Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 173 of 214
Found at i:50817490 original size:15 final size:15
Alignment explanation
Indices: 50817470--50817501 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
50817460 GCAATAGTGG
50817470 CGTTTTTAAAGAAAA
1 CGTTTTTAAAGAAAA
50817485 CGTTTTTAAAGAAAA
1 CGTTTTTAAAGAAAA
50817500 CG
1 CG
50817502 CCACAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (15 bp):
CGTTTTTAAAGAAAA
Found at i:50818866 original size:15 final size:15
Alignment explanation
Indices: 50818846--50818875 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50818836 CTTATAGGTT
*
50818846 TAAATTATTATATAG
1 TAAATTAGTATATAG
50818861 TAAATTAGTATATAG
1 TAAATTAGTATATAG
50818876 AATCATCGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (15 bp):
TAAATTAGTATATAG
Found at i:50821118 original size:12 final size:12
Alignment explanation
Indices: 50821098--50821130 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
50821088 TTGTTTCAGG
50821098 TTGTATTATTAA
1 TTGTATTATTAA
*
50821110 TTGTGTTATTAA
1 TTGTATTATTAA
50821122 TT-TATTATT
1 TTGTATTATT
50821131 TTAAATTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (12 bp):
TTGTATTATTAA
Found at i:50823931 original size:30 final size:29
Alignment explanation
Indices: 50823874--50823931 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
50823864 TGATTTGAAT
*
50823874 TTTTTAAAAATATTATATAATTTTCATAA
1 TTTTTAAAAATATTATATAATTCTCATAA
*
50823903 TTTTTAATAATGATTATAT-ATTACTCATA
1 TTTTTAAAAAT-ATTATATAATT-CTCATA
50823932 TGAAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (29 bp):
TTTTTAAAAATATTATATAATTCTCATAA
Found at i:50827738 original size:6 final size:6
Alignment explanation
Indices: 50827727--50827751 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50827717 ATTGATAATA
50827727 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
50827752 AAAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:50830743 original size:16 final size:16
Alignment explanation
Indices: 50830722--50830754 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
50830712 AATTAATATC
50830722 TTAATTCTGTCTAGTA
1 TTAATTCTGTCTAGTA
*
50830738 TTAATTTTGTCTAGTA
1 TTAATTCTGTCTAGTA
50830754 T
1 T
50830755 AAAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.12, T:0.55
Consensus pattern (16 bp):
TTAATTCTGTCTAGTA
Found at i:50840559 original size:7 final size:7
Alignment explanation
Indices: 50840529--50840558 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
50840519 CACAGAAGCT
50840529 AAAGAGA
1 AAAGAGA
50840536 AAAGAGA
1 AAAGAGA
50840543 AAAGAGA
1 AAAGAGA
50840550 AAAGA-A
1 AAAGAGA
50840556 AAA
1 AAA
50840559 AAAACCCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (7 bp):
AAAGAGA
Found at i:50850893 original size:25 final size:25
Alignment explanation
Indices: 50850865--50850919 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
50850855 CTTACGATCA
*
50850865 TTTTTGAACCAA-TATTCTTTCAGTT
1 TTTTTGAA-CAATTATTATTTCAGTT
* *
50850890 TTTTTGAATAATTATTATTTCATTT
1 TTTTTGAACAATTATTATTTCAGTT
50850915 TTTTT
1 TTTTT
50850920 AGATTTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.24, C:0.09, G:0.05, T:0.62
Consensus pattern (25 bp):
TTTTTGAACAATTATTATTTCAGTT
Found at i:50852306 original size:17 final size:16
Alignment explanation
Indices: 50852277--50852315 Score: 69
Period size: 17 Copynumber: 2.4 Consensus size: 16
50852267 AGGGTTTTTT
50852277 TTATATTATTTAATAA
1 TTATATTATTTAATAA
50852293 TTATATTCATTTAATAA
1 TTATATT-ATTTAATAA
50852310 TTATAT
1 TTATAT
50852316 AAATATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATATTATTTAATAA
Found at i:50858073 original size:110 final size:109
Alignment explanation
Indices: 50857867--50858182 Score: 393
Period size: 110 Copynumber: 2.9 Consensus size: 109
50857857 AAAAGAAATT
* * *
50857867 TTTCTAAATAAGGCAATATTTTGCATTTGGAAGTTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
50857932 CGATTTTTCTCGTTCGACCTAATAGCCAAATATCCTTTTAAAAA
66 CGATTTTTCTCATTCGACCAAATAGCCAAATATCATTTTAAAAA
* * * *
50857976 TTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTG
1 TTTCAAAATAAGGCAATATTTTGCGTTT-GGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
* *
50858041 TCGATTTTTCTCATTCAACCAAAT-GACTAAATATCATTTTAAAAA
65 TCGATTTTTCTCATTCGACCAAATAG-CCAAATATCATTTTAAAAA
* * ** * ** * *
50858086 TTTCGAAGTAAGATAATATTTTGTGTTTGGAAATTTAAGGAAACGTGCCCTAATGCGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
50858151 AGATTTTTC-CATTTGACCAAATAGCCAAATAT
66 CGATTTTTCTCATTCGACCAAATAGCCAAATAT
50858183 TCTCTTAAAT
Statistics
Matches: 175, Mismatches: 29, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
108 18 0.10
109 65 0.37
110 92 0.53
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCATTCGACCAAATAGCCAAATATCATTTTAAAAA
Found at i:50861021 original size:13 final size:13
Alignment explanation
Indices: 50861003--50861028 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50860993 ACCCCAGATG
50861003 GCACAATGCGAAT
1 GCACAATGCGAAT
50861016 GCACAATGCGAAT
1 GCACAATGCGAAT
50861029 ATCATGAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (13 bp):
GCACAATGCGAAT
Found at i:50862315 original size:7 final size:7
Alignment explanation
Indices: 50862289--50862332 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
50862279 AAAAAGAAAG
50862289 AAAA-GA
1 AAAATGA
50862295 AAAATG-
1 AAAATGA
*
50862301 AGAATGA
1 AAAATGA
50862308 AAAATGA
1 AAAATGA
50862315 AAAAT-A
1 AAAATGA
50862321 AAAATGA
1 AAAATGA
50862328 AAAAT
1 AAAAT
50862333 AGAGAAGCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
6 15 0.45
7 18 0.55
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAATGA
Found at i:50862318 original size:20 final size:20
Alignment explanation
Indices: 50862289--50862332 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
50862279 AAAAAGAAAG
* *
50862289 AAAA-GAAAAATGAGAATGA
1 AAAATGAAAAATAAAAATGA
50862308 AAAATGAAAAATAAAAATGA
1 AAAATGAAAAATAAAAATGA
50862328 AAAAT
1 AAAAT
50862333 AGAGAAGCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (20 bp):
AAAATGAAAAATAAAAATGA
Found at i:50862331 original size:13 final size:13
Alignment explanation
Indices: 50862289--50862333 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
50862279 AAAAAGAAAG
*
50862289 AAAAGAAAAATG-
1 AAAATAAAAATGA
*
50862301 AGAATGAAAAATGA
1 AAAAT-AAAAATGA
50862315 AAAATAAAAATGA
1 AAAATAAAAATGA
50862328 AAAATA
1 AAAATA
50862334 GAGAAGCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 3 0.11
13 21 0.75
14 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (13 bp):
AAAATAAAAATGA
Found at i:50863763 original size:86 final size:86
Alignment explanation
Indices: 50863573--50864220 Score: 996
Period size: 86 Copynumber: 7.5 Consensus size: 86
50863563 CAATGAAGTT
* * *
50863573 ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTACCTCTCTTGGT
1 ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAG--ACAAACCTTGCCTCTCTCGTT
* * * * *
50863638 TATA-CTGGAGTTGGTTAAAGACA
64 TGTAGC-AGAGCTGGTTGAAGATA
* * * *
50863661 ACAGATCTTGCCTTCCTGTATTTACAGCGAAGCAAATCGAAGACAAACCTTGCCTCTCTCGTTTA
1 ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTG
50863726 TAGCAGAGCTGGTTGAAGATA
66 TAGCAGAGCTGGTTGAAGATA
*
50863747 GA-AGATCTTGCTTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTT
1 -ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTT
*
50863811 GTAGCAGAGCTGGTTGAAGACA
65 GTAGCAGAGCTGGTTGAAGATA
* *
50863833 ACAGATCTTGTCTTCCTGCATTGACAGCGAAGCAGATCAAAGACAAACCTTGCCTCTCTCGTTTG
1 ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTG
50863898 TAGCAGAGCTGGTTGAAGATA
66 TAGCAGAGCTGGTTGAAGATA
* *
50863919 GCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTA
1 ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTG
* *
50863984 TAGCAGAGATGGTTGAAGACA
66 TAGCAGAGCTGGTTGAAGATA
*
50864005 ACAAATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTG
1 ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTG
50864070 TAGCAGAGCTGGTTGAAGATA
66 TAGCAGAGCTGGTTGAAGATA
* *
50864091 GA-AGATCTTGCCTTCCTGCATTGACAGCGAAGCAAATCGAAGACAAACCTTGCCTCTCTCATTT
1 -ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTT
*
50864155 GTAGCAGAGCTGGTTAAAGATA
65 GTAGCAGAGCTGGTTGAAGATA
* *
50864177 ACAGATCTTGCCTTCCTGCATTGGCAGCGAAGCAGGTCGAAGAC
1 ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGAC
50864221 GGTGGATTTT
Statistics
Matches: 517, Mismatches: 38, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
85 2 0.00
86 473 0.91
87 3 0.01
88 39 0.08
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (86 bp):
ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTG
TAGCAGAGCTGGTTGAAGATA
Found at i:50864440 original size:130 final size:130
Alignment explanation
Indices: 50864207--50864538 Score: 475
Period size: 130 Copynumber: 2.5 Consensus size: 130
50864197 TTGGCAGCGA
* * * *
50864207 AGCAGGTCGAAGACGGTGGATTTTACCTCCCTGATTTCAGTGGAGTACATTGAAGCCAGTAGTTT
1 AGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCCAGTAGTTC
* * *
50864272 TATCTCCCTGGGAAACAGTGTAATAGATTGAAGATTACAGATCTTATCTCCCTAAGAAATAGTGG
66 TATCTCACTGGGAAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGAAATAGTGG
**
50864337 AGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTC
1 AGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCCAGTAGTTC
*** *
50864402 TATCTCACTGGTTGACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGG
66 TATCTCACTGGGAAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGAAATAGTGG
* * ** * * *
50864467 AGCAGGTCGAATATGACAAATTTTACCTCCCTGATTACGGTGGAGTATATTGAAGCCAGTAGATC
1 AGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCCAGTAGTTC
50864532 TTATCTC
66 -TATCTC
50864539 CCTAAGCAGT
Statistics
Matches: 179, Mismatches: 22, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
130 173 0.97
131 6 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (130 bp):
AGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCCAGTAGTTC
TATCTCACTGGGAAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGAAATAGTGG
Found at i:50866067 original size:23 final size:23
Alignment explanation
Indices: 50866041--50866113 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
50866031 AGTGCCACAT
50866041 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
50866064 TGATATGTAGCCGTAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
50866087 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
50866110 TGAT
1 TGAT
50866114 CAATAACACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:50866216 original size:8 final size:8
Alignment explanation
Indices: 50866203--50866228 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
50866193 CGGGACTCAT
50866203 TGTAACAC
1 TGTAACAC
50866211 TGTAACAC
1 TGTAACAC
50866219 TGTAACAC
1 TGTAACAC
50866227 TG
1 TG
50866229 GTCTCTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (8 bp):
TGTAACAC
Found at i:50867470 original size:17 final size:17
Alignment explanation
Indices: 50867448--50867482 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
50867438 ATCACATAAA
50867448 CCCTAGCCCAAACCTAC
1 CCCTAGCCCAAACCTAC
50867465 CCCTAGCCCAAACCTAC
1 CCCTAGCCCAAACCTAC
50867482 C
1 C
50867483 AACCCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.54, G:0.06, T:0.11
Consensus pattern (17 bp):
CCCTAGCCCAAACCTAC
Found at i:50869664 original size:110 final size:109
Alignment explanation
Indices: 50869458--50869773 Score: 366
Period size: 110 Copynumber: 2.9 Consensus size: 109
50869448 AAAAGAAATT
* * * * * *
50869458 TTTCTAAATAAGGCAATATTTTGCATCTGGAAGTTCGAGAAAACGTTCCCTAATGTACTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * * *
50869523 TGATTTTTCTCGTTCGACCTAATAGCCAAATATCCTTTTAAAAA
66 CGATTTTTCTCATTCGACCAAATAGCCAAATATCATTTTAAAAA
* * * * *
50869567 TTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 TTTCAAAATAAGGCAATATTTTGCGTTT-GGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
* *
50869632 TCGATTTTTCTCATTCAACCAAAT-GACTAAATATCATTTTAAAAA
65 TCGATTTTTCTCATTCGACCAAATAG-CCAAATATCATTTTAAAAA
* * ** ** * *
50869677 TTTCGAAGTAAGATAATATTTTGCGTTTGGAAATTTAAGGAAACGTGCCCTAATGCGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
50869742 CGATTTTTC-CATTTGACCAAATAGCCAAATAT
66 CGATTTTTCTCATTCGACCAAATAGCCAAATAT
50869774 TCTCTTAAAT
Statistics
Matches: 171, Mismatches: 33, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
108 18 0.11
109 64 0.37
110 89 0.52
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCATTCGACCAAATAGCCAAATATCATTTTAAAAA
Found at i:50885086 original size:22 final size:20
Alignment explanation
Indices: 50885061--50885100 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
50885051 TTTGTTTCAA
50885061 ATCTTAAATTTGATTTATATTT
1 ATCTTAAATTT--TTTATATTT
50885083 ATCTTAAATTTTTTATAT
1 ATCTTAAATTTTTTATAT
50885101 GAAATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (20 bp):
ATCTTAAATTTTTTATATTT
Found at i:50895995 original size:38 final size:38
Alignment explanation
Indices: 50895951--50896026 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
50895941 AATCTATGTT
50895951 AGTTCCAGATTTTCAGTTTAATTGAATAAGTTGTTAGC
1 AGTTCCAGATTTTCAGTTTAATTGAATAAGTTGTTAGC
50895989 AGTTCCAGATTTTCAGTTTAATTGAATAAGTTGTTAGC
1 AGTTCCAGATTTTCAGTTTAATTGAATAAGTTGTTAGC
50896027 TATTTTTGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (38 bp):
AGTTCCAGATTTTCAGTTTAATTGAATAAGTTGTTAGC
Found at i:50900861 original size:15 final size:14
Alignment explanation
Indices: 50900835--50900877 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
50900825 AGTTTTAAAA
*
50900835 ATAAAGAATTAAATT
1 ATAAA-AATTAAATG
*
50900850 ATGATAAATTAAATG
1 AT-AAAAATTAAATG
50900865 ATAAAAATTAAAT
1 ATAAAAATTAAAT
50900878 CTTAAATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 10 0.42
15 12 0.50
16 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (14 bp):
ATAAAAATTAAATG
Found at i:50905202 original size:17 final size:17
Alignment explanation
Indices: 50905163--50905205 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
50905153 TTTTGCATAT
*
50905163 ATTAAATTTTAATTTTA
1 ATTAATTTTTAATTTTA
50905180 ATTTAATTTTTACA-TTTA
1 A-TTAATTTTTA-ATTTTA
50905198 ATTAATTT
1 ATTAATTT
50905206 CTTTTAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 14 0.61
19 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTAATTTTTAATTTTA
Found at i:50925699 original size:140 final size:138
Alignment explanation
Indices: 50925447--50925859 Score: 465
Period size: 140 Copynumber: 2.9 Consensus size: 138
50925437 GTCGGCACAA
* * * * *
50925447 TGTTGGACAAAACTGACTTTTATTTAAGTGTTGCCTTAGGCATGCATATCTCAGCCTTTACACAA
1 TGTTGGACAAAATTGACTTTTATTTAAGCGTTGTCTTAGGCATGCATATCTCAACC-TTATACAA
* * * ** *** * * *
50925512 AGATTTGGTCAAAGCGTACACCGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCCCAAAAGT
65 AGAGTT-GACCAAGAATATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAAAGT
50925577 GTC-GACATAG
129 GTCGGA-ATAG
*
50925587 TGTTGGACAAAATTGACTTTTATTTAAGCGTTGTCTTAGGTATGCATATCTCAACCATTATACAA
1 TGTTGGACAAAATTGACTTTTATTTAAGCGTTGTCTTAGGCATGCATATCTCAACC-TTATACAA
* *
50925652 AGAGTTGACCAAGGAATATGTCGGTAAGTCTATCCGAACACTTAGGAAAGTGTCGACCCAAAAGT
65 AGAGTTGACCAA-GAATATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAAAGT
50925717 GTCGGAATAG
129 GTCGGAATAG
* * * * *
50925727 TATTGGACAAAGTCGA-TTCTTATTTAAGCATT-TCCTTAGGCATGCATATCCCAAGCCTTATAC
1 TGTTGGACAAAATTGACTT-TTATTTAAGCGTTGT-CTTAGGCATGCATATCTCAA-CCTTATAC
** *
50925790 AAAGAGTTGACCAA-AACGTATGTTAGCAAGTCTATCCCAACACTTAGAAAAGTGTCGACCCAAA
63 AAAGAGTTGACCAAGAA--TATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAA
50925854 AGTGTC
126 AGTGTC
50925860 ACCTTAAGAC
Statistics
Matches: 235, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
138 2 0.01
139 7 0.03
140 222 0.94
141 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (138 bp):
TGTTGGACAAAATTGACTTTTATTTAAGCGTTGTCTTAGGCATGCATATCTCAACCTTATACAAA
GAGTTGACCAAGAATATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAAAGTGT
CGGAATAG
Found at i:50926179 original size:8 final size:8
Alignment explanation
Indices: 50926166--50926197 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
50926156 GACAAAATAT
50926166 ATATTATA
1 ATATTATA
50926174 ATATTATA
1 ATATTATA
50926182 ATATTATA
1 ATATTATA
50926190 ATATTATA
1 ATATTATA
50926198 TGTTAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTATA
Found at i:50926231 original size:16 final size:16
Alignment explanation
Indices: 50926162--50926240 Score: 65
Period size: 16 Copynumber: 4.8 Consensus size: 16
50926152 AGGCGACAAA
50926162 ATATATATTATAATAT
1 ATATATATTATAATAT
50926178 -TATAATATTATAATATT
1 ATAT-ATATTATAATA-T
* *
50926195 ATATGTTAATTATTAA-GT
1 ATAT-AT-ATTA-TAATAT
*
50926213 ATATATATTATATTAT
1 ATATATATTATAATAT
50926229 ATAT-TATTATAA
1 ATATATATTATAA
50926241 GTAAATATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
15 12 0.24
16 20 0.40
17 2 0.04
18 9 0.18
19 4 0.08
20 3 0.06
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
ATATATATTATAATAT
Found at i:50926249 original size:30 final size:32
Alignment explanation
Indices: 50926181--50926249 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
50926171 ATAATATTAT
*
50926181 AATATTATAATATTATATGTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTATTAAGTA
* *
50926214 TATATATTATATTATATATT-ATTA-TAAGTA
1 AATATATAATATTATATATTAATTATTAAGTA
50926244 AATATA
1 AATATA
50926250 ATAAATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 11 0.34
31 4 0.12
32 14 0.44
33 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTATTAAGTA
Found at i:50926504 original size:41 final size:42
Alignment explanation
Indices: 50926451--50926536 Score: 156
Period size: 41 Copynumber: 2.1 Consensus size: 42
50926441 TTTAAAAATT
50926451 AAAAAAGTATTTTAAAAATATTTTAAAA-TAAAAAAATAAAA
1 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAAAA
*
50926492 AAAAAAGTATTTTAAAAGTATTTTAAAATTAAAAAAATAAAA
1 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAAAA
50926534 AAA
1 AAA
50926537 TAAAAAAAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 27 0.63
42 16 0.37
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.29
Consensus pattern (42 bp):
AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAAAA
Found at i:50926508 original size:11 final size:11
Alignment explanation
Indices: 50926494--50926519 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50926484 AAATAAAAAA
50926494 AAAAGTATTTT
1 AAAAGTATTTT
50926505 AAAAGTATTTT
1 AAAAGTATTTT
50926516 AAAA
1 AAAA
50926520 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:50927435 original size:11 final size:11
Alignment explanation
Indices: 50927419--50927500 Score: 50
Period size: 11 Copynumber: 7.9 Consensus size: 11
50927409 GTGATGAATT
50927419 TATTGAATTTA
1 TATTGAATTTA
*
50927430 TATTG-ATTGA
1 TATTGAATTTA
* *
50927440 -ATTGGTATATA
1 TATT-GAATTTA
*
50927451 TATTGAATATA
1 TATTGAATTTA
50927462 TATTG-A-TTA
1 TATTGAATTTA
*
50927471 T-TTGAATTGA
1 TATTGAATTTA
*
50927481 -ATTGAATATA
1 TATTGAATTTA
*
50927491 TATTGTATTT
1 TATTGAATTT
50927501 GAAAAGTGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
8 3 0.06
9 7 0.13
10 15 0.28
11 26 0.48
12 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.51
Consensus pattern (11 bp):
TATTGAATTTA
Found at i:50927455 original size:17 final size:14
Alignment explanation
Indices: 50927418--50927465 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
50927408 TGTGATGAAT
50927418 TTATTGAATTTATA
1 TTATTGAATTTATA
50927432 TTGATTGAATTGGTATA
1 TT-ATTGAATT--TATA
*
50927449 TATATTGAATATATA
1 T-TATTGAATTTATA
50927464 TT
1 TT
50927466 GATTATTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 3 0.10
15 13 0.45
17 12 0.41
18 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (14 bp):
TTATTGAATTTATA
Found at i:50927510 original size:29 final size:28
Alignment explanation
Indices: 50927452--50927515 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 28
50927442 TGGTATATAT
*
50927452 ATTGAATATATATTGATTATTTGAATTGA
1 ATTGAATATATATTGA-TATTTGAAGTGA
50927481 ATTGAATATATATTG-TATTTGAAAAGTGA
1 ATTGAATATATATTGATATTTG--AAGTGA
50927510 ATTGAA
1 ATTGAA
50927516 ACCCTATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 6 0.19
29 26 0.81
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.44
Consensus pattern (28 bp):
ATTGAATATATATTGATATTTGAAGTGA
Found at i:50927613 original size:41 final size:40
Alignment explanation
Indices: 50927550--50927672 Score: 119
Period size: 37 Copynumber: 3.1 Consensus size: 40
50927540 GTCGGATGTA
* *
50927550 GATGAGACACTAGGTGTTAATTTACTACTTCGGATTAATTC
1 GATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAATTC
* * * *
50927591 GATTAGGCACTGGGTGTCAATTTAT--TTCGGTTTAA-CC
1 GATGAGACACTGGGTGTCAATTTATACTTCGGATTAATTC
* * *
50927628 GATGAGACACTGAGTGTCTATTTATTACTTCGAATT-ATTC
1 GATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAATTC
50927668 GATGA
1 GATGA
50927673 TGCACTAGGT
Statistics
Matches: 65, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
37 21 0.32
38 10 0.15
39 1 0.02
40 13 0.20
41 20 0.31
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAATTTATACTTCGGATTAATTC
Found at i:50930603 original size:96 final size:96
Alignment explanation
Indices: 50930439--50930632 Score: 291
Period size: 96 Copynumber: 2.0 Consensus size: 96
50930429 TATTATCAAT
* * * *
50930439 ATATATGTAATGAGTAACTAAGCTTTACTCGTATAGTATTCAATATGTTATCCAGTCTTTTGCAA
1 ATATATATAATGAGTAACTAAGCTTTACTCGTATAATATTCAATATGTTATCCAGTCTATTACAA
*
50930504 CAAAATGGGGGCATCGCCTCACATTTCGATC
66 CAAAATGGGGACATCGCCTCACATTTCGATC
* *
50930535 ATATATATAATGAGTAACTAAGCTTTACTCTTATAATATTCAATATTTTATCCAGAT-TATTACA
1 ATATATATAATGAGTAACTAAGCTTTACTCGTATAATATTCAATATGTTATCCAG-TCTATTACA
* *
50930599 ACAAAATGGGGATATCGCCTTACATTTCGATC
65 ACAAAATGGGGACATCGCCTCACATTTCGATC
50930631 AT
1 AT
50930633 CGCTTCATAC
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 87 0.99
97 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (96 bp):
ATATATATAATGAGTAACTAAGCTTTACTCGTATAATATTCAATATGTTATCCAGTCTATTACAA
CAAAATGGGGACATCGCCTCACATTTCGATC
Found at i:50935343 original size:42 final size:42
Alignment explanation
Indices: 50935295--50935486 Score: 233
Period size: 42 Copynumber: 4.5 Consensus size: 42
50935285 AACAGAAACC
* * ** *
50935295 CATAAGGGTTGAACGGAAGCTCGTAAGAGCTGAA-TGAAAAT
1 CATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACGGAAAAT
* *
50935336 CGATAAGGGTTAAACTGAAGCTTAAAAGAGCTGAACGGAAACT
1 C-ATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACGGAAAAT
**
50935379 CATAAGGGTTAAACTGAAGCTCAAAAAGAGCTGAACGGAAACC
1 CATAAGGGTTAAACTGAAGCTC-AAAAGAGCTGAACGGAAAAT
** **
50935422 CATAAGGCCTAAACTGAAGCTCAAAAGAGCTGAACGGAAACC
1 CATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACGGAAAAT
*
50935464 CATAAGGGTTAAACTGAAACTCA
1 CATAAGGGTTAAACTGAAGCTCA
50935487 TATGAGTTAA
Statistics
Matches: 134, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
41 1 0.01
42 88 0.66
43 45 0.34
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (42 bp):
CATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACGGAAAAT
Found at i:50935440 original size:85 final size:85
Alignment explanation
Indices: 50935289--50935486 Score: 272
Period size: 85 Copynumber: 2.3 Consensus size: 85
50935279 GTGCTAAACA
* * ** * * * **
50935289 GAAACCCATAAGGGTTGAACGGAAGCTC-GTAAGAGCTGAATGAAAATCGATAAGGGTTAAACTG
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAAGAGCTGAACGAAAACCCATAAGGCCTAAACTG
*
50935353 AAGCTTAAAAGAGCTGAACG
66 AAGCTCAAAAGAGCTGAACG
* *
50935373 GAAACTCATAAGGGTTAAACTGAAGCTCAAAAAGAGCTGAACGGAAACCCATAAGGCCTAAACTG
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAAGAGCTGAACGAAAACCCATAAGGCCTAAACTG
50935438 AAGCTCAAAAGAGCTGAACG
66 AAGCTCAAAAGAGCTGAACG
*
50935458 GAAACCCATAAGGGTTAAACTGAAACTCA
1 GAAACCCATAAGGGTTAAACTGAAGCTCA
50935487 TATGAGTTAA
Statistics
Matches: 99, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 25 0.25
85 74 0.75
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (85 bp):
GAAACCCATAAGGGTTAAACTGAAGCTCAAAAAGAGCTGAACGAAAACCCATAAGGCCTAAACTG
AAGCTCAAAAGAGCTGAACG
Found at i:50935488 original size:21 final size:21
Alignment explanation
Indices: 50935281--50935488 Score: 103
Period size: 21 Copynumber: 9.9 Consensus size: 21
50935271 GCACACAAGT
* *
50935281 GCTAAACAGAAACCCATAAGG
1 GCTAAACTGAAACTCATAAGG
* * * * * *
50935302 GTTGAACGGAAGCTCGTAAGA
1 GCTAAACTGAAACTCATAAGG
* *
50935323 GCTGAA-TGAAAATCGATAAGG
1 GCTAAACTGAAACTC-ATAAGG
* * * * *
50935344 GTTAAACTGAAGCTTAAAAGA
1 GCTAAACTGAAACTCATAAGG
* *
50935365 GCTGAACGGAAACTCATAAGG
1 GCTAAACTGAAACTCATAAGG
* * * *
50935386 GTTAAACTGAAGCTCAAAAAGA
1 GCTAAACTGAAACTC-ATAAGG
* * *
50935408 GCTGAACGGAAACCCATAAGG
1 GCTAAACTGAAACTCATAAGG
* * * *
50935429 CCTAAACTGAAGCTCAAAAGA
1 GCTAAACTGAAACTCATAAGG
* * *
50935450 GCTGAACGGAAACCCATAAGG
1 GCTAAACTGAAACTCATAAGG
*
50935471 GTTAAACTGAAACTCATA
1 GCTAAACTGAAACTCATA
50935489 TGAGTTAACA
Statistics
Matches: 126, Mismatches: 58, Indels: 6
0.66 0.31 0.03
Matches are distributed among these distances:
20 5 0.04
21 102 0.81
22 19 0.15
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (21 bp):
GCTAAACTGAAACTCATAAGG
Found at i:50935797 original size:45 final size:46
Alignment explanation
Indices: 50935712--50935798 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
50935702 ATTTCAATTT
* * *
50935712 ATAATTTAACAATATTTCATTTTTTTAACAATATGCTAAATATATA
1 ATAATTTAACAATATTTCATTTTTTCAAAAATATACTAAATATATA
*
50935758 ATAATTTAACAATATTTCA-TTTTTCAAAAATATATTAAATA
1 ATAATTTAACAATATTTCATTTTTTCAAAAATATACTAAATA
50935799 CGTAACATCA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 18 0.49
46 19 0.51
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.45
Consensus pattern (46 bp):
ATAATTTAACAATATTTCATTTTTTCAAAAATATACTAAATATATA
Found at i:50937611 original size:31 final size:32
Alignment explanation
Indices: 50937555--50937639 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 32
50937545 TCATATACTA
*
50937555 AATAAAATAATAAAATATCTCATTAAA-ATATT
1 AATAAAATAATAAAATATCTAATTAAATA-ATT
**
50937587 AATAAAATAAT-ATTTATCTAATTAAATAATT
1 AATAAAATAATAAAATATCTAATTAAATAATT
50937618 -ATAAAATATCATCAAAATATCT
1 AATAAAATA--AT-AAAATATCT
50937640 CTAATATCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
30 8 0.19
31 15 0.35
32 14 0.33
34 6 0.14
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (32 bp):
AATAAAATAATAAAATATCTAATTAAATAATT
Found at i:50967093 original size:44 final size:42
Alignment explanation
Indices: 50967008--50967095 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 42
50966998 TTTGAAATAA
50967008 AATAAAAGTTGTGATAATTACATTTAAAAATAATTACAATTT
1 AATAAAAGTTGTGATAATTACATTTAAAAATAATTACAATTT
* *
50967050 AATAGAAA-TTGTGATAATTACACATTTAAAAATATTTAGAATTT
1 AATA-AAAGTTGTGATAATT--ACATTTAAAAATAATTACAATTT
50967094 AA
1 AA
50967096 ATTACAATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 15 0.37
43 3 0.07
44 23 0.56
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.38
Consensus pattern (42 bp):
AATAAAAGTTGTGATAATTACATTTAAAAATAATTACAATTT
Found at i:50980417 original size:18 final size:18
Alignment explanation
Indices: 50980381--50980419 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
50980371 ATATAAAAAT
* **
50980381 ATTTTAAATAATTTTTTA
1 ATTTTAAAAAATTAATTA
50980399 ATTTTAAAAAATTAATTA
1 ATTTTAAAAAATTAATTA
50980417 ATT
1 ATT
50980420 GTTGACGTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTAAAAAATTAATTA
Found at i:50985819 original size:22 final size:21
Alignment explanation
Indices: 50985794--50985843 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
50985784 TGTTTTCAGA
* *
50985794 TTTATTTCGAATTTAGCTTTTT
1 TTTATTTC-AATTTAACCTTTT
*
50985816 TTTAGTTCAATTTAACCTTTT
1 TTTATTTCAATTTAACCTTTT
50985837 TTTATTT
1 TTTATTT
50985844 TTATTCATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.20, C:0.10, G:0.06, T:0.64
Consensus pattern (21 bp):
TTTATTTCAATTTAACCTTTT
Found at i:50987182 original size:12 final size:11
Alignment explanation
Indices: 50987160--50987185 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50987150 AAAATGCAGT
50987160 AAAACAAAAAA
1 AAAACAAAAAA
50987171 AAAACAAAAAA
1 AAAACAAAAAA
50987182 AAAA
1 AAAA
50987186 TATGGTAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAACAAAAAA
Found at i:50994232 original size:98 final size:98
Alignment explanation
Indices: 50994063--50994264 Score: 404
Period size: 98 Copynumber: 2.1 Consensus size: 98
50994053 CTTAGGTGAT
50994063 CTACATGCTTGGAGAATCTCTACAACCATATGATGTTAAGGATCCCAATATCATTTAATTCCAAA
1 CTACATGCTTGGAGAATCTCTACAACCATATGATGTTAAGGATCCCAATATCATTTAATTCCAAA
50994128 TTGAACAGACTCAATGGTACCTTTAAAGCTTCC
66 TTGAACAGACTCAATGGTACCTTTAAAGCTTCC
50994161 CTACATGCTTGGAGAATCTCTACAACCATATGATGTTAAGGATCCCAATATCATTTAATTCCAAA
1 CTACATGCTTGGAGAATCTCTACAACCATATGATGTTAAGGATCCCAATATCATTTAATTCCAAA
50994226 TTGAACAGACTCAATGGTACCTTTAAAGCTTCC
66 TTGAACAGACTCAATGGTACCTTTAAAGCTTCC
50994259 CTACAT
1 CTACAT
50994265 ATATAAGCTA
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 104 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.31
Consensus pattern (98 bp):
CTACATGCTTGGAGAATCTCTACAACCATATGATGTTAAGGATCCCAATATCATTTAATTCCAAA
TTGAACAGACTCAATGGTACCTTTAAAGCTTCC
Found at i:50998811 original size:24 final size:23
Alignment explanation
Indices: 50998780--50998825 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
50998770 GGTTAATGAC
50998780 TTTAGTTT-CAACTATATATTTGA
1 TTTAGTTTGC-ACTATATATTTGA
*
50998803 TTTATGTTTGCATTATATATTTG
1 TTTA-GTTTGCACTATATATTTG
50998826 GCTTAGTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 15 0.75
25 1 0.05
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.57
Consensus pattern (23 bp):
TTTAGTTTGCACTATATATTTGA
Found at i:51002718 original size:21 final size:21
Alignment explanation
Indices: 51002676--51002758 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
51002666 ATCAGTATAT
*
51002676 GACACAT-AAGTGCCTGAAAC
1 GACACATGAAGTGCCTGATAC
* *
51002696 GACACATGAGGTGTCTGATAC
1 GACACATGAAGTGCCTGATAC
* *
51002717 GACACACGAGGTGCCTGATATAC
1 GACACATGAAGTGCCTG--ATAC
* *
51002740 GACACATAAAGTGTCTGAT
1 GACACATGAAGTGCCTGAT
51002759 CGGCAAAGCC
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 7 0.14
21 27 0.53
23 17 0.33
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (21 bp):
GACACATGAAGTGCCTGATAC
Found at i:51002739 original size:23 final size:22
Alignment explanation
Indices: 51002685--51002745 Score: 81
Period size: 21 Copynumber: 2.8 Consensus size: 22
51002675 TGACACATAA
*
51002685 GTGCCTGAA-ACGACACATGAG
1 GTGCCTGAATACGACACACGAG
*
51002706 GTGTCTG-ATACGACACACGAG
1 GTGCCTGAATACGACACACGAG
51002727 GTGCCTGATATACGACACA
1 GTGCCTGA-ATACGACACA
51002746 TAAAGTGTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.03
21 23 0.68
23 10 0.29
ACGTcount: A:0.31, C:0.25, G:0.26, T:0.18
Consensus pattern (22 bp):
GTGCCTGAATACGACACACGAG
Found at i:51004086 original size:14 final size:14
Alignment explanation
Indices: 51004067--51004112 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
51004057 TATTTAAAAT
51004067 ATAATAATAATTTA
1 ATAATAATAATTTA
*
51004081 ATAATACTAATTTA
1 ATAATAATAATTTA
*
51004095 ATAATATTAATTTA
1 ATAATAATAATTTA
51004109 ATAA
1 ATAA
51004113 CATTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAATAATAATTTA
Found at i:51008115 original size:27 final size:29
Alignment explanation
Indices: 51008063--51008125 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
51008053 AAAGCCGGAG
* *
51008063 TTTTTGAAAAAAAGGGGTTTATTG-AAT-T
1 TTTTTTAAAAAAAGGGG-TCATTGAAATGT
51008091 TTTTTTAAAAAAAGGGG-CATCTGAAATGT
1 TTTTTTAAAAAAAGGGGTCAT-TGAAATGT
51008120 TTTTTT
1 TTTTTT
51008126 GGAGAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 2 0.07
27 2 0.07
28 19 0.63
29 7 0.23
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.44
Consensus pattern (29 bp):
TTTTTTAAAAAAAGGGGTCATTGAAATGT
Found at i:51008526 original size:3 final size:3
Alignment explanation
Indices: 51008518--51008597 Score: 81
Period size: 3 Copynumber: 26.7 Consensus size: 3
51008508 CATTATGTTC
* *
51008518 ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATCT -TT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
* * * * *
51008563 ATT ATT AGT ATT AAT GTT ATT GTT ATT ACT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
51008598 ATTTCCATTT
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
2 1 0.02
3 59 0.97
4 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:51009250 original size:108 final size:107
Alignment explanation
Indices: 51009055--51009379 Score: 535
Period size: 108 Copynumber: 3.0 Consensus size: 107
51009045 AAAATTTTTC
* *
51009055 TAAATGAGGCAATTTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
1 TAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
51009120 TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTT
66 TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTT
* *
51009162 TAAAGTAAGGCAATGTTTTGCGTTTAGAAATTTGAGAAAACATGCCCTAAGGCGCTGGGTGTCGA
1 TAAA-TAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA
51009227 TTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTT
65 TTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAA-TTT
51009271 TAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
1 TAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
* * * ** *
51009336 TTTTCTCATTTAACCAAATTGCCAAATATCCTTTT-GAATTT
66 TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTT
51009377 TAA
1 TAA
51009380 TCCATGCCAT
Statistics
Matches: 204, Mismatches: 12, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
106 6 0.03
107 6 0.03
108 185 0.91
109 7 0.03
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (107 bp):
TAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTT
Found at i:51009665 original size:6 final size:6
Alignment explanation
Indices: 51009654--51009679 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
51009644 GTGGCGACTC
51009654 TCGTTT TCGTTT TCGTTT TCGTTT TC
1 TCGTTT TCGTTT TCGTTT TCGTTT TC
51009680 AAAACATAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.15, T:0.65
Consensus pattern (6 bp):
TCGTTT
Found at i:51015996 original size:21 final size:19
Alignment explanation
Indices: 51015941--51015998 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 19
51015931 TATTTTTTTC
51015941 TATTTTTTAAAATAATTTTAA
1 TATTTTTTAAAAT--TTTTAA
* **
51015962 TACTTTTTGTAATTTTTAAAA
1 TATTTTTTAAAATTTTT--AA
51015983 TATTTTTTAAAATTTT
1 TATTTTTTAAAATTTT
51015999 ACATTTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
19 4 0.14
21 25 0.86
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TATTTTTTAAAATTTTTAA
Found at i:51016443 original size:26 final size:27
Alignment explanation
Indices: 51016407--51016460 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
51016397 GATCTAGGAA
51016407 TGTGTCGAA-TTTTATCTTCCAATCCC
1 TGTGTCGAATTTTTATCTTCCAATCCC
51016433 TGTGTCGAATTTTTATCTTCCAATCCC
1 TGTGTCGAATTTTTATCTTCCAATCCC
51016460 T
1 T
51016461 ATTAGGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.19, C:0.26, G:0.11, T:0.44
Consensus pattern (27 bp):
TGTGTCGAATTTTTATCTTCCAATCCC
Found at i:51025377 original size:9 final size:9
Alignment explanation
Indices: 51025363--51025393 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
51025353 GTTAAACGAA
51025363 TCGAGTTAT
1 TCGAGTTAT
*
51025372 TCGAGTTAA
1 TCGAGTTAT
51025381 TCGAGTTAT
1 TCGAGTTAT
51025390 TCGA
1 TCGA
51025394 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:51025472 original size:9 final size:9
Alignment explanation
Indices: 51025448--51025484 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
51025438 TGAGTTTTCG
*
51025448 AATTCAAAT
1 AATTCGAAT
*
51025457 AACTCGAAT
1 AATTCGAAT
51025466 AATTCGAAT
1 AATTCGAAT
51025475 AATTCGAAT
1 AATTCGAAT
51025484 A
1 A
51025485 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:51025732 original size:30 final size:31
Alignment explanation
Indices: 51025698--51025757 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
51025688 AAACCTTTTA
*
51025698 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
51025728 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
51025758 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:51025770 original size:7 final size:7
Alignment explanation
Indices: 51025758--51025790 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
51025748 TCCCTTCCCA
51025758 TCCCACC
1 TCCCACC
51025765 TCCCACC
1 TCCCACC
51025772 TCCCACC
1 TCCCACC
51025779 TCCCACC
1 TCCCACC
51025786 TCCCA
1 TCCCA
51025791 TCTACCCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.70, G:0.00, T:0.15
Consensus pattern (7 bp):
TCCCACC
Found at i:51036491 original size:34 final size:35
Alignment explanation
Indices: 51036447--51036513 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
51036437 CTGTAAAATG
51036447 TTTTCCGTAAAATGAATT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
* *
51036481 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTT
51036514 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
Found at i:51037888 original size:27 final size:27
Alignment explanation
Indices: 51037858--51037927 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
51037848 AATAATCAAT
*
51037858 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
51037885 TCAATATCTAACCAATTCAAGACATATA
1 TCAATATCCAA-CAATTCAAAACATATA
*
51037913 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
51037928 CTAAAATCTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:51046677 original size:46 final size:45
Alignment explanation
Indices: 51046610--51046981 Score: 469
Period size: 46 Copynumber: 8.6 Consensus size: 45
51046600 TTTGAGTACT
*
51046610 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
51046656 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
51046702 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
51046738 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
51046784 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
51046820 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
51046866 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
51046912 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
51046957 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
51046982 ATCATATGTA
Statistics
Matches: 291, Mismatches: 15, Indels: 43
0.83 0.04 0.12
Matches are distributed among these distances:
36 58 0.20
37 2 0.01
38 1 0.00
39 1 0.00
40 5 0.02
41 1 0.00
42 6 0.02
43 14 0.05
44 6 0.02
45 21 0.07
46 176 0.60
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:51046733 original size:36 final size:36
Alignment explanation
Indices: 51046692--51046846 Score: 184
Period size: 36 Copynumber: 4.0 Consensus size: 36
51046682 GGTAGCATTA
51046692 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
51046728 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
51046773 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
51046810 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
51046846 G
1 G
51046847 TTAGCCTTAG
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 65 0.63
37 2 0.02
40 2 0.02
42 2 0.02
45 2 0.02
46 30 0.29
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:51046739 original size:82 final size:81
Alignment explanation
Indices: 51046646--51046981 Score: 469
Period size: 82 Copynumber: 4.0 Consensus size: 81
51046636 GGTAGCATTA
*
51046646 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAA
51046711 GTGAAAAAGTGATAAGT
65 GTGAAAAAGTGATAAGT
*
51046728 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAA
51046793 GTGAAAAAGTGATAAGT
65 GTGAAAAAGTGATAAGT
* *
51046810 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAA
*
51046875 GTGAGAAAGTGATAAGTGGT
65 GTGAAAAAGTGATAA---GT
*
51046895 AGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCT
1 -G-C-TA-C-A--CTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCT
* *
51046960 GATC-AG-GGACAAGTGATAAGT
59 GATCAAGTGAAAAAGTGATAAGT
51046981 G
1 G
51046982 ATCATATGTA
Statistics
Matches: 230, Mismatches: 13, Indels: 19
0.88 0.05 0.07
Matches are distributed among these distances:
82 153 0.67
83 1 0.00
85 3 0.01
86 3 0.01
87 1 0.00
88 2 0.01
89 10 0.04
90 3 0.01
91 20 0.09
92 34 0.15
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (81 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAG
TGAAAAAGTGATAAGT
Found at i:51046974 original size:128 final size:126
Alignment explanation
Indices: 51046610--51046981 Score: 449
Period size: 128 Copynumber: 2.9 Consensus size: 126
51046600 TTTGAGTACT
* *
51046610 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
51046675 GATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTA
66 GATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAG-GGAAAAGTGATAAGTGCTACACTTA
* *
51046738 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
51046803 GATAA---GT-GC-TA--T--ACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCT
66 GATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGA-AAAGTGAT-A-----AG---T-GCT
51046859 ACACTTA
120 ACACTTA
* * * *
51046866 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
51046931 GATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGACAAGTGATAAGTG
66 GATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGATAAGTG
51046982 ATCATATGTA
Statistics
Matches: 211, Mismatches: 13, Indels: 43
0.79 0.05 0.16
Matches are distributed among these distances:
117 1 0.00
118 23 0.11
119 1 0.00
120 1 0.00
122 2 0.01
124 4 0.02
125 3 0.01
126 1 0.00
127 1 0.00
128 141 0.67
129 2 0.01
131 2 0.01
132 2 0.01
133 2 0.01
134 1 0.00
135 8 0.04
136 4 0.02
137 12 0.06
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (126 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGATAAGTGCTACACTTA
Found at i:51057905 original size:31 final size:28
Alignment explanation
Indices: 51057870--51057946 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 28
51057860 AATTTTTAAA
*
51057870 ATTTTAAAATTTAAATATATATATAAGAATT
1 ATTTTAAAATTTAAAAAT-TAT-TAA-AATT
*
51057901 ATTTTAAAAATTAAAAATTATTAAAATT
1 ATTTTAAAATTTAAAAATTATTAAAATT
*
51057929 ATTTAAAAATTATAAAAA
1 ATTTTAAAATT-TAAAAA
51057947 AATATTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 13 0.32
29 9 0.22
30 3 0.07
31 16 0.39
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (28 bp):
ATTTTAAAATTTAAAAATTATTAAAATT
Found at i:51057925 original size:10 final size:10
Alignment explanation
Indices: 51057910--51057975 Score: 55
Period size: 10 Copynumber: 6.6 Consensus size: 10
51057900 TATTTTAAAA
51057910 ATTAAAAATT
1 ATTAAAAATT
51057920 ATT-AAAATT
1 ATTAAAAATT
51057929 ATTTAAAAATT
1 A-TTAAAAATT
* *
51057940 ATAAAAAAAT
1 ATTAAAAATT
**
51057950 ATTTTTAAATT
1 A-TTAAAAATT
*
51057961 -TTAAAAATA
1 ATTAAAAATT
51057970 ATTAAA
1 ATTAAA
51057976 TATTGACATA
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
9 13 0.30
10 18 0.42
11 12 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:51057940 original size:39 final size:39
Alignment explanation
Indices: 51057863--51057941 Score: 90
Period size: 39 Copynumber: 2.0 Consensus size: 39
51057853 TTTAATTAAT
* * *
51057863 TTTTAAAATTTTAAAATTTAAATATATATATAAGAATTA
1 TTTTAAAAATTAAAAATTTAAATATATATATAAAAATTA
*
51057902 TTTTAAAAATTAAAAATTATTAAA-AT-TATTTAAAAATTA
1 TTTTAAAAATTAAAAA-T-TTAAATATATATATAAAAATTA
51057941 T
1 T
51057942 AAAAAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
39 26 0.76
40 3 0.09
41 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (39 bp):
TTTTAAAAATTAAAAATTTAAATATATATATAAAAATTA
Found at i:51057947 original size:21 final size:21
Alignment explanation
Indices: 51057911--51057967 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
51057901 ATTTTAAAAA
* *
51057911 TTAAAAATTAT-TAAAATTAT
1 TTAAAAATTATAAAAAAATAT
51057931 TTAAAAATTATAAAAAAATAT
1 TTAAAAATTATAAAAAAATAT
** *
51057952 TTTTAAATTTTAAAAA
1 TTAAAAATTATAAAAA
51057968 TAATTAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAAAATTATAAAAAAATAT
Found at i:51059022 original size:16 final size:16
Alignment explanation
Indices: 51058997--51059030 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51058987 TAATAAATCT
* *
51058997 AAAATTTAAAATTTAA
1 AAAATATAAAAATTAA
51059013 AAAATATAAAAATTAA
1 AAAATATAAAAATTAA
51059029 AA
1 AA
51059031 TTAACTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATATAAAAATTAA
Found at i:51059044 original size:31 final size:32
Alignment explanation
Indices: 51058985--51059049 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 32
51058975 TTATTATTTT
51058985 TATAATAAATCTAAAATTTAAAATTTAAAAAA
1 TATAATAAATCTAAAATTTAAAATTTAAAAAA
51059017 TATAA-AAAT-TAAAA-TTAACTAATTTAAAAAA
1 TATAATAAATCTAAAATTTAA--AATTTAAAAAA
51059048 TA
1 TA
51059050 CATATACTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 4 0.13
30 5 0.16
31 17 0.55
32 5 0.16
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (32 bp):
TATAATAAATCTAAAATTTAAAATTTAAAAAA
Found at i:51059106 original size:6 final size:6
Alignment explanation
Indices: 51059095--51059120 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
51059085 AAAGAATATC
51059095 CTGCCT CTGCCT CTGCCT CTGCCT CT
1 CTGCCT CTGCCT CTGCCT CTGCCT CT
51059121 ACTGTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.50, G:0.15, T:0.35
Consensus pattern (6 bp):
CTGCCT
Found at i:51060382 original size:21 final size:21
Alignment explanation
Indices: 51060358--51060401 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
51060348 GCAAAGTCTA
51060358 AGAAGAA-TG-GAAGCCAAGAGG
1 AGAAGAAGTGAGAAG-CAA-AGG
51060379 AGAAGAAGTGAGAAGCAAAGG
1 AGAAGAAGTGAGAAGCAAAGG
51060400 AG
1 AG
51060402 TTCGAGAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 12 0.57
22 5 0.24
23 4 0.19
ACGTcount: A:0.50, C:0.07, G:0.39, T:0.05
Consensus pattern (21 bp):
AGAAGAAGTGAGAAGCAAAGG
Found at i:51066458 original size:31 final size:32
Alignment explanation
Indices: 51066415--51066498 Score: 113
Period size: 31 Copynumber: 2.7 Consensus size: 32
51066405 TAGGATAAAC
*
51066415 TACATTTTTAATCATTTAATTATTAACAAATT-
1 TACA-TTTTAATCATTTAATTATTAAAAAATTA
*
51066447 TACATTTTAATCATATAATTA-TAAAAAATTA
1 TACATTTTAATCATTTAATTATTAAAAAATTA
51066478 TA-A-TTTAATCATTTAATTATT
1 TACATTTTAATCATTTAATTATT
51066499 CGAAATTGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 15 0.32
30 10 0.21
31 18 0.38
32 4 0.09
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (32 bp):
TACATTTTAATCATTTAATTATTAAAAAATTA
Found at i:51066504 original size:29 final size:29
Alignment explanation
Indices: 51066415--51066505 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 29
51066405 TAGGATAAAC
51066415 TACATTTTTAATCATTTAATTATTAACAAATT
1 TACA-TTTTAATCATTTAATTATT--CAAATT
* ** *
51066447 TACATTTTAATCATATAATTATAAAAAAT
1 TACATTTTAATCATTTAATTATTCAAATT
* *
51066476 TATAATTTAATCATTTAATTATTCGAAATT
1 TACATTTTAATCATTTAATTATTC-AAATT
51066506 GGTTATTTAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
29 23 0.48
30 4 0.08
31 17 0.35
32 4 0.08
ACGTcount: A:0.44, C:0.08, G:0.01, T:0.47
Consensus pattern (29 bp):
TACATTTTAATCATTTAATTATTCAAATT
Found at i:51069881 original size:38 final size:38
Alignment explanation
Indices: 51069830--51069903 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
51069820 ACACTGTCCG
51069830 CGGTGAATTGTATTTTGTCATCTCTACTCTAAACTTCC
1 CGGTGAATTGTATTTTGTCATCTCTACTCTAAACTTCC
*
51069868 CGGTGAATTGTATTTTGTCATCTCTACTTTAAACTT
1 CGGTGAATTGTATTTTGTCATCTCTACTCTAAACTT
51069904 GGGAAGGTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.45
Consensus pattern (38 bp):
CGGTGAATTGTATTTTGTCATCTCTACTCTAAACTTCC
Found at i:51070085 original size:16 final size:16
Alignment explanation
Indices: 51070046--51070094 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
51070036 AGTACATTTG
* *
51070046 TGTGTGTCTATGTATG
1 TGTGTGTATATGTATA
* *
51070062 TATATGTATATGTATA
1 TGTGTGTATATGTATA
*
51070078 TGTGTGTATATATATA
1 TGTGTGTATATGTATA
51070094 T
1 T
51070095 CACTTCAACG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (16 bp):
TGTGTGTATATGTATA
Found at i:51070448 original size:48 final size:48
Alignment explanation
Indices: 51070374--51070469 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
51070364 AGAGGCCAAG
* * * *
51070374 GGCTTTTCTTGTTGTTTCTGCTGCACTTCTTCTTTCTTTGAAACATTA
1 GGCTTTTCTTGTAGTTTCTGCCGCACTTCTTCTTCCTCTGAAACATTA
*
51070422 GGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCTCTGAAACATTA
1 GGCTTTTCTTGTAGTTTCTGCCGCACTTCTTCTTCCTCTGAAACATTA
51070470 CTTTCATCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.14, C:0.23, G:0.15, T:0.49
Consensus pattern (48 bp):
GGCTTTTCTTGTAGTTTCTGCCGCACTTCTTCTTCCTCTGAAACATTA
Found at i:51071231 original size:48 final size:48
Alignment explanation
Indices: 51071157--51071252 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
51071147 AGAGGCCAAG
* * * *
51071157 GGCTTTTCTTGTTGTTTCTGCTGCACTTCTTCTTTCTTTGAAACATTA
1 GGCTTTTCTTGTAGTTTCTGCCGCACTTCTTCTTCCTCTGAAACATTA
*
51071205 GGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCTCTGAAACATTA
1 GGCTTTTCTTGTAGTTTCTGCCGCACTTCTTCTTCCTCTGAAACATTA
51071253 CTTTCATCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.14, C:0.23, G:0.15, T:0.49
Consensus pattern (48 bp):
GGCTTTTCTTGTAGTTTCTGCCGCACTTCTTCTTCCTCTGAAACATTA
Found at i:51071834 original size:776 final size:777
Alignment explanation
Indices: 51070329--51071893 Score: 2961
Period size: 776 Copynumber: 2.0 Consensus size: 777
51070319 GAACCAAGAG
*
51070329 CAACAGTTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCCAAGGGCTTTTCTTGTTGTTTCTG
1 CAACAGCTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCCAAGGGCTTTTCTTGTTGTTTCTG
51070394 CTGCACTTCTTCTTTCTTTGAAACATTAGGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCT
66 CTGCACTTCTTCTTTCTTTGAAACATTAGGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCT
*
51070459 CTGAAACATTACTTTCATCTTCCGAACTGCAATGATACCAATATAACTTAAGCTGAAAAGTTCCC
131 CTGAAACATTACTTTCATCTTCAGAACTGCAATGATACCAATATAACTTAAGCTGAAAAGTTCCC
*
51070524 ACAAGATCTCGAATTTCTTGTAGATTGTATATGAAATCCCAAATATAAGCATCGTAAGCATAATA
196 ACAAGATCTCGAATTTCTTGTAGATTGTATATGAAACCCCAAATATAAGCATCGTAAGCATAATA
*
51070589 TGCAGCCCATGTTACTTGGATGTGAGTATTGGATACGGACATGTGATTGAGTATGCTTGATTTCT
261 T------CATGTTACTTGGATGTGAGTATTGGATACAGACATGTGATTGAGTATGCTTGATTTCT
*
51070654 TCTCAGTTTTATCATATATTTAGAGCATTAGTGGAAACAAATACCGGATATCAAACTTTTAAAAG
320 TCTCAGTTTTATCATATATTTAGAGCATTAGTGGAAACAAATACCAGATATCAAACTTTTAAAAG
51070719 AAAGTTTTTCTTTCCCAAAGATATGCTATATGTAATATTTGATAGAGGAGGGGGAAAAGAGAAGT
385 AAAGTTTTTCTTTCCCAAAGATATGCTATATGTAATATTTGATAGAGGAGGGGGAAAAGAGAAGT
51070784 CTACACTGAAGAAAACTGCATACAACAACCCAAATATATGCATCATAAGTGCAGCCTATGTTAAT
450 CTACACTGAAGAAAACTGCATACAACAACCCAAATATATGCATCATAAGTGCAGCCTATGTTAAT
*
51070849 TGGACATGAGTGAGTGTCAGATATGGAGATGCGATTGAGTATGCTCGATTCTTCTTAGTTTTTTC
515 TGGACATGAGTGAGTGTCAGATATGGAGATGCGATTGAGTATGCTCAATTCTTCTTAGTTTTTTC
*
51070914 ATTTACTTGGAGCATCATATTCATACCTCTATACTCTCTATACTCATTTCCGAATATTGACATCA
580 ATTTACTTGGAGCATCATATTCATACCTCTATACTCTCTATACTCATTTCCAAATATTGACATCA
*
51070979 ATCTTTTAAAAGAAAGTCTTTCTTGCCCAAAGATCTACTTATATCTAATTTTTGATACAGTAGCA
645 ATCCTTTAAAAGAAAGTCTTTCTTGCCCAAAGATCTACTTATATCTAATTTTTGATACAGTAGCA
*
51071044 TAAATGTAGGGAGAAAAAGAGAAACATACTCTGAACAACAACAGCAGAATCTTTTCAAGCTGCAG
710 TAAATGTAGGGAGAAAAAGAGAAACATACTCTGAACAACAACAGAAGAATCTTTTCAAGCTGCAG
51071109 TTC
775 TTC
51071112 CAACAGCTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCCAAGGGCTTTTCTTGTTGTTTCTG
1 CAACAGCTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCCAAGGGCTTTTCTTGTTGTTTCTG
51071177 CTGCACTTCTTCTTTCTTTGAAACATTAGGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCT
66 CTGCACTTCTTCTTTCTTTGAAACATTAGGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCT
51071242 CTGAAACATTACTTTCATCTTCAGAACTGCAATGATACCAATATAACTTAAGCTGAAAAGTTCCC
131 CTGAAACATTACTTTCATCTTCAGAACTGCAATGATACCAATATAACTTAAGCTGAAAAGTTCCC
51071307 ACAAGATCTCGAATTTCTTGTAGATTGTATATGAAACCCCAAATATAAGCATCGTAAGCATAATA
196 ACAAGATCTCGAATTTCTTGTAGATTGTATATGAAACCCCAAATATAAGCATCGTAAGCATAATA
51071372 T-ATGTTACTTGGATGTGAGTATTGGATACAGACATGTGATTGAGTATGCTTGATTTCTTCTCAG
261 TCATGTTACTTGGATGTGAGTATTGGATACAGACATGTGATTGAGTATGCTTGATTTCTTCTCAG
*
51071436 TTTTATCATATATTTAGAGCATTATTGGAAACAAATACCAGATATCAAACTTTTAAAAGAAAGTT
326 TTTTATCATATATTTAGAGCATTAGTGGAAACAAATACCAGATATCAAACTTTTAAAAGAAAGTT
*
51071501 TTTCTTTCCCAAAGATATGCTATATGTAATATTTGATAGAGGTGGGGGAAAAGAGAAGTCTACAC
391 TTTCTTTCCCAAAGATATGCTATATGTAATATTTGATAGAGGAGGGGGAAAAGAGAAGTCTACAC
51071566 TGAAGAAAACTGCATACAACAACCCAAATATATGCATCATAAGTGCAGCCTATGTTAATTGGACA
456 TGAAGAAAACTGCATACAACAACCCAAATATATGCATCATAAGTGCAGCCTATGTTAATTGGACA
51071631 TGAGTGAGTGTCAGATATGGAGATGCGATTGAGTATGCTCAATTCTTCTTAGTTTTTTCATTTAC
521 TGAGTGAGTGTCAGATATGGAGATGCGATTGAGTATGCTCAATTCTTCTTAGTTTTTTCATTTAC
51071696 TTGGAGCATCATATTCATACCTCTATACTCTCTATACTCATTTCCAAATATTGACATCAATCCTT
586 TTGGAGCATCATATTCATACCTCTATACTCTCTATACTCATTTCCAAATATTGACATCAATCCTT
*
51071761 TAAAAGAAAGTCTTTCTTGCCCAAAGATCTACTTATATCTAATTTTTGATACAGTAGCATAGATG
651 TAAAAGAAAGTCTTTCTTGCCCAAAGATCTACTTATATCTAATTTTTGATACAGTAGCATAAATG
51071826 TAGGGAGAAAAAGAGAAACATACTCTGAACAACAACAGAAGAATCTTTTCAAGCTGCAGTTC
716 TAGGGAGAAAAAGAGAAACATACTCTGAACAACAACAGAAGAATCTTTTCAAGCTGCAGTTC
51071888 CAACAG
1 CAACAG
51071894 TAGCACAACG
Statistics
Matches: 770, Mismatches: 12, Indels: 7
0.98 0.02 0.01
Matches are distributed among these distances:
776 512 0.66
783 258 0.34
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (777 bp):
CAACAGCTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCCAAGGGCTTTTCTTGTTGTTTCTG
CTGCACTTCTTCTTTCTTTGAAACATTAGGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCT
CTGAAACATTACTTTCATCTTCAGAACTGCAATGATACCAATATAACTTAAGCTGAAAAGTTCCC
ACAAGATCTCGAATTTCTTGTAGATTGTATATGAAACCCCAAATATAAGCATCGTAAGCATAATA
TCATGTTACTTGGATGTGAGTATTGGATACAGACATGTGATTGAGTATGCTTGATTTCTTCTCAG
TTTTATCATATATTTAGAGCATTAGTGGAAACAAATACCAGATATCAAACTTTTAAAAGAAAGTT
TTTCTTTCCCAAAGATATGCTATATGTAATATTTGATAGAGGAGGGGGAAAAGAGAAGTCTACAC
TGAAGAAAACTGCATACAACAACCCAAATATATGCATCATAAGTGCAGCCTATGTTAATTGGACA
TGAGTGAGTGTCAGATATGGAGATGCGATTGAGTATGCTCAATTCTTCTTAGTTTTTTCATTTAC
TTGGAGCATCATATTCATACCTCTATACTCTCTATACTCATTTCCAAATATTGACATCAATCCTT
TAAAAGAAAGTCTTTCTTGCCCAAAGATCTACTTATATCTAATTTTTGATACAGTAGCATAAATG
TAGGGAGAAAAAGAGAAACATACTCTGAACAACAACAGAAGAATCTTTTCAAGCTGCAGTTC
Found at i:51071951 original size:30 final size:30
Alignment explanation
Indices: 51071889--51071958 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
51071879 CTGCAGTTCC
* * * **
51071889 AACAGTAGCACAACGCGCAGCTATAATTAG
1 AACAGTAGCACAAAGCCCAGCTACAACCAG
*
51071919 AACAGTAGCAGAAAGCCCAGCTACAACCAG
1 AACAGTAGCACAAAGCCCAGCTACAACCAG
*
51071949 AACAGGAGCA
1 AACAGTAGCA
51071959 TGATGGCCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.43, C:0.26, G:0.21, T:0.10
Consensus pattern (30 bp):
AACAGTAGCACAAAGCCCAGCTACAACCAG
Found at i:51081271 original size:126 final size:126
Alignment explanation
Indices: 51080944--51081297 Score: 577
Period size: 125 Copynumber: 2.8 Consensus size: 126
51080934 ATTATTTCGC
51080944 GTTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTG
1 GTTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTG
* *
51081008 TGAAATCGCGCCCTTGTGGACGCGATTTTGCTACAATAGGTCATGTAAGAAACAATTTTTTT
65 TGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAACAATTTTTTT
* * * * * * *
51081070 -CTGATGCTTCTAAGCAAATAGTATAAAATCGTTTCTACGAGAATGCTATTTGAGAAGAAATTGT
1 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
* *
51081134 GAAATCGCGCCCTCGTGGACGTGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
66 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAACAATTTTTTT
*
51081195 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGATATTTGAGAAGAAATTGT
1 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
51081260 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
66 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
51081298 CAAGTTTGGG
Statistics
Matches: 206, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
125 112 0.54
126 94 0.46
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (126 bp):
GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAACAATTTTTTT
Found at i:51084419 original size:10 final size:10
Alignment explanation
Indices: 51084404--51084428 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
51084394 CAAATCTAAC
51084404 ATTATGTAAA
1 ATTATGTAAA
51084414 ATTATGTAAA
1 ATTATGTAAA
51084424 ATTAT
1 ATTAT
51084429 TAAGCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:51084596 original size:111 final size:110
Alignment explanation
Indices: 51084411--51084748 Score: 604
Period size: 111 Copynumber: 3.0 Consensus size: 110
51084401 AACATTATGT
* *
51084411 AAAATTATGTAAAATTATTAAGCCAAAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAA
1 AAAA-TATGTAAAATTATTAAGCC--AAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAA
51084476 CTAAAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAATTATC
63 CTAAAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAATTATC
51084524 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAAATTTATGAAATAAACT
1 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGT-AAAATTTATGAAATAAACT
51084589 AAAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAATTATC
65 AAAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAATTATC
51084635 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
1 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
*
51084700 AAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATC
66 AAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAA-TTATC
51084746 AAA
1 AAA
51084749 TTAAGTTAGG
Statistics
Matches: 220, Mismatches: 3, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
110 80 0.36
111 117 0.53
112 19 0.09
113 4 0.02
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (110 bp):
AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
AAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:51084883 original size:58 final size:58
Alignment explanation
Indices: 51084747--51085143 Score: 494
Period size: 58 Copynumber: 6.9 Consensus size: 58
51084737 AAATTTATCA
* ***** * *
51084747 AATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTAAGTTAGGTTAAGGTT-GAGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTT
* * *
51084804 AGTTAATTTAGGTTAGGGTTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTT
51084862 AATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGG-----
1 AATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTT
* *
51084915 --TT-A---GGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTT
* * *
51084967 AGTTAATTTAGGTTAGGGTTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTT
51085025 AATTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATT-AA-T---TTA-GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTT
* *
51085089 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTT
51085144 AGGGTTAGGG
Statistics
Matches: 300, Mismatches: 22, Indels: 35
0.84 0.06 0.10
Matches are distributed among these distances:
47 42 0.14
50 1 0.00
51 2 0.01
54 2 0.01
55 1 0.00
57 40 0.13
58 151 0.50
59 5 0.02
60 1 0.00
63 5 0.02
64 50 0.17
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (58 bp):
AATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTT
Found at i:51084912 original size:6 final size:6
Alignment explanation
Indices: 51084897--51084934 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
51084887 TTTTAATTAA
51084897 GTTA-G GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG GTT
1 GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG GTT
51084935 TTTAATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.16, C:0.00, G:0.47, T:0.37
Consensus pattern (6 bp):
GTTAGG
Found at i:51085139 original size:6 final size:6
Alignment explanation
Indices: 51085128--51085155 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
51085118 AATTAAATTA
51085128 GGTTAG GGTTAG GGTTAG GGTTAG GGTT
1 GGTTAG GGTTAG GGTTAG GGTTAG GGTT
51085156 TTTAATTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.50, T:0.36
Consensus pattern (6 bp):
GGTTAG
Found at i:51085173 original size:64 final size:67
Alignment explanation
Indices: 51085003--51085193 Score: 193
Period size: 64 Copynumber: 2.9 Consensus size: 67
51084993 TTTAGTTAAT
* **** * *
51085003 TTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG-TTAGGGTT--TTTA-ATT
1 TTAGGTTAGGGTTAGGGTTTTTAATT--AGTAGGTTAGGGTTAGGGTTTTCAATTAAATTAGGTT
*
51085064 A-AG
64 AGGG
*
51085067 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 TTAGGTTAGGGTTAGGGTTTTTAATT-AG-TAGGTTAGGGTTAGGGTTTTCAATTAAATTAGGTT
51085132 AGGG
64 AGGG
51085136 TTAGGGTTAGGGTTAGGGTTTTTAATT-G-A-GTTA-GGTTAGGGTTTTCAATTAAATTAGG
1 TTA-GGTTAGGGTTAGGGTTTTTAATTAGTAGGTTAGGGTTAGGGTTTTCAATTAAATTAGG
51085194 GTTTTTATTT
Statistics
Matches: 111, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
63 2 0.02
64 66 0.59
65 8 0.07
66 1 0.01
67 3 0.03
68 4 0.04
69 4 0.04
70 23 0.21
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.43
Consensus pattern (67 bp):
TTAGGTTAGGGTTAGGGTTTTTAATTAGTAGGTTAGGGTTAGGGTTTTCAATTAAATTAGGTTAG
GG
Found at i:51085173 original size:93 final size:95
Alignment explanation
Indices: 51084948--51085193 Score: 344
Period size: 93 Copynumber: 2.6 Consensus size: 95
51084938 AATTAATTTA
* *
51084948 GGTTAGGGTTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGGTTTTTAGTTAATTTAGGTTAGG
1 GGTTAGGGTTAGGG--TTTA-TTAA-TTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
51085013 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
62 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
*
51085047 GGTTAGGGTT----TTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGT
1 GGTTAGGGTTAGGGTTT-ATTAA-TTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
51085108 TAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
64 TAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
*
51085140 GGTTAGGGTTAGGGTTT-TTAATT-GAGTTA-GGTTAGGGTTTTCAATTAAATTAGG
1 GGTTAGGGTTAGGGTTTATTAATTAG-GTTAGGGTTAGGGTTTTTAATTAAATTAGG
51085194 GTTTTTATTT
Statistics
Matches: 136, Mismatches: 5, Indels: 18
0.86 0.03 0.11
Matches are distributed among these distances:
93 112 0.82
94 7 0.05
95 4 0.03
97 3 0.02
99 10 0.07
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (95 bp):
GGTTAGGGTTAGGGTTTATTAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA
GGGTTTTTAATTAAATTAGGTTAGGGTTAG
Found at i:51085178 original size:29 final size:29
Alignment explanation
Indices: 51084747--51085143 Score: 412
Period size: 29 Copynumber: 13.9 Consensus size: 29
51084737 AAATTTATCA
***
51084747 AATTAAGTTAGGTTAGGGTTAGGGTTAGG
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
** * *
51084776 GTTTAAGTTAGGTTAAGGTT-GAGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
* *
51084804 AGTTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
* *
51084833 AGTTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
*
51084862 AATTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
51084891 AATTAAGTTAGGTTAGGGTTAGGG---TT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
**
51084917 -A--GGGTTAGGGTTAGGGTT----TTTAATT
1 AATTAAGTTA-GGTTAGGGTTAGGGTTT--TT
*
51084942 AATTTAGGTTA-G----GGTTAGGGTTTTT
1 AA-TTAAGTTAGGTTAGGGTTAGGGTTTTT
* *
51084967 AGTTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
* *
51084996 AGTTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
51085025 AATTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTT
1 AATT--A--A-GTTA-GGTTAGGGTTAGGGTTTTT
51085060 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
51085089 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
*
51085118 AATTAAATTAGGTTAGGGTTAGGGTT
1 AATTAAGTTAGGTTAGGGTTAGGGTT
51085144 AGGGTTAGGG
Statistics
Matches: 319, Mismatches: 23, Indels: 52
0.81 0.06 0.13
Matches are distributed among these distances:
23 8 0.03
24 16 0.05
25 7 0.02
26 3 0.01
27 4 0.01
28 20 0.06
29 227 0.71
30 4 0.01
31 2 0.01
33 2 0.01
34 3 0.01
35 23 0.07
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (29 bp):
AATTAAGTTAGGTTAGGGTTAGGGTTTTT
Found at i:51085272 original size:26 final size:25
Alignment explanation
Indices: 51085242--51085290 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
51085232 CTTCAAAAAT
51085242 TTCTATGCGTATTACATCAAATAAAC
1 TTCTAT-CGTATTACATCAAATAAAC
**
51085268 TTCTATTTTATTACATCAAATAA
1 TTCTATCGTATTACATCAAATAA
51085291 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (25 bp):
TTCTATCGTATTACATCAAATAAAC
Found at i:51085716 original size:18 final size:18
Alignment explanation
Indices: 51085689--51085723 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51085679 CGAAAAAAGA
* *
51085689 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
51085707 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
51085724 AAACATACCT
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:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:51086385 original size:7 final size:7
Alignment explanation
Indices: 51086375--51086399 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51086365 TTATATACAT
51086375 AATACTA
1 AATACTA
51086382 AATACTA
1 AATACTA
51086389 AATACTA
1 AATACTA
51086396 AATA
1 AATA
51086400 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:51087380 original size:17 final size:16
Alignment explanation
Indices: 51087358--51087389 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
51087348 ATAATTATCT
51087358 AAAAATACTTAAATAAA
1 AAAAAT-CTTAAATAAA
51087375 AAAAATCTTAAATAA
1 AAAAATCTTAAATAA
51087390 TAATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAATCTTAAATAAA
Found at i:51087501 original size:10 final size:10
Alignment explanation
Indices: 51087482--51087530 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
51087472 GCCATTGATG
*
51087482 AAAATATAAA
1 AAAATTTAAA
51087492 AAAATTTAAA
1 AAAATTTAAA
* *
51087502 ATTATTTTAAA
1 A-AAATTTAAA
*
51087513 AAAATATAAA
1 AAAATTTAAA
51087523 AAAATTTA
1 AAAATTTA
51087531 TAATTATTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
10 23 0.74
11 8 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:51087517 original size:31 final size:31
Alignment explanation
Indices: 51087482--51087546 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
51087472 GCCATTGATG
51087482 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
*
51087513 AAAATATAAAAAAATTTATAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
51087544 AAA
1 AAA
51087547 TAGATTTGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (31 bp):
AAAATATAAAAAAATTTAAAATTATTTTAAA
Found at i:51087529 original size:21 final size:21
Alignment explanation
Indices: 51087488--51087529 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
51087478 GATGAAAATA
* **
51087488 TAAAAAAATTTAAAATTATTT
1 TAAAAAAATATAAAAAAATTT
51087509 TAAAAAAATATAAAAAAATTT
1 TAAAAAAATATAAAAAAATTT
51087530 ATAATTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAAAAATATAAAAAAATTT
Found at i:51087902 original size:29 final size:28
Alignment explanation
Indices: 51087860--51087921 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
51087850 CGATTTTCCG
* *
51087860 AAAAATGGACCATTCCGGTAAATAATTA
1 AAAAATCGACCATTCCGATAAATAATTA
* **
51087888 AAAAATCGACCCATTTCGATAAATTTTTA
1 AAAAATCGA-CCATTCCGATAAATAATTA
51087917 AAAAA
1 AAAAA
51087922 ATAGCTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.27
Consensus pattern (28 bp):
AAAAATCGACCATTCCGATAAATAATTA
Found at i:51091958 original size:52 final size:52
Alignment explanation
Indices: 51091895--51091996 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 52
51091885 ATCCAATAAA
51091895 GCCAAATGTGTCTTTGTGATAATACAAGTTCTGGTCTTATAGAAAAAAGGAG
1 GCCAAATGTGTCTTTGTGATAATACAAGTTCTGGTCTTATAGAAAAAAGGAG
* * ***
51091947 GCCAAGTGTGTCTTTGTGATACTATTTGTTCTGGTCTTATAGAAAAAAGG
1 GCCAAATGTGTCTTTGTGATAATACAAGTTCTGGTCTTATAGAAAAAAGG
51091997 TTAGGGTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (52 bp):
GCCAAATGTGTCTTTGTGATAATACAAGTTCTGGTCTTATAGAAAAAAGGAG
Found at i:51099232 original size:20 final size:20
Alignment explanation
Indices: 51099207--51099246 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
51099197 AATATTTTTC
*
51099207 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
51099227 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
51099247 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:51099248 original size:34 final size:35
Alignment explanation
Indices: 51099195--51099261 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
51099185 CAAACACCAG
* *
51099195 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
51099230 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
51099262 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:51099375 original size:22 final size:24
Alignment explanation
Indices: 51099336--51099387 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
51099326 AAATTATTAA
* *
51099336 TAAAAAAATTATATTTTAATCTTT
1 TAAAAAAAGTATATTTTAATCATT
51099360 TAAAAAAAGTA-A-TTTAATCATT
1 TAAAAAAAGTATATTTTAATCATT
*
51099382 TCAAAA
1 TAAAAA
51099388 TTTTAAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 14 0.56
23 1 0.04
24 10 0.40
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (24 bp):
TAAAAAAAGTATATTTTAATCATT
Found at i:51102687 original size:14 final size:14
Alignment explanation
Indices: 51102670--51102698 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
51102660 TTGCATGGTT
51102670 GCAAATACATGCAC
1 GCAAATACATGCAC
51102684 GCAAATACATGCAC
1 GCAAATACATGCAC
51102698 G
1 G
51102699 TCTTTGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.28, G:0.17, T:0.14
Consensus pattern (14 bp):
GCAAATACATGCAC
Found at i:51106151 original size:116 final size:117
Alignment explanation
Indices: 51105920--51106153 Score: 398
Period size: 116 Copynumber: 2.0 Consensus size: 117
51105910 TTGCTGAATT
* ** *
51105920 ATTATCATTCATTTTGAGTATGCAGAAAGCTTTATGATACAAAAGCACTGTTACTTTTGCAAATT
1 ATTATCATTCATTTTGAGTATGCAGAAAACTGCATCATACAAAAGCACTGTTACTTTTGCAAATT
51105985 CAAGTGATCCGTTTATTAAAGAATAAACTAATTCCAACCCAAATTAATTATA
66 CAAGTGATCCGTTTATTAAAGAATAAACTAATTCCAACCCAAATTAATTATA
*
51106037 ATTATCATTCATTTTGAGTATGCAGAAAACTGCATCATACAAAAGCACTTTTACTTTTGC-AATT
1 ATTATCATTCATTTTGAGTATGCAGAAAACTGCATCATACAAAAGCACTGTTACTTTTGCAAATT
* *
51106101 CAAGTGATCTGTTTATTGAAGAATAAACTAATTCCAACCCAAATTAATTATA
66 CAAGTGATCCGTTTATTAAAGAATAAACTAATTCCAACCCAAATTAATTATA
51106153 A
1 A
51106154 CTATTATGAA
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
116 55 0.50
117 55 0.50
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (117 bp):
ATTATCATTCATTTTGAGTATGCAGAAAACTGCATCATACAAAAGCACTGTTACTTTTGCAAATT
CAAGTGATCCGTTTATTAAAGAATAAACTAATTCCAACCCAAATTAATTATA
Found at i:51107512 original size:16 final size:16
Alignment explanation
Indices: 51107479--51107512 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51107469 CATAGTTGTT
* *
51107479 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
51107495 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
51107511 AA
1 AA
51107513 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:51110338 original size:21 final size:21
Alignment explanation
Indices: 51110312--51110352 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
51110302 AGATGAGCAA
* *
51110312 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
51110333 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
51110353 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:51112291 original size:16 final size:16
Alignment explanation
Indices: 51112258--51112291 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51112248 GGAGATTGTT
* *
51112258 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
51112274 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
51112290 AA
1 AA
51112292 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:51114668 original size:19 final size:17
Alignment explanation
Indices: 51114627--51114664 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
51114617 TTTTCCAATT
51114627 ATAAT-ATTTTTTAAAA
1 ATAATAATTTTTTAAAA
*
51114643 ATTATAATTTTTTAATAA
1 ATAATAATTTTTTAA-AA
51114661 ATAA
1 ATAA
51114665 ATAAAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 4 0.22
17 9 0.50
18 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATAATAATTTTTTAAAA
Found at i:51115079 original size:9 final size:9
Alignment explanation
Indices: 51115065--51115134 Score: 104
Period size: 9 Copynumber: 7.8 Consensus size: 9
51115055 TTTGGTTAAA
51115065 AATTACCCG
1 AATTACCCG
51115074 AATTACCCG
1 AATTACCCG
*
51115083 AATTACCTG
1 AATTACCCG
51115092 AATTACCCG
1 AATTACCCG
*
51115101 AATTAACCG
1 AATTACCCG
*
51115110 AATTAACCG
1 AATTACCCG
*
51115119 AATTAACCG
1 AATTACCCG
51115128 AATTACC
1 AATTACC
51115135 AAAAAATACC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:51118854 original size:15 final size:15
Alignment explanation
Indices: 51118819--51118870 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
51118809 TTAAGAATTT
*
51118819 TATTAAATTAT-ATA
1 TATTTAATTATAATA
51118833 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
51118847 TATTTAATAATAAT-
1 TATTTAATTATAATA
51118861 TATGTTAATT
1 TAT-TTAATT
51118871 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:51118904 original size:120 final size:120
Alignment explanation
Indices: 51118757--51118986 Score: 460
Period size: 120 Copynumber: 1.9 Consensus size: 120
51118747 TTTGAGTAAA
51118757 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
51118822 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
51118877 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
51118942 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
51118987 TAAATATGAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (120 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
Found at i:51118952 original size:61 final size:61
Alignment explanation
Indices: 51118767--51118954 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
51118757 TTATAGTATC
51118767 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
51118828 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
51118887 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
51118948 ATATATT
1 ATATATT
51118955 TTAATTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 26 0.27
61 36 0.37
62 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:51118969 original size:16 final size:16
Alignment explanation
Indices: 51118948--51118989 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
51118938 TTATTAAATT
*
51118948 ATATATTTTAATTATA
1 ATATATTTTAATAATA
51118964 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
51118979 AT-TATGTTTAA
1 ATATAT-TTTAA
51118990 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:51118974 original size:15 final size:15
Alignment explanation
Indices: 51118939--51118980 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
51118929 TTAAGAATTT
*
51118939 TATTAAATTAT-ATA
1 TATTTAATTATAATA
51118953 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
51118967 TATTTAATAATAAT
1 TATTTAATTATAAT
51118981 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:51119215 original size:45 final size:43
Alignment explanation
Indices: 51119115--51119224 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
51119105 TTTTCCATTA
51119115 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
51119154 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
51119199 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
51119225 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:51119226 original size:16 final size:16
Alignment explanation
Indices: 51119205--51119256 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
51119195 GATTTGCTAT
*
51119205 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
51119221 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
51119237 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
51119253 TACA
1 TACA
51119257 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:51119665 original size:30 final size:30
Alignment explanation
Indices: 51119629--51119687 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
51119619 AAATTAAAAA
* *
51119629 TTACCAAAATGT-TATAACTTTTTTTTTTAT
1 TTACCAAAATATATATAA-TTTTTTATTTAT
51119659 TTACCAAAATATATATAATTTTTTATTTA
1 TTACCAAAATATATATAATTTTTTATTTA
51119688 CCAAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.54
Consensus pattern (30 bp):
TTACCAAAATATATATAATTTTTTATTTAT
Found at i:51119794 original size:27 final size:27
Alignment explanation
Indices: 51119755--51119832 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
51119745 TCCCTGAGTG
*
51119755 AAGGGAACACTGTTGGCGGCACCAAAC
1 AAGGGAACCCTGTTGGCGGCACCAAAC
51119782 AAGGGAACCCTGTTGGCGGCACCAAAC
1 AAGGGAACCCTGTTGGCGGCACCAAAC
***
51119809 AAGGGTTTCCTGTTGGCGGCACCA
1 AAGGGAACCCTGTTGGCGGCACCA
51119833 CTCGTGTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.27, C:0.27, G:0.31, T:0.15
Consensus pattern (27 bp):
AAGGGAACCCTGTTGGCGGCACCAAAC
Found at i:51120125 original size:3 final size:3
Alignment explanation
Indices: 51120117--51120142 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
51120107 AATTTTATAG
51120117 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
51120143 AGATGTTACT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:51120732 original size:14 final size:14
Alignment explanation
Indices: 51120713--51120741 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
51120703 TTTTTGTATC
51120713 AATTTAATTATTCT
1 AATTTAATTATTCT
51120727 AATTTAATTATTCT
1 AATTTAATTATTCT
51120741 A
1 A
51120742 GTTTCAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTAATTATTCT
Done.