Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 52 of 187
Found at i:15424689 original size:15 final size:16
Alignment explanation
Indices: 15424663--15424692 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15424653 CACTATTGGT
15424663 TTCAACACCCAATTTC
1 TTCAACACCCAATTTC
15424679 TTCAA-ACCCAATTT
1 TTCAACACCCAATTT
15424693 TTGAGATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (16 bp):
TTCAACACCCAATTTC
Found at i:15432749 original size:15 final size:15
Alignment explanation
Indices: 15432707--15432753 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
15432697 CGTATTAACG
15432707 TAAGTGACTAAAATA
1 TAAGTGACTAAAATA
* *
15432722 TAA-T-ATTTTAAATA
1 TAAGTGA-CTAAAATA
15432736 TAAGTGACTAAAATA
1 TAAGTGACTAAAATA
15432751 TAA
1 TAA
15432754 TTTTAGATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
13 1 0.04
14 10 0.40
15 13 0.52
16 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (15 bp):
TAAGTGACTAAAATA
Found at i:15446183 original size:6 final size:6
Alignment explanation
Indices: 15446172--15446200 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
15446162 TTATGCATAT
15446172 ACCTGC ACCTGC ACCTGC ACCTGC ACCTG
1 ACCTGC ACCTGC ACCTGC ACCTGC ACCTG
15446201 AATCTTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.48, G:0.17, T:0.17
Consensus pattern (6 bp):
ACCTGC
Found at i:15450880 original size:64 final size:65
Alignment explanation
Indices: 15450772--15450901 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 65
15450762 GAAACTATCA
* *
15450772 GATGATTTGGACCCAAGCTGTTTTGGTTAACGCGCGTTAGGGGGAGTGTGCAATGACAGCCCAAT
1 GATGATTTGAACCCAAGCTGTTTTGGTTAACGCGCGTTAGGGGGAATGTGCAATGACAGCCCAAT
* *
15450837 GATGATTTGAACCCAAGCTG-TTTGGTTATCGCGCGTTATGGGGAATGTGCAATGACAGCCCAAT
1 GATGATTTGAACCCAAGCTGTTTTGGTTAACGCGCGTTAGGGGGAATGTGCAATGACAGCCCAAT
15450901 G
1 G
15450902 TTTATTGGAC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
64 42 0.69
65 19 0.31
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (65 bp):
GATGATTTGAACCCAAGCTGTTTTGGTTAACGCGCGTTAGGGGGAATGTGCAATGACAGCCCAAT
Found at i:15451657 original size:36 final size:38
Alignment explanation
Indices: 15451609--15451686 Score: 142
Period size: 37 Copynumber: 2.1 Consensus size: 38
15451599 ACAAATGTGG
15451609 GACTAAGCTTTCTACTTT-CTCAACATAATTCACAAGT
1 GACTAAGCTTTCTACTTTCCTCAACATAATTCACAAGT
15451646 GACT-AGCTTTCTACTTTCCTCAACATAATTCACAAGT
1 GACTAAGCTTTCTACTTTCCTCAACATAATTCACAAGT
15451683 GACT
1 GACT
15451687 TACTTTGAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 13 0.32
37 27 0.68
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.35
Consensus pattern (38 bp):
GACTAAGCTTTCTACTTTCCTCAACATAATTCACAAGT
Found at i:15455167 original size:27 final size:25
Alignment explanation
Indices: 15455096--15455168 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
15455086 GAATGAATCA
*
15455096 CCTTTGTGGTATACTCTGTATATAG
1 CCTTTGTGGTATACTCTATATATAG
* * *
15455121 CCTTTGTGGCATATTTTATATATATGG
1 CCTTTGTGGTATACTCTATATATA--G
*
15455148 CCTTTGTGGTGTACTCTATAT
1 CCTTTGTGGTATACTCTATAT
15455169 GGTTCACCTT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
25 20 0.53
27 18 0.47
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.47
Consensus pattern (25 bp):
CCTTTGTGGTATACTCTATATATAG
Found at i:15455717 original size:23 final size:22
Alignment explanation
Indices: 15455665--15455718 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
15455655 TATTTATCAG
15455665 TATGGATATGTCTAGTATTGAAT
1 TATGG-TATGTCTAGTATTGAAT
* *
15455688 CAAGGTATGTCTGAGTA-TGAATT
1 TATGGTATGTCT-AGTATTGAA-T
15455711 TATGGTAT
1 TATGGTAT
15455719 TATATTCTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.41
Consensus pattern (22 bp):
TATGGTATGTCTAGTATTGAAT
Found at i:15458704 original size:9 final size:9
Alignment explanation
Indices: 15458690--15458720 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15458680 GTTAAACGAA
15458690 TCGAGTTAT
1 TCGAGTTAT
*
15458699 TCGAGTTAA
1 TCGAGTTAT
15458708 TCGAGTTAT
1 TCGAGTTAT
15458717 TCGA
1 TCGA
15458721 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:15458798 original size:9 final size:9
Alignment explanation
Indices: 15458774--15458819 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
15458764 TGAGTTTTCG
*
15458774 AATTCGGAT
1 AATTCGAAT
*
15458783 AACTCGAAT
1 AATTCGAAT
15458792 AATTCGAAT
1 AATTCGAAT
15458801 AATTCGAAT
1 AATTCGAAT
15458810 AATTCGAAT
1 AATTCGAAT
15458819 A
1 A
15458820 TCAAACTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15459067 original size:30 final size:31
Alignment explanation
Indices: 15459033--15459092 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
15459023 AAACCTTTTA
*
15459033 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
15459063 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
15459093 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:15461602 original size:14 final size:14
Alignment explanation
Indices: 15461579--15461616 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
15461569 CTTTTTATTC
15461579 TTTTCGTTTTTT-A
1 TTTTCGTTTTTTCA
15461592 TTTTCGTTTTTTCA
1 TTTTCGTTTTTTCA
*
15461606 TCTTC-TTTTTT
1 TTTTCGTTTTTT
15461617 GTACATACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.76
Consensus pattern (14 bp):
TTTTCGTTTTTTCA
Found at i:15462380 original size:15 final size:15
Alignment explanation
Indices: 15462330--15462390 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
15462320 TTTTTTCTTA
*
15462330 TTATTATTATTTA-G
1 TTATTATTATTAATG
* *
15462344 TTCATTGTT-TTATTG
1 TT-ATTATTATTAATG
*
15462359 CTATTATTATTAATG
1 TTATTATTATTAATG
*
15462374 TTATTATTATTATTG
1 TTATTATTATTAATG
15462389 TT
1 TT
15462391 TCTACATTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
14 9 0.25
15 27 0.75
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.64
Consensus pattern (15 bp):
TTATTATTATTAATG
Found at i:15473411 original size:14 final size:14
Alignment explanation
Indices: 15473392--15473419 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15473382 AAATATTTCA
15473392 CTTAAAAAAAAGGG
1 CTTAAAAAAAAGGG
15473406 CTTAAAAAAAAGGG
1 CTTAAAAAAAAGGG
15473420 GAGAGGCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
CTTAAAAAAAAGGG
Found at i:15474714 original size:49 final size:49
Alignment explanation
Indices: 15474650--15474805 Score: 155
Period size: 49 Copynumber: 3.3 Consensus size: 49
15474640 GCAATTTAAA
* *
15474650 AGATCGAAGCCACAACGGCGAATCTTATTTCCAGGTGATGCAGCGGAAC
1 AGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAAC
* * * * * * *
15474699 AGATTGAAGCTACAACGGCGAGTCTCACTTCC---CCAT--TGC-G-AT
1 AGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAAC
*
15474741 AGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGCAAC
1 AGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAAC
* *
15474790 AGATTGAAGCTACAAC
1 AGATCGAAGCCACAAC
15474806 AGCAAGTCTC
Statistics
Matches: 81, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
42 29 0.36
43 1 0.01
44 2 0.02
45 3 0.04
46 2 0.02
47 2 0.02
49 42 0.52
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.19
Consensus pattern (49 bp):
AGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAAC
Found at i:15474843 original size:49 final size:49
Alignment explanation
Indices: 15474790--15474946 Score: 174
Period size: 49 Copynumber: 3.2 Consensus size: 49
15474780 GCAGCGCAAC
15474790 AGATTGAAGCTACAACAGCAAGTCTCACTTCCCCGACATTGCAATTAAA
1 AGATTGAAGCTACAACAGCAAGTCTCACTTCCCCGACATTGCAATTAAA
* * * * ** ** * * * *
15474839 AGATTGAAGCCATAACGGCGAA-TCTCA-TTTCCTTACGGTGTAGTGGAAC
1 AGATTGAAGCTACAACAGC-AAGTCTCACTTCCCCGACATTGCAAT-TAAA
15474888 AGATTGAAGCTACAACAGCAAGTCTCACTTCCCCGACATTGCAATTAAA
1 AGATTGAAGCTACAACAGCAAGTCTCACTTCCCCGACATTGCAATTAAA
15474937 AGATTGAAGC
1 AGATTGAAGC
15474947 CATAACGGCG
Statistics
Matches: 80, Mismatches: 24, Indels: 8
0.71 0.21 0.07
Matches are distributed among these distances:
48 12 0.15
49 56 0.70
50 12 0.15
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (49 bp):
AGATTGAAGCTACAACAGCAAGTCTCACTTCCCCGACATTGCAATTAAA
Found at i:15474896 original size:98 final size:95
Alignment explanation
Indices: 15474595--15475000 Score: 484
Period size: 98 Copynumber: 4.2 Consensus size: 95
15474585 ATGGGGATGC
* * *
15474595 AGCGGAACATATTGAAGCTACAACGGCGAGTCTCACTTCCCCATTGCAATTTAAAAGATCGAAGC
1 AGCGGAACAGATTGAAGCTACAACAGCAAGTCTCACTTCCCCATTGCAA-TTAAAAGATCGAAGC
*
15474660 CACAACGGCGAATCTTATTTCC--A-GGTGAT
65 CACAACGGCGAATCTCATTTCCTTACGGTG-T
* * *
15474689 GCAGCGGAACAGATTGAAGCTACAACGGCGAGTCTCACTTCCCCATTGCGA-T---AGATCGAAG
1 --AGCGGAACAGATTGAAGCTACAACAGCAAGTCTCACTTCCCCATTGCAATTAAAAGATCGAAG
* * *** * *
15474750 CCACAACGGCGAATCTTACTTCCAGGCGATGC
64 CCACAACGGCGAATCTCATTTCCTTACGGTGT
* *
15474782 AGCGCAACAGATTGAAGCTACAACAGCAAGTCTCACTTCCCCGACATTGCAATTAAAAGATTGAA
1 AGCGGAACAGATTGAAGCTACAACAGCAAGTCTCACTT-CCC--CATTGCAATTAAAAGATCGAA
*
15474847 GCCATAACGGCGAATCTCATTTCCTTACGGTGT
63 GCCACAACGGCGAATCTCATTTCCTTACGGTGT
* *
15474880 AGTGGAACAGATTGAAGCTACAACAGCAAGTCTCACTTCCCCGACATTGCAATTAAAAGATTGAA
1 AGCGGAACAGATTGAAGCTACAACAGCAAGTCTCACTT-CCC--CATTGCAATTAAAAGATCGAA
*
15474945 GCCATAACGGCGAATCTCATTTCCTTACGGTGT
63 GCCACAACGGCGAATCTCATTTCCTTACGGTGT
*
15474978 AGTGGAACAGATTGAAGCTACAA
1 AGCGGAACAGATTGAAGCTACAA
15475001 TGGCGAACCT
Statistics
Matches: 279, Mismatches: 21, Indels: 18
0.88 0.07 0.06
Matches are distributed among these distances:
91 66 0.24
92 3 0.01
94 11 0.04
95 1 0.00
96 47 0.17
98 151 0.54
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (95 bp):
AGCGGAACAGATTGAAGCTACAACAGCAAGTCTCACTTCCCCATTGCAATTAAAAGATCGAAGCC
ACAACGGCGAATCTCATTTCCTTACGGTGT
Found at i:15474990 original size:49 final size:49
Alignment explanation
Indices: 15474839--15474995 Score: 174
Period size: 49 Copynumber: 3.2 Consensus size: 49
15474829 TGCAATTAAA
15474839 AGATTGAAGCCATAACGGCGAATCTCATTTCCTTACGGTGTAGTGGAAC
1 AGATTGAAGCCATAACGGCGAATCTCATTTCCTTACGGTGTAGTGGAAC
* * * * ** ** * * * *
15474888 AGATTGAAGCTACAACAGC-AAGTCTCACTTCCCCGACATTGCAAT-TAAA
1 AGATTGAAGCCATAACGGCGAA-TCTCA-TTTCCTTACGGTGTAGTGGAAC
15474937 AGATTGAAGCCATAACGGCGAATCTCATTTCCTTACGGTGTAGTGGAAC
1 AGATTGAAGCCATAACGGCGAATCTCATTTCCTTACGGTGTAGTGGAAC
15474986 AGATTGAAGC
1 AGATTGAAGC
15474996 TACAATGGCG
Statistics
Matches: 80, Mismatches: 24, Indels: 8
0.71 0.21 0.07
Matches are distributed among these distances:
48 12 0.15
49 56 0.70
50 12 0.15
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (49 bp):
AGATTGAAGCCATAACGGCGAATCTCATTTCCTTACGGTGTAGTGGAAC
Found at i:15475038 original size:98 final size:98
Alignment explanation
Indices: 15474598--15475064 Score: 395
Period size: 98 Copynumber: 4.9 Consensus size: 98
15474588 GGGATGCAGC
* * * * * * *
15474598 GGAACATATTGAAGCTACAACGGCGAGTCTCACTT-CCC--CATTGCAATTTAAAAGATCGAAGC
1 GGAACAGATTGAAGCTACAACAGCAAGCCTCACTTCCCCGACATTACAA-CTAAAAGATTGAAGC
* * *
15474660 CACAACGGCGAATCTTATTTCC--A-GGTGATGCAGC
65 CATAACGGCGAATCTCATTTCCTTACGGTG-T--AGT
* * * * * *
15474694 GGAACAGATTGAAGCTACAACGGCGAGTCTCACTT-CCC--CATTGCGA-T---AGATCGAAGCC
1 GGAACAGATTGAAGCTACAACAGCAAGCCTCACTTCCCCGACATTACAACTAAAAGATTGAAGCC
* * * *** * * *
15474752 ACAACGGCGAATCTTACTTCCAGGCGATGCAGC
66 ATAACGGCGAATCTCATTTCCTTACGGTGTAGT
* * * *
15474785 GCAACAGATTGAAGCTACAACAGCAAGTCTCACTTCCCCGACATTGCAATTAAAAGATTGAAGCC
1 GGAACAGATTGAAGCTACAACAGCAAGCCTCACTTCCCCGACATTACAACTAAAAGATTGAAGCC
15474850 ATAACGGCGAATCTCATTTCCTTACGGTGTAGT
66 ATAACGGCGAATCTCATTTCCTTACGGTGTAGT
* * *
15474883 GGAACAGATTGAAGCTACAACAGCAAGTCTCACTTCCCCGACATTGCAATTAAAAGATTGAAGCC
1 GGAACAGATTGAAGCTACAACAGCAAGCCTCACTTCCCCGACATTACAACTAAAAGATTGAAGCC
15474948 ATAACGGCGAATCTCATTTCCTTACGGTGTAGT
66 ATAACGGCGAATCTCATTTCCTTACGGTGTAGT
** *** * * * *
15474981 GGAACAGATTGAAGCTACAATGGCGAA-CCTTGTTTTCCCGGCATTACAGCTAGAAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGC-AAGCCTCACTTCCCCGACATTACAACTAAAAGATTGAAGC
** *
15475045 CGCAACGGCGAATCTTATTT
65 CATAACGGCGAATCTCATTT
15475065 TCTCAACGGG
Statistics
Matches: 324, Mismatches: 36, Indels: 20
0.85 0.09 0.05
Matches are distributed among these distances:
91 66 0.20
92 3 0.01
94 11 0.03
95 1 0.00
96 44 0.14
98 197 0.61
99 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (98 bp):
GGAACAGATTGAAGCTACAACAGCAAGCCTCACTTCCCCGACATTACAACTAAAAGATTGAAGCC
ATAACGGCGAATCTCATTTCCTTACGGTGTAGT
Found at i:15475633 original size:14 final size:14
Alignment explanation
Indices: 15475610--15475647 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
15475600 CTTTTTATTC
15475610 TTTTCGTTTTTT-A
1 TTTTCGTTTTTTCA
15475623 TTTTCGTTTTTTCA
1 TTTTCGTTTTTTCA
*
15475637 TCTTC-TTTTTT
1 TTTTCGTTTTTT
15475648 GTACATACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.76
Consensus pattern (14 bp):
TTTTCGTTTTTTCA
Found at i:15481047 original size:74 final size:73
Alignment explanation
Indices: 15480926--15481073 Score: 278
Period size: 74 Copynumber: 2.0 Consensus size: 73
15480916 GATTTTGTTT
*
15480926 TTTAATTTTTGACAAATTTAGTTATTAAGTCTGAAAATAATTTTAAAAAAATAAAAAAAATGTTG
1 TTTAATTTTTGACAAATTTAGTTATTAAGCCTGAAAATAATTTT-AAAAAATAAAAAAAATGTTG
15480991 GCAGCATGA
65 GCAGCATGA
15481000 TTTAATTTTTGACAAATTTAGTTATTAAGCCTGAAAATAATTTTAAAAAATAAAAAAAATGTTGG
1 TTTAATTTTTGACAAATTTAGTTATTAAGCCTGAAAATAATTTTAAAAAATAAAAAAAATGTTGG
15481065 CAGCATGA
66 CAGCATGA
15481073 T
1 T
15481074 GGTCATGCCA
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
73 30 0.41
74 43 0.59
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (73 bp):
TTTAATTTTTGACAAATTTAGTTATTAAGCCTGAAAATAATTTTAAAAAATAAAAAAAATGTTGG
CAGCATGA
Found at i:15483599 original size:17 final size:18
Alignment explanation
Indices: 15483577--15483610 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15483567 CAACCGCGAT
15483577 AAACGC-AATGCGACCGA
1 AAACGCGAATGCGACCGA
*
15483594 AAACGCGACTGCGACCG
1 AAACGCGAATGCGACCG
15483611 CAATTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.32, G:0.26, T:0.06
Consensus pattern (18 bp):
AAACGCGAATGCGACCGA
Found at i:15492747 original size:97 final size:97
Alignment explanation
Indices: 15492580--15492776 Score: 315
Period size: 97 Copynumber: 2.0 Consensus size: 97
15492570 ATGTTTAAGG
*
15492580 TATGTGATTTATTCAGGTAGGATCCATGCTCTGTTAATTTTGATGATTCATTTCTGTGTTGCTAT
1 TATGTGATTTATTCAGGTAGAATCCATGCTCTGTTAATTTTGATGATTCATTTCTGTGTTGCTAT
* * *
15492645 TTTGGATGTA-GACATGTGATATTTGAATATGT
66 GTTGGATG-AGGACATGTGATATCTGAACATGT
* * *
15492677 TATGTGATTTATTCAGGTATAATCCATGCTTTGTTAATTTTGATGATTCATTTCTGTGTTGCTGT
1 TATGTGATTTATTCAGGTAGAATCCATGCTCTGTTAATTTTGATGATTCATTTCTGTGTTGCTAT
15492742 GTTGGATGAGGACATGTGATATCTGAACATGT
66 GTTGGATGAGGACATGTGATATCTGAACATGT
15492774 TAT
1 TAT
15492777 TGTGTCTGAT
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
96 1 0.01
97 91 0.99
ACGTcount: A:0.23, C:0.10, G:0.22, T:0.46
Consensus pattern (97 bp):
TATGTGATTTATTCAGGTAGAATCCATGCTCTGTTAATTTTGATGATTCATTTCTGTGTTGCTAT
GTTGGATGAGGACATGTGATATCTGAACATGT
Found at i:15497026 original size:17 final size:17
Alignment explanation
Indices: 15497006--15497077 Score: 66
Period size: 17 Copynumber: 4.4 Consensus size: 17
15496996 CCAATAATAG
15497006 TAATATTTTAA-TAGATT
1 TAATATTTTAATTA-ATT
15497023 TAATA-TTTAATTTAATT
1 TAATATTTTAA-TTAATT
15497040 TAATA-TTTATATTAA--
1 TAATATTTTA-ATTAATT
*
15497055 TAGTATTTT-ATTAATT
1 TAATATTTTAATTAATT
15497071 TAATATT
1 TAATATT
15497078 AGAGTGATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
14 5 0.11
15 4 0.09
16 14 0.30
17 21 0.45
18 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TAATATTTTAATTAATT
Found at i:15497194 original size:5 final size:6
Alignment explanation
Indices: 15497022--15497200 Score: 55
Period size: 6 Copynumber: 30.7 Consensus size: 6
15497012 TTTAATAGAT
* **
15497022 TTAATA TTTAAT- TTAAT- TTAATA TTTATA TTAATA GTATTTTA TTAAT-
1 TTAATA -TTAATA TTAATA TTAATA TTAATA TTAATA -T-TAATA TTAATA
* * * *
15497070 TTAATA TTAGAGTGA TT-ATC TTAATA TTAA-A TTTAAT- TTAATG TTTATC
1 TTAATA TTA-A-T-A TTAATA TTAATA TTAATA -TTAATA TTAATA TTAATA
* * *
15497119 TTATAGA TAAATA TT-CTA TTAAT- TTAATA --AGAT- TTAATA TTAA-A
1 TTA-ATA TTAATA TTAATA TTAATA TTAATA TTA-ATA TTAATA TTAATA
* *
15497163 TT-TTA TCTAATA TTTATA TT-ATA TTAAT- TTAATA TTAA
1 TTAATA T-TAATA TTAATA TTAATA TTAATA TTAATA TTAA
15497201 AGTGATTAAG
Statistics
Matches: 128, Mismatches: 21, Indels: 47
0.65 0.11 0.24
Matches are distributed among these distances:
4 1 0.01
5 51 0.40
6 54 0.42
7 15 0.12
8 4 0.03
9 3 0.02
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (6 bp):
TTAATA
Found at i:15497197 original size:11 final size:12
Alignment explanation
Indices: 15497022--15497200 Score: 55
Period size: 11 Copynumber: 15.3 Consensus size: 12
15497012 TTTAATAGAT
15497022 TTAATATTTAAT-
1 TTAATA-TTAATA
15497034 TTAAT-TTAATA
1 TTAATATTAATA
*
15497045 TTTATATTAATA
1 TTAATATTAATA
**
15497057 GTATTTTATTAAT-
1 -T-TAATATTAATA
15497070 TTAATATTAGAGTGA
1 TTAATATTA-A-T-A
*
15497085 TT-ATCTTAATA
1 TTAATATTAATA
15497096 TTAA-ATTTAAT-
1 TTAATA-TTAATA
* * *
15497107 TTAATGTTTATC
1 TTAATATTAATA
* *
15497119 TTATAGATAAATA
1 TTA-ATATTAATA
*
15497132 TT-CTATTAAT-
1 TTAATATTAATA
15497142 TTAATA--AGAT-
1 TTAATATTA-ATA
15497152 TTAATATTAA-A
1 TTAATATTAATA
*
15497163 TT-TTATCTAATA
1 TTAATAT-TAATA
*
15497175 TTTATATT-ATA
1 TTAATATTAATA
15497186 TTAAT-TTAATA
1 TTAATATTAATA
15497197 TTAA
1 TTAA
15497201 AGTGATTAAG
Statistics
Matches: 125, Mismatches: 20, Indels: 45
0.66 0.11 0.24
Matches are distributed among these distances:
9 1 0.01
10 20 0.16
11 48 0.38
12 28 0.22
13 12 0.10
14 14 0.11
15 2 0.02
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (12 bp):
TTAATATTAATA
Found at i:15504122 original size:812 final size:812
Alignment explanation
Indices: 15502557--15504180 Score: 3248
Period size: 812 Copynumber: 2.0 Consensus size: 812
15502547 AATCCAAAAA
15502557 GTACAATCCACTAAACCAAACCCTACTGATGGTGAAGTACTGGTTTTTGAATTTGAGGTTTCACA
1 GTACAATCCACTAAACCAAACCCTACTGATGGTGAAGTACTGGTTTTTGAATTTGAGGTTTCACA
15502622 TTCAAATCCTATTAAGTCTATGAGTTTTTCGCCCAAATATATTTTTGTTGGGAGCTGTGGAGATT
66 TTCAAATCCTATTAAGTCTATGAGTTTTTCGCCCAAATATATTTTTGTTGGGAGCTGTGGAGATT
15502687 TATTCTGATTAGTCGTTATTCAGCATGTAACTATAGATTATAATGATAAATTTTTTTAATTAATT
131 TATTCTGATTAGTCGTTATTCAGCATGTAACTATAGATTATAATGATAAATTTTTTTAATTAATT
15502752 TCTAAACTTCAAAACGTTTTAATTATATTATTAGAGTATTAATATTATAACAATTAGATCCTTAA
196 TCTAAACTTCAAAACGTTTTAATTATATTATTAGAGTATTAATATTATAACAATTAGATCCTTAA
15502817 ATGGGTCTAGTTGACAATTTAAGTTTCAAATGCCAGTTTGAATATGACATAAAACATATTAAATC
261 ATGGGTCTAGTTGACAATTTAAGTTTCAAATGCCAGTTTGAATATGACATAAAACATATTAAATC
15502882 ATGTGAATGTGTAAACACGTGTGTATTTATTGTATTTTATTGTCGCTGGTTGTTTTTTAACACGT
326 ATGTGAATGTGTAAACACGTGTGTATTTATTGTATTTTATTGTCGCTGGTTGTTTTTTAACACGT
15502947 CAAATCCAAAATGTTATGTGACAGCCACACATTTGTTTACAATTTCATCCATATGTTTTAAATAT
391 CAAATCCAAAATGTTATGTGACAGCCACACATTTGTTTACAATTTCATCCATATGTTTTAAATAT
15503012 GCTTCAAATCATATTTGAGCTAATATTTAATGCTAAAACTAGGCTTATGGATATTGATATTTTAA
456 GCTTCAAATCATATTTGAGCTAATATTTAATGCTAAAACTAGGCTTATGGATATTGATATTTTAA
15503077 AATTCAATTAAAACATTTTAAAATTTAAAAACCAATTTAAAATCTAAATCGTAATTTGAATACAT
521 AATTCAATTAAAACATTTTAAAATTTAAAAACCAATTTAAAATCTAAATCGTAATTTGAATACAT
15503142 TAGGTGGAATTAACAGTTAAAAAAAAAGAAAGAAAATGGATAAAGCAACATTTAGTCCTTAACTT
586 TAGGTGGAATTAACAGTTAAAAAAAAAGAAAGAAAATGGATAAAGCAACATTTAGTCCTTAACTT
15503207 GTCAACTTATTATTATTATTTTGGTCTCTAAATTTTCTTTTGTCCACATTAACCCCTAAACTTGA
651 GTCAACTTATTATTATTATTTTGGTCTCTAAATTTTCTTTTGTCCACATTAACCCCTAAACTTGA
15503272 CAATTTTCTTAATTTGATTCTTAAATTTAAATTTCATTGAAGTATGATGATGTAGTACTGTAAAA
716 CAATTTTCTTAATTTGATTCTTAAATTTAAATTTCATTGAAGTATGATGATGTAGTACTGTAAAA
15503337 TTGTGTCACATCATCATCTAATTTTTTAAAGT
781 TTGTGTCACATCATCATCTAATTTTTTAAAGT
15503369 GTACAATCCACTAAACCAAACCCTACTGATGGTGAAGTACTGGTTTTTGAATTTGAGGTTTCACA
1 GTACAATCCACTAAACCAAACCCTACTGATGGTGAAGTACTGGTTTTTGAATTTGAGGTTTCACA
15503434 TTCAAATCCTATTAAGTCTATGAGTTTTTCGCCCAAATATATTTTTGTTGGGAGCTGTGGAGATT
66 TTCAAATCCTATTAAGTCTATGAGTTTTTCGCCCAAATATATTTTTGTTGGGAGCTGTGGAGATT
15503499 TATTCTGATTAGTCGTTATTCAGCATGTAACTATAGATTATAATGATAAATTTTTTTAATTAATT
131 TATTCTGATTAGTCGTTATTCAGCATGTAACTATAGATTATAATGATAAATTTTTTTAATTAATT
15503564 TCTAAACTTCAAAACGTTTTAATTATATTATTAGAGTATTAATATTATAACAATTAGATCCTTAA
196 TCTAAACTTCAAAACGTTTTAATTATATTATTAGAGTATTAATATTATAACAATTAGATCCTTAA
15503629 ATGGGTCTAGTTGACAATTTAAGTTTCAAATGCCAGTTTGAATATGACATAAAACATATTAAATC
261 ATGGGTCTAGTTGACAATTTAAGTTTCAAATGCCAGTTTGAATATGACATAAAACATATTAAATC
15503694 ATGTGAATGTGTAAACACGTGTGTATTTATTGTATTTTATTGTCGCTGGTTGTTTTTTAACACGT
326 ATGTGAATGTGTAAACACGTGTGTATTTATTGTATTTTATTGTCGCTGGTTGTTTTTTAACACGT
15503759 CAAATCCAAAATGTTATGTGACAGCCACACATTTGTTTACAATTTCATCCATATGTTTTAAATAT
391 CAAATCCAAAATGTTATGTGACAGCCACACATTTGTTTACAATTTCATCCATATGTTTTAAATAT
15503824 GCTTCAAATCATATTTGAGCTAATATTTAATGCTAAAACTAGGCTTATGGATATTGATATTTTAA
456 GCTTCAAATCATATTTGAGCTAATATTTAATGCTAAAACTAGGCTTATGGATATTGATATTTTAA
15503889 AATTCAATTAAAACATTTTAAAATTTAAAAACCAATTTAAAATCTAAATCGTAATTTGAATACAT
521 AATTCAATTAAAACATTTTAAAATTTAAAAACCAATTTAAAATCTAAATCGTAATTTGAATACAT
15503954 TAGGTGGAATTAACAGTTAAAAAAAAAGAAAGAAAATGGATAAAGCAACATTTAGTCCTTAACTT
586 TAGGTGGAATTAACAGTTAAAAAAAAAGAAAGAAAATGGATAAAGCAACATTTAGTCCTTAACTT
15504019 GTCAACTTATTATTATTATTTTGGTCTCTAAATTTTCTTTTGTCCACATTAACCCCTAAACTTGA
651 GTCAACTTATTATTATTATTTTGGTCTCTAAATTTTCTTTTGTCCACATTAACCCCTAAACTTGA
15504084 CAATTTTCTTAATTTGATTCTTAAATTTAAATTTCATTGAAGTATGATGATGTAGTACTGTAAAA
716 CAATTTTCTTAATTTGATTCTTAAATTTAAATTTCATTGAAGTATGATGATGTAGTACTGTAAAA
15504149 TTGTGTCACATCATCATCTAATTTTTTAAAGT
781 TTGTGTCACATCATCATCTAATTTTTTAAAGT
15504181 TTTTATAATT
Statistics
Matches: 812, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
812 812 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (812 bp):
GTACAATCCACTAAACCAAACCCTACTGATGGTGAAGTACTGGTTTTTGAATTTGAGGTTTCACA
TTCAAATCCTATTAAGTCTATGAGTTTTTCGCCCAAATATATTTTTGTTGGGAGCTGTGGAGATT
TATTCTGATTAGTCGTTATTCAGCATGTAACTATAGATTATAATGATAAATTTTTTTAATTAATT
TCTAAACTTCAAAACGTTTTAATTATATTATTAGAGTATTAATATTATAACAATTAGATCCTTAA
ATGGGTCTAGTTGACAATTTAAGTTTCAAATGCCAGTTTGAATATGACATAAAACATATTAAATC
ATGTGAATGTGTAAACACGTGTGTATTTATTGTATTTTATTGTCGCTGGTTGTTTTTTAACACGT
CAAATCCAAAATGTTATGTGACAGCCACACATTTGTTTACAATTTCATCCATATGTTTTAAATAT
GCTTCAAATCATATTTGAGCTAATATTTAATGCTAAAACTAGGCTTATGGATATTGATATTTTAA
AATTCAATTAAAACATTTTAAAATTTAAAAACCAATTTAAAATCTAAATCGTAATTTGAATACAT
TAGGTGGAATTAACAGTTAAAAAAAAAGAAAGAAAATGGATAAAGCAACATTTAGTCCTTAACTT
GTCAACTTATTATTATTATTTTGGTCTCTAAATTTTCTTTTGTCCACATTAACCCCTAAACTTGA
CAATTTTCTTAATTTGATTCTTAAATTTAAATTTCATTGAAGTATGATGATGTAGTACTGTAAAA
TTGTGTCACATCATCATCTAATTTTTTAAAGT
Found at i:15509219 original size:40 final size:40
Alignment explanation
Indices: 15509164--15509511 Score: 642
Period size: 40 Copynumber: 8.7 Consensus size: 40
15509154 GAGCATTGGA
15509164 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
15509204 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
15509244 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
15509284 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
15509324 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
15509364 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
15509404 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
15509444 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
15509484 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
15509512 ATGTGTTTGC
Statistics
Matches: 299, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 299 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:15517279 original size:40 final size:39
Alignment explanation
Indices: 15517248--15517457 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
15517238 GGACTAAGAT
* *
15517248 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
15517288 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
15517328 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
15517368 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
15517408 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
15517447 CCGAAGGCATT
1 CCGAAGGCATT
15517458 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:15517411 original size:120 final size:120
Alignment explanation
Indices: 15517195--15517457 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
15517185 TTGAATGCTG
* *
15517195 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
15517259 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
15517315 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
15517378 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
15517434 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
15517458 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:15517477 original size:79 final size:80
Alignment explanation
Indices: 15517248--15517492 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
15517238 GGACTAAGAT
* * * * * * * ** *
15517248 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
15517311 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
15517328 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
15517393 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
15517408 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
15517472 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
15517486 CCGAAGG
1 CCGAAGG
15517493 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:15524158 original size:20 final size:19
Alignment explanation
Indices: 15524121--15524162 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
15524111 AAATCATCAA
15524121 TTTCATGAACATAAACATAT
1 TTTCATGAACATAAACAT-T
*
15524141 TTTCATTGAACAT-TACATT
1 TTTCA-TGAACATAAACATT
15524160 TTT
1 TTT
15524163 ATTCCTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 9 0.45
21 7 0.35
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (19 bp):
TTTCATGAACATAAACATT
Found at i:15524399 original size:41 final size:41
Alignment explanation
Indices: 15524342--15524589 Score: 254
Period size: 41 Copynumber: 6.1 Consensus size: 41
15524332 ATAACATACT
*
15524342 GGCACAAAGCCTGATATAATACATCGACACGAAGCCTGCTA
1 GGCACAAAGCCTGATATAATACATCGACACAAAGCCTGCTA
* * * * *
15524383 GGCACAAAGCGTGATATAATGCATTGGCACAAAGCCTTCTA
1 GGCACAAAGCCTGATATAATACATCGACACAAAGCCTGCTA
* * *
15524424 GGCACAAAGCCTAATATAGTATATCGACACAAAGCCTGCTA
1 GGCACAAAGCCTGATATAATACATCGACACAAAGCCTGCTA
* * * * * *
15524465 GGTACAGAGCCCGATATTATACACCGACACAAAGCCTGTTA
1 GGCACAAAGCCTGATATAATACATCGACACAAAGCCTGCTA
* *
15524506 GGCACAAAGCGTAATATAATACA-CTGACACAAAGCCTGCTA
1 GGCACAAAGCCTGATATAATACATC-GACACAAAGCCTGCTA
* * * *
15524547 GGCACAGAA-CC-CAAAT-AT-CACCGGCACAAAGCCTGCTA
1 GGCACA-AAGCCTGATATAATACATCGACACAAAGCCTGCTA
15524585 GGCAC
1 GGCAC
15524590 GTAGCCTAAA
Statistics
Matches: 170, Mismatches: 34, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
38 22 0.13
39 3 0.02
40 4 0.02
41 139 0.82
42 2 0.01
ACGTcount: A:0.37, C:0.27, G:0.19, T:0.17
Consensus pattern (41 bp):
GGCACAAAGCCTGATATAATACATCGACACAAAGCCTGCTA
Found at i:15524481 original size:82 final size:80
Alignment explanation
Indices: 15524342--15524598 Score: 286
Period size: 82 Copynumber: 3.2 Consensus size: 80
15524332 ATAACATACT
* * * ** *
15524342 GGCACAAAGCCTGATATAATACATCGACACGAAGCCTGCTAGGCACAAAGCGTGATATAATGCAT
1 GGCACAAAGCCTAATATAATACATCGACACAAAGCCTGCTAGGCACAGAGCCCGATAT-AT-CAC
*
15524407 TGGCACAAAGCCTTCTA
64 CGGCACAAAGCCTTCTA
* * *
15524424 GGCACAAAGCCTAATATAGTATATCGACACAAAGCCTGCTAGGTACAGAGCCCGATATTATACAC
1 GGCACAAAGCCTAATATAATACATCGACACAAAGCCTGCTAGGCACAGAGCCCGATA-TAT-CAC
*
15524489 CGACACAAAGCCTGT-TA
64 CGGCACAAAGCCT-TCTA
* * *
15524506 GGCACAAAGCGTAATATAATACA-CTGACACAAAGCCTGCTAGGCACAGAACCC-AAATATCACC
1 GGCACAAAGCCTAATATAATACATC-GACACAAAGCCTGCTAGGCACAGAGCCCGATATATCACC
*
15524569 GGCACAAAGCCTGCTA
65 GGCACAAAGCCTTCTA
**
15524585 GGCACGTAGCCTAA
1 GGCACAAAGCCTAA
15524599 ACAACGTTAT
Statistics
Matches: 148, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
79 28 0.19
80 3 0.02
81 3 0.02
82 112 0.76
83 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (80 bp):
GGCACAAAGCCTAATATAATACATCGACACAAAGCCTGCTAGGCACAGAGCCCGATATATCACCG
GCACAAAGCCTTCTA
Found at i:15528385 original size:51 final size:51
Alignment explanation
Indices: 15528309--15528476 Score: 309
Period size: 51 Copynumber: 3.3 Consensus size: 51
15528299 ACTTCTGATC
*
15528309 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
15528360 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
15528411 AGTGACAAGTGATGAGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
15528462 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
15528477 ATGTGATCCG
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 113 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:15532840 original size:12 final size:12
Alignment explanation
Indices: 15532805--15532841 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
15532795 CCACACGCTT
*
15532805 GTGTGCTAGGCT
1 GTGTGCTAGGCC
15532817 GTGTGCTAGGCC
1 GTGTGCTAGGCC
*
15532829 GTGTACTAGGCC
1 GTGTGCTAGGCC
15532841 G
1 G
15532842 ATGGATAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.11, C:0.22, G:0.41, T:0.27
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:15536682 original size:24 final size:24
Alignment explanation
Indices: 15536650--15536696 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15536640 TTCCATTACT
15536650 ATTATTATTA-CATTATTTACTATC
1 ATTATTATTATCA-TATTTACTATC
*
15536674 ATTATTATTATCATATTTTCTAT
1 ATTATTATTATCATATTTACTAT
15536697 ACATATACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTATTATTATCATATTTACTATC
Found at i:15536687 original size:12 final size:12
Alignment explanation
Indices: 15536650--15536687 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
15536640 TTCCATTACT
15536650 ATTATTATTA-C
1 ATTATTATTATC
*
15536661 ATTATTTACTATC
1 ATTA-TTATTATC
15536674 ATTATTATTATC
1 ATTATTATTATC
15536686 AT
1 AT
15536688 ATTTTCTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 4 0.17
12 14 0.61
13 5 0.22
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:15537159 original size:18 final size:18
Alignment explanation
Indices: 15537128--15537162 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15537118 TTGTATGTGC
* *
15537128 TTGTATATATATATATAT
1 TTGTAAATACATATATAT
15537146 TTGTAAATACATATATA
1 TTGTAAATACATATATA
15537163 CACAATTTAA
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:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (18 bp):
TTGTAAATACATATATAT
Found at i:15543192 original size:44 final size:44
Alignment explanation
Indices: 15543127--15544592 Score: 1864
Period size: 44 Copynumber: 32.9 Consensus size: 44
15543117 TGAAAGGCAG
*
15543127 CAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
15543171 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
* *
15543215 CAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGAAAT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
* *** * *
15543259 TAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAA
* * * *
15543304 CAGATCTTGTCTTCATGTATCGGTGTGAAGTAGATCAAAAAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
* *
15543348 CTGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
* *
15543392 CATATATTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
* *
15543436 CATATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
* * * * *
15543480 TAGATCTTGTCTTCCCATACTAGT-G-GTGAAGTAGATTGAAGAAAG
1 CAGATCTTGTCTT--CAT-GTATTGGCGTGAAGTAGATCGAAGAAAA
* * *
15543525 TAGATCTTGTCTTCATGTATCGTCGTGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
* *
15543569 CAAATCTTGTCTTCATGTATTGGCGTGAAGTAAATCGAAGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
*
15543613 CAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAACGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC---G--AA-GAAAA
* *
15543663 CAGATCTTCTCTTCATGCATTGGCGTGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
15543707 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
* * *
15543751 CAAATCTTGCCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
*** * * *
15543795 CAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATTGAAGAAAG
1 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAA
**
15543840 CAGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
* *
15543884 CAGATCTTGTCTTCATGTATTGGAGTGAAGTAGATTGAAGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
* *
15543928 TAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAACGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC---G--AA-GAAAA
* *
15543978 CAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAGGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
*
15544022 CAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
* * *
15544066 TAGATCTTGTCTTCATGTATCGGTGTGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
* *
15544110 CAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
*
15544154 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
*
15544198 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
* * *
15544242 CAGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AGAGATAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGA-AGAAAA
** * * ** * *
15544286 TGGATCTTGTCTTCATGTATTGACATGAAGTAGATTAAAGATAG
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
* *** * * * * *
15544330 CAGATCTTGTTTTCCCATACTGGTGGTAAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAA
* * *
15544375 CAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
* * *
15544419 CAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
*
15544463 CAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
* * *
15544507 CAGATCTTGTCTTTATGTATTGG-GGGCAAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCATGTATTGGCGTG--AAGTAGATCGAAGAAAA
* * * *
15544552 TAGATATTGTCTTCCCATATATTGGC--GAAATAGATCGAAGA
1 CAGATCTTGTCTT--CATGTATTGGCGTGAAGTAGATCGAAGA
15544593 TACAAGTCTT
Statistics
Matches: 1259, Mismatches: 136, Indels: 54
0.87 0.09 0.04
Matches are distributed among these distances:
42 2 0.00
43 5 0.00
44 983 0.78
45 169 0.13
46 5 0.00
47 15 0.01
49 4 0.00
50 76 0.06
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (44 bp):
CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAA
Found at i:15543428 original size:177 final size:176
Alignment explanation
Indices: 15543125--15544565 Score: 1898
Period size: 177 Copynumber: 8.1 Consensus size: 176
15543115 GTTGAAAGGC
* *
15543125 AGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTA
*
15543190 TTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAG
66 TTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
** *** *
15543255 AAATTAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGAAGAA
131 AAAACAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
* * * * *
15543302 AGCAGATCTTGTCTTCATGTATCGGTGTGAAGTAGATCAAAAAAAACTGATCTTATCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTA
* *
15543367 TTGGCGTGAAGTAGATCGAAGAAAACATATATTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
66 TTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
*
15543432 AAAACATATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
131 AAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* *** * * **
15543478 AGTAGATCTTGTCTTCCCATACTAGTG-GTGAAGTAGATTGAAGAAAGTAGATCTTGTCTTCATG
1 AGCAGATCTTGTCTTCATGTA-TCG-GCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATG
* * * *
15543542 TATCGTCGTGAAGTAGATCGAAGAAAACAAATCTTGTCTTCATGTATTGGCGTGAAGTAAATCGA
64 TATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGA
*
15543607 AGAAAACAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAA
129 AGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG-AA
* * *
15543656 ACGAAAACAGATCTTCTCTTCATGCATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTC
1 A-G----CAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTC
* *
15543721 ATGTATTGGCGTGAAGTAGATCGAAGAAAACAAATCTTGCCTTCATGTATTGGCGTGAAGTAGAT
61 ATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
* *** * *
15543786 CGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATTGAAGAA
126 CGAAGAAAACAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
*
15543838 AGCAGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTA
* * * *
15543903 TTGGAGTGAAGTAGATTGAAGAAAATAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAG
66 TTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC---G
* *
15543968 AAAACGAAAACAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAGGAA
128 --AA-GAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* *
15544020 AACAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAATAGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTA
* * *
15544085 TCGGTGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAG
66 TTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
*
15544150 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
131 AAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* *
15544196 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTA
* * * ** * * **
15544261 TTGACATGAAGTAGATC-AGAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATTAAA
66 TTGGCGTGAAGTAGATCGA-AGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAA
* * * *** * * * *
15544325 GATAGCAGATCTTGTTTTCCCATACTGGTGGTAAAGTAGATCGAAGAT
130 GAAAACAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
* * * *
15544373 AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTA
* * * *
15544438 TTGACGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAG
66 TTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
* *
15544503 AAAACAGATCTTGTCTTTATGTATTGG-GGGCAAAGTAGATCGAAGAA
131 AAAACAGATCTTGTCTTCATGTATTGGCGTG--AAGTAGATCGAAGAA
* *
15544550 AGTAGATATTGTCTTC
1 AGCAGATCTTGTCTTC
15544566 CCATATATTG
Statistics
Matches: 1107, Mismatches: 136, Indels: 42
0.86 0.11 0.03
Matches are distributed among these distances:
175 2 0.00
176 212 0.19
177 573 0.52
178 5 0.00
179 2 0.00
180 1 0.00
181 2 0.00
182 259 0.23
183 51 0.05
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (176 bp):
AGCAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTA
TTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
AAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
Found at i:15546064 original size:24 final size:24
Alignment explanation
Indices: 15546032--15546078 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15546022 TTCCATTACT
15546032 ATTATTATTA-CATTATTTACTATC
1 ATTATTATTATCA-TATTTACTATC
*
15546056 ATTATTATTATCATATTTTCTAT
1 ATTATTATTATCATATTTACTAT
15546079 ACATATACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTATTATTATCATATTTACTATC
Found at i:15546069 original size:12 final size:12
Alignment explanation
Indices: 15546032--15546069 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
15546022 TTCCATTACT
15546032 ATTATTATTA-C
1 ATTATTATTATC
*
15546043 ATTATTTACTATC
1 ATTA-TTATTATC
15546056 ATTATTATTATC
1 ATTATTATTATC
15546068 AT
1 AT
15546070 ATTTTCTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 4 0.17
12 14 0.61
13 5 0.22
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:15546282 original size:9 final size:8
Alignment explanation
Indices: 15546270--15546302 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
15546260 TTTTTTAACT
15546270 TTTATATA
1 TTTATATA
15546278 CTTTATAT-
1 -TTTATATA
15546286 TTTATATA
1 TTTATATA
15546294 TTTATATA
1 TTTATATA
15546302 T
1 T
15546303 ACTTATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.30
8 9 0.39
9 7 0.30
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTATATA
Found at i:15548474 original size:5 final size:5
Alignment explanation
Indices: 15548464--15548496 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
15548454 GGGAAAACCG
15548464 ACCCA ACCCA ACCCA ACCCA ACCCA A-CCA ACCC
1 ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA ACCC
15548497 TTTTATTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.39, C:0.61, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCCA
Found at i:15548484 original size:15 final size:14
Alignment explanation
Indices: 15548459--15548496 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
15548449 ATCATGGGAA
*
15548459 AACCGACCCAACCC
1 AACCAACCCAACCC
15548473 AACCCAACCCAACCC
1 AA-CCAACCCAACCC
15548488 AACCAACCC
1 AACCAACCC
15548497 TTTTATTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.39, C:0.58, G:0.03, T:0.00
Consensus pattern (14 bp):
AACCAACCCAACCC
Found at i:15571870 original size:21 final size:21
Alignment explanation
Indices: 15571823--15571870 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
15571813 AAGGCTCAGA
15571823 AGAAAGAAGAAAAGAAAAAAG
1 AGAAAGAAGAAAAGAAAAAAG
** *
15571844 CTAAAGAAGAAAA-AAGAAGAG
1 AGAAAGAAGAAAAGAA-AAAAG
15571865 AGAAAG
1 AGAAAG
15571871 CTTGAGGCAA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.71, C:0.02, G:0.25, T:0.02
Consensus pattern (21 bp):
AGAAAGAAGAAAAGAAAAAAG
Found at i:15578082 original size:18 final size:18
Alignment explanation
Indices: 15578059--15578103 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
15578049 TAACTTTAAT
*
15578059 ATTGAACACCACTAATAA
1 ATTGAACACCAATAATAA
15578077 ATTGAAACACACCAATAATAA
1 ATTG--A-ACACCAATAATAA
15578098 ATTGAA
1 ATTGAA
15578104 ACTATCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.22
19 1 0.04
20 1 0.04
21 16 0.70
ACGTcount: A:0.53, C:0.18, G:0.07, T:0.22
Consensus pattern (18 bp):
ATTGAACACCAATAATAA
Found at i:15578090 original size:21 final size:21
Alignment explanation
Indices: 15578064--15578105 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
15578054 TTAATATTGA
*
15578064 ACACCACTAATAAATTGAAAC
1 ACACCAATAATAAATTGAAAC
15578085 ACACCAATAATAAATTGAAAC
1 ACACCAATAATAAATTGAAAC
15578106 TATCTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.21, G:0.05, T:0.19
Consensus pattern (21 bp):
ACACCAATAATAAATTGAAAC
Found at i:15578727 original size:48 final size:49
Alignment explanation
Indices: 15578657--15578753 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 49
15578647 AAATGGTGAA
* * * *
15578657 AATGGATAAATGAGAAACATTTGGAAATGATTAAGGTTTTCTCTAAAAT
1 AATGGAGAAATGAGAAACATTTGGAAATGAATAAGATTTTCTCCAAAAT
*
15578706 AATGGAGAAAT-A-AAATCATTTGGAAATGAATATGATTTTCTCCAAAAT
1 AATGGAGAAATGAGAAA-CATTTGGAAATGAATAAGATTTTCTCCAAAAT
15578754 GAAAATGACT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
47 3 0.07
48 29 0.69
49 10 0.24
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.32
Consensus pattern (49 bp):
AATGGAGAAATGAGAAACATTTGGAAATGAATAAGATTTTCTCCAAAAT
Found at i:15580952 original size:30 final size:30
Alignment explanation
Indices: 15580916--15580975 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
15580906 CCTCTTATTT
15580916 CCCTTAATTGACATATTAAGAACATAAAAC
1 CCCTTAATTGACATATTAAGAACATAAAAC
15580946 CCCTTAATTGACATATTAAGAACATAAAAC
1 CCCTTAATTGACATATTAAGAACATAAAAC
15580976 TTTATATAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (30 bp):
CCCTTAATTGACATATTAAGAACATAAAAC
Found at i:15589958 original size:11 final size:12
Alignment explanation
Indices: 15589942--15589974 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
15589932 GGACCCAAGC
15589942 TGAATTAATTT-
1 TGAATTAATTTG
*
15589953 TGAATTCATTTG
1 TGAATTAATTTG
15589965 TGAATTAATT
1 TGAATTAATT
15589975 CACTTGTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (12 bp):
TGAATTAATTTG
Found at i:15592463 original size:25 final size:26
Alignment explanation
Indices: 15592427--15592530 Score: 110
Period size: 25 Copynumber: 4.2 Consensus size: 26
15592417 ATTCAAGAAT
15592427 GCTCATGTGAG-CATATAATCGGGAA
1 GCTCATGTGAGCCATATAATCGGGAA
* * *
15592452 GCTC-TTTCGAGCCTTATAAT-GAGAA
1 GCTCATGT-GAGCCATATAATCGGGAA
15592477 GCTCATGTGAGCCAT-TAATCGGGAA
1 GCTCATGTGAGCCATATAATCGGGAA
* * *
15592502 GCTCAAGAGAGCCATAT-ATCGGGTA
1 GCTCATGTGAGCCATATAATCGGGAA
15592527 GCTC
1 GCTC
15592531 CAAAAAGCCA
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
24 6 0.09
25 49 0.75
26 10 0.15
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (26 bp):
GCTCATGTGAGCCATATAATCGGGAA
Found at i:15592514 original size:50 final size:51
Alignment explanation
Indices: 15592422--15592519 Score: 128
Period size: 50 Copynumber: 1.9 Consensus size: 51
15592412 TTCATATTCA
**** *
15592422 AGAATGCTCATGTGAGCATATAATCGGGAAGCTCTTTCGAGCCTTATAATG
1 AGAATGCTCATGTGAGCATATAATCGGGAAGCTCAAGAGAGCCATATAATG
15592473 AGAA-GCTCATGTGAGCCAT-TAATCGGGAAGCTCAAGAGAGCCATATA
1 AGAATGCTCATGTGAG-CATATAATCGGGAAGCTCAAGAGAGCCATATA
15592520 TCGGGTAGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 34 0.83
51 7 0.17
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (51 bp):
AGAATGCTCATGTGAGCATATAATCGGGAAGCTCAAGAGAGCCATATAATG
Found at i:15592539 original size:25 final size:25
Alignment explanation
Indices: 15592486--15592645 Score: 80
Period size: 25 Copynumber: 6.4 Consensus size: 25
15592476 AGCTCATGTG
*
15592486 AGCCATTAATCGGGAAGCTCAAGAG
1 AGCCATTAATCGGGAAGCTCAAGAA
*
15592511 AGCCA-TATATCGGGTAGCTCCAA-AA
1 AGCCATTA-ATCGGGAAGCT-CAAGAA
*** *
15592536 AGCCATTAATCATAAAGCTCATGAAA
1 AGCCATTAATCGGGAAGCTCAAG-AA
* * *
15592562 GAGCCTTTAATTGGGAAGCTC-CGAA
1 -AGCCATTAATCGGGAAGCTCAAGAA
* * *
15592587 GAGCCAATT-ATCTGGAAGCT-AATATG
1 -AGCC-ATTAATCGGGAAGCTCAAGA-A
* * *
15592613 AGCCATAAAT-GGGAAGCTTAAGAG
1 AGCCATTAATCGGGAAGCTCAAGAA
15592637 AGCCATTAA
1 AGCCATTAA
15592646 ATAGAATTCT
Statistics
Matches: 101, Mismatches: 23, Indels: 23
0.69 0.16 0.16
Matches are distributed among these distances:
24 22 0.22
25 54 0.53
26 10 0.10
27 15 0.15
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (25 bp):
AGCCATTAATCGGGAAGCTCAAGAA
Found at i:15597568 original size:17 final size:17
Alignment explanation
Indices: 15597546--15597579 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15597536 CACCGGTAAG
15597546 ATTTTCGGGGACGAAAA
1 ATTTTCGGGGACGAAAA
15597563 ATTTTCGGGGACGAAAA
1 ATTTTCGGGGACGAAAA
15597580 TCCCTAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (17 bp):
ATTTTCGGGGACGAAAA
Found at i:15599459 original size:41 final size:41
Alignment explanation
Indices: 15599400--15599570 Score: 306
Period size: 41 Copynumber: 4.1 Consensus size: 41
15599390 TATCTTATGC
15599400 GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
*
15599441 GATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
*
15599482 GATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
*
15599523 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
15599564 GAATCTG
1 G-ATCTG
15599571 TTAAATTAAG
Statistics
Matches: 126, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
41 121 0.96
42 5 0.04
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (41 bp):
GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
Found at i:15606070 original size:25 final size:25
Alignment explanation
Indices: 15606042--15606110 Score: 99
Period size: 24 Copynumber: 2.8 Consensus size: 25
15606032 ATGCTCATGT
15606042 AAGCATATAATCGGGAAGCTCTTCC
1 AAGCATATAATCGGGAAGCTCTTCC
*
15606067 AAGCATATAA-CGGGAAGCTCTTGC
1 AAGCATATAATCGGGAAGCTCTTCC
15606091 AAGCCA-AT-ATCGGGAAGCTC
1 AAG-CATATAATCGGGAAGCTC
15606111 CGGAGAGCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
23 1 0.02
24 28 0.68
25 12 0.29
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (25 bp):
AAGCATATAATCGGGAAGCTCTTCC
Found at i:15606160 original size:50 final size:49
Alignment explanation
Indices: 15606092--15606186 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 49
15606082 AGCTCTTGCA
** * *
15606092 AGCCAATATCGGGAAGCTCCGGAGAGCCATTAATTAGGAAGCTCAAGCG
1 AGCCAATATCGGGAAGCTCCAAAGAGCCATTAATCAAGAAGCTCAAGCG
* *
15606141 AGCCATATATCGGGTAGCTCTAAAGAGCCATTAATCAAGAAGCTCA
1 AGCCA-ATATCGGGAAGCTCCAAAGAGCCATTAATCAAGAAGCTCA
15606187 TGAAAGAGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 5 0.13
50 34 0.87
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (49 bp):
AGCCAATATCGGGAAGCTCCAAAGAGCCATTAATCAAGAAGCTCAAGCG
Found at i:15607941 original size:57 final size:60
Alignment explanation
Indices: 15607819--15607949 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 60
15607809 TCCAAAAATA
* * *
15607819 ATATTATTTTAAT-ACTTTAATATTTAATTTAATTTAATGTTTATCTTATAGATAAACTTT
1 ATATTATTTTAATAAATTTAATATTAAATTTAA-TTAATATTTATCTTATAGATAAACTTT
*
15607879 CTATTATTTTAATAAGATTTAATATTAAATTTAA-TAATATTTATC-T-T-GATAAA-TATT
1 ATATTATTTTAATAA-ATTTAATATTAAATTTAATTAATATTTATCTTATAGATAAACT-TT
*
15607936 ATATTAATTTAATA
1 ATATTATTTTAATA
15607950 TTAAAGTGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
56 1 0.02
57 20 0.32
58 1 0.02
59 1 0.02
60 22 0.35
61 1 0.02
62 16 0.26
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (60 bp):
ATATTATTTTAATAAATTTAATATTAAATTTAATTAATATTTATCTTATAGATAAACTTT
Found at i:15612676 original size:118 final size:118
Alignment explanation
Indices: 15612533--15612766 Score: 414
Period size: 118 Copynumber: 2.0 Consensus size: 118
15612523 TCCAATCATG
* *
15612533 TTACTTATTGTGGACTGACTCCATAATTAAGTAAATCGTGAATTATCGGAACGATGCTTCTGGAC
1 TTACTTATTGTGGACTGACTCCATAATTAAGTAAATCGTGAATTATCGAAACAATGCTTCTGGAC
*
15612598 ATAATTACAATTACTCGAGCCTAATTGTATAAGTTCGATTGGTCTCTTCGCAA
66 ATAATTACAATTACTCGAGCCTAATTGTATAAGTGCGATTGGTCTCTTCGCAA
*
15612651 TTACTTATTGTGGACTGACTCCATAATTAAGTAAATTGTGAATTATCGAAACAATGCTTCTGGAC
1 TTACTTATTGTGGACTGACTCCATAATTAAGTAAATCGTGAATTATCGAAACAATGCTTCTGGAC
* *
15612716 ATAATTGCAATTACTCGAGCCTAATTGTATATGTGCGATTGGTCTCTTCGC
66 ATAATTACAATTACTCGAGCCTAATTGTATAAGTGCGATTGGTCTCTTCGC
15612767 TAGCTCAACA
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 110 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (118 bp):
TTACTTATTGTGGACTGACTCCATAATTAAGTAAATCGTGAATTATCGAAACAATGCTTCTGGAC
ATAATTACAATTACTCGAGCCTAATTGTATAAGTGCGATTGGTCTCTTCGCAA
Found at i:15616069 original size:11 final size:11
Alignment explanation
Indices: 15616053--15616086 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
15616043 ACATCCAAAT
15616053 CTTGACTCAGA
1 CTTGACTCAGA
*
15616064 CTTGACTTAGA
1 CTTGACTCAGA
15616075 CTTGACTC-GA
1 CTTGACTCAGA
15616085 CT
1 CT
15616087 CTGGCATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (11 bp):
CTTGACTCAGA
Found at i:15620178 original size:19 final size:20
Alignment explanation
Indices: 15620154--15620192 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
15620144 TAAAAGTTAT
15620154 TTTTTA-GAGTTTACAAGTA
1 TTTTTAGGAGTTTACAAGTA
15620173 TTTTTAGGAGTTTACAAGTA
1 TTTTTAGGAGTTTACAAGTA
15620193 AAATTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.31, C:0.05, G:0.18, T:0.46
Consensus pattern (20 bp):
TTTTTAGGAGTTTACAAGTA
Found at i:15630875 original size:25 final size:25
Alignment explanation
Indices: 15630823--15630876 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
15630813 AAGTCTTTTT
* *
15630823 AACTCTTTAGCTTTATTTTTTGGGA
1 AACTCTTTAGCTTTATTGTTTGAGA
*
15630848 AACTCTTTTA-CTTTATTGTTTGATA
1 AACTC-TTTAGCTTTATTGTTTGAGA
15630873 AACT
1 AACT
15630877 ATCCAGTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.52
Consensus pattern (25 bp):
AACTCTTTAGCTTTATTGTTTGAGA
Found at i:15633551 original size:21 final size:21
Alignment explanation
Indices: 15633526--15633568 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
15633516 ACTATAGGAA
15633526 AATAGGAAAACGAAACAGAGT
1 AATAGGAAAACGAAACAGAGT
15633547 AATAGGAAAACGAAACAGAGT
1 AATAGGAAAACGAAACAGAGT
15633568 A
1 A
15633569 TGCTTCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.09, G:0.23, T:0.09
Consensus pattern (21 bp):
AATAGGAAAACGAAACAGAGT
Found at i:15637992 original size:292 final size:292
Alignment explanation
Indices: 15637394--15638490 Score: 1566
Period size: 292 Copynumber: 3.8 Consensus size: 292
15637384 GTCCGCCAAT
15637394 TTTCAAAACCATGATGTGGGCAAGAACTTAACAAATCTTTGAAACATTACTACTATAAGGAAGAT
1 TTTCAAAACCATGATGTGGGCAAGAACTTAACAAATCTTTGAAACATTACTACTATAAGGAAGAT
15637459 TGGATAATCTGATACATCCCAATATCAAAATTCATGGAAAA-GCCCTAGATTGAAGTGGAAGGGG
66 TGGATAATCTGATACATCCCAATATCAAAATTCAT-GAAAAGGCCCTAGATTGAAGTGGAAGGGG
* * *
15637523 AAAAAGGCTATGAAAACAAGGCAAATTATGCAACAACACTCTAATGCTATTTGAAAGAAGAGA-G
130 AAAAA-GTTATGACAACAAGGCAAATTATGCAACAACACTCTAATGCTATTCGAAAGAAGA-ATG
* * *
15637587 GAAAACCTTCTAAACAAGTGTAGATAGGGACACAAGTAAGCCAAACAAATTCTATTATAATAGAT
193 GAAAACCTTCTAAACAAGTGCAGATAGGGACACAAGAAAGCCAAACAGATTCTATTATAATAGAT
* * *
15637652 TATTGAAGTGCAAATTGATGCTAGATTACGTTTAA
258 GATTGAAGTGAAAATTGATGCTAGATTACTTTTAA
*
15637687 TTTCAAAACCATGATGTGGGCAAGAACTTAACAAATCTTTGAAACATTATTACTATAAGGAAGAT
1 TTTCAAAACCATGATGTGGGCAAGAACTTAACAAATCTTTGAAACATTACTACTATAAGGAAGAT
* * *
15637752 TGAATAATCTGATACATCCCAATATCAACATTCATGAAAAGGCCCTAGATTGAAGTGGGAGGGGA
66 TGGATAATCTGATACATCCCAATATCAAAATTCATGAAAAGGCCCTAGATTGAAGTGGAAGGGGA
* ** * * *
15637817 AAAA-TCTATGACAACAAGGCAAATTATGCAACAAAACTCTAATATTGTTTGATAGAAGAATGGA
131 AAAAGT-TATGACAACAAGGCAAATTATGCAACAACACTCTAATGCTATTCGAAAGAAGAATGGA
* * * * *
15637881 AAACCTTTTAAACAAGTGTAGATAGGGATACAAGCAAGCCAAATAGATTCTATTATAATAGATGA
195 AAACCTTCTAAACAAGTGCAGATAGGGACACAAGAAAGCCAAACAGATTCTATTATAATAGATGA
*
15637946 TTGAAGTGAAAATTGATGCTA-ACTAACTTTTAA
260 TTGAAGTGAAAATTGATGCTAGA-TTACTTTTAA
* *
15637979 TTTCAAAACCATGATGTGGGCAAGAACTTAATAAATCTTTGAAACATTACTACTATAAGAAAGAT
1 TTTCAAAACCATGATGTGGGCAAGAACTTAACAAATCTTTGAAACATTACTACTATAAGGAAGAT
*
15638044 TGGATAATCTGATACATCCCAATATCAAAATTCATGGAAAGGCCCTAGATTGAAGTGGAAGGGGA
66 TGGATAATCTGATACATCCCAATATCAAAATTCATGAAAAGGCCCTAGATTGAAGTGGAAGGGGA
* * * * * *
15638109 AAAAGGTTGTGGCGACAAGACAAATTATG-AACAACACTCTGATGCTATTCG-AA-AAGAAAGGG
131 AAAA-GTTATGACAACAAGGCAAATTATGCAACAACACTCTAATGCTATTCGAAAGAAG-AATGG
* * * *
15638171 AAAAACCTTCTAAACAAGTGCATATAGAGACATAAGAAAGCCAAACAGATTCTATTATAATATAT
194 -AAAACCTTCTAAACAAGTGCAGATAGGGACACAAGAAAGCCAAACAGATTCTATTATAATAGAT
15638236 GATTGAAGT-ACAAATTGATGCTAGATTACTTTTAA
258 GATTGAAGTGA-AAATTGATGCTAGATTACTTTTAA
* *
15638271 TTTCAAAACCATGATGTGGGCAAGAACTTAACAAATCTGTGAAACATTACTACTGTAAGGAAGAT
1 TTTCAAAACCATGATGTGGGCAAGAACTTAACAAATCTTTGAAACATTACTACTATAAGGAAGAT
* * *
15638336 TGGATAATCTGATACATCCCAATATCAATATTCAT-AGAAAGGCCTTAAATTGAAGTGGAAGGGG
66 TGGATAATCTGATACATCCCAATATCAAAATTCATGA-AAAGGCCCTAGATTGAAGTGGAAGGGG
* * * * *
15638400 AAAAAGGTTGTGACAACAAGGCAAATTATGCAACAACACTGTAATGTTGTTCGAAAAAAG-ATAG
130 AAAAA-GTTATGACAACAAGGCAAATTATGCAACAACACTCTAATGCTATTCGAAAGAAGAAT-G
**
15638464 GAAAAAATTCTAAACAAGTGCAGATAG
193 GAAAACCTTCTAAACAAGTGCAGATAG
15638491 TGTAACAGCC
Statistics
Matches: 721, Mismatches: 68, Indels: 30
0.88 0.08 0.04
Matches are distributed among these distances:
290 3 0.00
291 8 0.01
292 517 0.72
293 185 0.26
294 5 0.01
295 3 0.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (292 bp):
TTTCAAAACCATGATGTGGGCAAGAACTTAACAAATCTTTGAAACATTACTACTATAAGGAAGAT
TGGATAATCTGATACATCCCAATATCAAAATTCATGAAAAGGCCCTAGATTGAAGTGGAAGGGGA
AAAAGTTATGACAACAAGGCAAATTATGCAACAACACTCTAATGCTATTCGAAAGAAGAATGGAA
AACCTTCTAAACAAGTGCAGATAGGGACACAAGAAAGCCAAACAGATTCTATTATAATAGATGAT
TGAAGTGAAAATTGATGCTAGATTACTTTTAA
Found at i:15641993 original size:43 final size:42
Alignment explanation
Indices: 15641939--15642024 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 42
15641929 GTACCGAAAG
* *
15641939 AGTGTGTCACCTGGGAATTCTTTCAGAAGGAGTTCCGCAAGA
1 AGTGTGCCACCTGGGAATTCTTTCAGAAGAAGTTCCGCAAGA
15641981 ANGTGTGCCACCTGGGAATTCTTTCAGAAGAAGTTCCGCAAGA
1 A-GTGTGCCACCTGGGAATTCTTTCAGAAGAAGTTCCGCAAGA
15642024 A
1 A
15642025 ATATATTAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 1 0.02
43 40 0.98
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (42 bp):
AGTGTGCCACCTGGGAATTCTTTCAGAAGAAGTTCCGCAAGA
Found at i:15647137 original size:41 final size:41
Alignment explanation
Indices: 15647092--15647231 Score: 217
Period size: 41 Copynumber: 3.4 Consensus size: 41
15647082 GGTTTTAAAA
*
15647092 CCTAGCAGGCTAAGTGCTGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCTGGTGATCTGAATTAGGCTATAAG
* *
15647133 CCTAGCAGGCTAAGTGCTGGTGAACTGGATTAGGCTATAAG
1 CCTAGCAGGCTAAGTGCTGGTGATCTGAATTAGGCTATAAG
* *
15647174 CCTAGCAGGCTAAATGCTGGTGATCTGAATTAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCTGGTGATCTGAATTAGGCTATAAG
* *
15647215 CCTAACAAGCTAAGTGC
1 CCTAGCAGGCTAAGTGC
15647232 CAGTGAATCT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 89 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCTGGTGATCTGAATTAGGCTATAAG
Found at i:15651747 original size:27 final size:26
Alignment explanation
Indices: 15651717--15651776 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
15651707 AGTACGTAAT
15651717 CAGGAAGCCTTC-TCTCAAGCCATATAA
1 CAGGAAGCC-TCATCT-AAGCCATATAA
* *
15651744 CAGGAAG-CTCATGTGAGCCATATAA
1 CAGGAAGCCTCATCTAAGCCATATAA
15651769 CAGGAAGC
1 CAGGAAGC
15651777 TAATCTGGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 19 0.66
26 3 0.10
27 7 0.24
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (26 bp):
CAGGAAGCCTCATCTAAGCCATATAA
Found at i:15651766 original size:25 final size:25
Alignment explanation
Indices: 15651734--15651823 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
15651724 CCTTCTCTCA
*
15651734 AGCCATATAACAGGAAGCTCATGTG
1 AGCCATATAACAGGAAGCTCATATG
* *
15651759 AGCCATATAACAGGAAGCTAATCTG
1 AGCCATATAACAGGAAGCTCATATG
* ** * *
15651784 GGCTGTATAACAGAAAGCTCATAAG
1 AGCCATATAACAGGAAGCTCATATG
*
15651809 AGCCAT-TATCAGGAA
1 AGCCATATAACAGGAA
15651824 AATTATGTGA
Statistics
Matches: 51, Mismatches: 14, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
24 7 0.14
25 44 0.86
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATATG
Found at i:15651986 original size:26 final size:26
Alignment explanation
Indices: 15651897--15651987 Score: 84
Period size: 26 Copynumber: 3.6 Consensus size: 26
15651887 AAGTTCAAGC
* *
15651897 GAGCCA-T-ATCGGGAAGCT-TCGGA
1 GAGCCATTAATCGGGAAGCTCACGAA
** *
15651920 GAGCCATTAATCATGAAGCTCACAAA
1 GAGCCATTAATCGGGAAGCTCACGAA
15651946 GAGCC-TTGAATCGGGAAGCTCACGAA
1 GAGCCATT-AATCGGGAAGCTCACGAA
15651972 GAGCCATATAA-CGGGA
1 GAGCCAT-TAATCGGGA
15651988 CGTTCATAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
23 6 0.11
24 1 0.02
25 11 0.20
26 32 0.59
27 3 0.06
28 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.16
Consensus pattern (26 bp):
GAGCCATTAATCGGGAAGCTCACGAA
Found at i:15655007 original size:43 final size:45
Alignment explanation
Indices: 15654957--15655064 Score: 166
Period size: 43 Copynumber: 2.4 Consensus size: 45
15654947 CTTCCGAGGT
15654957 ATGATTTCATGTAAGACCATGTCTGAGACATTGGCATCG-ATATG
1 ATGATTTCATGTAAGACCATGTCTGAGACATTGGCATCGTATATG
*
15655001 A-GATTTCGTGTAAGACCATGTCTGAGACATTGGCATCGTATATG
1 ATGATTTCATGTAAGACCATGTCTGAGACATTGGCATCGTATATG
* **
15655045 ATTATAACATGTAAGACCAT
1 ATGATTTCATGTAAGACCAT
15655065 ATCTAGGATA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
43 36 0.63
44 7 0.12
45 14 0.25
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (45 bp):
ATGATTTCATGTAAGACCATGTCTGAGACATTGGCATCGTATATG
Found at i:15661111 original size:29 final size:30
Alignment explanation
Indices: 15661078--15661143 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
15661068 GATAAAAATG
15661078 TCATGTATAAAATCGCACA-AGATCAAAGT
1 TCATGTATAAAATCGCACATAGATCAAAGT
*** *
15661107 TCATGTATGGCATTGCACATTAGATCAAAGT
1 TCATGTATAAAATCGCACA-TAGATCAAAGT
15661138 TCATGT
1 TCATGT
15661144 CTAATTTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 15 0.48
31 16 0.52
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (30 bp):
TCATGTATAAAATCGCACATAGATCAAAGT
Found at i:15678796 original size:77 final size:76
Alignment explanation
Indices: 15678661--15678819 Score: 228
Period size: 77 Copynumber: 2.1 Consensus size: 76
15678651 TTACACACTT
* * * *
15678661 GTGTATTAGGCCGTGTAACTCACTAAATTGCACCTTAAATAATTCATCAAATGGCACACAACCGT
1 GTGTGTTAGGCCGTGTAACTCACTAAATTGCACCTAAAATAATTCATCAAATGACACACAACCAT
* *
15678726 GTTGTCAGGCC
66 GTCGCCAGGCC
* * *
15678737 GTGTGTTAGGCCGTGTAACTCACTGACTTGTACCCTAAAATAATTCATCAAATGACACACAACCA
1 GTGTGTTAGGCCGTGTAACTCACTAAATTGCA-CCTAAAATAATTCATCAAATGACACACAACCA
15678802 TGTCGCCAGGCC
65 TGTCGCCAGGCC
15678814 GTGTGT
1 GTGTGT
15678820 CTCACACAAC
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
76 28 0.38
77 45 0.62
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (76 bp):
GTGTGTTAGGCCGTGTAACTCACTAAATTGCACCTAAAATAATTCATCAAATGACACACAACCAT
GTCGCCAGGCC
Found at i:15682840 original size:17 final size:17
Alignment explanation
Indices: 15682802--15682854 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
15682792 TTGAAGAGAT
*
15682802 AAAAGTAAATAAATACCA
1 AAAAGTAAATAAATA-AA
15682820 AAAAG-AAATAAATAAA
1 AAAAGTAAATAAATAAA
*
15682836 GAAAAGTAAACAAATAAA
1 -AAAAGTAAATAAATAAA
15682854 A
1 A
15682855 TAAATCAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 1 0.03
17 15 0.48
18 15 0.48
ACGTcount: A:0.74, C:0.06, G:0.08, T:0.13
Consensus pattern (17 bp):
AAAAGTAAATAAATAAA
Found at i:15682840 original size:18 final size:18
Alignment explanation
Indices: 15682802--15682853 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
15682792 TTGAAGAGAT
* *
15682802 AAAAGTAAATAAATACCA-
1 AAAAGTAAACAAATA-AAG
*
15682820 AAAAG-AAATAAATAAAG
1 AAAAGTAAACAAATAAAG
15682837 AAAAGTAAACAAATAAA
1 AAAAGTAAACAAATAAA
15682854 ATAAATCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 1 0.03
17 14 0.47
18 15 0.50
ACGTcount: A:0.73, C:0.06, G:0.08, T:0.13
Consensus pattern (18 bp):
AAAAGTAAACAAATAAAG
Found at i:15693012 original size:81 final size:81
Alignment explanation
Indices: 15692877--15693041 Score: 276
Period size: 81 Copynumber: 2.0 Consensus size: 81
15692867 AATCCTCCGT
* *
15692877 TAATCACATTCTCATCCACTTGTTAATCTCCCCCAAGGGATTTAGTCACTCATGTTATTCATAAT
1 TAATCACATTCCCATCCACTTGTTAATCTCCCCCAAGGGACTTAGTCACTCATGTTATTCATAAT
* *
15692942 CTTTATCATGATTGAA
66 CTTTATCACGACTGAA
* *
15692958 TAATCACATTCCCATCCACTTGTTAATCTCCCGCAAGGGACTTGGTCACTCATGTTATTCATAAT
1 TAATCACATTCCCATCCACTTGTTAATCTCCCCCAAGGGACTTAGTCACTCATGTTATTCATAAT
15693023 CTTTATCACGACTGAA
66 CTTTATCACGACTGAA
15693039 TAA
1 TAA
15693042 ATCATGTGAA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (81 bp):
TAATCACATTCCCATCCACTTGTTAATCTCCCCCAAGGGACTTAGTCACTCATGTTATTCATAAT
CTTTATCACGACTGAA
Found at i:15696008 original size:12 final size:12
Alignment explanation
Indices: 15695980--15696018 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
15695970 AAAATAATAC
15695980 TAATTTAATAGTT
1 TAATTTAATA-TT
15695993 TAATATTAA-ATT
1 TAAT-TTAATATT
15696005 TAATTTAATATT
1 TAATTTAATATT
15696017 TA
1 TA
15696019 TCTTAATAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.17
12 11 0.46
13 5 0.21
14 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (12 bp):
TAATTTAATATT
Found at i:15696013 original size:17 final size:17
Alignment explanation
Indices: 15695991--15696081 Score: 57
Period size: 17 Copynumber: 5.4 Consensus size: 17
15695981 AATTTAATAG
15695991 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
*
15696008 TTTAATATT-TATCTTAA
1 TTTAATATTAAAT-TTAA
* **
15696025 --TAGTATTTTA-TTAA
1 TTTAATATTAAATTTAA
15696039 TTTAATATTAAAGTGATT-A
1 TTTAATATTAAA-T--TTAA
*
15696058 TCTTAATAATAAATTTAA
1 T-TTAATATTAAATTTAA
15696076 TTTAAT
1 TTTAAT
15696082 GTTTATATTG
Statistics
Matches: 58, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 4 0.07
15 6 0.10
16 11 0.19
17 20 0.34
18 2 0.03
19 3 0.05
20 12 0.21
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:15696049 original size:11 final size:11
Alignment explanation
Indices: 15695974--15696049 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
15695964 ATTATAAAAA
*
15695974 TAATACTAATT
1 TAATATTAATT
15695985 TAATAGTTTAATAT
1 TAATA--TTAAT-T
15695999 TAA-ATTTAATT
1 TAATA-TTAATT
*
15696010 TAATATTTATCT
1 TAATATTAAT-T
*
15696022 TAATAGT-ATT
1 TAATATTAATT
15696032 T--TATTAATT
1 TAATATTAATT
15696041 TAATATTAA
1 TAATATTAA
15696050 AGTGATTATC
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 14 0.26
13 5 0.09
14 4 0.08
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (11 bp):
TAATATTAATT
Found at i:15698008 original size:578 final size:578
Alignment explanation
Indices: 15696887--15698460 Score: 2695
Period size: 578 Copynumber: 2.7 Consensus size: 578
15696877 ACATTAAGAG
15696887 CATAAAACACAGATTTAAGAATGATTCCAGGTGATATTTGAATTGATCTGGTCTCATCACTTTAG
1 CATAAAACACAGATTTAAGAATGATTCCAGGTGATATTTGAATTGATCTGGTCTCATCACTTTAG
*
15696952 ATAAAGTGCATTAGC-A-CTTAACCTTGAGATTAGAGTGACACAGTTGATAGTCAACGAAAAGTG
66 ATAAAGTGCATTAGCAATCTTAACCTTGAGATTAAAGTGACACAGTTGATAGTCAACGAAAAGTG
* * *
15697015 TCCCATCTCCTGTCATATGATCCAATGTTCATGAGTTAACGATCAACTGTTTTTATTGTAATTTA
131 TCACATCTCCTGTCATATGATCCAATGTTCATGAGTCAACGATCAACTATTTTTATTGTAATTTA
* * *
15697080 CCTAACTTAACATGTAAACTTATGGCTAGTGTAGCAGTAGAATGTTGTGTTATAGTGTTGTTCAG
196 CCTAACTTAACATGTAAACTTATGGCTGGTGTAGCGGTAGAGTGTTGTGTTATAGTGTTGTTCAG
*
15697145 CAACAATTTTAGCATATCTAGTTGTTACTTGGTGAAGGGGTTGGATTCAGTTGTGCACTATCGTT
261 CAACAATTTTAGCATATCTAGTTGTTCCTTGGTGAAGGGGTTGGATTCAGTTGTGCACTATCGTT
* *
15697210 CCCCCGTTACATTAGTTGAGTTTGCATTGCTATCTTGGGTTGATCTGTTTGACTTCCAATCCACC
326 CCCCCGTGACATTGGTTGAGTTTGCATTGCTATCTTGGGTTGATCTGTTTGACTTCCAATCCACC
*
15697275 AATTTTTTGTGTAGCCTCCAACATGTCTCCAATTTTTTGGGTATAATCCATGACACATCTCAACA
391 AATTTTTTGTGTAGCTTCCAACATGTCTCCAATTTTTTGGGTATAATCCATGACACATCTCAACA
* *
15697340 CTACCAATCTTCCTCTTCGAACCCAATTCCTGAAAAACACACACATTTGGTAAGAATGTTGTTAA
456 CTACCAATCTTCCTCTTCGAACCCAATTCCAGAAAAACACACACATTTGGAAAGAATGTTGTTAA
15697405 AAATGGCTATCACGAGTTAATTTACAGATGGAAATCATATTACAATCAAAATTAGGAA
521 AAATGGCTATCACGAGTTAATTTACAGATGGAAATCATATTACAATCAAAATTAGGAA
*
15697463 CATAAAACACAGATTTAAGAATGATTCCAGGTGATATTTGAATTGATCTGGTCTTATCACTTTAG
1 CATAAAACACAGATTTAAGAATGATTCCAGGTGATATTTGAATTGATCTGGTCTCATCACTTTAG
*
15697528 ATAAAGTGCATTAGCAATCTTAACCTTGAGATTAAAGTGACACAGTTGATAGTCAACAAAAAGTG
66 ATAAAGTGCATTAGCAATCTTAACCTTGAGATTAAAGTGACACAGTTGATAGTCAACGAAAAGTG
* *
15697593 TCACATCTCCTGTCATATGATCCAATGTTCGTGAGTCAACGATCAATTATTTTTATTGTAATTTA
131 TCACATCTCCTGTCATATGATCCAATGTTCATGAGTCAACGATCAACTATTTTTATTGTAATTTA
15697658 CCTAACTTAACATGTAAACTTATGGCTGGTGTAGCGGTAGAGTGTTGTGTTATAGTGTTGTTCAG
196 CCTAACTTAACATGTAAACTTATGGCTGGTGTAGCGGTAGAGTGTTGTGTTATAGTGTTGTTCAG
* * *
15697723 AAACAATTTTAGCATATCTAGTTTTTCCTTAGTGAAGGGGTTGGATTCAGTTGTGCACTATCGTT
261 CAACAATTTTAGCATATCTAGTTGTTCCTTGGTGAAGGGGTTGGATTCAGTTGTGCACTATCGTT
* * * *
15697788 CCCCCATGATATTGGTTGAGTTTGCATTGCTATCTTTGGTTGATCTGTTTGACTTCCAATCTACC
326 CCCCCGTGACATTGGTTGAGTTTGCATTGCTATCTTGGGTTGATCTGTTTGACTTCCAATCCACC
*
15697853 AATTTTTTGTGTAGCTTCCAACATGTCTCCAATTTTTT-GGTGTAATCCATGACACATCTCAACA
391 AATTTTTTGTGTAGCTTCCAACATGTCTCCAATTTTTTGGGTATAATCCATGACACATCTCAACA
*
15697917 CTACCAATCTTCCTCTTCGAACCCAATTCCAGAAAAACACACACATTTGGAAAGAATTTTGTTAA
456 CTACCAATCTTCCTCTTCGAACCCAATTCCAGAAAAACACACACATTTGGAAAGAATGTTGTTAA
* * * *
15697982 ACAATGGTTATCATGAGTTGATTTACAGATGGAAATCATATTACAATCAAGATTAGGAA
521 A-AATGGCTATCACGAGTTAATTTACAGATGGAAATCATATTACAATCAAAATTAGGAA
* * *
15698041 CATAAAATACAGATTTAAGAATGATTCCAGGTGATGTTTGAACTGATCTGGTCTCATCACTTTAG
1 CATAAAACACAGATTTAAGAATGATTCCAGGTGATATTTGAATTGATCTGGTCTCATCACTTTAG
* * *
15698106 ATAAAGTGCATTAGTAATCTTAACCTTAAGATTAAAGTGACACAGTTAATAGTCAACGAAAAGTG
66 ATAAAGTGCATTAGCAATCTTAACCTTGAGATTAAAGTGACACAGTTGATAGTCAACGAAAAGTG
* * *
15698171 TCTCATTTCCTGTCATATGATCCAATGTTCATGAGTCAACGGTCAACTATTTTTATTGTAATTTA
131 TCACATCTCCTGTCATATGATCCAATGTTCATGAGTCAACGATCAACTATTTTTATTGTAATTTA
* *
15698236 CTTAACTTAACATGTAAACTTATGGCTGGTGTAGCGGTAAAGTGTTGTGTTATAGTGTTGTTCAG
196 CCTAACTTAACATGTAAACTTATGGCTGGTGTAGCGGTAGAGTGTTGTGTTATAGTGTTGTTCAG
*
15698301 CAACAATTTTAGCATATCTAGTTGTTCCTTGGTGAAGAGGTTGGATTCAGTTGTGCACTATCGTT
261 CAACAATTTTAGCATATCTAGTTGTTCCTTGGTGAAGGGGTTGGATTCAGTTGTGCACTATCGTT
* *** *
15698366 CCCCCGTGACATTGGTTGAGTTTGCATTGTTATCTTGGGTTGATCAACTTGACTTTCAATCCACC
326 CCCCCGTGACATTGGTTGAGTTTGCATTGCTATCTTGGGTTGATCTGTTTGACTTCCAATCCACC
15698431 AATTTTTTGTGTAGCTTCCAACATGTCTCC
391 AATTTTTTGTGTAGCTTCCAACATGTCTCC
15698461 CTTATATGAT
Statistics
Matches: 937, Mismatches: 58, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
576 79 0.08
577 89 0.09
578 769 0.82
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (578 bp):
CATAAAACACAGATTTAAGAATGATTCCAGGTGATATTTGAATTGATCTGGTCTCATCACTTTAG
ATAAAGTGCATTAGCAATCTTAACCTTGAGATTAAAGTGACACAGTTGATAGTCAACGAAAAGTG
TCACATCTCCTGTCATATGATCCAATGTTCATGAGTCAACGATCAACTATTTTTATTGTAATTTA
CCTAACTTAACATGTAAACTTATGGCTGGTGTAGCGGTAGAGTGTTGTGTTATAGTGTTGTTCAG
CAACAATTTTAGCATATCTAGTTGTTCCTTGGTGAAGGGGTTGGATTCAGTTGTGCACTATCGTT
CCCCCGTGACATTGGTTGAGTTTGCATTGCTATCTTGGGTTGATCTGTTTGACTTCCAATCCACC
AATTTTTTGTGTAGCTTCCAACATGTCTCCAATTTTTTGGGTATAATCCATGACACATCTCAACA
CTACCAATCTTCCTCTTCGAACCCAATTCCAGAAAAACACACACATTTGGAAAGAATGTTGTTAA
AAATGGCTATCACGAGTTAATTTACAGATGGAAATCATATTACAATCAAAATTAGGAA
Found at i:15707460 original size:11 final size:11
Alignment explanation
Indices: 15707446--15707472 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15707436 ACTCTCCTTT
15707446 TTTTATTAAAA
1 TTTTATTAAAA
15707457 TTTTATTAAAA
1 TTTTATTAAAA
15707468 TTTTA
1 TTTTA
15707473 AAAAATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATTAAAA
Found at i:15709961 original size:19 final size:20
Alignment explanation
Indices: 15709931--15709969 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
15709921 AAATAGATTG
15709931 CGGTTAAAAAATCAATAAAT
1 CGGTTAAAAAATCAATAAAT
*
15709951 CGGTT-AAAAATTAATAAAT
1 CGGTTAAAAAATCAATAAAT
15709970 TTATTAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.28
Consensus pattern (20 bp):
CGGTTAAAAAATCAATAAAT
Found at i:15711359 original size:43 final size:42
Alignment explanation
Indices: 15711312--15711397 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 42
15711302 AGGGTAAATC
* *
15711312 CAACAACCTAAGATTATCTTCTCATCTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCATATTTTTAAATT-TTTTTT
*
15711355 CAACAACCCAAGATTATCTTCTCCTATTTTTAAATTTTTTTT
1 CAACAACCCAAGATTATCTTCTCATATTTTTAAATTTTTTTT
15711397 C
1 C
15711398 TAGGATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 7 0.17
43 33 0.82
ACGTcount: A:0.28, C:0.22, G:0.02, T:0.48
Consensus pattern (42 bp):
CAACAACCCAAGATTATCTTCTCATATTTTTAAATTTTTTTT
Found at i:15712305 original size:3 final size:3
Alignment explanation
Indices: 15712282--15712328 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
15712272 ATATTTATAG
* *
15712282 TTA TAA TTA TTAA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15712328 T
1 T
15712329 GGAATAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:15713543 original size:21 final size:21
Alignment explanation
Indices: 15713517--15713565 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
15713507 CTTTGCCGAC
15713517 CAGGCACCTCGTGTGTCGTAT
1 CAGGCACCTCGTGTGTCGTAT
* *
15713538 CAGGCACCTTGTGTGTCGTTT
1 CAGGCACCTCGTGTGTCGTAT
*
15713559 TAGGCAC
1 CAGGCAC
15713566 TTATGTATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.31
Consensus pattern (21 bp):
CAGGCACCTCGTGTGTCGTAT
Found at i:15714932 original size:20 final size:20
Alignment explanation
Indices: 15714904--15714951 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
15714894 TTGCATATAC
*
15714904 ATATATATAGAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
15714924 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
15714944 ATATATAT
1 ATATATAT
15714952 GTACATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:15716146 original size:15 final size:16
Alignment explanation
Indices: 15716120--15716152 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
15716110 ATTTGGACCC
15716120 TATTTTTCTATTTATT
1 TATTTTTCTATTTATT
*
15716136 TATTTTT-TATTTGTT
1 TATTTTTCTATTTATT
15716151 TA
1 TA
15716153 CTAAGAGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (16 bp):
TATTTTTCTATTTATT
Found at i:15716502 original size:44 final size:45
Alignment explanation
Indices: 15716355--15716516 Score: 163
Period size: 44 Copynumber: 3.6 Consensus size: 45
15716345 CTTTAATCCA
* * ** ** * *
15716355 CTCCACTGCAACTTCAGGGTGATAGGA-TTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
*
15716399 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
* *
15716444 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTAT-TT-GGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGC-CATCTTCAGTCTG
15716488 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
15716517 AGATGCGATC
Statistics
Matches: 101, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
44 57 0.56
45 42 0.42
46 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
Found at i:15716585 original size:44 final size:41
Alignment explanation
Indices: 15716487--15716595 Score: 130
Period size: 40 Copynumber: 2.6 Consensus size: 41
15716477 TATTTGGTCT
*
15716487 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCC
* * * **
15716528 GCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTGATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGA-CT-A-GATGCGATCC
15716571 GCTCCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
15716596 GGATTATCGG
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
40 22 0.39
41 5 0.09
42 1 0.02
43 9 0.16
44 19 0.34
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (41 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCC
Found at i:15716830 original size:45 final size:44
Alignment explanation
Indices: 15716781--15716918 Score: 106
Period size: 45 Copynumber: 3.1 Consensus size: 44
15716771 AAAATCTGTC
*
15716781 ATCTTCGATCTGTTCCACTATCAATGTAGGAAGGCAAGATCTGCT
1 ATCTTCGACCTGTTCCACTATCAATG-AGGAAGGCAAGATCTGCT
** * * *
15716826 ATCTTTAACCTGCTCCACTA-CAACTGAGGAAGGCAAGGCTTTG-T
1 ATCTTCGACCTGTTCCACTATCAA-TGAGGAAGGCAA-GATCTGCT
* * * *
15716870 -T-TTCGAGCTGCTT-CGCTGTCGATGCAGGAAGGCAAGATCTGCT
1 ATCTTCGACCTG-TTCCACTATCAATG-AGGAAGGCAAGATCTGCT
15716913 ATCTTC
1 ATCTTC
15716919 ACTGATCTGT
Statistics
Matches: 70, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
42 15 0.21
43 15 0.21
44 15 0.21
45 25 0.36
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (44 bp):
ATCTTCGACCTGTTCCACTATCAATGAGGAAGGCAAGATCTGCT
Found at i:15716857 original size:132 final size:132
Alignment explanation
Indices: 15716605--15716850 Score: 296
Period size: 132 Copynumber: 1.8 Consensus size: 132
15716595 AGGATTATCG
* * *
15716605 GCTTTAATGTACTTCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCAATCTGTTCCGCTAC
1 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCAATCTGTTCCACTAC
* * * * * ****
15716670 TACTTAGGGAGATAAGATCTGAAATCTTTAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTAC
66 TAATTAGGAAGACAAGATCTGAAATCTTTAACCTACTCCACTCAACTCCAGGGAAGTAGAATTAC
15716735 TA
131 TA
* *
15716737 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCATCTTCGATCTGTTCCACTA-
1 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCAATCTGTTCCACTAC
* ** *
15716801 TCAATGTAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACT
66 T-AAT-TAGGAAGACAAGATCTGAAATCTTTAACCTACTCCACT-CAACT
15716851 GAGGAAGGCA
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
131 1 0.01
132 61 0.66
133 30 0.32
134 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (132 bp):
GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCAATCTGTTCCACTAC
TAATTAGGAAGACAAGATCTGAAATCTTTAACCTACTCCACTCAACTCCAGGGAAGTAGAATTAC
TA
Found at i:15718144 original size:13 final size:14
Alignment explanation
Indices: 15718123--15718162 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
15718113 TCTCCACTTT
15718123 ACTTTTTCATTTTC
1 ACTTTTTCATTTTC
15718137 AC-TTTTCATTTTTC
1 ACTTTTTCA-TTTTC
15718151 ACTTTTTCATTT
1 ACTTTTTCATTT
15718163 CGTCATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.25
14 12 0.50
15 6 0.25
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.65
Consensus pattern (14 bp):
ACTTTTTCATTTTC
Found at i:15718185 original size:28 final size:28
Alignment explanation
Indices: 15718123--15718178 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
15718113 TCTCCACTTT
15718123 ACTTTTTCATTTTCACTTTTCATTTTTC
1 ACTTTTTCATTTTCACTTTTCATTTTTC
15718151 ACTTTTTCATTTCGTCA-TTTTC-TTTTTC
1 ACTTTTTCATTT--TCACTTTTCATTTTTC
15718179 TTTTTTTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 18 0.69
29 5 0.19
30 3 0.12
ACGTcount: A:0.12, C:0.21, G:0.02, T:0.64
Consensus pattern (28 bp):
ACTTTTTCATTTTCACTTTTCATTTTTC
Found at i:15719392 original size:25 final size:25
Alignment explanation
Indices: 15719338--15719403 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
15719328 AAGAAAATCC
* **
15719338 AAAAGAATGAAAGAATAATTACTTG
1 AAAATAATGAAAGAATAATTACTCA
*
15719363 CAAATAATGAAAGAAT-ATTGACTCA
1 AAAATAATGAAAGAATAATT-ACTCA
15719388 AAAATAAATGCAAAGA
1 AAAAT-AATG-AAAGA
15719404 TGTATTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
24 3 0.09
25 21 0.64
26 4 0.12
27 5 0.15
ACGTcount: A:0.58, C:0.08, G:0.14, T:0.21
Consensus pattern (25 bp):
AAAATAATGAAAGAATAATTACTCA
Found at i:15722103 original size:187 final size:187
Alignment explanation
Indices: 15721788--15722161 Score: 669
Period size: 187 Copynumber: 2.0 Consensus size: 187
15721778 GCATATCCAG
15721788 TAGCTCTCCAAACCCCCAGTAAACGAACCCAATCAAAACTACCACACCTATACATGATCTCATCT
1 TAGCTCTCCAAACCCCCAGTAAACGAACCCAATCAAAACTACCACACCTATACATGATCTCATCT
15721853 GGAAGTAACCAAGGAGCTCTCCACTCAATGTCCTCCTCTCAGAGATTTTGAAGAATTGCTATCCA
66 GGAAGTAACCAAGGAGCTCTCCACTCAATGTCCTCCTCTCAGAGATTTTGAAGAATTGCTATCCA
* * * * *
15721918 CTTCTCCTTCGAAATGTCGTCTCTCCTTGGCGTAGCGACTATCTCCTTTAGTGGTGA
131 CTTCTCCTTCGAAATGTCGTCTCCCCTGGGCGTAACAACTATATCCTTTAGTGGTGA
* *
15721975 TAGCTCTCCAAACCCCTAGTAAAGGAACCCAATCAAAACTACCACACCTATACATGATCTCATCT
1 TAGCTCTCCAAACCCCCAGTAAACGAACCCAATCAAAACTACCACACCTATACATGATCTCATCT
15722040 GGAAGTAACCAAGGAGCTCTCCACTCAATGTCCTCCTCTC-GAAGATTTTGAAGAATTGCTATCC
66 GGAAGTAACCAAGGAGCTCTCCACTCAATGTCCTCCTCTCAG-AGATTTTGAAGAATTGCTATCC
15722104 ACTTCTCCTTCGAAATGTCGTCTCCCCTGGGCGTAACAACTATATCCTTTAGTGGTGA
130 ACTTCTCCTTCGAAATGTCGTCTCCCCTGGGCGTAACAACTATATCCTTTAGTGGTGA
15722162 ATAATTTTCA
Statistics
Matches: 179, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
186 1 0.01
187 178 0.99
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (187 bp):
TAGCTCTCCAAACCCCCAGTAAACGAACCCAATCAAAACTACCACACCTATACATGATCTCATCT
GGAAGTAACCAAGGAGCTCTCCACTCAATGTCCTCCTCTCAGAGATTTTGAAGAATTGCTATCCA
CTTCTCCTTCGAAATGTCGTCTCCCCTGGGCGTAACAACTATATCCTTTAGTGGTGA
Found at i:15724733 original size:16 final size:16
Alignment explanation
Indices: 15724687--15724734 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
15724677 TATGGATAGA
15724687 AAGTATAATATATATAT
1 AAGT-TAATATATATAT
*
15724704 ACG-TACATATATATAT
1 AAGTTA-ATATATATAT
*
15724720 AAGTTAATAAATATA
1 AAGTTAATATATATA
15724735 GACCATAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.08
16 20 0.77
17 4 0.15
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (16 bp):
AAGTTAATATATATAT
Found at i:15724736 original size:50 final size:47
Alignment explanation
Indices: 15724682--15724850 Score: 105
Period size: 50 Copynumber: 3.4 Consensus size: 47
15724672 AAAAATATGG
15724682 ATAGAAAGTATAATATATATATACGTACATATATATATAAGTTAATAAAT
1 ATAGAAA-TATAATATATATAT-CGTA-ATATATATATAAGTTAATAAAT
* * * * * *
15724732 ATAGACCATA-AAGATA-ATGATTGCATATATATATATAGAAATTATAAAATATGT
1 ATAGA-AATATAATATATAT-A-T-CGTA-ATATATATATAAGTTA-ATAA-A--T
*
15724786 ATAGAAAGTATAATATATATAT-GT-ATATATATATAAGGTAATAAAT
1 ATAGAAA-TATAATATATATATCGTAATATATATATAAGTTAATAAAT
*
15724832 ATATAAATCATAA-ATATAT
1 ATAGAAAT-ATAATATATAT
15724851 TAACTACACA
Statistics
Matches: 92, Mismatches: 16, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
45 7 0.08
46 11 0.12
48 3 0.03
49 9 0.10
50 38 0.41
51 4 0.04
52 2 0.02
53 1 0.01
54 9 0.10
55 6 0.07
56 2 0.02
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.36
Consensus pattern (47 bp):
ATAGAAATATAATATATATATCGTAATATATATATAAGTTAATAAAT
Found at i:15724788 original size:20 final size:20
Alignment explanation
Indices: 15724760--15724807 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
15724750 GATTGCATAT
*
15724760 ATATATATAGAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
15724780 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
15724800 ATATATAT
1 ATATATAT
15724808 GTATATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:15724807 original size:24 final size:21
Alignment explanation
Indices: 15724756--15724812 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 21
15724746 TAATGATTGC
*
15724756 ATATATATATATAGAAATTAT
1 ATATATATGTATAGAAATTAT
*
15724777 A-AAATATGTATAGAAAGTATAAT
1 ATATATATGTATAGAAA-T-T-AT
15724800 ATATATATGTATA
1 ATATATATGTATA
15724813 TATATATAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 13 0.45
21 2 0.07
22 1 0.03
23 3 0.10
24 10 0.34
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATATATGTATAGAAATTAT
Found at i:15726137 original size:15 final size:16
Alignment explanation
Indices: 15726111--15726143 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
15726101 ATTTGGACCC
15726111 TATTTTTCTATTTGTT
1 TATTTTTCTATTTGTT
15726127 TATTTTT-TATTTGTT
1 TATTTTTCTATTTGTT
15726142 TA
1 TA
15726144 CTAAGAGCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (16 bp):
TATTTTTCTATTTGTT
Found at i:15729084 original size:18 final size:18
Alignment explanation
Indices: 15729061--15729101 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
15729051 TTTGGTTAAA
*
15729061 AATTAACCGAATTATCCG
1 AATTAACCGAATTACCCG
15729079 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
15729097 AATTA
1 AATTA
15729102 CTTCTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:15729102 original size:9 final size:9
Alignment explanation
Indices: 15729061--15729101 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
15729051 TTTGGTTAAA
15729061 AATTAACCG
1 AATTAACCG
*
15729070 AATTATCCG
1 AATTAACCG
15729079 AATTAACCG
1 AATTAACCG
*
15729088 AATTACCCG
1 AATTAACCG
15729097 AATTA
1 AATTA
15729102 CTTCTCAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:15730232 original size:113 final size:113
Alignment explanation
Indices: 15729989--15730267 Score: 348
Period size: 113 Copynumber: 2.5 Consensus size: 113
15729979 ATAACATAAT
* * * * * * *
15729989 AATGCTTACTTTGAGACACTGAAGCAAC-ACTTTAATTTAATTTAGGACAGCAT-AATAATACTC
1 AATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCAATTTATGACAGCATGAATAATACTC
* * * *
15730052 AATTTGAAAAATTAAATAGCAGCTTAATTTAATTTAAGACCGCATGAA
66 AATTTGAAAAATAAAACAGCAGCTTAATTCAATTTAAGACAGCATGAA
* * *
15730100 AATGCTCAATTTGATACACTAAAACACCAACTTTAATTCAATTTATGACAGCATGAA-AATGCTC
1 AATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCAATTTATGACAGCATGAATAATACTC
* * * *
15730164 AATTTGAAACACTAAAACAGCAGCTTGATTCAATTTAAGACAGTATGCA
66 AATTTGAAA-AATAAAACAGCAGCTTAATTCAATTTAAGACAGCATGAA
* *
15730213 AATGCTCAATTTGAAACACTCAAACAACAGCTTTAATTCAATTTATGACAGCATG
1 AATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCAATTTATGACAGCATG
15730268 CAAACAGAAA
Statistics
Matches: 144, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
111 22 0.15
112 38 0.26
113 84 0.58
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (113 bp):
AATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCAATTTATGACAGCATGAATAATACTC
AATTTGAAAAATAAAACAGCAGCTTAATTCAATTTAAGACAGCATGAA
Found at i:15730271 original size:57 final size:57
Alignment explanation
Indices: 15729989--15730267 Score: 298
Period size: 56 Copynumber: 5.0 Consensus size: 57
15729979 ATAACATAAT
* * * * * * *
15729989 AATGCTTACTTTGAGACACTGAAGCAACA-CTTTAATTTAATTTAGGACAGCAT-AA
1 AATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATTTAAGACAGCATGAA
* * * * * * *
15730044 TAATACTCAATTTGAAA-AATTAAATAGCAGC-TTAATTTAATTTAAGACCGCATGAA
1 -AATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATTTAAGACAGCATGAA
* * * *
15730100 AATGCTCAATTTGATACACTAAAACACCAACTTTAATTCAATTTATGACAGCATGAA
1 AATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATTTAAGACAGCATGAA
* * * *
15730157 AATGCTCAATTTGAAACACTAAAACAGCAGC-TTGATTCAATTTAAGACAGTATGCA
1 AATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATTTAAGACAGCATGAA
* *
15730213 AATGCTCAATTTGAAACACTCAAACAACAGCTTTAATTCAATTTATGACAGCATG
1 AATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATTTAAGACAGCATG
15730268 CAAACAGAAA
Statistics
Matches: 185, Mismatches: 33, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
55 41 0.22
56 74 0.40
57 70 0.38
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (57 bp):
AATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATTTAAGACAGCATGAA
Found at i:15731114 original size:18 final size:18
Alignment explanation
Indices: 15731071--15731114 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
15731061 AATTTTTATG
* *
15731071 ATTGGGTCGGGTTGGTTA
1 ATTGGGTTGGGTTGGATA
15731089 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
15731107 CTTGGGTT
1 ATTGGGTT
15731115 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.05, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:15737902 original size:21 final size:21
Alignment explanation
Indices: 15737878--15737922 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
15737868 AGTAAATTTA
**
15737878 ATTCAATTTAATACAATTCAT
1 ATTCAATCCAATACAATTCAT
*
15737899 ATTCAATCCAATCCAATTCAT
1 ATTCAATCCAATACAATTCAT
15737920 ATT
1 ATT
15737923 TTAGGCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTCAATCCAATACAATTCAT
Found at i:15745167 original size:24 final size:24
Alignment explanation
Indices: 15745107--15745167 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
15745097 TCGGGACTTT
*
15745107 ATAATGGGAAGCTCATGCGAGCCA
1 ATAATGGGAAGCTCATGAGAGCCA
* *
15745131 ATAACGGGTAGCTC-TGAAGAGCCA
1 ATAATGGGAAGCTCATG-AGAGCCA
*
15745155 TTAATGGGAAGCT
1 ATAATGGGAAGCT
15745168 ACGTATATCG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 2 0.07
24 28 0.93
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.20
Consensus pattern (24 bp):
ATAATGGGAAGCTCATGAGAGCCA
Found at i:15745717 original size:10 final size:10
Alignment explanation
Indices: 15745702--15745746 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
15745692 TATACAAGTA
*
15745702 AATTTAACTC
1 AATTTAATTC
*
15745712 AATTTAATAC
1 AATTTAATTC
15745722 AATTTATATTC
1 AATTTA-ATTC
*
15745733 AATTCAATTC
1 AATTTAATTC
15745743 AATT
1 AATT
15745747 CACATCTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (10 bp):
AATTTAATTC
Found at i:15745736 original size:21 final size:20
Alignment explanation
Indices: 15745702--15745746 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
15745692 TATACAAGTA
*
15745702 AATTTAACTCAATTTAATAC
1 AATTTAACTCAATTCAATAC
* *
15745722 AATTTATATTCAATTCAATTC
1 AATTTA-ACTCAATTCAATAC
15745743 AATT
1 AATT
15745747 CACATCTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTAACTCAATTCAATAC
Found at i:15746826 original size:23 final size:22
Alignment explanation
Indices: 15746783--15746826 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
15746773 TTCTAAGTCG
15746783 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
15746806 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
15746827 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:15746935 original size:45 final size:45
Alignment explanation
Indices: 15746871--15746964 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
15746861 AACAGATACT
* *
15746871 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
* *
15746916 CGGTGGAATCAGCACATAGCAACCACTTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
15746961 CGGT
1 CGGT
15746965 TCACATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:15747031 original size:51 final size:50
Alignment explanation
Indices: 15746966--15747156 Score: 215
Period size: 51 Copynumber: 3.8 Consensus size: 50
15746956 ATGTTCGGTT
*
15746966 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATTCGATA
* * * * * *
15747017 CACGTACTAGCCTGCACATAGTACTACACACGTGATCGAAACTA-TCCAGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATTCGA-TA
** * * * *
15747068 CGTATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATT-CGATA
15747118 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
15747157 CACTTTCACT
Statistics
Matches: 112, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
49 2 0.02
50 40 0.36
51 68 0.61
52 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATTCGATA
Found at i:15747148 original size:101 final size:101
Alignment explanation
Indices: 15746969--15747152 Score: 298
Period size: 101 Copynumber: 1.8 Consensus size: 101
15746959 TTCGGTTCAC
* *
15746969 ATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCGATACACGTACTAGCCTGCAC
1 ATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATTCGATACACATACTAGCCTGCAC
15747034 ATAGTACTACACACGTGATCGAAACTATCCAGTACGT
65 ATAGTACTACACACGTGATCGAAACTATCCAGTACGT
* * *
15747071 ATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACATAGTAGCCTGCAC
1 ATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATT-CGATACACATACTAGCCTGCAC
15747135 ATAGTACTACACACGTGA
65 ATAGTACTACACACGTGA
15747153 CCATCACTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
100 6 0.08
101 37 0.49
102 33 0.43
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (101 bp):
ATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATTCGATACACATACTAGCCTGCACA
TAGTACTACACACGTGATCGAAACTATCCAGTACGT
Found at i:15748303 original size:21 final size:21
Alignment explanation
Indices: 15748279--15748319 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15748269 GTAAATTTAA
*
15748279 TTCAATTTAATACAATTCATG
1 TTCAATTCAATACAATTCATG
*
15748300 TTCAATTCAATCCAATTCAT
1 TTCAATTCAATACAATTCAT
15748320 ATTTTAGGCA
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:0.37, C:0.20, G:0.02, T:0.41
Consensus pattern (21 bp):
TTCAATTCAATACAATTCATG
Found at i:15752614 original size:12 final size:13
Alignment explanation
Indices: 15752583--15752631 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
15752573 TTATTTTAAC
*
15752583 TTATTTTTTCATTA
1 TTATTTGTT-ATTA
15752597 TTATTTGTTATT-
1 TTATTTGTTATTA
*
15752609 TTATTTGTTATAA
1 TTATTTGTTATTA
15752622 TTATTT-TTAT
1 TTATTTGTTAT
15752632 CTGTTTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 15 0.47
13 9 0.28
14 8 0.25
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (13 bp):
TTATTTGTTATTA
Found at i:15752891 original size:5 final size:6
Alignment explanation
Indices: 15752876--15752900 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15752866 TTGAACTATG
15752876 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
15752901 GATTGTTTCT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:15753389 original size:13 final size:13
Alignment explanation
Indices: 15753371--15753407 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
15753361 TTTCTCTAAA
15753371 TTGAAGTATT-ATC
1 TTGAAGT-TTGATC
15753384 TTGAAGTTTGATC
1 TTGAAGTTTGATC
15753397 TTGAAGTTTGA
1 TTGAAGTTTGA
15753408 GATTTGCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 2 0.09
13 21 0.91
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (13 bp):
TTGAAGTTTGATC
Found at i:15757160 original size:13 final size:13
Alignment explanation
Indices: 15757142--15757166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15757132 TATAAACATT
15757142 TCAAAAGCACTTC
1 TCAAAAGCACTTC
15757155 TCAAAAGCACTT
1 TCAAAAGCACTT
15757167 TTCCACAACA
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:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:15764180 original size:3 final size:3
Alignment explanation
Indices: 15764172--15764206 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
15764162 TTTCTTTTTC
15764172 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15764207 TAACTAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:15764224 original size:30 final size:28
Alignment explanation
Indices: 15764167--15764244 Score: 67
Period size: 30 Copynumber: 2.8 Consensus size: 28
15764157 TTTCATTTCT
15764167 TTTTC-TTATTATTAT-T-ATTATTA-TTA
1 TTTTCATTATTATT-TCTAATT-TTATTTA
15764193 TTATT-ATTATTATTTAACTAATTTTATTTA
1 TT-TTCATTATTATTT--CTAATTTTATTTA
*
15764223 TTTTCATTTTTATTTCTAATTT
1 TTTTCATTATTATTTCTAATTT
15764245 GTGTTTCTCT
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
26 3 0.07
27 10 0.23
28 7 0.16
29 6 0.14
30 17 0.40
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (28 bp):
TTTTCATTATTATTTCTAATTTTATTTA
Done.