTAGATCGACTCATAAAGAGTTTGCACTTACTGGCAGTTCGTATGTGCTATACATTGCA
AAAACTAGTAGAGATATACATTGTAGAAATAATGAGACTTCATGGCGTACTGGTTTCCATTACTT
TCGGTTGAGATCCTCGTTTACTTCAAGATTCTTGAAATATTTGCAAGAATCTTTAAGGTCAAAAC
TTAACTTCAGTACTGCTTACCATCCCCAAATAGATGGTCAATCAGTGAGGATGATACAAGTACTA
GAAGACAAGCTATGAAGTTGTGTGTTAAAATTCGCAGGAAGTTAGGAGCAGTATCTACCTCTTAA
TGAGTTCACGTACAACAATAGCTGCCAAGCAAGCATCCAAATGGAACTATTTGAGGTGCCGTATG
GAAGAAAATGTAAAACCCCTTTGTGTTGAACACAACTAGATGAAAGGCAAATGGTTGGACC
Found at i:19903881 original size:26 final size:27
Alignment explanation
Indices: 19903852--19903926 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
19903842 GTGGATTCAA
* *
19903852 CGAACTA-TGATCGTTAGTGGGTTTAG
1 CGAACTAGGGATCGCTAGTGGGTTTAG
*
19903878 CGAAGTAGGGATCGCTAGTGGGTTTAG
1 CGAACTAGGGATCGCTAGTGGGTTTAG
*
19903905 CGAAGC-AGGGATCGCCAGTGGG
1 CGAA-CTAGGGATCGCTAGTGGG
19903927 CCTGGCGATC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.14
27 36 0.86
ACGTcount: A:0.23, C:0.15, G:0.39, T:0.24
Consensus pattern (27 bp):
CGAACTAGGGATCGCTAGTGGGTTTAG
Found at i:19903896 original size:27 final size:27
Alignment explanation
Indices: 19903860--19903926 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
19903850 AACGAACTAT
* *
19903860 GATCGTTAGTGGGTTTAGCGAAGTAGG
1 GATCGCTAGTGGGTTTAGCGAAGCAGG
19903887 GATCGCTAGTGGGTTTAGCGAAGCAGG
1 GATCGCTAGTGGGTTTAGCGAAGCAGG
*
19903914 GATCGCCAGTGGG
1 GATCGCTAGTGGG
19903927 CCTGGCGATC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.21, C:0.13, G:0.42, T:0.24
Consensus pattern (27 bp):
GATCGCTAGTGGGTTTAGCGAAGCAGG
Found at i:19903934 original size:27 final size:27
Alignment explanation
Indices: 19903875--19903934 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
19903865 TTAGTGGGTT
* * **
19903875 TAGCGAAGTAGGGATCGCTAGTGGGTT
1 TAGCGAAGCAGGGATCGCCAGTGGGCC
19903902 TAGCGAAGCAGGGATCGCCAGTGGGCC
1 TAGCGAAGCAGGGATCGCCAGTGGGCC
*
19903929 TGGCGA
1 TAGCGA
19903935 TCTATTATCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.18, G:0.42, T:0.18
Consensus pattern (27 bp):
TAGCGAAGCAGGGATCGCCAGTGGGCC
Found at i:19906823 original size:21 final size:22
Alignment explanation
Indices: 19906782--19906823 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
19906772 TGACTTAGAA
*
19906782 ATTAGTTTAATTTATTTTAATG
1 ATTAGTTTAATTTATTGTAATG
19906804 ATTA-TTTAA-TTACTTGTAAT
1 ATTAGTTTAATTTA-TTGTAAT
19906824 TAAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 3 0.17
21 11 0.61
22 4 0.22
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (22 bp):
ATTAGTTTAATTTATTGTAATG
Found at i:19908708 original size:26 final size:26
Alignment explanation
Indices: 19908665--19908715 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
19908655 AGTTATGTCT
*
19908665 TTATTTTTATTTTGGTTACTTAATTA
1 TTATTTTTATTTTAGTTACTTAATTA
*
19908691 TTATTATTTA-TTTAGTTATTTAATT
1 TTATT-TTTATTTTAGTTACTTAATT
19908716 TTTCTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (26 bp):
TTATTTTTATTTTAGTTACTTAATTA
Found at i:19912661 original size:38 final size:37
Alignment explanation
Indices: 19912611--19912794 Score: 140
Period size: 38 Copynumber: 4.7 Consensus size: 37
19912601 ATAGTATTAT
*
19912611 ATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
**** *
19912648 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTAAGAATTTTATTAAATTATATAAGAATATT---TA
* * * *
19912688 ATATTTAATAATAATTATTTTAAATTATATTA-TATAGTATTA
1 ATA-TTAAGAAT--TT-TATTAAATTATATAAGAATA-T-TTA
*
19912730 TATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 -ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
19912768 ATATTAAGAATTTTATTAAATTATATA
1 ATATTAAGAATTTTATTAAATTATATA
19912795 TTTTTATTAA
Statistics
Matches: 115, Mismatches: 18, Indels: 28
0.71 0.11 0.17
Matches are distributed among these distances:
37 28 0.24
38 37 0.32
39 8 0.07
40 7 0.06
41 9 0.08
42 4 0.03
43 8 0.07
44 13 0.11
45 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTAAGAATTTTATTAAATTATATAAGAATATTTA
Found at i:19912679 original size:18 final size:18
Alignment explanation
Indices: 19912658--19912811 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
19912648 ATATTAAGAA
19912658 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
19912676 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
* *
19912691 -TTTAAT-AATAAT-TAT
1 TTTTATTAAATTATATAT
* * *
19912706 TTTAAATTATATTATATAG
1 TTT-TATTAAATTATATAT
* * *
19912725 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
19912740 TTTTATTAAATTCATATAA
1 TTTTATTAAATT-ATATAT
*** * *
19912759 GAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
19912778 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
19912796 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
19912812 TTAATAATAA
Statistics
Matches: 100, Mismatches: 22, Indels: 28
0.67 0.15 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 5 0.05
16 12 0.12
17 17 0.17
18 38 0.38
19 11 0.11
20 5 0.05
21 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:19912732 original size:120 final size:120
Alignment explanation
Indices: 19912593--19913073 Score: 759
Period size: 120 Copynumber: 4.0 Consensus size: 120
19912583 ATTATTAATC
* * * *
19912593 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
* *
19912658 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATTATTTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTAAAT
* * * *
19912713 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
*
19912778 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATTATGTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTAAAT
* * *
19912833 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
* *
19912898 TATTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATT
66 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
* *
19912953 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
19913018 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
19913074 ATGATTAAAT
Statistics
Matches: 345, Mismatches: 14, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
120 338 0.98
121 7 0.02
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (120 bp):
TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
Found at i:19912915 original size:15 final size:13
Alignment explanation
Indices: 19912906--19912961 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 13
19912896 AATATTATTA
19912906 AATTATATATTTT
1 AATTATATATTTT
19912919 AATTATAATATATTT
1 AATTAT-ATAT-TTT
* *
19912934 AATAATAATTATGTT
1 AATTAT-A-TATTTT
19912949 AATT-TATATTTT
1 AATTATATATTTT
19912961 A
1 A
19912962 TAGTATCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 6 0.17
13 7 0.19
14 5 0.14
15 15 0.42
16 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
AATTATATATTTT
Found at i:19912931 original size:16 final size:16
Alignment explanation
Indices: 19912910--19912952 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
19912900 TTATTAAATT
19912910 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
19912926 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
19912941 AT-TATGTTAATT
1 ATATATTTTAATT
19912953 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:19913051 original size:16 final size:16
Alignment explanation
Indices: 19913030--19913071 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
19913020 TTATTAAATT
*
19913030 ATATATTTTAATTATA
1 ATATATTTTAATAATA
19913046 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
19913061 AT-TATGTTTAA
1 ATATAT-TTTAA
19913072 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:19913056 original size:15 final size:15
Alignment explanation
Indices: 19913021--19913062 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19913011 TTAAGAATTT
*
19913021 TATTAAATTAT-ATA
1 TATTTAATTATAATA
19913035 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
19913049 TATTTAATAATAAT
1 TATTTAATTATAAT
19913063 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:19913308 original size:16 final size:16
Alignment explanation
Indices: 19913287--19913338 Score: 104
Period size: 16 Copynumber: 3.2 Consensus size: 16
19913277 GATTTGCTAT
19913287 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
19913303 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
19913319 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
19913335 TACA
1 TACA
19913339 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.37, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:19913716 original size:21 final size:20
Alignment explanation
Indices: 19913690--19913734 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
19913680 TTAATTTCGA
*
19913690 AAAATTAGTGAATAAATTGAT
1 AAAATTAAT-AATAAATTGAT
* *
19913711 AAAATTAATAGTTAATTGAT
1 AAAATTAATAATAAATTGAT
19913731 AAAA
1 AAAA
19913735 ATAGAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (20 bp):
AAAATTAATAATAAATTGAT
Found at i:19914965 original size:45 final size:43
Alignment explanation
Indices: 19914915--19915006 Score: 123
Period size: 45 Copynumber: 2.1 Consensus size: 43
19914905 GGTTCGCTGT
*
19914915 AATGGAATAGATGCGTAATAGTAATTCAATTGT-TTGGTTGAATGG
1 AATGGAATAGAAGCGTAATAGT-ATT--ATTGTATTGGTTGAATGG
* *
19914960 AATGGAATAGAAGCGTAATAGTATTATTGTATTTGTTGAATGT
1 AATGGAATAGAAGCGTAATAGTATTATTGTATTGGTTGAATGG
19915003 AATG
1 AATG
19915007 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
42 5 0.12
43 14 0.33
44 3 0.07
45 21 0.49
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (43 bp):
AATGGAATAGAAGCGTAATAGTATTATTGTATTGGTTGAATGG
Found at i:19915188 original size:18 final size:18
Alignment explanation
Indices: 19915165--19915320 Score: 73
Period size: 18 Copynumber: 9.0 Consensus size: 18
19915155 TTATTATTAA
19915165 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
19915183 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
* ***
19915201 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAATT
* *
19915220 ATATGAACTTACTAAAA-T
1 ATAT-AATTTAATAAAATT
* * *
19915238 A-ATAATAT-ATAATACT
1 ATATAATTTAATAAAATT
* *
19915254 ATAAAATATAATTTAAAA-T
1 ATATAATTTAA--TAAAATT
*
19915273 A-ATAA-TT-AT-TAA--
1 ATATAATTTAATAAAATT
*
19915285 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAATT
19915303 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
19915321 CTTAATATTA
Statistics
Matches: 102, Mismatches: 21, Indels: 30
0.67 0.14 0.20
Matches are distributed among these distances:
12 1 0.01
13 6 0.06
14 3 0.03
15 6 0.06
16 8 0.08
17 13 0.13
18 44 0.43
19 12 0.12
20 7 0.07
21 2 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAATT
Found at i:19915279 original size:13 final size:12
Alignment explanation
Indices: 19915255--19915295 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
19915245 TATAATACTA
19915255 TAAAATATAATT
1 TAAAATATAATT
19915267 TAAAATAATAATT
1 TAAAAT-ATAATT
*
19915280 ATTAAATATAATT
1 -TAAAATATAATT
19915293 TAA
1 TAA
19915296 TAAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:19915283 original size:120 final size:120
Alignment explanation
Indices: 19915145--19915504 Score: 641
Period size: 120 Copynumber: 3.0 Consensus size: 120
19915135 TTAATCATAT
* *
19915145 TTTAACATAATTATTATTAAATATAATTTAATAAAATTATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
19915210 AAATATTCTTATATGAACTTACTAAAATAATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
19915265 TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
19915330 AAATTTTCTGATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
19915385 TCTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
19915450 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-ATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
19915504 T
1 T
19915505 ATATAATCTA
Statistics
Matches: 229, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
119 5 0.02
120 224 0.98
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:19915304 original size:59 final size:59
Alignment explanation
Indices: 19915235--19915429 Score: 186
Period size: 59 Copynumber: 3.3 Consensus size: 59
19915225 AACTTACTAA
*
19915235 AATAATAATATATAATACTATAAAATATAATTTAAAATAATAATTATTAAATATAATTT
1 AATAAAAATATATAATACTATAAAATATAATTTAAAATAATAATTATTAAATATAATTT
* * * * **
19915294 AATAAAAATATATAAT-TTAATAAAAT-T--CTTAATATTA-AATT-TTCTGATATGAATTT
1 AATAAAAATATATAATACT-ATAAAATATAATTTAAAATAATAATTATT-AAATAT-AATTT
* * *
19915350 ACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATAATTATTATTAAATATAATTT
1 A--ATAA--A-AATATATAATACTATAAAATATAATTTAAAATAATAATTATTAAATATAATTT
19915414 AATAAAAATATATAAT
1 AATAAAAATATATAAT
19915430 TTAATAAAAT
Statistics
Matches: 105, Mismatches: 17, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
54 2 0.02
55 8 0.08
56 13 0.12
58 5 0.05
59 32 0.30
60 2 0.02
61 17 0.16
62 5 0.05
64 12 0.11
65 7 0.07
66 2 0.02
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.41
Consensus pattern (59 bp):
AATAAAAATATATAATACTATAAAATATAATTTAAAATAATAATTATTAAATATAATTT
Found at i:19915498 original size:61 final size:61
Alignment explanation
Indices: 19915193--19915499 Score: 272
Period size: 61 Copynumber: 5.1 Consensus size: 61
19915183 ATATAATTTA
*
19915193 ATAAAATTCTTAATATTAAATATTCTTATATGAACTTACTAAAATAATAATATATAATACT
1 ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATAATAATATATAATACT
* ** * * * ** * *
19915254 ATAAAA-T-ATAAT-TTAAAATAATAATTAT-TAAATATAATTTAATAAAAATATATAAT-TT
1 ATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATAATAATATATAATACT
* * *
19915312 AATAAAATTCTTAATATTAAATTTTCTGATATGAATTTACTAAAATCATAATATATAATACT
1 -ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATAATAATATATAATACT
* * * * * * * ** * *
19915374 ATAAAA-T-ATAATCTAAAATAATTATTAT-TAAATATAATTTAATAAAAATATATAAT-TT
1 ATAAAATTCTTAATATTAAAT-ATTCTTATATGAATTTACTAAAATAATAATATATAATACT
*
19915432 AATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACT
1 -ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATAATAATATATAATACT
19915494 ATAAAA
1 ATAAAA
19915500 ATAATATATA
Statistics
Matches: 182, Mismatches: 50, Indels: 28
0.70 0.19 0.11
Matches are distributed among these distances:
58 4 0.02
59 71 0.39
60 26 0.14
61 77 0.42
62 4 0.02
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.41
Consensus pattern (61 bp):
ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATAATAATATATAATACT
Found at i:19918484 original size:3 final size:3
Alignment explanation
Indices: 19918447--19918472 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
19918437 AATATTAGTT
19918447 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
19918473 GTAGTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:19934980 original size:15 final size:15
Alignment explanation
Indices: 19934956--19934987 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19934946 TATGCATACA
*
19934956 AAATATAAAAGACAT
1 AAATACAAAAGACAT
19934971 AAATACAAAAGACAT
1 AAATACAAAAGACAT
19934986 AA
1 AA
19934988 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:19935515 original size:45 final size:46
Alignment explanation
Indices: 19935464--19935550 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 46
19935454 TTCCGTTTTT
*
19935464 AGAAAACCACATTCATTTCTAAATG-ATTCCATTTCCCCATTCTGG
1 AGAAAACCACAATCATTTCTAAATGTATTCCATTTCCCCATTCTGG
* * * * *
19935509 AGAAAACCATAATCATTTTTGAATGTTTTCCATTTCTCCATT
1 AGAAAACCACAATCATTTCTAAATGTATTCCATTTCCCCATT
19935551 TCTATTCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
45 21 0.60
46 14 0.40
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (46 bp):
AGAAAACCACAATCATTTCTAAATGTATTCCATTTCCCCATTCTGG
Found at i:19937620 original size:60 final size:62
Alignment explanation
Indices: 19937524--19937640 Score: 150
Period size: 60 Copynumber: 1.9 Consensus size: 62
19937514 AAATATAAAC
* * ** *
19937524 TCATTCTTCTATTTATTTTTGAGAAATCCATGTTCATTTGCAAATGAAT-TATTTCTCATTT
1 TCATTCTTCTATTTATTTTTGACAAAGCCACATTCATTTCCAAATGAATCTATTTCTCATTT
*
19937585 TCATT-TTCATATTTA-TTTTGACAAAGCCACATTCATTTCCAAATGATTCTATTTCT
1 TCATTCTTC-TATTTATTTTTGACAAAGCCACATTCATTTCCAAATGAATCTATTTCT
19937641 TTATTTCGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
60 30 0.62
61 18 0.38
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.49
Consensus pattern (62 bp):
TCATTCTTCTATTTATTTTTGACAAAGCCACATTCATTTCCAAATGAATCTATTTCTCATTT
Found at i:19939676 original size:22 final size:24
Alignment explanation
Indices: 19939645--19939690 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
19939635 TGCGCACCAG
*
19939645 CATATGAGAG-CC-TTTTATGGGA
1 CATATAAGAGCCCTTTTTATGGGA
19939667 CATATAAGAGCCCTTTTTATGGGA
1 CATATAAGAGCCCTTTTTATGGGA
19939691 TGTATGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
23 2 0.10
24 10 0.48
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (24 bp):
CATATAAGAGCCCTTTTTATGGGA
Found at i:19942416 original size:9 final size:9
Alignment explanation
Indices: 19942402--19942427 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
19942392 TGTAATAATG
19942402 AATATTATA
1 AATATTATA
19942411 AATATTATA
1 AATATTATA
19942420 AATATTAT
1 AATATTAT
19942428 TTGAATAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
AATATTATA
Found at i:19946272 original size:4 final size:4
Alignment explanation
Indices: 19946263--19946287 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
19946253 AATGTTTTGA
19946263 AATG AATG AATG AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG A
19946288 TGCATACTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:19950438 original size:21 final size:22
Alignment explanation
Indices: 19950414--19950470 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
19950404 CTAAGATGAT
*
19950414 AATTGATGGATTGATGGT-GAA
1 AATTGAGGGATTGATGGTGGAA
*
19950435 AATTGAGGGATTGGTGGTGGAA
1 AATTGAGGGATTGATGGTGGAA
19950457 AATTGAGGGATTGA
1 AATTGAGGGATTGA
19950471 AATTACCCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.30
Consensus pattern (22 bp):
AATTGAGGGATTGATGGTGGAA
Found at i:19959457 original size:20 final size:20
Alignment explanation
Indices: 19959422--19959470 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
19959412 ATCATAGTCT
*
19959422 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
19959441 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
19959461 TTGCTTACTT
1 TTGCTTACTT
19959471 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:19966427 original size:19 final size:19
Alignment explanation
Indices: 19966403--19966515 Score: 145
Period size: 19 Copynumber: 5.8 Consensus size: 19
19966393 AATTTTTGAG
19966403 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
** *
19966422 GATATGCAATCCAATATAT
1 GATATGCAATCTTAGATAT
19966441 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
19966462 GATATGCAATCTTAGAGAT
1 GATATGCAATCTTAGATAT
** *
19966481 GATATATAATCTTAGACAT
1 GATATGCAATCTTAGATAT
19966500 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
19966516 ATATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
19 64 0.80
21 16 0.20
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19966448 original size:40 final size:40
Alignment explanation
Indices: 19966404--19966541 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 40
19966394 ATTTTTGAGG
19966404 ATATGCAATCTTAGATATGATATGCAATCCAATATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAATATATGAT
** * *
19966444 ATATGCAATCTTAGATATGATATGCAATCTTAGAGATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAATATATGAT
* *
19966484 ATAT--AATCTTAGACATGATATGCAATCTTAGAATATATGAT
1 ATATGCAATCTTAGATATGATATGCAATC---CAATATATGAT
* *
19966525 -TTTGTAATCTTAGATAT
1 ATATGCAATCTTAGATAT
19966542 TTAATTTGTA
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
38 22 0.27
40 42 0.51
41 7 0.09
42 11 0.13
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCCAATATATGAT
Found at i:19967932 original size:98 final size:98
Alignment explanation
Indices: 19967819--19968015 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
19967809 TTAAAAATAA
* *
19967819 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
19967884 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
19967917 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCTCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
19967982 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
19968015 T
1 T
19968016 TTTATTGTAC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:19973592 original size:132 final size:132
Alignment explanation
Indices: 19973350--19973943 Score: 992
Period size: 132 Copynumber: 4.5 Consensus size: 132
19973340 AACAGATCAG
*
19973350 TGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
* * *
19973415 TTCCAAGATAGTGGGAAGCAAATTTAAGCCACCAAGCCTCGTCTCCCTGAGTAGCAGCGGAGAAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
19973480 GT
131 GT
* * *
19973482 T-AAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAACAGATCGAATACGGCGAATCTTATC
1 TGAAA-ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATC
* *
19973546 TTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGTGGAGAA
65 TTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAA
19973611 GGT
130 GGT
*
19973614 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
*
19973679 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGTCTTGTCTCCCTGAGCAGCAGCGGAGAAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
19973744 GT
131 GT
* *
19973746 TGAAATTTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATAT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
* * *
19973811 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTTTCCTTGAGCAGCAGCGGAGTAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
19973876 GT
131 GT
* * * *
19973878 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGTCAAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
19973943 T
66 T
19973944 CCTGAAGTTG
Statistics
Matches: 435, Mismatches: 25, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
131 3 0.01
132 429 0.99
133 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (132 bp):
TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
GT
Found at i:19973674 original size:44 final size:44
Alignment explanation
Indices: 19973626--19973808 Score: 126
Period size: 44 Copynumber: 4.2 Consensus size: 44
19973616 AAAATTGTAG
19973626 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
* ** * *
19973670 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACAGCGA
* * * * * * * ** *
19973713 AGTCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAA-ATTTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CAGCGA
*
19973757 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
19973802 ATCTTAT
1 ATCTTAT
19973809 ATTTCCAAGA
Statistics
Matches: 100, Mismatches: 27, Indels: 24
0.66 0.18 0.16
Matches are distributed among these distances:
42 4 0.04
43 9 0.09
44 76 0.76
45 9 0.09
46 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
Found at i:19974026 original size:264 final size:261
Alignment explanation
Indices: 19973350--19974037 Score: 954
Period size: 264 Copynumber: 2.6 Consensus size: 261
19973340 AACAGATCAG
* *
19973350 TGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-AGCGAATCTTATCT
* *
19973415 TTCCAAGATAGTGGGAAGCAAATTTAAGCCACCAAGCCTCGTCTCCCTGAGTAGCAGCGGAGAAG
65 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAATCCT-GTCTCCCTGAGTAGCAGCGGAGAAG
*
19973480 GTTAAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAACAGATCGAATACGGCGAATCTTAT
129 GTTAAA-ATTGTAGATCTTATCTCCCTAAACAGTAGTGGAACAGATCGAAGACGGCGAATCTTAT
* * *
19973545 CTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGTGGAGA
193 ATTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGA
19973610 AGGT
258 AGGT
19973614 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-AGCGAATCTTATCT
* *
19973679 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGTCTTGTCTCCCTGAGCAGCAGCGGAGAAG
65 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAA-TCCTGTCTCCCTGAGTAGCAGCGGAGAAG
* * *
19973744 GTTGAAATTTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTAT
129 GTT-AAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAACAGATCGAAGACGGCGAATCTTAT
* * *
19973809 ATTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTTTCCTTGAGCAGCAGCGGAGT
193 ATTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGA
19973874 AGGT
258 AGGT
* * *
19973878 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGTCAAATCTTATC-
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAAG-CGAATCTTATCT
* * * * * *
19973942 TTCCTGAAGTTGCAGT-GG-AGCAGATTAAAGCCGA-CAATCCTATCTCCTTGAAGTTGCAGTGG
65 TTCC--AAGAT--AGTGGGAAGCAGATTTAAGCC-ACCAATCCTGTCTCCCTG-AGTAGCAGCGG
* ** *
19974004 AG-TGGATTAAAATTACAGATCTTATCTCTCTAAA
124 AGAAGG-TTAAAATTGTAGATCTTATCTCCCTAAA
19974038 GTTACAGAGA
Statistics
Matches: 381, Mismatches: 33, Indels: 20
0.88 0.08 0.05
Matches are distributed among these distances:
263 5 0.01
264 333 0.87
265 37 0.10
266 3 0.01
267 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (261 bp):
TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAAGCGAATCTTATCTT
TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAATCCTGTCTCCCTGAGTAGCAGCGGAGAAGGT
TAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAACAGATCGAAGACGGCGAATCTTATATT
TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGG
T
Found at i:19974030 original size:44 final size:43
Alignment explanation
Indices: 19973910--19974401 Score: 216
Period size: 44 Copynumber: 11.3 Consensus size: 43
19973900 CCTAAGCAGT
** * *
19973910 AGTGGAGCAGATCGAAGATGTCAAATCTTATCTTCCTGAAGTTGC
1 AGTGGAGCAGATTAAAGACGAC-AATCTTATC-TCCTGAAGTTGC
* *
19973955 AGTGGAGCAGATTAAAGCCGACAATCCTATCTCCTTGAAGTTGC
1 AGTGGAGCAGATTAAAGACGACAATCTTATCTCC-TGAAGTTGC
** ** * *
19973999 AGTGGAGTGGATTAAA-ATTACAGATCTTATCTCTCTAAAGTTAC
1 AGTGGAGCAGATTAAAGACGACA-ATCTTATCTC-CTGAAGTTGC
* ** *
19974043 AG-AGAGCA-A--ATCG-C-ATCTAGTCTTATCTCCCTGAAGTTGC
1 AGTGGAGCAGATTAAAGACGA-C-AATCTTATCT-CCTGAAGTTGC
* * * *
19974083 GGTGGA-CAAGACT-AAGTAAG-CAAGTCTTATCCTCCTGAAGTTAC
1 AGTGGAGC-AGATTAAAG-ACGACAA-TCTTAT-CTCCTGAAGTTGC
* * * *
19974127 AGT-GAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGC
1 AGTGGA-GCAGATTAAAGACGAC-AATCTTATCT-CCTGAAGTTGC
* * *
19974172 AGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGC
1 AGTGGAGCAGATTAAAGACGACAATCTTATCT-CCTGAAGTTGC
* *
19974216 AGTAGAGCGGATTAAA-ATC-ACAGATCTTATCTCTCTGAAGTTGC
1 AGTGGAGCAGATTAAAGA-CGACA-ATCTTATCTC-CTGAAGTTGC
* * * *
19974260 AG-AGAGCAGA-T--CG-C-ATCTAGTCTTATCTCCCTGAAGTTGT
1 AGTGGAGCAGATTAAAGACGA-C-AATCTTATCT-CCTGAAGTTGC
* * * *
19974300 AGTGGAGCAGACTAAGGAAG-CAAGTCTTATCCTCTTGAAGTTGC
1 AGTGGAGCAGATTAAAGACGACAA-TCTTAT-CTCCTGAAGTTGC
* * * *
19974344 AGT-GAGGCAGACTAAAGATGGCAAGTCTTATCTCCCTGAAGTTAC
1 AGTGGA-GCAGATTAAAGACGACAA-TCTTATCT-CCTGAAGTTGC
*
19974389 AGTGGAGTAGATT
1 AGTGGAGCAGATT
19974402 GAAGCACTAA
Statistics
Matches: 343, Mismatches: 61, Indels: 86
0.70 0.12 0.18
Matches are distributed among these distances:
39 3 0.01
40 40 0.12
41 14 0.04
42 4 0.01
43 26 0.08
44 167 0.49
45 83 0.24
46 6 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
AGTGGAGCAGATTAAAGACGACAATCTTATCTCCTGAAGTTGC
Found at i:19974177 original size:217 final size:217
Alignment explanation
Indices: 19973923--19974406 Score: 772
Period size: 217 Copynumber: 2.2 Consensus size: 217
19973913 GGAGCAGATC
* *
19973923 GAAGATGTCAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTC
1 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTC
* * * *
19973988 CTTGAAGTTGCAGTGGAGTGGATTAAAATTACAGATCTTATCTCTCTAAAGTTACAGAGAGCAAA
66 CCTGAAGTTGCAGTAGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTACAGAGAGCAAA
* *
19974053 TCGCATCTAGTCTTATCTCCCTGAAGTTGCGGTGGA-CAAGACTAAGTAAGCAAGTCTTATCCTC
131 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGC-AGACTAAGGAAGCAAGTCTTATCCTC
19974117 CTGAAGTTACAGTGAGGCAGACT
195 CTGAAGTTACAGTGAGGCAGACT
*
19974140 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
1 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTC
* * *
19974205 CCTGAAGTTGCAGTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
66 CCTGAAGTTGCAGTAGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTACAGAGAGCAAA
* *
19974270 TCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGGAAGCAAGTCTTATCCTCT
131 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGAAGCAAGTCTTATCCTCC
*
19974335 TGAAGTTGCAGTGAGGCAGACT
196 TGAAGTTACAGTGAGGCAGACT
* * * * *
19974357 AAAGATGGCAAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGC
1 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
19974407 ACTAATTCCT
Statistics
Matches: 246, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
217 245 1.00
218 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTC
CCTGAAGTTGCAGTAGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTACAGAGAGCAAA
TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGAAGCAAGTCTTATCCTCC
TGAAGTTACAGTGAGGCAGACT
Found at i:19974329 original size:84 final size:85
Alignment explanation
Indices: 19974199--19974354 Score: 203
Period size: 84 Copynumber: 1.8 Consensus size: 85
19974189 CCGATAATCC
* * *
19974199 TATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATCACAGATCTTAT-CTCTCTGAAGTTGCAGA
1 TATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAAGCACAGATCTTATCCTCT-TGAAGTTGCAGA
19974263 GA-GCAGATCGCATCTAGTCT
65 GAGGCAGATCGCATCTAGTCT
* *
19974283 TATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGGAAGCA-AG-TCTTATCCTCTTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGACTAA--AAGCACAGATCTTATCCTCTTGAAGTTGCAG
*
19974346 TGAGGCAGA
64 AGAGGCAGA
19974355 CTAAAGATGG
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
84 47 0.76
85 11 0.18
86 4 0.06
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (85 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAAGCACAGATCTTATCCTCTTGAAGTTGCAGAG
AGGCAGATCGCATCTAGTCT
Found at i:19974634 original size:19 final size:19
Alignment explanation
Indices: 19974610--19974721 Score: 161
Period size: 19 Copynumber: 5.8 Consensus size: 19
19974600 ATTTTTGAGA
19974610 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
**
19974629 ATATGCAATCCAAGATATG
1 ATATGCAATCTTAGATATG
19974648 ATATATGCAATCTTAGATATG
1 --ATATGCAATCTTAGATATG
*
19974669 ATATGCAATCTTAGAGATG
1 ATATGCAATCTTAGATATG
**
19974688 ATATATAATCTTAGATATG
1 ATATGCAATCTTAGATATG
19974707 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
19974722 ATATATGATT
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
19 64 0.79
21 17 0.21
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:19974654 original size:40 final size:40
Alignment explanation
Indices: 19974610--19974716 Score: 173
Period size: 40 Copynumber: 2.7 Consensus size: 40
19974600 ATTTTTGAGA
*
19974610 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGAGATGAT
**
19974650 ATATGCAATCTTAGATATGATATGCAATCTTAGAGATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGAGATGAT
19974690 ATAT--AATCTTAGATATGATATGCAATC
1 ATATGCAATCTTAGATATGATATGCAATC
19974717 TTAGAATATA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 23 0.36
40 41 0.64
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCCAAGAGATGAT
Found at i:19976142 original size:98 final size:98
Alignment explanation
Indices: 19976032--19976228 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
19976022 TTAAAAATAA
* * *
19976032 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
* *
19976097 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATATTGAATAAGTGGATGTTCTTTTAAAG
*
19976130 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
*
19976195 TTAAATATTGAATGAGTGGATGTTCTTTTAAAG
66 TTAAATATTGAATAAGTGGATGTTCTTTTAAAG
19976228 T
1 T
19976229 TTTATTGTAC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
TTAAATATTGAATAAGTGGATGTTCTTTTAAAG
Found at i:19976762 original size:21 final size:19
Alignment explanation
Indices: 19976705--19976750 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
19976695 AATCAAAATT
19976705 TATTTTATAATAAGAT--TA
1 TATTTTATAATAA-ATAATA
19976723 TATTTTATAATAAATAATA
1 TATTTTATAATAAATAATA
19976742 TATTTTATA
1 TATTTTATA
19976751 GACTTAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.08
18 13 0.50
19 11 0.42
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TATTTTATAATAAATAATA
Found at i:19976905 original size:23 final size:23
Alignment explanation
Indices: 19976873--19976928 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
19976863 GGATTTAAAT
* **
19976873 AAATACTTAT-GTTTATATTATGA
1 AAATATTTATAGTTTATACCAT-A
*
19976896 AAATATTTATATTTTATACCATA
1 AAATATTTATAGTTTATACCATA
19976919 AAATATTTAT
1 AAATATTTAT
19976929 TATTAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 20 0.71
24 8 0.29
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (23 bp):
AAATATTTATAGTTTATACCATA
Found at i:19982747 original size:8 final size:8
Alignment explanation
Indices: 19982734--19982787 Score: 55
Period size: 8 Copynumber: 7.2 Consensus size: 8
19982724 CGATCCTCTT
19982734 TTCTTTTC
1 TTCTTTTC
19982742 TTC--TT-
1 TTCTTTTC
19982747 TTCTTTTC
1 TTCTTTTC
19982755 TTCTTTTC
1 TTCTTTTC
*
19982763 TTCTCTTC
1 TTCTTTTC
19982771 TT-TTCTT-
1 TTCTT-TTC
19982778 TTCTTTTC
1 TTCTTTTC
19982786 TT
1 TT
19982788 AAATTTTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
5 3 0.08
6 2 0.05
7 7 0.18
8 26 0.68
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
TTCTTTTC
Found at i:19982748 original size:13 final size:13
Alignment explanation
Indices: 19982730--19982782 Score: 97
Period size: 13 Copynumber: 4.1 Consensus size: 13
19982720 AGTTCGATCC
19982730 TCTTTTCTTTTCT
1 TCTTTTCTTTTCT
19982743 TCTTTTCTTTTCT
1 TCTTTTCTTTTCT
*
19982756 TCTTTTCTTCTCT
1 TCTTTTCTTTTCT
19982769 TCTTTTCTTTTCT
1 TCTTTTCTTTTCT
19982782 T
1 T
19982783 TTCTTAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (13 bp):
TCTTTTCTTTTCT
Found at i:19982801 original size:5 final size:5
Alignment explanation
Indices: 19982730--19982787 Score: 68
Period size: 5 Copynumber: 11.8 Consensus size: 5
19982720 AGTTCGATCC
*
19982730 TCTTT TCTTT TC--T TCTTT TCTTT TCTTCT T-TTCT TCTCT TCTTT TCTTT
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTT-T TCTT-T TCTTT TCTTT TCTTT
19982779 TCTTT TCTT
1 TCTTT TCTT
19982788 AAATTTTTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
3 3 0.06
5 41 0.87
6 3 0.06
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (5 bp):
TCTTT
Found at i:19982870 original size:15 final size:17
Alignment explanation
Indices: 19982831--19982870 Score: 57
Period size: 15 Copynumber: 2.4 Consensus size: 17
19982821 TAAAAATTTA
19982831 AATTTATTCCTCTAAATT
1 AATTTA-TCCTCTAAATT
19982849 AATTTATCCT-TAAATT
1 AATTTATCCTCTAAATT
19982865 -ATTTAT
1 AATTTAT
19982871 TTTTTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.27
16 6 0.27
17 4 0.18
18 6 0.27
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTATCCTCTAAATT
Found at i:19983066 original size:54 final size:52
Alignment explanation
Indices: 19982956--19983095 Score: 119
Period size: 54 Copynumber: 2.7 Consensus size: 52
19982946 AATTAAATTA
* * * **
19982956 TATTTTTTAAATTTAAATTTAATCCTTTAAATT-AATTTATCCTTAAATTTTTTT
1 TATTTTTT-AA-TTAAATTCAAT-TTTTTAATTAAATTTATCCTTAAATTTGATT
19983010 TATTTTTTAATTAAATTCAATTTTTTAATTTAAATTTATTCCTTTAAA-TTGATT
1 TATTTTTTAATTAAATTCAATTTTTTAA-TTAAATTTA-TCC-TTAAATTTGATT
** *
19983064 TATCCTTTAATT-ATTTC--TTTTTTAATTAAATT
1 TATTTTTTAATTAAATTCAATTTTTTAATTAAATT
19983096 CAATTTTTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
50 7 0.09
51 13 0.18
52 12 0.16
53 12 0.16
54 25 0.34
55 5 0.07
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (52 bp):
TATTTTTTAATTAAATTCAATTTTTTAATTAAATTTATCCTTAAATTTGATT
Found at i:19983128 original size:72 final size:71
Alignment explanation
Indices: 19982789--19983297 Score: 751
Period size: 72 Copynumber: 7.1 Consensus size: 71
19982779 TCTTTTCTTA
* * *
19982789 AATTTTTTCTTTTTTAATTAAATTCTATTTTTTAAAAATTTAAATTTATTCCTCTAAATTAATTT
1 AATTATTTCTTTTTTAATTAAATTCAATTTTTT-AAAATTTAAATTTATTCCTTTAAATTAATTT
*
19982854 ATCCTTA
65 ATCCTTT
* *
19982861 AATTATTTATTTTTTAATTAAATTCAA-TTTTTAAAATTTAAATTTTTTCC-TTAAATTAATTTA
1 AATTATTTCTTTTTTAATTAAATTCAATTTTTTAAAATTTAAATTTATTCCTTTAAATTAATTTA
19982924 TCCTTT
66 TCCTTT
*
19982930 AATTATTTCTTTTTTTAATTAAATT-ATATTTTTT-AAATTTAAATTTAATCCTTTAAATTAATT
1 AATTATTTC-TTTTTTAATTAAATTCA-ATTTTTTAAAATTTAAATTTATTCCTTTAAATTAATT
*
19982993 TATCCTTA
64 TATCCTTT
* * *
19983001 AATTTTTTTTATTTTTTAATTAAATTCAATTTTTT--AATTTAAATTTATTCCTTTAAATTGATT
1 AA--TTATTTCTTTTTTAATTAAATTCAATTTTTTAAAATTTAAATTTATTCCTTTAAATTAATT
19983064 TATCCTTT
64 TATCCTTT
19983072 AATTATTTCTTTTTTAATTAAATTCAATTTTTTAAAAATTTAAATTTATTCCTTTAAATTAATTT
1 AATTATTTCTTTTTTAATTAAATTCAATTTTTT-AAAATTTAAATTTATTCCTTTAAATTAATTT
19983137 ATCCTTT
65 ATCCTTT
*
19983144 AATTATTTATTTTTTAATTAAATTCAATTGTTTTAAAATTTAAATTTATTCCTTTAAATTAATTT
1 AATTATTTCTTTTTTAATTAAATTCAATT-TTTTAAAATTTAAATTTATTCCTTTAAATTAATTT
19983209 ATCCTTT
65 ATCCTTT
** *
19983216 AATTATTTCTTTTTTAATTAAATTTTATTTTTTAAAAAATTTTAAATTTATTCCTTTAAATTGAT
1 AATTATTTCTTTTTTAATTAAATTCAATTTTTT--AAAA-TTTAAATTTATTCCTTTAAATTAAT
19983281 TTATCCTTT
63 TTATCCTTT
19983290 AATTATTT
1 AATTATTT
19983298 AATTATTTCT
Statistics
Matches: 400, Mismatches: 23, Indels: 26
0.89 0.05 0.06
Matches are distributed among these distances:
69 55 0.14
70 48 0.12
71 69 0.17
72 173 0.43
73 14 0.04
74 41 0.10
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.58
Consensus pattern (71 bp):
AATTATTTCTTTTTTAATTAAATTCAATTTTTTAAAATTTAAATTTATTCCTTTAAATTAATTTA
TCCTTT
Found at i:19983132 original size:41 final size:40
Alignment explanation
Indices: 19983087--19983205 Score: 121
Period size: 41 Copynumber: 3.1 Consensus size: 40
19983077 TTTCTTTTTT
19983087 AATTAAATTCAATTTTTTAAAAATTTAAATTTATTCCTTTA
1 AATTAAATTCAATTTTTT-AAAATTTAAATTTATTCCTTTA
* ** *
19983128 AATT-AATT-TATCCTTT--AA-TT--ATTTATT--TTTT
1 AATTAAATTCAATTTTTTAAAATTTAAATTTATTCCTTTA
19983159 AATTAAATTCAATTGTTTTAAAATTTAAATTTATTCCTTTA
1 AATTAAATTCAATT-TTTTAAAATTTAAATTTATTCCTTTA
19983200 AATTAA
1 AATTAA
19983206 TTTATCCTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 20
0.68 0.09 0.23
Matches are distributed among these distances:
31 7 0.12
32 4 0.07
33 9 0.15
34 3 0.05
35 2 0.03
36 4 0.07
37 2 0.03
39 12 0.20
40 4 0.07
41 13 0.22
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.54
Consensus pattern (40 bp):
AATTAAATTCAATTTTTTAAAATTTAAATTTATTCCTTTA
Found at i:19983145 original size:31 final size:31
Alignment explanation
Indices: 19983110--19983217 Score: 81
Period size: 31 Copynumber: 3.2 Consensus size: 31
19983100 TTTTTAAAAA
19983110 TTTAAATTTATTCCTTTAAATTAATTTATCC
1 TTTAAATTTATTCCTTTAAATTAATTTATCC
** ***
19983141 TTTAATTATTTATTTTTTAATTAAATTCAATTGTTTTAAAA
1 TTTAA--ATTTA-TTCCT--TTAAATT-AA----TTTATCC
19983182 TTTAAATTTATTCCTTTAAATTAATTTATCC
1 TTTAAATTTATTCCTTTAAATTAATTTATCC
19983213 TTTAA
1 TTTAA
19983218 TTATTTCTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 20
0.66 0.11 0.23
Matches are distributed among these distances:
31 14 0.25
33 5 0.09
34 3 0.05
35 2 0.04
36 14 0.25
37 2 0.04
38 3 0.05
39 5 0.09
41 9 0.16
ACGTcount: A:0.34, C:0.08, G:0.01, T:0.56
Consensus pattern (31 bp):
TTTAAATTTATTCCTTTAAATTAATTTATCC
Found at i:19983153 original size:15 final size:15
Alignment explanation
Indices: 19983115--19983163 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
19983105 AAAAATTTAA
19983115 ATTTATTCCTTTAAATT
1 ATTTA-TCCTTT-AATT
19983132 AATTTATCCTTTAATT
1 -ATTTATCCTTTAATT
**
19983148 ATTTATTTTTTAATT
1 ATTTATCCTTTAATT
19983163 A
1 A
19983164 AATTCAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 14 0.48
16 4 0.14
17 6 0.21
18 5 0.17
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTATCCTTTAATT
Found at i:19983255 original size:17 final size:18
Alignment explanation
Indices: 19983225--19983259 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
19983215 TAATTATTTC
*
19983225 TTTTTTAATTAAATTTTA
1 TTTTTTAATAAAATTTTA
19983243 TTTTTTAA-AAAATTTTA
1 TTTTTTAATAAAATTTTA
19983260 AATTTATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTTAATAAAATTTTA
Found at i:19990343 original size:15 final size:15
Alignment explanation
Indices: 19990323--19990355 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
19990313 ACTAAACTAT
19990323 TTAAATTTTAATTTA
1 TTAAATTTTAATTTA
19990338 TTAAATTTTAATTTA
1 TTAAATTTTAATTTA
19990353 TTA
1 TTA
19990356 GTATAACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTAAATTTTAATTTA
Found at i:19992985 original size:3 final size:3
Alignment explanation
Indices: 19992979--19993012 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
19992969 TTTTGTACTC
19992979 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
19993013 ATTTTCATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19998723 original size:18 final size:18
Alignment explanation
Indices: 19998700--19998736 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
19998690 TTTCAATTAC
19998700 AAATAATATAGTATTAAT
1 AAATAATATAGTATTAAT
19998718 AAATAATATAGTATTAAT
1 AAATAATATAGTATTAAT
19998736 A
1 A
19998737 TACACTTCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AAATAATATAGTATTAAT
Found at i:20003345 original size:35 final size:35
Alignment explanation
Indices: 20003301--20003381 Score: 117
Period size: 35 Copynumber: 2.3 Consensus size: 35
20003291 ATTCCATTTT
* *
20003301 TAAATTTAATTAATTAATTAATAATTCAAAGAATTA
1 TAAA-TTAATTAATTAACTAATAATTCAAAAAATTA
* *
20003337 TAAATTAATTAATTAGCTAATAATTTAAAAAATTA
1 TAAATTAATTAATTAACTAATAATTCAAAAAATTA
20003372 TAAATTAATT
1 TAAATTAATT
20003382 CTCAAGTCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 37 0.90
36 4 0.10
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (35 bp):
TAAATTAATTAATTAACTAATAATTCAAAAAATTA
Found at i:20004063 original size:12 final size:11
Alignment explanation
Indices: 20004042--20004084 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
20004032 CTAGAAGGCC
20004042 ATTAGTTTTTA
1 ATTAGTTTTTA
20004053 ATTAGGTTTTTA
1 ATTA-GTTTTTA
*
20004065 ATTCAGTTTTAA
1 ATT-AGTTTTTA
*
20004077 AATAGTTT
1 ATTAGTTT
20004085 ATTTTCTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 9 0.32
12 18 0.64
13 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (11 bp):
ATTAGTTTTTA
Found at i:20005207 original size:16 final size:16
Alignment explanation
Indices: 20005186--20005219 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
20005176 TATTGATACC
20005186 AACTTTAAAATTTTAA
1 AACTTTAAAATTTTAA
*
20005202 AACTTTGAAATTTTAA
1 AACTTTAAAATTTTAA
20005218 AA
1 AA
20005220 ATCAATCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (16 bp):
AACTTTAAAATTTTAA
Found at i:20007019 original size:24 final size:24
Alignment explanation
Indices: 20006984--20007030 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
20006974 TTAGAGTTAT
* *
20006984 TAGAGTTCAACTGGGAAAAGATAA
1 TAGAGTTCAACTAGAAAAAGATAA
*
20007008 TAGAGTTTAACTAGAAAAAGATA
1 TAGAGTTCAACTAGAAAAAGATA
20007031 CCCGATTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.49, C:0.06, G:0.21, T:0.23
Consensus pattern (24 bp):
TAGAGTTCAACTAGAAAAAGATAA
Done.