Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 55 of 196
Found at i:15390191 original size:56 final size:51
Alignment explanation
Indices: 15390102--15390340 Score: 202
Period size: 50 Copynumber: 4.7 Consensus size: 51
15390092 TAAAGAGATC
* *
15390102 CCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGT-T
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCT
* *
15390158 CCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
* * * **
15390209 CC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTC-
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
* * * * * * * **
15390258 CCATGTAAGACCATATCTGGGATATGACATTGGTA--GTACAGGAAACATC-
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTCT
*
15390307 CCATGTAAGACCATGTCTGGGACATGGCTTTGGC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGC
15390341 TTGTTATTAT
Statistics
Matches: 153, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 38 0.25
50 75 0.49
51 3 0.02
53 3 0.02
55 1 0.01
56 32 0.21
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (51 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
Found at i:15414126 original size:41 final size:40
Alignment explanation
Indices: 15414080--15414213 Score: 187
Period size: 40 Copynumber: 3.3 Consensus size: 40
15414070 AGCGGCACTT
* *
15414080 TTAGCGGCGTTTGGAGCAAAAGCGCCGCTAAAGAGTGAACA
1 TTAGCGGCGTTT-AAGCAAAAGCGCCGCTAAAGAGTGAGCA
* **
15414121 ATAGCGGCGTTTAATTAAAAGCGCCGCTAAAGAGTGAGCA
1 TTAGCGGCGTTTAAGCAAAAGCGCCGCTAAAGAGTGAGCA
* *
15414161 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCA
1 TTAGCGGCGTTTAAGCAAAAGCGCCGCTAAAGAGTGAGCA
*
15414201 TTAGTGGCGTTTA
1 TTAGCGGCGTTTA
15414214 TAGATAACGC
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 73 0.87
41 11 0.13
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (40 bp):
TTAGCGGCGTTTAAGCAAAAGCGCCGCTAAAGAGTGAGCA
Found at i:15414147 original size:40 final size:40
Alignment explanation
Indices: 15414097--15414213 Score: 189
Period size: 40 Copynumber: 2.9 Consensus size: 40
15414087 CGTTTGGAGC
* * * **
15414097 AAAAGCGCCGCTAAAGAGTGAACAATAGCGGCGTTTAATT
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
15414137 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
15414177 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTA
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTA
15414214 TAGATAACGC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (40 bp):
AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
Found at i:15414602 original size:113 final size:112
Alignment explanation
Indices: 15414161--15414752 Score: 934
Period size: 112 Copynumber: 5.3 Consensus size: 112
15414151 AGAGTGAGCA
** * *
15414161 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
15414226 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT--GGGGGGGAC
* *
15414275 TTAGTGGCGTTTATTGTAAAGAGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
15414340 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
* *
15414387 TTAGTGGCATTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
15414452 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
** * *
15414499 TTAGTGGCGTTTATTGCGAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAAAAAATGCC
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAT-AAATAACGCC
* *
15414564 GCAAATAATACTCCCAGACGGTGCCGTTTTGTGTCCTTTGGGGGGGAC
65 GCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
* ** * * *
15414612 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGCTTATAAAAAATGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
* * *
15414677 CAAATAATACTCCCAGACGGTGCCGTTTTGTGTCCTTTGGGGGGCA-
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
*
15414723 TTAGTGGCGTTTTTTGTAAAGCGCCGCTAA
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAA
15414753 TCTAGGTGTT
Statistics
Matches: 453, Mismatches: 24, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
111 29 0.06
112 223 0.49
113 102 0.23
114 99 0.22
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (112 bp):
TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
Found at i:15414647 original size:225 final size:224
Alignment explanation
Indices: 15414161--15414752 Score: 943
Period size: 225 Copynumber: 2.6 Consensus size: 224
15414151 AGAGTGAGCA
** * * *
15414161 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCG
15414226 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGGGACTTAGTGGCGTTTATTG
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT--GGGGGGGACTTAGTGGCGTTTATTG
* * *
15414291 TAAAGAGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAG
129 TAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAAAAACGCCGCAAATAATACACCCAG
15414356 ACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
194 ACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
*
15414387 TTAGTGGCATTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCG
**
15414452 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGCG
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGTA
* *
15414517 AAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAAAAAATGCCGCAAATAATACTCCCAGA
131 AAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAT-AAAAAACGCCGCAAATAATACACCCAGA
*
15414582 CGGTGCCGTTTTGTGTCCTTTGGGGGGGAC
195 CGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
* * * * *
15414612 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGCTTATAAAAAATGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCG
* * * *
15414677 CAAATAATACTCCCAGACGGTGCCGTTTTGTGTCCTTTGGGGGGCA-TTAGTGGCGTTTTTTGTA
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGTA
15414741 AAGCGCCGCTAA
131 AAGCGCCGCTAA
15414753 TCTAGGTGTT
Statistics
Matches: 339, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
224 87 0.26
225 155 0.46
226 97 0.29
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (224 bp):
TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCG
CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGTA
AAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAAAAACGCCGCAAATAATACACCCAGAC
GGTGCCGTTTTGTGGCCTTTGGGGGGGAC
Found at i:15415382 original size:12 final size:12
Alignment explanation
Indices: 15415365--15415390 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15415355 ATATATAACT
15415365 GTAAAAGAGGTC
1 GTAAAAGAGGTC
15415377 GTAAAAGAGGTC
1 GTAAAAGAGGTC
15415389 GT
1 GT
15415391 GCTATTTTAA
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:0.38, C:0.08, G:0.35, T:0.19
Consensus pattern (12 bp):
GTAAAAGAGGTC
Found at i:15415865 original size:84 final size:83
Alignment explanation
Indices: 15415776--15415976 Score: 330
Period size: 84 Copynumber: 2.4 Consensus size: 83
15415766 TAGTTAAACT
* *
15415776 TTTAGTGGCGTTTTTAAGAAAATGCCACAAATAATGCAATTCCAGACCACGAAAACGGTGTCGTT
1 TTTAGTGGCGTTTTTAA-AAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
15415841 TCTGTTCACAGCTGTAATA
65 TCTGTTCACAGCTGTAATA
* *
15415860 TTTAGTGGCGTTTTTCTAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTTGTT
1 TTTAGTGGCGTTTTT-AAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
15415925 TCTGTTCACAGCTGTAATA
65 TCTGTTCACAGCTGTAATA
15415944 TTTAGTGGCGTTTTTACCAAAAACGCCACAAAA
1 TTTAGTGGCGTTTTTA--AAAAACGCCACAAAA
15415977 CGGTGTTAAT
Statistics
Matches: 109, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
84 93 0.85
85 16 0.15
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (83 bp):
TTTAGTGGCGTTTTTAAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTT
CTGTTCACAGCTGTAATA
Found at i:15416995 original size:11 final size:11
Alignment explanation
Indices: 15416958--15416997 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
15416948 GAATATCTCA
15416958 AACT-ATGGGT
1 AACTAATGGGT
*
15416968 AACTAGTGGGT
1 AACTAATGGGT
15416979 AACTAATGGGT
1 AACTAATGGGT
15416990 AACTAATG
1 AACTAATG
15416998 TATTATCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 4 0.15
11 23 0.85
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:15418361 original size:17 final size:17
Alignment explanation
Indices: 15418339--15418439 Score: 114
Period size: 17 Copynumber: 5.6 Consensus size: 17
15418329 GTTAAATTTA
15418339 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
15418356 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
*
15418373 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
15418396 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
15418413 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
15418430 TTACTAAAAT
1 TTACTAAAAT
15418440 TTGTTTACTA
Statistics
Matches: 74, Mismatches: 2, Indels: 16
0.80 0.02 0.17
Matches are distributed among these distances:
16 3 0.04
17 55 0.74
23 13 0.18
24 3 0.04
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.40
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:15418418 original size:57 final size:57
Alignment explanation
Indices: 15418330--15418446 Score: 225
Period size: 57 Copynumber: 2.1 Consensus size: 57
15418320 CGATTGAATG
15418330 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
*
15418387 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACTAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
15418444 TTA
1 TTA
15418447 CTAAATTACT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
Found at i:15418603 original size:21 final size:21
Alignment explanation
Indices: 15418577--15418647 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
15418567 CTACAACTTA
* *
15418577 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
15418598 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
15418619 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
15418640 AAGCAGAG
1 AAGCAGAG
15418648 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:15419022 original size:41 final size:42
Alignment explanation
Indices: 15418969--15419301 Score: 191
Period size: 42 Copynumber: 7.9 Consensus size: 42
15418959 GTTTTTGTAT
* * *
15418969 AAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTG-TA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
* *
15419010 AAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGAAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTG-AAA
* * ****
15419054 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * ****
15419096 TTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * * * * ****
15419138 CTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
* * ****
15419180 ACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * * ****
15419222 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * *
15419264 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTT
15419302 TTTTCTAAGC
Statistics
Matches: 255, Mismatches: 34, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
41 32 0.13
42 188 0.74
43 2 0.01
44 33 0.13
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (42 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
Found at i:15419072 original size:44 final size:41
Alignment explanation
Indices: 15418969--15419132 Score: 157
Period size: 44 Copynumber: 3.9 Consensus size: 41
15418959 GTTTTTGTAT
* * * *
15418969 AAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGTA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTAGAA
*
15419010 AAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGAAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTAG--AA
* * ****
15419054 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTAGAA
** * *
15419096 TTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTT
15419133 TTTTCCTAAG
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
41 34 0.33
42 34 0.33
44 35 0.34
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (41 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTAGAA
Found at i:15419123 original size:42 final size:42
Alignment explanation
Indices: 15419059--15419345 Score: 443
Period size: 42 Copynumber: 6.8 Consensus size: 42
15419049 GAAAAAAAAA
**
15419059 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTCCCTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-TAAG
* *
15419101 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* * * *
15419143 CGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CTAAG
*
15419185 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
15419227 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
15419269 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* *
15419311 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
15419346 GTTTGTAAAC
Statistics
Matches: 228, Mismatches: 14, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
41 1 0.00
42 220 0.96
43 7 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
Found at i:15424798 original size:23 final size:22
Alignment explanation
Indices: 15424757--15424830 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 22
15424747 GTGATCTTCA
15424757 ATGATATGTAATCC-T--AGAT
1 ATGATATGTAATCCTTAGAGAT
15424776 ATGATATGTAATCCTTAGAAGAT
1 ATGATATGTAATCCTTAG-AGAT
* *
15424799 ACGATTCTGTAAT-CTTAGAGAT
1 ATGA-TATGTAATCCTTAGAGAT
* *
15424821 TTGATTTGTA
1 ATGATATGTA
15424831 GATAGCTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
19 14 0.31
20 1 0.02
21 5 0.11
22 6 0.13
23 12 0.27
24 7 0.16
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (22 bp):
ATGATATGTAATCCTTAGAGAT
Found at i:15424826 original size:22 final size:23
Alignment explanation
Indices: 15424772--15424830 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
15424762 ATGTAATCCT
* *
15424772 AGATATGATATGTAATCCTTAGA
1 AGATACGATTTGTAATCCTTAGA
15424795 AGATACGATTCTGTAAT-CTTAG-
1 AGATACGATT-TGTAATCCTTAGA
**
15424817 AGATTTGATTTGTA
1 AGATACGATTTGTA
15424831 GATAGCTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 8 0.26
23 13 0.42
24 6 0.19
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (23 bp):
AGATACGATTTGTAATCCTTAGA
Found at i:15427814 original size:66 final size:66
Alignment explanation
Indices: 15427744--15427938 Score: 241
Period size: 66 Copynumber: 2.9 Consensus size: 66
15427734 TTACAACATA
15427744 TAGGGTTCACATATCTAACATATGGGGTTCGCATGCAATAGATAGGGTTCGA-ATGTAATAACAA
1 TAGGGTTCACATATCTAACATATGGGGTTCGCATGCAATAGATA-GGTTCGACATGTAATAACAA
15427808 TT
65 TT
* * * ** * *
15427810 TAGGGTTCACATATCTTACATATGGAGTTCGCATGCAATATATAGGTTTTACATGTAATAATAGT
1 TAGGGTTCACATATCTAACATATGGGGTTCGCATGCAATAGATAGGTTCGACATGTAATAACAAT
15427875 T
66 T
* * *
15427876 TAGGGTCTCACAAACCTAACATATGGGGTTCGCATGTAATAATGTATAGGTTC-ACATGTAATA
1 TAGGGT-TCACATATCTAACATATGGGGTTCGCATGCAAT-A-G-ATAGGTTCGACATGTAATA
15427939 CTCTAGAGGT
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
65 5 0.05
66 59 0.54
67 28 0.25
68 1 0.01
69 10 0.09
70 7 0.06
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (66 bp):
TAGGGTTCACATATCTAACATATGGGGTTCGCATGCAATAGATAGGTTCGACATGTAATAACAAT
T
Found at i:15427948 original size:22 final size:22
Alignment explanation
Indices: 15427902--15427959 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
15427892 TAACATATGG
* *
15427902 GGTTCGCATGTAATAATGTATA
1 GGTTCGCATGTAATAATCTAGA
* *
15427924 GGTTCACATGTAATACTCTAGA
1 GGTTCGCATGTAATAATCTAGA
*
15427946 GGTTTGCATGTAAT
1 GGTTCGCATGTAAT
15427960 TATAGTTTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.36
Consensus pattern (22 bp):
GGTTCGCATGTAATAATCTAGA
Found at i:15432442 original size:37 final size:37
Alignment explanation
Indices: 15432392--15432464 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
15432382 CACGAAAAAT
15432392 GTTTGGCTATTTTACTTTATTCCATTAGTTTAATTTG
1 GTTTGGCTATTTTACTTTATTCCATTAGTTTAATTTG
*
15432429 GTTTGGTTATTTTACTTTATTCCATTAGTTTAATTT
1 GTTTGGCTATTTTACTTTATTCCATTAGTTTAATTT
15432465 AACTTAGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.19, C:0.10, G:0.12, T:0.59
Consensus pattern (37 bp):
GTTTGGCTATTTTACTTTATTCCATTAGTTTAATTTG
Found at i:15432465 original size:18 final size:18
Alignment explanation
Indices: 15432402--15432465 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
15432392 GTTTGGCTAT
*
15432402 TTTACTTTATTCCATTAG
1 TTTAATTTATTCCATTAG
* *** *
15432420 TTTAATTTGGTTTGGTTAT
1 TTTAATTT-ATTCCATTAG
*
15432439 TTTACTTTATTCCATTAG
1 TTTAATTTATTCCATTAG
15432457 TTTAATTTA
1 TTTAATTTA
15432466 ACTTAGTTTA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
18 20 0.62
19 12 0.38
ACGTcount: A:0.22, C:0.09, G:0.09, T:0.59
Consensus pattern (18 bp):
TTTAATTTATTCCATTAG
Found at i:15432473 original size:15 final size:15
Alignment explanation
Indices: 15432453--15432481 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15432443 CTTTATTCCA
15432453 TTAGTTTAATTTAAC
1 TTAGTTTAATTTAAC
15432468 TTAGTTTAATTTAA
1 TTAGTTTAATTTAA
15432482 TTTCTACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (15 bp):
TTAGTTTAATTTAAC
Found at i:15438269 original size:17 final size:17
Alignment explanation
Indices: 15438247--15438292 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 17
15438237 CACTGGCTGC
15438247 CACATGGCCGTGTGCCA
1 CACATGGCCGTGTGCCA
*
15438264 CACATGGCC---T-CCT
1 CACATGGCCGTGTGCCA
15438277 CACATGGCCGTGTGCC
1 CACATGGCCGTGTGCC
15438293 TTATTGGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 8
0.73 0.03 0.24
Matches are distributed among these distances:
13 11 0.46
14 1 0.04
16 1 0.04
17 11 0.46
ACGTcount: A:0.15, C:0.39, G:0.26, T:0.20
Consensus pattern (17 bp):
CACATGGCCGTGTGCCA
Found at i:15438565 original size:19 final size:21
Alignment explanation
Indices: 15438517--15438591 Score: 71
Period size: 21 Copynumber: 3.4 Consensus size: 21
15438507 AGCCCAACCC
*
15438517 ATAT-TAAATATATATATTTA
1 ATATATAAAAATATATATTTA
15438537 ATATATAAAAATATATATTTGATTAA
1 ATATATAAAAATATATA--T--TT-A
* *
15438563 AAATAAAAAAATATATATTTA
1 ATATATAAAAATATATATTTA
15438584 ATATATAA
1 ATATATAA
15438592 TCGGGCCGGG
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
20 4 0.09
21 18 0.41
22 2 0.05
23 1 0.02
24 1 0.02
25 2 0.05
26 16 0.36
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (21 bp):
ATATATAAAAATATATATTTA
Found at i:15441457 original size:23 final size:20
Alignment explanation
Indices: 15441431--15441484 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 20
15441421 TTCTAAGTCG
15441431 ATATTCAATTCAATTCTACACCT
1 ATATTCAATTCAA-T-TACA-CT
15441454 ATATTCATTATTCAATTACACT
1 ATATTCA--ATTCAATTACACT
15441476 -TATTCAATT
1 ATATTCAATT
15441485 TCCCGATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.10
21 6 0.21
22 2 0.07
23 11 0.38
24 1 0.03
25 6 0.21
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATTCAATTCAATTACACT
Found at i:15441576 original size:45 final size:45
Alignment explanation
Indices: 15441521--15441612 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
15441511 CAGATACTTG
* *
15441521 GTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCA
1 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
* * *
15441566 GTGGAATCAGCACATAGCAACCAGCTTACTAATTAATGATGTTCA
1 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
15441611 GT
1 GT
15441613 TCACATAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
Found at i:15441683 original size:51 final size:51
Alignment explanation
Indices: 15441614--15441754 Score: 176
Period size: 51 Copynumber: 2.8 Consensus size: 51
15441604 ATGTTCAGTT
* * * * *
15441614 CACATAGTATCCTACACATAGTACTATACATGTGACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCGATA
* * *
15441665 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACCATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATAACCATCCGATA
**
15441716 CGTATAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
15441755 CACTTTCACT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
50 2 0.03
51 72 0.95
52 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCGATA
Found at i:15443906 original size:26 final size:27
Alignment explanation
Indices: 15443875--15443944 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
15443865 TCTCATCCCC
* *
15443875 ATTTTACCCCTAGTAAAA-TTTTGATA
1 ATTTTACCCCTAGTAAAATTTTTAACA
*
15443901 ATTTTACTCC-AGATAAAATTTTTAACA
1 ATTTTACCCCTAG-TAAAATTTTTAACA
*
15443928 ATTTTAGCCCTAGTAAA
1 ATTTTACCCCTAGTAAA
15443945 TTGTCGAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.06
26 14 0.39
27 18 0.50
28 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (27 bp):
ATTTTACCCCTAGTAAAATTTTTAACA
Found at i:15452274 original size:28 final size:27
Alignment explanation
Indices: 15452226--15452311 Score: 109
Period size: 28 Copynumber: 3.1 Consensus size: 27
15452216 CAGTAACAAA
*
15452226 ACAGAACAATGTGGGCTTTAGCCCAAT
1 ACAGAACAATGTGGGCCTTAGCCCAAT
* *
15452253 ACAGAAACAAGGTAGGCCTTAGCCCAAT
1 ACAG-AACAATGTGGGCCTTAGCCCAAT
* *
15452281 ACAGGAACAATGTGGGCCTAAGCCCGAT
1 ACA-GAACAATGTGGGCCTTAGCCCAAT
15452309 ACA
1 ACA
15452312 ATATCAGTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 4 0.08
28 45 0.90
29 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.16
Consensus pattern (27 bp):
ACAGAACAATGTGGGCCTTAGCCCAAT
Found at i:15452701 original size:27 final size:27
Alignment explanation
Indices: 15452684--15452791 Score: 83
Period size: 27 Copynumber: 4.0 Consensus size: 27
15452674 TTACCCTTTG
*
15452684 AGGGTACTACAATTATTTTATCCTACA
1 AGGGTACTACAATTATTTTACCCTACA
* * *
15452711 AGGGTATTACAGTTATTTTACCCTATA
1 AGGGTACTACAATTATTTTACCCTACA
* * ** * *
15452738 GGGGTATTGTAGTCATTTTACCCTAC-
1 AGGGTACTACAATTATTTTACCCTACA
* * *
15452764 AGAGGTATTACGATCATTTTACCCTACA
1 AG-GGTACTACAATTATTTTACCCTACA
15452792 GGGGCATTAC
Statistics
Matches: 65, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.02
27 64 0.98
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (27 bp):
AGGGTACTACAATTATTTTACCCTACA
Found at i:15452743 original size:54 final size:54
Alignment explanation
Indices: 15452640--15452955 Score: 193
Period size: 54 Copynumber: 5.9 Consensus size: 54
15452630 ACAGACAAAT
* ** *
15452640 CAATCA-TTTACCCT-CGAGGGGTAAAACAGTCATTTTACCCT-TTGAGGGTACTA
1 CAATCATTTTACCCTAC-AGAGGTATTACAGTCATTTTACCCTATAG-GGGTACTA
* * * * *
15452693 CAATTATTTTATCCTACA-AGGGTATTACAGTTATTTTACCCTATAGGGGTATTG
1 CAATCATTTTACCCTACAGA-GGTATTACAGTCATTTTACCCTATAGGGGTACTA
* * * * *
15452747 TAGTCATTTTACCCTACAGAGGTATTAC-GATCATTTTACCCTACAGGGGCATTA
1 CAATCATTTTACCCTACAGAGGTATTACAG-TCATTTTACCCTATAGGGGTACTA
** * * * * * *
15452801 CGGTCACTTTACCTTATAG-GGTTATTACGGTCATTTTACCCTATAGAGGTATTA
1 CAATCATTTTACCCTACAGAGG-TATTACAGTCATTTTACCCTATAGGGGTACTA
*** * * * * *
15452855 TGGTCGTTTTACCCTACAGGGGTATTA-TGATCATTTTACCCTACA-GGGTATTA
1 CAATCATTTTACCCTACAGAGGTATTACAG-TCATTTTACCCTATAGGGGTACTA
** * * *
15452908 CGGTCATTTTACCCTATAG-GGTATTACGGTCA-TTTACCCTATGGGGGT
1 CAATCATTTTACCCTACAGAGGTATTACAGTCATTTTACCCTATAGGGGT
15452956 CTTGGTACAG
Statistics
Matches: 212, Mismatches: 39, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
51 9 0.04
52 14 0.07
53 33 0.16
54 149 0.70
55 7 0.03
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (54 bp):
CAATCATTTTACCCTACAGAGGTATTACAGTCATTTTACCCTATAGGGGTACTA
Found at i:15452783 original size:81 final size:81
Alignment explanation
Indices: 15452646--15452948 Score: 310
Period size: 81 Copynumber: 3.8 Consensus size: 81
15452636 AAATCAATCA
** ** * * * * *
15452646 TTTACCCTCGAGGGGTAAAACAGTCATTTTACCCT-TTGAGGGTACTACAATTATTTTATCCTAC
1 TTTACCCTATAGGGGTATTACAGTCATTTTACCCTATAGA-GGTATTACGATCATTTTACCCTAC
* *
15452710 AAGGGTATTACAGTTAT
65 AGGGGTATTACAGTCAT
** *
15452727 TTTACCCTATAGGGGTATTGTAGTCATTTTACCCTACAGAGGTATTACGATCATTTTACCCTACA
1 TTTACCCTATAGGGGTATTACAGTCATTTTACCCTATAGAGGTATTACGATCATTTTACCCTACA
* * *
15452792 GGGGCATTACGGTCAC
66 GGGGTATTACAGTCAT
* * * * * *
15452808 TTTACCTTATAGGGTTATTACGGTCATTTTACCCTATAGAGGTATTATGGTCGTTTTACCCTACA
1 TTTACCCTATAGGGGTATTACAGTCATTTTACCCTATAGAGGTATTACGATCATTTTACCCTACA
*
15452873 GGGGTATTA-TGATCAT
66 GGGGTATTACAG-TCAT
* * *
15452889 TTTACCCTACA-GGGTATTACGGTCATTTTACCCTATAG-GGTATTACGGTCA-TTTACCCTA
1 TTTACCCTATAGGGGTATTACAGTCATTTTACCCTATAGAGGTATTACGATCATTTTACCCTA
15452949 TGGGGGTCTT
Statistics
Matches: 186, Mismatches: 34, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
78 9 0.05
79 11 0.06
80 27 0.15
81 137 0.74
82 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
TTTACCCTATAGGGGTATTACAGTCATTTTACCCTATAGAGGTATTACGATCATTTTACCCTACA
GGGGTATTACAGTCAT
Found at i:15452792 original size:27 final size:26
Alignment explanation
Indices: 15452698--15452948 Score: 270
Period size: 27 Copynumber: 9.4 Consensus size: 26
15452688 TACTACAATT
* * *
15452698 ATTTTATCCTACAAGGGTATTACAGTT
1 ATTTTACCCTAC-AGGGTATTACGGTC
* ***
15452725 ATTTTACCCTATAGGGGTATTGTAGTC
1 ATTTTACCCTACA-GGGTATTACGGTC
*
15452752 ATTTTACCCTACAGAGGTATTACGATC
1 ATTTTACCCTACAG-GGTATTACGGTC
*
15452779 ATTTTACCCTACAGGGGCATTACGGTC
1 ATTTTACCCTACA-GGGTATTACGGTC
* * *
15452806 ACTTTACCTTATAGGGTTATTACGGTC
1 ATTTTACCCTACAGGG-TATTACGGTC
* *
15452833 ATTTTACCCTATAGAGGTATTATGGTC
1 ATTTTACCCTACAG-GGTATTACGGTC
* * *
15452860 GTTTTACCCTACAGGGGTATTATGATC
1 ATTTTACCCTACA-GGGTATTACGGTC
15452887 ATTTTACCCTACAGGGTATTACGGTC
1 ATTTTACCCTACAGGGTATTACGGTC
*
15452913 ATTTTACCCTATAGGGTATTACGGTC
1 ATTTTACCCTACAGGGTATTACGGTC
15452939 A-TTTACCCTA
1 ATTTTACCCTA
15452949 TGGGGGTCTT
Statistics
Matches: 192, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
25 9 0.05
26 42 0.22
27 137 0.71
28 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (26 bp):
ATTTTACCCTACAGGGTATTACGGTC
Found at i:15455315 original size:37 final size:37
Alignment explanation
Indices: 15455272--15455446 Score: 178
Period size: 37 Copynumber: 4.8 Consensus size: 37
15455262 ATGCCAATTT
15455272 CTCATAAGAGCTAATCCACTCGATAACACGCCAAACA
1 CTCATAAGAGCTAATCCACTCGATAACACGCCAAACA
* ** * *
15455309 CCCATAA-ATGCTAATCCACTATATAACACACCAAACG
1 CTCATAAGA-GCTAATCCACTCGATAACACGCCAAACA
* * *
15455346 CTCATAAGAGCCAATCCAAC-CGATAACATGCCAAACG
1 CTCATAAGAGCTAATCC-ACTCGATAACACGCCAAACA
* * *
15455383 CTCATAAGAGCTAATTCAACT-GATAACATGCTAAACA
1 CTCATAAGAGCTAA-TCCACTCGATAACACGCCAAACA
* *
15455420 CTCATAAGAGTTAATCCAATCGA-AACA
1 CTCATAAGAGCTAATCCACTCGATAACA
15455447 TGCAAATTGT
Statistics
Matches: 114, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
36 9 0.08
37 100 0.88
38 5 0.04
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (37 bp):
CTCATAAGAGCTAATCCACTCGATAACACGCCAAACA
Found at i:15455396 original size:74 final size:73
Alignment explanation
Indices: 15455272--15455473 Score: 196
Period size: 74 Copynumber: 2.8 Consensus size: 73
15455262 ATGCCAATTT
* * * *
15455272 CTCATAAGAGCTAATCC-ACTCGATAACACGCCAAACACCCATAA-ATGCTAATCCACTATATAA
1 CTCATAAGAGCTAATCCAAC-CGATAACATGCCAAACGCTCATAAGA-GCTAATCCACT-GATAA
*
15455335 CACACCAAACG
63 CACACCAAACA
* *
15455346 CTCATAAGAGCCAATCCAACCGATAACATGCCAAACGCTCATAAGAGCTAATTCAACTGATAACA
1 CTCATAAGAGCTAATCCAACCGATAACATGCCAAACGCTCATAAGAGCTAA-TCCACTGATAACA
** *
15455411 TGCTAAACA
65 CACCAAACA
* * * * *
15455420 CTCATAAGAGTTAATCCAATCGA-AACATG-CAAATTGTTCATAAGATCTAATCCA
1 CTCATAAGAGCTAATCCAACCGATAACATGCCAAA-CGCTCATAAGAGCTAATCCA
15455474 ATTGATAGCA
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
72 7 0.07
73 19 0.18
74 73 0.68
75 8 0.07
ACGTcount: A:0.42, C:0.27, G:0.10, T:0.21
Consensus pattern (73 bp):
CTCATAAGAGCTAATCCAACCGATAACATGCCAAACGCTCATAAGAGCTAATCCACTGATAACAC
ACCAAACA
Found at i:15457967 original size:27 final size:26
Alignment explanation
Indices: 15457899--15457973 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
15457889 TTTCATCTTT
* * * *
15457899 ATTTTACCCCTAGTAAATTTTTTACG
1 ATTTTATCCCTAGTAAAATTTTAACA
*
15457925 ATTTTACTCCC-GGTAAAAATTTTAACA
1 ATTTTA-TCCCTAGT-AAAATTTTAACA
15457952 ATTTTATCCCTAGTAAAATTTT
1 ATTTTATCCCTAGTAAAATTTT
15457974 GAGAAAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
26 20 0.50
27 20 0.50
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (26 bp):
ATTTTATCCCTAGTAAAATTTTAACA
Found at i:15458131 original size:6 final size:6
Alignment explanation
Indices: 15458120--15458154 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
15458110 GCAAATAGAT
15458120 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
15458155 TTGGGAGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.51
Consensus pattern (6 bp):
CATTTC
Found at i:15458754 original size:16 final size:16
Alignment explanation
Indices: 15458733--15458765 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
15458723 CGACAACTTG
15458733 GCTCAAGGAAAAGCTA
1 GCTCAAGGAAAAGCTA
15458749 GCTCAAGGAAAAGCTA
1 GCTCAAGGAAAAGCTA
15458765 G
1 G
15458766 ATTGCTCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.12
Consensus pattern (16 bp):
GCTCAAGGAAAAGCTA
Found at i:15465287 original size:2 final size:2
Alignment explanation
Indices: 15465280--15465323 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
15465270 CTTGGTCGCT
15465280 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15465322 TC
1 TC
15465324 CTCGTAAACG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:15471949 original size:51 final size:50
Alignment explanation
Indices: 15471770--15472113 Score: 345
Period size: 51 Copynumber: 6.8 Consensus size: 50
15471760 ACTTTTATCA
* * *
15471770 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTCATCAAG-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* * * *
15471819 TTACGGTTCAC-TAGTAGCCTTTACATAGTACTACACACATGATCAAG-TT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* *
15471868 TTACGGTTCACGTAGTAGCCTTCACATAGTATTACACACGTGACCAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * *
15471920 TTTGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* * * *
15471970 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAATCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * * ***
15472022 ATCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* *
15472072 TATCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTG
15472114 TTCATCGATA
Statistics
Matches: 246, Mismatches: 40, Indels: 16
0.81 0.13 0.05
Matches are distributed among these distances:
49 50 0.20
50 42 0.17
51 145 0.59
52 6 0.02
53 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
Found at i:15472006 original size:102 final size:102
Alignment explanation
Indices: 15471771--15472113 Score: 451
Period size: 102 Copynumber: 3.4 Consensus size: 102
15471761 CTTTTATCAT
* * * *
15471771 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTCATC-AAG-TTTTACGGTTCAC-TAG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAG
* * ** * ***
15471833 TAGCCTTTACATAGTACTACACACATGATCAAGTTTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * * *
15471871 -CGGTTCACGTAGTAGCCTTCACATAGTATTACACACGTGACCAAAGCTTTTTGGTACACATAGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
15471935 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
15471972 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAATCTTATCGGTACACATTGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
*
15472037 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
15472074 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
15472114 TTCATCGATA
Statistics
Matches: 215, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
99 37 0.17
100 9 0.04
101 37 0.17
102 132 0.61
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (102 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:15472082 original size:153 final size:149
Alignment explanation
Indices: 15471770--15472112 Score: 400
Period size: 153 Copynumber: 2.3 Consensus size: 149
15471760 ACTTTTATCA
* ** *
15471770 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTCATCAAGTTTTACGGTTCACTAGTA
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTCACCAACATTTACGATTCACTAGTA
* * * * * * * *
15471835 GCCTTTACATAGTACTACACACATGATCAAGTTTTACGGTTCACGTAGTAGCCTTCACATAGTAT
66 GCCTTCACACAGTACTACACACATGACCAAATCTTACGGTACACATAGTAGCCTTCACATAGTAC
15471900 TACACACGTGACCAAAGCTT
131 TACACACGTGACCAAA-CTT
* * * * * * *
15471920 TTTGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTCACCAACATTTA-CGATTCAC-TAG
* * *
15471985 TAGCCTTCACACAGTACTACACACGTGACCAAATCTTATCGGTACACATTGTAGCCTTCACTTAG
64 TAGCCTTCACACAGTACTACACACATGACCAAATCTTA-CGGTACACATAGTAGCCTTCACATAG
* *
15472050 TACTACACATGTGACCATTA-TT
128 TACTACACACGTGACCA-AACTT
*
15472072 TATCGATACACGTAGTAGCCTTCACACAGTACTACACACGT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGT
15472113 GTTCATCGAT
Statistics
Matches: 158, Mismatches: 30, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
150 42 0.27
151 7 0.04
152 38 0.24
153 70 0.44
154 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (149 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTCACCAACATTTACGATTCACTAGTA
GCCTTCACACAGTACTACACACATGACCAAATCTTACGGTACACATAGTAGCCTTCACATAGTAC
TACACACGTGACCAAACTT
Found at i:15478944 original size:50 final size:50
Alignment explanation
Indices: 15478882--15479217 Score: 295
Period size: 51 Copynumber: 6.7 Consensus size: 50
15478872 TCATTCGATA
* *
15478882 CACGTAGTAGCCTTCACATAGTACTACACACGTCATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
* * * **
15478932 CACGTAGTAGCCTTTACATAGTACTACACACATGATCAAGTTTTACATTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
* * * ** *
15478982 CACATAGTAGCCTTCACATCGTACTACACACGTGACCAAATCTTTTTGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGT-TTTACGGTT
* * * *** *
15479033 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTA-CGGTT
* * * *
15479084 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAG-CTTATCCGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGTTTTA-CGGTT
* * * * * *
15479135 CACATTGTAGCCTTCACTTAGTACTACACATGTGACC-A-TTAATTATCGATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTT--TTA-CGGTT
*
15479186 GACGTAGTAGCCTTCAC--AGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
15479218 TTCATTGATA
Statistics
Matches: 232, Mismatches: 48, Indels: 13
0.79 0.16 0.04
Matches are distributed among these distances:
49 15 0.06
50 83 0.36
51 133 0.57
52 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
Found at i:15479108 original size:102 final size:102
Alignment explanation
Indices: 15478876--15479217 Score: 390
Period size: 102 Copynumber: 3.4 Consensus size: 102
15478866 CTTTTTTCAT
* * * * * * *
15478876 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTCATCAAGT-TTTACGGTTCACGTAGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAATCTTTTCGGTACACATAGT
* * ** * ***
15478940 AGCCTTTACATAGTACTACACACATGATCAAGTTTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * *
15478977 -C-ATTTCACATAGTAGCCTTCACATC-GTACTACACACGTGACCAAATCTTTTTGGTACACATA
1 TCGA-TACACGTAGTAGCCTTCACA-CAGTACTACACACGTGACCAAATCTTTTCGGTACACATA
15479039 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
64 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * * *
15479078 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTATCCGTACACATTGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAATCTTTTCGGTACACATAGT
* *
15479143 AGCCTTCACTTAGTACTACACATGTGACCATTAATTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
*
15479180 TCGATAGACGTAGTAGCCTT--CACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
15479218 TTCATTGATA
Statistics
Matches: 207, Mismatches: 28, Indels: 13
0.83 0.11 0.05
Matches are distributed among these distances:
99 1 0.00
100 55 0.27
101 43 0.21
102 107 0.52
103 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (102 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAATCTTTTCGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:15479721 original size:31 final size:28
Alignment explanation
Indices: 15479686--15479742 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 28
15479676 GCTTCGACTC
15479686 AACTTTTGTCAAAATTACGATTTTGTCCCTA
1 AACTTTTG-CAAAATTAC-ATTTT-TCCCTA
*
15479717 AACTTTTGCATAATTACATTTTTCCC
1 AACTTTTGCAAAATTACATTTTTCCC
15479743 AAGCTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 4 0.16
29 5 0.20
30 8 0.32
31 8 0.32
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (28 bp):
AACTTTTGCAAAATTACATTTTTCCCTA
Found at i:15498609 original size:29 final size:29
Alignment explanation
Indices: 15498583--15498704 Score: 217
Period size: 29 Copynumber: 4.2 Consensus size: 29
15498573 CCCCGTTTGA
15498583 ACCATCGAATATGAAAAGGGATGGTTTCG
1 ACCATCGAATATGAAAAGGGATGGTTTCG
*
15498612 ACCATCGAATATGAAAAAGGATGGTTTCG
1 ACCATCGAATATGAAAAGGGATGGTTTCG
*
15498641 ACCATCGAATATGAAAAGGGATGGTTTTG
1 ACCATCGAATATGAAAAGGGATGGTTTCG
*
15498670 ACCATCGAATAAGAAAAGGGATGGTTTCG
1 ACCATCGAATATGAAAAGGGATGGTTTCG
15498699 ACCATC
1 ACCATC
15498705 ACTTAGCACA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 88 1.00
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (29 bp):
ACCATCGAATATGAAAAGGGATGGTTTCG
Found at i:15500468 original size:8 final size:8
Alignment explanation
Indices: 15500455--15500479 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15500445 TTTTAAATAA
15500455 TATTTTAT
1 TATTTTAT
15500463 TATTTTAT
1 TATTTTAT
15500471 TATTTTAT
1 TATTTTAT
15500479 T
1 T
15500480 GTTTAGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:15509448 original size:57 final size:60
Alignment explanation
Indices: 15509333--15509449 Score: 141
Period size: 57 Copynumber: 2.0 Consensus size: 60
15509323 TTTAGTATTC
* *
15509333 TTAATATGATGTATTTATATGTTTAAATTTCATTTTACTTACAATTTGATATAATTTTTTG
1 TTAATATGATGTATTTATATGTTTAAATTT-ATTTTACTCACAATTTAATATAATTTTTTG
* * * * *
15509394 TTAATCTGATGTA-TT-TGTGTTTAACTTT-TTTTACTCACGATTTAATCTAATTTTTT
1 TTAATATGATGTATTTATATGTTTAAATTTATTTTACTCACAATTTAATATAATTTTTT
15509450 ATTTTAATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
57 24 0.49
59 11 0.22
60 2 0.04
61 12 0.24
ACGTcount: A:0.27, C:0.08, G:0.09, T:0.56
Consensus pattern (60 bp):
TTAATATGATGTATTTATATGTTTAAATTTATTTTACTCACAATTTAATATAATTTTTTG
Found at i:15514271 original size:21 final size:20
Alignment explanation
Indices: 15514240--15514288 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
15514230 TCAAAAACAT
15514240 TAAAAATTATTAAATAATTA
1 TAAAAATTATTAAATAATTA
*
15514260 TAAAAATATATTAAATGATTA
1 TAAAAAT-TATTAAATAATTA
15514281 TAGAAAAT
1 TA-AAAAT
15514289 CATAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 7 0.27
21 14 0.54
22 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
TAAAAATTATTAAATAATTA
Found at i:15514273 original size:31 final size:31
Alignment explanation
Indices: 15514238--15514301 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
15514228 ATTCAAAAAC
*
15514238 ATTAAA-AATTATTA-AATAATTATAAAAATAT
1 ATTAAATAATTA-TAGAA-AATCATAAAAATAT
*
15514269 ATTAAATGATTATAGAAAATCATAAAAATAT
1 ATTAAATAATTATAGAAAATCATAAAAATAT
15514300 AT
1 AT
15514302 GTCTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 23 0.79
32 6 0.21
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (31 bp):
ATTAAATAATTATAGAAAATCATAAAAATAT
Found at i:15514348 original size:25 final size:25
Alignment explanation
Indices: 15514320--15514371 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
15514310 TTAAAATATA
15514320 TAAAAATATTAAA-GTGAAAAAATTT
1 TAAAAATA-TAAATGTGAAAAAATTT
* *
15514345 TAAAAATATAAATTTTAAAAAATTT
1 TAAAAATATAAATGTGAAAAAATTT
15514370 TA
1 TA
15514372 TTAAAAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (25 bp):
TAAAAATATAAATGTGAAAAAATTT
Found at i:15514487 original size:19 final size:18
Alignment explanation
Indices: 15514456--15514496 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
15514446 TGAAAAACTA
15514456 AAAAATTTAAAAATATAG
1 AAAAATTTAAAAATATAG
*
15514474 AAAAATGTTTAAAATATAG
1 AAAAAT-TTAAAAATATAG
15514493 AAAA
1 AAAA
15514497 TTATTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (18 bp):
AAAAATTTAAAAATATAG
Found at i:15514497 original size:18 final size:19
Alignment explanation
Indices: 15514397--15514507 Score: 69
Period size: 18 Copynumber: 6.1 Consensus size: 19
15514387 TTATATAAGT
15514397 TATAGAAAAATT-TTAAAAA
1 TATAGAAAAATTATT-AAAA
* *
15514416 CATTA-ATAAATT-TT-AAA
1 TA-TAGAAAAATTATTAAAA
* * *
15514433 TATATATAAATTATGAAAA
1 TATAGAAAAATTATTAAAA
*
15514452 -ACTA-AAAAATT-TAAAAA
1 TA-TAGAAAAATTATTAAAA
15514469 TATAGAAAAATGT-TTAAAA
1 TATAGAAAAAT-TATTAAAA
15514488 TATAG-AAAATTATTAAAA
1 TATAGAAAAATTATTAAAA
15514506 TA
1 TA
15514508 GAAAATTACA
Statistics
Matches: 76, Mismatches: 7, Indels: 19
0.75 0.07 0.19
Matches are distributed among these distances:
16 2 0.03
17 19 0.25
18 28 0.37
19 25 0.33
20 2 0.03
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (19 bp):
TATAGAAAAATTATTAAAA
Found at i:15514595 original size:21 final size:21
Alignment explanation
Indices: 15514535--15514596 Score: 52
Period size: 24 Copynumber: 2.8 Consensus size: 21
15514525 TGCAAAAAAT
* * *
15514535 TATAGAAAATTAAAAATTTAT
1 TATAAAAAATTAAAAAATTAA
* *
15514556 TATTAAAATTTATTCAAAAATTAA
1 TA-TAAAA--AATTAAAAAATTAA
15514580 TATAAAAAATTAAAAAA
1 TATAAAAAATTAAAAAA
15514597 ATATAAAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
21 10 0.32
22 4 0.13
23 5 0.16
24 12 0.39
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
TATAAAAAATTAAAAAATTAA
Found at i:15514601 original size:18 final size:17
Alignment explanation
Indices: 15514578--15514618 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
15514568 TTCAAAAATT
15514578 AATATAAAAAATTAAAAA
1 AATATAAAAAA-TAAAAA
*
15514596 AATATAAAATATAAAAA
1 AATATAAAAAATAAAAA
15514613 AGATAT
1 A-ATAT
15514619 TTACATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AATATAAAAAATAAAAA
Found at i:15515016 original size:33 final size:35
Alignment explanation
Indices: 15514920--15515016 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
15514910 TTCATATTTT
*
15514920 AATATATGAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
15514955 AATAAATATTAATTAT-TTATAAAT-TTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
15514988 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
15515017 ATATAACCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 7 0.14
33 11 0.22
34 9 0.18
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:15515445 original size:39 final size:39
Alignment explanation
Indices: 15515402--15515480 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
15515392 TGGACAAAAG
15515402 GGGCATAAGGTTTGGAGAGGTTTGTGGTGGACGAACATA
1 GGGCATAAGGTTTGGAGAGGTTTGTGGTGGACGAACATA
15515441 GGGCATAAGGTTTGGAGAGGTTTGTGGTGGACGAACATA
1 GGGCATAAGGTTTGGAGAGGTTTGTGGTGGACGAACATA
15515480 G
1 G
15515481 CATATAGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.08, G:0.42, T:0.25
Consensus pattern (39 bp):
GGGCATAAGGTTTGGAGAGGTTTGTGGTGGACGAACATA
Found at i:15515740 original size:16 final size:16
Alignment explanation
Indices: 15515699--15515741 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
15515689 TATTTTCATG
*
15515699 ATTTATATTTTTTATA
1 ATTTATATTTTTAATA
*
15515715 ATATATATTTTTAATA
1 ATTTATATTTTTAATA
15515731 TATTTA-ATTTT
1 -ATTTATATTTT
15515742 ATATTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATATTTTTAATA
Found at i:15515780 original size:10 final size:8
Alignment explanation
Indices: 15515682--15515818 Score: 52
Period size: 9 Copynumber: 16.6 Consensus size: 8
15515672 TTTTACAATT
15515682 TTTTCTATA
1 TTTT-TATA
*
15515691 TTTTCATGA
1 TTTTTAT-A
*
15515700 TTTATAT-
1 TTTTTATA
15515707 TTTTTATA
1 TTTTTATA
* *
15515715 -ATATATA
1 TTTTTATA
15515722 TTTTTAATA
1 TTTTT-ATA
*
15515731 TATTTA-A
1 TTTTTATA
15515738 -TTTTATA
1 TTTTTATA
15515745 TTTTT-TCA
1 TTTTTAT-A
*
15515753 TTTATAATAA
1 TTT-TTAT-A
15515763 TTTTTATA
1 TTTTTATA
15515771 GTTTTCTATA
1 -TTTT-TATA
15515781 -TTTTATAA
1 TTTTTAT-A
**
15515789 TTTTTGCA
1 TTTTTATA
* *
15515797 CTTTTATT
1 TTTTTATA
15515805 TTTTTATAA
1 TTTTTAT-A
15515814 TTTTT
1 TTTTT
15515819 TAAAACGTTT
Statistics
Matches: 93, Mismatches: 21, Indels: 28
0.65 0.15 0.20
Matches are distributed among these distances:
6 4 0.04
7 17 0.18
8 29 0.31
9 34 0.37
10 9 0.10
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (8 bp):
TTTTTATA
Found at i:15515891 original size:11 final size:11
Alignment explanation
Indices: 15515875--15515899 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15515865 TTTCTATGAT
15515875 TTTTTTTATAA
1 TTTTTTTATAA
15515886 TTTTTTTATAA
1 TTTTTTTATAA
15515897 TTT
1 TTT
15515900 GTAATGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTTATAA
Found at i:15516610 original size:3 final size:3
Alignment explanation
Indices: 15516602--15516643 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
15516592 TTATGAAATT
15516602 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15516644 TACTAGGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15518226 original size:15 final size:15
Alignment explanation
Indices: 15518208--15518241 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15518198 TTAATTAAAA
* *
15518208 TAAACTATGTTTAAT
1 TAAACTAAGATTAAT
15518223 TAAACTAAGATTAAT
1 TAAACTAAGATTAAT
15518238 TAAA
1 TAAA
15518242 ACTTAATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (15 bp):
TAAACTAAGATTAAT
Found at i:15523151 original size:5 final size:5
Alignment explanation
Indices: 15523137--15523198 Score: 92
Period size: 5 Copynumber: 12.8 Consensus size: 5
15523127 GGGTGAGTAT
*
15523137 TTGA- TTGAG TTGAG TTGAG TTGAG TTGAG TTGAG TTGAG TTGAA TTGAG
1 TTGAG TTGAG TTGAG TTGAG TTGAG TTGAG TTGAG TTGAG TTGAG TTGAG
*
15523186 TT-AG TCGAG TTGA
1 TTGAG TTGAG TTGA
15523199 TGAATTACAT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
4 7 0.13
5 45 0.87
ACGTcount: A:0.23, C:0.02, G:0.35, T:0.40
Consensus pattern (5 bp):
TTGAG
Found at i:15528517 original size:9 final size:9
Alignment explanation
Indices: 15528503--15528654 Score: 70
Period size: 9 Copynumber: 16.6 Consensus size: 9
15528493 AAATAATTTT
15528503 TTTTTATAA
1 TTTTTATAA
15528512 -TTTT-TAA
1 TTTTTATAA
*
15528519 TTTTTCTAA
1 TTTTTATAA
15528528 TTTTTAATAA
1 TTTTT-ATAA
15528538 -TTTTATAA
1 TTTTTATAA
*
15528546 TTTATTA-GA
1 TTT-TTATAA
15528555 TTTTTAT--
1 TTTTTATAA
*
15528562 TATTTATAA
1 TTTTTATAA
15528571 GTTTTTATAA
1 -TTTTTATAA
**
15528581 GATTTA-AA
1 TTTTTATAA
15528589 TATTTTA-AA
1 T-TTTTATAA
15528598 TATGCTTTATTAA
1 T-T--TTTA-TAA
15528611 TTTTTTTTATAA
1 ---TTTTTATAA
*
15528623 TTTATTAGAA
1 TTT-TTATAA
15528633 -TTTTATAA
1 TTTTTATAA
*
15528641 ATTTTATAA
1 TTTTTATAA
15528650 TTTTT
1 TTTTT
15528655 TGAGTAAACT
Statistics
Matches: 113, Mismatches: 11, Indels: 38
0.70 0.07 0.23
Matches are distributed among these distances:
7 9 0.08
8 22 0.19
9 48 0.42
10 19 0.17
11 4 0.04
12 3 0.03
13 6 0.05
15 1 0.01
16 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15528558 original size:26 final size:26
Alignment explanation
Indices: 15528502--15528560 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
15528492 TAAATAATTT
* *
15528502 TTTTTTATAATTTTTAATTTTTCTAA
1 TTTTTAATAATTTTTAATTTATCTAA
15528528 TTTTTAATAATTTTATAATTTAT-TAGA
1 TTTTTAATAATTTT-TAATTTATCTA-A
15528555 TTTTTA
1 TTTTTA
15528561 TTATTTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTTTAATAATTTTTAATTTATCTAA
Found at i:15528559 original size:18 final size:16
Alignment explanation
Indices: 15528503--15528580 Score: 84
Period size: 18 Copynumber: 4.6 Consensus size: 16
15528493 AAATAATTTT
15528503 TTTTTATAATTTTTAA
1 TTTTTATAATTTTTAA
*
15528519 TTTTTCTAATTTTTAA
1 TTTTTATAATTTTTAA
15528535 TAATTTTATAATTTATTAGA
1 T--TTTTATAATTT-TTA-A
* *
15528555 TTTTTATTATTTATAA
1 TTTTTATAATTTTTAA
15528571 GTTTTTATAA
1 -TTTTTATAA
15528581 GATTTAAATA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
16 17 0.33
17 10 0.19
18 20 0.38
19 3 0.06
20 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTTTATAATTTTTAA
Found at i:15528767 original size:31 final size:29
Alignment explanation
Indices: 15528699--15528770 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
15528689 CTTAGGTTAT
*
15528699 ATTTTAGTCACTTATGTTTGAAATGTTAC
1 ATTTTAGTCACTTATGTTTGAAATGTAAC
* ***
15528728 GTTTTAGTCACTTATGTTATCGCGTTGTAAC
1 ATTTTAGTCACTTATGTT-T-GAAATGTAAC
15528759 ATTTTAGTCACT
1 ATTTTAGTCACT
15528771 GAGCCGTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.49
30 1 0.03
31 17 0.49
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.47
Consensus pattern (29 bp):
ATTTTAGTCACTTATGTTTGAAATGTAAC
Found at i:15542028 original size:22 final size:22
Alignment explanation
Indices: 15541987--15542028 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15541977 AGATAGGGAA
* * *
15541987 TTAAAAGGTGATAGATTAAAAT
1 TTAAAAGCTGAAAGAGTAAAAT
15542009 TTAAAAGCTGAAAGAGTAAA
1 TTAAAAGCTGAAAGAGTAAA
15542029 GGGGTTGGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.02, G:0.19, T:0.26
Consensus pattern (22 bp):
TTAAAAGCTGAAAGAGTAAAAT
Found at i:15542876 original size:20 final size:21
Alignment explanation
Indices: 15542848--15542900 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 21
15542838 AAAGTATAAA
*
15542848 TTTGGAATTTTTATAAA-TAT
1 TTTGAAATTTTTATAAATTAT
15542868 TTTGAAA-TTTTA-AAATTAT
1 TTTGAAATTTTTATAAATTAT
*
15542887 TTTGTAATTTTTAT
1 TTTGAAATTTTTAT
15542901 TGAGAGAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 3 0.11
19 14 0.50
20 11 0.39
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (21 bp):
TTTGAAATTTTTATAAATTAT
Found at i:15543528 original size:13 final size:13
Alignment explanation
Indices: 15543510--15543537 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15543500 ACAATATATT
15543510 TATTAATTAAAAA
1 TATTAATTAAAAA
15543523 TATTAATTAAAAA
1 TATTAATTAAAAA
15543536 TA
1 TA
15543538 ATAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:15543935 original size:22 final size:21
Alignment explanation
Indices: 15543910--15543952 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
15543900 TTCTCTCTTC
* *
15543910 AAAACAACATTGATAAATTAAA
1 AAAAAAACATAGAT-AATTAAA
15543932 AAAAAAACATAGATAATTAAA
1 AAAAAAACATAGATAATTAAA
15543953 TGTAGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (21 bp):
AAAAAAACATAGATAATTAAA
Found at i:15544147 original size:30 final size:30
Alignment explanation
Indices: 15544111--15544172 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
15544101 AAATAAGAAA
15544111 GCTTCATAGTGGCCATTTACACGCACACAC
1 GCTTCATAGTGGCCATTTACACGCACACAC
15544141 GCTTCATAGTGGCCATTTACACGCACACAC
1 GCTTCATAGTGGCCATTTACACGCACACAC
15544171 GC
1 GC
15544173 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.23
Consensus pattern (30 bp):
GCTTCATAGTGGCCATTTACACGCACACAC
Found at i:15547075 original size:22 final size:22
Alignment explanation
Indices: 15547034--15547075 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15547024 AGATAGGGAA
* * *
15547034 TTAAAAGGTGATAGATTAAAAT
1 TTAAAAGCTGAAAGAGTAAAAT
15547056 TTAAAAGCTGAAAGAGTAAA
1 TTAAAAGCTGAAAGAGTAAA
15547076 GGGGTTGGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.02, G:0.19, T:0.26
Consensus pattern (22 bp):
TTAAAAGCTGAAAGAGTAAAAT
Found at i:15547923 original size:20 final size:21
Alignment explanation
Indices: 15547895--15547947 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 21
15547885 GAAATATAAA
*
15547895 TTTGGAATTTTTATAAA-TAT
1 TTTGAAATTTTTATAAATTAT
15547915 TTTGAAA-TTTTA-AAATTAT
1 TTTGAAATTTTTATAAATTAT
*
15547934 TTTGTAATTTTTAT
1 TTTGAAATTTTTAT
15547948 TGAGAGAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 3 0.11
19 14 0.50
20 11 0.39
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (21 bp):
TTTGAAATTTTTATAAATTAT
Found at i:15563888 original size:31 final size:29
Alignment explanation
Indices: 15563851--15563916 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
15563841 TAAAATTTAC
*
15563851 TATTAAAATAA-AATTTAAGTATTAAATAATT
1 TATTAAAATAATAAATT-A-TATT-AATAATT
15563882 TATTAAAAATAATAAATTATATTAATAATT
1 TATT-AAAATAATAAATTATATTAATAATT
15563912 TATTA
1 TATTA
15563917 TATGACTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 1 0.03
30 11 0.34
31 8 0.25
32 8 0.25
33 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (29 bp):
TATTAAAATAATAAATTATATTAATAATT
Found at i:15563916 original size:16 final size:16
Alignment explanation
Indices: 15563870--15563919 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
15563860 AAAATTTAAG
15563870 TATTAAATAATTTATTA
1 TATT-AATAATTTATTA
* **
15563887 -A-AAATAATAAATTA
1 TATTAATAATTTATTA
15563901 TATTAATAATTTATTA
1 TATTAATAATTTATTA
15563917 TAT
1 TAT
15563920 GACTAAATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 5
0.69 0.17 0.14
Matches are distributed among these distances:
14 10 0.40
15 1 0.04
16 14 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTAATAATTTATTA
Found at i:15564012 original size:10 final size:9
Alignment explanation
Indices: 15563983--15564008 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
15563973 AGTTTCTATT
15563983 AATATTTTA
1 AATATTTTA
15563992 AATATTTTA
1 AATATTTTA
15564001 AATATTTT
1 AATATTTT
15564009 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTA
Found at i:15570834 original size:68 final size:68
Alignment explanation
Indices: 15570714--15570901 Score: 232
Period size: 68 Copynumber: 2.8 Consensus size: 68
15570704 GTCATAGGTG
* * * * * *
15570714 CATGGCACCATAATGTGTGAGACCATAGTTGGGCTATGGTAACATATAAAGTCTACTAAGACAGT
1 CATGGGACCATAATGTGTAAGACCATAGTTGGGCTATGGCAACATATGAAGTCCACCAAGACAGT
15570779 AAA
66 AAA
* * * * *
15570782 GATGGGACCATAGTGTGTAAGATCATAGTTGGGCTATGGCAACATATGAAGTCCACCAGGATAGT
1 CATGGGACCATAATGTGTAAGACCATAGTTGGGCTATGGCAACATATGAAGTCCACCAAGACAGT
15570847 AAA
66 AAA
* * ** *
15570850 CATGAGATCATAATGTGTAAGACCATAGCAGGGCTATGGCCACATATGAAGT
1 CATGGGACCATAATGTGTAAGACCATAGTTGGGCTATGGCAACATATGAAGT
15570902 TCGTAAGTAC
Statistics
Matches: 101, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
68 101 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (68 bp):
CATGGGACCATAATGTGTAAGACCATAGTTGGGCTATGGCAACATATGAAGTCCACCAAGACAGT
AAA
Found at i:15573017 original size:24 final size:24
Alignment explanation
Indices: 15572969--15573015 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
15572959 ACTGGTTATA
*
15572969 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
15572993 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
15573016 GGGATTTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:15573723 original size:27 final size:27
Alignment explanation
Indices: 15573685--15573889 Score: 241
Period size: 27 Copynumber: 7.6 Consensus size: 27
15573675 AGGTTGATAT
* * *
15573685 ATGACCGAAATACCCTCATAGGGTAGA
1 ATGACTGAAATACCCCCATAGGGTAAA
**
15573712 ATGACTGAAATACCCCCATAAAGTAAA
1 ATGACTGAAATACCCCCATAGGGTAAA
* *
15573739 ATGACCGAAATACCCCTATAGGGTAAA
1 ATGACTGAAATACCCCCATAGGGTAAA
* *
15573766 ATAACTGAAATACCCCCATATGGTAAA
1 ATGACTGAAATACCCCCATAGGGTAAA
* * *
15573793 ATAACTGAAATACCCTCATAGGATAAA
1 ATGACTGAAATACCCCCATAGGGTAAA
* *
15573820 ATGACTAAAATACCCCCATAGGGTAGA
1 ATGACTGAAATACCCCCATAGGGTAAA
*
15573847 ATGA-TCGAAATACCCCTATAGGGTAAA
1 ATGACT-GAAATACCCCCATAGGGTAAA
**
15573874 ATGACTGTTATACCCC
1 ATGACTGAAATACCCC
15573890 TAGGAGATGA
Statistics
Matches: 150, Mismatches: 26, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 148 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (27 bp):
ATGACTGAAATACCCCCATAGGGTAAA
Found at i:15580915 original size:6 final size:6
Alignment explanation
Indices: 15580906--15580981 Score: 66
Period size: 6 Copynumber: 12.5 Consensus size: 6
15580896 ATAAAATAAA
* ** *
15580906 AAAAAC AAAAA- AAAAAC AGAAAC AAAAGT AAAGAC AAAAGAC AAAAGA-
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAA-AC AAAA-AC
*
15580954 AAAAAG ACAAAAC AAAAAC AAAAAC AAA
1 AAAAAC A-AAAAC AAAAAC AAAAAC AAA
15580982 TAAAATATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
5 6 0.11
6 38 0.67
7 13 0.23
ACGTcount: A:0.79, C:0.12, G:0.08, T:0.01
Consensus pattern (6 bp):
AAAAAC
Found at i:15580947 original size:7 final size:7
Alignment explanation
Indices: 15580935--15580981 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
15580925 AAACAAAAGT
15580935 AAAGACA
1 AAAGACA
15580942 AAAGACA
1 AAAGACA
*
15580949 AAAGAAA
1 AAAGACA
15580956 AAAGAC-
1 AAAGACA
15580962 AAA-ACA
1 AAAGACA
15580968 AAA-ACA
1 AAAGACA
15580974 AAA-ACA
1 AAAGACA
15580980 AA
1 AA
15580982 TAAAATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
5 2 0.05
6 17 0.46
7 18 0.49
ACGTcount: A:0.79, C:0.13, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAGACA
Found at i:15581558 original size:19 final size:20
Alignment explanation
Indices: 15581521--15581560 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
15581511 AATTTTTTTC
* *
15581521 AAAATAACATGAAAGTAAAA
1 AAAATAACATAAAAATAAAA
15581541 AAAATAA-ATAAAAATAAAA
1 AAAATAACATAAAAATAAAA
15581560 A
1 A
15581561 CACTTGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
AAAATAACATAAAAATAAAA
Found at i:15584975 original size:21 final size:21
Alignment explanation
Indices: 15584951--15584990 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
15584941 ATTTTGTAAT
15584951 TTAATAGAAA-ATTAAAACAAA
1 TTAA-AGAAAGATTAAAACAAA
15584972 TTAAAGAAAGATTAAAACA
1 TTAAAGAAAGATTAAAACA
15584991 TTTTTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (21 bp):
TTAAAGAAAGATTAAAACAAA
Found at i:15586011 original size:37 final size:37
Alignment explanation
Indices: 15585910--15586038 Score: 147
Period size: 37 Copynumber: 3.5 Consensus size: 37
15585900 CTACATGTTT
* * * *
15585910 TGGCGTGTTTTCAGTTGGACTAGCTCTAATGAGCATC
1 TGGCGTGTTATCAGGTGGATTAGCTCTTATGAGCATC
15585947 TGGCGTGTTATC-GAGTGGATTAGCTCTTATGAGCATC
1 TGGCGTGTTATCAG-GTGGATTAGCTCTTATGAGCATC
* *
15585984 TGGCATGTTATCAGGTGGATTAGCTCTTACGAGCGAT-
1 TGGCGTGTTATCAGGTGGATTAGCTCTTATGAGC-ATC
* *
15586021 TGACGTGTT-TCAGTTGGA
1 TGGCGTGTTATCAGGTGGA
15586039 ATATCTATGT
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
36 9 0.11
37 68 0.85
38 3 0.04
ACGTcount: A:0.19, C:0.16, G:0.29, T:0.35
Consensus pattern (37 bp):
TGGCGTGTTATCAGGTGGATTAGCTCTTATGAGCATC
Found at i:15598478 original size:18 final size:18
Alignment explanation
Indices: 15598452--15598486 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15598442 ATCTCTCTTA
*
15598452 TTTTCCTTTGTTTCTTTT
1 TTTTCCTTTCTTTCTTTT
*
15598470 TTTTTCTTTCTTTCTTT
1 TTTTCCTTTCTTTCTTT
15598487 CTTCATGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTCCTTTCTTTCTTTT
Found at i:15607582 original size:38 final size:38
Alignment explanation
Indices: 15607507--15607597 Score: 110
Period size: 38 Copynumber: 2.4 Consensus size: 38
15607497 AATGTAATTA
* *
15607507 GATGGAATAGCTCTTTTGAGCATACTGGCATGTTATCG
1 GATGGAATAGCTCTTATGAGCATACTGGCATGCTATCG
* * * **
15607545 GATGTAATAGCTCTTATGAGGATATTGGTGTGCTATCG
1 GATGGAATAGCTCTTATGAGCATACTGGCATGCTATCG
*
15607583 GATGGAATAGGTCTT
1 GATGGAATAGCTCTT
15607598 CTAAGCAAAC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (38 bp):
GATGGAATAGCTCTTATGAGCATACTGGCATGCTATCG
Found at i:15614147 original size:11 final size:12
Alignment explanation
Indices: 15614116--15614162 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 12
15614106 ATAACATAAT
15614116 TAAATAATAAGAA
1 TAAATAATAA-AA
*
15614129 TCAA-AATAAAA
1 TAAATAATAAAA
15614140 TAAA-AATAAAA
1 TAAATAATAAAA
15614151 TAGAATAATAAA
1 TA-AATAATAAA
15614163 GTTCAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 14 0.47
12 7 0.23
13 9 0.30
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.21
Consensus pattern (12 bp):
TAAATAATAAAA
Found at i:15616338 original size:21 final size:21
Alignment explanation
Indices: 15616306--15616346 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
15616296 ATTTATATAA
15616306 TCCTTATGTGATATG-TTTTTC
1 TCCTTATGTGAT-TGATTTTTC
15616327 TCCTT-TGTTGATTGATTTTT
1 TCCTTATG-TGATTGATTTTT
15616347 TCGTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.61
Consensus pattern (21 bp):
TCCTTATGTGATTGATTTTTC
Found at i:15623184 original size:25 final size:25
Alignment explanation
Indices: 15623156--15623212 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
15623146 CTACACCACA
*
15623156 GCTCTTATGAGCATCCCG-TTATACG
1 GCTCTTATGAGCATCCCGATTA-AAG
* *
15623181 GCTCGTTGTGAGCTTCCCGATTAAAG
1 GCTC-TTATGAGCATCCCGATTAAAG
15623207 GCTCTT
1 GCTCTT
15623213 TGTGAGCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 6 0.22
26 18 0.67
27 3 0.11
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (25 bp):
GCTCTTATGAGCATCCCGATTAAAG
Found at i:15623220 original size:26 final size:27
Alignment explanation
Indices: 15623163--15623227 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 27
15623153 ACAGCTCTTA
* *
15623163 TGAGCATCCCG-TTATACGGCTCGTTG
1 TGAGCTTCCCGATTATAAGGCTCGTTG
*
15623189 TGAGCTTCCCGATTA-AAGGCTCTTTG
1 TGAGCTTCCCGATTATAAGGCTCGTTG
*
15623215 TGAGCTTTCCGAT
1 TGAGCTTCCCGAT
15623228 ATGGCTCGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 31 0.91
27 3 0.09
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.34
Consensus pattern (27 bp):
TGAGCTTCCCGATTATAAGGCTCGTTG
Found at i:15623269 original size:24 final size:24
Alignment explanation
Indices: 15623242--15623291 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
15623232 CTCGCTTGAA
*
15623242 CTTCCCGTTAATGGCTATTCGGAG
1 CTTCCCGTTAATGGCTATTCAGAG
* *
15623266 CTTCCTGTTAATGGCTCTTCAGAG
1 CTTCCCGTTAATGGCTATTCAGAG
15623290 CT
1 CT
15623292 ACCCATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (24 bp):
CTTCCCGTTAATGGCTATTCAGAG
Found at i:15625398 original size:29 final size:30
Alignment explanation
Indices: 15625323--15625399 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 30
15625313 TATTTAAACT
* *
15625323 AAAATCAAAATATAATATATATAATTACAC
1 AAAATCAAAATATAATATATAGAATCACAC
* * * *
15625353 AAAATC-AAATTTCATATATGGAATCACAT
1 AAAATCAAAATATAATATATAGAATCACAC
*
15625382 TAAATCAAAATAT-ATATA
1 AAAATCAAAATATAATATA
15625400 ATTTTAATAT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 27 0.71
30 11 0.29
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.31
Consensus pattern (30 bp):
AAAATCAAAATATAATATATAGAATCACAC
Found at i:15642431 original size:20 final size:20
Alignment explanation
Indices: 15642349--15642434 Score: 86
Period size: 20 Copynumber: 4.3 Consensus size: 20
15642339 TTGTGTAGGA
15642349 TTGCACTTCGGTGCCTCTATT
1 TTGCACTTCGGTGCCTCT-TT
* *
15642370 CT-CAC-TCTGGTGCCTCTGT
1 TTGCACTTC-GGTGCCTCTTT
* * *
15642389 TTACACTTCGGTGTCTCTAT
1 TTGCACTTCGGTGCCTCTTT
*
15642409 TTGCACTACGGTGCCTCTTT
1 TTGCACTTCGGTGCCTCTTT
15642429 TTGCAC
1 TTGCAC
15642435 AATCGTGCCT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.08
20 46 0.87
21 3 0.06
ACGTcount: A:0.10, C:0.30, G:0.19, T:0.41
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTTT
Found at i:15646281 original size:25 final size:25
Alignment explanation
Indices: 15646247--15646454 Score: 134
Period size: 25 Copynumber: 8.3 Consensus size: 25
15646237 AGGCTTCCAA
* *
15646247 AGAGAGTTCGCCACAAAGTCATTTC
1 AGAGAATTCGCCACAAAGGCATTTC
15646272 AGAGAATTCGCCACAAAGGCA-TTC
1 AGAGAATTCGCCACAAAGGCATTTC
* * * *
15646296 TAAAGTATTCGCAACAAAGGCTTTTC
1 -AGAGAATTCGCCACAAAGGCATTTC
* ** * *
15646322 ATAGAATTCGCCACAAACACGTTCC
1 AGAGAATTCGCCACAAAGGCATTTC
* * * * *
15646347 AAAGAATTTGCCACAAATGCGTTTT
1 AGAGAATTCGCCACAAAGGCATTTC
*
15646372 AGAGAATTTGCCACAAAGGCA-TTC
1 AGAGAATTCGCCACAAAGGCATTTC
* * * *
15646396 TAGAGAATTCACTACAAAAGG-GTTCC
1 -AGAGAATTCGCCAC-AAAGGCATTTC
* * ** *
15646422 AGAGTATTCGCCACAGAGGTTTTTT
1 AGAGAATTCGCCACAAAGGCATTTC
15646447 AGAGAATT
1 AGAGAATT
15646455 TTGTGTTTAC
Statistics
Matches: 141, Mismatches: 36, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
24 9 0.06
25 122 0.87
26 10 0.07
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (25 bp):
AGAGAATTCGCCACAAAGGCATTTC
Found at i:15646413 original size:50 final size:50
Alignment explanation
Indices: 15646231--15646436 Score: 175
Period size: 50 Copynumber: 4.1 Consensus size: 50
15646221 AAGTAACACA
* * * *
15646231 CCACAAAGGC-TTCCAAAGAGAGTTCGCCACAAAGTCATTTCAGAGAATTCG
1 CCACAAAGGCATTCTAAAGA-A-TTCGCAACAAAGGCTTTTCAGAGAATTCG
* *
15646282 CCACAAAGGCATTCTAAAGTATTCGCAACAAAGGCTTTTCATAGAATTCG
1 CCACAAAGGCATTCTAAAGAATTCGCAACAAAGGCTTTTCAGAGAATTCG
** * * * * * *
15646332 CCACAAACACGTTCCAAAGAATTTGCCACAAATGCGTTTT-AGAGAATTTG
1 CCACAAAGGCATTCTAAAGAATTCGCAACAAAGGC-TTTTCAGAGAATTCG
* * * * * *
15646382 CCACAAAGGCATTCTAGAGAATTCACTACAAAAGG-GTTCCAGAGTATTCG
1 CCACAAAGGCATTCTAAAGAATTCGCAAC-AAAGGCTTTTCAGAGAATTCG
15646432 CCACA
1 CCACA
15646437 GAGGTTTTTT
Statistics
Matches: 122, Mismatches: 29, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
49 2 0.02
50 94 0.77
51 19 0.16
52 7 0.06
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (50 bp):
CCACAAAGGCATTCTAAAGAATTCGCAACAAAGGCTTTTCAGAGAATTCG
Found at i:15649462 original size:26 final size:27
Alignment explanation
Indices: 15649428--15649479 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
15649418 AGAATGTATG
*
15649428 TATATTTTAGTATTTTCTATAATTTTT
1 TATATTTTAGAATTTTCTATAATTTTT
* *
15649455 TATA-TTTAGAATTTTTTATTATTTT
1 TATATTTTAGAATTTTCTATAATTTT
15649480 AAAATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (27 bp):
TATATTTTAGAATTTTCTATAATTTTT
Found at i:15649469 original size:16 final size:17
Alignment explanation
Indices: 15649448--15649495 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
15649438 TATTTTCTAT
*
15649448 AATTTTTTATA-TTTAG
1 AATTTTTTATATTTTAA
15649464 AATTTTTTATTATTTTAA
1 AATTTTTTA-TATTTTAA
15649482 AATTTTTTAT-TTTT
1 AATTTTTTATATTTT
15649496 CCTTTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 13 0.45
17 3 0.10
18 13 0.45
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
AATTTTTTATATTTTAA
Found at i:15649471 original size:18 final size:18
Alignment explanation
Indices: 15649448--15649492 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
15649438 TATTTTCTAT
*
15649448 AATTTTTTA-TA-TTTAG
1 AATTTTTTATTATTTTAA
15649464 AATTTTTTATTATTTTAA
1 AATTTTTTATTATTTTAA
15649482 AATTTTTTATT
1 AATTTTTTATT
15649493 TTTCCTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 9 0.35
17 2 0.08
18 15 0.58
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
AATTTTTTATTATTTTAA
Found at i:15649520 original size:16 final size:16
Alignment explanation
Indices: 15649499--15649554 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 16
15649489 TATTTTTCCT
15649499 TTTTATTTTAAATAAA
1 TTTTATTTTAAATAAA
* *
15649515 TTTTATTTTATATAAT
1 TTTTATTTTAAATAAA
15649531 TTATATATTATTATAATAAA
1 TT-T-TATT-TTA-AATAAA
15649551 TTTT
1 TTTT
15649555 CATAAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 16 0.50
17 1 0.03
18 5 0.16
19 4 0.12
20 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTATTTTAAATAAA
Found at i:15653871 original size:2 final size:2
Alignment explanation
Indices: 15653866--15653893 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15653856 CTGCCTTTTT
15653866 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
15653894 GTAGGAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:15657432 original size:30 final size:30
Alignment explanation
Indices: 15657396--15657456 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
15657386 TGGTTGAACC
15657396 TTGGTTCTTCTTTCCATGGTGTTTTGGTGA
1 TTGGTTCTTCTTTCCATGGTGTTTTGGTGA
*
15657426 TTGGTTCTTCTTTTCATGGTGTTTTGGTGA
1 TTGGTTCTTCTTTCCATGGTGTTTTGGTGA
15657456 T
1 T
15657457 GAACAAAACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.07, C:0.11, G:0.26, T:0.56
Consensus pattern (30 bp):
TTGGTTCTTCTTTCCATGGTGTTTTGGTGA
Found at i:15659323 original size:27 final size:27
Alignment explanation
Indices: 15659303--15659595 Score: 305
Period size: 27 Copynumber: 11.0 Consensus size: 27
15659293 GGGGTATAAT
15659303 AGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
*
15659330 AGTTATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* *
15659357 GGTCATTTTATCCTAT-GGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
15659383 -GATCATTTTACCCTATGGGGGTATTT-
1 AG-TCATTTTACCCTATGGGGGTATTTC
* * *
15659409 AGGTCATTCTACCTTATGGGGGTTTTTC
1 A-GTCATTTTACCCTATGGGGGTATTTC
* *
15659437 GGTCATTTTACCCTATAGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
*
15659464 AGTCA-ATTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* *
15659490 -GATCATTTTATCCTATAGGGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTC
* * **
15659517 GGTCATTCTATTCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* *
15659544 -GATCATTTTACCCTTTGAGGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTC
* **
15659571 -GATCA-TTTATCCTATGAAGGTATTT
1 AG-TCATTTTACCCTATGGGGGTATTT
15659596 TGGTCATAAC
Statistics
Matches: 227, Mismatches: 30, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.01
26 63 0.28
27 160 0.70
28 2 0.01
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGGGGTATTTC
Found at i:15659377 original size:80 final size:81
Alignment explanation
Indices: 15659291--15659602 Score: 343
Period size: 80 Copynumber: 3.9 Consensus size: 81
15659281 TTTCATCTCC
* *
15659291 TAGGGGTATAATAG-TCATTTTACCCTATGGGGGTATTTCAGTTATTTTACCCTATGGGGGTATT
1 TAGGGGTAT-TTAGATCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATT
15659355 TCGGTCATTTTATCCTA
65 TCGGTCATTTTATCCTA
* * * *
15659372 T-GGGGTATTTCGATCATTTTACCCTATGGGGGTATTT-AGGTCATTCTACCTTATGGGGGTTTT
1 TAGGGGTATTTAGATCATTTTACCCTATGGGGGTATTTCA-GTCATTTTACCCTATGGGGGTATT
*
15659435 TCGGTCATTTTACCCTA
65 TCGGTCATTTTATCCTA
* * *
15659452 TAGGGGTATTTCAG-TCA-ATTACCCTATGGGGGTATTTC-GATCATTTTATCCTATAGGGGTAT
1 TAGGGGTATTT-AGATCATTTTACCCTATGGGGGTATTTCAG-TCATTTTACCCTATGGGGGTAT
* *
15659514 TTCGGTCATTCTATTCTA
64 TTCGGTCATTTTATCCTA
* * * * * **
15659532 TGGGGGTATTTCGATCATTTTACCCTTTGAGGGTATTTC-GATCA-TTTATCCTATGAAGGTATT
1 TAGGGGTATTTAGATCATTTTACCCTATGGGGGTATTTCAG-TCATTTTACCCTATGGGGGTATT
*
15659595 TTGGTCAT
65 TCGGTCAT
15659603 AACAGCGTAA
Statistics
Matches: 197, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.03
80 155 0.79
81 36 0.18
82 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (81 bp):
TAGGGGTATTTAGATCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTT
CGGTCATTTTATCCTA
Found at i:15659449 original size:107 final size:106
Alignment explanation
Indices: 15659291--15659595 Score: 380
Period size: 107 Copynumber: 2.8 Consensus size: 106
15659281 TTTCATCTCC
* * * * *
15659291 TAGGGGTATAATA-GTCATTTTACCCTATGGGGGTATTTCAGTTATTTTACCCTATGGGGGTATT
1 TAGGGGTAT-TTAGGTCATTCTACCTTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATT
15659355 TCGGTCATTTTATCCTATGGGGTATTTCGATCATTTTACCCTA
65 TCGGTCA-TTTATCCTATGGGGTATTTCGATCATTTTACCCTA
* * *
15659398 TGGGGGTATTTAGGTCATTCTACCTTATGGGGGTTTTTCGGTCATTTTACCCTATAGGGGTATTT
1 TAGGGGTATTTAGGTCATTCTACCTTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTT
* * * *
15659463 CAGTCAATTACCCTATGGGGGTATTTCGATCATTTTATCCTA
66 CGGTCATTTATCCTAT-GGGGTATTTCGATCATTTTACCCTA
* * * * *
15659505 TAGGGGTATTTCGGTCATTCTA-TTCTATGGGGGTATTTCGATCATTTTACCCTTTGAGGGTATT
1 TAGGGGTATTTAGGTCATTCTACCT-TATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATT
* *
15659569 TCGATCATTTATCCTATGAAGGTATTT
65 TCGGTCATTTATCCTATG-GGGTATTT
15659596 TGGTCATAAC
Statistics
Matches: 169, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
106 12 0.07
107 157 0.93
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (106 bp):
TAGGGGTATTTAGGTCATTCTACCTTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTT
CGGTCATTTATCCTATGGGGTATTTCGATCATTTTACCCTA
Found at i:15660708 original size:20 final size:20
Alignment explanation
Indices: 15660683--15660730 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
15660673 AGTTGTTTGT
15660683 TTAATTAGGTCTTAA-TTAGG
1 TTAATTAGG-CTTAATTTAGG
15660703 TTAATTTA-GCTTAATTTAGG
1 TTAA-TTAGGCTTAATTTAGG
*
15660723 ATAATTAG
1 TTAATTAG
15660731 CAAAAAGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 8 0.33
20 13 0.54
21 3 0.12
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
TTAATTAGGCTTAATTTAGG
Found at i:15661734 original size:22 final size:24
Alignment explanation
Indices: 15661706--15661749 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
15661696 TATGACAAGA
15661706 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
15661728 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
15661750 AACTTAGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:15662105 original size:37 final size:36
Alignment explanation
Indices: 15662061--15662157 Score: 99
Period size: 36 Copynumber: 2.6 Consensus size: 36
15662051 GAATATATCT
*
15662061 GTGGAATTGAATTGAATAT-TGACTTGAAAAATGGAAAA
1 GTGGAATTGAATTGAAT-TGTGA-TTG-AAAATGAAAAA
* *
15662099 GT-GAATTTTGAATTCAATTGTGATTGAAAGTGAAAAA
1 GTGGAA--TTGAATTGAATTGTGATTGAAAATGAAAAA
*
15662136 GTGGAATTGAATTGAAATGTGA
1 GTGGAATTGAATTGAATTGTGA
15662158 ATTTGGAGAC
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
36 14 0.28
37 14 0.28
38 9 0.18
39 13 0.26
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.32
Consensus pattern (36 bp):
GTGGAATTGAATTGAATTGTGATTGAAAATGAAAAA
Found at i:15662349 original size:37 final size:38
Alignment explanation
Indices: 15662248--15662349 Score: 91
Period size: 37 Copynumber: 2.6 Consensus size: 38
15662238 CAACCTTGAG
*
15662248 TCGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGAC
1 TCGATGAGACACTGGGTGTCA--A-CTTTCTTCGGATAGAC
** ** * *
15662289 TCGATGAGGTACTGGGTACCAACTTTCTTCGGCTTTG-C
1 TCGATGAGACACTGGGTGTCAACTTTCTTCGG-ATAGAC
15662327 -CGATGAGACACTGGGTGTCAACT
1 TCGATGAGACACTGGGTGTCAACT
15662350 ATTGCTTTGA
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
37 19 0.39
38 10 0.20
39 3 0.06
41 17 0.35
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (38 bp):
TCGATGAGACACTGGGTGTCAACTTTCTTCGGATAGAC
Found at i:15664296 original size:5 final size:6
Alignment explanation
Indices: 15664281--15664310 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
15664271 ATAAGAAATT
15664281 TTTTTA TTTTTA TTTTTA TTTATTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTT-TTA TTTTT
15664311 TTAAAACTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:15664304 original size:16 final size:15
Alignment explanation
Indices: 15664278--15664313 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 15
15664268 ATCATAAGAA
15664278 ATTTTTTTATTT-TT
1 ATTTTTTTATTTATT
15664292 A--TTTTTATTTATT
1 ATTTTTTTATTTATT
15664305 ATTTTTTTA
1 ATTTTTTTA
15664314 AAACTCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
12 9 0.47
13 3 0.16
14 1 0.05
15 6 0.32
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
ATTTTTTTATTTATT
Found at i:15668933 original size:180 final size:180
Alignment explanation
Indices: 15668633--15668978 Score: 577
Period size: 180 Copynumber: 1.9 Consensus size: 180
15668623 TCTCAAATAT
*
15668633 TGACTTAAGGTCAGGTTATTATCAGTTGAAGGTAAAAGAAAGTGATGTACCGAAGCCAGCTTTCC
1 TGACTTAAGGTCAGGTTATTATCAGTTGAAGGTAAAAGAAAGTGATGTACCGAAGACAGCTTTCC
* ** * *
15668698 GTACGAGGTAAAGCCGTTATGAGTTCTTAGTAATGCCATTTGGATTGATAAATGCCCCAGCCACT
66 ATACGAGGTAAAGCCACTATGAGTTCTTAGTAATGCCATTAGGATTGACAAATGCCCCAGCCACT
*
15668763 TTTATGGATCTTATGAATCGTATTTTTCAGCCGTATGTATTCTCGAAGAC
131 TTTATCGATCTTATGAATCGTATTTTTCAGCCGTATGTATTCTCGAAGAC
*
15668813 TGACTTAAGGTTAGGTTATTATCAGTTGAAGGTAAAAGAAAGTGATGTACCGAAGACAGCTTTCC
1 TGACTTAAGGTCAGGTTATTATCAGTTGAAGGTAAAAGAAAGTGATGTACCGAAGACAGCTTTCC
** *
15668878 ATACGAGGTATGGCCACTATGAGTTCTTAGTAATGCCATTCAGG-TTGACAAATGCCCCAGCCGC
66 ATACGAGGTAAAGCCACTATGAGTTCTTAGTAATGCCATT-AGGATTGACAAATGCCCCAGCCAC
15668942 TTTTATCGATCTTATGAATCGTATTTTTCAGCCGTAT
130 TTTTATCGATCTTATGAATCGTATTTTTCAGCCGTAT
15668979 TTAGACCAGT
Statistics
Matches: 154, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
180 152 0.99
181 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (180 bp):
TGACTTAAGGTCAGGTTATTATCAGTTGAAGGTAAAAGAAAGTGATGTACCGAAGACAGCTTTCC
ATACGAGGTAAAGCCACTATGAGTTCTTAGTAATGCCATTAGGATTGACAAATGCCCCAGCCACT
TTTATCGATCTTATGAATCGTATTTTTCAGCCGTATGTATTCTCGAAGAC
Found at i:15680685 original size:24 final size:23
Alignment explanation
Indices: 15680658--15680731 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 23
15680648 ATCTTGTTTA
15680658 CCATGATGCCATGGCATCTATCAC
1 CCATGATGCCAT-GCATCTATCAC
* *
15680682 CCATGCT-CTTACT-CAT-TATCA-
1 CCATGATGC-CA-TGCATCTATCAC
*
15680703 TCATGATGCCATAGCATCTATCAC
1 CCATGATGCCAT-GCATCTATCAC
15680727 CCATG
1 CCATG
15680732 CTCTTACTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
20 1 0.03
21 6 0.16
22 9 0.24
23 9 0.24
24 11 0.30
25 1 0.03
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (23 bp):
CCATGATGCCATGCATCTATCAC
Found at i:15680702 original size:22 final size:22
Alignment explanation
Indices: 15680676--15680747 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
15680666 CCATGGCATC
15680676 TATCACCCATGCTCTTACTCAT
1 TATCACCCATGCTCTTACTCAT
* * * *
15680698 TATCA-TCATGATGCCATA-GCAT
1 TATCACCCATGCT--CTTACTCAT
15680720 CTATCACCCATGCTCTTACTCAT
1 -TATCACCCATGCTCTTACTCAT
15680743 TATCA
1 TATCA
15680748 TCATGATGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
21 5 0.14
22 16 0.43
23 11 0.30
24 5 0.14
ACGTcount: A:0.26, C:0.32, G:0.07, T:0.35
Consensus pattern (22 bp):
TATCACCCATGCTCTTACTCAT
Found at i:15680788 original size:45 final size:45
Alignment explanation
Indices: 15680659--15680766 Score: 207
Period size: 45 Copynumber: 2.4 Consensus size: 45
15680649 TCTTGTTTAC
*
15680659 CATGATGCCATGGCATCTATCACCCATGCTCTTACTCATTATCAT
1 CATGATGCCATAGCATCTATCACCCATGCTCTTACTCATTATCAT
15680704 CATGATGCCATAGCATCTATCACCCATGCTCTTACTCATTATCAT
1 CATGATGCCATAGCATCTATCACCCATGCTCTTACTCATTATCAT
15680749 CATGATGCCATAGCATCT
1 CATGATGCCATAGCATCT
15680767 TTCAACTATA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (45 bp):
CATGATGCCATAGCATCTATCACCCATGCTCTTACTCATTATCAT
Found at i:15682928 original size:30 final size:30
Alignment explanation
Indices: 15682894--15682956 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
15682884 CTATTTTTTT
15682894 ATTCGATAACC-AAGGCTATCCCTTTTCATA
1 ATTCGATAACCGAA-GCTATCCCTTTTCATA
15682924 ATTCGATAACCGAAGCTATCCCTTTTCATA
1 ATTCGATAACCGAAGCTATCCCTTTTCATA
15682954 ATT
1 ATT
15682957 TGATGGTCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (30 bp):
ATTCGATAACCGAAGCTATCCCTTTTCATA
Found at i:15682975 original size:30 final size:30
Alignment explanation
Indices: 15682941--15683133 Score: 194
Period size: 30 Copynumber: 6.5 Consensus size: 30
15682931 AACCGAAGCT
15682941 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
** * *
15682971 ATCCCTTTTCATTGTTCGATGGTCGCCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * * * *
15683001 ATCCTTTTTCGTAATTTGATAGCCG-AAGCC
1 ATCCCTTTTCATAATTTGATGGTCGTCA-CC
* * **
15683031 ATCCCTTTTCCTAGTTCAATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* *
15683061 ATCCATTTCCATAA-TTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* *
15683090 ATCCATTTCCATAA-TTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
*
15683119 ATCCCGTTTCATAAT
1 ATCCCTTTTCATAAT
15683134 CGATAGCAGA
Statistics
Matches: 131, Mismatches: 29, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
29 54 0.41
30 76 0.58
31 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.37
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:15683010 original size:60 final size:60
Alignment explanation
Indices: 15682941--15683133 Score: 221
Period size: 60 Copynumber: 3.2 Consensus size: 60
15682931 AACCGAAGCT
* *
15682941 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATTGTTCGATGGTCGCCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATAGTTCGATGGTCGTCACC
* * * * * * *
15683001 ATCCTTTTTCGTAATTTGATAGCCG-AAGCCATCCCTTTTCCTAGTTCAATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCA-CCATCCCTTTTCATAGTTCGATGGTCGTCACC
* * * * *
15683061 ATCCATTTCCATAA-TTGATGGTCGTCACCATCCATTTCCATAATT-GATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATAGTTCGATGGTCGTCACC
*
15683119 ATCCCGTTTCATAAT
1 ATCCCTTTTCATAAT
15683134 CGATAGCAGA
Statistics
Matches: 107, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
58 23 0.21
59 23 0.21
60 61 0.57
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.37
Consensus pattern (60 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATAGTTCGATGGTCGTCACC
Found at i:15683016 original size:90 final size:89
Alignment explanation
Indices: 15682911--15683105 Score: 237
Period size: 90 Copynumber: 2.2 Consensus size: 89
15682901 AACCAAGGCT
* ** *
15682911 ATCCCTTTTCATAATTCGATAACCGAAGCTATCCCTTTTCATAATTTGATGGTCGTCACCATCCC
1 ATCCCTTTTCATAATTCGATAACCGAAGCCATCCCTTTTCATAATTCAATGGTCGTCACCATCCA
* **
15682976 TTTTCATTGTTCGATGGTCGCCACC
66 TTTCCATAATT-GATGGTCGCCACC
* * * * * *
15683001 ATCCTTTTTCGTAATTTGATAGCCGAAGCCATCCCTTTTCCTAGTTCAATGGTCGTCACCATCCA
1 ATCCCTTTTCATAATTCGATAACCGAAGCCATCCCTTTTCATAATTCAATGGTCGTCACCATCCA
*
15683066 TTTCCATAATTGATGGTCGTCACC
66 TTTCCATAATTGATGGTCGCCACC
* *
15683090 ATCCATTTCCATAATT
1 ATCCCTTTTCATAATT
15683106 GATGGTCGTC
Statistics
Matches: 88, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
89 25 0.28
90 63 0.72
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.37
Consensus pattern (89 bp):
ATCCCTTTTCATAATTCGATAACCGAAGCCATCCCTTTTCATAATTCAATGGTCGTCACCATCCA
TTTCCATAATTGATGGTCGCCACC
Found at i:15683095 original size:23 final size:26
Alignment explanation
Indices: 15683049--15683115 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 26
15683039 TCCTAGTTCA
15683049 ATGGTCGTCACCATCCATTTCCATAATTG
1 ATGGTCGT--CCATCCA-TTCCATAATTG
15683078 ATGGTCGTCACCATCCATTTCCATAATTG
1 ATGGTCGT--CCATCCA-TTCCATAATTG
15683107 ATGGTCGTC
1 ATGGTCGTC
15683116 ACCATCCCGT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 1 0.03
29 37 0.97
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.34
Consensus pattern (26 bp):
ATGGTCGTCCATCCATTCCATAATTG
Found at i:15683151 original size:29 final size:29
Alignment explanation
Indices: 15683119--15683181 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
15683109 GGTCGTCACC
* *
15683119 ATCCCGTTTCATAATCGATAGCAGAAGTT
1 ATCCCGTTTAATAATCGATAGCAGAAGCT
* * * *
15683148 ATCCCTTTTAATAGTCGATATCCGAAGCT
1 ATCCCGTTTAATAATCGATAGCAGAAGCT
15683177 ATCCC
1 ATCCC
15683182 ATTTTACCCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (29 bp):
ATCCCGTTTAATAATCGATAGCAGAAGCT
Done.