Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 46 of 279
Found at i:15423386 original size:40 final size:40
Alignment explanation
Indices: 15423325--15424140 Score: 1605
Period size: 40 Copynumber: 20.4 Consensus size: 40
15423315 CAATATTCTA
* *
15423325 TTATTTTATGTTAATTTTGTTAATTGCCAGCATGTGTATAT
1 TTATTTTATG-AAATTTTGTTAATTTCCAGCATGTGTATAT
15423366 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15423406 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15423446 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15423486 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15423526 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15423566 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15423606 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15423646 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15423686 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15423726 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15423766 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15423806 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15423846 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15423886 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15423926 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15423966 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15424006 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15424046 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15424086 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
15424126 TTATTTTATGAAATT
1 TTATTTTATGAAATT
15424141 ATTCAAAAAA
Statistics
Matches: 773, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
40 763 0.99
41 10 0.01
ACGTcount: A:0.27, C:0.07, G:0.12, T:0.53
Consensus pattern (40 bp):
TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
Found at i:15424366 original size:55 final size:53
Alignment explanation
Indices: 15424244--15424438 Score: 178
Period size: 55 Copynumber: 3.6 Consensus size: 53
15424234 ATTAGGGTTT
* * * * *
15424244 AAGGATACCATGTAAGACAATGCCAAGGCATGGCACTTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA-TTGATAA-G-ATCATAAGGC
* * * * *
15424299 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATAAGTTACTATAAGTC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGAT-C-ATAAGGC
* * * * *
15424354 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGATCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGATCATAAGGC
*
15424407 AAGGATACCATGTAAGACCATGTCGAGACATG
1 AAGGATACCATGTAAGACCATGTCAAGACATG
15424439 ACAATGGTAA
Statistics
Matches: 113, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
52 6 0.05
53 31 0.27
54 7 0.06
55 65 0.58
56 4 0.04
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGATCATAAGGC
Found at i:15424450 original size:108 final size:110
Alignment explanation
Indices: 15424251--15424451 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
15424241 TTTAAGGATA
* *
15424251 CCATGTAAGACAATGCCAAGGCATGGCACTTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACAATGCCAAGGCATGGCACTTGGTAAGGTATCTAAGGCAAGGAAACCATGTAAGA
* * *
15424316 CCATGTTAAGACATGGCATTGATAAGTTACTATAAGTCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTACTATAAGTCAAAGGTC
* * *
15424361 CCATGTAAGACCATGCCAAGGCATGGCA-TTGGTGA-G-ATCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACAATGCCAAGGCATGGCACTTGGTAAGGTATC-TAAGGCAAGGAAACCATGTAAG
* *
15424423 ACCATGTCGAGACATGACAATGGTAAGTT
65 ACCATGTCAAGACATGACAATGATAAGTT
15424452 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 2 0.03
108 45 0.56
109 6 0.08
110 27 0.34
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACAATGCCAAGGCATGGCACTTGGTAAGGTATCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATAAGTCAAAGGTC
Found at i:15426659 original size:6 final size:6
Alignment explanation
Indices: 15426644--15426682 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
15426634 GTACTTTATG
*
15426644 TACTGC TACTGT TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TAC
15426683 CCTTACAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (6 bp):
TACTGT
Found at i:15426688 original size:18 final size:18
Alignment explanation
Indices: 15426650--15426688 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
15426640 TATGTACTGC
**
15426650 TACTGTTACTGTTACTGT
1 TACTGTTACTGTTACCCT
15426668 TACTGTTACTGTTACCCT
1 TACTGTTACTGTTACCCT
15426686 TAC
1 TAC
15426689 AGTGTATTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.23, G:0.13, T:0.46
Consensus pattern (18 bp):
TACTGTTACTGTTACCCT
Found at i:15426847 original size:18 final size:18
Alignment explanation
Indices: 15426826--15426860 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15426816 TTGAATAATT
*
15426826 GACTGTTACAGAATAAAC
1 GACTGATACAGAATAAAC
*
15426844 GACTGATACTGAATAAA
1 GACTGATACAGAATAAA
15426861 TGAATATTAT
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:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (18 bp):
GACTGATACAGAATAAAC
Found at i:15429468 original size:21 final size:22
Alignment explanation
Indices: 15429442--15429492 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
15429432 CTTACAGCAT
15429442 GGGCGTGT-CCTCGGACCACAC
1 GGGCGTGTCCCTCGGACCACAC
15429463 GGGCGTGTCCCTCGGACCACAC
1 GGGCGTGTCCCTCGGACCACAC
15429485 GGGCGTGT
1 GGGCGTGT
15429493 GAGCCCTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.12, C:0.35, G:0.37, T:0.16
Consensus pattern (22 bp):
GGGCGTGTCCCTCGGACCACAC
Found at i:15435263 original size:46 final size:44
Alignment explanation
Indices: 15435128--15435333 Score: 159
Period size: 46 Copynumber: 4.5 Consensus size: 44
15435118 GTTGATGCTG
* *
15435128 TGTCCCAGACAGGTCTTACACTGACACATATC-AAGCCGATGCCA
1 TGTCCCAGACAAGTCTTACACTGACACATATCGTAGCCGATG-CA
* * * * * *
15435172 TGTCCCAGGCATGGTCTTACACT-AGCTTTCACGAT-GTGGCTGATGCA
1 TGTCCCAGACA-AGTCTTACACTGA-C--ACA-TATCGTAGCCGATGCA
*
15435219 TGTCCCAGACAAGTCTTACACTAGCACATATATCCGT-GCCGATGCCA
1 TGTCCCAGACAAGTCTTACACT-G-ACACATAT-CGTAGCCGATG-CA
* *
15435266 TGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCGATGCA
1 TGTCCCAGACA-AGTCTTACACTGACACATATCGTAGCCGATGCA
* * *
15435311 TGTCCTAGACATGTTTTACACTG
1 TGTCCCAGACAAGTCTTACACTG
15435334 GCTTACGTCC
Statistics
Matches: 130, Mismatches: 18, Indels: 28
0.74 0.10 0.16
Matches are distributed among these distances:
44 21 0.16
45 29 0.22
46 30 0.23
47 30 0.23
48 19 0.15
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (44 bp):
TGTCCCAGACAAGTCTTACACTGACACATATCGTAGCCGATGCA
Found at i:15435373 original size:138 final size:138
Alignment explanation
Indices: 15435128--15435390 Score: 347
Period size: 138 Copynumber: 1.9 Consensus size: 138
15435118 GTTGATGCTG
*
15435128 TGTCCCAGACAGGTCTTACACTGACACATATCAAGCCGATGCCATGTCCCAGGCATGGTCTTACA
1 TGTCCCAGACAGGTCTTACACTGACACATATCAAGCCGATGCCATGTCCCAGACATGGTCTTACA
* *
15435193 CTAGCTTTCACGATGTGGCTGATGCATGTCCCAGACAAGTCTTACACTAGCACATATATCCGTGC
66 CTAGCTTTCACGATGAGGCTGATGCATGTCCCAGACAAGTCTTACACTAGCACACATATCCGTGC
15435258 CGATGCCA
131 CGATGCCA
* * * *
15435266 TGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCGATG-CATGTCCTAGACAT-GTTTTA
1 TGTCCCAGACA-GGTCTTACACTGACACATATC-AAGCCGATGCCATGTCCCAGACATGGTCTTA
* * * *
15435329 CACTGGC-TT-ACG-TCCCGAGGTTGATGCATGTCCCAGACATGTCTTACACTGGCACACATATC
64 CACTAGCTTTCACGAT---GAGGCTGATGCATGTCCCAGACAAGTCTTACACTAGCACACATATC
15435391 ACTTGCACTG
Statistics
Matches: 109, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
135 1 0.01
136 3 0.03
137 2 0.02
138 63 0.58
139 32 0.29
140 8 0.07
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (138 bp):
TGTCCCAGACAGGTCTTACACTGACACATATCAAGCCGATGCCATGTCCCAGACATGGTCTTACA
CTAGCTTTCACGATGAGGCTGATGCATGTCCCAGACAAGTCTTACACTAGCACACATATCCGTGC
CGATGCCA
Found at i:15444238 original size:17 final size:17
Alignment explanation
Indices: 15444216--15444248 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15444206 TCTCTTCACT
15444216 TTAGTTTAATTAATTAA
1 TTAGTTTAATTAATTAA
15444233 TTAGTTTAATTAATTA
1 TTAGTTTAATTAATTA
15444249 GTTTAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TTAGTTTAATTAATTAA
Found at i:15444243 original size:13 final size:13
Alignment explanation
Indices: 15444225--15444255 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
15444215 TTTAGTTTAA
15444225 TTAATTAATTAGT
1 TTAATTAATTAGT
15444238 TTAATTAATTAGT
1 TTAATTAATTAGT
15444251 TTAAT
1 TTAAT
15444256 AAACAACCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (13 bp):
TTAATTAATTAGT
Found at i:15447161 original size:76 final size:75
Alignment explanation
Indices: 15447035--15447183 Score: 289
Period size: 76 Copynumber: 2.0 Consensus size: 75
15447025 CGGTGGAGGT
15447035 AAGTCACCCCAACTTCGGCACTTTTAAGGTAAACAACACCCGATTAAAACCCTATTTTGATGAGA
1 AAGTCACCCCAACTTCGGCACTTTTAAGGTAAACAACACCCGATTAAAACCCTATTTTGATGAG-
15447100 TTGATAGCAGG
65 TTGATAGCAGG
15447111 AAGTCACCCCAACTTCGGCACTTTTAAGGTAAACAACACCCGATTAAAACCCTATTTTGATGAGT
1 AAGTCACCCCAACTTCGGCACTTTTAAGGTAAACAACACCCGATTAAAACCCTATTTTGATGAGT
15447176 TGATAGCA
66 TGATAGCA
15447184 ACAATGAGGA
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 9 0.12
76 64 0.88
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (75 bp):
AAGTCACCCCAACTTCGGCACTTTTAAGGTAAACAACACCCGATTAAAACCCTATTTTGATGAGT
TGATAGCAGG
Found at i:15447555 original size:71 final size:71
Alignment explanation
Indices: 15447439--15447581 Score: 232
Period size: 71 Copynumber: 2.0 Consensus size: 71
15447429 CATGCAATAC
* * * *
15447439 GGCCGTGTGGAAGCAAGATATGATTTCCCCAAAACACGGGATGCGATAAATCCCCACGGCCGTGC
1 GGCCGTGTGGAAGCAAGACATGATTTCCCCAAAACACAGGATGCGATAAATCCCCACGGCCATAC
15447504 GACATG
66 GACATG
* *
15447510 GGCCGTGTGGAAGCAGGACATGATTTCCCCAAAACACAGGATGCGATAAATCCCCATGGCCATAC
1 GGCCGTGTGGAAGCAAGACATGATTTCCCCAAAACACAGGATGCGATAAATCCCCACGGCCATAC
15447575 GACATG
66 GACATG
15447581 G
1 G
15447582 CCATGGGTGA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (71 bp):
GGCCGTGTGGAAGCAAGACATGATTTCCCCAAAACACAGGATGCGATAAATCCCCACGGCCATAC
GACATG
Found at i:15450151 original size:86 final size:86
Alignment explanation
Indices: 15450006--15450173 Score: 291
Period size: 86 Copynumber: 2.0 Consensus size: 86
15449996 TAAATGACCC
*
15450006 AATTTCTTCATCTAGCCAAGAACAATGGCAGCTACCACTTTCCCCAAACACTCCAGCCTCAGAAT
1 AATTTCTTCATCTAGCCAAGAACAATGACAGCTACCACTTTCCCCAAACACTCCAGCCTCAGAAT
15450071 CAAGCTCCGCATCCATAACCT
66 CAAGCTCCGCATCCATAACCT
* *
15450092 AATTTCTTCATCTAGCCAAGAATAATGACAGCTACTACTTTCCCCAAACACTCCAGCCTCAGAAT
1 AATTTCTTCATCTAGCCAAGAACAATGACAGCTACCACTTTCCCCAAACACTCCAGCCTCAGAAT
* *
15450157 CAAGCTCTGTATCCATA
66 CAAGCTCCGCATCCATA
15450174 TAACAGGGAG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 77 1.00
ACGTcount: A:0.32, C:0.33, G:0.10, T:0.24
Consensus pattern (86 bp):
AATTTCTTCATCTAGCCAAGAACAATGACAGCTACCACTTTCCCCAAACACTCCAGCCTCAGAAT
CAAGCTCCGCATCCATAACCT
Found at i:15452733 original size:22 final size:22
Alignment explanation
Indices: 15452708--15452750 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15452698 TTCTCTTCAC
15452708 TTTAGTTTAATTAG-TTAATAAG
1 TTTAG-TTAATTAGTTTAATAAG
15452730 TTTAGTTAATTAGTTTAATAA
1 TTTAGTTAATTAGTTTAATAA
15452751 ACAACCCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TTTAGTTAATTAGTTTAATAAG
Found at i:15455734 original size:16 final size:17
Alignment explanation
Indices: 15455715--15455748 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15455705 AAATATTATG
*
15455715 AAATAATAAT-AAACAA
1 AAATAAAAATCAAACAA
15455731 AAATAAAAATCAAACAA
1 AAATAAAAATCAAACAA
15455748 A
1 A
15455749 CGTCATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (17 bp):
AAATAAAAATCAAACAA
Found at i:15466145 original size:29 final size:29
Alignment explanation
Indices: 15466078--15466145 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 29
15466068 ACCATAGCAT
15466078 CCTACAATTTTCATTTATTTCACAATTTAAC
1 CCTA-AATTTTCA-TTATTTCACAATTTAAC
* *
15466109 CATAAAATTTTCA-TATTTCTCAATTTAATC
1 CCT-AAATTTTCATTATTTCACAATTTAA-C
15466139 CCTAAAT
1 CCTAAAT
15466146 GACAATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
29 18 0.56
30 3 0.09
31 10 0.31
32 1 0.03
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (29 bp):
CCTAAATTTTCATTATTTCACAATTTAAC
Found at i:15475340 original size:12 final size:13
Alignment explanation
Indices: 15475321--15475355 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
15475311 ATACAAATTC
15475321 TCCTTCTTTT-TT
1 TCCTTCTTTTCTT
*
15475333 TTCTTCTTTTCTT
1 TCCTTCTTTTCTT
15475346 TCCTTCTTTT
1 TCCTTCTTTT
15475356 ATTGGGGTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TCCTTCTTTTCTT
Found at i:15479141 original size:29 final size:30
Alignment explanation
Indices: 15479108--15479165 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
15479098 AATTATTCAT
15479108 ATTTAATAATATAATAAATTA-TTAATATA
1 ATTTAATAATATAATAAATTATTTAATATA
* *
15479137 ATTTAATATTTTAATAAATTATTTAATAT
1 ATTTAATAATATAATAAATTATTTAATAT
15479166 TATAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
ATTTAATAATATAATAAATTATTTAATATA
Found at i:15479459 original size:19 final size:19
Alignment explanation
Indices: 15479422--15479464 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
15479412 CTAAAATGTA
**
15479422 AAATTTTTATTTAGCTTTT
1 AAATTTTTATTTAAATTTT
* *
15479441 TAATTTTTTTTTAAATTTT
1 AAATTTTTATTTAAATTTT
15479460 AAATT
1 AAATT
15479465 AGTAAAGATA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
AAATTTTTATTTAAATTTT
Found at i:15482294 original size:18 final size:18
Alignment explanation
Indices: 15482252--15482296 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
15482242 GAAAAATGAG
15482252 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
15482269 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
15482286 AATTTTTGAAA
1 AATTTTTGAAA
15482297 CCTGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 14 0.54
18 8 0.31
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:15483240 original size:11 final size:11
Alignment explanation
Indices: 15483208--15483247 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
15483198 AATTTATTTT
15483208 GAAGAGAGAAA
1 GAAGAGAGAAA
15483219 GAA-A-A-AAA
1 GAAGAGAGAAA
*
15483227 GAAGGGAGAAA
1 GAAGAGAGAAA
15483238 GAAGAGAGAA
1 GAAGAGAGAA
15483248 GGGAGGGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
8 6 0.25
9 1 0.04
10 2 0.08
11 15 0.62
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:15484769 original size:86 final size:88
Alignment explanation
Indices: 15484622--15484864 Score: 256
Period size: 80 Copynumber: 2.9 Consensus size: 88
15484612 GTTGATTTTT
* *
15484622 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAACACAAAAATTGAAAATACCTCAGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATAT
15484687 AAGTTG-ATTTTTTTGAAAATAGA
65 AAGTTGAATTTTTTTGAAAATAGA
* ** *
15484710 TTGAAACACAAAAATTGACAATACCTCAGC-GTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAACACAAAAATTGAAAATACCTCAGCAGTGAACCGAGGCTCAACTCACCTCTCGCAATATA
*
15484774 AGTTGAATTTTTTT-----T--T
66 AGTTGAATTTTTTTGAAAATAGA
* * * ** * *
15484790 TTGAAAAACAAAAATTGAAAATACCTCAGCA-TG-TCTTGAGGCTCAACTCATTTCACACAATAT
1 TTGAAACACAAAAATTGAAAATACCTCAGCAGTGAAC-CGAGGCTCAACTCACCTCTCGCAATAT
*
15484853 GAGTTGAATTTT
65 AAGTTGAATTTT
15484865 GAAAACAGAA
Statistics
Matches: 137, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
79 1 0.01
80 64 0.47
82 1 0.01
86 36 0.26
87 8 0.06
88 27 0.20
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (88 bp):
TTGAAACACAAAAATTGAAAATACCTCAGCAGTGAACCGAGGCTCAACTCACCTCTCGCAATATA
AGTTGAATTTTTTTGAAAATAGA
Found at i:15484951 original size:72 final size:74
Alignment explanation
Indices: 15484710--15487056 Score: 2038
Period size: 72 Copynumber: 30.9 Consensus size: 74
15484700 TGAAAATAGA
* * * *
15484710 TTGAAACACAAAAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAA-ACAGAAATTGA-AATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATG
15484774 AGTTGAATTTTTTTTT
64 AGTTG-A----TTTTT
* * * * * * *
15484790 TTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCACACAATATGA
1 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGA
*
15484855 GTTGA--ATT
65 GTTGATTTTT
* *
15484863 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
15484928 TTGA-TTTT
66 TTGATTTTT
* * * *** * * * * *
15484936 TTGAAAA-ATAGATTGAAA-CACAAAAATTGACAAT-ACCTCAGCGTGCCCCGAGGCTCAACTCA
1 TTGAAAACAGAAATTGAAATTAC-CTCA--G-C-GTGTCCT--GAG-G-CTC-A-ACTC-A-T--
15484998 CCTCTCGCAATATGAGTTGA--TTT
51 -CTCTCGCAATATGAGTTGATTTTT
* * * *
15485021 TTGAAAATAGAAATTGAAATTACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
15485086 TTGAATTTTTTTTT
66 TTG-A----TTTTT
* * * * * * *
15485100 TTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCACACAATATGA
1 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGA
*
15485165 GTTGA--ATT
65 GTTGATTTTT
*
15485173 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
15485238 TTGATTTTT
66 TTGATTTTT
* * *
15485247 TTTAACAACAGAAATTGAAAATTACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAA-AACAGAAATTG-AAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATG
15485312 AGTTGAATTTTT
64 AGTTG-ATTTTT
* * * ** *** * * * *
15485324 TTGAAAAATATAAATTGAAA--AGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTC
1 TTG-AAAACAGAAATTGAAATTACCTCAGCGTG----T-CCT-GA-G-G-C-TCA-ACTCATCTC
* * * * **
15485387 AC-C--TCTCGCAATATGAGTTGA
54 TCGCAATAT-G-AGT-TGATTTTT
****** ** * *
15485408 TTTTTTTGA-AAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTC
1 TTGAAAACAGAA-ATTGAAA-T-----TACCTCAGC--GTG-TCCTGAGGCTCAACTCATCTCTC
15485471 GCAATATGAGTTGATTTTT
56 GCAATATGAGTTGATTTTT
* * *
15485490 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCATCTCTCGCAATA
15485554 TGAGTTGATTTTT
62 TGAGTTGATTTTT
* * *
15485567 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCATCTCTCGCAATA
15485631 TGAGTTGATTTTT
62 TGAGTTGATTTTT
* * *
15485644 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCATCTCTCGCAATA
15485708 TGAGTTGATTTTT
62 TGAGTTGATTTTT
* * *
15485721 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCATCTCTCGCAATA
15485785 TGAGTTGATTTTT
62 TGAGTTGATTTTT
* * *
15485798 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCATCTCTCGCAATA
15485862 TGAGTTGATTTTT
62 TGAGTTGATTTTT
* * *
15485875 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCATCTCTCGCAATA
15485939 TGAGTTGATTTTT
62 TGAGTTGATTTTT
* * *
15485952 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCATCTCTCGCAATA
*
15486016 TAAGTTGATTTTT
62 TGAGTTGATTTTT
* * * *
15486029 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
15486094 TTGA--TTT
66 TTGATTTTT
* * *
15486101 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
15486166 TTGA--TTT
66 TTGATTTTT
* * *
15486173 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
15486238 TTGA--TTT
66 TTGATTTTT
* * *
15486245 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
15486310 TTGA--TTT
66 TTGATTTTT
* * *
15486317 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
15486382 TTGA--TTT
66 TTGATTTTT
* *
15486389 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
15486454 TTGA-TTTT
66 TTGATTTTT
* * * *** * * * * *
15486462 TTGAAAA-ATAGATTGAAA-CACAAAAATTGACAAT-ACCTCAGCGTGCCCCGAGGCTCAACTCA
1 TTGAAAACAGAAATTGAAATTAC-CTCA--G-C-GTGTCCT--GAG-G-CTC-A-ACTC-A-T--
15486524 CCTCTCGCAATATGAGTTGA--TTT
51 -CTCTCGCAATATGAGTTGATTTTT
* * * *
15486547 TTGAAAACAGAAATTGAAATTACCTCAGCATGGCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
15486612 TTGATTTTTTTTTT
66 TTGA-----TTTTT
* * * * * * *
15486626 TTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCACACAATATGA
1 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGA
*
15486691 GTTGA--ATT
65 GTTGATTTTT
*
15486699 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
*
15486764 TTGA--ATT
66 TTGATTTTT
* * *
15486771 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
15486836 TTGA--TTT
66 TTGATTTTT
* * *
15486843 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
15486908 TTGA--TTT
66 TTGATTTTT
* *
15486915 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTTATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
15486980 TTGATTTTTT
66 TTGA-TTTTT
* * * *
15486990 TTTAACAACAGAAATTGAAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATGTG
1 TTGAA-AACAGAAATTG-AAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATG
15487055 AG
64 AG
15487057 CAGAAATTGA
Statistics
Matches: 1969, Mismatches: 198, Indels: 203
0.83 0.08 0.09
Matches are distributed among these distances:
71 4 0.00
72 790 0.40
73 36 0.02
74 46 0.02
75 26 0.01
76 89 0.05
77 594 0.30
78 7 0.00
79 26 0.01
80 170 0.09
81 14 0.01
82 25 0.01
83 26 0.01
84 16 0.01
85 33 0.02
86 55 0.03
87 5 0.00
89 2 0.00
91 3 0.00
93 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (74 bp):
TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTTTT
Found at i:15485039 original size:86 final size:85
Alignment explanation
Indices: 15484863--15485031 Score: 245
Period size: 86 Copynumber: 2.0 Consensus size: 85
15484853 GAGTTGAATT
* * * ** *
15484863 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAG
1 TTGAAAACAAAAATTGAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG
15484928 TTGATTTTTTGAAAAATAGA
66 TTGATTTTTTGAAAAATAGA
15484948 TTGAAACACAAAAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAA-ACAAAAATTGA-AATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
15485012 AGTTGA-TTTTTG-AAAATAGA
64 AGTTGATTTTTTGAAAAATAGA
15485032 AATTGAAATT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
84 8 0.11
85 12 0.16
86 54 0.71
87 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (85 bp):
TTGAAAACAAAAATTGAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGAAAAATAGA
Found at i:15485413 original size:90 final size:90
Alignment explanation
Indices: 15485255--15485433 Score: 288
Period size: 90 Copynumber: 2.0 Consensus size: 90
15485245 TTTTTAACAA
* *
15485255 CAGAAATTGAAAATTACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
1 CAGAAATTGAAAATTACCTCAACGTGCCATGAGGCTCAACTCACCTCTCGCAATATGAGTTG-AT
* *
15485320 TTTTTTGAAAAATATAAATTGAAAAG
65 TTTTTTGAAAAACAGAAATTGAAAAG
*
15485346 CAGAAATTG-AAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 CAGAAATTGAAAATTACCTCAACGTGCCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
15485410 TTTTTGAAAGACAGAAATTGAAAA
66 TTTTTGAAAAACAGAAATTGAAAA
15485434 TACCTCAGCA
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
89 24 0.29
90 49 0.60
91 9 0.11
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (90 bp):
CAGAAATTGAAAATTACCTCAACGTGCCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTTGAAAAACAGAAATTGAAAAG
Found at i:15485476 original size:77 final size:74
Alignment explanation
Indices: 15485338--15487717 Score: 2578
Period size: 72 Copynumber: 32.0 Consensus size: 74
15485328 AAAATATAAA
* *
15485338 TTGAAAAGCAGAAATTGAAATTACCTCA--ACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAA-CAGAAATTGAAAATACCTCAGCATGTGACC--GAGGCTCAACTCACCTCTCGCAATA
15485400 TGAGTTGATTTTT
63 TGAGTTGA-TTTT
15485413 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCATGTG-ACCGAGGCTCAACTCACCTCTCGCAATAT
15485478 GAGTTGATTTTT
64 GAGTTGA-TTTT
15485490 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCATGTG-ACCGAGGCTCAACTCACCTCTCGCAATAT
15485555 GAGTTGATTTTT
64 GAGTTGA-TTTT
15485567 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCATGTG-ACCGAGGCTCAACTCACCTCTCGCAATAT
15485632 GAGTTGATTTTT
64 GAGTTGA-TTTT
15485644 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCATGTG-ACCGAGGCTCAACTCACCTCTCGCAATAT
15485709 GAGTTGATTTTT
64 GAGTTGA-TTTT
15485721 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCATGTG-ACCGAGGCTCAACTCACCTCTCGCAATAT
15485786 GAGTTGATTTTT
64 GAGTTGA-TTTT
15485798 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCATGTG-ACCGAGGCTCAACTCACCTCTCGCAATAT
15485863 GAGTTGATTTTT
64 GAGTTGA-TTTT
15485875 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCATGTG-ACCGAGGCTCAACTCACCTCTCGCAATAT
15485940 GAGTTGATTTTT
64 GAGTTGA-TTTT
15485952 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCATGTG-ACCGAGGCTCAACTCACCTCTCGCAATAT
*
15486017 AAGTTGATTTTT
64 GAGTTGA-TTTT
* * * **
15486029 TTGAAAACAGAAATTGAAAATACCTCA--ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTGAC-CGAGGCTCAACTCACCTCTCGCAATATG
15486092 AGTTGA-TTT
65 AGTTGATTTT
* *
15486101 TTGAAAACAGAAATTGAAATTACCTCAGCATGT-CCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGA
15486165 GTTGA-TTT
66 GTTGATTTT
* *
15486173 TTGAAAACAGAAATTGAAATTACCTCAGCATGT-CCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGA
15486237 GTTGA-TTT
66 GTTGATTTT
* *
15486245 TTGAAAACAGAAATTGAAATTACCTCAGCATGT-CCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGA
15486309 GTTGA-TTT
66 GTTGATTTT
* *
15486317 TTGAAAACAGAAATTGAAATTACCTCAGCATGT-CCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGA
15486381 GTTGA-TTT
66 GTTGATTTT
* * ** *
15486389 TTGAAAACAGAAATTGAAATTACCTCAGC--GTGTCCTGAGGCTCAACTCATTTCTCGTAATATG
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTGACC-GAGGCTCAACTCACCTCTCGCAATATG
15486452 AGTTGATTTT
65 AGTTGATTTT
* * * ** * * * * * * * * * *
15486462 TTGAAAA-ATAGATTGAAACACAAAAAT-TGACAATACCTCAGCGTGCCCCGAGGCTCAACTCAC
1 TTGAAAACAGAAATTG-AA-A-ATACCTCAG-C-AT--GTGACCGAGGCTC-A-ACTCACCTCTC
* *
15486525 -C--TCTCGCAATATGAGTTGATTT
57 GCAATAT-G-AGT-TGA--T--TTT
* *
15486547 TTGAAAACAGAAATTGAAATTACCTCAGCATG-GCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGA
15486611 GTTGATTTTTTTTTT
66 GTTGA------TTTT
* * ** * *
15486626 TTGAAAAACAAAAATTGAAAATACCTCAGCATGT--CTTGAGGCTCAACTCATTTCACACAATAT
1 TTG-AAAACAGAAATTGAAAATACCTCAGCATGTGAC-CGAGGCTCAACTCACCTCTCGCAATAT
*
15486689 GAGTTGA-ATT
64 GAGTTGATTTT
* * **
15486699 TTGAAAACAGAAATTGAAATTACCTCAGC--GTGTCCTGAGGCTCAACTCATTTCTCGCAATATG
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTGACC-GAGGCTCAACTCACCTCTCGCAATATG
*
15486762 AGTTGA-ATT
65 AGTTGATTTT
* *
15486771 TTGAAAACAGAAATTGAAATTACCTCAGCATGT-CCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGA
15486835 GTTGA-TTT
66 GTTGATTTT
* *
15486843 TTGAAAACAGAAATTGAAATTACCTCAGCATGT-CCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGA
15486907 GTTGA-TTT
66 GTTGATTTT
* * * **
15486915 TTGAAAACAGAAATTGAAATTACCTCAGC--GTGTCCTGAGGCTCAACTTATTTCTCGCAATATG
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTGACC-GAGGCTCAACTCACCTCTCGCAATATG
15486978 AGTTGATTTTTT
65 AGTTGA--TTTT
* * *
15486990 TTTAACAACAGAAATTGAAAATTACCTCAG--TGTGTCCTGAGGCTCAACTCACCTCTCGCAATG
1 TTGAA-AACAGAAATTGAAAA-TACCTCAGCATGTGACC-GAGGCTCAACTCACCTCTCGCAATA
** **
15487053 TGAGCAGA--AA
63 TGAGTTGATTTT
* ** * ** ** * * * * * * *
15487063 TTG-AAA-A-TACCTCAACGTGTCT-TG-A-G-G-CTC-A-ACTCATTTCTCGCAATAT-G-AGT
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTGAC-CGAGGCTCA--ACTCAC-CTCTCGCAAT
15487116 -TGA-TT--TTTT
62 ATGAGTTGATTTT
* * * * *
15487125 TTAACAACAGAAATTGAAAATTACCTCAGCGTGTCA-TGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAACAGAAATTGAAAA-TACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATG
15487189 AGTTGA-TTT
65 AGTTGATTTT
* *
15487198 TTGAAAACAGAAATTGAAATTACCTCAGCATGT-CCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGA
15487262 GTTGA-TTT
66 GTTGATTTT
* *
15487270 TTGAAAACAGAAATTGAAATTACCTCAGCATGT-CCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGA
15487334 GTTGA-TTT
66 GTTGATTTT
* *
15487342 TTGAAAACAGAAATTGAAATTACCTCAGCATGT-CCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGA
15487406 GTTGATTTTTTT
66 GTTGA---TTTT
* * * * *
15487418 TTGAAAGACAGAAATTGAAAATACCTCA--ACGTGTCTTGAGGCTTAACTCACCTCTCGCAGTAT
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCATGTGAC-CGAGGCTCAACTCACCTCTCGCAATAT
*
15487481 GAGTTG-GTTT
64 GAGTTGATTTT
* *
15487491 TTGAAAA-ATAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTGACC-GAGGCTCAACTCACCTCTCGCAATATG
15487553 AGTTGA-TTT
65 AGTTGATTTT
* * *
15487562 TTGACAAACATAAATTGAAATTACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGA-AAACAGAAATTGAAAATACCTCAGCATGTGACC-GAGGCTCAACTCACCTCTCGCAATAT
15487627 GAGTTGATTTTTTT
64 GAGTTGA---TTTT
* * * *
15487641 TTGAAAGACAGAAATTGAAAATACCTCA--ACGTGTCTTGAGGCTCAACTCACCTCTCGTAATAT
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCATGTGAC-CGAGGCTCAACTCACCTCTCGCAATAT
15487704 GAGTTGATTTT
64 GAGTTGATTTT
15487715 TTG
1 TTG
15487718 CAACATAAAT
Statistics
Matches: 2047, Mismatches: 158, Indels: 201
0.85 0.07 0.08
Matches are distributed among these distances:
62 2 0.00
63 9 0.00
64 4 0.00
65 10 0.00
66 7 0.00
67 3 0.00
68 5 0.00
69 10 0.00
70 10 0.00
71 72 0.04
72 792 0.39
73 72 0.04
74 48 0.02
75 77 0.04
76 46 0.02
77 725 0.35
78 8 0.00
79 46 0.02
80 63 0.03
81 12 0.01
82 2 0.00
83 4 0.00
84 2 0.00
85 12 0.01
86 6 0.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (74 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:15486218 original size:144 final size:145
Alignment explanation
Indices: 15485338--15487715 Score: 3060
Period size: 144 Copynumber: 16.0 Consensus size: 145
15485328 AAAATATAAA
* * *
15485338 TTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAA-CAGAAATTGAAATTACCTCAGCATGTCC-CGAGGCTCAACTCACCTCTCGCAATATG
*
15485402 AGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACC
64 AGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTCAGCATGT--CCCGAGGCTCAACTCACC
15485467 TCTCGCAATATGAGTTGATTTTT
125 TCTCGCAATATGAGTTGA--TTT
* *
15485490 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAA-ACAGAAATTGAAATTACCTCAGCATGT--CCCGAGGCTCAACTCACCTCTCGCAATAT
*
15485555 GAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCAC
63 GAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTCAGCATGT--CCCGAGGCTCAACTCAC
15485620 CTCTCGCAATATGAGTTGATTTTT
124 CTCTCGCAATATGAGTTGA--TTT
* *
15485644 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAA-ACAGAAATTGAAATTACCTCAGCATGT--CCCGAGGCTCAACTCACCTCTCGCAATAT
*
15485709 GAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCAC
63 GAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTCAGCATGT--CCCGAGGCTCAACTCAC
15485774 CTCTCGCAATATGAGTTGATTTTT
124 CTCTCGCAATATGAGTTGA--TTT
* *
15485798 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAA-ACAGAAATTGAAATTACCTCAGCATGT--CCCGAGGCTCAACTCACCTCTCGCAATAT
*
15485863 GAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCAC
63 GAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTCAGCATGT--CCCGAGGCTCAACTCAC
15485928 CTCTCGCAATATGAGTTGATTTTT
124 CTCTCGCAATATGAGTTGA--TTT
* *
15485952 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAA-ACAGAAATTGAAATTACCTCAGCATGT--CCCGAGGCTCAACTCACCTCTCGCAATAT
* * * ** **
15486017 AAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTC
63 GAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTC
15486082 TCGCAATATGAGTTGATTT
127 TCGCAATATGAGTTGATTT
15486101 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
15486166 TTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGC
66 TTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGC
15486230 AATATGAGTTGATTT
131 AATATGAGTTGATTT
15486245 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
15486310 TTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGC
66 TTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGC
15486374 AATATGAGTTGATTT
131 AATATGAGTTGATTT
* * ** *
15486389 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
* * * *
15486454 TTGATTTTTTGAAAAATAGATTGAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCA
66 TTGA---TTT------T---TTGAAA-ACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCA
15486519 ACTCACCTCTCGCAATATGAGTTGATTT
118 ACTCACCTCTCGCAATATGAGTTGATTT
*
15486547 TTGAAAACAGAAATTGAAATTACCTCAGCATGGCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
* ** *
15486612 TTGATTTTTTTTTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCAT
66 TTGA------TTTTTTG-AAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCAC
* * * *
15486677 TTCACACAATATGAGTTGAATT
124 CTCTCGCAATATGAGTTGATTT
* * **
15486699 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
* *
15486764 TTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGC
66 TTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGC
15486828 AATATGAGTTGATTT
131 AATATGAGTTGATTT
15486843 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
* * * * **
15486908 TTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTTATTTCTCGC
66 TTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGC
15486972 AATATGAGTTGATTTTTT
131 AATATGAGTTGA---TTT
* ** *
15486990 TTTAACAACAGAAATTGAAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGC-A-AT-
1 TTGAA-AACAGAAATTG-AAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATG
* * ** **
15487052 -G-TGA------G----CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
64 AGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTC
15487105 GCAATATGAGTTGATTTTT
129 GCAATATGAGTTGA--TTT
* * **
15487124 TTTAACAACAGAAATTGAAAATTACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAA-AACAGAAATTG-AAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATG
*
15487189 AGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTC
64 AGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTC
15487253 GCAATATGAGTTGATTT
129 GCAATATGAGTTGATTT
15487270 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
15487335 TTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGC
66 TTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGC
15487399 AATATGAGTTGATTTTTTT
131 AATATGAGTTGA----TTT
* * * ** * *
15487418 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAGTATGA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
* * *
15487483 GTTG-GTTTTTGAAAA-ATAAATTGAAAATACCTCAGCGTG-CCCTGAGGCTCAACTCACCTCTC
65 GTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCC-GAGGCTCAACTCACCTCTC
15487545 GCAATATGAGTTGATTT
129 GCAATATGAGTTGATTT
* * *
15487562 TTGACAAACATAAATTGAAATTACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGA-AAACAGAAATTGAAATTACCTCAGCATGT--CCCGAGGCTCAACTCACCTCTCGCAATAT
* * **
15487627 GAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAC
63 GAGTTGA---TTTTTTGAAA-ACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCAC
*
15487692 CTCTCGTAATATGAGTTGATTT
124 CTCTCGCAATATGAGTTGATTT
15487714 TT
1 TT
15487716 TGCAACATAA
Statistics
Matches: 2051, Mismatches: 117, Indels: 116
0.90 0.05 0.05
Matches are distributed among these distances:
134 62 0.03
135 59 0.03
136 2 0.00
138 1 0.00
139 4 0.00
144 624 0.30
145 19 0.01
146 73 0.04
147 12 0.01
148 158 0.08
149 112 0.05
150 9 0.00
151 32 0.02
152 210 0.10
153 30 0.01
154 506 0.25
155 2 0.00
157 6 0.00
158 124 0.06
161 6 0.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (145 bp):
TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTT
Found at i:15486544 original size:86 final size:84
Alignment explanation
Indices: 15486389--15486553 Score: 242
Period size: 86 Copynumber: 1.9 Consensus size: 84
15486379 GAGTTGATTT
* * * ** *
15486389 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAG
1 TTGAAAACAAAAATTGAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG
15486454 TTGATTTTTTGAAAAATAGA
66 TTGA-TTTTTGAAAAATAGA
15486474 TTGAAACACAAAAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAA-ACAAAAATTGA-AATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
15486538 AGTTGATTTTTGAAAA
64 AGTTGATTTTTGAAAA
15486554 CAGAAATTGA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
85 16 0.22
86 54 0.75
87 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (84 bp):
TTGAAAACAAAAATTGAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGAAAAATAGA
Found at i:15487089 original size:58 final size:59
Alignment explanation
Indices: 15486998--15487114 Score: 173
Period size: 58 Copynumber: 2.0 Consensus size: 59
15486988 TTTTTAACAA
** *
15486998 CAGAAATTGAAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATGTGAG
1 CAGAAATTGAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* **
15487057 CAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 CAGAAATTGAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
15487115 TTGATTTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
58 39 0.75
59 13 0.25
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (59 bp):
CAGAAATTGAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
Found at i:15488773 original size:7 final size:7
Alignment explanation
Indices: 15488761--15488798 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
15488751 TCCCTCTCTC
15488761 TTTTTCT
1 TTTTTCT
15488768 TTTTTCT
1 TTTTTCT
15488775 TTTTTC-
1 TTTTTCT
15488781 -TTTTCT
1 TTTTTCT
*
15488787 TTTCTCT
1 TTTTTCT
15488794 TTTTT
1 TTTTT
15488799 TTAAGATGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 5 0.19
7 22 0.81
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:15488784 original size:12 final size:12
Alignment explanation
Indices: 15488759--15488800 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
15488749 GATCCCTCTC
*
15488759 TCTTTTTCTTTTT
1 TCTTTTT-TCTTT
15488772 TCTTTTTTCTTT
1 TCTTTTTTCTTT
*
15488784 TCTTTTCTCTTT
1 TCTTTTTTCTTT
15488796 T-TTTT
1 TCTTTT
15488801 AAGATGCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 4 0.15
12 16 0.59
13 7 0.26
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TCTTTTTTCTTT
Found at i:15488786 original size:19 final size:19
Alignment explanation
Indices: 15488762--15488798 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15488752 CCCTCTCTCT
*
15488762 TTTTCTTTTTTCTTTTTTC
1 TTTTCTTTTCTCTTTTTTC
15488781 TTTTCTTTTCTCTTTTTT
1 TTTTCTTTTCTCTTTTTT
15488799 TTAAGATGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTCTTTTCTCTTTTTTC
Found at i:15498066 original size:18 final size:18
Alignment explanation
Indices: 15498024--15498117 Score: 70
Period size: 17 Copynumber: 5.1 Consensus size: 18
15498014 GAAAAATAAG
*
15498024 AATTTTT-AAAACACGGA
1 AATTTTTGAAAACACGAA
15498041 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
15498058 AATTTTTG-AAAC-CTGAA
1 AATTTTTGAAAACAC-GAA
*
15498075 TTTATTTTTTAGAAAAACACGAA
1 ---AATTTTT-G-AAAACACGAA
* *
15498098 AAATTTTGGAAACACGAA
1 AATTTTTGAAAACACGAA
15498116 AA
1 AA
15498118 GTTTACAACA
Statistics
Matches: 62, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
16 5 0.08
17 20 0.32
18 16 0.26
19 1 0.02
20 11 0.18
21 1 0.02
23 7 0.11
24 1 0.02
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.30
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:15498688 original size:15 final size:17
Alignment explanation
Indices: 15498668--15498699 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
15498658 TTAGGAATCG
15498668 TACATAA-A-AAATATA
1 TACATAATATAAATATA
15498683 TACATAATATAAATATA
1 TACATAATATAAATATA
15498700 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:15499242 original size:11 final size:11
Alignment explanation
Indices: 15499208--15499249 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
15499198 AAATCATTTT
15499208 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
15499219 GAA-AAAAAAA
1 GAAGAGAGAAA
*
15499229 GAAGGGAGAAA
1 GAAGAGAGAAA
15499240 GAAGAGAGAA
1 GAAGAGAGAA
15499250 GGGAGGGGGG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:15512545 original size:34 final size:34
Alignment explanation
Indices: 15512466--15512559 Score: 107
Period size: 34 Copynumber: 2.8 Consensus size: 34
15512456 CTGGTACTGT
* **
15512466 ACTGAAATGGGCTAAGGCCCACACTAATACAGTT
1 ACTGAAATGGGCTAAGGCCCACACTGATACAGCA
* * **
15512500 ACTGTATTGGGCTAAGGCCCACACTGATATTGCA
1 ACTGAAATGGGCTAAGGCCCACACTGATACAGCA
* *
15512534 ACTGAAATGGGCTTAGGCCCAGACTG
1 ACTGAAATGGGCTAAGGCCCACACTG
15512560 TTCAACACTG
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.22
Consensus pattern (34 bp):
ACTGAAATGGGCTAAGGCCCACACTGATACAGCA
Found at i:15527421 original size:13 final size:13
Alignment explanation
Indices: 15527403--15527427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15527393 TAATGGTATA
15527403 TTGAATCCATGAT
1 TTGAATCCATGAT
15527416 TTGAATCCATGA
1 TTGAATCCATGA
15527428 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:15529186 original size:49 final size:47
Alignment explanation
Indices: 15529108--15529277 Score: 241
Period size: 47 Copynumber: 3.6 Consensus size: 47
15529098 TATTTGAATA
15529108 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
* *
15529155 AATGTAAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATG
* * * * *
15529204 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
* *
15529251 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
15529278 TCCCGAAGGG
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
47 63 0.58
49 45 0.42
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
Found at i:15533181 original size:52 final size:52
Alignment explanation
Indices: 15533119--15533217 Score: 180
Period size: 52 Copynumber: 1.9 Consensus size: 52
15533109 TAGTTCAGGA
*
15533119 ATGAGTAATTATAAATATTTAAAACCTAACACGAAATCACGCGATCACCTAC
1 ATGAGTAATTATAAATATTTAAAACCTAACACGAAATCAAGCGATCACCTAC
*
15533171 ATGAGTAATTATAAATATTTAAAACCTATCACGAAATCAAGCGATCA
1 ATGAGTAATTATAAATATTTAAAACCTAACACGAAATCAAGCGATCA
15533218 AACACCTCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.26
Consensus pattern (52 bp):
ATGAGTAATTATAAATATTTAAAACCTAACACGAAATCAAGCGATCACCTAC
Found at i:15537488 original size:31 final size:31
Alignment explanation
Indices: 15537446--15537521 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
15537436 AACGGTTACT
* *
15537446 GGGCTGAAGCCTTTTCATAAATCATATCACTC
1 GGGCCGAAGCCTTTTAATAAATCATATCA-TC
15537478 -GGCCGAAGCCTTTTAATAAATCATATCATC
1 GGGCCGAAGCCTTTTAATAAATCATATCATC
*
15537508 GGGCCGTAGCCTTT
1 GGGCCGAAGCCTTT
15537522 ACTGTAAACG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 2 0.05
31 38 0.95
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (31 bp):
GGGCCGAAGCCTTTTAATAAATCATATCATC
Found at i:15537811 original size:26 final size:26
Alignment explanation
Indices: 15537727--15537888 Score: 233
Period size: 26 Copynumber: 6.3 Consensus size: 26
15537717 TTGGAGGCCT
15537727 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
15537751 AGCCCTTTTCAGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
15537776 AGCCCTTTTCGATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
15537802 AGCCCTTTTCAATAAATTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** *
15537828 AGCCCTTTTCGGTAAACTGAGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
15537854 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
15537880 AGCCCTTTT
1 AGCCCTTTT
15537889 GCACTTCCTC
Statistics
Matches: 123, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
23 5 0.04
24 6 0.05
25 33 0.27
26 79 0.64
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:15538769 original size:27 final size:27
Alignment explanation
Indices: 15538690--15538776 Score: 122
Period size: 27 Copynumber: 3.2 Consensus size: 27
15538680 TATTCGTCAT
* *
15538690 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCTC
15538717 TTTACCCTACAGGGGCTTTACGGTCTC
1 TTTACCCTACAGGGGCTTTACGGTCTC
* *
15538744 TTTACCCTATAGGGGCTTTACGGTCTT
1 TTTACCCTACAGGGGCTTTACGGTCTC
15538771 TTTACC
1 TTTACC
15538777 TAATAGGGGT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCTC
Found at i:15538860 original size:27 final size:27
Alignment explanation
Indices: 15538807--15539165 Score: 275
Period size: 27 Copynumber: 13.3 Consensus size: 27
15538797 TTTCATCCTA
* * * *
15538807 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
** ** *
15538834 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** *
15538861 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-T
* **
15538890 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
15538917 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
15538944 TAAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
15538970 CTAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTACAAAT
*
15538997 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTTGGTAATTTTACAAAT
** * *
15539025 TGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
15539052 CAAGGGTATTTTAGCAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
15539078 CTA-GGTATTTTGGTAATTTTACTGAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
15539104 CGAGGGTATTTTGGTAATCTTGTA-AACT
1 CAAGGGTATTTTGGTAAT-TT-TACAAAT
*
15539132 -AAGGGTATTTTAGTAATTTTGA-AAAT
1 CAAGGGTATTTTGGTAATTTT-ACAAAT
*
15539158 CGAGGGTA
1 CAAGGGTA
15539166 AAATAGTAAT
Statistics
Matches: 265, Mismatches: 54, Indels: 26
0.77 0.16 0.08
Matches are distributed among these distances:
25 19 0.07
26 13 0.05
27 201 0.76
28 17 0.06
29 15 0.06
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:15539015 original size:81 final size:78
Alignment explanation
Indices: 15538919--15539151 Score: 306
Period size: 81 Copynumber: 2.9 Consensus size: 78
15538909 TTGTAAATCA
* *
15538919 AGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGTGGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTT-ACAAACTAG-GGTATTTTA
15538984 GTAATTTTACAAACT
64 GTAATTTTACAAACT
*
15538999 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
1 A-GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAA-TTTACAAA-CTAGGGTATTTT
*
15539064 AGCAATTTTACAAACT
63 AGTAATTTTACAAACT
** * * **
15539080 A-GGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATCTTGTAAACTAAGGGTATTTTA
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAAT-TTACAAACT-AGGGTATTTTA
15539144 GTAATTTT
64 GTAATTTT
15539152 GAAAATCGAG
Statistics
Matches: 136, Mismatches: 12, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
78 2 0.01
79 59 0.43
80 1 0.01
81 68 0.50
82 6 0.04
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (78 bp):
AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTACAAACTAGGGTATTTTAGT
AATTTTACAAACT
Found at i:15539172 original size:27 final size:27
Alignment explanation
Indices: 15539142--15539273 Score: 142
Period size: 27 Copynumber: 4.9 Consensus size: 27
15539132 AAGGGTATTT
*
15539142 TAGTAATTTTGAAAATCGAGGGTAAAA
1 TAGTAATTCTGAAAATCGAGGGTAAAA
* *
15539169 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGAAAATCGAGGGTAAAA
* *
15539196 CAGTAATTCT-ATAAGTCGAGGGTAAAA
1 TAGTAATTCTGA-AAATCGAGGGTAAAA
* *
15539223 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGAAAATCGAGGGTAAAA
** *
15539250 CGGTAATTCT-ATAAATTGAGGGTA
1 TAGTAATTCTGA-AAATCGAGGGTA
15539274 TTTTGGTAAT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
TAGTAATTCTGAAAATCGAGGGTAAAA
Found at i:15539281 original size:27 final size:27
Alignment explanation
Indices: 15539251--15539303 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
15539241 AGGGTAAAAC
*
15539251 GGTAATTCTATAAATTGAGGGTATTTT
1 GGTAATTTTATAAATTGAGGGTATTTT
*
15539278 GGTAATTTTATAATTTGAGGGTATTT
1 GGTAATTTTATAAATTGAGGGTATTT
15539304 CAGAAATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (27 bp):
GGTAATTTTATAAATTGAGGGTATTTT
Found at i:15539284 original size:54 final size:54
Alignment explanation
Indices: 15539154--15539273 Score: 195
Period size: 54 Copynumber: 2.2 Consensus size: 54
15539144 GTAATTTTGA
*
15539154 AAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAT
1 AAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAT
* * *
15539208 AAGTCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
1 AAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAT
*
15539262 AAATTGAGGGTA
1 AAATCGAGGGTA
15539274 TTTTGGTAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (54 bp):
AAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAT
Found at i:15539298 original size:54 final size:54
Alignment explanation
Indices: 15539154--15539300 Score: 177
Period size: 54 Copynumber: 2.7 Consensus size: 54
15539144 GTAATTTTGA
* * *
15539154 AAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAT
1 AAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTAT
* * *
15539208 AAGTCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
1 AAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTAT
* *** * * *
15539262 AAATTGAGGGTATTTTGGTAATTTTATAATTTGAGGGTA
1 AAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTA
15539301 TTTCAGAAAT
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (54 bp):
AAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTAT
Found at i:15539311 original size:27 final size:27
Alignment explanation
Indices: 15539254--15539312 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
15539244 GTAAAACGGT
* ** *
15539254 AATTCTATAAATTGAGGGTATTTTGGT
1 AATTTTATAAATTGAGGGTATTTCAGA
*
15539281 AATTTTATAATTTGAGGGTATTTCAGA
1 AATTTTATAAATTGAGGGTATTTCAGA
15539308 AATTT
1 AATTT
15539313 GGTAAACTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (27 bp):
AATTTTATAAATTGAGGGTATTTCAGA
Found at i:15553187 original size:27 final size:27
Alignment explanation
Indices: 15553157--15553217 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
15553147 CTGATTTGTG
15553157 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACTGAAATACCCTCGACCTATA
* *
15553184 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTATA
15553211 AAATTAC
1 AAATTAC
15553218 CAAAGTACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTATA
Found at i:15553245 original size:27 final size:27
Alignment explanation
Indices: 15552180--15553173 Score: 1819
Period size: 27 Copynumber: 36.8 Consensus size: 27
15552170 AGTGGATAAG
*
15552180 TTGTAAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * * *
15552207 TTGTAAAAGTACTAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * * *
15552234 TTATAAAATTAGCAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* *
15552261 TTATAAAATTACCAAAATACCCTTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* *
15552288 TTGTAAAATTACCAAAATATCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552315 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552342 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552369 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552396 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552423 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552450 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552477 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552504 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552531 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552558 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552585 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552612 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552639 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552666 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552693 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552720 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552747 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552774 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552801 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552828 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552855 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552882 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552909 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552936 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552963 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15552990 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15553017 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15553044 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15553071 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
*
15553098 TTGTAAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
15553125 TTGTAAAATTACCAAAATACCCCT-GAT
1 TTGTAAAATTACCAAAATACCCCTAG-T
* **
15553152 TTGTGAAATTACTGAAATACCC
1 TTGTAAAATTACCAAAATACCC
15553174 TCGACCTATA
Statistics
Matches: 947, Mismatches: 19, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
26 1 0.00
27 946 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:15553254 original size:81 final size:81
Alignment explanation
Indices: 15552315--15553282 Score: 263
Period size: 81 Copynumber: 12.0 Consensus size: 81
15552305 TATCCCTGGT
* * * * ** **
15552315 TTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAAT
1 TTGTAAAATTACCAAAATACCCCTGA-TTTATGAAATTACCGAAATACCCTCGA-CCTACAAAAT
* * * *
15552378 TACCAAAATACCC-CTAGT
64 TATCGAAATACCCTCGA-C
* * * * ** **
15552396 TTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAAT
1 TTGTAAAATTACCAAAATACCCCTGA-TTTATGAAATTACCGAAATACCCTCGA-CCTACAAAAT
* * * *
15552459 TACCAAAATACCC-CTAGT
64 TATCGAAATACCCTCGA-C
* * * * ** **
15552477 TTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAAT
1 TTGTAAAATTACCAAAATACCCCTGA-TTTATGAAATTACCGAAATACCCTCGA-CCTACAAAAT
* * * *
15552540 TACCAAAATACCC-CTAGT
64 TATCGAAATACCCTCGA-C
* * * * ** **
15552558 TTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAAT
1 TTGTAAAATTACCAAAATACCCCTGA-TTTATGAAATTACCGAAATACCCTCGA-CCTACAAAAT
* * * *
15552621 TACCAAAATACCC-CTAGT
64 TATCGAAATACCCTCGA-C
* * * * ** **
15552639 TTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAAT
1 TTGTAAAATTACCAAAATACCCCTGA-TTTATGAAATTACCGAAATACCCTCGA-CCTACAAAAT
* * * *
15552702 TACCAAAATACCC-CTAGT
64 TATCGAAATACCCTCGA-C
* * * * ** **
15552720 TTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAAT
1 TTGTAAAATTACCAAAATACCCCTGA-TTTATGAAATTACCGAAATACCCTCGA-CCTACAAAAT
* * * *
15552783 TACCAAAATACCC-CTAGT
64 TATCGAAATACCCTCGA-C
* * * * ** **
15552801 TTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAAT
1 TTGTAAAATTACCAAAATACCCCTGA-TTTATGAAATTACCGAAATACCCTCGA-CCTACAAAAT
* * * *
15552864 TACCAAAATACCC-CTAGT
64 TATCGAAATACCCTCGA-C
* * * * ** **
15552882 TTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAAT
1 TTGTAAAATTACCAAAATACCCCTGA-TTTATGAAATTACCGAAATACCCTCGA-CCTACAAAAT
* * * *
15552945 TACCAAAATACCC-CTAGT
64 TATCGAAATACCCTCGA-C
* * * * ** **
15552963 TTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAAT
1 TTGTAAAATTACCAAAATACCCCTGA-TTTATGAAATTACCGAAATACCCTCGA-CCTACAAAAT
* * * *
15553026 TACCAAAATACCC-CTAGT
64 TATCGAAATACCCTCGA-C
* * * * ** **
15553044 TTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAAT
1 TTGTAAAATTACCAAAATACCCCTGA-TTTATGAAATTACCGAAATACCCTCGA-CCTACAAAAT
* * **
15553107 TACCAAAATACCC-CTGGT
64 TATCGAAATACCCTC-GAC
* * *
15553125 TTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTCGACCTATAAAATTA
1 TTGTAAAATTACCAAAATACCCCTGATTTATGAAATTACCGAAATACCCTCGACCTACAAAATTA
15553190 -CTGAAATACCCTCGAC
66 TC-GAAATACCCTCGAC
* *** **
15553206 TTGTAAAATTACCAAAGTACCCCTGATTTAT-AGAATTACCGTTTTACCCTCGATTTACAAAATT
1 TTGTAAAATTACCAAAATACCCCTGATTTATGA-AATTACCGAAATACCCTCGACCTACAAAATT
15553270 ATCGAAATACCCT
65 ATCGAAATACCCT
15553283 TGTAGGGTAG
Statistics
Matches: 859, Mismatches: 21, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
80 2 0.00
81 852 0.99
82 5 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTGATTTATGAAATTACCGAAATACCCTCGACCTACAAAATTA
TCGAAATACCCTCGAC
Found at i:15553280 original size:27 final size:26
Alignment explanation
Indices: 15553157--15553282 Score: 101
Period size: 27 Copynumber: 4.7 Consensus size: 26
15553147 CTGATTTGTG
*
15553157 AAATTACTGAAATACCCTCGACCTATA
1 AAATTAC-GAAATACCCTCGACTTATA
*
15553184 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTAC-GAAATACCCTCGACTTATA
* *
15553211 AAATTACCAAAGTACCC-CTGATTTATA
1 AAATTACGAAA-TACCCTC-GACTTATA
* *** * *
15553238 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTA-CGAAATACCCTCGACTTATA
15553265 AAATTATCGAAATACCCT
1 AAATTA-CGAAATACCCT
15553283 TGTAGGGTAG
Statistics
Matches: 79, Mismatches: 16, Indels: 8
0.77 0.16 0.08
Matches are distributed among these distances:
26 4 0.05
27 73 0.92
28 2 0.03
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (26 bp):
AAATTACGAAATACCCTCGACTTATA
Found at i:15553302 original size:27 final size:27
Alignment explanation
Indices: 15553272--15553346 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
15553262 ACAAAATTAT
15553272 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
15553299 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
* * *
15553326 TGAAATACCCCTATAGGGTAG
1 CGAAATACCCTTGTAGGGTAG
15553347 GACTACCAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (27 bp):
CGAAATACCCTTGTAGGGTAGAAATAC
Found at i:15554049 original size:27 final size:26
Alignment explanation
Indices: 15554005--15554055 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
15553995 CTCGTTGCAA
*
15554005 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
15554032 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
15554056 AGCAACCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:15565049 original size:41 final size:41
Alignment explanation
Indices: 15564978--15565206 Score: 201
Period size: 41 Copynumber: 5.6 Consensus size: 41
15564968 ATTAGAGTGT
* * *
15564978 AAACAGAGGCACGCATGTGCAATTTAGGGGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
* * * * ***
15565019 AAATAGGGACACGTATGTGAAATTTAGGGGTAATGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
* * * * *
15565060 AAATAGGGGCATGTAAGTGCAATTCAGGGGGTATCAAAGTAG
1 AAACAGGGGCACGTATGTGCAATTCA-GGGGTACCAAAGTAC
* * * * * *
15565102 AAACAGGGTCACGTTTGTGCAATTCA-GGGTATCGAAGCAG
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
* *
15565142 GAACAGGGGCACATATGTGCAATTCAGGGGTACCGAAA-TAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACC-AAAGTAC
* *
15565183 AAACAGGGGCATGTATGTACAATT
1 AAACAGGGGCACGTATGTGCAATT
15565207 TAAGAAATAA
Statistics
Matches: 149, Mismatches: 36, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
40 34 0.23
41 81 0.54
42 34 0.23
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.21
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
Found at i:15565147 original size:40 final size:40
Alignment explanation
Indices: 15565076--15565170 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 40
15565066 GGGCATGTAA
* * * *
15565076 GTGCAATTCAGGGGGTATCAAAGTAGAAACAGGGTCACGTTT
1 GTGCAATTCA--GGGTATCAAAGCAGAAACAGGGGCACATAT
* *
15565118 GTGCAATTCAGGGTATCGAAGCAGGAACAGGGGCACATAT
1 GTGCAATTCAGGGTATCAAAGCAGAAACAGGGGCACATAT
15565158 GTGCAATTCAGGG
1 GTGCAATTCAGGG
15565171 GTACCGAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 37 0.79
42 10 0.21
ACGTcount: A:0.31, C:0.16, G:0.33, T:0.21
Consensus pattern (40 bp):
GTGCAATTCAGGGTATCAAAGCAGAAACAGGGGCACATAT
Found at i:15566807 original size:41 final size:41
Alignment explanation
Indices: 15566730--15566863 Score: 178
Period size: 41 Copynumber: 3.2 Consensus size: 41
15566720 ACGCCGCCAT
* *
15566730 GACCTTTAGTGGTGCTTTTTCCACAAATGCCGCTATAGAACA
1 GACCTTTAGTGGCGC-TTTTCCACAAATGCCACTATAGAACA
*
15566772 GACCTTTAGTGGCGCTTTGCCACAAATGCCACTATAGAACA
1 GACCTTTAGTGGCGCTTTTCCACAAATGCCACTATAGAACA
* * * *
15566813 GACCTTTAGAGGCGCTTTTCTCACAAACGTCACTAAAGAACA
1 GACCTTTAGTGGCGCTTTTC-CACAAATGCCACTATAGAACA
15566855 TGACCTTTA
1 -GACCTTTA
15566864 AAAAATATAT
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
41 42 0.51
42 32 0.39
43 8 0.10
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (41 bp):
GACCTTTAGTGGCGCTTTTCCACAAATGCCACTATAGAACA
Found at i:15568229 original size:26 final size:26
Alignment explanation
Indices: 15568200--15568258 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
15568190 GCCGATGTGG
*
15568200 GCCCACACACTTGTGTGGCCCAATAA
1 GCCCACACACTCGTGTGGCCCAATAA
*
15568226 GCCCACACACTCGTGTGGCCTAATAA
1 GCCCACACACTCGTGTGGCCCAATAA
15568252 GCCCACA
1 GCCCACA
15568259 TACTGGCCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.27, C:0.37, G:0.19, T:0.17
Consensus pattern (26 bp):
GCCCACACACTCGTGTGGCCCAATAA
Found at i:15571887 original size:11 final size:12
Alignment explanation
Indices: 15571860--15571884 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15571850 ATAATAAGCC
15571860 TTAATTTTTATA
1 TTAATTTTTATA
15571872 TTAATTTTTATA
1 TTAATTTTTATA
15571884 T
1 T
15571885 AATAAACCTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTAATTTTTATA
Found at i:15572849 original size:109 final size:113
Alignment explanation
Indices: 15572683--15572965 Score: 283
Period size: 115 Copynumber: 2.5 Consensus size: 113
15572673 GCGTTTATCT
* * * * **
15572683 ACTAGCACCGCTAAATCCCTACATATTGCGGTGTTTAAGAAAAAAATGCCACT-AAAAA-CCTAC
1 ACTAGCACCGCTAAAGCCCGACATATTGCGGAGTTTAA-ACAAAAATGCCACTAAAAAATCAAAC
*** *
15572746 AAAACGGTGTCGTTTTGATT-A-AAAA-AACATTTTGCGGCA-TTTTTA
65 AAAACGACATCATTTTGATTAACAAAATAACATTTTGCGGCATTTTTTA
* * *
15572791 ACCTAGCACCGCTAAA-CCCGGACCTATTGCGGCGTTTTAACAAAAATGCCACTAAAAAATCAAA
1 A-CTAGCACCGCTAAAGCCC-GACATATTGCGGAGTTTAAACAAAAATGCCACTAAAAAATCAAA
* * *
15572855 TAAAACGACATCATTTTGATTAAAACAAAATAACTTTTTGTGGCATTTTTTA
64 CAAAACGACATCATTTTGATT--AACAAAATAACATTTTGCGGCATTTTTTA
* * * * *
15572907 ACTAGCACCGCTAAAGCCCGACATATTACGGAGTTTCACCAAAAACGCCACTAAGAAAT
1 ACTAGCACCGCTAAAGCCCGACATATTGCGGAGTTTAAACAAAAATGCCACTAAAAAAT
15572966 TGTAACACCC
Statistics
Matches: 143, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
108 17 0.12
109 34 0.24
110 18 0.13
113 1 0.01
114 4 0.03
115 59 0.41
116 10 0.07
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (113 bp):
ACTAGCACCGCTAAAGCCCGACATATTGCGGAGTTTAAACAAAAATGCCACTAAAAAATCAAACA
AAACGACATCATTTTGATTAACAAAATAACATTTTGCGGCATTTTTTA
Found at i:15576768 original size:14 final size:14
Alignment explanation
Indices: 15576751--15576958 Score: 66
Period size: 14 Copynumber: 14.7 Consensus size: 14
15576741 ACTTATCCCT
* * *
15576751 TAAACCCTAAATCA
1 TAAACCATAAACCC
15576765 TAAACCATAAACCC
1 TAAACCATAAACCC
* *
15576779 TAAACCCCT-AACCT
1 TAAA-CCATAAACCC
* * *
15576793 TTAACCCTTAACCC
1 TAAACCATAAACCC
* * *
15576807 TTAACCCTTAACCC
1 TAAACCATAAACCC
* *
15576821 TTAACCCCT-AACCAC
1 -TAAACCATAAACC-C
*
15576836 TAAACCTTAAACCC
1 TAAACCATAAACCC
* * *
15576850 -CAACACTTAAACCA
1 TAAAC-CATAAACCC
* *
15576864 TAAACCATAATCCA
1 TAAACCATAAACCC
* *
15576878 TAATCCATAAACCT
1 TAAACCATAAACCC
15576892 TAAA--ATAGTAACTCC
1 TAAACCATA--AAC-CC
* **
15576907 TAAACCTTAAAATC
1 TAAACCATAAACCC
*
15576921 TAAACCATATACCC
1 TAAACCATAAACCC
*
15576935 TGAACCATAAACCC
1 TAAACCATAAACCC
* *
15576949 AAAACTATAA
1 TAAACCATAA
15576959 TGATAATTAA
Statistics
Matches: 149, Mismatches: 33, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
12 3 0.02
13 7 0.05
14 113 0.76
15 24 0.16
17 2 0.01
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.22
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:15576789 original size:8 final size:7
Alignment explanation
Indices: 15576721--15576849 Score: 73
Period size: 7 Copynumber: 18.1 Consensus size: 7
15576711 ACTAATTAAT
15576721 CTAAACC
1 CTAAACC
*
15576728 CTAATCC
1 CTAAACC
* *
15576735 CTTAACA
1 CTAAACC
* *
15576742 CTTATCC
1 CTAAACC
15576749 CTTAAACC
1 C-TAAACC
*
15576757 CTAAATC
1 CTAAACC
*
15576764 ATAAACC
1 CTAAACC
*
15576771 ATAAACC
1 CTAAACC
15576778 CTAAACCC
1 CTAAA-CC
15576786 CT-AACC
1 CTAAACC
* *
15576792 TTTAACC
1 CTAAACC
*
15576799 CTTAACC
1 CTAAACC
*
15576806 CTTAACC
1 CTAAACC
*
15576813 CTTAACC
1 CTAAACC
*
15576820 CTTAACCC
1 C-TAAACC
15576828 CT-AACC
1 CTAAACC
15576834 ACTAAACC
1 -CTAAACC
*
15576842 TTAAACC
1 CTAAACC
15576849 C
1 C
15576850 CAACACTTAA
Statistics
Matches: 97, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
6 6 0.06
7 73 0.75
8 18 0.19
ACGTcount: A:0.36, C:0.40, G:0.00, T:0.24
Consensus pattern (7 bp):
CTAAACC
Found at i:15576791 original size:21 final size:21
Alignment explanation
Indices: 15576767--15576869 Score: 91
Period size: 21 Copynumber: 4.9 Consensus size: 21
15576757 CTAAATCATA
15576767 AACCATAAACCCTAAACCCCT
1 AACCATAAACCCTAAACCCCT
* * * *
15576788 AACCTTTAACCCTTAACCCTT
1 AACCATAAACCCTAAACCCCT
* * *
15576809 AACCCTTAACCCTTAACCCCT
1 AACCATAAACCCTAAACCCCT
*
15576830 AACCACTAAACCTTAAACCCC-
1 AACCA-TAAACCCTAAACCCCT
* *
15576851 AACACTTAAACCATAAACC
1 AAC-CATAAACCCTAAACC
15576870 ATAATCCATA
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
21 55 0.81
22 13 0.19
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCATAAACCCTAAACCCCT
Found at i:15576867 original size:7 final size:7
Alignment explanation
Indices: 15576857--15576895 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
15576847 CCCCAACACT
15576857 TAAACCA
1 TAAACCA
15576864 TAAACCA
1 TAAACCA
*
15576871 TAATCCA
1 TAAACCA
*
15576878 TAATCCA
1 TAAACCA
*
15576885 TAAACCT
1 TAAACCA
15576892 TAAA
1 TAAA
15576896 ATAGTAACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:15580145 original size:98 final size:97
Alignment explanation
Indices: 15579976--15580172 Score: 304
Period size: 98 Copynumber: 2.0 Consensus size: 97
15579966 CAACTATGTT
* *
15579976 TCTATATTGAGCCATAGTTGTTAATACACCTTATGCTTACTACCTAATCAACGCATAAACTTTCA
1 TCTATATCGAGCCATAGTTGTTAATACACCTTATGCTTACTACCTAATCAACGCATAAACTCTCA
*
15580041 ATACAAATTTTCATTACTTAATAGACCAAGTTC
66 ATACAAATTTTCATTACTT-AGAGACCAAGTTC
* * * * * *
15580074 TCTATATCGAGCCATAGTTGTTAATACCCCTTATGTTTACTAGCTTATCAATGCATCAACTCTCA
1 TCTATATCGAGCCATAGTTGTTAATACACCTTATGCTTACTACCTAATCAACGCATAAACTCTCA
15580139 ATACAAATTTTCATTACTTAGAGACCAAGTTC
66 ATACAAATTTTCATTACTTAGAGACCAAGTTC
15580171 TC
1 TC
15580173 ATGCTTTTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
97 14 0.16
98 76 0.84
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.36
Consensus pattern (97 bp):
TCTATATCGAGCCATAGTTGTTAATACACCTTATGCTTACTACCTAATCAACGCATAAACTCTCA
ATACAAATTTTCATTACTTAGAGACCAAGTTC
Found at i:15580229 original size:3 final size:3
Alignment explanation
Indices: 15580221--15580256 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
15580211 TATCAAATCC
15580221 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15580257 CAAATTTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:15580776 original size:13 final size:13
Alignment explanation
Indices: 15580721--15580778 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
15580711 CTCGAACCCA
15580721 AAACCTTGAACCAT
1 AAACCTTGAACC-T
* *
15580735 GAACC-CGAACCT
1 AAACCTTGAACCT
**
15580747 AAATTTTGAATCCT
1 AAACCTTGAA-CCT
15580761 AAACCTTGAACCT
1 AAACCTTGAACCT
15580774 AAACC
1 AAACC
15580779 CCAAACCCCA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
12 3 0.09
13 16 0.47
14 15 0.44
ACGTcount: A:0.40, C:0.29, G:0.09, T:0.22
Consensus pattern (13 bp):
AAACCTTGAACCT
Found at i:15585465 original size:17 final size:17
Alignment explanation
Indices: 15585443--15585476 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15585433 TGTTATTAAA
*
15585443 GGTTAAAATGGTAAAAT
1 GGTTAAAATGATAAAAT
15585460 GGTTAAAATGATAAAAT
1 GGTTAAAATGATAAAAT
15585477 AATTAAAATA
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:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (17 bp):
GGTTAAAATGATAAAAT
Found at i:15585482 original size:17 final size:17
Alignment explanation
Indices: 15585445--15585485 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
15585435 TTATTAAAGG
* **
15585445 TTAAAATGGTAAAATGG
1 TTAAAATGATAAAATAA
15585462 TTAAAATGATAAAATAA
1 TTAAAATGATAAAATAA
15585479 TTAAAAT
1 TTAAAAT
15585486 AAAGCCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (17 bp):
TTAAAATGATAAAATAA
Found at i:15586800 original size:18 final size:18
Alignment explanation
Indices: 15586777--15586813 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
15586767 AATGTTGAGT
15586777 CTGATTCATGATTCCGTA
1 CTGATTCATGATTCCGTA
15586795 CTGATTCATGATTCCGTA
1 CTGATTCATGATTCCGTA
15586813 C
1 C
15586814 ATATGTGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (18 bp):
CTGATTCATGATTCCGTA
Found at i:15587281 original size:40 final size:40
Alignment explanation
Indices: 15587197--15587461 Score: 340
Period size: 40 Copynumber: 6.7 Consensus size: 40
15587187 TTGAATGATG
* * * * *
15587197 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
15587237 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
15587277 TCCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15587316 TCCGGGTTAAGTCCCGAAGGCAGTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15587356 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15587396 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
15587437 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
15587462 AACGAGGAGC
Statistics
Matches: 201, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
39 33 0.16
40 158 0.79
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15587479 original size:120 final size:118
Alignment explanation
Indices: 15587197--15587494 Score: 316
Period size: 119 Copynumber: 2.5 Consensus size: 118
15587187 TTGAATGATG
* ** * * * *
15587197 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAGTTGAAC-GAGTGACTAAATCCGG-TTAA-ATCCCGAAGGCAT
* *
15587260 TTGTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCATTGGTGCGAGTTACTAAA
63 TTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
* ** * *
15587316 TCCGGGTTAAGTCCCGAAGGCAGTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCAGTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* * *
15587381 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
* * * *
15587437 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCAGTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
15587495 TACGTGATTT
Statistics
Matches: 151, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
118 1 0.01
119 83 0.55
120 65 0.43
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCAGTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
Found at i:15588279 original size:50 final size:50
Alignment explanation
Indices: 15588220--15588319 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
15588210 GAAAATCACT
15588220 AAAAATAGTAGGAATGGAATTAAATAGTGAATAAATTATGTAAACGAACC
1 AAAAATAGTAGGAATGGAATTAAATAGTGAATAAATTATGTAAACGAACC
15588270 AAAAATAGTAGGAATGGAATTAAATAGTGAATAAATTATGTAAACGAACC
1 AAAAATAGTAGGAATGGAATTAAATAGTGAATAAATTATGTAAACGAACC
15588320 TTTATGAATC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (50 bp):
AAAAATAGTAGGAATGGAATTAAATAGTGAATAAATTATGTAAACGAACC
Found at i:15594597 original size:79 final size:81
Alignment explanation
Indices: 15594461--15594645 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
15594451 TTGAATGATG
*
15594461 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
15594525 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
15594540 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
15594602 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
15594620 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15594646 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:15594659 original size:40 final size:40
Alignment explanation
Indices: 15594462--15594645 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
15594452 TGAATGATGT
* * * *
15594462 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
15594502 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
15594542 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
15594580 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
15594621 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
15594646 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:15594667 original size:79 final size:79
Alignment explanation
Indices: 15594462--15594678 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
15594452 TGAATGATGT
** * * * **
15594462 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
15594525 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
15594542 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
15594607 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
15594621 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
15594679 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:15602566 original size:40 final size:40
Alignment explanation
Indices: 15602482--15602706 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
15602472 TTGAATGATG
* * *
15602482 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
15602521 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
15602562 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
15602601 TCCGGGTTAAGTCCCGAAAGCATTTGTGCGAGTTACTAAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
*
15602642 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
15602680 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
15602707 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 34 0.21
40 111 0.69
41 13 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:15621295 original size:17 final size:17
Alignment explanation
Indices: 15621275--15621308 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15621265 TGTCATTAAA
*
15621275 GGTTAAAATGGTAAAAT
1 GGTTAAAATGATAAAAT
*
15621292 GGTTTAAATGATAAAAT
1 GGTTAAAATGATAAAAT
15621309 AATTAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (17 bp):
GGTTAAAATGATAAAAT
Found at i:15622213 original size:43 final size:43
Alignment explanation
Indices: 15622165--15622247 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
15622155 TTACCGAGAG
15622165 GTGATTACATGTAAGACCATGTAT-GGTACATTGGCATTGTATT
1 GTGATTACATGTAAGACCATGTATAGG-ACATTGGCATTGTATT
* * * *
15622208 GTGATTACGTGTAAGACCGTGTCTAGGACATTGGTATTGT
1 GTGATTACATGTAAGACCATGTATAGGACATTGGCATTGT
15622248 TATATGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 33 0.94
44 2 0.06
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (43 bp):
GTGATTACATGTAAGACCATGTATAGGACATTGGCATTGTATT
Found at i:15655121 original size:27 final size:27
Alignment explanation
Indices: 15655091--15655144 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
15655081 AGACAATGCA
15655091 ATCAACCTAACACAAATTAAATTTAAG
1 ATCAACCTAACACAAATTAAATTTAAG
*
15655118 ATCAACCTAGCACAAATTAAATTTAAG
1 ATCAACCTAACACAAATTAAATTTAAG
15655145 CCATATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.26
Consensus pattern (27 bp):
ATCAACCTAACACAAATTAAATTTAAG
Found at i:15667096 original size:46 final size:47
Alignment explanation
Indices: 15666961--15667183 Score: 206
Period size: 47 Copynumber: 4.7 Consensus size: 47
15666951 GATAAGGAGA
* * * * *
15666961 CGATGCCATGTCTCAGACATGGTCTTACACTGGCTCGT-AT-TCCAAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCTC-TCATCTCGAGGC
* *
15667008 CGATGCCATGTCCTAGACATGGTCTTACACT-GACTATCATCTCGAGGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAG-CTCTCATCTCGAGGC
* * * *
15667056 CGATG-CATGTCCCAGACATGTATTACACTAGCCCTCATCTCAATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAGGC
* * * * *
15667102 CAATGCCATGTCCCAAACATGATCTTACACTGGCTCTCATAAT-GTGGC
1 CGATGCCATGTCCCAGACATG-TCTTACACTAGCTCTCAT-CTCGAGGC
15667150 CGATG-CATGTCCCAGACATGTCTTACACTAGCTC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTC
15667184 ACATTAACCC
Statistics
Matches: 145, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
46 39 0.27
47 75 0.52
48 30 0.21
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAGGC
Found at i:15667128 original size:94 final size:94
Alignment explanation
Indices: 15667010--15667181 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 94
15667000 TTCCAAGTCG
* * * *
15667010 ATGCCATGTCCTAGACATGGTCTTACACTGACTATCAT-CTCGAGGCCGATGCATGTCCCAGACA
1 ATGCCATGTCCCAAACATGATCTTACACTGACTATCATAAT-GAGGCCGATGCATGTCCCAGACA
15667074 TGTATTACACTAGCCCTCATCTCAATGCCA
65 TGTATTACACTAGCCCTCATCTCAATGCCA
* * *
15667104 ATGCCATGTCCCAAACATGATCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACAT
1 ATGCCATGTCCCAAACATGATCTTACACTGACTATCATAATGAGGCCGATGCATGTCCCAGACAT
*
15667169 GTCTTACACTAGC
66 GTATTACACTAGC
15667182 TCACATTAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
94 68 0.99
95 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (94 bp):
ATGCCATGTCCCAAACATGATCTTACACTGACTATCATAATGAGGCCGATGCATGTCCCAGACAT
GTATTACACTAGCCCTCATCTCAATGCCA
Found at i:15668353 original size:49 final size:49
Alignment explanation
Indices: 15668300--15668393 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
15668290 TATAAACATG
*
15668300 CCATATCATCAATTTAATAATAAAATAATTTATTAAACTCTGGATTTGT
1 CCATAACATCAATTTAATAATAAAATAATTTATTAAACTCTGGATTTGT
*
15668349 CCATAACATCAGTTTAATAATAAAATAATTTATTAAACTCTGGAT
1 CCATAACATCAATTTAATAATAAAATAATTTATTAAACTCTGGAT
15668394 ATGTGGTCCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (49 bp):
CCATAACATCAATTTAATAATAAAATAATTTATTAAACTCTGGATTTGT
Found at i:15671336 original size:40 final size:39
Alignment explanation
Indices: 15671291--15671485 Score: 257
Period size: 40 Copynumber: 4.9 Consensus size: 39
15671281 GGATATAGCT
*
15671291 ACTCGCTCAAATGCCTTCGGGACTTAGCCCAGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GTTATAGTA
15671331 ACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG-TTATAGTA
* *
15671371 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GTTATAGTA
* ** *
15671411 ACTCGCACAATTGCCTTCGGG-CTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGTTA-TAGTA
* *
15671450 ACTAGCACAAATGGCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GTTAT
15671486 CATCCGAATA
Statistics
Matches: 137, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.22
40 102 0.74
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGTTATAGTA
Found at i:15677018 original size:28 final size:29
Alignment explanation
Indices: 15676964--15677021 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
15676954 TACAGGAGTT
15676964 TTCACACGGCCTGGCACACGCCCGTGTCC
1 TTCACACGGCCTGGCACACGCCCGTGTCC
*
15676993 TTCACACGGCCAT-G-ACACGCCTGTGTCC
1 TTCACACGGCC-TGGCACACGCCCGTGTCC
15677021 T
1 T
15677022 AGCCTGTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 14 0.52
29 12 0.44
30 1 0.04
ACGTcount: A:0.16, C:0.41, G:0.22, T:0.21
Consensus pattern (29 bp):
TTCACACGGCCTGGCACACGCCCGTGTCC
Found at i:15680098 original size:53 final size:53
Alignment explanation
Indices: 15680037--15680143 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
15680027 TTTCCCTGAA
*
15680037 CAATCACTCAGTTAAAGTGTGGCAATGGTTGTGTGCATGTCTAGCATTGGATC
1 CAATCACTCAGTTAAAGTGTGGCAATGGTTGTGTGCATATCTAGCATTGGATC
*
15680090 CAATCACTCAGTTAAAGTGTGGCAATGGTTGTGTGCATATCTAGGATTGGATC
1 CAATCACTCAGTTAAAGTGTGGCAATGGTTGTGTGCATATCTAGCATTGGATC
15680143 C
1 C
15680144 GTGGAGAGCT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (53 bp):
CAATCACTCAGTTAAAGTGTGGCAATGGTTGTGTGCATATCTAGCATTGGATC
Found at i:15684720 original size:47 final size:47
Alignment explanation
Indices: 15684649--15684905 Score: 186
Period size: 46 Copynumber: 5.5 Consensus size: 47
15684639 GGCTAGTTCT
* *
15684649 AGACATGGTCTTACACTGGTTCATATCCCAAGCCGATGCCATGTCCT
1 AGACATGGTCTTACACTGGCTCATATCCCAAGCCGATGCCATGTCCC
* **
15684696 AGACATGGTCTTACACTGGCTCATATCCTAAGTTGATGCCATGTCCCCC
1 AGACATGGTCTTACACTGGCTCATATCCCAAGCCGATGCCATGT--CCC
* * **
15684745 AGACATGGTCTTACGCTGACT-ATCATCTCGTAGCCGATG-CATGTCCC
1 AGACATGGTCTTACACTGGCTCAT-ATC-CCAAGCCGATGCCATGTCCC
* * ** * * *
15684792 AAACAT-GTCTTACACTGGCTTACGTCTCGAGGTCGATG-CATGTCCC
1 AGACATGGTCTTACACTGGCTCATATC-CCAAGCCGATGCCATGTCCC
* * * * * * * *
15684838 AAACAT-TTCTTACACTAGAACTCGTCT-CGATGTCGATGCCATGT-CC
1 AGACATGGTCTTACACT-G-GCTCATATCCCAAGCCGATGCCATGTCCC
15684884 AGACATGGTCTTACACTGGCTC
1 AGACATGGTCTTACACTGGCTC
15684906 TCATAATGTG
Statistics
Matches: 172, Mismatches: 29, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
45 3 0.02
46 64 0.37
47 64 0.37
48 5 0.03
49 29 0.17
50 7 0.04
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
AGACATGGTCTTACACTGGCTCATATCCCAAGCCGATGCCATGTCCC
Found at i:15684820 original size:46 final size:45
Alignment explanation
Indices: 15684742--15684945 Score: 157
Period size: 46 Copynumber: 4.4 Consensus size: 45
15684732 TGCCATGTCC
* * * *
15684742 CCCAGACATGGTCTTACGCTGACTATCATCTCGTA-GCCGATGCATGT
1 CCCAAACAT-GTCTTACACTGGCT-TCGTCTCG-AGGCCGATGCATGT
*
15684789 CCCAAACATGTCTTACACTGGCTTACGTCTCGAGGTCGATGCATGT
1 CCCAAACATGTCTTACACTGGCTT-CGTCTCGAGGCCGATGCATGT
* * * *
15684835 CCCAAACATTTCTTACACTAGAAC-TCGTCTCGATGTCGATGCCATGT
1 CCCAAACATGTCTTACACT-G-GCTTCGTCTCGAGGCCGATG-CATGT
* * * *
15684882 -CCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG-ATGT
1 CCCAAACAT-GTCTTACACTGGCT-TCGT-CTCGAGGCCGATGCATGT
*
15684927 CCCAGACATGTCTTACACT
1 CCCAAACATGTCTTACACT
15684946 AGCTCACATT
Statistics
Matches: 131, Mismatches: 16, Indels: 22
0.78 0.09 0.13
Matches are distributed among these distances:
45 17 0.13
46 78 0.60
47 34 0.26
48 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
CCCAAACATGTCTTACACTGGCTTCGTCTCGAGGCCGATGCATGT
Found at i:15689664 original size:3 final size:3
Alignment explanation
Indices: 15689656--15689681 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15689646 TGAGGATCTC
15689656 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
15689682 CCTACAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:15692299 original size:40 final size:41
Alignment explanation
Indices: 15692228--15692330 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 41
15692218 CGATATCTCA
* * * * *
15692228 CACACTAAGTGTCGTACATAGCCGAAGCTATC-TCAAATCG
1 CACACTAAGTGCCATATATAGTCGAACCTATCTTCAAATCG
* **
15692268 CACACTAAGTGCCATATATAGTCGAACCTATCTTGATCTCG
1 CACACTAAGTGCCATATATAGTCGAACCTATCTTCAAATCG
* *
15692309 CACACTAAATGCCACATATAGT
1 CACACTAAGTGCCATATATAGT
15692331 TGATTTGTCA
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
40 27 0.52
41 25 0.48
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (41 bp):
CACACTAAGTGCCATATATAGTCGAACCTATCTTCAAATCG
Found at i:15697062 original size:20 final size:20
Alignment explanation
Indices: 15697037--15697074 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15697027 GTAACATATA
15697037 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
15697057 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
15697075 TAATTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:15727237 original size:37 final size:37
Alignment explanation
Indices: 15727187--15727265 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
15727177 TTATTACGAA
* * *
15727187 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
15727224 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
15727261 GTCTT
1 GTCTT
15727266 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:15727462 original size:47 final size:47
Alignment explanation
Indices: 15727384--15727640 Score: 415
Period size: 47 Copynumber: 5.5 Consensus size: 47
15727374 CCCTTCGGGA
* * ** * * *
15727384 CTTATCACATTTATACACTTTCACATCCATCATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15727431 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15727478 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15727525 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15727572 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15727619 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
15727641 TTGGCTGAAT
Statistics
Matches: 196, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 196 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:15735803 original size:27 final size:26
Alignment explanation
Indices: 15735749--15735806 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
15735739 TCATCTTTCC
*
15735749 CAAAACCAAATTTTAGAAAAACTTTT
1 CAAAACCAAATTTTAGAAAAACATTT
*
15735775 CAAAACTCTAATTTTGAGAAAAA-ATTT
1 CAAAAC-CAAATTTT-AGAAAAACATTT
15735802 CAAAA
1 CAAAA
15735807 ACCCATTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 6 0.21
27 15 0.54
28 7 0.25
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (26 bp):
CAAAACCAAATTTTAGAAAAACATTT
Found at i:15739892 original size:39 final size:39
Alignment explanation
Indices: 15739838--15739914 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
15739828 TCAAAACATG
15739838 ATTACTCAGCTTTGGAGTCTATTTAATATCTCTTTCAAT
1 ATTACTCAGCTTTGGAGTCTATTTAATATCTCTTTCAAT
15739877 ATTACTC-GACTTTGGAGTCTATTTAATATCTCTTTCAA
1 ATTACTCAG-CTTTGGAGTCTATTTAATATCTCTTTCAA
15739915 ACCTTTTCGG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 1 0.03
39 36 0.97
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.45
Consensus pattern (39 bp):
ATTACTCAGCTTTGGAGTCTATTTAATATCTCTTTCAAT
Found at i:15746671 original size:30 final size:30
Alignment explanation
Indices: 15746637--15746699 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
15746627 ACTTATTTTA
15746637 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
15746667 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
15746697 TTG
1 TTG
15746700 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:15748777 original size:33 final size:33
Alignment explanation
Indices: 15748740--15748807 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
15748730 CTGACGGACA
15748740 TTCCAAGTTGAGCAAAACATGGAGTTTCAATGC
1 TTCCAAGTTGAGCAAAACATGGAGTTTCAATGC
15748773 TTCCAAGTTGAGCAAAACATGGAGTTTCAATGC
1 TTCCAAGTTGAGCAAAACATGGAGTTTCAATGC
15748806 TT
1 TT
15748808 TTATACGTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (33 bp):
TTCCAAGTTGAGCAAAACATGGAGTTTCAATGC
Found at i:15752960 original size:40 final size:40
Alignment explanation
Indices: 15752905--15752986 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
15752895 ATAAACCAAT
15752905 GTCTGTTGTCTAGCCTCAATCCAGGTCAGATTTTGTCCTG
1 GTCTGTTGTCTAGCCTCAATCCAGGTCAGATTTTGTCCTG
15752945 GTCTGTTGTCTAGCCTCAATCCAGGTCAGATTTTGTCCTG
1 GTCTGTTGTCTAGCCTCAATCCAGGTCAGATTTTGTCCTG
15752985 GT
1 GT
15752987 GCTCTTTGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (40 bp):
GTCTGTTGTCTAGCCTCAATCCAGGTCAGATTTTGTCCTG
Found at i:15755104 original size:23 final size:24
Alignment explanation
Indices: 15755068--15755127 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
15755058 TTATTAGGAT
*
15755068 TTTTATGATATTATTTACATTTAA-
1 TTTTA-GATTTTATTTACATTTAAC
**
15755092 TTTTAGATTTTATTTTTATTTAAC
1 TTTTAGATTTTATTTACATTTAAC
*
15755116 TTTTAGAGTTTA
1 TTTTAGATTTTA
15755128 AATAGGAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (24 bp):
TTTTAGATTTTATTTACATTTAAC
Found at i:15756470 original size:26 final size:27
Alignment explanation
Indices: 15756441--15756495 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
15756431 CCCATAAGCA
*
15756441 AAACCTAAACCCAAAC-AACCCAAACT
1 AAACCCAAACCCAAACAAACCCAAACT
* *
15756467 AAACCCAATCCCAAACAAACCCAGACT
1 AAACCCAAACCCAAACAAACCCAAACT
15756494 AA
1 AA
15756496 GCAAATCAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.53, C:0.38, G:0.02, T:0.07
Consensus pattern (27 bp):
AAACCCAAACCCAAACAAACCCAAACT
Found at i:15757637 original size:15 final size:15
Alignment explanation
Indices: 15757619--15757656 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
15757609 TTAATTAATT
*
15757619 TTATTATTATTACTG
1 TTATTATTATTACTA
*
15757634 TTATTACTATTACTA
1 TTATTATTATTACTA
15757649 TTATTATT
1 TTATTATT
15757657 CTCTAAATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (15 bp):
TTATTATTATTACTA
Found at i:15757775 original size:3 final size:3
Alignment explanation
Indices: 15757760--15757794 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
15757750 AAAAGCTTAG
* *
15757760 ATT ATT ATC ATT ATT ATT ATT TTT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
15757795 CCTTTTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:15757985 original size:24 final size:22
Alignment explanation
Indices: 15757952--15757999 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
15757942 TTTGTCTTTA
*
15757952 TTATTTTTATTCATATTAATGCAT
1 TTATTGTTATTC-TATT-ATGCAT
*
15757976 TTATTGTTATTCTGTTATGCAT
1 TTATTGTTATTCTATTATGCAT
15757998 TT
1 TT
15758000 TAATGTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 11 0.50
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.60
Consensus pattern (22 bp):
TTATTGTTATTCTATTATGCAT
Found at i:15758472 original size:24 final size:22
Alignment explanation
Indices: 15758437--15758484 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
15758427 TTCGTCTTTA
15758437 TTATTGTCATTCATATTAATGCAT
1 TTATTGTCATTC-TATT-ATGCAT
* *
15758461 TTATTGTTATTCTGTTATGCAT
1 TTATTGTCATTCTATTATGCAT
15758483 TT
1 TT
15758485 TAATGTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 11 0.50
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (22 bp):
TTATTGTCATTCTATTATGCAT
Found at i:15761653 original size:91 final size:91
Alignment explanation
Indices: 15761498--15761679 Score: 337
Period size: 91 Copynumber: 2.0 Consensus size: 91
15761488 GATTCCAATT
* *
15761498 GACAAGGGTTATTCCAAAGCTGCCAACGTCCCAACGTTCTTAAAAAAGCTGATGAACATCACGGG
1 GACAAGGCTTATTCCAAAGCTGCCAACGTCCCAACGTTCTTAAAAAAACTGATGAACATCACGGG
*
15761563 AATGAGCGAATAGTGGATTGTAGGCC
66 AATGAGCGAATAGTGGATTGCAGGCC
15761589 GACAAGGCTTATTCCAAAGCTGCCAACGTCCCAACGTTCTTAAAAAAACTGATGAACATCACGGG
1 GACAAGGCTTATTCCAAAGCTGCCAACGTCCCAACGTTCTTAAAAAAACTGATGAACATCACGGG
15761654 AATGAGCGAATAGTGGATTGCAGGCC
66 AATGAGCGAATAGTGGATTGCAGGCC
15761680 AAATCAAGCA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 88 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (91 bp):
GACAAGGCTTATTCCAAAGCTGCCAACGTCCCAACGTTCTTAAAAAAACTGATGAACATCACGGG
AATGAGCGAATAGTGGATTGCAGGCC
Found at i:15773593 original size:44 final size:44
Alignment explanation
Indices: 15773324--15773580 Score: 239
Period size: 44 Copynumber: 5.8 Consensus size: 44
15773314 TACGAGTTAA
* * ** *
15773324 AAATTTTATCTTCCTAAAGTTGCAGTGGAATAGATTGAAGATAGC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA-C
* * * *
15773369 AAATATTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTAT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTAC
* * * * * * ** *
15773413 AAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAATTAT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTAC
* * * * *
15773457 GAGTCTTATCTCTCTGAAA-TTGCAGT-GAGCAGATCGAAGATAAC
1 AAATCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATTGAAGCT-AC
* *
15773501 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTAC
*
15773545 AAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT
15773581 CAAGGGACAA
Statistics
Matches: 172, Mismatches: 36, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
43 12 0.07
44 109 0.63
45 51 0.30
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTAC
Found at i:15773604 original size:132 final size:132
Alignment explanation
Indices: 15773355--15773614 Score: 290
Period size: 132 Copynumber: 2.0 Consensus size: 132
15773345 GCAGTGGAAT
* * * *
15773355 AGATTGAAGATAGCAAATATTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTATAAACCTT
1 AGATCGAAGATAACAAATATTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAACCTT
* * * * * ** ** * *
15773420 ATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAATTATGAGTCTTATCTCTCTGAAATTGCAGTGA
66 ATCTCCCTAAAGTTGCAGTAGAGCAGATTCAAAGGACAAATCATATCTCTCTGAAATTGCAGTGA
15773485 GC
131 GC
* * * *
15773487 AGATCGAAGATAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCC-
1 AGATCGAAGATAACAAATATTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAA-CCT
* * *
15773551 TATCTCCCTAAAGTTGCAGTGGAGCAGATTCAAGGGACAAATCATATAC-CTCTGAAGTTGCAGT
65 TATCTCCCTAAAGTTGCAGTAGAGCAGATTCAAAGGACAAATCATAT-CTCTCTGAAATTGCAGT
15773615 AGGTGGGATT
Statistics
Matches: 104, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
132 101 0.97
133 3 0.03
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (132 bp):
AGATCGAAGATAACAAATATTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAACCTT
ATCTCCCTAAAGTTGCAGTAGAGCAGATTCAAAGGACAAATCATATCTCTCTGAAATTGCAGTGA
GC
Found at i:15773606 original size:88 final size:88
Alignment explanation
Indices: 15773340--15773614 Score: 272
Period size: 88 Copynumber: 3.1 Consensus size: 88
15773330 TATCTTCCTA
* *
15773340 AAGTTGCAGTGGAATAGATTGAAGATAGCAAATATTATCTCTCTAAAGTTGCAGTGGAGCAGATT
1 AAGTTGCAGTGGAGTAGATTGAAGATA-CAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATT
* * * *
15773405 AAAGCTATAAACCTTATCTCTCTG
65 CAAGCAACAAATCTTATCTCTCTG
* * ** *
15773429 AAGTTGCAGTAGAGTAGGTTGAA-ATTATGAGTCTTATCTCTCTGAAA-TTGCAGT-GAGCAGA-
1 AAGTTGCAGTGGAGTAGATTGAAGA-TACAAATCTTATCTCTCT-AAAGTTGCAGTGGAGCAGAT
* * *
15773490 TCGAAGATAACCAATCTTATCTCCCTG
64 TC-AAG-CAACAAATCTTATCTCTCTG
* * * *
15773517 AAGTTGCAGTGGAGCAGATTGAAGCTACAAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTC
1 AAGTTGCAGTGGAGTAGATTGAAGATACAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTC
** *
15773582 AAGGGACAAATCATATAC-CTCTG
66 AAGCAACAAATCTTAT-CTCTCTG
15773605 AAGTTGCAGT
1 AAGTTGCAGT
15773615 AGGTGGGATT
Statistics
Matches: 149, Mismatches: 28, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
86 1 0.01
87 13 0.09
88 97 0.65
89 36 0.24
90 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (88 bp):
AAGTTGCAGTGGAGTAGATTGAAGATACAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTC
AAGCAACAAATCTTATCTCTCTG
Found at i:15773609 original size:44 final size:44
Alignment explanation
Indices: 15773330--15773614 Score: 155
Period size: 44 Copynumber: 6.5 Consensus size: 44
15773320 TTAAAAATTT
* * ** * **
15773330 TATCTTCCTAAAGTTGCAGTGGAATAGATTGAAGATAGCAAAT-A
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGCGA-CAAATCA
* * * * * * *
15773374 TTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTATAAACCT
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGCGACAAATCA
* * * * * *** ** * *
15773419 TATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAATTATGAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGCGACAAATCA
* * ** * *
15773463 TATCTCTCTGAAATTGCAGT-GAGCAGA-TCGAAGATAACCAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTC-AAG-CGACAAATCA
* * *
15773507 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGCGACAAATCA
* *
15773551 TATCTCCCTAAAGTTGCAGTGGAGCAGATTCAAGGGACAAATCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGCGACAAATCA
*
15773595 TATAC-CTCTGAAGTTGCAGT
1 TAT-CTCCCTGAAGTTGCAGT
15773615 AGGTGGGATT
Statistics
Matches: 192, Mismatches: 42, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
42 1 0.01
43 7 0.04
44 141 0.73
45 42 0.22
46 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGCGACAAATCA
Found at i:15775329 original size:4 final size:4
Alignment explanation
Indices: 15775312--15775349 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
15775302 ATTTTAAACT
* *
15775312 TTTA TTTG TTTA TTTA TTTA TTTA TTTA GTT- TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
15775350 TTATTTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 2 0.07
4 27 0.93
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:15782563 original size:22 final size:22
Alignment explanation
Indices: 15782538--15782581 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
15782528 TTTAGTTAAT
15782538 TATGCAATATTCCAATTTTGCC
1 TATGCAATATTCCAATTTTGCC
15782560 TATGCAATATTCCAATTTTGCC
1 TATGCAATATTCCAATTTTGCC
15782582 CTTAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (22 bp):
TATGCAATATTCCAATTTTGCC
Found at i:15784246 original size:18 final size:18
Alignment explanation
Indices: 15784211--15784249 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15784201 AATAATCCCC
*
15784211 TAAAATAATAAAATAAAA
1 TAAAATAATAAAACAAAA
15784229 TAAAATAA-ATAAACAAAA
1 TAAAATAATA-AAACAAAA
15784247 TAA
1 TAA
15784250 GACCAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (18 bp):
TAAAATAATAAAACAAAA
Found at i:15796832 original size:47 final size:47
Alignment explanation
Indices: 15796780--15796993 Score: 329
Period size: 47 Copynumber: 4.6 Consensus size: 47
15796770 GATAATTGTG
* *
15796780 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
15796827 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
15796874 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
15796921 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
15796968 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
15796994 TCCCGAAGGG
Statistics
Matches: 153, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 153 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:15800976 original size:81 final size:79
Alignment explanation
Indices: 15800805--15801022 Score: 215
Period size: 81 Copynumber: 2.7 Consensus size: 79
15800795 TTAAATCAAG
* * * * * *
15800805 ATAAAATCTATTAAATAGTGGGAATATATCCCGAAACAGAATCATTTGA-TTAAGTCATTTCATT
1 ATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAG-AT--TTT-ATTTAATTC-TAT--TT
*
15800869 TGGAAATAAAATCAAAATGAA
59 TGGAAAAAAAATCAAAATGAA
* **
15800890 ATAAAATCTGTTAATTGGCGGGAATAAATCTTGAAACAGATTTTCAATTTAATTCTATTTTGGAA
1 ATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTT--ATTTAATTCTATTTTGGAA
* *
15800955 AAAAAATTAAAATCG-T
64 AAAAAATCAAAAT-GAA
*
15800971 ATAAAATCTGTTAAATGGCGGGGATAAATCCCGAAACAGATTTTATTTAATT
1 ATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATT
15801023 TTAATTTCTA
Statistics
Matches: 113, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
79 8 0.07
81 58 0.51
82 4 0.04
83 3 0.03
84 8 0.07
85 32 0.28
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (79 bp):
ATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTCTATTTTGGAAAA
AAAATCAAAATGAA
Found at i:15801347 original size:88 final size:87
Alignment explanation
Indices: 15800867--15801348 Score: 441
Period size: 87 Copynumber: 5.6 Consensus size: 87
15800857 AGTCATTTCA
* * * **
15800867 TTTGGAAATAAAATCAAAA-TGAAATAAAATCTGTT-AATTGGCGGGAATAAATCTTGAAACAGA
1 TTTGGAAATAAAATCAAAATTGGAATAAAATCCGTTGAA-TGACGGGAATAAATCCCGAAACAGA
*
15800930 --TT-TTCAA-TTTAATTCT-AT
65 TTTTATTTAATTTTAATTCTCAT
* * * * * * * *
15800948 TTTGGAAAAAAAATTAAAA-TCGTATAAAATCTGTTAAATGGCGGGGATAAATCCCGAAACAGAT
1 TTTGGAAATAAAATCAAAATTGGAATAAAATCCGTTGAATGACGGGAATAAATCCCGAAACAGAT
15801012 TTTATTTAATTTTAATT-TCTAGT
66 TTTATTTAATTTTAATTCTC-A-T
* * * * * * *
15801035 TTTGGCAACAAAAT-AAGAATTGTAATAAAATCCATTGAACGATGGGAATAAATCCCGAAACAGG
1 TTTGGAAATAAAATCAA-AATTGGAATAAAATCCGTTGAATGACGGGAATAAATCCCGAAACAGA
* *
15801099 TTTTATTTAACTTTAATTTCTC-G
65 TTTTATTTAATTTTAA-TTCTCAT
* * * *
15801122 TTTGGAAATAAAAT-AAAAATGGAATAAAATACGTTGAATGATGGGAATAAATACCGAAACAGAT
1 TTTGGAAATAAAATCAAAATTGGAATAAAATCCGTTGAATGACGGGAATAAATCCCGAAACAGAT
* * **
15801186 TTTATTTTAATTTGAATACTTGT
66 TTTA-TTTAATTTTAATTCTCAT
* * * * * * * *
15801209 TTTGGAAA-AAAATCAAAATTAGAATAAAGTTCGTTGAAAGGCGGGAATAAATCTCTAAACAAAT
1 TTTGGAAATAAAATCAAAATTGGAATAAAATCCGTTGAATGACGGGAATAAATCCCGAAACAGAT
15801273 TTTATCTTAATTTTAATTCTCAT
66 TTTAT-TTAATTTTAATTCTCAT
* *
15801296 TTTGGAAATAAAATCAAAATTGGAATAAAATCCGTTGAATGACAGAAATAAAT
1 TTTGGAAATAAAATCAAAATTGGAATAAAATCCGTTGAATGACGGGAATAAAT
15801349 AATAACTTCC
Statistics
Matches: 324, Mismatches: 60, Indels: 27
0.79 0.15 0.07
Matches are distributed among these distances:
81 52 0.16
82 2 0.01
83 2 0.01
84 5 0.02
85 7 0.02
86 57 0.18
87 110 0.34
88 85 0.26
89 2 0.01
90 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (87 bp):
TTTGGAAATAAAATCAAAATTGGAATAAAATCCGTTGAATGACGGGAATAAATCCCGAAACAGAT
TTTATTTAATTTTAATTCTCAT
Found at i:15801608 original size:22 final size:23
Alignment explanation
Indices: 15801581--15801624 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
15801571 TTAGTGAACA
15801581 AAATATATAAATAT-AAATAAAC
1 AAATATATAAATATAAAATAAAC
* *
15801603 AAATATTTATATATAAAATAAA
1 AAATATATAAATATAAAATAAA
15801625 ATATAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATATATAAATATAAAATAAAC
Found at i:15801626 original size:20 final size:21
Alignment explanation
Indices: 15801580--15801633 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
15801570 TTTAGTGAAC
15801580 AAAATATATAAATATAAATAA
1 AAAATATATAAATATAAATAA
* * *
15801601 ACAAATATTTATATATAAA-AT
1 A-AAATATATAAATATAAATAA
15801622 AAAATATA-AAAT
1 AAAATATATAAAT
15801634 TGAATAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.11
20 6 0.22
21 3 0.11
22 15 0.56
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATATATAAATATAAATAA
Found at i:15803174 original size:17 final size:17
Alignment explanation
Indices: 15803152--15803185 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
15803142 CAAAATTTGA
15803152 TTAAAAAGCT-TTAAAAC
1 TTAAAAA-CTCTTAAAAC
15803169 TTAAAAACTCTTAAAAC
1 TTAAAAACTCTTAAAAC
15803186 ACTCGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (17 bp):
TTAAAAACTCTTAAAAC
Done.