Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 45 of 190
Found at i:12489750 original size:26 final size:26
Alignment explanation
Indices: 12489721--12489777 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
12489711 TACCAGGGGC
12489721 AAAATCGTCAAAATTTTACTAAGGGT
1 AAAATCGTCAAAATTTTACTAAGGGT
* *
12489747 AAAATCGTCAAAATTTTGCTAGGGGT
1 AAAATCGTCAAAATTTTACTAAGGGT
12489773 AAAAT
1 AAAAT
12489778 AGGGATGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.30
Consensus pattern (26 bp):
AAAATCGTCAAAATTTTACTAAGGGT
Found at i:12492391 original size:12 final size:12
Alignment explanation
Indices: 12492374--12492398 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12492364 CATCAAATTT
12492374 TTTGTTCTAACA
1 TTTGTTCTAACA
12492386 TTTGTTCTAACA
1 TTTGTTCTAACA
12492398 T
1 T
12492399 AATGTAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTGTTCTAACA
Found at i:12501900 original size:73 final size:73
Alignment explanation
Indices: 12501779--12501948 Score: 268
Period size: 73 Copynumber: 2.3 Consensus size: 73
12501769 TGCTCAAGGC
* ** *
12501779 TTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAAACCTAAGCTGAACGACGCCGTTTTCTGAACT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAACT
12501844 TTAGGGGA
66 TTAGGGGA
* *
12501852 TTTAGCGGCGCTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAACT
12501917 TTAGGGGA
66 TTAGGGGA
* *
12501925 TTTAGCGGCATTTTTAAGAAAGCG
1 TTTAGCGGCGTTTTTGAGAAAGCG
12501949 TCGCTAATGC
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 88 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAACT
TTAGGGGA
Found at i:12501981 original size:187 final size:188
Alignment explanation
Indices: 12501667--12502362 Score: 847
Period size: 187 Copynumber: 3.8 Consensus size: 188
12501657 AAAACAAGCA
* ** * * *
12501667 TTAGCGGCATTTTCCAGAAAGCGCCGC-AAAAAACCTTAGCCCAACGACGCCATTTTCCT-AGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTT-CTGAGCT
* * * *
12501730 TTCA-GGGATTTAGCGGTGTTTTTAAAAAATCGCCGCTAATGCTCAA-GGCTTTAGCGGCGTTTT
65 TTCAGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCT-AAGGGATTTAGCGGCATTTT
* ** *
12501793 TGATAAAGCGCCGCAAAAAAACCTAAGCTGAACGACGCCGTTTTCTGAACTTTAGGGGAT
129 TGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTAGGGGAT
*
12501853 TTAGCGGCGCTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTT
** * **
12501918 T-AGGGGATTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTAAGGGATTTAGCGGTGTTTTTG
66 TCAGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTAAGGGATTTAGCGGCATTTTTG
* *
12501982 AGAAAGCGCCGCAAAAAAACCTAACCCCAATGACGCCGTTTTCTGAGCTTTCA-GGGAT
131 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT-AGGGGAT
* * * * *
12502040 TTAGCGGCGTTTTTGGGAAAGTGCCG-TAAAAAATCAAAG-CC--C-A-A-------CTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTT
* * * *
12502092 TCAGGGGATTTAGCGATGTTTTTGAGAAAGCGCCGCTAATGCTTAGGGATTTAGCGACATTTTTG
66 TCAGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTAAGGGATTTAGCGGCATTTTTG
** * *
12502157 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACATCGTTTTTTGAGCTTTCGGGGAT
131 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTAGGGGAT
* * *
12502215 TTAGCGGAGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTT
* *
12502280 TC-GGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTG
66 TCAGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTAAGGGATTTAGCGGCATTTTTG
* *
12502344 GGAAAGCTCCGCAAAAAAA
131 AGAAAGCGCCGCAAAAAAA
12502363 ATCAAAGCCC
Statistics
Matches: 434, Mismatches: 56, Indels: 39
0.82 0.11 0.07
Matches are distributed among these distances:
174 9 0.02
175 127 0.29
176 10 0.02
177 2 0.00
179 1 0.00
180 1 0.00
181 1 0.00
182 1 0.00
183 1 0.00
185 2 0.00
186 38 0.09
187 230 0.53
188 11 0.03
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (188 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTT
TCAGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTAAGGGATTTAGCGGCATTTTTG
AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTAGGGGAT
Found at i:12502060 original size:114 final size:114
Alignment explanation
Indices: 12501848--12502053 Score: 342
Period size: 114 Copynumber: 1.8 Consensus size: 114
12501838 TGAACTTTAG
*
12501848 GGGATTTAGCGGCGCTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTG
1 GGGATTTAGCGGCGCTTTTGAGAAAGCGCCGCAAAAAAACCTAACCCCAACGACACCGTTTTCTG
12501913 AGCTTTAGGGGATTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTAA
66 AGCTTTAGGGGATTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTAA
* * * *
12501962 GGGATTTAGCGGTGTTTTTGAGAAAGCGCCGCAAAAAAACCTAACCCCAATGACGCCGTTTTCTG
1 GGGATTTAGCGGCGCTTTTGAGAAAGCGCCGCAAAAAAACCTAACCCCAACGACACCGTTTTCTG
*
12502027 AGCTTTCA-GGGATTTAGCGGCGTTTTT
66 AGCTTT-AGGGGATTTAGCGGCATTTTT
12502054 GGGAAAGTGC
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
114 84 0.99
115 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (114 bp):
GGGATTTAGCGGCGCTTTTGAGAAAGCGCCGCAAAAAAACCTAACCCCAACGACACCGTTTTCTG
AGCTTTAGGGGATTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTAA
Found at i:12502256 original size:73 final size:73
Alignment explanation
Indices: 12502137--12502314 Score: 286
Period size: 73 Copynumber: 2.4 Consensus size: 73
12502127 CTAATGCTTA
* * * *
12502137 GGGATTTAGC-GACATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACATCGTTTTTT
1 GGGATTTAGCGGA-GTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCT
12502201 GAGCTTTCG
65 GAGCTTTCG
*
12502210 GGGATTTAGCGGAGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTG
1 GGGATTTAGCGGAGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTG
12502275 AGCTTTCG
66 AGCTTTCG
*
12502283 GGGATTTAGCGGTGTTTTTAAGAAAGCGCCGC
1 GGGATTTAGCGGAGTTTTTAAGAAAGCGCCGC
12502315 TAATGCTCAG
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
73 96 0.98
74 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (73 bp):
GGGATTTAGCGGAGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTG
AGCTTTCG
Found at i:12502401 original size:104 final size:104
Alignment explanation
Indices: 12502272--12502593 Score: 373
Period size: 104 Copynumber: 3.0 Consensus size: 104
12502262 ACGCCGTTTT
12502272 CTGAGCTTTC-GGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
1 CTGAGCTTTCGGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
* *
12502336 CATTTTTGGGAAAGCTCCGCAAAAAAAATCAAAGCCCAA
66 CGTTTTTGGGAAAGCTCCGCAAAAAAAACCAAAGCCCAA
* * *
12502375 CTGAGCTTTCGGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCCCAGGGATTTAACGG
1 CTGAGCTTTCGGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
* * * *
12502440 CGTTTTTGAGAAAG-TGCTGCAGAAAAAACCTAAGCCCAA
66 CGTTTTTGGGAAAGCT-CCGCAAAAAAAACCAAAGCCCAA
* *
12502479 C-GACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCA
1 CTGA-G-C--TTTC---G-----GGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTCA
* * *
12502543 GGGCTTTAGCGACGTTTTTGGGAAAGCGCCGC-AAAAAAACCTAAGCCCAA
54 GGGCTTTAGCGGCGTTTTTGGGAAAGCTCCGCAAAAAAAACCAAAGCCCAA
12502593 C
1 C
12502594 GACGTCGTTT
Statistics
Matches: 185, Mismatches: 19, Indels: 19
0.83 0.09 0.09
Matches are distributed among these distances:
103 13 0.07
104 84 0.45
105 1 0.01
107 4 0.02
110 1 0.01
114 18 0.10
115 64 0.35
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (104 bp):
CTGAGCTTTCGGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
CGTTTTTGGGAAAGCTCCGCAAAAAAAACCAAAGCCCAA
Found at i:12502620 original size:115 final size:116
Alignment explanation
Indices: 12502375--12502648 Score: 435
Period size: 115 Copynumber: 2.4 Consensus size: 116
12502365 CAAAGCCCAA
* * *
12502375 CTGAGCTTTCGGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCCCAGGGATTTAACGG
1 CTGAGCTTTTGGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCCCAGGGATTTAACGA
* *
12502440 CGTTTTTGAGAAAGTGCTGCAGAAAAAACCTAAGCCCAACGACGTCGTTTT
66 CGTTTTTGAGAAAGCGCCGCAGAAAAAACCTAAGCCCAACGACGTCGTTTT
* * * * *
12502491 CTGAGC-TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGA
1 CTGAGCTTTTGGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCCCAGGGATTTAACGA
*
12502555 CGTTTTTGGGAAAGCGCCGCA-AAAAAACCTAAGCCCAACGACGTCGTTTT
66 CGTTTTTGAGAAAGCGCCGCAGAAAAAACCTAAGCCCAACGACGTCGTTTT
12502605 CTGAGCTTTTGGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
1 CTGAGCTTTTGGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
12502649 AAAATAACCT
Statistics
Matches: 144, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
114 35 0.24
115 103 0.72
116 6 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (116 bp):
CTGAGCTTTTGGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCCCAGGGATTTAACGA
CGTTTTTGAGAAAGCGCCGCAGAAAAAACCTAAGCCCAACGACGTCGTTTT
Found at i:12502668 original size:74 final size:73
Alignment explanation
Indices: 12502547--12502710 Score: 265
Period size: 74 Copynumber: 2.2 Consensus size: 73
12502537 TGCTCAGGGC
* ** *
12502547 TTTAGCGACGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC-
*
12502612 TTTGGGGGA
65 TTTCGGGGA
*
12502621 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAATAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
12502686 TTCGGGGA
66 TTCGGGGA
12502694 TTTAGCGGCGTTTTTAA
1 TTTAGCGGCGTTTTTAA
12502711 TAATTTGTCT
Statistics
Matches: 84, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 25 0.30
74 59 0.70
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCGGGGA
Found at i:12502734 original size:9 final size:9
Alignment explanation
Indices: 12502720--12502771 Score: 74
Period size: 8 Copynumber: 6.0 Consensus size: 9
12502710 ATAATTTGTC
12502720 TATTTAATT
1 TATTTAATT
12502729 TATTTAA-T
1 TATTTAATT
12502737 TATTT-ATT
1 TATTTAATT
12502745 TATTTAATT
1 TATTTAATT
12502754 TATTT-ATT
1 TATTTAATT
12502762 TATATTAATT
1 TAT-TTAATT
12502772 AAAATTCAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
7 1 0.03
8 18 0.46
9 17 0.44
10 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTAATT
Found at i:12502735 original size:25 final size:25
Alignment explanation
Indices: 12502706--12502759 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
12502696 TAGCGGCGTT
*
12502706 TTTAATAATTTGTCTATTTAATTTA
1 TTTAATAATTTATCTATTTAATTTA
* *
12502731 TTTAATTATTTATTTATTTAATTTA
1 TTTAATAATTTATCTATTTAATTTA
12502756 TTTA
1 TTTA
12502760 TTTATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTAATAATTTATCTATTTAATTTA
Found at i:12502740 original size:17 final size:16
Alignment explanation
Indices: 12502720--12502772 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 16
12502710 ATAATTTGTC
12502720 TATTTAATTTATTTAAT
1 TATTT-ATTTATTTAAT
12502737 TATTTATTTATTTAATT
1 TATTTATTTATTTAA-T
12502754 TATTTATTTATATTAAT
1 TATTTATTTAT-TTAAT
12502771 TA
1 TA
12502773 AAATTCAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.29
17 20 0.59
18 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTATTTATTTAAT
Found at i:12502743 original size:4 final size:4
Alignment explanation
Indices: 12502720--12502764 Score: 63
Period size: 4 Copynumber: 10.8 Consensus size: 4
12502710 ATAATTTGTC
*
12502720 TATT TAATT TATT TAAT TATT TATT TATT TAATT TATT TATT TAT
1 TATT T-ATT TATT TATT TATT TATT TATT T-ATT TATT TATT TAT
12502765 ATTAATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 29 0.78
5 8 0.22
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (4 bp):
TATT
Found at i:12503151 original size:14 final size:15
Alignment explanation
Indices: 12503123--12503155 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
12503113 AAGGTTTATA
12503123 GATTATGGAATTAGG
1 GATTATGGAATTAGG
12503138 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
12503152 GATT
1 GATT
12503156 TTGGGGTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:12503663 original size:13 final size:13
Alignment explanation
Indices: 12503647--12503674 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12503637 TGGATAATTA
12503647 AATAAATTAATGT
1 AATAAATTAATGT
12503660 AATAAATTAATGT
1 AATAAATTAATGT
12503673 AA
1 AA
12503675 CAGATTGACA
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:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (13 bp):
AATAAATTAATGT
Found at i:12507525 original size:43 final size:43
Alignment explanation
Indices: 12507478--12507764 Score: 380
Period size: 43 Copynumber: 6.7 Consensus size: 43
12507468 CGAGAAGCAT
* **
12507478 CGCTAAAGGTCCTGATCTTTAATGGCGTTTGT-GGAATAAGCGC
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAA-AAGCGC
* * *
12507521 CGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTGGGAAAAGCGT
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
* * * * *
12507564 CGCTGAAGGTCCTGATCTTTAGCGGCGTTTGTGGTAACAGCAC
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
* *
12507607 CGCTAAAGATCCTGATCTATAGCGGCATTTGTGGGAAAAGCGC
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
* *
12507650 CGCTAAAGATCCTGATCTATAGCGGCGTTTGT-GGAAAAGCAC
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
* * *
12507692 CGCTAAAGGTCCTAACCTATAGCGGCGTTTGTGGGGAAAGCGC
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
*
12507735 CGCTAAAGGTCATGATCTATAGCGGCGTTT
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTT
12507765 ATTTCTAAAA
Statistics
Matches: 215, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 38 0.18
43 173 0.80
44 4 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (43 bp):
CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
Found at i:12513235 original size:50 final size:50
Alignment explanation
Indices: 12513127--12513308 Score: 256
Period size: 50 Copynumber: 3.6 Consensus size: 50
12513117 ATATGTCAAA
** * * *
12513127 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAC
** *
12513178 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* *
12513228 GCCATGTCCCAAACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
12513278 GCCATGTCCCAGACATGGTCTTACAAGGGAC
1 GCCATGTCCCAGACATGGTCTTACATGGGAC
12513309 TTCTTTACCC
Statistics
Matches: 115, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 87 0.76
51 28 0.24
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:12515484 original size:75 final size:75
Alignment explanation
Indices: 12515385--12515526 Score: 248
Period size: 75 Copynumber: 1.9 Consensus size: 75
12515375 TTCATGGCGT
*
12515385 ACTCTTAAGAATCGCCCTTGTGGTGAACTATGAATGGATCGCTTTAGTGGCATGTTCTATCTTAT
1 ACTCTTAAGAATCGCCCTAGTGGTGAACTATGAATGGATCGCTTTAGTGGCATGTTCTATCTTAT
12515450 TGGCATGTTC
66 TGGCATGTTC
* * *
12515460 ACTCTTAAGAATCGCCCTAGTGGTGGACTTTGAATGGATTGCTTTAGTGGCATGTTCTATCTTAT
1 ACTCTTAAGAATCGCCCTAGTGGTGAACTATGAATGGATCGCTTTAGTGGCATGTTCTATCTTAT
12515525 TG
66 TG
12515527 TTGGTAAAGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (75 bp):
ACTCTTAAGAATCGCCCTAGTGGTGAACTATGAATGGATCGCTTTAGTGGCATGTTCTATCTTAT
TGGCATGTTC
Found at i:12521396 original size:12 final size:12
Alignment explanation
Indices: 12521379--12521404 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12521369 CTACTACAAA
12521379 AAAATCAATTTT
1 AAAATCAATTTT
12521391 AAAATCAATTTT
1 AAAATCAATTTT
12521403 AA
1 AA
12521405 TTTTAAATTT
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:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATCAATTTT
Found at i:12524397 original size:32 final size:33
Alignment explanation
Indices: 12524356--12524418 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
12524346 TACATGACTA
*
12524356 AGATACATCTACTTTAAA-ACATTCATTAAACT
1 AGATACATCTACTCTAAATACATTCATTAAACT
12524388 AGATACATCTACTCTAAATACATTCATTAAA
1 AGATACATCTACTCTAAATACATTCATTAAA
12524419 TACAAGTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.33
Consensus pattern (33 bp):
AGATACATCTACTCTAAATACATTCATTAAACT
Found at i:12527058 original size:68 final size:68
Alignment explanation
Indices: 12526977--12527164 Score: 261
Period size: 68 Copynumber: 2.8 Consensus size: 68
12526967 TTCCATTTTC
* * *
12526977 TGTCATAGCCCAACTATGATCCTACACAATATAACCCCATGTTTATTGTCCTAGTGGACTTCA-T
1 TGTCATAGCCCAACTATGGTCTTACACAATATAA-CCCATGTTTATTGTCCTAGAGGACTTCATT
12527041 TTAT
65 TTAT
* *
12527045 TGTCATAGCCCAACTATGGTCTTACACAATATAACCCATGTTTATTGTCTTGGAGGACTTCATTT
1 TGTCATAGCCCAACTATGGTCTTACACAATATAACCCATGTTTATTGTCCTAGAGGACTTCATTT
*
12527110 TGT
66 TAT
* * * *
12527113 TGCCATAGCCCAATTATGGTCTTACACAATATAATCCCAAGTTTATTATCCT
1 TGTCATAGCCCAACTATGGTCTTACACAATATAA-CCCATGTTTATTGTCCT
12527165 GACAGACTTC
Statistics
Matches: 107, Mismatches: 11, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
67 25 0.23
68 68 0.64
69 14 0.13
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (68 bp):
TGTCATAGCCCAACTATGGTCTTACACAATATAACCCATGTTTATTGTCCTAGAGGACTTCATTT
TAT
Found at i:12529455 original size:22 final size:23
Alignment explanation
Indices: 12529417--12529460 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
12529407 GGGGACACAT
12529417 GCCCGTGTGGCCAGGCCGTGTGA
1 GCCCGTGTGGCCAGGCCGTGTGA
*
12529440 GCCCGTGT-TCCAGGCCGTGTG
1 GCCCGTGTGGCCAGGCCGTGTG
12529461 GGCATTCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.07, C:0.32, G:0.41, T:0.20
Consensus pattern (23 bp):
GCCCGTGTGGCCAGGCCGTGTGA
Found at i:12529981 original size:51 final size:51
Alignment explanation
Indices: 12529926--12530038 Score: 219
Period size: 51 Copynumber: 2.2 Consensus size: 51
12529916 CCATTTAACG
12529926 TATATGCATTTTGGACTAAATATGCTAACTCAAACTAACCATCAATATATC
1 TATATGCATTTTGGACTAAATATGCTAACTCAAACTAACCATCAATATATC
12529977 TATATGCATTTTGGACTAAATATGCTAACTCAAACTAACCATCAATATATC
1 TATATGCATTTTGGACTAAATATGCTAACTCAAACTAACCATCAATATATC
12530028 TATATGC-TTTT
1 TATATGCATTTT
12530039 CAACACTTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 4 0.06
51 58 0.94
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (51 bp):
TATATGCATTTTGGACTAAATATGCTAACTCAAACTAACCATCAATATATC
Found at i:12541319 original size:16 final size:16
Alignment explanation
Indices: 12541293--12541326 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
12541283 GTAATGAAAA
12541293 CTCCCATC-TTTATTT
1 CTCCCATCTTTTATTT
12541308 CTCCCTATCTTTTATTT
1 CTCCC-ATCTTTTATTT
12541325 CT
1 CT
12541327 ACTACACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 3 0.18
17 9 0.53
ACGTcount: A:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (16 bp):
CTCCCATCTTTTATTT
Found at i:12542644 original size:87 final size:87
Alignment explanation
Indices: 12542538--12542713 Score: 298
Period size: 87 Copynumber: 2.0 Consensus size: 87
12542528 TTCTAGCTGA
* * *
12542538 CTCTTTACCTAAGGTAGTCCTCACCGGACTTTCTCATTTGCTAGTCCCTATCATCTCTCTCGCTT
1 CTCTTTACCTAAGGTAGTCCGCACCGGACTTCCTCATCTGCTAGTCCCTATCATCTCTCTCGCTT
12542603 TATGTAGTCCTAACCAGACATT
66 TATGTAGTCCTAACCAGACATT
* * *
12542625 CTCTTTACCTAAGGTAGTCCGCAGCGGACTTCCTCGTCTGCTAGTCCCTATCGTCTCTCTCGCTT
1 CTCTTTACCTAAGGTAGTCCGCACCGGACTTCCTCATCTGCTAGTCCCTATCATCTCTCTCGCTT
12542690 TATGTAGTCCTAACCAGACATT
66 TATGTAGTCCTAACCAGACATT
12542712 CT
1 CT
12542714 TTTTCTGTAA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.18, C:0.32, G:0.15, T:0.35
Consensus pattern (87 bp):
CTCTTTACCTAAGGTAGTCCGCACCGGACTTCCTCATCTGCTAGTCCCTATCATCTCTCTCGCTT
TATGTAGTCCTAACCAGACATT
Found at i:12543142 original size:16 final size:16
Alignment explanation
Indices: 12543121--12543190 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
12543111 TTTGGTTCGC
* *
12543121 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
12543137 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
12543153 TGTAATGAAATAGAGG
1 TGTAATGGAATAGAGG
12543169 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
12543185 TGTAAT
1 TGTAAT
12543191 AGCAAATCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.33, C:0.00, G:0.34, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:12543223 original size:45 final size:45
Alignment explanation
Indices: 12543169--12543278 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 45
12543159 GAAATAGAGG
12543169 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
* * ***
12543214 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
12543258 TG--A---AATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
12543279 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 15 0.26
42 1 0.02
44 18 0.32
45 23 0.40
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (45 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
Found at i:12543432 original size:25 final size:25
Alignment explanation
Indices: 12543400--12543454 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
12543390 TAATTTAATC
*
12543400 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
12543424 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
12543449 ATATAT
1 ATATAT
12543455 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:12554675 original size:17 final size:17
Alignment explanation
Indices: 12554637--12554673 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
12554627 AGTTATTCAC
12554637 TTTTATTTTATTTCATT
1 TTTTATTTTATTTCATT
*
12554654 TTTTATTTT-TTTTATT
1 TTTTATTTTATTTCATT
12554670 TTTT
1 TTTT
12554674 TAAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTATTTTATTTCATT
Found at i:12557316 original size:8 final size:8
Alignment explanation
Indices: 12557303--12557331 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
12557293 ATATTCAATC
12557303 ATACCATT
1 ATACCATT
12557311 ATACCATT
1 ATACCATT
12557319 ATACCATT
1 ATACCATT
12557327 ATACC
1 ATACC
12557332 TCCAATGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (8 bp):
ATACCATT
Found at i:12558534 original size:17 final size:17
Alignment explanation
Indices: 12558512--12558550 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
12558502 TGTCAACACT
*
12558512 ATTCAGTTC-TTAAATCA
1 ATTCAGTTCAATAAAT-A
12558529 ATTCAGTTCAATAAATA
1 ATTCAGTTCAATAAATA
12558546 ATTCA
1 ATTCA
12558551 ATGTACATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (17 bp):
ATTCAGTTCAATAAATA
Found at i:12562874 original size:15 final size:15
Alignment explanation
Indices: 12562854--12562907 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
12562844 TGACTACTAG
12562854 ATACATCTATTCTAA
1 ATACATCTATTCTAA
* *
12562869 ATACATTTATTAAACTAG
1 ATACATCTATT---CTAA
*
12562887 ATACATCTACTCTAA
1 ATACATCTATTCTAA
12562902 ATACAT
1 ATACAT
12562908 TCATTAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 19 0.61
18 12 0.39
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (15 bp):
ATACATCTATTCTAA
Found at i:12562886 original size:33 final size:33
Alignment explanation
Indices: 12562849--12562915 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
12562839 ATGCATGACT
* *
12562849 ACTAGATACATCTATTCTAAATACATTTATTAA
1 ACTAGATACATCTACTCTAAATACATTCATTAA
12562882 ACTAGATACATCTACTCTAAATACATTCATTAA
1 ACTAGATACATCTACTCTAAATACATTCATTAA
12562915 A
1 A
12562916 TAAAAGTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.36
Consensus pattern (33 bp):
ACTAGATACATCTACTCTAAATACATTCATTAA
Found at i:12562892 original size:18 final size:16
Alignment explanation
Indices: 12562848--12562895 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
12562838 CATGCATGAC
12562848 TACTAGATACATCTAT
1 TACTAGATACATCTAT
* *
12562864 T-CTAAATACATTTAT
1 TACTAGATACATCTAT
12562879 TAAACTAGATACATCTA
1 T--ACTAGATACATCTA
12562896 CTCTAAATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 13 0.52
16 1 0.04
18 11 0.44
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.38
Consensus pattern (16 bp):
TACTAGATACATCTAT
Found at i:12565546 original size:16 final size:16
Alignment explanation
Indices: 12565525--12565559 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
12565515 ATTTTTTAAA
*
12565525 AAATTTTTATAGTTTT
1 AAATTTTTATAATTTT
12565541 AAATTTTTATAATTTT
1 AAATTTTTATAATTTT
12565557 AAA
1 AAA
12565560 AAAATTGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
AAATTTTTATAATTTT
Found at i:12569704 original size:59 final size:59
Alignment explanation
Indices: 12569612--12569731 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
12569602 AGGCCAAAAG
12569612 GCATCACCAAAAACTCATAGTGACTTTCATGAGTTTTGAAAGTTGTTTTGGGAATGTCA
1 GCATCACCAAAAACTCATAGTGACTTTCATGAGTTTTGAAAGTTGTTTTGGGAATGTCA
12569671 GCATCACCAAAAACTCATAGTGACTTTCATGAGTTTTGAAAGTTGTTTTGGGAATGTCA
1 GCATCACCAAAAACTCATAGTGACTTTCATGAGTTTTGAAAGTTGTTTTGGGAATGTCA
12569730 GC
1 GC
12569732 TTCAAACATC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (59 bp):
GCATCACCAAAAACTCATAGTGACTTTCATGAGTTTTGAAAGTTGTTTTGGGAATGTCA
Found at i:12572946 original size:59 final size:60
Alignment explanation
Indices: 12572817--12572946 Score: 158
Period size: 59 Copynumber: 2.2 Consensus size: 60
12572807 CTATATCGAT
**
12572817 TAGTTGGGTGATCAAATTAAAAAAAATTGATAGTTGGGTGACAAAAAGGAAAAAAGACAA
1 TAGTTGGGTGATCAAATTAAAAAAAATTGATAGTTGAATGACAAAAAGGAAAAAAGACAA
* * * * *
12572877 TAATTAGGTGATCAAGTT-AAAAAAATTGATAGTTGAATGATAATAAA-G-AAAAGGAGCAA
1 TAGTTGGGTGATCAAATTAAAAAAAATTGATAGTTGAATGACAA-AAAGGAAAAAAGA-CAA
12572936 TAGTTGGGTGA
1 TAGTTGGGTGA
12572947 CTTGTATTGC
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
58 6 0.10
59 35 0.59
60 18 0.31
ACGTcount: A:0.48, C:0.04, G:0.24, T:0.25
Consensus pattern (60 bp):
TAGTTGGGTGATCAAATTAAAAAAAATTGATAGTTGAATGACAAAAAGGAAAAAAGACAA
Found at i:12573284 original size:21 final size:21
Alignment explanation
Indices: 12573260--12573303 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
12573250 TGCAGTTTCC
*
12573260 ACAACAGCAGCAGCAGCAACA
1 ACAACAACAGCAGCAGCAACA
12573281 ACAACAACAGCAGCAGCAACA
1 ACAACAACAGCAGCAGCAACA
12573302 AC
1 AC
12573304 CCCTTTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.34, G:0.16, T:0.00
Consensus pattern (21 bp):
ACAACAACAGCAGCAGCAACA
Found at i:12583216 original size:3 final size:3
Alignment explanation
Indices: 12583208--12583256 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
12583198 AATGCTTCTG
12583208 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12583256 T
1 T
12583257 TGTTTAGTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12586906 original size:15 final size:15
Alignment explanation
Indices: 12586857--12586916 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
12586847 CTTATTTACT
12586857 TTAATTAAATATTTAA
1 TTAATTAAA-ATTTAA
*
12586873 TTACTT--AA-TTAA
1 TTAATTAAAATTTAA
*
12586885 CTTAATTAAACTTTAA
1 -TTAATTAAAATTTAA
12586901 TTAATTAAAATTTAA
1 TTAATTAAAATTTAA
12586916 T
1 T
12586917 CACAATTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
12 4 0.11
13 6 0.17
14 1 0.03
15 16 0.44
16 9 0.25
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAATTAAAATTTAA
Found at i:12595483 original size:12 final size:12
Alignment explanation
Indices: 12595466--12595493 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
12595456 GTCTTTTTCG
12595466 TTTAATCAACTA
1 TTTAATCAACTA
12595478 TTTAATCAACTA
1 TTTAATCAACTA
12595490 TTTA
1 TTTA
12595494 GTCTTAACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTAATCAACTA
Found at i:12600339 original size:50 final size:50
Alignment explanation
Indices: 12600224--12600416 Score: 296
Period size: 50 Copynumber: 3.8 Consensus size: 50
12600214 GATAATAACA
* ** *
12600224 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * **
12600275 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
12600325 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
12600375 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
12600417 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 96 0.74
51 33 0.26
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:12600788 original size:30 final size:30
Alignment explanation
Indices: 12600754--12600811 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
12600744 CCTCGACTCT
*
12600754 AACTTTGGCAAAATTACGATTTTGCCCCTA
1 AACTTTGACAAAATTACGATTTTGCCCCTA
* * *
12600784 AACTTTTACATAATTACGCTTTTGCCCC
1 AACTTTGACAAAATTACGATTTTGCCCC
12600812 AAAGTTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.36
Consensus pattern (30 bp):
AACTTTGACAAAATTACGATTTTGCCCCTA
Found at i:12603604 original size:22 final size:22
Alignment explanation
Indices: 12603539--12603604 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
12603529 TTTATTGTTC
*
12603539 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
12603561 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
12603583 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
12603605 CGAACGACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:12610985 original size:54 final size:54
Alignment explanation
Indices: 12610926--12611028 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
12610916 TTTTTTTCGT
** * *
12610926 GTGCTGGGACACTAATGGTTGGCATCCTTGTACTAGATTTGAAAAAAAATTGGG
1 GTGCTGGGACACTAATGGCCGGCACCCTTGTACCAGATTTGAAAAAAAATTGGG
*
12610980 GTGCTGGGACACTATTGGCCGGCACCCTTGTACCAGATTTGAAAAAAAA
1 GTGCTGGGACACTAATGGCCGGCACCCTTGTACCAGATTTGAAAAAAAA
12611029 AATTTGGGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (54 bp):
GTGCTGGGACACTAATGGCCGGCACCCTTGTACCAGATTTGAAAAAAAATTGGG
Found at i:12611062 original size:56 final size:54
Alignment explanation
Indices: 12610951--12611064 Score: 129
Period size: 56 Copynumber: 2.1 Consensus size: 54
12610941 TGGTTGGCAT
* ** * * **
12610951 CCTTGTACTAGATTTGAAAAAAAATTGGGGTGCTGGGACACTATTGGCCGGCAC
1 CCTTGTACCAGATTTGAAAAAAAATTGGGGTGCAAGAACACTAATGGCCAACAC
* *
12611005 CCTTGTACCAGATTTGAAAAAAAAAATTTGGGTGCAAGAACACTAATGGTCAACAC
1 CCTTGTACCAGATTTG--AAAAAAAATTGGGGTGCAAGAACACTAATGGCCAACAC
12611061 CCTT
1 CCTT
12611065 TCAATATATA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 15 0.31
56 34 0.69
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (54 bp):
CCTTGTACCAGATTTGAAAAAAAATTGGGGTGCAAGAACACTAATGGCCAACAC
Found at i:12611753 original size:18 final size:18
Alignment explanation
Indices: 12611730--12611777 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
12611720 GTGAGGAAGG
*
12611730 GTCCGATAATGAAGAGCA
1 GTCCGACAATGAAGAGCA
*
12611748 GTCCGACCATGAAGAGCA
1 GTCCGACAATGAAGAGCA
*
12611766 GTCCGACCATGA
1 GTCCGACAATGA
12611778 TATTGAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.33, C:0.25, G:0.27, T:0.15
Consensus pattern (18 bp):
GTCCGACAATGAAGAGCA
Found at i:12614020 original size:28 final size:27
Alignment explanation
Indices: 12613988--12614047 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 27
12613978 AGTATTGTTT
12613988 AAATTATTCAATTATTATATAGTGTAAA
1 AAATTATT-AATTATTATATAGTGTAAA
*
12614016 AAA-T-TTGATTATTATATAGTGTAAA
1 AAATTATTAATTATTATATAGTGTAAA
12614041 ATAATTA
1 A-AATTA
12614048 AGTAAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
25 19 0.68
26 4 0.14
27 2 0.07
28 3 0.11
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (27 bp):
AAATTATTAATTATTATATAGTGTAAA
Found at i:12614026 original size:25 final size:26
Alignment explanation
Indices: 12613998--12614046 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
12613988 AAATTATTCA
12613998 ATTATTATATAGTGTAAAA-AATTTG
1 ATTATTATATAGTGTAAAATAATTTG
12614023 ATTATTATATAGTGTAAAATAATT
1 ATTATTATATAGTGTAAAATAATT
12614047 AAGTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (26 bp):
ATTATTATATAGTGTAAAATAATTTG
Found at i:12614244 original size:17 final size:17
Alignment explanation
Indices: 12614224--12614413 Score: 103
Period size: 18 Copynumber: 9.8 Consensus size: 17
12614214 ATTTGAAATT
12614224 AAATGAAAT-AAATTAGA
1 AAATGAAATGAAATTA-A
*
12614241 AAATGAAATGAAACTAA
1 AAATGAAATGAAATTAA
12614258 AAATTGAAATGAAATAAATTAA
1 AAA-TGAAATG----AAATTAA
*
12614280 AAATGAAATGAAATGAA
1 AAATGAAATGAAATTAA
12614297 AAATTGAAATGAAATAAACTAAAA
1 AAA-TGAAATGAAAT----T--AA
*
12614321 AAATGAAATGAAACTAA
1 AAATGAAATGAAATTAA
*
12614338 AAATTGAAATGAAATGAACAAA
1 AAA-TGAAATGAAAT----TAA
12614360 AAATTGAAATGAAATAAATAA
1 AAA-TGAAATGAAAT---TAA
**
12614381 AAATTGAAATGAAACAAA
1 AAA-TGAAATGAAATTAA
12614399 AAATTGAAATGAAAT
1 AAA-TGAAATGAAAT
12614414 AAATTAAATT
Statistics
Matches: 143, Mismatches: 12, Indels: 35
0.75 0.06 0.18
Matches are distributed among these distances:
17 27 0.19
18 49 0.34
19 1 0.01
21 25 0.17
22 26 0.18
23 10 0.07
24 5 0.03
ACGTcount: A:0.65, C:0.03, G:0.12, T:0.21
Consensus pattern (17 bp):
AAATGAAATGAAATTAA
Found at i:12614283 original size:39 final size:39
Alignment explanation
Indices: 12614219--12614416 Score: 221
Period size: 39 Copynumber: 5.0 Consensus size: 39
12614209 TGAAAATTTG
*
12614219 AAATT-AAATGAAATAAATTAGAAAATGAAATGAAACTAA
1 AAATTGAAATGAAATAAA-TAAAAAATGAAATGAAACTAA
*
12614258 AAATTGAAATGAAATAAATTAAAAATGAAATGAAA-TGAA
1 AAATTGAAATGAAATAAATAAAAAATGAAATGAAACT-AA
12614297 AAATTGAAATGAAATAAACTAAAAAAATGAAATGAAACTAA
1 AAATTGAAATGAAATAAA-T-AAAAAATGAAATGAAACTAA
* *
12614338 AAATTGAAATGAAATGAACAAAAAATTGAAATGAAA-TAA
1 AAATTGAAATGAAATAAATAAAAAA-TGAAATGAAACTAA
*
12614377 ATAA---AAATTGAAATGAAACAAAAAATTGAAATGAAA-TAA
1 A-AATTGAAA-TGAAAT-AAATAAAAAA-TGAAATGAAACTAA
12614416 A
1 A
12614417 TTAAATTTAA
Statistics
Matches: 144, Mismatches: 6, Indels: 18
0.86 0.04 0.11
Matches are distributed among these distances:
37 3 0.02
38 7 0.05
39 74 0.51
40 25 0.17
41 34 0.24
42 1 0.01
ACGTcount: A:0.65, C:0.03, G:0.11, T:0.21
Consensus pattern (39 bp):
AAATTGAAATGAAATAAATAAAAAATGAAATGAAACTAA
Found at i:12614390 original size:6 final size:5
Alignment explanation
Indices: 12614168--12614422 Score: 95
Period size: 5 Copynumber: 49.2 Consensus size: 5
12614158 AACAAAAAAT
* * *
12614168 TGAAA TGAAA TGAAA TGAAA T-AAA TTAAAAA GGAAA TGTAA TGAAAA
1 TGAAA TGAAA TGAAA TGAAA TGAAA -T-GAAA TGAAA TGAAA TG-AAA
* *
12614215 TTTGAAA TTAAA TGAAA T-AAA TTAGAAAA TGAAA TGAAA CTAAAAA TTGAAA
1 --TGAAA TGAAA TGAAA TGAAA -T-G-AAA TGAAA TGAAA -T-GAAA -TGAAA
* *
12614267 TGAAA T-AAA TTAAAAA TGAAA TGAAA TGAAA --AAT TGAAA TGAAA T-AAA
1 TGAAA TGAAA -T-GAAA TGAAA TGAAA TGAAA TGAAA TGAAA TGAAA TGAAA
* * **
12614315 CT-AAA -AAAA TGAAA TGAAA CTAAAAA TTGAAA TGAAA TGAACA AAAAA
1 -TGAAA TGAAA TGAAA TGAAA -T-GAAA -TGAAA TGAAA TGAA-A TGAAA
* *
12614363 TTGAAA TGAAA T-AAA TAAAAA TTGAAA TGAAA -CAAA --AAA TTGAAA
1 -TGAAA TGAAA TGAAA T-GAAA -TGAAA TGAAA TGAAA TGAAA -TGAAA
*
12614408 TGAAA T-AAA TTAAA T
1 TGAAA TGAAA TGAAA T
12614423 TTAAAATTTA
Statistics
Matches: 196, Mismatches: 23, Indels: 62
0.70 0.08 0.22
Matches are distributed among these distances:
3 5 0.03
4 26 0.13
5 114 0.58
6 27 0.14
7 19 0.10
8 5 0.03
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (5 bp):
TGAAA
Found at i:12614431 original size:7 final size:7
Alignment explanation
Indices: 12614419--12614444 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12614409 GAAATAAATT
12614419 AAATTTA
1 AAATTTA
12614426 AAATTTA
1 AAATTTA
12614433 AAATTTA
1 AAATTTA
12614440 AAATT
1 AAATT
12614445 GAAATGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:12614447 original size:102 final size:100
Alignment explanation
Indices: 12614241--12614457 Score: 285
Period size: 102 Copynumber: 2.1 Consensus size: 100
12614231 ATAAATTAGA
* **
12614241 AAATGAAATGAAACTAAAAATTGAAATGAAATAAATTAAAAATGAAATGAAATGAAAAATTGAAA
1 AAATGAAATG-AACAAAAAATTGAAATGAAATAAATTAAAAATGAAATGAAACAAAAAATTGAAA
*
12614306 TGAAATAAACTAAAAAAATGAAATGAAACTAAAAATTG
65 TGAAATAAACTAAAAAAAT--AATAAAACTAAAAATTG
12614344 AAATGAAATGAACAAAAAATTGAAATGAAATAAA-TAAAAATTGAAATGAAACAAAAAATTGAAA
1 AAATGAAATGAACAAAAAATTGAAATGAAATAAATTAAAAA-TGAAATGAAACAAAAAATTGAAA
* * * *
12614408 TGAAATAAATTAAATTTAAAAT-TTAAAATTTAAAATTG
65 TGAAATAAACTAAA---AAAATAATAAAACTAAAAATTG
12614446 AAATGAAATGAA
1 AAATGAAATGAA
12614458 ATAAATTTAT
Statistics
Matches: 102, Mismatches: 8, Indels: 9
0.86 0.07 0.08
Matches are distributed among these distances:
101 6 0.06
102 81 0.79
103 10 0.10
105 5 0.05
ACGTcount: A:0.64, C:0.02, G:0.11, T:0.24
Consensus pattern (100 bp):
AAATGAAATGAACAAAAAATTGAAATGAAATAAATTAAAAATGAAATGAAACAAAAAATTGAAAT
GAAATAAACTAAAAAAATAATAAAACTAAAAATTG
Found at i:12615111 original size:20 final size:20
Alignment explanation
Indices: 12615064--12615103 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
12615054 GCAATACGGT
*
12615064 CAAATATTCACTAATTTATA
1 CAAATATTCACTAATTGATA
12615084 CAAATATTCACTAATTGATA
1 CAAATATTCACTAATTGATA
12615104 AATATATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.38
Consensus pattern (20 bp):
CAAATATTCACTAATTGATA
Found at i:12626602 original size:17 final size:17
Alignment explanation
Indices: 12626582--12626615 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12626572 ATGTTATATA
*
12626582 AAAGGTTAAGAGTTATG
1 AAAGGTCAAGAGTTATG
12626599 AAAGGTCAAGAGTTATG
1 AAAGGTCAAGAGTTATG
12626616 TTGTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.29, T:0.26
Consensus pattern (17 bp):
AAAGGTCAAGAGTTATG
Found at i:12630852 original size:17 final size:17
Alignment explanation
Indices: 12630830--12630867 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
12630820 AGTTATGTTA
12630830 TATGAAAGGTCAAGAGT
1 TATGAAAGGTCAAGAGT
12630847 TATGAAAGGTCAAGAGT
1 TATGAAAGGTCAAGAGT
12630864 TATG
1 TATG
12630868 TTGTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.29, T:0.26
Consensus pattern (17 bp):
TATGAAAGGTCAAGAGT
Found at i:12631920 original size:45 final size:43
Alignment explanation
Indices: 12631854--12631948 Score: 127
Period size: 45 Copynumber: 2.2 Consensus size: 43
12631844 TTTAAGTCTA
*
12631854 AATTAAAAAAAAAATCTTATTTGCTTCAAAATAAAAATAAAAT
1 AATTAAAAAAAAAATCTTATTTACTTCAAAATAAAAATAAAAT
* * * *
12631897 AATTAAAAAAATATAATTTTATTTACTTTAAAATAAAAATATAGT
1 AATTAAAAAAA-A-AATCTTATTTACTTCAAAATAAAAATAAAAT
12631942 AATTAAA
1 AATTAAA
12631949 TTAAGTTTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
43 11 0.24
44 1 0.02
45 33 0.73
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (43 bp):
AATTAAAAAAAAAATCTTATTTACTTCAAAATAAAAATAAAAT
Found at i:12638496 original size:31 final size:32
Alignment explanation
Indices: 12638460--12638524 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
12638450 CTTAGATAAT
12638460 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
12638491 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
12638523 TT
1 TT
12638525 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:12638876 original size:30 final size:27
Alignment explanation
Indices: 12638825--12638884 Score: 66
Period size: 30 Copynumber: 2.1 Consensus size: 27
12638815 AAATCTATCC
*
12638825 TTTTATTATTATTATTATTATTTAACTAA
1 TTTTATTATTATCATTATTATTT--CTAA
* *
12638854 TTTTATTTATTCTCATTTTTATTTCTAA
1 TTTTA-TTATTATCATTATTATTTCTAA
12638882 TTT
1 TTT
12638885 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 7 0.26
29 5 0.19
30 15 0.56
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTATTATTATCATTATTATTTCTAA
Found at i:12641818 original size:12 final size:12
Alignment explanation
Indices: 12641803--12641827 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12641793 CTATCCTAAT
12641803 TAAAATCCAAAA
1 TAAAATCCAAAA
12641815 TAAAATCCAAAA
1 TAAAATCCAAAA
12641827 T
1 T
12641828 TCAAATGTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (12 bp):
TAAAATCCAAAA
Found at i:12655950 original size:25 final size:25
Alignment explanation
Indices: 12655920--12655970 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
12655910 CTTTCATTCA
12655920 TATAACACGTTAAACACAATCATAT
1 TATAACACGTTAAACACAATCATAT
* * **
12655945 TATAACACTTTACATGCAATCATAT
1 TATAACACGTTAAACACAATCATAT
12655970 T
1 T
12655971 TAATGATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (25 bp):
TATAACACGTTAAACACAATCATAT
Found at i:12659912 original size:17 final size:17
Alignment explanation
Indices: 12659887--12659925 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
12659877 AAAGCCTCGC
* *
12659887 TCAAAAATTTATTTTAT
1 TCAACAATTTATCTTAT
12659904 TCAACAATTTATCTTAT
1 TCAACAATTTATCTTAT
*
12659921 ACAAC
1 TCAAC
12659926 TATTGGATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (17 bp):
TCAACAATTTATCTTAT
Found at i:12661305 original size:20 final size:20
Alignment explanation
Indices: 12661277--12661371 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
12661267 TTTGGTGTCG
* *
12661277 GTTAGAAATTTTAGTATCAT
1 GTTAAAAATTTTGGTATCAT
* *
12661297 GTTAAAAATATTGGTATCAC
1 GTTAAAAATTTTGGTATCAT
* * *
12661317 ATTAGAAATATTGGTATC-T
1 GTTAAAAATTTTGGTATCAT
*
12661336 CGTTAAAAATTTTGGCATCA-
1 -GTTAAAAATTTTGGTATCAT
12661356 GTTAAAAA-TTTGGTAT
1 GTTAAAAATTTTGGTAT
12661372 TGATTAGAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
18 7 0.11
19 8 0.13
20 46 0.75
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (20 bp):
GTTAAAAATTTTGGTATCAT
Found at i:12661319 original size:59 final size:58
Alignment explanation
Indices: 12661247--12661405 Score: 169
Period size: 59 Copynumber: 2.7 Consensus size: 58
12661237 GCCTAGAAAT
** * * * * *
12661247 TTTGGTATCACATTAGCTATTTTGGTGTC-GGTTAGAAATTTTAGTATCATGTTAAAAA
1 TTTGGTATCACATTAGAAATATTGGTATCTCGTTAAAAATTTTAGCATCA-GTTAAAAA
*
12661305 TATTGGTATCACATTAGAAATATTGGTATCTCGTTAAAAATTTTGGCATCAGTTAAAAA
1 T-TTGGTATCACATTAGAAATATTGGTATCTCGTTAAAAATTTTAGCATCAGTTAAAAA
** * * *
12661364 TTTGGTAT-TGATTAGAAATAGTGATATCGCGTTAAAAATTTT
1 TTTGGTATCACATTAGAAATATTGGTATCTCGTTAAAAATTTT
12661406 TGTACCGATA
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
57 29 0.34
58 8 0.09
59 33 0.38
60 16 0.19
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (58 bp):
TTTGGTATCACATTAGAAATATTGGTATCTCGTTAAAAATTTTAGCATCAGTTAAAAA
Found at i:12661334 original size:40 final size:38
Alignment explanation
Indices: 12661278--12661371 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 38
12661268 TTGGTGTCGG
* *
12661278 TTAGAAATTTTAGTATCAT-GTTAAAAATATTGGTATCACA
1 TTAGAAA-TTTGGTATC-TCGTTAAAAATATTGGCATCA-A
* *
12661318 TTAGAAATATTGGTATCTCGTTAAAAATTTTGGCATCAG
1 TTAGAAAT-TTGGTATCTCGTTAAAAATATTGGCATCAA
*
12661357 TTAAAAATTTGGTAT
1 TTAGAAATTTGGTAT
12661372 TGATTAGAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
38 7 0.15
39 9 0.19
40 31 0.66
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.40
Consensus pattern (38 bp):
TTAGAAATTTGGTATCTCGTTAAAAATATTGGCATCAA
Found at i:12661397 original size:57 final size:60
Alignment explanation
Indices: 12661277--12661405 Score: 165
Period size: 57 Copynumber: 2.2 Consensus size: 60
12661267 TTTGGTGTCG
* * * * *
12661277 GTTAGAAATTTTAGTATCATGTTAAAAATATTGGTATCACATTAGAAATATTGGTATCTC
1 GTTAAAAATTTTAGCATCATGTTAAAAATATTGGTATCACATTAGAAATAGTGATATCGC
* **
12661337 GTTAAAAATTTTGGCATCA-GTTAAAAAT-TTGGTAT-TGATTAGAAATAGTGATATCGC
1 GTTAAAAATTTTAGCATCATGTTAAAAATATTGGTATCACATTAGAAATAGTGATATCGC
12661394 GTTAAAAATTTT
1 GTTAAAAATTTT
12661406 TGTACCGATA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 29 0.48
58 7 0.11
59 9 0.15
60 16 0.26
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (60 bp):
GTTAAAAATTTTAGCATCATGTTAAAAATATTGGTATCACATTAGAAATAGTGATATCGC
Found at i:12661420 original size:57 final size:58
Alignment explanation
Indices: 12661300--12661440 Score: 151
Period size: 57 Copynumber: 2.4 Consensus size: 58
12661290 GTATCATGTT
** * * * * *
12661300 AAAAATATTGGTATCACATTAGAAATATTGGTATCTCGTTAAAAATTTTGGCATCAGTT
1 AAAAAT-TTGGTATTGCATTAGAAATAGTGATATCGCGTTAAAAATTTTGGCACCAGTA
* *
12661359 AAAAATTTGGTATTG-ATTAGAAATAGTGATATCGCGTTAAAAATTTTTGTACC-GATA
1 AAAAATTTGGTATTGCATTAGAAATAGTGATATCGCGTTAAAAATTTTGGCACCAG-TA
*
12661416 AAAAATTTGGTCTTGTCATTAGAAA
1 AAAAATTTGGTATTG-CATTAGAAA
12661441 GTTAAAAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
56 1 0.01
57 47 0.68
58 7 0.10
59 14 0.20
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (58 bp):
AAAAATTTGGTATTGCATTAGAAATAGTGATATCGCGTTAAAAATTTTGGCACCAGTA
Found at i:12662724 original size:24 final size:24
Alignment explanation
Indices: 12662689--12662736 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
12662679 GTAAATTTAC
12662689 TTATCACATCACATGCTTATATGT
1 TTATCACATCACATGCTTATATGT
* *
12662713 TTATCACTTCACTTGCTTATATGT
1 TTATCACATCACATGCTTATATGT
12662737 ACCTAGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.46
Consensus pattern (24 bp):
TTATCACATCACATGCTTATATGT
Found at i:12663742 original size:20 final size:20
Alignment explanation
Indices: 12663729--12663767 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12663719 TATCGATGCT
* *
12663729 TTTCTTAAGGTATCAATATA
1 TTTCCTAAGGTATCGATATA
12663749 TTTCCTAAGGTATCGATAT
1 TTTCCTAAGGTATCGATAT
12663768 TCTTGCTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTCCTAAGGTATCGATATA
Found at i:12668929 original size:2 final size:2
Alignment explanation
Indices: 12668922--12668954 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
12668912 ACCTTGCAAA
12668922 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
12668955 AAATGATGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12671878 original size:13 final size:13
Alignment explanation
Indices: 12671860--12671886 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12671850 ATGAAGTAAT
12671860 TAAGAAGGCTTAA
1 TAAGAAGGCTTAA
12671873 TAAGAAGGCTTAA
1 TAAGAAGGCTTAA
12671886 T
1 T
12671887 TTACATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (13 bp):
TAAGAAGGCTTAA
Found at i:12680611 original size:23 final size:23
Alignment explanation
Indices: 12680559--12680615 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
12680549 AAAAACGACA
*
12680559 GCGAAACAATATAATAAACAGGT
1 GCGAAACAACATAATAAACAGGT
* * * *
12680582 ACAAAACAACATAATAAATAGTT
1 GCGAAACAACATAATAAACAGGT
12680605 GCGAAACAACA
1 GCGAAACAACA
12680616 ATAAAATAGC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (23 bp):
GCGAAACAACATAATAAACAGGT
Found at i:12689084 original size:8 final size:8
Alignment explanation
Indices: 12689071--12689097 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
12689061 TACAAAGACT
12689071 AAATTATA
1 AAATTATA
12689079 AAATTATA
1 AAATTATA
12689087 AAATTATA
1 AAATTATA
12689095 AAA
1 AAA
12689098 AAAAACACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAATTATA
Found at i:12689089 original size:29 final size:30
Alignment explanation
Indices: 12689020--12689090 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
12689010 TTGAATTTTG
* * * * *
12689020 AAAACTATAAAGTAGAAAGATTAAATTCTT
1 AAAAATATAAAATACAAAGACTAAATTCAT
12689050 AAAAATA-AAAATACAAAGACTAAATT-AT
1 AAAAATATAAAATACAAAGACTAAATTCAT
*
12689078 AAAATTATAAAAT
1 AAAAATATAAAAT
12689091 TATAAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 7 0.21
29 21 0.62
30 6 0.18
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.27
Consensus pattern (30 bp):
AAAAATATAAAATACAAAGACTAAATTCAT
Found at i:12695427 original size:32 final size:32
Alignment explanation
Indices: 12695391--12695462 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
12695381 TTAAAATTTA
* * *
12695391 AAAGTTTAAGTCTTAACCTGAAAATAATTGTC
1 AAAGTTCAAGTCTTAACATAAAAATAATTGTC
* *
12695423 AAAGTTCAAGTCTTAATATAAAAATAATTGTT
1 AAAGTTCAAGTCTTAACATAAAAATAATTGTC
12695455 AAA-TTCAA
1 AAAGTTCAA
12695463 AAACCAACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
31 5 0.14
32 30 0.86
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.35
Consensus pattern (32 bp):
AAAGTTCAAGTCTTAACATAAAAATAATTGTC
Found at i:12701825 original size:20 final size:18
Alignment explanation
Indices: 12701782--12701825 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
12701772 AAGATTAATT
* *
12701782 TTAATTAATTTGATAAAT
1 TTAATTAACTTGATAAAA
12701800 TTAATTATACTTGATCAAAA
1 TTAATTA-ACTTGAT-AAAA
12701820 TTAATT
1 TTAATT
12701826 TGCCCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 6 0.27
20 9 0.41
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (18 bp):
TTAATTAACTTGATAAAA
Found at i:12702959 original size:13 final size:13
Alignment explanation
Indices: 12702941--12702966 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12702931 ATTTTTTAAG
12702941 AAATTTATATTTT
1 AAATTTATATTTT
12702954 AAATTTATATTTT
1 AAATTTATATTTT
12702967 TTTTTATTTT
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AAATTTATATTTT
Found at i:12703945 original size:22 final size:21
Alignment explanation
Indices: 12703920--12703962 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
12703910 ACTCCAACAA
* *
12703920 TTCAACAATTCAATTTCATACC
1 TTCAACAAGTC-ATTCCATACC
*
12703942 TTCATCAAGTCATTCCATACC
1 TTCAACAAGTCATTCCATACC
12703963 AACTTTACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (21 bp):
TTCAACAAGTCATTCCATACC
Found at i:12706178 original size:92 final size:92
Alignment explanation
Indices: 12706021--12706208 Score: 358
Period size: 92 Copynumber: 2.0 Consensus size: 92
12706011 CTAATCTCAT
*
12706021 TAATGTTTCCACCTGCTAAAGCTTACCACCCTGAGATGGTTACATCCAGCTCATACATTGATCTA
1 TAATGTTTCCACCTGCTAAAGCTTACCACCCCGAGATGGTTACATCCAGCTCATACATTGATCTA
12706086 TGTCTAAATTGGACTCTACCTAGGAAA
66 TGTCTAAATTGGACTCTACCTAGGAAA
*
12706113 TAATGTTTCCACCTTCTAAAGCTTACCACCCCGAGATGGTTACATCCAGCTCATACATTGATCTA
1 TAATGTTTCCACCTGCTAAAGCTTACCACCCCGAGATGGTTACATCCAGCTCATACATTGATCTA
12706178 TGTCTAAATTGGACTCTACCTAGGAAA
66 TGTCTAAATTGGACTCTACCTAGGAAA
12706205 TAAT
1 TAAT
12706209 CATACAATAA
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 94 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (92 bp):
TAATGTTTCCACCTGCTAAAGCTTACCACCCCGAGATGGTTACATCCAGCTCATACATTGATCTA
TGTCTAAATTGGACTCTACCTAGGAAA
Found at i:12710741 original size:25 final size:26
Alignment explanation
Indices: 12710713--12710762 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
12710703 AAACAAAACT
*
12710713 AAAATCTAACCTAAAAA-GAAAAGAG
1 AAAACCTAACCTAAAAATGAAAAGAG
*
12710738 AAAACCTAATCTAAAAATGAAAAGA
1 AAAACCTAACCTAAAAATGAAAAGA
12710763 AAATAAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.64, C:0.12, G:0.10, T:0.14
Consensus pattern (26 bp):
AAAACCTAACCTAAAAATGAAAAGAG
Found at i:12711496 original size:20 final size:20
Alignment explanation
Indices: 12711471--12711509 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
12711461 TAACCTCAAC
12711471 ATCTTATATAAATTTATAAT
1 ATCTTATATAAATTTATAAT
12711491 ATCTTATATAAATTTATAA
1 ATCTTATATAAATTTATAA
12711510 CAAAACTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
ATCTTATATAAATTTATAAT
Found at i:12720169 original size:3 final size:3
Alignment explanation
Indices: 12720161--12720187 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12720151 AAACAAGAAC
12720161 ACT ACT ACT ACT ACT ACT ACT ACT ACT
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT
12720188 GCTTCTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ACT
Found at i:12720925 original size:2 final size:2
Alignment explanation
Indices: 12720918--12720949 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12720908 TGGTATATGG
12720918 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12720950 GGCTGTAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12725734 original size:24 final size:24
Alignment explanation
Indices: 12725679--12725741 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
12725669 ATATTCTTTA
12725679 GAATCTTTTTTAAAA-A-AAATTAT
1 GAAT-TTTTTTAAAATATAAATTAT
*
12725702 -AATTTTTTTAAAATATAAATTTT
1 GAATTTTTTTAAAATATAAATTAT
*
12725725 GAATTTTTTTATAATAT
1 GAATTTTTTTAAAATAT
12725742 TTTGAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 10 0.29
22 4 0.11
23 6 0.17
24 15 0.43
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (24 bp):
GAATTTTTTTAAAATATAAATTAT
Found at i:12725762 original size:16 final size:17
Alignment explanation
Indices: 12725731--12725763 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12725721 TTTTGAATTT
*
12725731 TTTTATAATATTTTGAA
1 TTTTAAAATATTTTGAA
12725748 TTTTAAAAT-TTTTGAA
1 TTTTAAAATATTTTGAA
12725764 AATTATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTTAAAATATTTTGAA
Found at i:12731551 original size:24 final size:24
Alignment explanation
Indices: 12731502--12731551 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
12731492 CCATGTGTCG
* * *
12731502 TTTTCTAAAAATAGACTAAGTTTT
1 TTTTCTAAAAATAAACTAAATGTT
12731526 TTTTCTAAAAGATAAAC-AAATGTT
1 TTTTCTAAAA-ATAAACTAAATGTT
12731550 TT
1 TT
12731552 AAAATGACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (24 bp):
TTTTCTAAAAATAAACTAAATGTT
Found at i:12740887 original size:36 final size:35
Alignment explanation
Indices: 12740847--12740916 Score: 95
Period size: 36 Copynumber: 2.0 Consensus size: 35
12740837 ATTTGAAGCA
* * * *
12740847 ATAAACGATTTATTGGTCGATGAAGAGCAGCAAAAT
1 ATAAACGACTAATTGGTCGATAAAGAACAG-AAAAT
12740883 ATAAACGACTAATTGGTCGATAAAGAACAGAAAA
1 ATAAACGACTAATTGGTCGATAAAGAACAGAAAA
12740917 CTCAATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 4 0.13
36 26 0.87
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.21
Consensus pattern (35 bp):
ATAAACGACTAATTGGTCGATAAAGAACAGAAAAT
Found at i:12741706 original size:22 final size:21
Alignment explanation
Indices: 12741666--12741714 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
12741656 TAATTATAAA
* * *
12741666 TTTAAACAATATTTTTTATGAT
1 TTTAAAAAATATATATTAT-AT
*
12741688 TTTAAAAAATATATATTATTT
1 TTTAAAAAATATATATTATAT
12741709 TTTAAA
1 TTTAAA
12741715 TTTTGTATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTAAAAAATATATATTATAT
Found at i:12742982 original size:19 final size:19
Alignment explanation
Indices: 12742958--12742994 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12742948 TTTTACAACC
*
12742958 ACATAATTTTTATATAAAG
1 ACATAACTTTTATATAAAG
*
12742977 ACATAACTTTTGTATAAA
1 ACATAACTTTTATATAAA
12742995 TTTATCTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (19 bp):
ACATAACTTTTATATAAAG
Found at i:12744352 original size:8 final size:8
Alignment explanation
Indices: 12744324--12744386 Score: 58
Period size: 9 Copynumber: 7.8 Consensus size: 8
12744314 CTGACTTGTA
*
12744324 GGTTTTTG
1 GGTTTTAG
*
12744332 GATTTTA-
1 GGTTTTAG
12744339 GG-TTTAG
1 GGTTTTAG
12744346 GGTTTTAG
1 GGTTTTAG
12744354 GGTTTTTAG
1 GG-TTTTAG
12744363 GGTTTTTAG
1 GG-TTTTAG
*
12744372 GATTTTTAG
1 G-GTTTTAG
12744381 GGTTTT
1 GGTTTT
12744387 GGAGAAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
6 4 0.09
7 3 0.07
8 16 0.35
9 23 0.50
ACGTcount: A:0.13, C:0.00, G:0.32, T:0.56
Consensus pattern (8 bp):
GGTTTTAG
Found at i:12744362 original size:9 final size:9
Alignment explanation
Indices: 12744341--12744386 Score: 76
Period size: 9 Copynumber: 5.2 Consensus size: 9
12744331 GGATTTTAGG
12744341 TTTAGGG-T
1 TTTAGGGTT
12744349 TTTAGGGTT
1 TTTAGGGTT
12744358 TTTAGGGTT
1 TTTAGGGTT
*
12744367 TTTAGGATT
1 TTTAGGGTT
12744376 TTTAGGGTT
1 TTTAGGGTT
12744385 TT
1 TT
12744387 GGAGAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
8 7 0.20
9 28 0.80
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (9 bp):
TTTAGGGTT
Found at i:12747235 original size:16 final size:16
Alignment explanation
Indices: 12747214--12747275 Score: 58
Period size: 16 Copynumber: 4.0 Consensus size: 16
12747204 GAGATTTCCC
*
12747214 CCTTTTTTTTCTTTTT
1 CCTTTTTTTTCTTTCT
12747230 CCTTTTATTTT-TTTCT
1 CCTTTT-TTTTCTTTCT
* *
12747246 CCCTTTCTTTCTTTC-
1 CCTTTTTTTTCTTTCT
*
12747261 CCTTTTATTT-TTTCT
1 CCTTTTTTTTCTTTCT
12747276 TCCCAAGTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 4 0.11
15 11 0.29
16 19 0.50
17 4 0.11
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (16 bp):
CCTTTTTTTTCTTTCT
Found at i:12749050 original size:27 final size:27
Alignment explanation
Indices: 12749018--12749099 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
12749008 TTTATTTTGG
*
12749018 ATATATTACTTTTCAGTTATTTTTTTA
1 ATATATTACTTTTCACTTATTTTTTTA
* * *
12749045 ATATATTACTTTCCATTTTGTTTTTTATA
1 ATATATTACTTTTCA-CTTATTTTTT-TA
* * *
12749074 ATATGTTATTTTTCACTTATTATTTT
1 ATATATTACTTTTCACTTATTTTTTT
12749100 CAAAATTTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
27 15 0.34
28 15 0.34
29 14 0.32
ACGTcount: A:0.24, C:0.09, G:0.04, T:0.63
Consensus pattern (27 bp):
ATATATTACTTTTCACTTATTTTTTTA
Found at i:12757622 original size:12 final size:12
Alignment explanation
Indices: 12757599--12757630 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
12757589 ATTAAAATTA
12757599 ATTATT-TTACT
1 ATTATTATTACT
12757610 ATTATTATTACT
1 ATTATTATTACT
12757622 ATTATTATT
1 ATTATTATT
12757631 TTCCTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTATTATTACT
Found at i:12762796 original size:36 final size:36
Alignment explanation
Indices: 12762749--12762819 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
12762739 ACGACTCCAC
*
12762749 CTTCAATTGGATTATATGTAGAGATTATTGAATCAT
1 CTTCAATTGGATTATATGTAGAGATTAATGAATCAT
12762785 CTTCAATTGGATTATATGTAGAGATTAATGAATCA
1 CTTCAATTGGATTATATGTAGAGATTAATGAATCA
12762820 CCACCTTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.39
Consensus pattern (36 bp):
CTTCAATTGGATTATATGTAGAGATTAATGAATCAT
Found at i:12764166 original size:20 final size:19
Alignment explanation
Indices: 12764124--12764162 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
12764114 TATAAACAAC
12764124 GAAATGAGAACGAAAAAAA
1 GAAATGAGAACGAAAAAAA
12764143 GAAATGAGAACGAAAAAAA
1 GAAATGAGAACGAAAAAAA
12764162 G
1 G
12764163 GAAAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.67, C:0.05, G:0.23, T:0.05
Consensus pattern (19 bp):
GAAATGAGAACGAAAAAAA
Found at i:12767801 original size:3 final size:3
Alignment explanation
Indices: 12767793--12767873 Score: 153
Period size: 3 Copynumber: 27.0 Consensus size: 3
12767783 TCAAAATAGT
12767793 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
12767841 GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
12767874 TAAGGGAAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:12768066 original size:23 final size:23
Alignment explanation
Indices: 12768039--12768085 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
12768029 TTTTACAGTG
12768039 ATTAACAATATAGTTTACTTAAT
1 ATTAACAATATAGTTTACTTAAT
12768062 ATTAACAATATAGTTTACTTAAT
1 ATTAACAATATAGTTTACTTAAT
12768085 A
1 A
12768086 ATAAATATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (23 bp):
ATTAACAATATAGTTTACTTAAT
Found at i:12775357 original size:34 final size:34
Alignment explanation
Indices: 12775317--12775381 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
12775307 TTTCATATTA
12775317 ATTATTATTTAATTAATTTTACAATTGTATACAT
1 ATTATTATTTAATTAATTTTACAATTGTATACAT
* * *
12775351 ATTATTATTTAATTGATTTTATAATTTTATA
1 ATTATTATTTAATTAATTTTACAATTGTATA
12775382 TTAATTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (34 bp):
ATTATTATTTAATTAATTTTACAATTGTATACAT
Found at i:12777796 original size:22 final size:22
Alignment explanation
Indices: 12777688--12777815 Score: 114
Period size: 22 Copynumber: 5.9 Consensus size: 22
12777678 CACACCAGTA
* *
12777688 TATGAAAGCCCTTTATGGGACG
1 TATGAGAGCCCTTTATGGGATG
*
12777710 TATGAGAGCCCTTAATGGGATG
1 TATGAGAGCCCTTTATGGGATG
* * * **
12777732 CATGAGAGCCTTTTATGAGACA
1 TATGAGAGCCCTTTATGGGATG
* * *
12777754 TATGAAAACCCTTTATAGGATG
1 TATGAGAGCCCTTTATGGGATG
* *
12777776 TATGAGAGCTCTTTATGGGATA
1 TATGAGAGCCCTTTATGGGATG
* *
12777798 TATTAGAGCTC-TTATGGG
1 TATGAGAGCCCTTTATGGG
12777816 TGGCAAAGGA
Statistics
Matches: 83, Mismatches: 23, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
21 7 0.08
22 76 0.92
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (22 bp):
TATGAGAGCCCTTTATGGGATG
Found at i:12778246 original size:48 final size:48
Alignment explanation
Indices: 12778175--12778272 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 48
12778165 ATTTCATATG
*
12778175 TATGATTCCGCAAACAGGGGATTAGCTCTTAGAAATTCGCCTAGATGT
1 TATGATTCCGCAAACAGGAGATTAGCTCTTAGAAATTCGCCTAGATGT
* *
12778223 TATGATTCCGCAAATAGGAGATTAGCTCTTAGGAATTCGCCTAGATGT
1 TATGATTCCGCAAACAGGAGATTAGCTCTTAGAAATTCGCCTAGATGT
12778271 TA
1 TA
12778273 AGAAAAGATC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (48 bp):
TATGATTCCGCAAACAGGAGATTAGCTCTTAGAAATTCGCCTAGATGT
Found at i:12782743 original size:33 final size:35
Alignment explanation
Indices: 12782688--12782755 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
12782678 ATTCTACAAT
* *
12782688 TTTTAATTATGTCTTGATCATTAAGTGTTT-GCATA
1 TTTTAATTATGACATGA-CATTAAGTGTTTCGCATA
*
12782723 TTTTAATTATGACATG-CATTATGTGTTTCGCAT
1 TTTTAATTATGACATGACATTAAGTGTTTCGCAT
12782756 TAAATAAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 11 0.38
34 4 0.14
35 14 0.48
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (35 bp):
TTTTAATTATGACATGACATTAAGTGTTTCGCATA
Found at i:12796781 original size:21 final size:19
Alignment explanation
Indices: 12796743--12796781 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
12796733 AGTGTATCAA
*
12796743 TGATTTATGGGCCTTAAAC
1 TGATTTATGGGCCCTAAAC
12796762 TGATTCTATGGGGCCCTAAA
1 TGATT-TAT-GGGCCCTAAA
12796782 AATAGTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (19 bp):
TGATTTATGGGCCCTAAAC
Found at i:12799267 original size:12 final size:12
Alignment explanation
Indices: 12799250--12799274 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12799240 AACCACTTAC
12799250 ATGCAATGATTT
1 ATGCAATGATTT
12799262 ATGCAATGATTT
1 ATGCAATGATTT
12799274 A
1 A
12799275 AAACAGTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGCAATGATTT
Found at i:12806815 original size:12 final size:14
Alignment explanation
Indices: 12806785--12806816 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
12806775 CGTTACCCTC
12806785 CACACTTTAGATAA
1 CACACTTTAGATAA
12806799 CACACTTTAGATAA
1 CACACTTTAGATAA
12806813 CACA
1 CACA
12806817 TTGTCCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (14 bp):
CACACTTTAGATAA
Found at i:12812568 original size:28 final size:25
Alignment explanation
Indices: 12812537--12812594 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 25
12812527 TGTGTTCTAT
12812537 AATAATAATAAGAGAAAGAAAAGAAATA
1 AATAA-AATAA-AG-AAGAAAAGAAATA
* *
12812565 AAT-AAATCACGAAGAAAAGAAATA
1 AATAAAATAAAGAAGAAAAGAAATA
12812589 AATAAA
1 AATAAA
12812595 TCACGAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 16 0.59
25 3 0.11
26 4 0.15
27 1 0.04
28 3 0.11
ACGTcount: A:0.71, C:0.03, G:0.12, T:0.14
Consensus pattern (25 bp):
AATAAAATAAAGAAGAAAAGAAATA
Found at i:12812579 original size:24 final size:24
Alignment explanation
Indices: 12812552--12812604 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
12812542 TAATAAGAGA
12812552 AAGAAAAGAAATAAATAAATCACG
1 AAGAAAAGAAATAAATAAATCACG
12812576 AAGAAAAGAAATAAATAAATCACG
1 AAGAAAAGAAATAAATAAATCACG
12812600 -AGAAA
1 AAGAAA
12812605 TCAAATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 5 0.17
24 24 0.83
ACGTcount: A:0.68, C:0.08, G:0.13, T:0.11
Consensus pattern (24 bp):
AAGAAAAGAAATAAATAAATCACG
Found at i:12812618 original size:23 final size:24
Alignment explanation
Indices: 12812552--12812616 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
12812542 TAATAAGAGA
*
12812552 AAGAAAAGAAATAAATAAATCACG
1 AAGAAAACAAATAAATAAATCACG
*
12812576 AAGAAAAGAAATAAATAAATCACG
1 AAGAAAACAAATAAATAAATCACG
*
12812600 -AGAAATCAAAT-AATAAA
1 AAGAAAACAAATAAATAAA
12812617 ATGTATCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.15
23 9 0.23
24 24 0.62
ACGTcount: A:0.68, C:0.08, G:0.11, T:0.14
Consensus pattern (24 bp):
AAGAAAACAAATAAATAAATCACG
Found at i:12813177 original size:24 final size:26
Alignment explanation
Indices: 12813133--12813185 Score: 67
Period size: 24 Copynumber: 2.1 Consensus size: 26
12813123 AAAGCAAATA
*
12813133 AAAAAAATGAAATAAACCTAAAGCCT
1 AAAAAAATGAAATAAACCTAAAGACT
12813159 AAAAAAA-GAGAA-AAA-CTAAAGACT
1 AAAAAAATGA-AATAAACCTAAAGACT
12813183 AAA
1 AAA
12813186 TCTAAGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 11 0.44
25 5 0.20
26 9 0.36
ACGTcount: A:0.68, C:0.11, G:0.09, T:0.11
Consensus pattern (26 bp):
AAAAAAATGAAATAAACCTAAAGACT
Found at i:12814226 original size:31 final size:31
Alignment explanation
Indices: 12814188--12814260 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
12814178 ATACATGAAT
12814188 CAAGCTAACAAACTCAACTTCCTACAACTAA
1 CAAGCTAACAAACTCAACTTCCTACAACTAA
* ** *
12814219 CAAGCTAACAAACTTAGTTTCCTACTACTAA
1 CAAGCTAACAAACTCAACTTCCTACAACTAA
*
12814250 CCAGCTAACAA
1 CAAGCTAACAA
12814261 TCTCCCTAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.42, C:0.30, G:0.05, T:0.22
Consensus pattern (31 bp):
CAAGCTAACAAACTCAACTTCCTACAACTAA
Found at i:12817622 original size:27 final size:27
Alignment explanation
Indices: 12817577--12817631 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
12817567 CTTAGTTTAG
*
12817577 TTTAGGTTTCTTAGGTTTCTCTTCATCT
1 TTTAGGGTTCTTAGGTTTCTCTTC-TCT
*
12817605 TTTAGGGTT-TTAGTTTTCTCTTCTCT
1 TTTAGGGTTCTTAGGTTTCTCTTCTCT
12817631 T
1 T
12817632 CTCCATAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 13 0.52
28 8 0.32
ACGTcount: A:0.09, C:0.16, G:0.15, T:0.60
Consensus pattern (27 bp):
TTTAGGGTTCTTAGGTTTCTCTTCTCT
Found at i:12822739 original size:2 final size:2
Alignment explanation
Indices: 12822726--12822765 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
12822716 ATAATGTTAT
*
12822726 TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12822766 AAGAATGAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:12844657 original size:5 final size:5
Alignment explanation
Indices: 12844647--12844689 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
12844637 CATAATTCTT
* *
12844647 TTTTA TTTTA TTTTA TTATA TATTT- GTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTT
12844690 ATCAACTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 3 0.09
5 27 0.84
6 2 0.06
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:12850126 original size:48 final size:48
Alignment explanation
Indices: 12850055--12850149 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
12850045 TTCTTTGCTC
* * **
12850055 AAAAACGCCTAAGTCAGCCTAACTTGTAGTAATAAAGGATTCAACAGT
1 AAAAACGCCTAAGTCAGCCTAACTCGCAACAATAAAGGATTCAACAGT
* * *
12850103 AAAAATGCCTAATTCAGCTTAACTCGCAACAATAAAGGATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCGCAACAATAAAGGATTCAACAG
12850150 AATTCCCTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAACAATAAAGGATTCAACAGT
Found at i:12850487 original size:35 final size:36
Alignment explanation
Indices: 12850447--12850518 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
12850437 TCTAGGATCA
*
12850447 CATATC-TCAAAAGATCACCTTCCATATTTGTCAAG
1 CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
* *
12850482 CATATCTTCAAAAGATCACTTTCCTTATTTGCCAAG
1 CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
12850518 C
1 C
12850519 TCCGGAGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 6 0.18
36 27 0.82
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.33
Consensus pattern (36 bp):
CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
Found at i:12855315 original size:48 final size:48
Alignment explanation
Indices: 12855244--12855338 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
12855234 TTCTTTGCTC
* * **
12855244 AAAAACGCCTAAGTCAACCTAACTTGCAGTAATAAAGGATTCAACAGT
1 AAAAACACCTAAGTCAACCTAACTCGCAACAATAAAGGATTCAACAGT
* *
12855292 AAAAACACCTAAGTCAGCTTAACTCGCAACAATAAAGGATTCAACAG
1 AAAAACACCTAAGTCAACCTAACTCGCAACAATAAAGGATTCAACAG
12855339 AATTCCCTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.45, C:0.22, G:0.14, T:0.19
Consensus pattern (48 bp):
AAAAACACCTAAGTCAACCTAACTCGCAACAATAAAGGATTCAACAGT
Found at i:12855676 original size:35 final size:36
Alignment explanation
Indices: 12855636--12855707 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
12855626 TCTAGGATCA
*
12855636 CATATC-TCAAAAGATCACCTTCCATATTTGTCAAG
1 CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
* *
12855671 CATATCTTCAAAAGATCACTTTCCTTATTTGCCAAG
1 CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
12855707 C
1 C
12855708 TCCGGAGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 6 0.18
36 27 0.82
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.33
Consensus pattern (36 bp):
CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
Found at i:12857473 original size:20 final size:20
Alignment explanation
Indices: 12857448--12857489 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
12857438 TTAAAAATTG
12857448 TTCATATAATATACCTATTT
1 TTCATATAATATACCTATTT
12857468 TTCATATAATATACCTATTT
1 TTCATATAATATACCTATTT
12857488 TT
1 TT
12857490 TAAGATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.52
Consensus pattern (20 bp):
TTCATATAATATACCTATTT
Found at i:12861926 original size:61 final size:61
Alignment explanation
Indices: 12861845--12861962 Score: 218
Period size: 61 Copynumber: 1.9 Consensus size: 61
12861835 GGATTAACAG
12861845 AAATCCCTCTCCTTAATAAAGAGAAAATTAAGAGGATTAGAAAGAAATATCCTCAGGCTGT
1 AAATCCCTCTCCTTAATAAAGAGAAAATTAAGAGGATTAGAAAGAAATATCCTCAGGCTGT
* *
12861906 AAATCCCTCTCTTTACTAAAGAGAAAATTAAGAGGATTAGAAAGAAATATCCTCAGG
1 AAATCCCTCTCCTTAATAAAGAGAAAATTAAGAGGATTAGAAAGAAATATCCTCAGG
12861963 TCAAATATAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (61 bp):
AAATCCCTCTCCTTAATAAAGAGAAAATTAAGAGGATTAGAAAGAAATATCCTCAGGCTGT
Done.