Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 66 of 105
Found at i:11667142 original size:23 final size:24
Alignment explanation
Indices: 11667116--11667173 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
11667106 ATTTTTTTTC
11667116 CTTTTTTATTTTTTATTTTT-TAA
1 CTTTTTTATTTTTTATTTTTATAA
* * **
11667139 CTTTTTTCCTTTTTTGTTTTTATGC
1 CTTTTTT-ATTTTTTATTTTTATAA
11667164 CTTTTTTATT
1 CTTTTTTATT
11667174 AAATTAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 7 0.25
24 13 0.46
25 8 0.29
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.76
Consensus pattern (24 bp):
CTTTTTTATTTTTTATTTTTATAA
Found at i:11673737 original size:12 final size:12
Alignment explanation
Indices: 11673697--11673737 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
11673687 AAAAGGACTT
11673697 TCTTGTGGAATA
1 TCTTGTGGAATA
* *
11673709 TCTTATGAAATA
1 TCTTGTGGAATA
11673721 TCTTGTGGAATA
1 TCTTGTGGAATA
11673733 TCTTG
1 TCTTG
11673738 AACCTCATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.44
Consensus pattern (12 bp):
TCTTGTGGAATA
Found at i:11676209 original size:23 final size:23
Alignment explanation
Indices: 11676177--11676225 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
11676167 TTTATAAAGC
* *
11676177 TTTTTGGGATTCAAATCCTAGAT
1 TTTTTAGGATTCAAATCCTAAAT
11676200 TTTTTAGGATTCAAATCCTAAAT
1 TTTTTAGGATTCAAATCCTAAAT
11676223 TTT
1 TTT
11676226 CAATTTATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (23 bp):
TTTTTAGGATTCAAATCCTAAAT
Found at i:11676398 original size:9 final size:9
Alignment explanation
Indices: 11676381--11676443 Score: 63
Period size: 10 Copynumber: 6.3 Consensus size: 9
11676371 TTGAAAAAGG
11676381 AAAGAAAAA
1 AAAGAAAAA
11676390 AAAGTAAAAA
1 AAAG-AAAAA
11676400 GAAAGAAAGAA
1 -AAAGAAA-AA
11676411 AGAAGAAAAA
1 A-AAGAAAAA
11676421 AAAGAAAAA
1 AAAGAAAAA
*
11676430 TAGAGAAAGAA
1 -AAAGAAA-AA
11676441 AAA
1 AAA
11676444 ATATATAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
9 12 0.26
10 20 0.43
11 14 0.30
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.03
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:11676403 original size:20 final size:20
Alignment explanation
Indices: 11676373--11676429 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 20
11676363 AAACTAAATT
11676373 GAAAAAGGAAAGAAAAAA-AA
1 GAAAAA-GAAAGAAAAAAGAA
11676393 GTAAAAAGAAAGAAAGAAAGAA
1 G-AAAAAGAAAGAAA-AAAGAA
11676415 GAAAAA-AAAGAAAAA
1 GAAAAAGAAAGAAAAA
11676430 TAGAGAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 2 0.06
20 16 0.47
21 13 0.38
22 3 0.09
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (20 bp):
GAAAAAGAAAGAAAAAAGAA
Found at i:11676408 original size:15 final size:15
Alignment explanation
Indices: 11676380--11676441 Score: 51
Period size: 14 Copynumber: 4.3 Consensus size: 15
11676370 ATTGAAAAAG
11676380 GAAAGAA-AAA-AAA
1 GAAAGAAGAAAGAAA
11676393 GTAAA-AAGAAAGAAA
1 G-AAAGAAGAAAGAAA
*
11676408 GAAAGAAGAAAAAAAA
1 GAAAGAAG-AAAGAAA
* *
11676424 GAAA-AATAGAGAAA
1 GAAAGAAGAAAGAAA
11676438 GAAA
1 GAAA
11676442 AAATATATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
13 3 0.08
14 18 0.45
15 9 0.22
16 10 0.25
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (15 bp):
GAAAGAAGAAAGAAA
Found at i:11676411 original size:24 final size:24
Alignment explanation
Indices: 11676395--11676444 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
11676385 AAAAAAAAGT
11676395 AAAAAGAAAGAAAGAAAGAAGAAA
1 AAAAAGAAAGAAAGAAAGAAGAAA
*
11676419 AAAAAGAAA-AATAGAGA-AAGAAA
1 AAAAAGAAAGAA-AGAAAGAAGAAA
11676442 AAA
1 AAA
11676445 TATATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (24 bp):
AAAAAGAAAGAAAGAAAGAAGAAA
Found at i:11676647 original size:45 final size:43
Alignment explanation
Indices: 11676592--11676833 Score: 207
Period size: 44 Copynumber: 5.5 Consensus size: 43
11676582 TTGTCTTTCT
** * *
11676592 TTTTGAAAAATTTAAAAGGCTTTTCTAAATAGAGG-TTCAATGAC
1 TTTTG-AAAATTTAAAAGGCTCCTCTAAACAAAGGCTT-AATGAC
* * * * *
11676636 ATTTTTGAAAATTTAAAAAGCTCTTCTGAGCAAAGGCTCAATGAC
1 --TTTTGAAAATTTAAAAGGCTCCTCTAAACAAAGGCTTAATGAC
* *
11676681 TTTTGAAAATTTAAAGAGGCTCCTCTAAGCAAAGGCTTAACGAC
1 TTTTGAAAATTTAAA-AGGCTCCTCTAAACAAAGGCTTAATGAC
* * * *
11676725 TTTTGAAAATTTAAAAAAGCTTCTCTAAACAGAGGCTTAAAGAC
1 TTTTGAAAATTT-AAAAGGCTCCTCTAAACAAAGGCTTAATGAC
* * * * * **
11676769 TTTTGAAAATTTAAAAAGGCTCTTATAAGCAAAAGCTCAACAAC
1 TTTTGAAAATTT-AAAAGGCTCCTCTAAACAAAGGCTTAATGAC
11676813 TTTTGAAAATTTAAAAAGGCT
1 TTTTGAAAATTT-AAAAGGCT
11676834 ACTTTAAGTA
Statistics
Matches: 166, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
43 15 0.09
44 113 0.68
45 32 0.19
46 6 0.04
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (43 bp):
TTTTGAAAATTTAAAAGGCTCCTCTAAACAAAGGCTTAATGAC
Found at i:11676726 original size:44 final size:44
Alignment explanation
Indices: 11676638--11676867 Score: 259
Period size: 44 Copynumber: 5.3 Consensus size: 44
11676628 TCAATGACAT
* * *
11676638 TTTTGAAAATTTAAAAA-GCTCTTCTGAGCAAAGGCTCAATGAC
1 TTTTGAAAATTTAAAAAGGCTCCTCTAAGCAAAGGCTCAACGAC
* *
11676681 TTTTGAAAATTTAAAGAGGCTCCTCTAAGCAAAGGCTTAACGAC
1 TTTTGAAAATTTAAAAAGGCTCCTCTAAGCAAAGGCTCAACGAC
* * * * * *
11676725 TTTTGAAAATTTAAAAAAGCTTCTCTAAACAGAGGCTTAAAGAC
1 TTTTGAAAATTTAAAAAGGCTCCTCTAAGCAAAGGCTCAACGAC
* * * *
11676769 TTTTGAAAATTTAAAAAGGCTCTTATAAGCAAAAGCTCAACAAC
1 TTTTGAAAATTTAAAAAGGCTCCTCTAAGCAAAGGCTCAACGAC
* * * * *
11676813 TTTTGAAAATTTAAAAAGGCTACTTTAAGTAAAAGCTCAACAAC
1 TTTTGAAAATTTAAAAAGGCTCCTCTAAGCAAAGGCTCAACGAC
11676857 -TTT-AAAATTTA
1 TTTTGAAAATTTA
11676868 TCTTGAAAAA
Statistics
Matches: 161, Mismatches: 25, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
42 8 0.05
43 19 0.12
44 134 0.83
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (44 bp):
TTTTGAAAATTTAAAAAGGCTCCTCTAAGCAAAGGCTCAACGAC
Found at i:11676800 original size:132 final size:132
Alignment explanation
Indices: 11676592--11676867 Score: 337
Period size: 132 Copynumber: 2.1 Consensus size: 132
11676582 TTGTCTTTCT
* * * *
11676592 TTTTGAAAAATTT-AAAAGGCTTTTCTAAATAGAGGTTCAATGACATTTTTGAAAATTTAAAAAG
1 TTTTG-AAAATTTAAAAAAGCTTCTCTAAACAGAGGTTCAAAGACA-TTTTGAAAATTTAAAAAG
* * * ** * * * *
11676656 CTCTTCTGAGCAAAGGCTCAATGACTTTTGAAAATTTAAAGAGGCTCCTCTAAGCAAAGGCTTAA
64 CTCTTATAAGCAAAAGCTCAACAACTTTTGAAAATTTAAAAAGGCTACTCTAAGCAAAAGCTCAA
*
11676721 CGAC
129 CAAC
11676725 TTTTGAAAATTTAAAAAAGCTTCTCTAAACAGAGGCTT-AAAGAC-TTTTGAAAATTTAAAAAGG
1 TTTTGAAAATTTAAAAAAGCTTCTCTAAACAGAGG-TTCAAAGACATTTTGAAAATTTAAAAA-G
* *
11676788 CTCTTATAAGCAAAAGCTCAACAACTTTTGAAAATTTAAAAAGGCTACTTTAAGTAAAAGCTCAA
64 CTCTTATAAGCAAAAGCTCAACAACTTTTGAAAATTTAAAAAGGCTACTCTAAGCAAAAGCTCAA
11676853 CAAC
129 CAAC
11676857 -TTT-AAAATTTA
1 TTTTGAAAATTTA
11676868 TCTTGAAAAA
Statistics
Matches: 124, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
130 8 0.06
131 20 0.16
132 65 0.52
133 29 0.23
134 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (132 bp):
TTTTGAAAATTTAAAAAAGCTTCTCTAAACAGAGGTTCAAAGACATTTTGAAAATTTAAAAAGCT
CTTATAAGCAAAAGCTCAACAACTTTTGAAAATTTAAAAAGGCTACTCTAAGCAAAAGCTCAACA
AC
Found at i:11676903 original size:47 final size:47
Alignment explanation
Indices: 11676838--11677101 Score: 357
Period size: 47 Copynumber: 5.6 Consensus size: 47
11676828 AAGGCTACTT
* * * *
11676838 TAAGTAAAAGCTCAACAACTTTAAAATTTATCTTGAAAAAACTCCTC
1 TAAGTAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTC
* *
11676885 TAAGTAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAACTCCTT
1 TAAGTAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTC
* * *
11676932 TAAGTAGAGGCTCAACAACTTTAAAAATCCATTTTGAAAAAGTTCCTC
1 TAAGTAGAGGCTCAACAACTTT-AAAATTCATCTTGAAAAAGCTCCTC
* * *
11676980 TAAGCAGAGACTCAACAACTTTAAAATTCATCTTGAAAAAGTTCCTC
1 TAAGTAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTC
* * * *
11677027 TAAGCAAAGGTTCAACAAATTTAAAAATCTCATCTTGAAAAAGCTCCTC
1 TAAGTAGAGGCTCAACAACTTT-AAAAT-TCATCTTGAAAAAGCTCCTC
11677076 TAAGTAGAGGCTCAACAACTTTAAAA
1 TAAGTAGAGGCTCAACAACTTTAAAA
11677102 ATCTCATATG
Statistics
Matches: 192, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
47 106 0.55
48 49 0.26
49 37 0.19
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (47 bp):
TAAGTAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTC
Found at i:11676994 original size:95 final size:95
Alignment explanation
Indices: 11676835--11677101 Score: 383
Period size: 95 Copynumber: 2.8 Consensus size: 95
11676825 AAAAAGGCTA
* ** *
11676835 CTTTAAGTAAAAGCTCAACAACTTT-AAAATTTATCTTGAAAAAACTCCTCTAAGTAGAGGCTCA
1 CTTTAAGTAAAGGCTCAACAACTTTAAAAATCCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCA
11676899 ACAACTTTAAAATTCATCTTGAAAAAACTC
66 ACAACTTTAAAATTCATCTTGAAAAAACTC
* * * * *
11676929 CTTTAAGTAGAGGCTCAACAACTTTAAAAATCCATTTTGAAAAAGTTCCTCTAAGCAGAGACTCA
1 CTTTAAGTAAAGGCTCAACAACTTTAAAAATCCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCA
**
11676994 ACAACTTTAAAATTCATCTTGAAAAAGTTC
66 ACAACTTTAAAATTCATCTTGAAAAAACTC
* * * *
11677024 CTCTAAGCAAAGGTTCAACAAATTTAAAAATCTCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTC
1 CTTTAAGTAAAGGCTCAACAACTTTAAAAATC-CATCTTGAAAAAGCTCCTCTAAGTAGAGGCTC
11677089 AACAACTTTAAAA
65 AACAACTTTAAAA
11677102 ATCTCATATG
Statistics
Matches: 151, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
94 23 0.15
95 87 0.58
96 41 0.27
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (95 bp):
CTTTAAGTAAAGGCTCAACAACTTTAAAAATCCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCA
ACAACTTTAAAATTCATCTTGAAAAAACTC
Found at i:11677125 original size:142 final size:137
Alignment explanation
Indices: 11676848--11677104 Score: 370
Period size: 142 Copynumber: 1.8 Consensus size: 137
11676838 TAAGTAAAAG
* * * *
11676848 CTCAACAACTTTAAAATTTATCTTGAAAAAACTCCTCTAAGTAGAGGCTCAACAACTTTAAAATT
1 CTCAACAACTTTAAAATTCATCTTGAAAAAACTCCTCTAAGCAAAGGCTCAACAAATTTAAAATT
*
11676913 CATCTTGAAAAAACTCCTTTAAGTAGAGGCTCAACAACTTTAAAAATCCATTTTGAAAAAGTTCC
66 CATCTTGAAAAAACTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATCCATTTTGAAAAA-----
11676978 TCTAAGCAGAGA
126 TCTAAGCAGAGA
** *
11676990 CTCAACAACTTTAAAATTCATCTTGAAAAAGTTCCTCTAAGCAAAGGTTCAACAAATTTAAAAAT
1 CTCAACAACTTTAAAATTCATCTTGAAAAAACTCCTCTAAGCAAAGGCTCAACAAATTT-AAAAT
*
11677055 CTCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATC
65 -TCATCTTGAAAAAACTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATC
11677105 TCATATGTTC
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
142 52 0.50
143 5 0.05
144 47 0.45
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.28
Consensus pattern (137 bp):
CTCAACAACTTTAAAATTCATCTTGAAAAAACTCCTCTAAGCAAAGGCTCAACAAATTTAAAATT
CATCTTGAAAAAACTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATCCATTTTGAAAAATCTAA
GCAGAGA
Found at i:11688065 original size:21 final size:21
Alignment explanation
Indices: 11688041--11688082 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11688031 CTAATTTATT
11688041 GAGAATAATATATGCGAAAAG
1 GAGAATAATATATGCGAAAAG
11688062 GAGAATAATATATGCGAAAAG
1 GAGAATAATATATGCGAAAAG
11688083 AAAAACAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.05, G:0.24, T:0.19
Consensus pattern (21 bp):
GAGAATAATATATGCGAAAAG
Found at i:11688092 original size:21 final size:21
Alignment explanation
Indices: 11688047--11688092 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
11688037 TATTGAGAAT
* * *
11688047 AATATATGCGAAAAGGAGAAT
1 AATATATGCGAAAAGAAAAAC
11688068 AATATATGCGAAAAGAAAAAC
1 AATATATGCGAAAAGAAAAAC
11688089 AATA
1 AATA
11688093 AAAGAAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.59, C:0.07, G:0.17, T:0.17
Consensus pattern (21 bp):
AATATATGCGAAAAGAAAAAC
Found at i:11688147 original size:19 final size:19
Alignment explanation
Indices: 11688115--11688165 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
11688105 ATGAAAATTT
*
11688115 TTTTCTTTTCATTT-TTTGGT
1 TTTT-TTTT-ATTTGTTTGGC
11688135 TTGTTTTTTATTTGTTTGGC
1 TT-TTTTTTATTTGTTTGGC
11688155 TTTTTTTTATT
1 TTTTTTTTATT
11688166 GAAGGTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 13 0.46
20 13 0.46
21 2 0.07
ACGTcount: A:0.06, C:0.06, G:0.12, T:0.76
Consensus pattern (19 bp):
TTTTTTTTATTTGTTTGGC
Found at i:11691560 original size:21 final size:24
Alignment explanation
Indices: 11691513--11691564 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 24
11691503 TTTTTAAATT
*
11691513 AATATGCATGCAATATAATCATTCA
1 AATATGCATGCAATATAAT-ATACA
11691538 AATATGCAT-CAA-ATAAT-TACA
1 AATATGCATGCAATATAATATACA
11691559 AATATG
1 AATATG
11691565 ATTATAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 9 0.35
23 5 0.19
24 3 0.12
25 9 0.35
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (24 bp):
AATATGCATGCAATATAATATACA
Found at i:11700883 original size:17 final size:16
Alignment explanation
Indices: 11700853--11700887 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
11700843 TCCCTATCTC
11700853 TTTATTTTGATTATAG
1 TTTATTTTGATTATAG
*
11700869 TTTATATTTGCTTATAG
1 TTTAT-TTTGATTATAG
11700886 TT
1 TT
11700888 CATCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.23, C:0.03, G:0.11, T:0.63
Consensus pattern (16 bp):
TTTATTTTGATTATAG
Found at i:11706929 original size:25 final size:24
Alignment explanation
Indices: 11706888--11706934 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
11706878 AAAAGTTATT
*
11706888 ATTAAAAAAAATCTTAAATTTTAAA
1 ATTAAAAAAAATATT-AATTTTAAA
11706913 ATTAATAAAAAA-ATTAATTTTA
1 ATTAA-AAAAAATATTAATTTTA
11706935 CTATTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 7 0.35
26 6 0.30
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATTAAAAAAAATATTAATTTTAAA
Found at i:11707828 original size:6 final size:7
Alignment explanation
Indices: 11707810--11707834 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11707800 AAATACATTT
11707810 TAAAAAA
1 TAAAAAA
11707817 TAAAAAA
1 TAAAAAA
11707824 TAAAAAA
1 TAAAAAA
11707831 TAAA
1 TAAA
11707835 TACTACTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:11707858 original size:34 final size:32
Alignment explanation
Indices: 11707799--11707868 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 32
11707789 TTTTATTTAC
11707799 TAAATACATTTTAAAAAATAAAAAATAAAAAA
1 TAAATACATTTTAAAAAATAAAAAATAAAAAA
* *
11707831 TAAATACTACTTTCTAAAAAAT-GAAAATATAAAA
1 TAAATAC-A-TTT-TAAAAAATAAAAAATAAAAAA
11707865 TAAA
1 TAAA
11707869 AACAAAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 7 0.21
33 1 0.03
34 17 0.52
35 8 0.24
ACGTcount: A:0.66, C:0.06, G:0.01, T:0.27
Consensus pattern (32 bp):
TAAATACATTTTAAAAAATAAAAAATAAAAAA
Found at i:11724771 original size:26 final size:26
Alignment explanation
Indices: 11724718--11724782 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
11724708 TAATTTATCT
**
11724718 ATTAATAAATATATTTATTAATTTAATA
1 ATTAAT-AATAT-TTTATTAATAAAATA
11724746 ATTTAATAATATTTTATT-ATAAAATA
1 A-TTAATAATATTTTATTAATAAAATA
11724772 ATTAA-AATATT
1 ATTAATAATATT
11724783 AGTAATATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 6 0.18
25 4 0.12
26 7 0.21
27 6 0.18
28 6 0.18
29 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTAATAATATTTTATTAATAAAATA
Found at i:11726074 original size:18 final size:18
Alignment explanation
Indices: 11726037--11726087 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 18
11726027 TTTCTATTTC
11726037 TTTTCTTCTT-CTTCTTT
1 TTTTCTTCTTCCTTCTTT
* *
11726054 TTTACTT-TTCTTTCTTT
1 TTTTCTTCTTCCTTCTTT
11726071 TTTTCTTCTTCCTTCTT
1 TTTTCTTCTTCCTTCTT
11726088 ACGTACCTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 2 0.07
17 18 0.64
18 8 0.29
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTCTTCTTCCTTCTTT
Found at i:11727875 original size:59 final size:58
Alignment explanation
Indices: 11727812--11728281 Score: 473
Period size: 59 Copynumber: 7.8 Consensus size: 58
11727802 TTATTTTAGA
* * * * *
11727812 AAAATTGATACTTTCAATTTTTTCTTAAAAAATGTTTTTTAAAAATTTCATCTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCTTAAAAAAT-TTTTTTGAAATTTTTATTTTTAAGG
* * *
11727871 AAAATTGATGCTTTCAAC-TTTTCCTAAAAATGTTTTTTTTGAAATTTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCTTAAAAA--ATTTTTTTGAAATTTTTATTTTTAAGG
* * *
11727930 AAAATTGATACTTTTAACTTTTTCTCAAAAATATTTTTTTGAAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCTTAAAAA-ATTTTTTTGAAATTTTTATTTTTAAGG
* * * *
11727989 AAAATT-ATTACTTTCAACTTTTCCTTAAAACATCTTTTTTGAAATTTTTATTTTCAAGA
1 AAAATTGA-TACTTTCAACTTTTTCTTAAAAAAT-TTTTTTGAAATTTTTATTTTTAAGG
**
11728048 AAAATTGATACTTTCAAC-TTTTCTTCAAATATAATTTTTTTTGAAATTTTCGTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCTT-AAA-A-AA-TTTTTTTGAAATTTTTATTTTTAAGG
* * * *
11728109 AAAATTAATACTTTCAACTTTTTCTTAAAATATTTTTTTAAAATTTTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCTTAAAAAATTTTTTTGAAATTTTTATTTTTAAGG
* ** * *
11728167 -AAATTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTTGTTTGAAAATTTTT-TTTTCAATG
1 AAAATTGATACTTTCAACTTTTTCTTAAA--A--AATTTT-TTTG-AAATTTTTATTTTTAAGG
* *
11728229 AAAATTGATACTTTTAACTTTTCCTTAAAGTATATATTTTTTTGAAATTTTTA
1 AAAATTGATACTTTCAACTTTTTCTTAAA--A-A-ATTTTTTTGAAATTTTTA
11728282 CTCTAAAAAT
Statistics
Matches: 349, Mismatches: 42, Indels: 37
0.82 0.10 0.09
Matches are distributed among these distances:
57 26 0.07
58 42 0.12
59 146 0.42
60 14 0.04
61 55 0.16
62 24 0.07
63 42 0.12
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTTCTTAAAAAATTTTTTTGAAATTTTTATTTTTAAGG
Found at i:11728180 original size:177 final size:176
Alignment explanation
Indices: 11727812--11728279 Score: 561
Period size: 177 Copynumber: 2.6 Consensus size: 176
11727802 TTATTTTAGA
* * * * * *
11727812 AAAATTGATACTTTCAATTTTTTCTTAAAAAATGTTTTTTAAAAATTTCATCTTT-AAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTTAAAAAATCTTTTTTGAAATTTTTAT-TTTCAA-GAAAAT
* * * * * *
11727876 TGATGCTTTCAACTTTTCCTAAAAATGTTTTTTTTGAAATTTTTATTTTTAAGGAAAATTGATAC
64 TGATACTTTCAACTTTTCTTAAATATATTTTTTTTGAAATTTTCATTTTTAAGGAAAATTAATAC
* *
11727941 TTTTAACTTTTTCTCAAAAATATTTTTTTGAAAATTTTATTTTTAAGG
129 TTTCAACTTTTTCTCAAAAATATTTTTTTGAAAATTTTATTTTCAAGG
*
11727989 AAAATT-ATTACTTTCAACTTTTCCTTAAAACATCTTTTTTGAAATTTTTATTTTCAAGAAAAAT
1 AAAATTGA-TACTTTCAACTTTTCCTTAAAAAATCTTTTTTGAAATTTTTATTTTCAAG-AAAAT
*
11728053 TGATACTTTCAACTTTTCTTCAAATATAATTTTTTTTGAAATTTTCGTTTTTAAGGAAAATTAAT
64 TGATACTTTCAACTTTTCTT-AAATAT-ATTTTTTTTGAAATTTTCATTTTTAAGGAAAATTAAT
*
11728118 ACTTTCAACTTTTTCT-TAAAATATTTTTTT-AAAATTTTTATTTTCAAGG
127 ACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAA-TTTTATTTTCAAGG
** *
11728167 -AAATTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTTGTTTGAAAATTTTT-TTTTCAATGA
1 AAAATTGATACTTTCAACTTTTCCTTAAA--A-AATCTTT-TTTG-AAATTTTTATTTTCAA-GA
*
11728230 AAATTGATACTTTTAACTTTTCCTTAAAGTATATATTTTTTTGAAATTTT
60 AAATTGATACTTTCAACTTTT-CTTAAA-TATAT-TTTTTTTGAAATTTT
11728280 TACTCTAAAA
Statistics
Matches: 254, Mismatches: 21, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
176 5 0.02
177 97 0.38
178 32 0.13
179 49 0.19
180 4 0.02
181 37 0.15
182 30 0.12
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (176 bp):
AAAATTGATACTTTCAACTTTTCCTTAAAAAATCTTTTTTGAAATTTTTATTTTCAAGAAAATTG
ATACTTTCAACTTTTCTTAAATATATTTTTTTTGAAATTTTCATTTTTAAGGAAAATTAATACTT
TCAACTTTTTCTCAAAAATATTTTTTTGAAAATTTTATTTTCAAGG
Found at i:11728354 original size:3 final size:3
Alignment explanation
Indices: 11728346--11728379 Score: 50
Period size: 3 Copynumber: 10.7 Consensus size: 3
11728336 CAAAACAGAA
11728346 AAT AAT AAT AAT AAT AAT AAT AAGT AAAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA-T -AAT AAT AA
11728380 ATAAATAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 25 0.86
4 2 0.07
5 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:11728377 original size:11 final size:10
Alignment explanation
Indices: 11728346--11728391 Score: 51
Period size: 9 Copynumber: 4.5 Consensus size: 10
11728336 CAAAACAGAA
11728346 AATAAT-AAT
1 AATAATAAAT
11728355 AATAAT-AAT
1 AATAATAAAT
11728364 AATAAGTAAAT
1 AATAA-TAAAT
11728375 AATAAATAAAT
1 AAT-AATAAAT
11728386 AGATAA
1 A-ATAA
11728392 ATAAGATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
9 14 0.42
10 1 0.03
11 14 0.42
12 4 0.12
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (10 bp):
AATAATAAAT
Found at i:11728391 original size:15 final size:13
Alignment explanation
Indices: 11728345--11728391 Score: 55
Period size: 12 Copynumber: 3.7 Consensus size: 13
11728335 TCAAAACAGA
11728345 AAATAATAATAAT
1 AAATAATAATAAT
11728358 -AATAATAATAAGT
1 AAATAATAATAA-T
11728371 AAATAAT-A-AAT
1 AAATAATAATAAT
11728382 AAATAGATAA
1 AAATA-ATAA
11728392 ATAAGATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
11 6 0.20
12 15 0.50
13 3 0.10
14 6 0.20
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:11729580 original size:84 final size:82
Alignment explanation
Indices: 11729462--11729757 Score: 288
Period size: 84 Copynumber: 3.5 Consensus size: 82
11729452 TAGATTGAAC
* * * * * * *
11729462 CAAAAAAAGACTTGGCATAGGCCAAAATCCAAAATAAAATGACTTGGACTGAGCTAAAGTCTAAA
1 CAAAAAAAGATTTGACATAGGTCAAAATCTAAAATAAAATGACCTGGA-TGAACTGAAGTCTAAA
11729527 ATGAATAATTGGACTAAGT
65 ATGAATAATTGGACTAA-T
* * * *
11729546 TAAAAAAAGATTTGACATAAGTCAAAATCTAAAATAAAATGACCTGGATGAAACCGAAGTCTGAA
1 CAAAAAAAGATTTGACATAGGTCAAAATCTAAAATAAAATGACCTGGATG-AACTGAAGTCTAAA
* *
11729611 ATGAATAACTTAGACTAAA
65 ATGAATAA-TTGGACTAAT
* * * *
11729630 CAAAAGAAAGATTTGACATATGTCAAAATTTGAAAATAAAATGACCTAGATTGAATTGAAGTCTA
1 CAAAA-AAAGATTTGACATAGGTCAAAATCT-AAAATAAAATGACCTGGA-TGAACTGAAGTCTA
* *
11729695 AAATAAAT-ATATGGACCGAAT
63 AAATGAATAAT-TGGA-CTAAT
* * * * *
11729716 CAAAGAAGGATCTGGCATAGGTCAAAATCTAAAACAAAATGA
1 CAAAAAAAGATTTGACATAGGTCAAAATCTAAAATAAAATGA
11729758 TTTGGATTGA
Statistics
Matches: 174, Mismatches: 31, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
83 2 0.01
84 75 0.43
85 55 0.32
86 40 0.23
87 2 0.01
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (82 bp):
CAAAAAAAGATTTGACATAGGTCAAAATCTAAAATAAAATGACCTGGATGAACTGAAGTCTAAAA
TGAATAATTGGACTAAT
Found at i:11729694 original size:170 final size:165
Alignment explanation
Indices: 11729369--11729786 Score: 396
Period size: 170 Copynumber: 2.5 Consensus size: 165
11729359 GATGAACGAC
* * * * * ** *
11729369 TTGGACTAAGTCGAAAAAGGATTCGACGTAAGCCAAAATCCAAAAATGTAATGATCTGGATCAAA
1 TTGGACTAAGTCAAAAAAGGATTTGACATAAGTCAAAAT-CTAAAATAAAATGATCTGGATGAAA
* * * *
11729434 CCAAAGTCT-AAATTAACTTAGATTGAACCAAAAAAAGACTTGGCATAGGCCAAAATCCAAAATA
65 CCGAAGTCTGAAATTAACTTAGACTGAAACAAAAAAAGACTTGACATAGGCCAAAATCCAAAATA
* * * *
11729498 AAATGACTTGGACTGAGCTAAAGTCTAAAATGAATAA
130 AAATGACCTAGACTGAACTAAAGTCTAAAATAAAT-A
* * *
11729535 TTGGACTAAGTTAAAAAAAGATTTGACATAAGTCAAAATCTAAAATAAAATGACCTGGATGAAAC
1 TTGGACTAAGTCAAAAAAGGATTTGACATAAGTCAAAATCTAAAATAAAATGATCTGGATGAAAC
* * * **
11729600 CGAAGTCTGAAATGAATAACTTAGACT-AAACAAAAGAAAGATTTGACATATGTCAAAATTTGAA
66 CGAAGTCTGAAAT---TAACTTAGACTGAAACAAAA-AAAGACTTGACATAGGCCAAAA-TCCAA
* * *
11729664 AATAAAATGACCTAGATTGAATTGAAGTCTAAAATAAATA
126 AATAAAATGACCTAGACTGAACTAAAGTCTAAAATAAATA
* * * * * * *
11729704 TATGGACCGAA-TCAAAGAAGGATCTGGCATAGGTCAAAATCTAAAACAAAATGATTTGGATTG-
1 T-TGGA-CTAAGTCAAAAAAGGATTTGACATAAGTCAAAATCTAAAATAAAATGATCTGGA-TGA
*
11729767 AATCGAAGTCTGAAA-TAACT
63 AACCGAAGTCTGAAATTAACT
11729787 GAAGAAAGAT
Statistics
Matches: 205, Mismatches: 38, Indels: 18
0.79 0.15 0.07
Matches are distributed among these distances:
165 28 0.14
166 42 0.20
168 7 0.03
169 30 0.15
170 93 0.45
171 5 0.02
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.24
Consensus pattern (165 bp):
TTGGACTAAGTCAAAAAAGGATTTGACATAAGTCAAAATCTAAAATAAAATGATCTGGATGAAAC
CGAAGTCTGAAATTAACTTAGACTGAAACAAAAAAAGACTTGACATAGGCCAAAATCCAAAATAA
AATGACCTAGACTGAACTAAAGTCTAAAATAAATA
Found at i:11729721 original size:85 final size:84
Alignment explanation
Indices: 11729547--11729784 Score: 250
Period size: 85 Copynumber: 2.8 Consensus size: 84
11729537 GGACTAAGTT
*
11729547 AAAA-AAAGATTTGACATAAGTCAAAATCTAAAATAAAATGACCTGGA-TGAAACCGAAGTCTGA
1 AAAAGAAAGATTTGACATAAGTCAAAATCTAAAATAAAATGACCTGGATTG-AATCGAAGTCTGA
* *
11729610 AATGAATAACTTAGACTAAAC
65 AATAAATAAC-TAGACGAAAC
* * * * *
11729631 AAAAGAAAGATTTGACATATGTCAAAATTTGAAAATAAAATGACCTAGATTGAATTGAAGTCTAA
1 AAAAGAAAGATTTGACATAAGTCAAAATCT-AAAATAAAATGACCTGGATTGAATCGAAGTCTGA
* *
11729696 AATAAATATA-TGGACCGAATC
65 AATAAATA-ACTAGA-CGAAAC
* * * * * **
11729717 -AAAGAAGGATCTGGCATAGGTCAAAATCTAAAACAAAATGATTTGGATTGAATCGAAGTCTGAA
1 AAAAGAAAGATTTGACATAAGTCAAAATCTAAAATAAAATGACCTGGATTGAATCGAAGTCTGAA
11729781 ATAA
66 ATAA
11729785 CTGAAGAAAG
Statistics
Matches: 128, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
84 37 0.29
85 50 0.39
86 38 0.30
87 3 0.02
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (84 bp):
AAAAGAAAGATTTGACATAAGTCAAAATCTAAAATAAAATGACCTGGATTGAATCGAAGTCTGAA
ATAAATAACTAGACGAAAC
Found at i:11729846 original size:70 final size:70
Alignment explanation
Indices: 11729718--11729852 Score: 182
Period size: 70 Copynumber: 1.9 Consensus size: 70
11729708 GACCGAATCA
* ** ** * * *
11729718 AAGAAGGATCTGGCATAGGTCAAAATCTAAAACAAAATGATTTGGATTGAATCGAAGTCTGAAAT
1 AAGAAAGATCTGGCATAGGTCAAAATCTAAAACAAAATGACCTAAACTAAATCAAAGTCTGAAAT
11729783 AACTG
66 AACTG
11729788 AAGAAAGATCTGGCATAGGTCAAAAT-TCAAAACAAAATGACCTAAACTAAATCAAAGTCTGAAA
1 AAGAAAGATCTGGCATAGGTCAAAATCT-AAAACAAAATGACCTAAACTAAATCAAAGTCTGAAA
11729852 T
65 T
11729853 GAATAGCTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
69 1 0.02
70 55 0.98
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.22
Consensus pattern (70 bp):
AAGAAAGATCTGGCATAGGTCAAAATCTAAAACAAAATGACCTAAACTAAATCAAAGTCTGAAAT
AACTG
Found at i:11741768 original size:58 final size:57
Alignment explanation
Indices: 11741701--11742203 Score: 400
Period size: 58 Copynumber: 8.7 Consensus size: 57
11741691 CATGCCTTTA
* *
11741701 TTCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAGCATCTTTTGAAATTTTTATT
1 TTCAAGGAAAATTGATACTTTCAACTTTTTCT-AAAAGTATTTTTTGAAATTTTTATT
* * *
11741759 TTCAAGGAAAATTGATA-TTCTCAACTTTTTCTCGAAAAATATTTTTTGAAAATTTCATCT
1 TTCAAGGAAAATTGATACTT-TCAACTTTTTCT--AAAAGTATTTTTTGAAATTTTTAT-T
* * * * * *
11741819 TT-AAAGAAAATTGATACTTTTAACTTTTCCTAAAAATGGTTTTTT-TAATTTTTATTT
1 TTCAAGGAAAATTGATACTTTCAACTTTTTCTAAAAGT-ATTTTTTGAAATTTTTA-TT
* * * * *
11741876 TTTAA-AAAAATTGATACTTTCAACTTTTCCTTAAAA-CA--GTTTGAAATTTTTATT
1 TTCAAGGAAAATTGATACTTTCAACTTTTTC-TAAAAGTATTTTTTGAAATTTTTATT
* * * * * *
11741930 GTT-AAGAAAAATTGATACTTTCAACTTTTCCTTAAAGCA--TTTTGAAAATTTTGTT
1 -TTCAAGGAAAATTGATACTTTCAACTTTTTCTAAAAGTATTTTTTGAAATTTTTATT
* * * *
11741985 TTTAAGAAAAATTGATACTTTCAACTTTTCTTTAAAA-TATTTTTTTAAAATTTTTATT
1 TTCAAGGAAAATTGATACTTTCAACTTTT-TCTAAAAGTA-TTTTTTGAAATTTTTATT
* * * * *
11742043 TTCAAGAAAAATTAATACTTTCAACTTTTTCTTAAAGTATATTTTTTGAAA-TTTGATC
1 TTCAAGGAAAATTGATACTTTCAACTTTTTCTAAAAG--TATTTTTTGAAATTTTTATT
* * * *
11742101 TTCAAGGAAAACTAATACTTTTAACTTTTTCTTAAAGTATTTTTTTTGTTTAAAATTTTTATT
1 TTCAAGGAAAATTGATACTTTCAACTTTTTCTAAAAGTA--TTTTTTG----AAATTTTTATT
* * * *
11742164 TTCAAAGAAAATTGATAATTTCAACTTTTCCTTAAAGTAT
1 TTCAAGGAAAATTGATACTTTCAACTTTTTCTAAAAGTAT
11742204 ATATATTTTT
Statistics
Matches: 370, Mismatches: 48, Indels: 51
0.79 0.10 0.11
Matches are distributed among these distances:
54 13 0.04
55 77 0.21
56 6 0.02
57 45 0.12
58 129 0.35
59 51 0.14
60 7 0.02
61 1 0.00
62 3 0.01
63 38 0.10
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (57 bp):
TTCAAGGAAAATTGATACTTTCAACTTTTTCTAAAAGTATTTTTTGAAATTTTTATT
Found at i:11742313 original size:11 final size:11
Alignment explanation
Indices: 11742297--11742330 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
11742287 AAGTAATAAT
*
11742297 AATAATAAGTA
1 AATAATAAATA
11742308 AATAATAAATA
1 AATAATAAATA
11742319 AATAGATAAATA
1 AATA-ATAAATA
11742331 GGATTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (11 bp):
AATAATAAATA
Found at i:11744430 original size:34 final size:34
Alignment explanation
Indices: 11744386--11744452 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
11744376 CTTTTGAAGA
*
11744386 TTTCTGAAGATGCAAATCCAAAAATTTTTAAAAG
1 TTTCTAAAGATGCAAATCCAAAAATTTTTAAAAG
* *
11744420 TTTCTAAAGATGGAAATCTAAAAATTTTTAAAA
1 TTTCTAAAGATGCAAATCCAAAAATTTTTAAAA
11744453 ACTTATGGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.34
Consensus pattern (34 bp):
TTTCTAAAGATGCAAATCCAAAAATTTTTAAAAG
Found at i:11744465 original size:34 final size:34
Alignment explanation
Indices: 11744392--11744478 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
11744382 AAGATTTCTG
* ** *
11744392 AAGATGCAAATCCAAAAATTTTTAAAAGTTTCTA
1 AAGATGCAAATCTAAAAATTTTTAAAAACTTATA
* *
11744426 AAGATGGAAATCTAAAAATTTTTAAAAACTTATG
1 AAGATGCAAATCTAAAAATTTTTAAAAACTTATA
*
11744460 GAGATGCAAATCTGAAAAA
1 AAGATGCAAATCT-AAAAA
11744479 CCTATAAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 39 0.89
35 5 0.11
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (34 bp):
AAGATGCAAATCTAAAAATTTTTAAAAACTTATA
Found at i:11744539 original size:34 final size:34
Alignment explanation
Indices: 11744501--11744590 Score: 85
Period size: 34 Copynumber: 2.6 Consensus size: 34
11744491 TCCAAATTTA
*
11744501 TATTTTCGAAAACTTTTAAAAGATTTCAGAGTTG
1 TATTTTCGAAAACTTTTAAAAGATTTCAAAGTTG
* * * * *
11744535 TATTTCCTAAAAC-CTTAAAATGCTTTCAAATTTG
1 TATTTTCGAAAACTTTTAAAA-GATTTCAAAGTTG
*
11744569 CATCTTT-GAAAACTTTTAAAAG
1 TAT-TTTCGAAAACTTTTAAAAG
11744591 TTTTTGAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
33 6 0.14
34 29 0.67
35 8 0.19
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (34 bp):
TATTTTCGAAAACTTTTAAAAGATTTCAAAGTTG
Found at i:11750522 original size:37 final size:37
Alignment explanation
Indices: 11750470--11750542 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
11750460 TTACTTTCAT
* * *
11750470 TTTTTTTCTTATAGTTAAGCTTTTAAAATTTAAAACA
1 TTTTTTCCTTATAGTTAAACATTTAAAATTTAAAACA
*
11750507 TTTTTTCCTTTTAGTTAAACATTTAAAATTTAAAAC
1 TTTTTTCCTTATAGTTAAACATTTAAAATTTAAAAC
11750543 TTGATTGACT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.51
Consensus pattern (37 bp):
TTTTTTCCTTATAGTTAAACATTTAAAATTTAAAACA
Found at i:11759262 original size:146 final size:145
Alignment explanation
Indices: 11758935--11759323 Score: 405
Period size: 146 Copynumber: 2.7 Consensus size: 145
11758925 CTCATTTTGA
* * ** *
11758935 GATTTTAAA-GCACTAAAAATCATGAAATATTATAAAACCAAGATCTAAAAAGTTTTGTGAAATT
1 GATTTCAAATGCACAAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTTGTGAAATT
** * * * * * **
11758999 TTGAGCTTG-GAAAGGTCAAATTATGAAAATACCCCAATAAGGGTATTTTGGTAATTTTTCCTTC
66 TCAAGCTCGAAAAAGGCCAAATTATGAAAATACCCCAATAAGGATATTTTGATAATTTCACCTTC
11759063 TCAGAGGACTGCTAT
131 TCAGAGGACTGCTAT
* * * * *
11759078 GATTTCAGATGCACTAAAAATCATGAAATATTATAAAATTTAGATATGAAAGGTTTTGTGAAATT
1 GATTTCAAATGCACAAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTTGTGAAATT
* * ** *
11759143 TCAAGCTCGAAAAAGACCAAATTATGAAAATATCCTTATAAGGATATTTTGATAGTTTCACACTT
66 TCAAGCTCGAAAAAGGCCAAATTATGAAAATACCCCAATAAGGATATTTTGATAATTTCAC-CTT
11759208 -TCTAG-GGTACTG-TCAT
130 CTC-AGAGG-ACTGCT-AT
* *** *
11759224 GATTTCAAACT-CACAAAAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTTACAAAAA
1 GATTTCAAA-TGCACAAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTTGTGAAAT
* *
11759288 TCCAAGCTC-AAAAAGGCTAAATTATGAAAATACCCC
65 TTCAAGCTCGAAAAAGGCCAAATTATGAAAATACCCC
11759324 TAAGGTGTTA
Statistics
Matches: 202, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
143 7 0.03
144 55 0.27
145 68 0.34
146 71 0.35
147 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (145 bp):
GATTTCAAATGCACAAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTTGTGAAATT
TCAAGCTCGAAAAAGGCCAAATTATGAAAATACCCCAATAAGGATATTTTGATAATTTCACCTTC
TCAGAGGACTGCTAT
Found at i:11759906 original size:15 final size:17
Alignment explanation
Indices: 11759886--11759917 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
11759876 CAAACCTTTG
11759886 CTTTCT-TTTTT-TTTT
1 CTTTCTCTTTTTATTTT
11759901 CTTTCTCTTTTTATTTT
1 CTTTCTCTTTTTATTTT
11759918 TTTTTGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (17 bp):
CTTTCTCTTTTTATTTT
Found at i:11760165 original size:108 final size:108
Alignment explanation
Indices: 11759970--11760610 Score: 441
Period size: 108 Copynumber: 5.9 Consensus size: 108
11759960 GAAATGAGGG
* **
11759970 ATGACTAGAACAACACTGTAAGTCAAAAAATAACTGATGATTGGGACAACGTTACAAGTCAAAAA
1 ATGACTAGAACAACACTGTAAGTTAAAAAATAACTGATGATTGGGACAACGCCACAAGTCAAAAA
* *
11760035 GTAACTGATGACCG-GAATAACACTGTAAGTCAAAAAGTAAGGA
66 GTAACTGATGACTGAG-ATAACACCGTAAGTCAAAAAGTAAGGA
** *
11760078 ATGACTAGAACAACACTACAAGTTAAAAAATAACTGATGATTGGGACAATGCCACAAGTCAAAAA
1 ATGACTAGAACAACACTGTAAGTTAAAAAATAACTGATGATTGGGACAACGCCACAAGTCAAAAA
* * *
11760143 GTAACTAATGACTGAGACAACACCGCAAGTCAAAAAGTAAGGA
66 GTAACTGATGACTGAGATAACACCGTAAGTCAAAAAGTAAGGA
* * * * * * *** * *
11760186 ACGATTGGAATAACACTGTAAGTTGAAAAATAACCGATGACCAGGACAACACCATAAGTCAAAAA
1 ATGACTAGAACAACACTGTAAGTTAAAAAATAACTGATGATTGGGACAACGCCACAAGTCAAAAA
* * *
11760251 GTAACTGATGACTGAGATAACACCCTGAGTCAAAAAGTAAGGG
66 GTAACTGATGACTGAGATAACACCGTAAGTCAAAAAGTAAGGA
* * * * ** ***** * ***** *
11760294 ATGA-TCGGGACAACA-TCGTAAGTCAAAAAATAACTAAAAACCAAAATAATATTGCAAGTCGAA
1 ATGACT-AGAACAACACT-GTAAGTTAAAAAATAACTGATGATTGGGACAACGCCACAAGTCAAA
** * *
11760357 AAGTAACTGATGACTGAGATAACTTCGTGAGTCAAAAAGTAAGAA
64 AAGTAACTGATGACTGAGATAACACCGTAAGTCAAAAAGTAAGGA
* * * * * ** ** *
11760402 ATGA-TCGGGACAACACCGTAAGTCAAAAAATAATTGATGATTGGGACAACATCGTAGGTCAAAA
1 ATGACT-AGAACAACACTGTAAGTTAAAAAATAACTGATGATTGGGACAACGCCACAAGTCAAAA
* * * * ** *
11760466 AGTAACTGATGA-TTAGGACAATACCATAAGTTGAAAAGTAAAGA
65 AGTAACTGATGACTGA-GATAACACCGTAAGTCAAAAAGTAAGGA
* * * * * * * * * * **
11760510 ATGA-TTGAGCCAACATTGCAAGTGAAAAAATAACTGATAATCGAGATAACACCGTAAGTCAAAA
1 ATGACTAGA-ACAACACTGTAAGTTAAAAAATAACTGATGATTGGGACAACGCCACAAGTCAAAA
*** * *
11760574 AGTAAAAAATGA-TCGGGATAACACCATAAGTCAAAAA
65 AGTAACTGATGACT-GAGATAACACCGTAAGTCAAAAA
11760611 ATAAAGATGA
Statistics
Matches: 422, Mismatches: 104, Indels: 14
0.78 0.19 0.03
Matches are distributed among these distances:
107 5 0.01
108 416 0.99
109 1 0.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (108 bp):
ATGACTAGAACAACACTGTAAGTTAAAAAATAACTGATGATTGGGACAACGCCACAAGTCAAAAA
GTAACTGATGACTGAGATAACACCGTAAGTCAAAAAGTAAGGA
Found at i:11760677 original size:36 final size:36
Alignment explanation
Indices: 11759979--11760676 Score: 328
Period size: 36 Copynumber: 19.4 Consensus size: 36
11759969 GATGACTAGA
* *
11759979 ACAACACTGTAAGTCAAAAAATAACTGATGATTGGG
1 ACAACACCGTAAGTCAAAAAGTAACTGATGATTGGG
***** ** *
11760015 ACAACGTTACAAGTCAAAAAGTAACTGATGACCGGA
1 ACAACACCGTAAGTCAAAAAGTAACTGATGATTGGG
* * * * * *
11760051 ATAACACTGTAAGTCAAAAAGTAA-GGAATGACTAGA
1 ACAACACCGTAAGTCAAAAAGTAACTG-ATGATTGGG
*** * *
11760087 ACAACACTACAAGTTAAAAAATAACTGATGATTGGG
1 ACAACACCGTAAGTCAAAAAGTAACTGATGATTGGG
** ** * * *
11760123 ACAATGCCACAAGTCAAAAAGTAACTAATGACTGAG
1 ACAACACCGTAAGTCAAAAAGTAACTGATGATTGGG
* * * *
11760159 ACAACACCGCAAGTCAAAAAGTAA-GGAACGATTGGA
1 ACAACACCGTAAGTCAAAAAGTAACTG-ATGATTGGG
* * * * ***
11760195 ATAACACTGTAAGTTGAAAAA-TAACCGATGACCAGG
1 ACAACACCGTAAG-TCAAAAAGTAACTGATGATTGGG
* * *
11760231 ACAACACCATAAGTCAAAAAGTAACTGATGACTGAG
1 ACAACACCGTAAGTCAAAAAGTAACTGATGATTGGG
* * * ** *
11760267 ATAACACCCTGAGTCAAAAAGTAAGGGATGATCGGG
1 ACAACACCGTAAGTCAAAAAGTAACTGATGATTGGG
* * * ** *****
11760303 ACAACATCGTAAGTCAAAAAATAACTAAAAACCAAA
1 ACAACACCGTAAGTCAAAAAGTAACTGATGATTGGG
* * ** * * * *
11760339 ATAATATTGCAAGTCGAAAAGTAACTGATGACTGAG
1 ACAACACCGTAAGTCAAAAAGTAACTGATGATTGGG
* ** * *** *
11760375 ATAACTTCGTGAGTCAAAAAGTAAGAAATGATCGGG
1 ACAACACCGTAAGTCAAAAAGTAACTGATGATTGGG
* *
11760411 ACAACACCGTAAGTCAAAAAATAATTGATGATTGGG
1 ACAACACCGTAAGTCAAAAAGTAACTGATGATTGGG
* * *
11760447 ACAACATCGTAGGTCAAAAAGTAACTGATGATTAGG
1 ACAACACCGTAAGTCAAAAAGTAACTGATGATTGGG
* * ** * *
11760483 ACAATACCATAAGTTGAAAAGTAA-AGAATGATTGAG
1 ACAACACCGTAAGTCAAAAAGTAACTG-ATGATTGGG
* ** * * * * * *
11760519 CCAACATTGCAAGTGAAAAAATAACTGATAATCGAG
1 ACAACACCGTAAGTCAAAAAGTAACTGATGATTGGG
* *** *
11760555 ATAACACCGTAAGTCAAAAAGTAAAAAATGATCGGG
1 ACAACACCGTAAGTCAAAAAGTAACTGATGATTGGG
* * * * *
11760591 ATAACACCATAAGTCAAAAAATAA-AGATGATCGGG
1 ACAACACCGTAAGTCAAAAAGTAACTGATGATTGGG
* * * *
11760626 ACAACATCGCT-AGTCGAAAAGTAACTGATAATTAGG
1 ACAACACCG-TAAGTCAAAAAGTAACTGATGATTGGG
*
11760662 ACAACATCGTAAGTC
1 ACAACACCGTAAGTC
11760677 GGTAAACTCA
Statistics
Matches: 486, Mismatches: 165, Indels: 22
0.72 0.25 0.03
Matches are distributed among these distances:
35 36 0.07
36 441 0.91
37 9 0.02
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (36 bp):
ACAACACCGTAAGTCAAAAAGTAACTGATGATTGGG
Found at i:11771770 original size:16 final size:16
Alignment explanation
Indices: 11771749--11771783 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11771739 ATTAATCAAA
11771749 ATATCACAAAAAAATC
1 ATATCACAAAAAAATC
* *
11771765 ATATCATAAATAAATC
1 ATATCACAAAAAAATC
11771781 ATA
1 ATA
11771784 AGCACAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (16 bp):
ATATCACAAAAAAATC
Found at i:11771860 original size:37 final size:37
Alignment explanation
Indices: 11771793--11771907 Score: 149
Period size: 37 Copynumber: 3.1 Consensus size: 37
11771783 AAGCACAAAA
* * **
11771793 TCAAAACAAAATAATAACTAACATATAATTTATTTTC
1 TCAAAATAAAGTAATAACTAACATGCAATTTATTTTC
* * *
11771830 TTAAAATAAAGTAATAACTAACATGCAATTTACTTTG
1 TCAAAATAAAGTAATAACTAACATGCAATTTATTTTC
* *
11771867 TCAAAATAAAGTACTAACTAACATGCAATTTATTTTA
1 TCAAAATAAAGTAATAACTAACATGCAATTTATTTTC
11771904 TCAA
1 TCAA
11771908 TTAACTTATG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (37 bp):
TCAAAATAAAGTAATAACTAACATGCAATTTATTTTC
Found at i:11775828 original size:144 final size:145
Alignment explanation
Indices: 11775528--11775897 Score: 351
Period size: 144 Copynumber: 2.6 Consensus size: 145
11775518 TTTCCTGGGG
* * * * **
11775528 ACTGCTATGATTTTAGATACACTAAAAATCATGAAATATTATAAAATTAACATCTAAAAAGTTT-
1 ACTGCCATGATTTCAAATGCAC-AAAAATCATGAAATATTATAAAATTAACATCTTGAAAGTTTC
* ** *
11775592 -TGTAAAATTTCGAGCTT-AGAAAGATTAAATTATGAAAATACCCTTATAACGGTATTTTCATAA
65 ATG-AAAA-TTCAAGCTTGAGAAAGACCAAATTATGAAAATACCCTTAAAACGGTATTTTCATAA
**
11775655 TTTCACACTTTTTAGGGT
128 TTTCACACTTTCGAGGGT
*
11775673 ACTGCCATGATTTCAAACT-CACAAAAATCATAAAATATTATAAAATTGAA-ATCTTGAAAGTTT
1 ACTGCCATGATTTCAAA-TGCACAAAAATCATGAAATATTATAAAATT-AACATCTTGAAAGTTT
** * *
11775736 CATGAAAATTCAAGCTTGAGAAAG-CCAAATTATGAAAATACCCTTAAAATTGTGTTTTGATAAT
64 CATGAAAATTCAAGCTTGAGAAAGACCAAATTATGAAAATACCCTTAAAACGGTATTTTCATAAT
* *
11775800 TTTACCCATTTCGA-GGT
129 TTCACAC-TTTCGAGGGT
* *** * * * * * *
11775817 AGTGTTGTGATTTTAAATGTACCAAAATTATGAAATGTTATAAAATTAAGATC-TGAAAGGTTTC
1 ACTGCCATGATTTCAAATGCACAAAAATCATGAAATATTATAAAATTAACATCTTGAAA-GTTTC
*
11775881 ATAAAAATTCAAGCTTG
65 ATGAAAATTCAAGCTTG
11775898 GGAATTACAA
Statistics
Matches: 187, Mismatches: 29, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
143 8 0.04
144 143 0.76
145 33 0.18
146 3 0.02
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (145 bp):
ACTGCCATGATTTCAAATGCACAAAAATCATGAAATATTATAAAATTAACATCTTGAAAGTTTCA
TGAAAATTCAAGCTTGAGAAAGACCAAATTATGAAAATACCCTTAAAACGGTATTTTCATAATTT
CACACTTTCGAGGGT
Found at i:11778033 original size:17 final size:17
Alignment explanation
Indices: 11778011--11778044 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11778001 ATTTGAAAGA
11778011 TGGTAGTAATTTCAGCT
1 TGGTAGTAATTTCAGCT
*
11778028 TGGTAGTAATTTTAGCT
1 TGGTAGTAATTTCAGCT
11778045 CAACATTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.44
Consensus pattern (17 bp):
TGGTAGTAATTTCAGCT
Found at i:11782944 original size:20 final size:20
Alignment explanation
Indices: 11782919--11782958 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
11782909 TTTGACCACC
11782919 TTATTTTATCATTTATTTTT
1 TTATTTTATCATTTATTTTT
*
11782939 TTATTTTGTCATTTATTTTT
1 TTATTTTATCATTTATTTTT
11782959 CTTCTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (20 bp):
TTATTTTATCATTTATTTTT
Found at i:11786640 original size:14 final size:13
Alignment explanation
Indices: 11786621--11786661 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
11786611 AAAACCAAAC
11786621 CAAAAAATAAAAAA
1 CAAAAAA-AAAAAA
*
11786635 CAAAAACAAAAAGA
1 CAAAAA-AAAAAAA
11786649 CAAAAAAAAAAAA
1 CAAAAAAAAAAAA
11786662 TTTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 6 0.25
14 17 0.71
15 1 0.04
ACGTcount: A:0.85, C:0.10, G:0.02, T:0.02
Consensus pattern (13 bp):
CAAAAAAAAAAAA
Found at i:11786644 original size:20 final size:21
Alignment explanation
Indices: 11786606--11786661 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
11786596 TTTTTACTAT
* *
11786606 ACAACAAAACCAAACCAAAAA-
1 ACAA-AAAACAAAAACAAAAAG
*
11786627 ATAAAAAACAAAAACAAAAAG
1 ACAAAAAACAAAAACAAAAAG
*
11786648 ACAAAAAAAAAAAA
1 ACAAAAAACAAAAA
11786662 TTTTAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.80, C:0.16, G:0.02, T:0.02
Consensus pattern (21 bp):
ACAAAAAACAAAAACAAAAAG
Found at i:11789781 original size:15 final size:15
Alignment explanation
Indices: 11789763--11789796 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11789753 GAAAAAAGAA
*
11789763 AAAATGAAAGAAAAG
1 AAAAGGAAAGAAAAG
*
11789778 AAAAGGAAAGGAAAG
1 AAAAGGAAAGAAAAG
11789793 AAAA
1 AAAA
11789797 AAAAAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.03
Consensus pattern (15 bp):
AAAAGGAAAGAAAAG
Found at i:11790499 original size:10 final size:10
Alignment explanation
Indices: 11790486--11790555 Score: 70
Period size: 10 Copynumber: 6.8 Consensus size: 10
11790476 AAAAGGGAAA
11790486 AAAAGAAATG
1 AAAAGAAATG
*
11790496 AAAATGAAAAG
1 AAAA-GAAATG
*
11790507 AAAAAAAATG
1 AAAAGAAATG
*
11790517 AGAGAAAAAATG
1 A-A-AAGAAATG
*
11790529 AAATGAAATG
1 AAAAGAAATG
11790539 AAAAGAAAT-
1 AAAAGAAATG
11790548 AAAAGAAA
1 AAAAGAAA
11790556 AAAAATTTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
9 8 0.16
10 23 0.45
11 11 0.22
12 9 0.18
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (10 bp):
AAAAGAAATG
Found at i:11790533 original size:32 final size:33
Alignment explanation
Indices: 11790469--11790558 Score: 94
Period size: 32 Copynumber: 2.8 Consensus size: 33
11790459 CAAAAAAGAA
***
11790469 AAAAGAAAAAAGGGAAAA-AAAGAAATGAAAATG
1 AAAAGAAAAAAAATAAAAGAAA-AAATGAAAATG
* *
11790502 AAAAGAAAAAAAATGAGAGAAAAAATG-AAATG
1 AAAAGAAAAAAAATAAAAGAAAAAATGAAAATG
* *
11790534 AAATGAAAAGAAATAAAAGAAAAAA
1 AAAAGAAAAAAAATAAAAGAAAAAA
11790559 AATTTTAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
32 26 0.55
33 18 0.38
34 3 0.06
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (33 bp):
AAAAGAAAAAAAATAAAAGAAAAAATGAAAATG
Found at i:11791070 original size:21 final size:21
Alignment explanation
Indices: 11791044--11791098 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
11791034 AGAAAATAGG
* *
11791044 GAAAAAATGAAGAAAATGAAA
1 GAAAAAATGAAAAAAAGGAAA
11791065 GAAAAAAAT-AAAAAAAGGAAA
1 G-AAAAAATGAAAAAAAGGAAA
*
11791086 AAAAGAAATGAAA
1 GAAA-AAATGAAA
11791099 TGAAATGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 3 0.11
21 15 0.54
22 10 0.36
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.07
Consensus pattern (21 bp):
GAAAAAATGAAAAAAAGGAAA
Found at i:11793000 original size:36 final size:35
Alignment explanation
Indices: 11792960--11793047 Score: 104
Period size: 35 Copynumber: 2.5 Consensus size: 35
11792950 ATTATTGGTA
*
11792960 GTGAAATCTAACTTTTTAAAAAAAACTCTTTTAGTG
1 GTGAAATCTAACTTTTT-AAAAAAACTCTTTCAGTG
* * *** *
11792996 GTGAAATCTGACATTTTCTCAAAACTCTTTCGGTG
1 GTGAAATCTAACTTTTTAAAAAAACTCTTTCAGTG
11793031 GTGAAATCTAACTTTTT
1 GTGAAATCTAACTTTTT
11793048 CTTAAAATTC
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 28 0.65
36 15 0.35
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.40
Consensus pattern (35 bp):
GTGAAATCTAACTTTTTAAAAAAACTCTTTCAGTG
Found at i:11793024 original size:35 final size:34
Alignment explanation
Indices: 11792981--11793108 Score: 125
Period size: 35 Copynumber: 3.7 Consensus size: 34
11792971 CTTTTTAAAA
* *
11792981 AAAACTCTTTTAGTGGTGAAATCTGACATTTTCTC
1 AAAACTCTTTCAGTGGTGAAATCTGAC-TTTTCTT
* *
11793016 AAAACTCTTTCGGTGGTGAAATCTAACTTTTTCTT
1 AAAACTCTTTCAGTGGTGAAATCTGAC-TTTTCTT
* ** *
11793051 AAAATTCCAT-AGATGGTGAAATCTGACCTTTCTT
1 AAAACTCTTTCAG-TGGTGAAATCTGACTTTTCTT
*
11793085 AAAACT-TTCTCAGTGGTGATATCT
1 AAAACTCTT-TCAGTGGTGAAATCT
11793109 AAGCTATTAC
Statistics
Matches: 75, Mismatches: 15, Indels: 7
0.77 0.15 0.07
Matches are distributed among these distances:
34 23 0.31
35 52 0.69
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (34 bp):
AAAACTCTTTCAGTGGTGAAATCTGACTTTTCTT
Found at i:11793407 original size:33 final size:34
Alignment explanation
Indices: 11793334--11793411 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
11793324 TCCCCTTCGG
* * *
11793334 TGGTGATATCCGAAGTCATTTTTTTTTCACTTGA
1 TGGTGATATCTGAAATCATTTATTTTTCACTTGA
* * *
11793368 TAGTGATATCTGAAATTATTTATTTTT-ATTTGA
1 TGGTGATATCTGAAATCATTTATTTTTCACTTGA
11793401 TGGTGATATCT
1 TGGTGATATCT
11793412 AAGTTCCCTT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 15 0.41
34 22 0.59
ACGTcount: A:0.24, C:0.09, G:0.17, T:0.50
Consensus pattern (34 bp):
TGGTGATATCTGAAATCATTTATTTTTCACTTGA
Found at i:11793855 original size:33 final size:34
Alignment explanation
Indices: 11793777--11794092 Score: 129
Period size: 32 Copynumber: 9.9 Consensus size: 34
11793767 CCTTTCGGTA
*
11793777 GTGATA-CCTAAAGTCATTTG--TTTTCTTC-AGTG
1 GTGATATCC-AAAGTCATTTGAATTCTCTTCGA-TG
*
11793809 GTAATATCCAAAGTCATTTGAATTCTCTTCGAT-
1 GTGATATCCAAAGTCATTTGAATTCTCTTCGATG
* ** ** * *
11793842 GTGATATCTAAAGTTGTTTGTTTTCACTT-GGTG
1 GTGATATCCAAAGTCATTTGAATTCTCTTCGATG
** *
11793875 GTGATATCCGTAGTCATTTGAATTCTCTTTGATG
1 GTGATATCCAAAGTCATTTGAATTCTCTTCGATG
* * ** * **
11793909 GTGATATTCGAAGTTGTTGGTCTT-TAC-TC-AGTG
1 GTGATATCCAAAGTCATTTGAATTCT-CTTCGA-TG
*
11793942 GTGATATCC-AAGTC--------CCT-TTCGATG
1 GTGATATCCAAAGTCATTTGAATTCTCTTCGATG
* * * *
11793966 GTGATATCTAAAGTCGTTTG--TTTTCTTCAATG
1 GTGATATCCAAAGTCATTTGAATTCTCTTCGATG
**
11793998 GTGATATCCAAAGTCATTTGAATTCTCTTTAATG
1 GTGATATCCAAAGTCATTTGAATTCTCTTCGATG
* * * *
11794032 GTGATATCCAAAGTCGTATG--TTTTCTTCAATG
1 GTGATATCCAAAGTCATTTGAATTCTCTTCGATG
** * *
11794064 GCAATATCCGAAGTGATTTGAATTCTCTT
1 GTGATATCCAAAGTCATTTGAATTCTCTT
11794093 TGGTATTGAT
Statistics
Matches: 212, Mismatches: 49, Indels: 44
0.70 0.16 0.14
Matches are distributed among these distances:
24 12 0.06
25 7 0.03
31 1 0.00
32 71 0.33
33 57 0.27
34 63 0.30
35 1 0.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.42
Consensus pattern (34 bp):
GTGATATCCAAAGTCATTTGAATTCTCTTCGATG
Found at i:11793914 original size:34 final size:34
Alignment explanation
Indices: 11793807--11794094 Score: 110
Period size: 34 Copynumber: 9.0 Consensus size: 34
11793797 TTTTCTTCAG
* *
11793807 TGGTAATATCCAAAGTCATTTGAATTCTCTTCGA
1 TGGTGATATCCAAAGTCATTTGAATTCTCTTTGA
* ** ** * *
11793841 T-GTGATATCTAAAGTTGTTTGTTTTCAC-TTGG
1 TGGTGATATCCAAAGTCATTTGAATTCTCTTTGA
**
11793873 TGGTGATATCCGTAGTCATTTGAATTCTCTTTGA
1 TGGTGATATCCAAAGTCATTTGAATTCTCTTTGA
* * ** * ** **
11793907 TGGTGATATTCGAAGTTGTTGGTCTT-TACTCAG-
1 TGGTGATATCCAAAGTCATTTGAATTCT-CTTTGA
11793940 TGGTGATATCC-AAGTC---------C-CTTTCGA
1 TGGTGATATCCAAAGTCATTTGAATTCTCTTT-GA
* * * **
11793964 TGGTGATATCTAAAGTCGTTTG--TTTTCTTCAA
1 TGGTGATATCCAAAGTCATTTGAATTCTCTTTGA
*
11793996 TGGTGATATCCAAAGTCATTTGAATTCTCTTTAA
1 TGGTGATATCCAAAGTCATTTGAATTCTCTTTGA
* * * **
11794030 TGGTGATATCCAAAGTCGTATG--TTTTCTTCAA
1 TGGTGATATCCAAAGTCATTTGAATTCTCTTTGA
** * *
11794062 TGGCAATATCCGAAGTGATTTGAATTCTCTTTG
1 TGGTGATATCCAAAGTCATTTGAATTCTCTTTG
11794095 GTATTGATAT
Statistics
Matches: 183, Mismatches: 52, Indels: 38
0.67 0.19 0.14
Matches are distributed among these distances:
22 2 0.01
23 1 0.01
24 10 0.05
25 5 0.03
32 52 0.28
33 53 0.29
34 60 0.33
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (34 bp):
TGGTGATATCCAAAGTCATTTGAATTCTCTTTGA
Found at i:11793947 original size:67 final size:66
Alignment explanation
Indices: 11793777--11794092 Score: 214
Period size: 66 Copynumber: 4.9 Consensus size: 66
11793767 CCTTTCGGTA
* ** * * *
11793777 GTGATACCTAAAGTCATTTGTTTTC-TTCAGTGGTAATATCCAAAGTCATTTGAATTCTCTTCGA
1 GTGATATCTAAAGTTGTTGGTTTTCACTCAGTGGTGATATCCAAAGTCATTTGAATTCTCTTCGA
11793841 T
66 T
* ** ** *
11793842 GTGATATCTAAAGTTGTTTGTTTTCACTTGGTGGTGATATCCGTAGTCATTTGAATTCTCTTTGA
1 GTGATATCTAAAGTTGTTGGTTTTCACTCAGTGGTGATATCCAAAGTCATTTGAATTCTCTTCGA
11793907 T
66 T
* *
11793908 GGTGATAT-TCGAAGTTGTTGGTCTTT-ACTCAGTGGTGATATCC-AAGTC--------CCT-TT
1 -GTGATATCT-AAAGTTGTTGGT-TTTCACTCAGTGGTGATATCCAAAGTCATTTGAATTCTCTT
11793961 CGAT
63 CGAT
* * * * **
11793965 GGTGATATCTAAAGTCGTTTGTTTTC-TTCAATGGTGATATCCAAAGTCATTTGAATTCTCTTTA
1 -GTGATATCTAAAGTTGTTGGTTTTCACTCAGTGGTGATATCCAAAGTCATTTGAATTCTCTTCG
11794029 AT
65 AT
* * * * ** * *
11794031 GGTGATATCCAAAGTCGTAT-GTTTTC-TTCAATGGCAATATCCGAAGTGATTTGAATTCTCTT
1 -GTGATATCTAAAGTTGT-TGGTTTTCACTCAGTGGTGATATCCAAAGTCATTTGAATTCTCTT
11794093 TGGTATTGAT
Statistics
Matches: 204, Mismatches: 30, Indels: 33
0.76 0.11 0.12
Matches are distributed among these distances:
56 17 0.08
57 27 0.13
58 3 0.01
65 24 0.12
66 97 0.48
67 33 0.16
68 3 0.01
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.42
Consensus pattern (66 bp):
GTGATATCTAAAGTTGTTGGTTTTCACTCAGTGGTGATATCCAAAGTCATTTGAATTCTCTTCGA
T
Found at i:11793990 original size:189 final size:189
Alignment explanation
Indices: 11793763--11794108 Score: 480
Period size: 189 Copynumber: 1.8 Consensus size: 189
11793753 TTGATATATG
* *
11793763 AGTCCCTTTCGGTAGTGATACCTAAAGTCATTTGTTTTCTTCAGTGGTAATATCCAAAGTCATTT
1 AGTCCCTTTCGATAGTGATACCTAAAGTCATTTGTTTTCTTCAATGGTAATATCCAAAGTCATTT
* * * * ** ** *
11793828 GAATTCTCTTCGAT-GTGATATCTAAAGTTGTTTGTTTTCACTT-GGTGGTGATATCCGTAGTCA
66 GAATTCTCTTCAATGGTGATATCCAAAGTCGTATGTTTT--CTTCAATGGCAATATCCGAAGTCA
*
11793891 TTTGAATTCTCTTTGATGGTGATATTCGAAGTTGTTGGTCTTTACTCAGTGGTGATATCCA
129 TTTGAATTCTCTTTGATAGTGATATTCGAAGTTGTTGGTCTTTACTCAGTGGTGATATCCA
* * * *
11793952 AGTCCCTTTCGATGGTGATATCTAAAGTCGTTTGTTTTCTTCAATGGTGATATCCAAAGTCATTT
1 AGTCCCTTTCGATAGTGATACCTAAAGTCATTTGTTTTCTTCAATGGTAATATCCAAAGTCATTT
* *
11794017 GAATTCTCTTTAATGGTGATATCCAAAGTCGTATGTTTTCTTCAATGGCAATATCCGAAGTGATT
66 GAATTCTCTTCAATGGTGATATCCAAAGTCGTATGTTTTCTTCAATGGCAATATCCGAAGTCATT
* *
11794082 TGAATTCTCTTTGGTATTGATATTCGA
131 TGAATTCTCTTTGATAGTGATATTCGA
11794109 GTCCCCTTCG
Statistics
Matches: 135, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
188 3 0.02
189 111 0.82
190 21 0.16
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (189 bp):
AGTCCCTTTCGATAGTGATACCTAAAGTCATTTGTTTTCTTCAATGGTAATATCCAAAGTCATTT
GAATTCTCTTCAATGGTGATATCCAAAGTCGTATGTTTTCTTCAATGGCAATATCCGAAGTCATT
TGAATTCTCTTTGATAGTGATATTCGAAGTTGTTGGTCTTTACTCAGTGGTGATATCCA
Found at i:11794072 original size:32 final size:32
Alignment explanation
Indices: 11793963--11794064 Score: 141
Period size: 32 Copynumber: 3.1 Consensus size: 32
11793953 GTCCCTTTCG
*
11793963 ATGGTGATATCTAAAGTCGTTTGTTTTCTTCA
1 ATGGTGATATCCAAAGTCGTTTGTTTTCTTCA
* * *
11793995 ATGGTGATATCCAAAGTCATTTGAATTCTCTTTA
1 ATGGTGATATCCAAAGTCGTTTG--TTTTCTTCA
*
11794029 ATGGTGATATCCAAAGTCGTATGTTTTCTTCA
1 ATGGTGATATCCAAAGTCGTTTGTTTTCTTCA
11794061 ATGG
1 ATGG
11794065 CAATATCCGA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
32 32 0.53
34 28 0.47
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (32 bp):
ATGGTGATATCCAAAGTCGTTTGTTTTCTTCA
Found at i:11794632 original size:9 final size:9
Alignment explanation
Indices: 11794608--11794637 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
11794598 AAGGTTAAAT
11794608 TTGGTCAAA
1 TTGGTCAAA
11794617 CTTGGTCAAA
1 -TTGGTCAAA
11794627 TTGGTCAAA
1 TTGGTCAAA
11794636 TT
1 TT
11794638 AGACAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (9 bp):
TTGGTCAAA
Found at i:11797258 original size:20 final size:21
Alignment explanation
Indices: 11797222--11797263 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
11797212 TATTTTTTAG
*
11797222 ACCCTAGACTCTAAATCCTAA
1 ACCCTAAACTCTAAATCCTAA
11797243 ACCCTAAACT-TAAATCCTAA
1 ACCCTAAACTCTAAATCCTAA
11797263 A
1 A
11797264 TCACCTCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.24
Consensus pattern (21 bp):
ACCCTAAACTCTAAATCCTAA
Found at i:11797320 original size:18 final size:19
Alignment explanation
Indices: 11797278--11797322 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
11797268 CTCTCATACT
* * *
11797278 CTAAACCACTTTCTAAACC
1 CTAAACCACCTTCCAAACA
11797297 CTAAACCACCTTCCAAA-A
1 CTAAACCACCTTCCAAACA
11797315 CTAAACCA
1 CTAAACCA
11797323 ACCCTTAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (19 bp):
CTAAACCACCTTCCAAACA
Found at i:11799586 original size:11 final size:11
Alignment explanation
Indices: 11799570--11799599 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11799560 AAGCACTTGA
11799570 ATGCTCTTTTC
1 ATGCTCTTTTC
11799581 ATGCTCTTTTC
1 ATGCTCTTTTC
11799592 ATGC-CTTT
1 ATGCTCTTT
11799600 GAAGTTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.10, C:0.27, G:0.10, T:0.53
Consensus pattern (11 bp):
ATGCTCTTTTC
Found at i:11805082 original size:48 final size:47
Alignment explanation
Indices: 11804995--11805469 Score: 343
Period size: 49 Copynumber: 9.8 Consensus size: 47
11804985 TTTTTCCTAT
* * *
11804995 ATGAGATTTTTAAAGTTTCC-TGCCCATGTTTATAAGAGCCTATTTCAA
1 ATGAGATTTTT-AAG-TTCCTTACCTATGTTTATAAGAGCCTTTTTCAA
* * *
11805043 CATGAGATTTTTAAGTTCCTTACCTATATTTATAGGAGCCTTTTCCAA
1 -ATGAGATTTTTAAGTTCCTTACCTATGTTTATAAGAGCCTTTTTCAA
* * *
11805091 ATGAAATTTTTAAAGTTCCCTACTTATGTTTATAAGAG-CTTTTTC-A
1 ATGAGATTTTT-AAGTTCCTTACCTATGTTTATAAGAGCCTTTTTCAA
* * * * * *
11805137 ATGCAAGATTTTAAAGATTTC-TATCTATATTTATAGGAGTCTTTTTCAA
1 ATG--AGATTTTTAAG-TTCCTTACCTATGTTTATAAGAGCCTTTTTCAA
* * * * * * *
11805186 TGTGAGATATTTAAAGTTCTTTACCTATATTTATATGAGTCTTTTTAAGA
1 -ATGAGAT-TTTTAAGTTCCTTACCTATGTTTATAAGAGCCTTTTTCA-A
* *
11805236 ATTAAGATTTTTAAAGTTCCCTACCTATGTTTATAAGAGCCTTTTTCAA
1 A-TGAGATTTTT-AAGTTCCTTACCTATGTTTATAAGAGCCTTTTTCAA
* * **
11805285 TATGAGATTTTTAATGTT-CTCTGCCTATATTTATAAGAGTTTTTTTCAA
1 -ATGAGATTTTTAA-GTTCCT-TACCTATGTTTATAAGAGCCTTTTTCAA
* ** * * * *
11805334 CATAAGATTTTTTAGAGTTCCTTGTCTATGTTTATAGGAACCTTTTTTAGT
1 -ATGAGA-TTTTTA-AGTTCCTTACCTATGTTTATAAGAGCCTTTTTCA-A
* * * *
11805385 GTGAGATTTTTAAAGTTCGTTACTTATGTTTATAGGAG-CTTTTTCTAA
1 ATGAGATTTTT-AAGTTCCTTACCTATGTTTATAAGAGCCTTTTTC-AA
*
11805433 ATGAGATTTTAAAGTT-CTCTACCTATGTTTATAAGAG
1 ATGAGATTTTTAAGTTCCT-TACCTATGTTTATAAGAG
11805470 TTTCTTTTCA
Statistics
Matches: 339, Mismatches: 64, Indels: 48
0.75 0.14 0.11
Matches are distributed among these distances:
46 5 0.01
47 58 0.17
48 87 0.26
49 114 0.34
50 72 0.21
51 3 0.01
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (47 bp):
ATGAGATTTTTAAGTTCCTTACCTATGTTTATAAGAGCCTTTTTCAA
Found at i:11805280 original size:99 final size:97
Alignment explanation
Indices: 11804993--11805465 Score: 422
Period size: 99 Copynumber: 4.9 Consensus size: 97
11804983 TTTTTTTCCT
* * * * * *
11804993 ATATGAGATTTTTAAAGTT-TCCTGCCCATGTTTATAAGAGCCTATTTCAACATGAGATTTTT-A
1 ATATGAGATTTTTAAAGTTCT-CTACCTATATTTATAAGAG-CTTTTTCAAAATAAGATTTTTAA
* * *
11805056 AGTTCCTTACCTATATTTATAGGAGCCTTTTCCA
64 AGTTCCCTACCTATGTTTATAGGAGCCTTTTTCA
* * * * ***
11805090 A-ATGAAATTTTTAAAGTTCCCTACTTATGTTTATAAGAGCTTTTTCAATGCAAGA-TTTTAAAG
1 ATATGAGATTTTTAAAGTTCTCTACCTATATTTATAAGAGCTTTTTCAAAATAAGATTTTTAAAG
* * * *
11805153 ATT-TCTATCTATATTTATAGGAGTCTTTTTCA
66 -TTCCCTACCTATGTTTATAGGAGCCTTTTTCA
* * * *
11805185 ATGTGAGATATTTAAAGTTCTTTACCTATATTTATATGAGTCTTTTT-AAGAATTAAGATTTTTA
1 ATATGAGATTTTTAAAGTTCTCTACCTATATTTATAAGAG-CTTTTTCAA-AA-TAAGATTTTTA
*
11805249 AAGTTCCCTACCTATGTTTATAAGAGCCTTTTTCA
63 AAGTTCCCTACCTATGTTTATAGGAGCCTTTTTCA
* * * * *
11805284 ATATGAGATTTTTAATGTTCTCTGCCTATATTTATAAGAGTTTTTTTCAACATAAGATTTTTTAG
1 ATATGAGATTTTTAAAGTTCTCTACCTATATTTATAAGAG-CTTTTTCAAAATAAGA-TTTTTAA
* ** * *
11805349 AGTTCCTTGTCTATGTTTATAGGAACCTTTTTTA
64 AGTTCCCTACCTATGTTTATAGGAGCCTTTTTCA
* * * * * * *
11805383 GTGTGAGATTTTTAAAGTTCGT-TACTTATGTTTATAGGAGCTTTTTCTAAATGAGA-TTTTAAA
1 ATATGAGATTTTTAAAGTTC-TCTACCTATATTTATAAGAGCTTTTTCAAAATAAGATTTTTAAA
*
11805446 GTTCTCTACCTATGTTTATA
65 GTTCCCTACCTATGTTTATA
11805466 AGAGTTTCTT
Statistics
Matches: 302, Mismatches: 62, Indels: 25
0.78 0.16 0.06
Matches are distributed among these distances:
94 4 0.01
95 39 0.13
96 88 0.29
97 7 0.02
98 23 0.08
99 138 0.46
100 3 0.01
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (97 bp):
ATATGAGATTTTTAAAGTTCTCTACCTATATTTATAAGAGCTTTTTCAAAATAAGATTTTTAAAG
TTCCCTACCTATGTTTATAGGAGCCTTTTTCA
Found at i:11805541 original size:146 final size:143
Alignment explanation
Indices: 11804995--11805544 Score: 445
Period size: 146 Copynumber: 3.8 Consensus size: 143
11804985 TTTTTCCTAT
* * * ** * * *
11804995 ATGAGATTTTTAAAGTT-TCCTGCCCATGTTTATAAGAGCCTATTTCAACA-TG-AGATTTTTAA
1 ATGAGA-TTTTAAAGTTCT-CTACCTATATTTATAAGAGTTTTTTTCAAAATTGAAGA-TTTAAA
* *
11805057 GTTCCTTACCTATATTTATAGGAGCCTTTTCCAAATGAAATTTTTAAAGTTCCCTACTTATGTTT
63 GTTCCTTACCTATATTTATAGGAGCCTTTTCGAAATGAGATTTTTAAAGTTCCCTACTTATGTTT
11805122 ATAAGAGCTTTTTC-A
128 ATAAGAGCTTTTTCAA
* * * *
11805137 ATGCAAGATTTTAAAGATT-TCTATCTATATTTATAGGAGTCTTTTTC--AATGTGAGATATTTA
1 ATG--AGATTTTAAAG-TTCTCTACCTATATTTATAAGAGTTTTTTTCAAAAT-TGA-AGATTTA
* * * * * * *
11805199 AAGTTCTTTACCTATATTTATATGAGTCTTTTTAAGAATTAAGATTTTTAAAGTTCCCTACCTAT
61 AAGTTCCTTACCTATATTTATAGGAG-CCTTTT-CGAAATGAGATTTTTAAAGTTCCCTACTTAT
11805264 GTTTATAAGAGCCTTTTTCAA
124 GTTTATAAGAG-CTTTTTCAA
* * *
11805285 TATGAGATTTTTAATGTTCTCTGCCTATATTTATAAGAGTTTTTTTCAACA-T-AAGATTTTTTA
1 -ATGAGA-TTTTAAAGTTCTCTACCTATATTTATAAGAGTTTTTTTCAAAATTGAAGA---TTTA
* ** * * ** ** **
11805348 GAGTTCCTTGTCTATGTTTATAGGAACCTTTTTTAGTGTGAGATTTTTAAAGTTCGTTACTTATG
61 AAGTTCCTTACCTATATTTATAGGAGCCTTTTCGA-AATGAGATTTTTAAAGTTCCCTACTTATG
*
11805413 TTTATAGGAGCTTTTTCTAA
125 TTTATAAGAGCTTTTTC-AA
*
11805433 ATGAGATTTTAAAGTTCTCTACCTATGTTTATAAGAGTTTCTTTTCAAAATTGAA-ATTTAAAAA
1 ATGAGATTTTAAAGTTCTCTACCTATATTTATAAGAGTTT-TTTTCAAAATTGAAGATTT--AAA
* * * * * **
11805497 ATTCCCTACCTATGTTTATATGAGCCCTTTCGAAATGATCTTTTTAAA
63 GTTCCTTACCTATATTTATAGGAGCCTTTTCGAAATGAGATTTTTAAA
11805545 ATAAACAAAA
Statistics
Matches: 321, Mismatches: 61, Indels: 48
0.75 0.14 0.11
Matches are distributed among these distances:
141 1 0.00
142 3 0.01
143 30 0.09
144 33 0.10
145 10 0.03
146 80 0.25
147 61 0.19
148 74 0.23
149 28 0.09
150 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (143 bp):
ATGAGATTTTAAAGTTCTCTACCTATATTTATAAGAGTTTTTTTCAAAATTGAAGATTTAAAGTT
CCTTACCTATATTTATAGGAGCCTTTTCGAAATGAGATTTTTAAAGTTCCCTACTTATGTTTATA
AGAGCTTTTTCAA
Found at i:11807977 original size:7 final size:7
Alignment explanation
Indices: 11807938--11808272 Score: 51
Period size: 7 Copynumber: 51.0 Consensus size: 7
11807928 TAAACCAAAT
11807938 CCTAAAC
1 CCTAAAC
11807945 CCT-AAC
1 CCTAAAC
11807951 CCTAAAC
1 CCTAAAC
** *
11807958 TTTAAAA
1 CCTAAAC
11807965 CC-AAAC
1 CCTAAAC
11807971 CCTAAAC
1 CCTAAAC
*
11807978 TCC-AAAT
1 -CCTAAAC
*
11807985 CCT-AAT
1 CCTAAAC
*
11807991 CCTACA-
1 CCTAAAC
*
11807997 CTTAAA-
1 CCTAAAC
* *
11808003 CATAAAT
1 CCTAAAC
*
11808010 GCTAAAC
1 CCTAAAC
*
11808017 CCTAAAT
1 CCTAAAC
* * *
11808024 TCAAAAT
1 CCTAAAC
11808031 CCTAAA-
1 CCTAAAC
11808037 CC-AAAC
1 CCTAAAC
*
11808043 CTTAAAC
1 CCTAAAC
*
11808050 CCCAAA-
1 CCTAAAC
*
11808056 CTTAAAC
1 CCTAAAC
11808063 CCT-AAC
1 CCTAAAC
*
11808069 CTTAAA-
1 CCTAAAC
*
11808075 TCTAAAC
1 CCTAAAC
* * *
11808082 TCAAAAA
1 CCTAAAC
*
11808089 CTTAAAC
1 CCTAAAC
*
11808096 CTTAAAC
1 CCTAAAC
11808103 TCC-AAAC
1 -CCTAAAC
**
11808110 ATTAAA-
1 CCTAAAC
*
11808116 CC-AAAT
1 CCTAAAC
*
11808122 TCTAAAC
1 CCTAAAC
11808129 CCT-AA-
1 CCTAAAC
11808134 CCTAAAC
1 CCTAAAC
11808141 CCTAAAC
1 CCTAAAC
*
11808148 CTTAAA-
1 CCTAAAC
*
11808154 CC-AAAT
1 CCTAAAC
* *
11808160 CTTAAAT
1 CCTAAAC
11808167 CCT-AA-
1 CCTAAAC
*
11808172 CTTAAAC
1 CCTAAAC
*
11808179 CCCAAAC
1 CCTAAAC
11808186 TAGTCCTAAAC
1 ----CCTAAAC
*
11808197 CC-AAAA
1 CCTAAAC
11808203 CC-AAAC
1 CCTAAAC
* *
11808209 TCTAAAA
1 CCTAAAC
11808216 CCTAAAC
1 CCTAAAC
*
11808223 CTTAAAC
1 CCTAAAC
*
11808230 TC-AAAC
1 CCTAAAC
11808236 CC-AAAC
1 CCTAAAC
11808242 CCTAAA-
1 CCTAAAC
*
11808248 TCT-AAC
1 CCTAAAC
*
11808254 CTTAAA-
1 CCTAAAC
11808260 CC-AAAC
1 CCTAAAC
11808266 CCTAAAC
1 CCTAAAC
11808273 TTATCCAAAA
Statistics
Matches: 232, Mismatches: 65, Indels: 62
0.65 0.18 0.17
Matches are distributed among these distances:
5 19 0.08
6 81 0.35
7 123 0.53
8 3 0.01
11 6 0.03
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.21
Consensus pattern (7 bp):
CCTAAAC
Found at i:11808059 original size:13 final size:12
Alignment explanation
Indices: 11808033--11808186 Score: 71
Period size: 12 Copynumber: 12.0 Consensus size: 12
11808023 TTCAAAATCC
11808033 TAAA-CCAAACCT
1 TAAACCCAAA-CT
11808045 TAAACCCCAAACT
1 TAAA-CCCAAACT
*
11808058 TAAACCCTAACCT
1 TAAACCC-AAACT
* *
11808071 TAAATCTAAACT
1 TAAACCCAAACT
* **
11808083 CAAAAACTTAAACCT
1 --TAAACCCAAA-CT
11808098 TAAACTCCAAACAT
1 TAAAC-CCAAAC-T
*
11808112 TAAA-CCAAATT
1 TAAACCCAAACT
* *
11808123 CTAAACCCTAACC
1 -TAAACCCAAACT
11808136 TAAACCCTAAACCT
1 TAAACCC-AAA-CT
11808150 TAAA-CCAAATCT
1 TAAACCCAAA-CT
* *
11808162 TAAATCCTAACT
1 TAAACCCAAACT
11808174 TAAACCCCAAACT
1 TAAA-CCCAAACT
11808187 AGTCCTAAAC
Statistics
Matches: 108, Mismatches: 20, Indels: 27
0.70 0.13 0.17
Matches are distributed among these distances:
11 1 0.01
12 42 0.39
13 38 0.35
14 25 0.23
15 2 0.02
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (12 bp):
TAAACCCAAACT
Found at i:11808145 original size:19 final size:19
Alignment explanation
Indices: 11808123--11808246 Score: 69
Period size: 19 Copynumber: 6.6 Consensus size: 19
11808113 AAACCAAATT
11808123 CTAAACCCTAACCTAAACC
1 CTAAACCCTAACCTAAACC
* *
11808142 CTAAACCTTAAACC-AAATC
1 CTAAACCCT-AACCTAAACC
* * *
11808161 TTAAATCCTAACTTAAACC
1 CTAAACCCTAACCTAAACC
* *
11808180 CCAAA--CTAGTCCTAAACC
1 CTAAACCCTA-ACCTAAACC
* * *
11808198 C-AAAACCAAACTCTAAAAC
1 CTAAACCCTAAC-CTAAACC
* *
11808217 CTAAACCTTAAACTCAAACC
1 CTAAACCCTAACCT-AAACC
11808237 C-AAACCCTAA
1 CTAAACCCTAA
11808247 ATCTAACCTT
Statistics
Matches: 77, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
17 6 0.08
18 12 0.16
19 44 0.57
20 15 0.19
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.19
Consensus pattern (19 bp):
CTAAACCCTAACCTAAACC
Found at i:11808153 original size:38 final size:38
Alignment explanation
Indices: 11808093--11808185 Score: 116
Period size: 38 Copynumber: 2.4 Consensus size: 38
11808083 CAAAAACTTA
* *
11808093 AACCTTAAACTCCAAACATTAAACCAAAT-TCTAAACCCT
1 AACC-TAAACCCCAAACCTTAAACCAAATCT-TAAACCCT
* *
11808132 AACCTAAACCCTAAACCTTAAACCAAATCTTAAATCCT
1 AACCTAAACCCCAAACCTTAAACCAAATCTTAAACCCT
*
11808170 AACTTAAACCCCAAAC
1 AACCTAAACCCCAAAC
11808186 TAGTCCTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 42 0.89
39 5 0.11
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (38 bp):
AACCTAAACCCCAAACCTTAAACCAAATCTTAAACCCT
Found at i:11808720 original size:24 final size:25
Alignment explanation
Indices: 11808693--11808741 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
11808683 GTTTTGATCC
*
11808693 AAAAAAATAAAAA-TGTTTTGCTTT
1 AAAAAAATAAAAATTGATTTGCTTT
11808717 AAAAAAATAAAAATTGATTTGCTTT
1 AAAAAAATAAAAATTGATTTGCTTT
11808742 CAAAGGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (25 bp):
AAAAAAATAAAAATTGATTTGCTTT
Found at i:11816930 original size:61 final size:61
Alignment explanation
Indices: 11816867--11817006 Score: 230
Period size: 60 Copynumber: 2.3 Consensus size: 61
11816857 ATTTGGCACA
* *
11816867 AAAAACGCTTTAAATAATCTTGTTAATTTTTTTTT-AGATTATTTAAGGTGTTTTTTGTTC
1 AAAAACGCCTTAAATAATCTTGTTAATTTTTTTTTGAGATTATTTAAGGTGTTTTTGGTTC
* *
11816927 AAAAACGCCTTAAATAATCCTGTTAATTTTTTTTTGGGATTATTTAAGGTGTTTTTGGTT-
1 AAAAACGCCTTAAATAATCTTGTTAATTTTTTTTTGAGATTATTTAAGGTGTTTTTGGTTC
11816987 AAAAACGCCTTAAATAATCT
1 AAAAACGCCTTAAATAATCT
11817007 CTTAAAAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
60 52 0.70
61 22 0.30
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (61 bp):
AAAAACGCCTTAAATAATCTTGTTAATTTTTTTTTGAGATTATTTAAGGTGTTTTTGGTTC
Found at i:11817579 original size:76 final size:77
Alignment explanation
Indices: 11817479--11817629 Score: 196
Period size: 76 Copynumber: 2.0 Consensus size: 77
11817469 AAAATTCTAA
* * *
11817479 GGGATTATTTAAGGCATTTCTGGACCAAAAACGCTTTAAATAATCCATTGATACATTTTAAAGGG
1 GGGATTATTTAAGACATTTCTGGACCAAAAACGCCTCAAATAATCCATTGATACATTTTAAAGGG
*
11817544 GATT-TTTAAAT
66 CATTATTTAAAT
** * * * **
11817555 GGGATTATTTAAGATGTTTTTGGACCAAAAACGCCTCAAATAATCCCTTTATATTTTTTAAAGGG
1 GGGATTATTTAAGACATTTCTGGACCAAAAACGCCTCAAATAATCCATTGATACATTTTAAAGGG
11817620 CATTATTTAA
66 CATTATTTAA
11817630 GGCCTTTTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
76 58 0.92
77 5 0.08
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (77 bp):
GGGATTATTTAAGACATTTCTGGACCAAAAACGCCTCAAATAATCCATTGATACATTTTAAAGGG
CATTATTTAAAT
Found at i:11820279 original size:15 final size:15
Alignment explanation
Indices: 11820259--11820288 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11820249 TTTTTGACAT
*
11820259 ATCACATCTGTATAA
1 ATCACATCTGCATAA
11820274 ATCACATCTGCATAA
1 ATCACATCTGCATAA
11820289 GTGAAAATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (15 bp):
ATCACATCTGCATAA
Found at i:11823045 original size:57 final size:57
Alignment explanation
Indices: 11822981--11823095 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
11822971 TAGTAACTTG
*
11822981 AAGTTGATTGATCATTTGTGAATGAATTATTAAAAATGTGTTAGATTTGGGATGCAT
1 AAGTTGATCGATCATTTGTGAATGAATTATTAAAAATGTGTTAGATTTGGGATGCAT
11823038 AAGTTGATCGATCATTTGTGAATGAATTATTAAAAATGTGTTAGATTTGGGATGCAT
1 AAGTTGATCGATCATTTGTGAATGAATTATTAAAAATGTGTTAGATTTGGGATGCAT
11823095 A
1 A
11823096 CAATGTCAAG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (57 bp):
AAGTTGATCGATCATTTGTGAATGAATTATTAAAAATGTGTTAGATTTGGGATGCAT
Found at i:11823631 original size:84 final size:84
Alignment explanation
Indices: 11823496--11823658 Score: 308
Period size: 84 Copynumber: 1.9 Consensus size: 84
11823486 TTGCCTTGTT
* *
11823496 TTTTTTGGATAAGTAATTTTTATTCATTATCCAAGAAGCAGTAGAATTGCTACCAACCAACAATT
1 TTTTTTGGATAAGTAATTTTTATTCATTATCCAAGAAGAAGTAGAACTGCTACCAACCAACAATT
11823561 ACATACTGTCGAACCTTGG
66 ACATACTGTCGAACCTTGG
11823580 TTTTTTGGATAAGTAATTTTTATTCATTATCCAAGAAGAAGTAGAACTGCTACCAACCAACAATT
1 TTTTTTGGATAAGTAATTTTTATTCATTATCCAAGAAGAAGTAGAACTGCTACCAACCAACAATT
11823645 ACATACTGTCGAAC
66 ACATACTGTCGAAC
11823659 TTTTTACACC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (84 bp):
TTTTTTGGATAAGTAATTTTTATTCATTATCCAAGAAGAAGTAGAACTGCTACCAACCAACAATT
ACATACTGTCGAACCTTGG
Found at i:11831578 original size:2 final size:2
Alignment explanation
Indices: 11831571--11831615 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
11831561 TTAAATGAAA
*
11831571 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11831612 AT AT
1 AT AT
11831616 GTAGACGAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11834811 original size:3 final size:3
Alignment explanation
Indices: 11834803--11834848 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
11834793 AATGATGGTT
11834803 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11834849 GTTCAATAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11835549 original size:25 final size:26
Alignment explanation
Indices: 11835503--11835551 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
11835493 ATAGTAATTC
* *
11835503 TAATTAATCAAAAATAATATTTATAT
1 TAATAAATAAAAAATAATATTTATAT
*
11835529 TAATAAATAAAAAATTA-ATTTAT
1 TAATAAATAAAAAATAATATTTAT
11835552 TGAATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (26 bp):
TAATAAATAAAAAATAATATTTATAT
Found at i:11843700 original size:25 final size:26
Alignment explanation
Indices: 11843672--11843726 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
11843662 TGTTTTTTTT
* *
11843672 TTTTGTTTTG-TTTTTGATTTTTTGA
1 TTTTGGTTTGTTTTTTCATTTTTTGA
*
11843697 TTTTGGTTTGTTTTTTCATTTTTTGG
1 TTTTGGTTTGTTTTTTCATTTTTTGA
11843723 TTTT
1 TTTT
11843727 TCTATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.05, C:0.02, G:0.16, T:0.76
Consensus pattern (26 bp):
TTTTGGTTTGTTTTTTCATTTTTTGA
Found at i:11843706 original size:19 final size:19
Alignment explanation
Indices: 11843670--11843718 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
11843660 AATGTTTTTT
*
11843670 TTTTTTG-TTTTGTTTTTG
1 TTTTTTGATTTTGTGTTTG
11843688 ATTTTTTGATTTTG-GTTTG
1 -TTTTTTGATTTTGTGTTTG
*
11843707 TTTTTTCATTTT
1 TTTTTTGATTTT
11843719 TTGGTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 11 0.41
19 11 0.41
20 5 0.19
ACGTcount: A:0.06, C:0.02, G:0.14, T:0.78
Consensus pattern (19 bp):
TTTTTTGATTTTGTGTTTG
Found at i:11843726 original size:15 final size:16
Alignment explanation
Indices: 11843703--11843736 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
11843693 TTGATTTTGG
*
11843703 TTTGTTTTTTC-ATTT
1 TTTGGTTTTTCTATTT
11843718 TTTGGTTTTTCTATTT
1 TTTGGTTTTTCTATTT
11843734 TTT
1 TTT
11843737 TTCTTGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.06, C:0.06, G:0.09, T:0.79
Consensus pattern (16 bp):
TTTGGTTTTTCTATTT
Found at i:11844253 original size:22 final size:22
Alignment explanation
Indices: 11844228--11844340 Score: 77
Period size: 22 Copynumber: 5.0 Consensus size: 22
11844218 GCAACTAAAT
*
11844228 TGGGCTTAGGTGCTAGCTAATC
1 TGGGCTTAAGTGCTAGCTAATC
11844250 TGGGCTTAAGTGCTAG-TAAATC
1 TGGGCTTAAGTGCTAGCT-AATC
* *** ** *
11844272 TAGGCTCGGGTG-TCAATTAATT
1 TGGGCTTAAGTGCT-AGCTAATC
* *
11844294 TGGGCTTAAAGTGCCAACTAATC
1 TGGGCTT-AAGTGCTAGCTAATC
*
11844317 TTGGCTTAAAGTGCTAGCTAATC
1 TGGGCTT-AAGTGCTAGCTAATC
11844340 T
1 T
11844341 AGACTTAGGT
Statistics
Matches: 69, Mismatches: 17, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
21 2 0.03
22 36 0.52
23 31 0.45
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (22 bp):
TGGGCTTAAGTGCTAGCTAATC
Found at i:11844337 original size:23 final size:23
Alignment explanation
Indices: 11844296--11844340 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
11844286 AATTAATTTG
11844296 GGCTTAAAGTGCCAACTAATCTT
1 GGCTTAAAGTGCCAACTAATCTT
* *
11844319 GGCTTAAAGTGCTAGCTAATCT
1 GGCTTAAAGTGCCAACTAATCT
11844341 AGACTTAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (23 bp):
GGCTTAAAGTGCCAACTAATCTT
Found at i:11844347 original size:23 final size:23
Alignment explanation
Indices: 11844298--11844347 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
11844288 TTAATTTGGG
* *
11844298 CTTAAAGTGCCAACTAATCTTGG
1 CTTAAAGTGCCAACTAATCTAGA
* *
11844321 CTTAAAGTGCTAGCTAATCTAGA
1 CTTAAAGTGCCAACTAATCTAGA
11844344 CTTA
1 CTTA
11844348 GGTGCCAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (23 bp):
CTTAAAGTGCCAACTAATCTAGA
Found at i:11844578 original size:9 final size:8
Alignment explanation
Indices: 11844556--11844622 Score: 62
Period size: 8 Copynumber: 7.9 Consensus size: 8
11844546 TTCTTGCCTA
*
11844556 TTTTTTGC
1 TTTTTTTC
*
11844564 TATTTTTCC
1 T-TTTTTTC
11844573 TTTTTTTC
1 TTTTTTTC
11844581 TTTTTTTC
1 TTTTTTTC
*
11844589 TTTTTCTTT
1 TTTTT-TTC
*
11844598 TTTTTTTAAA
1 TTTTTTT--C
11844608 TTTTTTTC
1 TTTTTTTC
11844616 TTTTTTT
1 TTTTTTT
11844623 TATTTTCAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
8 29 0.58
9 14 0.28
10 7 0.14
ACGTcount: A:0.06, C:0.10, G:0.01, T:0.82
Consensus pattern (8 bp):
TTTTTTTC
Found at i:11844592 original size:14 final size:14
Alignment explanation
Indices: 11844575--11844629 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
11844565 ATTTTTCCTT
11844575 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
11844589 TTTTTCTTTTTTT-
1 TTTTTCTTTTTTTC
***
11844602 TTTAAATTTTTTTC
1 TTTTTCTTTTTTTC
11844616 TTTTT-TTTATTTTC
1 TTTTTCTTT-TTTTC
11844630 AAACGTTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
13 13 0.38
14 21 0.62
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTCTTTTTTTC
Found at i:11844603 original size:16 final size:16
Alignment explanation
Indices: 11844556--11844622 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 16
11844546 TTCTTGCCTA
* *
11844556 TTTTTTGCTATTTTTCC
1 TTTTTTTCT-TTTTTTC
11844573 TTTTTTTCTTTTTTTC
1 TTTTTTTCTTTTTTTC
* *
11844589 TTTTTCTTTTTTTTTTAAA
1 TTTTT-TTCTTTTTTT--C
11844608 TTTTTTTCTTTTTTT
1 TTTTTTTCTTTTTTT
11844623 TATTTTCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
16 11 0.26
17 17 0.40
18 9 0.21
19 5 0.12
ACGTcount: A:0.06, C:0.10, G:0.01, T:0.82
Consensus pattern (16 bp):
TTTTTTTCTTTTTTTC
Found at i:11844627 original size:17 final size:18
Alignment explanation
Indices: 11844573--11844628 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
11844563 CTATTTTTCC
*
11844573 TTTTTTTCTTTTTTTCT-
1 TTTTTTTCTTTTTTTATA
*
11844590 TTTTCTTT-TTTTTTTAAA
1 TTTT-TTTCTTTTTTTATA
11844608 TTTTTTTCTTTTTTT-TA
1 TTTTTTTCTTTTTTTATA
11844625 TTTT
1 TTTT
11844629 CAAACGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 19 0.58
18 14 0.42
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTTCTTTTTTTATA
Found at i:11844638 original size:26 final size:27
Alignment explanation
Indices: 11844582--11844638 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 27
11844572 CTTTTTTTCT
* * *
11844582 TTTTTTCTTTTTCTTTTTTTTTTAAAT
1 TTTTTTCTTTTTCTTTTATTTTCAAAG
11844609 TTTTTTC-TTTT-TTTTATTTTCAAACG
1 TTTTTTCTTTTTCTTTTATTTTCAAA-G
11844635 TTTT
1 TTTT
11844639 CCTTCCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 11 0.42
26 8 0.31
27 7 0.27
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (27 bp):
TTTTTTCTTTTTCTTTTATTTTCAAAG
Found at i:11844638 original size:27 final size:27
Alignment explanation
Indices: 11844581--11844632 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
11844571 CCTTTTTTTC
* *
11844581 TTTTTTTCTTTTTCTTTTTTTTTTAAA
1 TTTTTTTCTTTTTCTTTTATTTTCAAA
11844608 TTTTTTTC-TTTT-TTTTATTTTCAAA
1 TTTTTTTCTTTTTCTTTTATTTTCAAA
11844633 CGTTTTCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 11 0.48
26 4 0.17
27 8 0.35
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTTTTTCTTTTTCTTTTATTTTCAAA
Found at i:11844798 original size:13 final size:13
Alignment explanation
Indices: 11844768--11844820 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
11844758 TTCTCAAAAA
11844768 CTTTCTATT-TTTT
1 CTTTCT-TTCTTTT
11844781 C-TTCTTTCTTTT
1 CTTTCTTTCTTTT
11844793 CTTTCTTTCTTTT
1 CTTTCTTTCTTTT
*
11844806 TTTTCCTTCTCTTTT
1 CTTT-CTT-TCTTTT
11844821 TTATTTACTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
11 2 0.06
12 9 0.26
13 15 0.43
14 3 0.09
15 6 0.17
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (13 bp):
CTTTCTTTCTTTT
Found at i:11844822 original size:17 final size:17
Alignment explanation
Indices: 11844782--11844815 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11844772 CTATTTTTTC
* *
11844782 TTCTTTCTTTTCTTTCT
1 TTCTTTTTTTTCCTTCT
11844799 TTCTTTTTTTTCCTTCT
1 TTCTTTTTTTTCCTTCT
11844816 CTTTTTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTCTTTTTTTTCCTTCT
Found at i:11856179 original size:15 final size:15
Alignment explanation
Indices: 11856161--11856193 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
11856151 AGTTTTTTTA
11856161 TTTTTAT-TTTTATT
1 TTTTTATATTTTATT
11856175 TTTTTATATTTTATT
1 TTTTTATATTTTATT
11856190 TTTT
1 TTTT
11856194 CAAACCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTATATTTTATT
Found at i:11856179 original size:21 final size:21
Alignment explanation
Indices: 11856153--11856192 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
11856143 AAAAGTTGAG
11856153 TTTTTTTAT-TTTTATTTTTA
1 TTTTTTTATATTTTATTTTTA
11856173 TTTTTTTATATTTTATTTTT
1 TTTTTTTATATTTTATTTTT
11856193 TCAAACCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTTTATATTTTATTTTTA
Found at i:11856244 original size:35 final size:34
Alignment explanation
Indices: 11856177--11856244 Score: 100
Period size: 35 Copynumber: 2.0 Consensus size: 34
11856167 TTTTTATTTT
11856177 TTTATATTTTATTTTTTCAAACCAAAATTTATAA
1 TTTATATTTTATTTTTTCAAACCAAAATTTATAA
* * *
11856211 TTTATAATTTTATTTTTTTAAACCTAAGTTTATA
1 TTTAT-ATTTTATTTTTTCAAACCAAAATTTATA
11856245 GGCATTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 5 0.17
35 25 0.83
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.56
Consensus pattern (34 bp):
TTTATATTTTATTTTTTCAAACCAAAATTTATAA
Found at i:11859381 original size:16 final size:16
Alignment explanation
Indices: 11859344--11859374 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11859334 TGTTTAAAAT
11859344 CATCATAAATCATCAG
1 CATCATAAATCATCAG
11859360 CATCATAAATCATCA
1 CATCATAAATCATCA
11859375 TTATCATTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (16 bp):
CATCATAAATCATCAG
Found at i:11863093 original size:26 final size:27
Alignment explanation
Indices: 11863045--11863125 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
11863035 CAACCAAAAC
*
11863045 AATTACACCAAGAATTCATTGAATCATT
1 AATTACTCCAA-AATTCATTGAATCATT
* * * *
11863073 GATTCCT-CAAAATTCATTGAAACTTT
1 AATTACTCCAAAATTCATTGAATCATT
11863099 AATTACTCCAAAATTCATTGAATCATT
1 AATTACTCCAAAATTCATTGAATCATT
11863126 TACTTATACT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
26 19 0.44
27 20 0.47
28 4 0.09
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.36
Consensus pattern (27 bp):
AATTACTCCAAAATTCATTGAATCATT
Found at i:11865898 original size:30 final size:30
Alignment explanation
Indices: 11865864--11865959 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 30
11865854 TATATTATAA
11865864 TTTTATCCTTCAGGAATATTAATTGTTCAC
1 TTTTATCCTTCAGGAATATTAATTGTTCAC
* * ** *
11865894 TTTTA-CAGC-TGAGGTATGCTATTTG-T-ATC
1 TTTTATC--CTTCAGGAATATTAATTGTTCA-C
*
11865923 TTTTCATCCTTCAGGAATATTAATCGTTCAC
1 TTTT-ATCCTTCAGGAATATTAATTGTTCAC
11865954 TTTTAT
1 TTTTAT
11865960 AGCTGAGGTA
Statistics
Matches: 47, Mismatches: 11, Indels: 16
0.64 0.15 0.22
Matches are distributed among these distances:
28 1 0.02
29 8 0.17
30 29 0.62
31 8 0.17
32 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.12, T:0.47
Consensus pattern (30 bp):
TTTTATCCTTCAGGAATATTAATTGTTCAC
Found at i:11865941 original size:60 final size:60
Alignment explanation
Indices: 11865863--11865987 Score: 216
Period size: 60 Copynumber: 2.1 Consensus size: 60
11865853 TTATATTATA
*
11865863 ATTTT-ATCCTTCAGGAATATTAATTGTTCACTTTTACAGCTGAGGTATGCTATTTGTAT
1 ATTTTCATCCTTCAGGAATATTAATCGTTCACTTTTACAGCTGAGGTATGCTATTTGTAT
* *
11865922 CTTTTCATCCTTCAGGAATATTAATCGTTCACTTTTATAGCTGAGGTATGCTATTTGTAT
1 ATTTTCATCCTTCAGGAATATTAATCGTTCACTTTTACAGCTGAGGTATGCTATTTGTAT
11865982 ATTTTC
1 ATTTTC
11865988 TTTCATATGC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
59 4 0.07
60 57 0.93
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.46
Consensus pattern (60 bp):
ATTTTCATCCTTCAGGAATATTAATCGTTCACTTTTACAGCTGAGGTATGCTATTTGTAT
Found at i:11866984 original size:34 final size:34
Alignment explanation
Indices: 11866907--11866988 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
11866897 CAGAAAATAA
* * *
11866907 CGGCATTTGAATGTAAAAAATGTCGTTATATTAG
1 CGGCATTTGTATCTAAAAAATGTCGCTATATTAG
* * *
11866941 TGGCGTTTGTATCTAAAAAATG-CTGCTATTTTAG
1 CGGCATTTGTATCTAAAAAATGTC-GCTATATTAG
11866975 CGGCATTTGTATCT
1 CGGCATTTGTATCT
11866989 TTGAGATGCC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
33 1 0.03
34 38 0.97
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (34 bp):
CGGCATTTGTATCTAAAAAATGTCGCTATATTAG
Found at i:11868284 original size:12 final size:12
Alignment explanation
Indices: 11868235--11868286 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
11868225 TGTATGATAT
11868235 TGGTATGTTGAA
1 TGGTATGTTGAA
*
11868247 TTGTATGTTGAA
1 TGGTATGTTGAA
* *
11868259 TCGTATGCTGAA
1 TGGTATGTTGAA
*
11868271 TGGTTTGTTGAA
1 TGGTATGTTGAA
11868283 TGGT
1 TGGT
11868287 GTTTCTGTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.21, C:0.04, G:0.31, T:0.44
Consensus pattern (12 bp):
TGGTATGTTGAA
Found at i:11871526 original size:34 final size:34
Alignment explanation
Indices: 11871474--11871542 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
11871464 ATATATAAAC
***
11871474 CAAATGTTTTCTGGGCATAATA-TACAACTGACTT
1 CAAATGTTTTCCAAGCATAA-ACTACAACTGACTT
11871508 CAAATGTTTTCCAAGCATAAACTTACAACTGACTT
1 CAAATGTTTTCCAAGCATAAAC-TACAACTGACTT
11871543 GACATATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
33 1 0.03
34 17 0.57
35 12 0.40
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (34 bp):
CAAATGTTTTCCAAGCATAAACTACAACTGACTT
Found at i:11873322 original size:22 final size:22
Alignment explanation
Indices: 11873296--11873342 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
11873286 TATTAATAAG
11873296 ATATGTACATCTAAGTATAACT
1 ATATGTACATCTAAGTATAACT
* * *
11873318 ATATGTACGTCTCATTATAACT
1 ATATGTACATCTAAGTATAACT
11873340 ATA
1 ATA
11873343 CGTATATCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (22 bp):
ATATGTACATCTAAGTATAACT
Found at i:11873967 original size:22 final size:22
Alignment explanation
Indices: 11873936--11873991 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
11873926 AGATTTAAGA
*
11873936 AATGTACATATAATAAAAGAAG
1 AATGAACATATAATAAAAGAAG
* *
11873958 CATGAACATACAATAAAAGAAG
1 AATGAACATATAATAAAAGAAG
*
11873980 AATGTACATATA
1 AATGAACATATA
11873992 GTTCTAATGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.57, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
AATGAACATATAATAAAAGAAG
Found at i:11873985 original size:81 final size:81
Alignment explanation
Indices: 11873828--11873989 Score: 200
Period size: 81 Copynumber: 2.0 Consensus size: 81
11873818 AGTAAAAATT
* * ** * **
11873828 AATGGATATCTATTTCAAGATTTAAGAAATGTACGTATAATAAAAGAAGAATGTACATGTAGTTC
1 AATGGATATCTATTTCAAGATTTAAGAAATGTACATATAATAAAAGAAGAATGAACATACAATAA
* * *
11873893 TAATGTCATGTACATA
66 AAAAGTAATGTACATA
* *
11873909 AATGGATATCTATTTTAAGATTTAAGAAATGTACATATAATAAAAGAAGCATGAACATACAATAA
1 AATGGATATCTATTTCAAGATTTAAGAAATGTACATATAATAAAAGAAGAATGAACATACAATAA
11873974 AAGAAG-AATGTACATA
66 AA-AAGTAATGTACATA
11873990 TAGTTCTAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 66 0.97
82 2 0.03
ACGTcount: A:0.47, C:0.08, G:0.15, T:0.30
Consensus pattern (81 bp):
AATGGATATCTATTTCAAGATTTAAGAAATGTACATATAATAAAAGAAGAATGAACATACAATAA
AAAAGTAATGTACATA
Found at i:11874715 original size:26 final size:26
Alignment explanation
Indices: 11874666--11874716 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
11874656 GTCAGAATAA
* *
11874666 TAAATTTAATTTTTTATTATTAATTT
1 TAAATTTAATTTTTTATAAGTAATTT
11874692 TAAATTTTAATTTTTT-TAAGTAATT
1 TAAA-TTTAATTTTTTATAAGTAATT
11874717 ATTTTTCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
TAAATTTAATTTTTTATAAGTAATTT
Found at i:11876803 original size:44 final size:44
Alignment explanation
Indices: 11876753--11876842 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
11876743 ACTAAACACA
11876753 TATGATATTTTAAAAACAATAACTTTAGGGCATTTATGAATTCT
1 TATGATATTTTAAAAACAATAACTTTAGGGCATTTATGAATTCT
*
11876797 TATGATATTTTAGAAACAATAACTTTAGGGCATTTATGAATTCT
1 TATGATATTTTAAAAACAATAACTTTAGGGCATTTATGAATTCT
11876841 TA
1 TA
11876843 CTACTTTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (44 bp):
TATGATATTTTAAAAACAATAACTTTAGGGCATTTATGAATTCT
Found at i:11887656 original size:21 final size:21
Alignment explanation
Indices: 11887622--11887673 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
11887612 ATAAAAAATA
* *
11887622 GATCCATCCTTTTAAGGG-AG
1 GATCGATCCCTTTAAGGGAAG
11887642 GAATCGATCCCTTTAAGGGAAG
1 G-ATCGATCCCTTTAAGGGAAG
11887664 GATCGATCCC
1 GATCGATCCC
11887674 ACAATTAGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 24 0.86
22 3 0.11
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (21 bp):
GATCGATCCCTTTAAGGGAAG
Found at i:11889730 original size:21 final size:21
Alignment explanation
Indices: 11889693--11889751 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
11889683 ATATGGAATA
*
11889693 AAAAAGAAAAAAGAAGAAATAAGG
1 AAAAAGAAGAAAGAA-AAA-AA-G
* *
11889717 AAGAAGAAGAAAGAAAAAAAT
1 AAAAAGAAGAAAGAAAAAAAG
11889738 AAAAAGAAGAAAGA
1 AAAAAGAAGAAAGA
11889752 GAAGAGGGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 13 0.42
22 2 0.06
23 3 0.10
24 13 0.42
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.03
Consensus pattern (21 bp):
AAAAAGAAGAAAGAAAAAAAG
Found at i:11890590 original size:3 final size:3
Alignment explanation
Indices: 11890582--11890623 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
11890572 TTTTCTTTTA
11890582 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11890624 GTTTTTAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11897400 original size:13 final size:13
Alignment explanation
Indices: 11897363--11897415 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
11897353 ATTTAATCTT
*
11897363 ATATATTAA-TAA
1 ATATATTAATTTA
*
11897375 ATTTATT-ATTTA
1 ATATATTAATTTA
*
11897387 ATATTTTAATTTA
1 ATATATTAATTTA
*
11897400 AAATATTAATTTA
1 ATATATTAATTTA
11897413 ATA
1 ATA
11897416 AAAAATTATA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
11 1 0.03
12 13 0.41
13 18 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATATATTAATTTA
Found at i:11898782 original size:19 final size:20
Alignment explanation
Indices: 11898758--11898805 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 20
11898748 TTTTTAGGAC
* *
11898758 ATTTTTTATTATTTATTAAT
1 ATTTTTTATTATATAGTAAT
11898778 A--TTTTATT-TATAGTAAT
1 ATTTTTTATTATATAGTAAT
11898795 ATTTTTTATTA
1 ATTTTTTATTA
11898806 AATAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
17 8 0.35
18 7 0.30
19 7 0.30
20 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTTTTTATTATATAGTAAT
Found at i:11901784 original size:10 final size:10
Alignment explanation
Indices: 11901769--11901793 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11901759 TTTTAATCTT
11901769 AAATATATTA
1 AAATATATTA
11901779 AAATATATTA
1 AAATATATTA
11901789 AAATA
1 AAATA
11901794 GAATAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAATATATTA
Found at i:11905814 original size:74 final size:72
Alignment explanation
Indices: 11905702--11906022 Score: 303
Period size: 74 Copynumber: 4.4 Consensus size: 72
11905692 AAATGCTGTC
* * * * * *
11905702 TTTATTGAAAATATGAAAAAAAATTATTTTTTAGAATTTAACAAATATGACATTTTGAAGATAAA
1 TTTATTAAAAATATG-AAAAAATTTAATTTTTAAAATTTAACAAAAATGACATTTTTAAGATAAA
11905767 AATGTAATT
65 AAT-TAATT
*
11905776 TTTATTGAAAATATGAAAAAATTTTAATTTTTAAAATTTAACAAAAATGACATTTTTAAGATAAA
1 TTTATTAAAAATATGAAAAAA-TTTAATTTTTAAAATTTAACAAAAATGACATTTTTAAGATAAA
*
11905841 AATGCT-ATA
65 AAT--TAATT
* * * * *
11905850 TTTGTTAAAAATATTAAAAAA-TT-ATTTTTAAAATTAAAAAAAAATGACA-TTTTAGGATAAAA
1 TTTATTAAAAATATGAAAAAATTTAATTTTTAAAATTTAACAAAAATGACATTTTTAAGATAAAA
* *
11905912 A-TAGTC
66 ATTAATT
* * * * * * **
11905918 TTTATTAAAAAAAT-AAAAAATTTATTTTTTCATAATTCAATAAATATGATGTTTTTAAGATAAA
1 TTTATTAAAAATATGAAAAAATTTAATTTTT-AAAATTTAACAAAAATGACATTTTTAAGATAAA
11905982 AATTACAATT
65 AATT--AATT
* *
11905992 TTTATTAAAAATATGAAAAAAATTATTTTTT
1 TTTATTAAAAATATGAAAAAATTTAATTTTT
11906023 TAGAATTTTT
Statistics
Matches: 207, Mismatches: 29, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
67 7 0.03
68 15 0.07
69 5 0.02
70 27 0.13
71 37 0.18
72 3 0.01
73 6 0.03
74 91 0.44
75 16 0.08
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (72 bp):
TTTATTAAAAATATGAAAAAATTTAATTTTTAAAATTTAACAAAAATGACATTTTTAAGATAAAA
ATTAATT
Found at i:11906302 original size:28 final size:28
Alignment explanation
Indices: 11906254--11906312 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
11906244 TATATTATTC
* *
11906254 TTATATCACGTATTATAAATATCACATA
1 TTATATCACGTATCATAAATATAACATA
*
11906282 TTAT-TCACGTATCATCAAATATAATATA
1 TTATATCACGTATCAT-AAATATAACATA
11906310 TTA
1 TTA
11906313 AAAAAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 10 0.37
28 17 0.63
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.41
Consensus pattern (28 bp):
TTATATCACGTATCATAAATATAACATA
Found at i:11906931 original size:35 final size:34
Alignment explanation
Indices: 11906872--11906962 Score: 96
Period size: 35 Copynumber: 2.7 Consensus size: 34
11906862 GTTTAATAAA
* * **
11906872 ATATATAT-AATT-TTTATTTTTAATTTTTATAT
1 ATATATATAAATTATTTATATATAATTGATATAT
* *
11906904 ATATATGTGAATTAATTTATATATAATTGATATAT
1 ATATATATAAATT-ATTTATATATAATTGATATAT
*
11906939 ATATATATAAATTATTTATTTATA
1 ATATATATAAATTATTTATATATA
11906963 TATATATATG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
32 7 0.15
33 4 0.08
34 10 0.21
35 27 0.56
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (34 bp):
ATATATATAAATTATTTATATATAATTGATATAT
Found at i:11906945 original size:19 final size:18
Alignment explanation
Indices: 11906899--11906966 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 18
11906889 TTTTAATTTT
*
11906899 TATATATATATGTGAATTA
1 TATATATATATAT-AATTA
11906918 -AT-T-TATATATAATTGA
1 TATATATATATATAATT-A
11906934 TATATATATATATAAATTA
1 TATATATATATAT-AATTA
* *
11906953 TTTATTTATATATA
1 TATATATATATATA
11906967 TATATGAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
15 4 0.10
16 7 0.17
17 3 0.07
18 4 0.10
19 19 0.46
20 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
TATATATATATATAATTA
Done.