Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 85 of 175
Found at i:26835986 original size:18 final size:18
Alignment explanation
Indices: 26835965--26836003 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
26835955 GATTGAGAGT
* *
26835965 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
26835983 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
26836001 GAA
1 GAA
26836004 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:26838967 original size:40 final size:40
Alignment explanation
Indices: 26838854--26838967 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
26838844 TTATAGAATG
*
26838854 AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
1 AATGCACATACGTGCCCCTATTTGTACTTCGATACCCCTA
** *
26838894 AATGCACATATATGCCTCTATTTGTA-TTGCGATACCCCTA
1 AATGCACATACGTGCCCCTATTTGTACTT-CGATACCCCTA
* * *
26838934 AATGCACTTACGTACCCCTATTTATACTTCGATA
1 AATGCACATACGTGCCCCTATTTGTACTTCGATA
26838968 ACTTTGAGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.03
40 58 0.94
41 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTATTTGTACTTCGATACCCCTA
Found at i:26840569 original size:32 final size:32
Alignment explanation
Indices: 26840531--26840596 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
26840521 TTTAGCTATT
*
26840531 TTAAAATAATTAGAGAGAT-GAATGTTTGTTAA
1 TTAAAATAATTAGAGAGATAGAA-GTTTGTAAA
*
26840563 TTAAAATAATTAGGGAGATAGAAGTTTGTAAA
1 TTAAAATAATTAGAGAGATAGAAGTTTGTAAA
26840595 TT
1 TT
26840597 TTTTGTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 28 0.90
33 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (32 bp):
TTAAAATAATTAGAGAGATAGAAGTTTGTAAA
Found at i:26847996 original size:28 final size:27
Alignment explanation
Indices: 26847933--26848084 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
26847923 ATATTAAGTC
* * *
26847933 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
26847960 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
26847988 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
26848015 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
26848043 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
26848070 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26848085 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:26848017 original size:55 final size:55
Alignment explanation
Indices: 26847933--26848084 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
26847923 ATATTAAGTC
* * *
26847933 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
26847988 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
26848043 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
26848085 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:26852368 original size:25 final size:25
Alignment explanation
Indices: 26852334--26852403 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
26852324 TATTGCACCG
*
26852334 CCGTCAACACTCCTCTGCCCCATCA
1 CCGTCGACACTCCTCTGCCCCATCA
* **
26852359 CCGTCGACACTCCTCTACTGCATCA
1 CCGTCGACACTCCTCTGCCCCATCA
26852384 CCGTCGACACTCCTCTGCCC
1 CCGTCGACACTCCTCTGCCC
26852404 TGAAACAGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.17, C:0.50, G:0.11, T:0.21
Consensus pattern (25 bp):
CCGTCGACACTCCTCTGCCCCATCA
Found at i:26852577 original size:19 final size:21
Alignment explanation
Indices: 26852539--26852583 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
26852529 ATACATCTAT
* *
26852539 TTTTTGGGTTATTTTTATT-A
1 TTTTTGGGTTATTATCATTAA
26852559 TTTTTGGGTTA-TATCATTAA
1 TTTTTGGGTTATTATCATTAA
26852579 TTTTT
1 TTTTT
26852584 ATTATGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.02, G:0.13, T:0.67
Consensus pattern (21 bp):
TTTTTGGGTTATTATCATTAA
Found at i:26852900 original size:24 final size:24
Alignment explanation
Indices: 26852868--26852913 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
26852858 ATTAGCTCAA
26852868 TTTTTATTATTTCATTTAACAATT
1 TTTTTATTATTTCATTTAACAATT
26852892 TTTTTATTATTTCATTTAACAA
1 TTTTTATTATTTCATTTAACAA
26852914 AATCATGTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTTTATTATTTCATTTAACAATT
Found at i:26862919 original size:36 final size:33
Alignment explanation
Indices: 26862854--26862920 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
26862844 GTGAATGAAG
*
26862854 TGAGTGAAAAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
* *
26862887 TGAGTGAAGAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGTGAAAAAG-AGAGAGAGCT-AAA-ACAAGG
26862921 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.48, C:0.09, G:0.31, T:0.12
Consensus pattern (33 bp):
TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
Found at i:26869258 original size:21 final size:22
Alignment explanation
Indices: 26869213--26869258 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
26869203 AGAGAAAAAT
*
26869213 AAAAGTGAAAAATAAGAAAATG
1 AAAAGTGAAAAATAAGAAAAGG
**
26869235 AAAA-TGAAAAATGCGAAAAGG
1 AAAAGTGAAAAATAAGAAAAGG
26869256 AAA
1 AAA
26869259 GCAAGAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.20, T:0.11
Consensus pattern (22 bp):
AAAAGTGAAAAATAAGAAAAGG
Found at i:26869357 original size:36 final size:33
Alignment explanation
Indices: 26869292--26869358 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
26869282 GTGAATGAAG
*
26869292 TGAGTGAAAAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
* *
26869325 TGAGTGAAGAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGTGAAAAAG-AGAGAGAGCT-AAA-ACAAGG
26869359 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.48, C:0.09, G:0.31, T:0.12
Consensus pattern (33 bp):
TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
Found at i:26870803 original size:14 final size:13
Alignment explanation
Indices: 26870771--26870796 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26870761 TTTGTAAAAA
26870771 AATTTAATTTTTT
1 AATTTAATTTTTT
26870784 AATTTAATTTTTT
1 AATTTAATTTTTT
26870797 GACTTTAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
AATTTAATTTTTT
Found at i:26889990 original size:40 final size:40
Alignment explanation
Indices: 26889953--26890122 Score: 263
Period size: 40 Copynumber: 4.3 Consensus size: 40
26889943 GCTACTCGTT
* *
26889953 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
26889993 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
26890033 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
26890073 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
26890112 CAAATGCCTTC
1 CAAATGCCTTC
26890123 TGATCTTAGT
Statistics
Matches: 122, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
39 32 0.26
40 88 0.72
41 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:26890161 original size:79 final size:79
Alignment explanation
Indices: 26889953--26890174 Score: 250
Period size: 79 Copynumber: 2.8 Consensus size: 79
26889943 GCTACTCGTT
* * * * *
26889953 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGG
*
26890018 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * *
26890033 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
*
26890097 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* ** * * *
26890112 CAAATGCCTTC-TGATCTTAGTCTGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCC
26890175 AGACATCATT
Statistics
Matches: 121, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
78 2 0.02
79 59 0.49
80 57 0.47
81 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:26890161 original size:119 final size:120
Alignment explanation
Indices: 26889955--26890170 Score: 278
Period size: 119 Copynumber: 1.8 Consensus size: 120
26889945 TACTCGTTCA
*
26889955 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
26890020 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * ** *
26890075 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-TGATCTTAGTCTGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
26890137 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTA
26890171 GCCCAGACAT
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.04
119 59 0.72
120 20 0.24
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:26891374 original size:56 final size:56
Alignment explanation
Indices: 26891307--26891470 Score: 235
Period size: 56 Copynumber: 3.1 Consensus size: 56
26891297 TATTAGTTTA
26891307 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
26891363 TTGCCCATGCTTCTTATTTTATTCTTCCATT-----AACA-----CA--ACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
26891407 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
26891463 TTGCCCAT
1 TTGCCCAT
26891471 CATCCCTTGT
Statistics
Matches: 95, Mismatches: 1, Indels: 24
0.79 0.01 0.20
Matches are distributed among these distances:
44 37 0.39
46 2 0.02
49 4 0.04
51 4 0.04
54 2 0.02
56 46 0.48
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:26891406 original size:44 final size:44
Alignment explanation
Indices: 26891356--26891451 Score: 183
Period size: 44 Copynumber: 2.2 Consensus size: 44
26891346 ATGTTTCATG
26891356 ACATGTTTTGCCCATGCTTCTTATTTTATTCTTCCATTAACACA
1 ACATGTTTTGCCCATGCTTCTTATTTTATTCTTCCATTAACACA
*
26891400 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
1 ACATGTTTTGCCCATGCTTCTTATTTTATTCTTCCATTAACACA
26891444 ACATGTTT
1 ACATGTTT
26891452 CATGACATGT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.47
Consensus pattern (44 bp):
ACATGTTTTGCCCATGCTTCTTATTTTATTCTTCCATTAACACA
Found at i:26891878 original size:17 final size:17
Alignment explanation
Indices: 26891858--26891894 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
26891848 CAATGAACCA
* *
26891858 ATTTTGGGAGAGAACAG
1 ATTTCGGGAGAAAACAG
26891875 ATTTCGGGAGAAAACAG
1 ATTTCGGGAGAAAACAG
26891892 ATT
1 ATT
26891895 ACAAGCCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.08, G:0.30, T:0.24
Consensus pattern (17 bp):
ATTTCGGGAGAAAACAG
Found at i:26894643 original size:28 final size:28
Alignment explanation
Indices: 26894605--26894678 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
26894595 GTTCAAATTG
* *
26894605 TATAGCACTAAGTGTGCGAGTTTGATTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
26894633 TATAGCACTAAGTGTGCGAGTTCGACTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
26894661 T-TAAGCACTAAGTGTGCG
1 TAT-AGCACTAAGTGTGCG
26894679 GGCTTATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAGTTCGACTA
Found at i:26898095 original size:6 final size:6
Alignment explanation
Indices: 26898086--26898156 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
26898076 CCCACTCTCA
* * * * * *
26898086 TTTTCT TTTTCA TTTTCT TGTTT-T CTTTCA TGTTCA TTTTCT TTTTCA
1 TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TTTTCT TTTTCT TTTTCT
* *
26898134 ATTTCT TTTTGT TTTTCT TTTTC
1 TTTTCT TTTTCT TTTTCT TTTTC
26898157 ACATGCTGTT
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
5 3 0.06
6 43 0.88
7 3 0.06
ACGTcount: A:0.07, C:0.15, G:0.04, T:0.73
Consensus pattern (6 bp):
TTTTCT
Found at i:26898098 original size:12 final size:12
Alignment explanation
Indices: 26898083--26898157 Score: 73
Period size: 12 Copynumber: 6.2 Consensus size: 12
26898073 ACTCCCACTC
26898083 TCATTTTCTTTT
1 TCATTTTCTTTT
26898095 TCATTTTCTTGTT
1 TCATTTTCTT-TT
* *
26898108 T--TCTTTCATGT
1 TCAT-TTTCTTTT
26898119 TCATTTTCTTTT
1 TCATTTTCTTTT
*
26898131 TCAATTTCTTTT
1 TCATTTTCTTTT
**
26898143 TGTTTTTCTTTT
1 TCATTTTCTTTT
26898155 TCA
1 TCA
26898158 CATGCTGTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
11 3 0.06
12 42 0.86
13 4 0.08
ACGTcount: A:0.09, C:0.16, G:0.04, T:0.71
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:26900678 original size:18 final size:18
Alignment explanation
Indices: 26900651--26900695 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
26900641 GTAATGAAAA
26900651 GAAAACAGAAAAAGA-AAT
1 GAAAA-AGAAAAAGAGAAT
26900669 CGAAAAAGAAAAAGAGAAT
1 -GAAAAAGAAAAAGAGAAT
26900688 GAAAAAGA
1 GAAAAAGA
26900696 GCAAAAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.71, C:0.04, G:0.20, T:0.04
Consensus pattern (18 bp):
GAAAAAGAAAAAGAGAAT
Found at i:26900679 original size:6 final size:6
Alignment explanation
Indices: 26900647--26900695 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
26900637 TCTTGTAATG
** * *
26900647 AAAAGA AAACAGA AAAAGA AATCGA AAAAGA AAAAGA GAATGA AAAAGA
1 AAAAGA AAA-AGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
26900696 GCAAAAAGAG
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.73, C:0.04, G:0.18, T:0.04
Consensus pattern (6 bp):
AAAAGA
Found at i:26902529 original size:17 final size:17
Alignment explanation
Indices: 26902507--26902543 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
26902497 TATGAATTTC
26902507 TGCTTGTGTTGATTTAT
1 TGCTTGTGTTGATTTAT
*
26902524 TGCTTGTGTTGATTTCT
1 TGCTTGTGTTGATTTAT
26902541 TGC
1 TGC
26902544 CACCCAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.08, C:0.11, G:0.24, T:0.57
Consensus pattern (17 bp):
TGCTTGTGTTGATTTAT
Found at i:26913376 original size:40 final size:40
Alignment explanation
Indices: 26913293--26913555 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
26913283 GTGAATGCTG
* * * * * *
26913293 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
26913333 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
26913373 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
26913413 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
26913453 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
26913493 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
26913532 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
26913556 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:26933851 original size:11 final size:12
Alignment explanation
Indices: 26933824--26933849 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26933814 ATATTTTTAA
26933824 TTTCAAATTTTT
1 TTTCAAATTTTT
26933836 TTTCAAATTTTT
1 TTTCAAATTTTT
26933848 TT
1 TT
26933850 CACGTACCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTCAAATTTTT
Found at i:26937575 original size:30 final size:28
Alignment explanation
Indices: 26937541--26937596 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
26937531 GTGATTGAAT
26937541 AAAATCGACA-CAAGCAGAATTTAAAAGAAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAAA
*
26937571 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
26937597 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.33
29 2 0.08
30 10 0.42
31 4 0.17
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (28 bp):
AAAATCGACAGCAAGAAATTAAAAGAAA
Found at i:26946134 original size:807 final size:807
Alignment explanation
Indices: 26944660--26946188 Score: 1966
Period size: 807 Copynumber: 1.9 Consensus size: 807
26944650 GTGGATCTAA
* * *
26944660 AACGAAATAGAAAATTAAACTTAGAATCAACAGATCTGAAAACGAAACACCCAAAACAATAAAGA
1 AACGAAACAGAAAATCAAACTTAGAATCAAAAGATCTGAAAAC-AAACACCCAAAACAATAAAGA
*** * *
26944725 ATCAGCCAAGAATTGAAACACTTATTAATAGGGATTCTTAGAAGCCAAGAACACGAAATTAAACT
65 ATCAGCCAAGAACCAAAACACTTATTAATAGAGAATCTTAGAAGCCAAGAACACGAAATTAAACT
* * * * *
26944790 TCAAGAAAAGTCTCCAATCATCCGAATCTGACAAGTAAACACAAAACAGAAAAATTAGACTCAAC
130 TCAAGAAAAGACTCCAATCAGCCGAATCTGACAAGTAAACAAAAAACAGAAAAATCAAACTCAAC
* *
26944855 AGATCACGAAACCCCAAATTGAAGTTGAACTAGGTTTTGTGCGACAAGAAAAAGAAGAATTATGA
195 AGATCACGAAACACCAAATTGAAGTTGAACTAGGTTTGGTGCGACAAGAAAAAGAAGAATTATGA
* * *
26944920 ATCAAGAACAATTCTTGATGCCCAAGACTGGTGCCGAATAGATTCTTGAAGATTGAAAGGGCTTG
260 ATCAAGAACAATTCTTGATGCCCAAGACTGATGCCGAACAGATTCTTGAAGATTGAAAGGGCTGG
* * *
26944985 AAATGCAACAAGAGAGATTAAAACAATTTAATCAATGAATCGGCACAAGCAGAAAAATTAAAGAG
325 AAATGCAACAAGAGAGATTAAAACAAGTTAATCAATGAATCGACACAAGCAGAAAAATTAAAGAA
* * *
26945050 GAATAAATAGCAAGAAAATAAAGAAATGTCCTAAGAAGCCTTGAAATCGAGAAAGATTTCACAAC
390 GAATAAACAACAAGAAAATAAAGAAAAGTCCTAAGAAGCCTTGAAATCGAGAAAGATTTCACAAC
* * *
26945115 TCCCTTCAAACGACTCTAATCTCCCCTCCAATGTAGGACAATGGCAAGAAGAAGGCTGAAGATGG
455 TCCCTTCAAACGACTCTAATCTCCCATCCAATGAAGAACAATGGCAAGAAGAAGGCTGAAGATGG
* *
26945180 CTCCCACAATAAAAAAGATTGTTAAAACTACTTCCAAAGAAAACTCAAGAGAAAATTATTGGAGA
520 CTCCCACAATAAAAAAGATTGTTAAAACTACTTCCAAAGAAAACTCAAGAAAAAATTATTGCAG-
* * * *
26945245 AAACTCAGAGAATTTTTGACTCAATAAAAAACCTGATTTCAATGTGTTGTTCAATGTAATTGTGT
584 AAACTCAGAGAATTTTTCACTCAAAAAAAAACCTGATTTCAATGTATTCTTCAATGTAATTGTGT
* * * *
26945310 ATAAGGTGGCTGGCCAAGCC-T-TAT-TATAGGCCTTTTATCTATTTTCCTAACCCTATTAGGAA
649 ACAAGATGGCCGGCCAAGCCTTATATATATAGGCC-TCTAT-TATTTTCCTAACCCTATTA-GAA
26945372 AACTAAAAAAAACCTTGATAGAGGGTTGCATGTGGACCAAAATCGAGTTGTCAAGTCATGGGAAA
711 AACTAAAAAAAACCTTGATAGAGGGTTGCATGTGGACCAAAATCGAGTTGTCAAGTCATGGGAAA
26945437 CTCCTACGAAAACTCTAGACAATCAGATCTGG
776 CTCCTACGAAAACTCTAGACAATCAGATCTGG
* * * *
26945469 AACGAAACAGAAAGATCGAACTTAGAATTAAAAGATCTGAAGTA-AAATACCCAAAACAATAAAG
1 AACGAAACAGAAA-ATCAAACTTAGAATCAAAAGATCTGAA-AACAAACACCCAAAACAATAAAG
* * * * * * *
26945533 AATCAGCCTAGAACCAAAACACTTATTAATAGAGAATCTTGGAAGCTAATAGCATGAAATTAAGC
64 AATCAGCCAAGAACCAAAACACTTATTAATAGAGAATCTTAGAAGCCAAGAACACGAAATTAAAC
* * *
26945598 TTCAAG-AAGGACTCCAATCAGCCGAATCTGTCAGGTAAACAAAAAACAGAAATAAATCAAACTC
129 TTCAAGAAAAGACTCCAATCAGCCGAATCTGACAAGTAAACAAAAAACAG-AA-AAATCAAACTC
** * * * * * **
26945662 AGTAGATCAC-AAA-ATCAAATTGAA-TTAGATCTAGGGTTTGGATG-G-TAAGAAAGAG-GGGT
192 AACAGATCACGAAACACCAAATTGAAGTT-GAACTA-GGTTTGG-TGCGACAAGAAAAAGAAGAA
* * * * ** * * *
26945721 TTTTGAAATCAA-AACATTTCTTGTTGTCCAAGGTTGATGCTGAACAGATTCTTGAAGGTTGAAC
254 TTATG-AATCAAGAACAATTCTTGATGCCCAAGACTGATGCCGAACAGATTCTTGAAGATTGAAA
* *
26945785 GGGCTGGAGATGCAACAAGAGAG-TTTAAACAAGTTAGAT-AATGAAATCGACACAAGCA-AAAA
318 GGGCTGGAAATGCAACAAGAGAGATTAAAACAAGTTA-ATCAATG-AATCGACACAAGCAGAAAA
* *
26945847 ATTAAA-AAGATTGAACAACAAGAATAATAAAGATAAAGTCCTAAGAAGCCTTGAAATCGAGAAA
381 ATTAAAGAAGAATAAACAACAAGAA-AATAAAGA-AAAGTCCTAAGAAGCCTTGAAATCGAGAAA
*
26945911 GGTTTCACAACTCCCTTCAAACGACTCTAATCTCCCATCCAATGAAGAACAATGGCAAGAAGAAG
444 GATTTCACAACTCCCTTCAAACGACTCTAATCTCCCATCCAATGAAGAACAATGGCAAGAAGAAG
* * *
26945976 GCTGAAGATGGCTCCCACAATCAAAAAGATTGTTAAAACTTCTTCTAAAGAAAACTCAAGAAAAA
509 GCTGAAGATGGCTCCCACAATAAAAAAGATTGTTAAAACTACTTCCAAAGAAAACTCAAGAAAAA
* * *
26946041 ATTCTTGCAG-AACTCAAAGAGAA-TTTTCACTCAACAAAACAAATCTGATTTCCATGTATTCTT
574 ATTATTGCAGAAACTC--AGAGAATTTTTCACTCAA-AAAA-AAACCTGATTTCAATGTATTCTT
26946104 CAAGTGT-ATTGT-T-CAAGTATGGCCGGCCAAGCCTTACATATATATAGGCCTCTATTATTTTC
635 CAA-TGTAATTGTGTACAAG-ATGGCCGGCCAAGCCTT--ATATATATAGGCCTCTATTATTTTC
26946166 CTAACCCTATTAGAAAACTAAAA
696 CTAACCCTATTAGAAAACTAAAA
26946189 CTAAAAAAAC
Statistics
Matches: 617, Mismatches: 80, Indels: 46
0.83 0.11 0.06
Matches are distributed among these distances:
805 18 0.03
806 46 0.07
807 267 0.43
808 93 0.15
809 116 0.19
810 61 0.10
811 8 0.01
812 8 0.01
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (807 bp):
AACGAAACAGAAAATCAAACTTAGAATCAAAAGATCTGAAAACAAACACCCAAAACAATAAAGAA
TCAGCCAAGAACCAAAACACTTATTAATAGAGAATCTTAGAAGCCAAGAACACGAAATTAAACTT
CAAGAAAAGACTCCAATCAGCCGAATCTGACAAGTAAACAAAAAACAGAAAAATCAAACTCAACA
GATCACGAAACACCAAATTGAAGTTGAACTAGGTTTGGTGCGACAAGAAAAAGAAGAATTATGAA
TCAAGAACAATTCTTGATGCCCAAGACTGATGCCGAACAGATTCTTGAAGATTGAAAGGGCTGGA
AATGCAACAAGAGAGATTAAAACAAGTTAATCAATGAATCGACACAAGCAGAAAAATTAAAGAAG
AATAAACAACAAGAAAATAAAGAAAAGTCCTAAGAAGCCTTGAAATCGAGAAAGATTTCACAACT
CCCTTCAAACGACTCTAATCTCCCATCCAATGAAGAACAATGGCAAGAAGAAGGCTGAAGATGGC
TCCCACAATAAAAAAGATTGTTAAAACTACTTCCAAAGAAAACTCAAGAAAAAATTATTGCAGAA
ACTCAGAGAATTTTTCACTCAAAAAAAAACCTGATTTCAATGTATTCTTCAATGTAATTGTGTAC
AAGATGGCCGGCCAAGCCTTATATATATAGGCCTCTATTATTTTCCTAACCCTATTAGAAAACTA
AAAAAAACCTTGATAGAGGGTTGCATGTGGACCAAAATCGAGTTGTCAAGTCATGGGAAACTCCT
ACGAAAACTCTAGACAATCAGATCTGG
Found at i:26952507 original size:29 final size:29
Alignment explanation
Indices: 26952474--26952546 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
26952464 ATGTATTAGT
*
26952474 TTAGGACATATTTAAAACACTTGAACTAA
1 TTAGGACATATTTAAAACACTTAAACTAA
26952503 TTAGGACATATTTAAAACACTTAAACTAA
1 TTAGGACATATTTAAAACACTTAAACTAA
26952532 TTAGGACATATTTAA
1 TTAGGACATATTTAA
26952547 TAGTATCTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (29 bp):
TTAGGACATATTTAAAACACTTAAACTAA
Found at i:26956947 original size:17 final size:17
Alignment explanation
Indices: 26956901--26956962 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 17
26956891 TTTTACTCTC
26956901 TTTTCATTTTCTTTTGCAA
1 TTTTC-TTTTCTTTT-CAA
*
26956920 TTTTCCCTCTTTTTTTCTCAA
1 TTTT--CT-TTTCTTT-TCAA
*
26956941 TTTTCTTTTCTTTTTAA
1 TTTTCTTTTCTTTTCAA
26956958 TTTTC
1 TTTTC
26956963 ACTCTTTTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
17 8 0.22
18 6 0.17
19 6 0.17
20 1 0.03
21 14 0.39
22 1 0.03
ACGTcount: A:0.11, C:0.19, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTTCTTTTCTTTTCAA
Found at i:26965757 original size:30 final size:27
Alignment explanation
Indices: 26965708--26965767 Score: 66
Period size: 30 Copynumber: 2.1 Consensus size: 27
26965698 AAAGAAATTG
* **
26965708 AAGAAAGAAGAGAAAACGAGTTAGAAA
1 AAGAAAGAAGAAAAAACGAGCGAGAAA
26965735 AAGAAATGAAAGAAAAAGACGAGCGAGAAA
1 AAGAAA-G-AAGAAAAA-ACGAGCGAGAAA
26965765 AAG
1 AAG
26965768 TGAGGAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 6 0.22
28 1 0.04
29 7 0.26
30 13 0.48
ACGTcount: A:0.63, C:0.05, G:0.27, T:0.05
Consensus pattern (27 bp):
AAGAAAGAAGAAAAAACGAGCGAGAAA
Found at i:26971992 original size:15 final size:15
Alignment explanation
Indices: 26971951--26972005 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
26971941 TCCATTGAGC
*
26971951 GAGA-AAAATAAAAA
1 GAGAGAAAAGAAAAA
*
26971965 GAGAG-AAACAAAAA
1 GAGAGAAAAGAAAAA
*
26971979 GAGTGAAAAGAAAAA
1 GAGAGAAAAGAAAAA
*
26971994 GAAAGAAAAGAA
1 GAGAGAAAAGAA
26972006 TGATGAAAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.04
Consensus pattern (15 bp):
GAGAGAAAAGAAAAA
Found at i:26973631 original size:40 final size:40
Alignment explanation
Indices: 26973586--26973737 Score: 198
Period size: 40 Copynumber: 3.8 Consensus size: 40
26973576 ATAACCACAA
* * *
26973586 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
26973626 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * * *
26973666 GCACAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
26973706 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
26973738 CATTCAAATG
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:26981817 original size:40 final size:40
Alignment explanation
Indices: 26981742--26981953 Score: 232
Period size: 40 Copynumber: 5.3 Consensus size: 40
26981732 TCTTTGGAAT
* * * *
26981742 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTAGCACAAATGCCTTCGGGTC
* * * *
26981781 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTAGCACAAATGCCTTCGGGTC
* *
26981821 TTAGCCCGGATATATCAACTTGCACAAATGCCTTCAGGTC
1 TTAGCCCGGATATATCAACTAGCACAAATGCCTTCGGGTC
* * *
26981861 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCAACTAGCACAAATGCCTTCGGGTC
* * *
26981901 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCAACTAGCACAAATGCCTTCGGGTC
*
26981941 TTAGCCAGGATAT
1 TTAGCCCGGATAT
26981954 CATTCAAATG
Statistics
Matches: 152, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 4 0.03
40 144 0.95
41 4 0.03
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCAACTAGCACAAATGCCTTCGGGTC
Found at i:26994397 original size:46 final size:46
Alignment explanation
Indices: 26994346--26994439 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
26994336 ATAGTGTGGC
* *
26994346 GTTCATCATATACCAAGGTTTCTATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCAAG
*
26994392 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCAAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCAAG
26994438 GT
1 GT
26994440 CTTTTAAACC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCAAG
Found at i:26999220 original size:20 final size:19
Alignment explanation
Indices: 26999195--26999250 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
26999185 TTCATATGGT
26999195 TCAGCTCACTTGAGCTCAAG
1 TCAGCTCA-TTGAGCTCAAG
* *
26999215 TCAGCTCATTCGAGCTTAAT
1 TCAGCTCATT-GAGCTCAAG
26999235 TCAGCTCATTGAGCTC
1 TCAGCTCATTGAGCTC
26999251 GTTATTAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.22
20 25 0.78
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (19 bp):
TCAGCTCATTGAGCTCAAG
Found at i:27005787 original size:20 final size:20
Alignment explanation
Indices: 27005726--27005779 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
27005716 CTCTACTTCA
* *
27005726 AGCTCATTCAGCTCAACCAT
1 AGCTCATTCAGCTCATCCTT
* *
27005746 AGCTCATTGAGCTTATCCTT
1 AGCTCATTCAGCTCATCCTT
27005766 AGCTCATTCAGCTC
1 AGCTCATTCAGCTC
27005780 GTTCTTAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.31
Consensus pattern (20 bp):
AGCTCATTCAGCTCATCCTT
Found at i:27008382 original size:46 final size:46
Alignment explanation
Indices: 27008331--27008424 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
27008321 ATAGTGTGGC
*
27008331 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCAAG
*
27008377 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCAAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCAAG
27008423 GT
1 GT
27008425 CTTTTAAACC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCAAG
Found at i:27008893 original size:50 final size:52
Alignment explanation
Indices: 27008768--27008898 Score: 133
Period size: 50 Copynumber: 2.6 Consensus size: 52
27008758 TGAACAAATG
* * * **
27008768 AGTTACTTAATGCA-AGACTTAATTTAATGATGTACACTTAAACTAACATGGG
1 AGTTACATAATGCATA-ACTTTATTTAATGATGCACACTTAAACTAACATGAA
** * * *
27008820 AGTTACATAATGCATGTCATTATTT-ATGATGCATACTT-AACTAGCATGAA
1 AGTTACATAATGCATAACTTTATTTAATGATGCACACTTAAACTAACATGAA
*
27008870 AGTTACATAATGCATAACTTTATTAAATG
1 AGTTACATAATGCATAACTTTATTTAATG
27008899 CAGAACACAC
Statistics
Matches: 63, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
50 30 0.48
51 14 0.22
52 19 0.30
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (52 bp):
AGTTACATAATGCATAACTTTATTTAATGATGCACACTTAAACTAACATGAA
Found at i:27009269 original size:35 final size:35
Alignment explanation
Indices: 27009229--27009295 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
27009219 CAATTCAGCT
* *
27009229 GATTAA-TGAGTTGATTAATTAAGCTAAAATAATTA
1 GATTAATTGAGCTAATTAA-TAAGCTAAAATAATTA
*
27009264 GATTAATTGAGCTAATTAATAAGCTGAAATAA
1 GATTAATTGAGCTAATTAATAAGCTAAAATAA
27009296 CTTCATAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 18 0.64
36 10 0.36
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.34
Consensus pattern (35 bp):
GATTAATTGAGCTAATTAATAAGCTAAAATAATTA
Found at i:27012267 original size:13 final size:14
Alignment explanation
Indices: 27012249--27012277 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27012239 ATTTGAACTG
27012249 AACTAACT-AAATT
1 AACTAACTAAAATT
27012262 AACTAACTAAAATT
1 AACTAACTAAAATT
27012276 AA
1 AA
27012278 ATAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (14 bp):
AACTAACTAAAATT
Found at i:27012351 original size:20 final size:21
Alignment explanation
Indices: 27012326--27012367 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
27012316 AATAGAAAGA
*
27012326 TGGAAACGATCTC-ATTGAGC
1 TGGAAACGAGCTCAATTGAGC
*
27012346 TGGAAATGAGCTCAATTGAGC
1 TGGAAACGAGCTCAATTGAGC
27012367 T
1 T
27012368 CAACAAGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (21 bp):
TGGAAACGAGCTCAATTGAGC
Found at i:27023787 original size:21 final size:21
Alignment explanation
Indices: 27023763--27023804 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
27023753 TAAACGTTTT
27023763 CCGATTGATCTGAAATTTTAC
1 CCGATTGATCTGAAATTTTAC
*
27023784 CCGATTGATTTGAAATTTTAC
1 CCGATTGATCTGAAATTTTAC
27023805 ATACACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (21 bp):
CCGATTGATCTGAAATTTTAC
Found at i:27041856 original size:53 final size:53
Alignment explanation
Indices: 27041771--27041876 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
27041761 TTGTGGAATC
27041771 TTTCAGGATTTCAAGAATTCTTAGGACTTTTCTTTATTCTTTTCCTGTTCATT
1 TTTCAGGATTTCAAGAATTCTTAGGACTTTTCTTTATTCTTTTCCTGTTCATT
* * *
27041824 TTTCGGGATTTCAAGACTTTTTAGGACTTTTCTTTATTCTTTTCCTGTTCATT
1 TTTCAGGATTTCAAGAATTCTTAGGACTTTTCTTTATTCTTTTCCTGTTCATT
27041877 CTTCTTTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.54
Consensus pattern (53 bp):
TTTCAGGATTTCAAGAATTCTTAGGACTTTTCTTTATTCTTTTCCTGTTCATT
Found at i:27050196 original size:19 final size:20
Alignment explanation
Indices: 27050172--27050219 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
27050162 CTTTTCACTC
27050172 TCTTTTTTTAAATTTTC-TT
1 TCTTTTTTTAAATTTTCTTT
* * *
27050191 TCTTTTTCTCATTTTTCTTT
1 TCTTTTTTTAAATTTTCTTT
27050211 TCTTTTTTT
1 TCTTTTTTT
27050220 CACTCTTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (20 bp):
TCTTTTTTTAAATTTTCTTT
Found at i:27050228 original size:22 final size:20
Alignment explanation
Indices: 27050184--27050233 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
27050174 TTTTTTTAAA
27050184 TTTTC-TTTCTTTTTCTCAT
1 TTTTCTTTTCTTTTTCTCAT
*
27050203 TTTTCTTTTCTTTTTTTCACT
1 TTTTCTTTTCTTTTTCTCA-T
27050224 CTTTTCTTTT
1 -TTTTCTTTT
27050234 TCTCTCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 12 0.44
21 1 0.04
22 9 0.33
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTCTTTTCTTTTTCTCAT
Found at i:27051803 original size:46 final size:46
Alignment explanation
Indices: 27051750--27051843 Score: 172
Period size: 46 Copynumber: 2.0 Consensus size: 46
27051740 CAAAGAAAAG
27051750 ACCTCGACCCACTATCAA-GAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATG-ATGATAGGAACCTTGGTATATGATGA
27051796 ACCTCGACCCACTATCAATGATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATGATGATAGGAACCTTGGTATATGATGA
27051842 AC
1 AC
27051844 GCCACACTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 46 0.98
47 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTATCAATGATGATAGGAACCTTGGTATATGATGA
Found at i:27062478 original size:39 final size:41
Alignment explanation
Indices: 27062377--27062560 Score: 197
Period size: 39 Copynumber: 4.6 Consensus size: 41
27062367 TTGAATGATG
* *
27062377 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
27062417 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
27062457 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* * *
27062496 TCCGGGTTAAGTCCCGAAGGCAATTGTGCG-GTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
27062535 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27062561 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
38 1 0.01
39 64 0.51
40 47 0.38
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:27062513 original size:79 final size:80
Alignment explanation
Indices: 27062377--27062560 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
27062367 TTGAATGATG
* *
27062377 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
27062441 TGTGCGAGATACTA-A
66 TGTGCG-GATACTATA
* * * **
27062456 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
27062518 ATTGTGCGGTTACTATA
64 ATTGTGCGGATACTATA
* *
27062535 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27062561 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 16 0.18
79 56 0.62
80 18 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGGATACTATA
Found at i:27062567 original size:79 final size:78
Alignment explanation
Indices: 27062430--27062593 Score: 190
Period size: 79 Copynumber: 2.1 Consensus size: 78
27062420 GGACTAAGAT
* * **
27062430 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTA-CTA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAG-TAGCTA
*
27062494 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATC
* *
27062509 CCGAAGGCAATTGTGCG-GTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTAGCT
* *
27062572 ATATCCGGTTAAATT
64 AAATCCGGTTAAATC
27062587 CCGAAGG
1 CCGAAGG
27062594 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
77 2 0.03
78 30 0.41
79 41 0.56
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:27070526 original size:40 final size:40
Alignment explanation
Indices: 27070336--27070519 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
27070326 TTGAATGATG
* * * *
27070336 TCCGGG-TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
27070375 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
27070415 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
27070454 TCTGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
27070495 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27070520 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
39 39 0.32
40 72 0.60
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27070541 original size:79 final size:79
Alignment explanation
Indices: 27070388--27070552 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
27070378 GGACTAAGAT
* * * **
27070388 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
* *
27070453 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* *
27070467 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAACGAGTTA-C
* *
27070530 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
27070546 CCGAAGG
1 CCGAAGG
27070553 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:27075434 original size:47 final size:49
Alignment explanation
Indices: 27075361--27075485 Score: 147
Period size: 47 Copynumber: 2.7 Consensus size: 49
27075351 TAAGATGCCA
* * *
27075361 ATGCCATGTCCCAAAAATGGTCTTACACTAGCACTCATCTCAATGT-C-G
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTC-TCACAATGTGCTG
*
27075409 ATGCCATGT-CCAGACATGGTCTTACACT-G-GCTCTCACAATGTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCTCACAATGT-GCTG
27075456 ATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
27075486 TCACAATAGC
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
44 8 0.12
45 3 0.04
46 17 0.25
47 30 0.45
48 9 0.13
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCTCACAATGTGCTG
Found at i:27091837 original size:18 final size:18
Alignment explanation
Indices: 27091814--27091849 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
27091804 AAACCCTAGA
27091814 ATTCTTT-TGAATCTGATT
1 ATTCTTTGTG-ATCTGATT
27091832 ATTCTTTGTGATCTGATT
1 ATTCTTTGTGATCTGATT
27091850 TTTTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.19, C:0.11, G:0.14, T:0.56
Consensus pattern (18 bp):
ATTCTTTGTGATCTGATT
Found at i:27106408 original size:21 final size:21
Alignment explanation
Indices: 27106383--27106428 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
27106373 CTCGCTTACC
27106383 TTTTCGCCTTTTTCA-TTTTCA
1 TTTTCGCCTTTTTCACTTTT-A
**
27106404 TTTTCTTCTTTTTCACTTTTA
1 TTTTCGCCTTTTTCACTTTTA
27106425 TTTT
1 TTTT
27106429 TCTCTTCTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTCGCCTTTTTCACTTTTA
Found at i:27112673 original size:20 final size:20
Alignment explanation
Indices: 27112648--27112714 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
27112638 CTCTACCTCA
27112648 AGCTCATTCAGTTCAACTTT
1 AGCTCATTCAGTTCAACTTT
* * *
27112668 AGCTCATTGAGCTT-ATCCTT
1 AGCTCATTCAG-TTCAACTTT
* * *
27112688 AGCTTATTCAGCTCAACTTC
1 AGCTCATTCAGTTCAACTTT
27112708 AGCTCAT
1 AGCTCAT
27112715 CTTAACTTGC
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
19 1 0.03
20 32 0.91
21 2 0.06
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (20 bp):
AGCTCATTCAGTTCAACTTT
Found at i:27116519 original size:25 final size:25
Alignment explanation
Indices: 27116463--27116520 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
27116453 AACTTGAGTG
*
27116463 TTTTCAGTACAGTCTATCTATAGTA
1 TTTTCAGTACAGTCTATCTATAGCA
* * *
27116488 GTCTCAGTATA-TACTATCTATAGCA
1 TTTTCAGTACAGT-CTATCTATAGCA
27116513 TTTTCAGT
1 TTTTCAGT
27116521 TTTTAAACAG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (25 bp):
TTTTCAGTACAGTCTATCTATAGCA
Found at i:27126526 original size:15 final size:15
Alignment explanation
Indices: 27126508--27126541 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
27126498 CATTACTTTC
27126508 ATGTTAATTATTAAT
1 ATGTTAATTATTAAT
*
27126523 ATGTTAATTTTTAAT
1 ATGTTAATTATTAAT
27126538 ATGT
1 ATGT
27126542 AGTGGGACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (15 bp):
ATGTTAATTATTAAT
Found at i:27128897 original size:28 final size:28
Alignment explanation
Indices: 27128866--27128948 Score: 79
Period size: 28 Copynumber: 3.2 Consensus size: 28
27128856 CAGATAAACT
27128866 ACCACTGATAATACTTTATGGACAAGCC
1 ACCACTGATAATACTTTATGGACAAGCC
** * *
27128894 ACCACTGAT--T--TGCA--GATAAGCT
1 ACCACTGATAATACTTTATGGACAAGCC
*
27128916 ACCACTGATAATACTTTATGGACAGGCC
1 ACCACTGATAATACTTTATGGACAAGCC
27128944 ACCAC
1 ACCAC
27128949 ATATGCAAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 12
0.66 0.15 0.20
Matches are distributed among these distances:
22 15 0.38
24 3 0.08
26 3 0.08
28 19 0.47
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.24
Consensus pattern (28 bp):
ACCACTGATAATACTTTATGGACAAGCC
Found at i:27128912 original size:50 final size:48
Alignment explanation
Indices: 27128834--27129007 Score: 219
Period size: 50 Copynumber: 3.6 Consensus size: 48
27128824 TAAAGTATCA
27128834 TTTATGGACAAGCCACCAC--TTGCAGATAAACTACCACTGATAATAC
1 TTTATGGACAAGCCACCACATTTGCAGATAAACTACCACTGATAATAC
*
27128880 TTTATGGACAAGCCACCACTGATTTGCAGATAAGCTACCACTGATAATAC
1 TTTATGGACAAGCCACCAC--ATTTGCAGATAAACTACCACTGATAATAC
* * * * * *
27128930 TTTATGGACAGGCCACCACATATGCAAATACACTTCCACTGA-AACAC
1 TTTATGGACAAGCCACCACATTTGCAGATAAACTACCACTGATAATAC
*
27128977 TTTGTGGACAAGCCACCACTGATTTGCAGAT
1 TTTATGGACAAGCCACCAC--ATTTGCAGAT
27129008 GAATCTCCAC
Statistics
Matches: 110, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
46 19 0.17
47 21 0.19
48 18 0.16
49 8 0.07
50 44 0.40
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.25
Consensus pattern (48 bp):
TTTATGGACAAGCCACCACATTTGCAGATAAACTACCACTGATAATAC
Found at i:27130910 original size:46 final size:46
Alignment explanation
Indices: 27130843--27130935 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
27130833 CATCGACCAC
27130843 TACATTAGTCTTTTCGTGCTGATACTTGATCGCACAATCATAGTCT
1 TACATTAGTCTTTTCGTGCTGATACTTGATCGCACAATCATAGTCT
*
27130889 TACATTAGTCTTTTTGTGCTGATACTTGATCGCACAATCATAGTCT
1 TACATTAGTCTTTTCGTGCTGATACTTGATCGCACAATCATAGTCT
27130935 T
1 T
27130936 TCAAAAAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (46 bp):
TACATTAGTCTTTTCGTGCTGATACTTGATCGCACAATCATAGTCT
Found at i:27166723 original size:21 final size:22
Alignment explanation
Indices: 27166693--27166743 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
27166683 TCTTCTTTCG
*
27166693 GAAAGAAAAAAGAGAA-AAAAA
1 GAAAGGAAAAAGAGAAGAAAAA
*
27166714 GAAAGGAAAAAGAGAAGAGAAA
1 GAAAGGAAAAAGAGAAGAAAAA
*
27166736 GAAGGGAA
1 GAAAGGAA
27166744 TTGATGACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (22 bp):
GAAAGGAAAAAGAGAAGAAAAA
Found at i:27182622 original size:39 final size:40
Alignment explanation
Indices: 27182579--27182746 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
27182569 CTCGTTCAAG
* * * *
27182579 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
27182618 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
27182658 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
27182698 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
27182738 TGCCTTCGG
1 TGCCTTCGG
27182747 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:27182759 original size:40 final size:40
Alignment explanation
Indices: 27182616--27182746 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 40
27182606 TAACTCATAC
* *
27182616 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
27182656 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
27182696 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
27182736 AATGCCTTCGG
1 AATGCCTTCGG
27182747 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.04
40 79 0.96
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:27182759 original size:80 final size:80
Alignment explanation
Indices: 27182579--27182799 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 80
27182569 CTCGTTCAAG
* * * * * * * *
27182579 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATAT
*
27182643 TAAAACTCGCACGAA
66 TAAAACTCGCACAAA
*
27182658 TGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAAGGCCTTCGGGACTTAACCCGGA
1 TGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCCGGA
27182720 -ATTAATAACTCGCACAAA
63 TATTAA-AACTCGCACAAA
** * *
27182738 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAGAGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
27182800 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
77 1 0.01
78 2 0.02
79 34 0.29
80 72 0.61
81 9 0.08
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATAT
TAAAACTCGCACAAA
Found at i:27189918 original size:40 final size:40
Alignment explanation
Indices: 27189787--27190047 Score: 289
Period size: 40 Copynumber: 6.6 Consensus size: 40
27189777 TTGAATGCTG
* * * * * *
27189787 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * * *
27189827 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACT-AA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
27189866 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
27189906 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
27189946 TCCAGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27189986 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27190025 ACCGGGCTATGT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27190048 TGAACGAGGA
Statistics
Matches: 196, Mismatches: 21, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
38 12 0.06
39 52 0.27
40 124 0.63
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:27189965 original size:80 final size:79
Alignment explanation
Indices: 27189787--27190047 Score: 296
Period size: 79 Copynumber: 3.3 Consensus size: 79
27189777 TTGAATGCTG
* * * * * * ** *
27189787 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGG-CA
*
27189850 TTGTGCGAGATACT-AA
63 TTGTGCGAGTTACTAAA
27189866 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-
*
27189931 GTGCGAGTTATTAAA
65 GTGCGAGTTACTAAA
* * *
27189946 TCCAGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
*
27190011 TGTGAGTTACTAAA
66 TGCGAGTTACTAAA
* * *
27190025 ACCGGGCTATGT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27190048 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
78 15 0.09
79 74 0.47
80 69 0.44
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTACTAAA
Found at i:27192091 original size:35 final size:35
Alignment explanation
Indices: 27192050--27192147 Score: 126
Period size: 35 Copynumber: 2.8 Consensus size: 35
27192040 TTATTGGTAT
* * * * *
27192050 TTTGATTCGCGTGTTAAGCGTGCTATTATTCTGA-
1 TTTGATTCGCATGTTAAGCATGCCACTAGTCTGAG
*
27192084 TTATGATTCACATGTTAAGCATGCCACTAGTCTGAG
1 TT-TGATTCGCATGTTAAGCATGCCACTAGTCTGAG
27192120 TTTGATTCGCATGTTAAGCATGCCACTA
1 TTTGATTCGCATGTTAAGCATGCCACTA
27192148 TGTTAAATCG
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
34 2 0.04
35 51 0.93
36 2 0.04
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (35 bp):
TTTGATTCGCATGTTAAGCATGCCACTAGTCTGAG
Found at i:27196985 original size:60 final size:60
Alignment explanation
Indices: 27196886--27197043 Score: 178
Period size: 60 Copynumber: 2.6 Consensus size: 60
27196876 CCAATAACAC
* * * *
27196886 ACTAGT-TTGTGGACAATCTACCAGT-ATTGCAGATAAACTGCCAGTATTGTAGACAAGTT
1 ACTAGTATTGTGGACAAGCCACCAGTAATT-CAGATAAACTGCCAATATTGTAGACAAGCT
** *
27196945 GTTAGTATTGTGGACAAGCCACCAGTAATTCAGATAAACTGCCAATATTGTCGACAAGCT
1 ACTAGTATTGTGGACAAGCCACCAGTAATTCAGATAAACTGCCAATATTGTAGACAAGCT
* * * *
27197005 ACCAATATTATGGACAAGCCACCAATAATGT-AGATAAAC
1 ACTAGTATTGTGGACAAGCCACCAGTAAT-TCAGATAAAC
27197044 AACCAGTACT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
59 4 0.05
60 75 0.90
61 4 0.05
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (60 bp):
ACTAGTATTGTGGACAAGCCACCAGTAATTCAGATAAACTGCCAATATTGTAGACAAGCT
Found at i:27197011 original size:20 final size:20
Alignment explanation
Indices: 27196986--27197031 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
27196976 AGATAAACTG
* *
27196986 CCAATATTGTCGACAAGCTA
1 CCAATATTATCGACAAGCCA
*
27197006 CCAATATTATGGACAAGCCA
1 CCAATATTATCGACAAGCCA
27197026 CCAATA
1 CCAATA
27197032 ATGTAGATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.22
Consensus pattern (20 bp):
CCAATATTATCGACAAGCCA
Found at i:27201158 original size:40 final size:40
Alignment explanation
Indices: 27201033--27201143 Score: 168
Period size: 40 Copynumber: 2.8 Consensus size: 40
27201023 ATTGTGATAT
*
27201033 TAAAGTAAGCCACTGATCTGTAATTGAGACTGTTTATGTTA
1 TAAA-TAAGCCACTGATCTGTAATTGAGACTGATTATGTTA
* *
27201074 TAAATAAGCCACTGATTTGTAATTAAGACTGATTATGTTA
1 TAAATAAGCCACTGATCTGTAATTGAGACTGATTATGTTA
* *
27201114 TAAATAAGCCACTAATCTGTAATTGTGACT
1 TAAATAAGCCACTGATCTGTAATTGAGACT
27201144 AGTAACGTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 59 0.94
41 4 0.06
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (40 bp):
TAAATAAGCCACTGATCTGTAATTGAGACTGATTATGTTA
Found at i:27201324 original size:37 final size:37
Alignment explanation
Indices: 27201274--27201360 Score: 113
Period size: 37 Copynumber: 2.3 Consensus size: 37
27201264 GCATTATAAT
*
27201274 TCATGCCACTATTTTTG-TCACTGATCACATGTTTGAA
1 TCATGCCATTATTTTTGCT-ACTGATCACATGTTTGAA
** *
27201311 TCATGCCATTATTTTTGCTACTGATTGCATGTTTTAA
1 TCATGCCATTATTTTTGCTACTGATCACATGTTTGAA
27201348 TCATGCCTATTAT
1 TCATGCC-ATTAT
27201361 ACTATTTTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
37 38 0.86
38 6 0.14
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.45
Consensus pattern (37 bp):
TCATGCCATTATTTTTGCTACTGATCACATGTTTGAA
Found at i:27209794 original size:39 final size:40
Alignment explanation
Indices: 27209597--27209812 Score: 222
Period size: 40 Copynumber: 5.4 Consensus size: 40
27209587 GCTGTCCGGC
* * * * * *
27209597 TAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGAT
1 TAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGGT
* * * *
27209637 TAAGAT-CCGAAGACCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGT
* *
27209677 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCTGGGT
1 TAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGT
**
27209717 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGT
* * * *
27209757 TATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGC
1 TAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGT
*
27209796 TATGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
27209813 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 35 0.23
40 109 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGT
Found at i:27220136 original size:57 final size:57
Alignment explanation
Indices: 27220048--27220158 Score: 177
Period size: 57 Copynumber: 1.9 Consensus size: 57
27220038 ATTCTCGATG
* *
27220048 TAGTTTATAACCTCAACAGGATTCTTGATATAATGGAAGAGTTGCTTGTCTCCTCCA
1 TAGTTTATAACCTCAACAGGATTATTGATATAACGGAAGAGTTGCTTGTCTCCTCCA
* * *
27220105 TAGTTTATATCCTCAGCAGGATTATTGATATAACGGAAGAGTTGTTTGTCTCCT
1 TAGTTTATAACCTCAACAGGATTATTGATATAACGGAAGAGTTGCTTGTCTCCT
27220159 TTATACGTGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (57 bp):
TAGTTTATAACCTCAACAGGATTATTGATATAACGGAAGAGTTGCTTGTCTCCTCCA
Found at i:27221026 original size:3 final size:3
Alignment explanation
Indices: 27221020--27221048 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
27221010 CTTGCATCTA
27221020 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
27221049 ATTATTGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:27228817 original size:42 final size:42
Alignment explanation
Indices: 27228764--27228843 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
27228754 TTATCTTAGA
* * *
27228764 AAAAAATAATTTAAAAAAGGAGAAGATAATCTTGGGTTTTTG
1 AAAAAAGAATTTAAAAAAGGAGAAGATAAACATGGGTTTTTG
*
27228806 AAAAAAGAATTTAAAAGAGGAGAAGATAAACATGGGTT
1 AAAAAAGAATTTAAAAAAGGAGAAGATAAACATGGGTT
27228844 GTTGGATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.51, C:0.03, G:0.21, T:0.25
Consensus pattern (42 bp):
AAAAAAGAATTTAAAAAAGGAGAAGATAAACATGGGTTTTTG
Found at i:27232046 original size:25 final size:25
Alignment explanation
Indices: 27231996--27232047 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
27231986 CAAGGGAATT
* *
27231996 TCACTATCCCCTATTCAATTGGAAA
1 TCACTATCCCCTATTCAAGTAGAAA
*
27232021 TCACTATCCCCTATTCAAGTATAAA
1 TCACTATCCCCTATTCAAGTAGAAA
27232046 TC
1 TC
27232048 TAAAGCATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.33
Consensus pattern (25 bp):
TCACTATCCCCTATTCAAGTAGAAA
Found at i:27234800 original size:97 final size:99
Alignment explanation
Indices: 27234663--27234842 Score: 258
Period size: 97 Copynumber: 1.8 Consensus size: 99
27234653 TCACATATCG
* *
27234663 GTGCCGATGTCATGTCCCAGACATGGTCTTACACTAGCACTCATC-TC-G-AGCCAATGCCATCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCGTCTGTA-CAAATGCCATCT
27234725 CCCAAACATGGTCTTACACTGACTTTTCTCTATTC
65 CCCAAACATGGTCTTACACTGACTTTTCTCTATTC
* * * *
27234760 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCTGTACAAATGCCATGT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATC-GTCTGTACAAATGCCATCT
*
27234825 CCCAGACATGGTCTTACA
65 CCCAAACATGGTCTTACA
27234843 TTGGCACACT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
97 41 0.57
99 2 0.03
100 28 0.39
101 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.28
Consensus pattern (99 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCGTCTGTACAAATGCCATCTC
CCAAACATGGTCTTACACTGACTTTTCTCTATTC
Found at i:27234820 original size:50 final size:48
Alignment explanation
Indices: 27234673--27234849 Score: 169
Period size: 50 Copynumber: 3.6 Consensus size: 48
27234663 GTGCCGATGT
* * *
27234673 CATGTCCCAGACATGGTCTTACACTAGCACTCATCTC-G-AGCCAATGC
1 CATGTCCCAGACATGGTCTTACACTGGCACTCCTCTCTGTA-CAAATGC
* * * ** * * * **
27234720 CATCTCCCAAACATGGTCTTACACTGACTTTTCTCTATTCGTGCTGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCACTCCTCT-CT-GTACAAATGC
27234770 CATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCTGTACAAATGC
1 CATGTCCCAGACATGGTCTTACACTGGCACTCCTC--TCTGTACAAATGC
*
27234820 CATGTCCCAGACATGGTCTTACATTGGCAC
1 CATGTCCCAGACATGGTCTTACACTGGCAC
27234850 ACTTACTACC
Statistics
Matches: 101, Mismatches: 23, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
47 28 0.28
50 71 0.70
51 1 0.01
52 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCACTCCTCTCTGTACAAATGC
Found at i:27234942 original size:44 final size:44
Alignment explanation
Indices: 27234870--27234964 Score: 145
Period size: 44 Copynumber: 2.2 Consensus size: 44
27234860 GTGGTCAAAC
* *
27234870 CATGGTCTTTTCCGTCAATTCTTTCTTAATTGCCATGTTATAAA
1 CATGGACTTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
* * *
27234914 TATGGACTTTTTCGTCAATTCTTCCTTAATTTCCATGTTATAAA
1 CATGGACTTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
27234958 CATGGAC
1 CATGGAC
27234965 CTTGAGATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (44 bp):
CATGGACTTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
Found at i:27239656 original size:50 final size:50
Alignment explanation
Indices: 27239581--27239686 Score: 151
Period size: 50 Copynumber: 2.1 Consensus size: 50
27239571 TATTGAGGTT
* *
27239581 ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGG-AGTTGGCACCGAG
1 ATGAGAGGTCCCACATAAGACCATGTCTAGGACATGGCA-TGGGCACCGAG
* * *
27239631 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACATAAGACCATGTCTAGGACATGGCATGGGCACCGAG
27239681 ATGAGA
1 ATGAGA
27239687 ACTCCCATGT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
50 49 0.98
51 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.31, T:0.18
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAGACCATGTCTAGGACATGGCATGGGCACCGAG
Found at i:27239704 original size:50 final size:50
Alignment explanation
Indices: 27239589--27239704 Score: 126
Period size: 50 Copynumber: 2.3 Consensus size: 50
27239579 TTATGAGAGG
* * * * **
27239589 TCCCACATAAGACCATGTCTGGGACATGGAGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAAACCATGTCTAGGACATGGAGTGGGCACCGAGATGAGAAC
* * *
27239639 TCCCCCGTAAGACCATGTCTAGGACATGGCA-TGGGCACCGATATGAGAAC
1 TCCCACGTAAAACCATGTCTAGGACATGG-AGTGGGCACCGAGATGAGAAC
*
27239689 TCCCATGTAAAACCAT
1 TCCCACGTAAAACCAT
27239705 ATATGGGATA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 54 0.98
51 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (50 bp):
TCCCACGTAAAACCATGTCTAGGACATGGAGTGGGCACCGAGATGAGAAC
Found at i:27239999 original size:20 final size:20
Alignment explanation
Indices: 27239974--27240012 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
27239964 CATGAGTTAT
27239974 AAGTAAGAAAGTAAGTAAAC
1 AAGTAAGAAAGTAAGTAAAC
*
27239994 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAAAGTAAGTAAA
27240013 GAAGAAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAAAGTAAGTAAAC
Found at i:27247259 original size:49 final size:49
Alignment explanation
Indices: 27247082--27247266 Score: 210
Period size: 49 Copynumber: 3.8 Consensus size: 49
27247072 TTAAGAGAGG
* * * * * * *
27247082 TCCCAAGTAAGACCATGTCTGGGACATGGCATGGGAACTGATATGAGAAC-
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCAGT-ACAGGA-AACA
* * *
27247132 TCCCATGTAAAACCATATCTGGGATATGACATTGGCAGTACAGGAAACA
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCAGTACAGGAAACA
* *
27247181 TCCAATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACA
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCAGTACAGGAAACA
* * *
27247230 TCCCATGTGAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCA
27247267 TGTTATTATC
Statistics
Matches: 116, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
48 3 0.03
49 82 0.71
50 31 0.27
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (49 bp):
TCCCATGTAAGACCATATCTGGGACATGGCATTGGCAGTACAGGAAACA
Found at i:27256273 original size:27 final size:27
Alignment explanation
Indices: 27256243--27256420 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27256233 ATATTGAGTC
* * * *
27256243 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
27256270 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27256297 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
27256325 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
27256352 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
27256379 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27256406 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27256421 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:27256382 original size:82 final size:81
Alignment explanation
Indices: 27256264--27256419 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27256254 TGCTATATAA
* *
27256264 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
27256329 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27256346 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
27256410 CACTTAGTGC
65 CACTTAGTGC
27256420 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27267954 original size:24 final size:21
Alignment explanation
Indices: 27267926--27267969 Score: 52
Period size: 24 Copynumber: 2.0 Consensus size: 21
27267916 TTTATCAAGA
27267926 TAAATATTAGATTAAATATAATAT
1 TAAATATT--ATTAAA-ATAATAT
*
27267950 TAAATCTTATTAAAATAATA
1 TAAATATTATTAAAATAATA
27267970 GAATGTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
24 7 0.37
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAATATTATTAAAATAATAT
Found at i:27268040 original size:20 final size:18
Alignment explanation
Indices: 27267993--27268100 Score: 64
Period size: 20 Copynumber: 5.8 Consensus size: 18
27267983 CAAGATAAAC
27267993 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
27268010 ATTAAGA-TAATTACTTTAAT
1 ATTAA-ATTAA-TA-TTTAAT
** *
27268030 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
27268049 ATTAAGA-TAAGTA-TTAA-
1 ATTAA-ATTAA-TATTTAAT
*
27268066 ATTAAATTTAATATTAAACT
1 ATTAAA-TTAATATTTAA-T
*
27268086 ATTAAAATAATATTT
1 ATTAAATTAATATTT
27268101 TTTTTGGAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 24
0.69 0.08 0.24
Matches are distributed among these distances:
16 1 0.01
17 15 0.21
18 9 0.13
19 22 0.31
20 23 0.33
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:27268087 original size:37 final size:36
Alignment explanation
Indices: 27267993--27268099 Score: 105
Period size: 37 Copynumber: 2.9 Consensus size: 36
27267983 CAAGATAAAC
*
27267993 ATTAAATTAA-ATTTAA-TATTAAGATAATTACTTTAAT
1 ATTAAATTAATATTAAACTATTAAGATAA-TA--TTAAT
*
27268030 ATTAAATTAATA-AAATACTATTAAGATAAGTATTAA-
1 ATTAAATTAATATTAA-ACTATTAAGATAA-TATTAAT
*
27268066 ATTAAATTTAATATTAAACTATTAAAATAATATT
1 ATTAAA-TTAATATTAAACTATTAAGATAATATT
27268100 TTTTTTGGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
36 10 0.17
37 33 0.55
38 4 0.07
39 13 0.22
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (36 bp):
ATTAAATTAATATTAAACTATTAAGATAATATTAAT
Found at i:27268499 original size:19 final size:19
Alignment explanation
Indices: 27268479--27268525 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
27268469 TCATACTAAT
*
27268479 TTTAA-TTTATTTGATTAA
1 TTTAATTTTACTTGATTAA
27268497 TTTAATTTTACTTGATTAAA
1 TTTAATTTTACTTGATT-AA
*
27268517 ATTAATTTT
1 TTTAATTTT
27268526 TTTCAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.20
19 10 0.40
20 10 0.40
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTAATTTTACTTGATTAA
Found at i:27279599 original size:32 final size:32
Alignment explanation
Indices: 27279539--27279599 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
27279529 TTCCATGAGA
** *
27279539 ATTAGGAGCTAATTTATTCTATCCTAAAATAC
1 ATTAGGAGCTAAACTATTCTAACCTAAAATAC
27279571 ATTAGGAG-TAAACTATTCTAACCTTAAAA
1 ATTAGGAGCTAAACTATTCTAACC-TAAAA
27279600 AAATAGTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 12 0.48
32 13 0.52
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (32 bp):
ATTAGGAGCTAAACTATTCTAACCTAAAATAC
Found at i:27290647 original size:235 final size:235
Alignment explanation
Indices: 27290236--27290688 Score: 843
Period size: 235 Copynumber: 1.9 Consensus size: 235
27290226 TTGTTAGTTT
*
27290236 CACCACTTTCTTATTGGTGCCTTGAGCCAATTTGACCCTAGAACAGTTGTGAAAAATATTGTTGA
1 CACCACTTTCTTATTGGTGCCTTGAGCCAATTTGACCCTAGAACAGTTGTAAAAAATATTGTTGA
* * * *
27290301 GGTAGAGTTGTTGGAAAAGAGATGTTAGCTTGAAAATATCTTAAATAACTAAGAATACTTGTTGT
66 GGTAGAGCTATTGGAAAAGAGATGTTAGATTGAAAATATCTTAAATAACGAAGAATACTTGTTGT
27290366 CTTCTCAAGTATTTTATGAAGACATTCAGTTGTCAATGCAACTCTTTGTCAATACTTTAAGTTTC
131 CTTCTCAAGTATTTTATGAAGACATTCAGTTGTCAATGCAACTCTTTGTCAATACTTTAAGTTTC
27290431 TGCCTTTAACCTTTAGAGACTTTCCTGCTACCTTCTTAGA
196 TGCCTTTAACCTTTAGAGACTTTCCTGCTACCTTCTTAGA
*
27290471 CACCACTTTCTTATTGGTGCCTTGAGCCAATTTGACCCTAGAACAGTTGTAAAAAATGTTGTTGA
1 CACCACTTTCTTATTGGTGCCTTGAGCCAATTTGACCCTAGAACAGTTGTAAAAAATATTGTTGA
*
27290536 GGTAGAGCTATTGGAAAAGAGCTGTTAGATTGAAAATATCTTAAATAACGAAGAATACTTGTTGT
66 GGTAGAGCTATTGGAAAAGAGATGTTAGATTGAAAATATCTTAAATAACGAAGAATACTTGTTGT
27290601 CTTCTCAAGTATTTTATGAAGACATTCAGTTGTCAATGCAACTCTTTGTCAATACTTTAAGTTTC
131 CTTCTCAAGTATTTTATGAAGACATTCAGTTGTCAATGCAACTCTTTGTCAATACTTTAAGTTTC
27290666 TGCCTTTAACCTTTAGAGACTTT
196 TGCCTTTAACCTTTAGAGACTTT
27290689 TTTTGGTTTA
Statistics
Matches: 211, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
235 211 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (235 bp):
CACCACTTTCTTATTGGTGCCTTGAGCCAATTTGACCCTAGAACAGTTGTAAAAAATATTGTTGA
GGTAGAGCTATTGGAAAAGAGATGTTAGATTGAAAATATCTTAAATAACGAAGAATACTTGTTGT
CTTCTCAAGTATTTTATGAAGACATTCAGTTGTCAATGCAACTCTTTGTCAATACTTTAAGTTTC
TGCCTTTAACCTTTAGAGACTTTCCTGCTACCTTCTTAGA
Found at i:27290964 original size:285 final size:286
Alignment explanation
Indices: 27290454--27291041 Score: 1088
Period size: 285 Copynumber: 2.1 Consensus size: 286
27290444 TAGAGACTTT
27290454 CCTGCTACCTTCTTAGACACCACTTTCTTATTGGTGCCTTGAGCCAATTTGACCCTAGAACAGTT
1 CCTGCTACCTTCTTAGACACCACTTTCTTATTGGTGCCTTGAGCCAATTTGACCCTAGAACAGTT
*
27290519 GTAAAAAATGTTGTTGAGGTAGAGCTATTGGAAAAGAGCTGTTAGATTGAAAATATCTTAAATAA
66 GTAAAAAATGTTGTTGAGGTAGAGCTATTGGAAAAGAGATGTTAGATTGAAAATATCTTAAATAA
27290584 CGAAGAATACTTGTTGTCTTCTCAAGTATTTTATGAAGACATTCAGTTGTCAATGCAACTCTTTG
131 CGAAGAATACTTGTTGTCTTCTCAAGTATTTTATGAAGACATTCAGTTGTCAATGCAACTCTTTG
* **
27290649 TCAATACTTTAAGTTTCTGCCTTTAACCTTTAGAGACTTTTTTTGGTTTATATAGAAACTGCAGT
196 TCAATACTTTAAGTTTCTGCCTTTAACCTTTAGAGACTTTTGTTGGTTTATATAGAAACTAAAGT
*
27290714 TATTTTTTCA-AAGACCTTGTTCGGC
261 TATTTTTTCACAAAACCTTGTTCGGC
*
27290739 CCTGCTACCTTCTTAGACTCCACTTTCTTATTGGTGCCTTGAGCCAATTTGACCCTAGAACAGTT
1 CCTGCTACCTTCTTAGACACCACTTTCTTATTGGTGCCTTGAGCCAATTTGACCCTAGAACAGTT
*
27290804 GTAAAAAATGTTGTTGAGGTAGAGCTGTTGGAAAAGAGATGTTAGATTGAAAATATCTTAAATAA
66 GTAAAAAATGTTGTTGAGGTAGAGCTATTGGAAAAGAGATGTTAGATTGAAAATATCTTAAATAA
*
27290869 CTAAGAATACTTGTTGTCTTCTCAAGTATTTTATGAAGACATTCAGTTGTCAATGCAACTCTTTG
131 CGAAGAATACTTGTTGTCTTCTCAAGTATTTTATGAAGACATTCAGTTGTCAATGCAACTCTTTG
27290934 TCAATACTTTAAGTTTCTGCCTTTAACCTTTAGAGACTTTTGTTGGTTTATATAGAAACTAAAGT
196 TCAATACTTTAAGTTTCTGCCTTTAACCTTTAGAGACTTTTGTTGGTTTATATAGAAACTAAAGT
*
27290999 TATTTTTTCACAAAACCTTGTTCGGT
261 TATTTTTTCACAAAACCTTGTTCGGC
27291025 CCTGCTACCTTCTTAGA
1 CCTGCTACCTTCTTAGA
27291042 ACAAAGAAGC
Statistics
Matches: 293, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
285 263 0.90
286 30 0.10
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (286 bp):
CCTGCTACCTTCTTAGACACCACTTTCTTATTGGTGCCTTGAGCCAATTTGACCCTAGAACAGTT
GTAAAAAATGTTGTTGAGGTAGAGCTATTGGAAAAGAGATGTTAGATTGAAAATATCTTAAATAA
CGAAGAATACTTGTTGTCTTCTCAAGTATTTTATGAAGACATTCAGTTGTCAATGCAACTCTTTG
TCAATACTTTAAGTTTCTGCCTTTAACCTTTAGAGACTTTTGTTGGTTTATATAGAAACTAAAGT
TATTTTTTCACAAAACCTTGTTCGGC
Found at i:27293015 original size:3 final size:3
Alignment explanation
Indices: 27293007--27293051 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
27292997 TATGGAACAA
27293007 AAT 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 AAT
27293052 GGAGATTCTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27299491 original size:3 final size:3
Alignment explanation
Indices: 27299483--27299526 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
27299473 ATTCAAAGGC
27299483 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
27299527 AGCTTTAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:27304352 original size:21 final size:21
Alignment explanation
Indices: 27304328--27304372 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
27304318 GACATGGTCA
**
27304328 TGTGGCTACTCCACATGCCCG
1 TGTGGCTACTCCACACACCCG
* *
27304349 TGTGGTTACTTCACACACCCG
1 TGTGGCTACTCCACACACCCG
27304370 TGT
1 TGT
27304373 ACGCAGATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.33, G:0.22, T:0.29
Consensus pattern (21 bp):
TGTGGCTACTCCACACACCCG
Found at i:27314185 original size:26 final size:26
Alignment explanation
Indices: 27314149--27314201 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
27314139 TTGGATAAAA
27314149 AGGGGTCGCTAAGTGCAGATTCCCCG
1 AGGGGTCGCTAAGTGCAGATTCCCCG
* **
27314175 AGGGGTTGCTAAGTGTTGATTCCCCG
1 AGGGGTCGCTAAGTGCAGATTCCCCG
27314201 A
1 A
27314202 ATTATTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.23, G:0.34, T:0.25
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCAGATTCCCCG
Found at i:27314230 original size:42 final size:42
Alignment explanation
Indices: 27314178--27314399 Score: 179
Period size: 43 Copynumber: 5.3 Consensus size: 42
27314168 TTCCCCGAGG
* * *
27314178 GGTTGCTAAGTGTTGATTCCCCGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTATAAAGGT
* *
27314220 GGTTTCTAAGTGCTGATTCCACCGTA-TATTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATTA-TTGATTAT-AAAGGT
* * * * *
27314263 GGTTGCTATGTGTTGATTCCCCGTATCACTGA-AATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTATAAAGGT
* *
27314304 GGTTGCTAAGTGCTGATTCCATCGTATCT-TTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTAT-TATTGATTAT-AAAGGT
* * * * *
27314347 GGTTGGTATGTGCTGATTCCCTGTATCACTGAATT-T-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTG-ATTATAAAGGT
27314388 GGTTGCTAAGTG
1 GGTTGCTAAGTG
27314400 TTGAATCCAC
Statistics
Matches: 142, Mismatches: 26, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
40 9 0.06
41 29 0.20
42 43 0.30
43 51 0.36
44 10 0.07
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTATAAAGGT
Found at i:27314322 original size:84 final size:84
Alignment explanation
Indices: 27314175--27314410 Score: 319
Period size: 84 Copynumber: 2.8 Consensus size: 84
27314165 AGATTCCCCG
* * * * ** *
27314175 AGGGGTTGCTAAGTGTTGATTCCCCGAATTATTGATTCTAAAGGTGGTTTCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGTTGATTCCCCGTATCACTGA-AATAAAGGTGGTTGCTAAGTGCTGATTCC
27314240 ACCGTATATTTGATTGTGAA
65 ACCGTATATTTGATTGTGAA
27314260 AGGGGTTGCTATGTGTTGATTCCCCGTATCACTGAAATAAAGGTGGTTGCTAAGTGCTGATTCCA
1 AGGGGTTGCTATGTGTTGATTCCCCGTATCACTGAAATAAAGGTGGTTGCTAAGTGCTGATTCCA
* *
27314325 TCGTATCTTTGATTGTGAA
66 CCGTATATTTGATTGTGAA
* * * * * * *
27314344 AGGGGTTGGTATGTGCTGATTCCCTGTATCACTGAATTTAAGGTGGTTGCTAAGTGTTGAATCCA
1 AGGGGTTGCTATGTGTTGATTCCCCGTATCACTGAAATAAAGGTGGTTGCTAAGTGCTGATTCCA
27314409 CC
66 CC
27314411 AAGTAACGGA
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 103 0.77
85 31 0.23
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.36
Consensus pattern (84 bp):
AGGGGTTGCTATGTGTTGATTCCCCGTATCACTGAAATAAAGGTGGTTGCTAAGTGCTGATTCCA
CCGTATATTTGATTGTGAA
Found at i:27316471 original size:138 final size:138
Alignment explanation
Indices: 27316225--27316960 Score: 1004
Period size: 138 Copynumber: 5.4 Consensus size: 138
27316215 GGGGTGTTAC
*
27316225 ATATTAATTAATTTTGGTCAAAATAT--AAGACAT-GAAAGTTAATATTCTTTTGGAAAGAATAT
1 ATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAA-TTAATATTCTTTTGGAAAGAATAT
* *
27316287 AATTAATATATGAATTTGATTCATATAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
65 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
27316352 TAAACAATT
130 TAAACAATT
* * *
27316361 ATATTAAGTAA-TTCTAGTCACAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATAT
1 ATATTAATTAATTTC-GGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATAT
* *
27316425 AATTAATATATGAATTTTATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATAAATA
65 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
27316490 TAAACAATT
130 TAAACAATT
* ** * * * *
27316499 ATACTAATTAATTTCGGTTGAAATATAAAATACATGAAAATTAATATTCTTTCGAAAAGAATATA
1 ATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATA
27316564 ATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATAT
66 ATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATAT
* *
27316629 AAATAGTT
131 AAACAATT
* * *
27316637 ATATTAATTAATTCCGGTCAAAATATAAAAGACATGGAAGTTAATGTTCTTTTGGAAAGAATATA
1 ATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATA
* *
27316702 ATTAATATATGAATTTGATTCATTCAAAATATTAATTGTATATATTTTAACGAATTTATTAATAT
66 ATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATAT
27316767 AAACAATT
131 AAACAATT
* * *
27316775 ATATTAATTATTTTCAGTCAAAATATAAAAGACATGGAAATTAGTATTCTTTTGGAAAG-A-AT-
1 ATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATA
** ** * *
27316837 A-T-A-AT-T-CCTTT--TTC-T--AACTTATTAATTGT-TATATTTTATCAAATTTATTAATAT
66 ATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATAT
*
27316891 AAACAGTT
131 AAACAATT
* * * *
27316899 ATATTAATTCATTTCGGTTAAAATATAAAAGACTTGGAAATTAATATTCTTTTGGAAGGAAT
1 ATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAAT
27316961 GTAACGACCC
Statistics
Matches: 537, Mismatches: 56, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
124 82 0.15
125 13 0.02
127 1 0.00
128 3 0.01
130 3 0.01
131 1 0.00
132 2 0.00
133 1 0.00
134 1 0.00
135 3 0.01
136 21 0.04
137 1 0.00
138 398 0.74
139 7 0.01
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (138 bp):
ATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATA
ATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATAT
AAACAATT
Found at i:27316893 original size:124 final size:125
Alignment explanation
Indices: 27316731--27316960 Score: 365
Period size: 124 Copynumber: 1.8 Consensus size: 125
27316721 TCATTCAAAA
*
27316731 TATTAATTGTATATATTTTAACGAATTTATTAATATAAACAATTATATTAATT-ATTTTCAGTCA
1 TATTAATTGTATATATTTTAACAAATTTATTAATATAAACAATTATATTAATTCA-TTTCAGTCA
*
27316795 AAATATAAAAGACATGGAAATTAGTATTCTTTTGGAAAGAATATAATTCCTTTTTCTAACT
65 AAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTCCTTTTTCTAACT
* * * *
27316856 TATTAATTGT-TATATTTTATCAAATTTATTAATATAAACAGTTATATTAATTCATTTCGGTTAA
1 TATTAATTGTATATATTTTAACAAATTTATTAATATAAACAATTATATTAATTCATTTCAGTCAA
* *
27316920 AATATAAAAGACTTGGAAATTAATATTCTTTTGGAAGGAAT
66 AATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAAT
27316961 GTAACGACCC
Statistics
Matches: 96, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
124 85 0.89
125 11 0.11
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.43
Consensus pattern (125 bp):
TATTAATTGTATATATTTTAACAAATTTATTAATATAAACAATTATATTAATTCATTTCAGTCAA
AATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTCCTTTTTCTAACT
Found at i:27319547 original size:18 final size:18
Alignment explanation
Indices: 27319521--27319565 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
27319511 GCAATAAGAA
27319521 AATGTTTTG-AAATTGAAT
1 AATGTTTTGTAAA-TGAAT
*
27319539 AATGATTTGTAAATGAAT
1 AATGTTTTGTAAATGAAT
27319557 AATGTTTTG
1 AATGTTTTG
27319566 GAAACGAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (18 bp):
AATGTTTTGTAAATGAAT
Found at i:27319926 original size:25 final size:25
Alignment explanation
Indices: 27319898--27319962 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
27319888 CTGTCTTTGA
* *
27319898 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
* *
27319923 TAGTATATACTGAGACTACTATAGA
1 TAGTATATACTGAAACTACTATAGG
27319948 TAG-ACTATACTGAAA
1 TAGTA-TATACTGAAA
27319963 ACACTTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:27324467 original size:3 final size:3
Alignment explanation
Indices: 27324459--27324487 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
27324449 GTGAGGATCC
27324459 AGA AGA AGA AGA AGA AGA AGA AGA A-A AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
27324488 TCCCAGAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:27326068 original size:19 final size:21
Alignment explanation
Indices: 27325966--27326062 Score: 162
Period size: 21 Copynumber: 4.7 Consensus size: 21
27325956 ATTTTCGAGG
*
27325966 ATATACAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
27325985 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
27326006 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
27326027 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
27326048 ATATACAATCTTAGA
1 ATATGCAATCTTAGA
27326063 AGATATGATT
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
19 18 0.24
21 56 0.76
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:27326098 original size:21 final size:23
Alignment explanation
Indices: 27326054--27326098 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
27326044 TGATATATAC
*
27326054 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
27326077 AATCTTA-AAGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
27326098 A
1 A
27326099 GATACCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:27326285 original size:19 final size:21
Alignment explanation
Indices: 27326261--27326299 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
27326251 CTGTTTTCTT
*
27326261 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
27326280 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
27326300 TTAAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:27326917 original size:51 final size:52
Alignment explanation
Indices: 27326807--27326918 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 52
27326797 TTCCACGTTT
**
27326807 TATAT-TATACTTATATATTTCATTTTTTTGTAAATGCATGAATATATTTTA
1 TATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATATTTTA
* * * * *
27326858 TATGTATATATTTATAT-TTTCCTTGTTTTCATAAATGCAT-TATGTATTTTA
1 TATATATATACTTATATATTTCATT-TTTTCATAAATGCATGAATATATTTTA
27326909 TATATATATA
1 TATATATATA
27326919 AGTTTTATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
51 28 0.55
52 23 0.45
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (52 bp):
TATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATATTTTA
Found at i:27344699 original size:75 final size:75
Alignment explanation
Indices: 27344611--27344755 Score: 290
Period size: 75 Copynumber: 1.9 Consensus size: 75
27344601 ATGATGTTTG
27344611 TCGAAACCATTTTTTGAAAAACAAAATTTTTAGGTTGTCGACTTTAAAAAATGAAAATTGGGAGT
1 TCGAAACCATTTTTTGAAAAACAAAATTTTTAGGTTGTCGACTTTAAAAAATGAAAATTGGGAGT
27344676 CGCCAAGCTA
66 CGCCAAGCTA
27344686 TCGAAACCATTTTTTGAAAAACAAAATTTTTAGGTTGTCGACTTTAAAAAATGAAAATTGGGAGT
1 TCGAAACCATTTTTTGAAAAACAAAATTTTTAGGTTGTCGACTTTAAAAAATGAAAATTGGGAGT
27344751 CGCCA
66 CGCCA
27344756 CCAATCTTTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (75 bp):
TCGAAACCATTTTTTGAAAAACAAAATTTTTAGGTTGTCGACTTTAAAAAATGAAAATTGGGAGT
CGCCAAGCTA
Found at i:27349582 original size:50 final size:49
Alignment explanation
Indices: 27349473--27349650 Score: 184
Period size: 49 Copynumber: 3.6 Consensus size: 49
27349463 TTATGAAAGG
* * **
27349473 TCCCATGTAAGACCATGTCTGGGACAT-GCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGC-ATGGCACCGATATGAGAAC
**
27349522 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGCCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGG-CACCGATATGAGAAC
* * * **
27349572 TCCCATGTAAGACCATATCTAGGATATGGCATTGGCA--G-TACAAGAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCA-TGGCACCGATATGAG-AAC
27349620 ATCCCATGTAAGACCATGTCTGGGACATGGC
1 -TCCCATGTAAGACCATGTCTGGGACATGGC
27349651 TTTGGCATGT
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
47 4 0.04
48 4 0.04
49 55 0.51
50 42 0.39
51 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGCACCGATATGAGAAC
Found at i:27355119 original size:2 final size:2
Alignment explanation
Indices: 27355114--27355170 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
27355104 ATGTATATGT
*
27355114 AC AC AC AC GC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
**
27355156 AC GT AC AC AC AC AC A
1 AC AC AC AC AC AC AC A
27355171 TGTATATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.47, C:0.47, G:0.04, T:0.02
Consensus pattern (2 bp):
AC
Found at i:27358178 original size:202 final size:202
Alignment explanation
Indices: 27357822--27358194 Score: 611
Period size: 202 Copynumber: 1.8 Consensus size: 202
27357812 ACCATGTCGA
* * * *
27357822 CACCTGTACGAGGGGATTTCCAGCTTGTCCGTGCTTCATTGGCTAGGAATGAAATGTCCACTCTA
1 CACCAGTACAAGGGGATTTCCAGCGTGTCCGTGCTTCATAGGCTAGGAATGAAATGTCCACTCTA
**
27357887 TAGTTTAATGGTTTGGATGATGTAGAGATGATATTTGATTTGTAACTCATATTATTATTGCAATG
66 TAGAGTAATGGTTTGGATGATGTAGAGATGATATTTGATTTGTAACTCATATTATTATTGCAATG
*
27357952 AATTGTTTGATGAGCTAGCATTAGCAAATTGAACAACAAATCTGACATCTCCATTGTCGGACAAC
131 AATTATTTGATGAGCTAGCATTAGCAAATTGAACAACAAATCTGACATCTCCATTGTCGGACAAC
27358017 GTGTTGG
196 GTGTTGG
** * * * *
27358024 CACCAGTACAAGGGGATTTCTGGCGTGTCCGTTCTTCATAGGTTAGGAATGAAGTGTCCTCTCTA
1 CACCAGTACAAGGGGATTTCCAGCGTGTCCGTGCTTCATAGGCTAGGAATGAAATGTCCACTCTA
27358089 TAGAGTAATGGTTTGGATGATGTAGAGATGATATTTGATTTGTAACTCATATTATTATTGCAATG
66 TAGAGTAATGGTTTGGATGATGTAGAGATGATATTTGATTTGTAACTCATATTATTATTGCAATG
* *
27358154 TATTATTTGATGAGCTAGCATTAGCAAATTGAGCAACAAAT
131 AATTATTTGATGAGCTAGCATTAGCAAATTGAACAACAAAT
27358195 TTGATAACAT
Statistics
Matches: 156, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
202 156 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (202 bp):
CACCAGTACAAGGGGATTTCCAGCGTGTCCGTGCTTCATAGGCTAGGAATGAAATGTCCACTCTA
TAGAGTAATGGTTTGGATGATGTAGAGATGATATTTGATTTGTAACTCATATTATTATTGCAATG
AATTATTTGATGAGCTAGCATTAGCAAATTGAACAACAAATCTGACATCTCCATTGTCGGACAAC
GTGTTGG
Found at i:27360405 original size:34 final size:34
Alignment explanation
Indices: 27360362--27360428 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
27360352 TCATGGGCGT
27360362 TTACTAAAACCATATTCTTTGCT-AGCTTTTTTCC
1 TTACTAAAACCATATTCTTTGCTCA-CTTTTTTCC
27360396 TTACTAAAACCATATTCTTTGCTCACTTTTTTC
1 TTACTAAAACCATATTCTTTGCTCACTTTTTTC
27360429 ACAGGAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.48
Consensus pattern (34 bp):
TTACTAAAACCATATTCTTTGCTCACTTTTTTCC
Found at i:27364318 original size:43 final size:43
Alignment explanation
Indices: 27364124--27364342 Score: 267
Period size: 43 Copynumber: 5.1 Consensus size: 43
27364114 TTTTAGAAAT
* * *
27364124 AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCACAC
1 AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTTTCCCAC
* *
27364167 AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTTTCCCAC
* * **
27364210 AAACGCCACTAAAGATTATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTTTCCCAC
* * * *
27364253 AAACGTCGCTAAAGATCATGACTTTTAGCAGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTTTCCCAC
** * * * *
27364296 AAACGCCGCTATAGGCCGTGACTTTTTGTGGCACTTTTCCCAC
1 AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTTTCCCAC
27364339 AAAC
1 AAAC
27364343 ACCGTTAAAA
Statistics
Matches: 156, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 156 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTTTCCCAC
Found at i:27364684 original size:43 final size:43
Alignment explanation
Indices: 27364618--27364704 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
27364608 ACATATGCAA
* *
27364618 GGTAATAAAACATACAATGCATTT-TCTTAATCAAGTAAATCTT
1 GGTAATAAAACATACAATACATTTAT-TTAATCAAGGAAATCTT
* *
27364661 GGTAATAAAAGATATAATACATTTATTTAATCAAGGAAATCTT
1 GGTAATAAAACATACAATACATTTATTTAATCAAGGAAATCTT
27364704 G
1 G
27364705 TACATCATTG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 38 0.97
44 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.34
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTATTTAATCAAGGAAATCTT
Found at i:27367415 original size:21 final size:21
Alignment explanation
Indices: 27367391--27367433 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
27367381 GTTTCGCTGT
*
27367391 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
27367412 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
27367433 A
1 A
27367434 ATAGAGGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:27367492 original size:45 final size:43
Alignment explanation
Indices: 27367425--27367519 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 43
27367415 GGATTAGAGG
*
27367425 TGTAATGGAATAGAGGTATAATAGCAAATTAAC-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCATAATAG-AAA--AACGTGTTTGGTTGAA
* *
27367470 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCATAATAGAAAAAC-GTGTTTGGTTGAA
27367514 TGTAAT
1 TGTAAT
27367520 AGAGATGTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
42 3 0.07
44 20 0.44
45 22 0.49
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTAATGGAATAGAGGCATAATAGAAAAACGTGTTTGGTTGAA
Found at i:27367701 original size:18 final size:17
Alignment explanation
Indices: 27367680--27367714 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27367670 TTATTATTTA
*
27367680 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
27367698 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27367715 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27367708 original size:28 final size:27
Alignment explanation
Indices: 27367638--27367710 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
27367628 TTTATTATCA
*
27367638 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
27367666 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
27367693 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
27367711 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:27367808 original size:144 final size:147
Alignment explanation
Indices: 27367599--27367870 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
27367589 ATGATTATTG
27367599 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
27367664 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
27367729 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
27367748 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
27367810 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
27367871 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Done.