Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 203 of 322
Found at i:66585786 original size:39 final size:39
Alignment explanation
Indices: 66585743--66585863 Score: 179
Period size: 39 Copynumber: 3.1 Consensus size: 39
66585733 CTTTTGTACT
66585743 GCACATTTGTGCTTTTGTTAGCACTATGGTGCTCCTATA
1 GCACATTTGTGCTTTTGTTAGCACTATGGTGCTCCTATA
*
66585782 GCACATTTGTGCTTTTGTTGGCACTATGGTGCTCCTATA
1 GCACATTTGTGCTTTTGTTAGCACTATGGTGCTCCTATA
* * * * *
66585821 GCACATTTGTACTCTTGTTAACACTACGATGCTCCTAATA
1 GCACATTTGTGCTTTTGTTAGCACTATGGTGCTCCT-ATA
66585861 GCA
1 GCA
66585864 TATTCATGAT
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 68 0.92
40 6 0.08
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (39 bp):
GCACATTTGTGCTTTTGTTAGCACTATGGTGCTCCTATA
Found at i:66587876 original size:16 final size:16
Alignment explanation
Indices: 66587855--66587890 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
66587845 TTTTTATATT
66587855 TTTTTGAATTTTTAAA
1 TTTTTGAATTTTTAAA
66587871 TTTTTGAATTTTTAAA
1 TTTTTGAATTTTTAAA
66587887 TTTT
1 TTTT
66587891 ATAAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTTTGAATTTTTAAA
Found at i:66587895 original size:9 final size:8
Alignment explanation
Indices: 66587855--66587895 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
66587845 TTTTTATATT
*
66587855 TTTTTGAA
1 TTTTTAAA
66587863 TTTTTAAA
1 TTTTTAAA
*
66587871 TTTTTGAA
1 TTTTTAAA
66587879 TTTTTAAA
1 TTTTTAAA
66587887 TTTTATAAA
1 TTTT-TAAA
66587896 ATTAATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
8 25 0.86
9 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (8 bp):
TTTTTAAA
Found at i:66590061 original size:30 final size:29
Alignment explanation
Indices: 66590027--66590095 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
66590017 AGTAATTTTT
* * * *
66590027 TAAAATTAAATCAAATCAAAATTTTATGTA
1 TAAAATTAAATAAAATC-AAAGTTGATATA
**
66590057 TAAAATTACGTAAAATCAAAGTTGATATA
1 TAAAATTAAATAAAATCAAAGTTGATATA
66590086 TAAAATTAAA
1 TAAAATTAAA
66590096 AAATTTACTT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (29 bp):
TAAAATTAAATAAAATCAAAGTTGATATA
Found at i:66601737 original size:29 final size:29
Alignment explanation
Indices: 66601683--66601738 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
66601673 CTTGATAGTA
** *
66601683 TAACATCGGCACAAAGTGTATGATAACTG
1 TAACATCGGCACAAAGTACATAATAACTG
*
66601712 TAACATCGGCACAAAGTACCTAATAAC
1 TAACATCGGCACAAAGTACATAATAAC
66601739 CATAATCACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.21
Consensus pattern (29 bp):
TAACATCGGCACAAAGTACATAATAACTG
Found at i:66609608 original size:28 final size:28
Alignment explanation
Indices: 66609564--66609640 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
66609554 GCATCTTCGC
*
66609564 TATCTCGCACACTAAGTGCC-TTACTTAA
1 TATCTCGCACACTAAGTGCCATT-CTCAA
* * *
66609592 TATCTCGTACACCAAGTTCCATTCTCAA
1 TATCTCGCACACTAAGTGCCATTCTCAA
*
66609620 TATTTCGCACACTAAGTGCCA
1 TATCTCGCACACTAAGTGCCA
66609641 CATATATAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 38 0.95
29 2 0.05
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (28 bp):
TATCTCGCACACTAAGTGCCATTCTCAA
Found at i:66612004 original size:14 final size:15
Alignment explanation
Indices: 66611978--66612006 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
66611968 TATATTTTAT
66611978 CTATAAGTTAATTAA
1 CTATAAGTTAATTAA
66611993 CTATAA-TTAATTAA
1 CTATAAGTTAATTAA
66612007 TTTAAACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.41
Consensus pattern (15 bp):
CTATAAGTTAATTAA
Found at i:66618790 original size:13 final size:13
Alignment explanation
Indices: 66618774--66618811 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
66618764 AAGCCATGCA
* *
66618774 CGCAAGACATGGG
1 CGCATGACACGGG
66618787 CGCATGACACGGG
1 CGCATGACACGGG
66618800 CGCATGACACGG
1 CGCATGACACGG
66618812 TCGTGTGACG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.26, C:0.29, G:0.37, T:0.08
Consensus pattern (13 bp):
CGCATGACACGGG
Found at i:66627958 original size:104 final size:104
Alignment explanation
Indices: 66627778--66627987 Score: 420
Period size: 104 Copynumber: 2.0 Consensus size: 104
66627768 TAGGGCTGAT
66627778 AGGTTATTATCGACATTTCGTAGAAGGGTTCTCTTTGATCGCAGCTTCGATGACTAAGTTGTTGC
1 AGGTTATTATCGACATTTCGTAGAAGGGTTCTCTTTGATCGCAGCTTCGATGACTAAGTTGTTGC
66627843 GTAAGGAAGTTCCTTTTGTTTGGACTGATACACAACAGA
66 GTAAGGAAGTTCCTTTTGTTTGGACTGATACACAACAGA
66627882 AGGTTATTATCGACATTTCGTAGAAGGGTTCTCTTTGATCGCAGCTTCGATGACTAAGTTGTTGC
1 AGGTTATTATCGACATTTCGTAGAAGGGTTCTCTTTGATCGCAGCTTCGATGACTAAGTTGTTGC
66627947 GTAAGGAAGTTCCTTTTGTTTGGACTGATACACAACAGA
66 GTAAGGAAGTTCCTTTTGTTTGGACTGATACACAACAGA
66627986 AG
1 AG
66627988 AGTTTTTGTA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 106 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (104 bp):
AGGTTATTATCGACATTTCGTAGAAGGGTTCTCTTTGATCGCAGCTTCGATGACTAAGTTGTTGC
GTAAGGAAGTTCCTTTTGTTTGGACTGATACACAACAGA
Found at i:66629163 original size:6 final size:6
Alignment explanation
Indices: 66629152--66629189 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
66629142 ACACCGTAGG
* *
66629152 GTAACA GTAACA ATAACA GTAATA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GT
66629190 CATAGTCAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (6 bp):
GTAACA
Found at i:66629178 original size:18 final size:18
Alignment explanation
Indices: 66629152--66629195 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
66629142 ACACCGTAGG
*
66629152 GTAACAGTAACAATAACA
1 GTAATAGTAACAATAACA
*
66629170 GTAATAGTAACAGTAACA
1 GTAATAGTAACAATAACA
*
66629188 GTCATAGT
1 GTAATAGT
66629196 CAGGTACGAA
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:0.48, C:0.14, G:0.16, T:0.23
Consensus pattern (18 bp):
GTAATAGTAACAATAACA
Found at i:66630113 original size:14 final size:15
Alignment explanation
Indices: 66630077--66630113 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
66630067 TTTATTTTAT
*
66630077 TTATTATAACTATTA
1 TTATTATATCTATTA
66630092 -TATTATATC-ATTA
1 TTATTATATCTATTA
66630105 TTATTATAT
1 TTATTATAT
66630114 TTTAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:66630130 original size:21 final size:21
Alignment explanation
Indices: 66630079--66630141 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
66630069 TATTTTATTT
* *
66630079 ATTATAACTATTATA--TTAT
1 ATTATAATTATTATATTTTAA
* *
66630098 ATCATTATTATTATATTTTAA
1 ATTATAATTATTATATTTTAA
66630119 ATTATAATTATTAT-TTCTTAA
1 ATTATAATTATTATATT-TTAA
66630140 AT
1 AT
66630142 ATTAAGTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 12 0.34
20 2 0.06
21 21 0.60
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATAATTATTATATTTTAA
Found at i:66632307 original size:19 final size:19
Alignment explanation
Indices: 66632283--66632320 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
66632273 GAAGAAAGTC
66632283 CCCTATTCAGAACGGTGGT
1 CCCTATTCAGAACGGTGGT
66632302 CCCTATTCAGAACGGTGGT
1 CCCTATTCAGAACGGTGGT
66632321 TTCAGGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (19 bp):
CCCTATTCAGAACGGTGGT
Found at i:66636646 original size:14 final size:14
Alignment explanation
Indices: 66636627--66636658 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
66636617 AAATCAATTA
66636627 AAACACGGTTTCCC
1 AAACACGGTTTCCC
*
66636641 AAACACTGTTTCCC
1 AAACACGGTTTCCC
66636655 AAAC
1 AAAC
66636659 TAAGTAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.34, G:0.09, T:0.22
Consensus pattern (14 bp):
AAACACGGTTTCCC
Found at i:66644671 original size:19 final size:19
Alignment explanation
Indices: 66644647--66644690 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
66644637 TACAAGCAAC
*
66644647 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAAAAA
* *
66644666 ACAACATTAATCCAAAAAA
1 ACAACATCAACCCAAAAAA
66644685 ACAACA
1 ACAACA
66644691 AAAAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.61, C:0.27, G:0.00, T:0.11
Consensus pattern (19 bp):
ACAACATCAACCCAAAAAA
Found at i:66645148 original size:212 final size:212
Alignment explanation
Indices: 66644764--66645159 Score: 650
Period size: 212 Copynumber: 1.9 Consensus size: 212
66644754 GTCGAAGTAA
* *
66644764 ACAACGACATTATAATAAAAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACTTACACCAC
1 ACAACAACATTATAATAAAAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACCTACACCAC
* *
66644829 TCCAAACAAAAAAAAACACAACAAAAGTTTAATTAACCAACAACAATAACAAACCAAACCAAACT
66 TCCAAACAAAAAAAAACACAACAAAAGCTCAATTAACCAACAACAATAACAAACCAAACCAAACT
*
66644894 AATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAAGTTTCTTCATGAGTCCAAA
131 AATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTCATGAGTCCAAA
66644959 TAAACAACAAAAACAAT
196 TAAACAACAAAAACAAT
* * * *
66644976 ACAACAACATTGTAATTAAAAAAAACATAAGCAAAAGTCCAAAATACAATAGAAACCTACACCAG
1 ACAACAACATTATAATAAAAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACCTACACCAC
* *
66645041 TCCAAA-AAAAAAAGAACACAACAAAAGCTCAATTATCCAACAATAATAACAAACCAAACCAAAC
66 TCCAAACAAAAAAA-AACACAACAAAAGCTCAATTAACCAACAACAATAACAAACCAAACCAAAC
* * *
66645105 TAATAACAATAACACATCAGTTCAAAACCCATTATAGAATAGTTTAACTTTCTTC
130 TAATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTC
66645160 TTGTGCTTCA
Statistics
Matches: 169, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
211 7 0.04
212 162 0.96
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.18
Consensus pattern (212 bp):
ACAACAACATTATAATAAAAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACCTACACCAC
TCCAAACAAAAAAAAACACAACAAAAGCTCAATTAACCAACAACAATAACAAACCAAACCAAACT
AATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTCATGAGTCCAAA
TAAACAACAAAAACAAT
Found at i:66647584 original size:30 final size:30
Alignment explanation
Indices: 66647544--66647610 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
66647534 GTTAAATTAA
* *
66647544 AAATCAATTAATATAATAGTATAATAGCAT
1 AAATTAATTAATATAATAGTACAATAGCAT
66647574 AAATTAATTAATATAATAGTACAATAGCAT
1 AAATTAATTAATATAATAGTACAATAGCAT
66647604 AAATTAA
1 AAATTAA
66647611 AAATAGATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (30 bp):
AAATTAATTAATATAATAGTACAATAGCAT
Found at i:66649780 original size:9 final size:9
Alignment explanation
Indices: 66649768--66649804 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
66649758 ATATAGTTTA
*
66649768 TATTCGATT
1 TATTCGAAT
66649777 TATTCGAAT
1 TATTCGAAT
*
66649786 TATTCGAGT
1 TATTCGAAT
66649795 TATTCGAAT
1 TATTCGAAT
66649804 T
1 T
66649805 CGAGAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:66649791 original size:18 final size:18
Alignment explanation
Indices: 66649768--66649804 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
66649758 ATATAGTTTA
*
66649768 TATTCGATTTATTCGAAT
1 TATTCGAGTTATTCGAAT
66649786 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
66649804 T
1 T
66649805 CGAGAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:66649870 original size:9 final size:9
Alignment explanation
Indices: 66649845--66649890 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
66649835 TTGAAAAAAA
66649845 AATTCGAGTT
1 AATTCGA-TT
*
66649855 GATTCGATT
1 AATTCGATT
66649864 AATTCGATT
1 AATTCGATT
*
66649873 AACTCGATT
1 AATTCGATT
*
66649882 AACTCGATT
1 AATTCGATT
66649891 CGAATAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (9 bp):
AATTCGATT
Found at i:66654303 original size:13 final size:13
Alignment explanation
Indices: 66654285--66654310 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66654275 GCTCGGCAGA
66654285 GACACGCCCGTGT
1 GACACGCCCGTGT
66654298 GACACGCCCGTGT
1 GACACGCCCGTGT
66654311 TCAATTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:66661502 original size:27 final size:30
Alignment explanation
Indices: 66661455--66661524 Score: 85
Period size: 27 Copynumber: 2.5 Consensus size: 30
66661445 TATCTCTTCC
*
66661455 TTAGATTGTCCT-AAGGCGACTTCC-A-CA
1 TTAGATAGTCCTAAAGGCGACTTCCTAGCA
*
66661482 TTAGATAGTCCTAAATG-GACTTCCTAGCA
1 TTAGATAGTCCTAAAGGCGACTTCCTAGCA
*
66661511 CTAGATAGTCCTAA
1 TTAGATAGTCCTAA
66661525 CGAACATCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 18 0.49
28 4 0.11
29 15 0.41
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (30 bp):
TTAGATAGTCCTAAAGGCGACTTCCTAGCA
Found at i:66662137 original size:38 final size:38
Alignment explanation
Indices: 66662063--66662167 Score: 122
Period size: 38 Copynumber: 2.8 Consensus size: 38
66662053 AAGCTTGTAG
* *
66662063 ACCATTTTCATGGTG-CTGCTCCGTAGAGCTTATAGATA
1 ACCATTTTCACGGTGTC-GCTCCATAGAGCTTATAGATA
* * * *
66662101 ACCCTTTTTAGGGTGTCGCTTCATAGAGCTTATAGATA
1 ACCATTTTCACGGTGTCGCTCCATAGAGCTTATAGATA
* *
66662139 ATCATTTTCACGGTGTCGCTCCGTAGAGC
1 ACCATTTTCACGGTGTCGCTCCATAGAGC
66662168 CTGTAGACTA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
38 54 0.98
39 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (38 bp):
ACCATTTTCACGGTGTCGCTCCATAGAGCTTATAGATA
Found at i:66664691 original size:18 final size:18
Alignment explanation
Indices: 66664670--66664704 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66664660 AATCAGTAAT
* *
66664670 CAGTAACGGTAGCAGTAG
1 CAGTAACAGTAACAGTAG
66664688 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
66664705 TTCAACACAC
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:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAACAGTAG
Found at i:66664738 original size:45 final size:45
Alignment explanation
Indices: 66664688--66664794 Score: 146
Period size: 45 Copynumber: 2.4 Consensus size: 45
66664678 GTAGCAGTAG
* *
66664688 CAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATTTG-TAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTC-GAA-TCGATAA
* *
66664733 CAGTAATGGTAACAGTATTCGACACACAAAGTGTCGAATCGATAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGATAA
66664778 CAGTAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
66664795 ACAGTAGTCG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
44 2 0.04
45 52 0.95
46 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGATAA
Found at i:66666414 original size:20 final size:20
Alignment explanation
Indices: 66666391--66666430 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
66666381 AAAACCATAG
66666391 CAATTA-ATAATTATAATAAT
1 CAATTATATAA-TATAATAAT
66666411 CAATTATATAATATAATAAT
1 CAATTATATAATATAATAAT
66666431 ATATATAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
CAATTATATAATATAATAAT
Found at i:66666435 original size:17 final size:17
Alignment explanation
Indices: 66666406--66666439 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
66666396 AATAATTATA
66666406 ATAATCAATTATATAAT
1 ATAATCAATTATATAAT
66666423 ATAAT-AATATATATAAT
1 ATAATCAAT-TATATAAT
66666440 CTAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATCAATTATATAAT
Found at i:66667264 original size:46 final size:46
Alignment explanation
Indices: 66667138--66667301 Score: 158
Period size: 46 Copynumber: 3.5 Consensus size: 46
66667128 GTGCCGGTGC
* *
66667138 CATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACTTACGTCTC-AAGGCCGATG
* *
66667183 CATGTCCCAGCCATGTCTTACACTGACTTACGTCTCAAGGCCGAAG
1 CATGTCCCAGACATGTCTTACACTGACTTACGTCTCAAGGCCGATG
* * * **
66667229 CATGTCCCAGATATGTCTTACACTAGCAC-T-GGTCTCAATGTTGATG
1 CATGTCCCAGACATGTCTTACACT-G-ACTTACGTCTCAAGGCCGATG
66667275 CCATGTCCCAGACATGGTCTTACACTG
1 -CATGTCCCAGACAT-GTCTTACACTG
66667302 GCTCTCATAA
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
44 13 0.13
45 14 0.14
46 45 0.45
47 16 0.16
48 12 0.12
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTTACGTCTCAAGGCCGATG
Found at i:66670825 original size:20 final size:19
Alignment explanation
Indices: 66670797--66670834 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
66670787 TAAATTATTA
*
66670797 TTCTTAGAAAATAGAATTTG
1 TTCTAAGAAAATA-AATTTG
66670817 TTCTAAGAAAATAAATTT
1 TTCTAAGAAAATAAATTT
66670835 CCACTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (19 bp):
TTCTAAGAAAATAAATTTG
Found at i:66678425 original size:13 final size:15
Alignment explanation
Indices: 66678407--66678438 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
66678397 TTTTGTTAGA
66678407 TAAATA-ATTTTT-G
1 TAAATAGATTTTTGG
66678420 TAAATAGATTTTTGG
1 TAAATAGATTTTTGG
66678435 TAAA
1 TAAA
66678439 ATTATCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 6 0.35
15 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (15 bp):
TAAATAGATTTTTGG
Found at i:66678833 original size:22 final size:21
Alignment explanation
Indices: 66678805--66678858 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
66678795 GTTTGTGTAA
66678805 TTAAATTGTATATTTATATGTT
1 TTAAATTGTATA-TTATATGTT
*
66678827 TTAAATTG-A-ATTATTTGTT
1 TTAAATTGTATATTATATGTT
*
66678846 TGTGAATTGTATA
1 T-TAAATTGTATA
66678859 ATTGTCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 9 0.33
20 7 0.26
21 2 0.07
22 9 0.33
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (21 bp):
TTAAATTGTATATTATATGTT
Found at i:66679002 original size:24 final size:24
Alignment explanation
Indices: 66678966--66679011 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
66678956 ACCGATACCT
* * *
66678966 AGCTCGGAGGAGCTTACTGATTAC
1 AGCTCGGAAGAGCATACCGATTAC
*
66678990 AGCTCGTAAGAGCATACCGATT
1 AGCTCGGAAGAGCATACCGATT
66679012 CAGAACTCAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (24 bp):
AGCTCGGAAGAGCATACCGATTAC
Found at i:66679755 original size:21 final size:20
Alignment explanation
Indices: 66679705--66679756 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
66679695 GCGTTATATT
* *
66679705 GATAGAAGTCCAGGTTGTATT
1 GATAGAACT-CAGGTTGTATC
* *
66679726 GGTATAACTCAGAGTTGTATC
1 GATAGAACTCAG-GTTGTATC
66679747 GATAGAACTC
1 GATAGAACTC
66679757 TTTGTTCTAC
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (20 bp):
GATAGAACTCAGGTTGTATC
Found at i:66694888 original size:17 final size:17
Alignment explanation
Indices: 66694842--66694888 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
66694832 AAAGCAAGCG
*
66694842 AGAAAAGAAGAAGATGAAA
1 AGAAAAG-AG-AGATCAAA
66694861 AGCAAAA-AGAGATCAAA
1 AG-AAAAGAGAGATCAAA
66694878 AGAAAAGAGAG
1 AGAAAAGAGAG
66694889 GCAAGAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 4 0.16
17 13 0.52
18 2 0.08
19 2 0.08
20 4 0.16
ACGTcount: A:0.66, C:0.04, G:0.26, T:0.04
Consensus pattern (17 bp):
AGAAAAGAGAGATCAAA
Found at i:66694969 original size:42 final size:42
Alignment explanation
Indices: 66694907--66695003 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
66694897 AGATTATGAG
* * *
66694907 AGAAAATGAAAGGATTTTGAATGAAATAGAGAGAAGAAACAA
1 AGAAAATGAAAGAATCTTGAATGAAATAGAGAAAAGAAACAA
*
66694949 AGAAAATGAGAGAATCTTGAATGAAATAGAGAAAAGAAACAA
1 AGAAAATGAAAGAATCTTGAATGAAATAGAGAAAAGAAACAA
66694991 AG-AAATGAAAGAA
1 AGAAAATGAAAGAA
66695004 AAAGAAAAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 10 0.20
42 40 0.80
ACGTcount: A:0.60, C:0.03, G:0.23, T:0.14
Consensus pattern (42 bp):
AGAAAATGAAAGAATCTTGAATGAAATAGAGAAAAGAAACAA
Found at i:66695030 original size:18 final size:18
Alignment explanation
Indices: 66694997--66695051 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
66694987 ACAAAGAAAT
* *
66694997 GAAAGAAAAAGAAAAAGA
1 GAAAGAGAATGAAAAAGA
** *
66695015 GATTGAGAGTGAAAAAGA
1 GAAAGAGAATGAAAAAGA
*
66695033 AAAAGAGAATGAAAAAGA
1 GAAAGAGAATGAAAAAGA
66695051 G
1 G
66695052 TTCGAGAGAC
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.65, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
GAAAGAGAATGAAAAAGA
Found at i:66695038 original size:36 final size:36
Alignment explanation
Indices: 66694998--66695069 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
66694988 CAAAGAAATG
**
66694998 AAAGAAAAAGAAAAAGAGATT-GAGAGTGAAAAAGAA
1 AAAGAAAAAGAAAAAGAG-TTCGAGAGACAAAAAGAA
* *
66695034 AAAGAGAATGAAAAAGAGTTCGAGAGACAAAAAGAA
1 AAAGAAAAAGAAAAAGAGTTCGAGAGACAAAAAGAA
66695070 TGTGAACAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 2 0.06
36 29 0.94
ACGTcount: A:0.64, C:0.03, G:0.25, T:0.08
Consensus pattern (36 bp):
AAAGAAAAAGAAAAAGAGTTCGAGAGACAAAAAGAA
Found at i:66695098 original size:18 final size:19
Alignment explanation
Indices: 66695062--66695100 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
66695052 TTCGAGAGAC
*
66695062 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
66695081 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
66695099 AA
1 AA
66695101 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:66703817 original size:20 final size:20
Alignment explanation
Indices: 66703770--66703817 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
66703760 AGTAAGCTCG
66703770 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
66703790 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
66703810 GTTGAGCT
1 GTTGAGCT
66703818 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:66706074 original size:10 final size:10
Alignment explanation
Indices: 66706058--66706115 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
66706048 CAACTCCGAC
66706058 CAGCTCAATT
1 CAGCTCAATT
* *
66706068 GAGCTCATTT
1 CAGCTCAATT
66706078 CAGCTCAA-T
1 CAGCTCAATT
66706087 CGAGCTCAATT
1 C-AGCTCAATT
*
66706098 TAGCTACAATT
1 CAGCT-CAATT
66706109 CAGCTCA
1 CAGCTCA
66706116 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:66706081 original size:20 final size:20
Alignment explanation
Indices: 66706058--66706118 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
66706048 CAACTCCGAC
66706058 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
66706078 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
66706099 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
66706119 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:66707115 original size:46 final size:46
Alignment explanation
Indices: 66707058--66707149 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
66707048 ATTTAATTCC
66707058 ATTCCTACTATTGTTAGTGATTTTCCAAATCTACATCACTGCTGCT
1 ATTCCTACTATTGTTAGTGATTTTCCAAATCTACATCACTGCTGCT
* * *
66707104 ATTCCTGCTATTTTTAGTGATTTTCCAAATCTACCTCACTGCTGCT
1 ATTCCTACTATTGTTAGTGATTTTCCAAATCTACATCACTGCTGCT
66707150 GTCAGCATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.42
Consensus pattern (46 bp):
ATTCCTACTATTGTTAGTGATTTTCCAAATCTACATCACTGCTGCT
Found at i:66707964 original size:40 final size:39
Alignment explanation
Indices: 66707912--66708264 Score: 465
Period size: 40 Copynumber: 8.8 Consensus size: 39
66707902 ATTACCACAA
* ** *
66707912 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
66707952 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
** *
66707992 GCACAATTGCCTTCGGGTCTT-GACCCGGGCATAGCAACTC
1 GCACAA-TGCCTTCGGGTCTTAG-CCCGGATATATCAACTC
*
66708032 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66708072 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
*
66708114 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
66708154 GCACAAATGCCTGCGGGTCTTAGCCTGGATATATCAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
66708194 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
66708234 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
66708265 AAATTCAAAT
Statistics
Matches: 283, Mismatches: 20, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
39 7 0.02
40 234 0.83
41 5 0.02
42 35 0.12
43 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:66708173 original size:162 final size:162
Alignment explanation
Indices: 66707912--66708264 Score: 541
Period size: 162 Copynumber: 2.2 Consensus size: 162
66707902 ATTACCACAA
* * * *
66707912 GCACAATTGCCTTCGGGTCTTAACCCGG--GCATAGCAACTCGCACGAATGCCTTCGGGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATACATAGCAACTCGCACAAATGCCTGCGGGTCTTAG
* * * * *
66707975 CCCGGATATATCAACTTGCACAATTGCCTTCGGGTCTT-GACCCGGGCATAGCAACTCGCACGAA
66 CCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAG-CCCGGACATAGCAACTCGCACAAA
66708039 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT
130 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT
* *
66708072 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATACATAGCAACTCGCACAAATGCCTGCGGGTCTTAG
* * *
66708137 CCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCTGGATATATCAACTCGCACAAAT
66 CCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGACATAGCAACTCGCACAAAT
66708202 GCCTTCGGGTCTTAGCCCGGATATATCAACTT
131 GCCTTCGGGTCTTAGCCCGGATATATCAACTT
*
66708234 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA
66708265 AAATTCAAAT
Statistics
Matches: 175, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
160 27 0.15
162 147 0.84
163 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (162 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATACATAGCAACTCGCACAAATGCCTGCGGGTCTTAG
CCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGACATAGCAACTCGCACAAAT
GCCTTCGGGTCTTAGCCCGGATATATCAACTT
Found at i:66708264 original size:80 final size:80
Alignment explanation
Indices: 66707912--66708264 Score: 537
Period size: 80 Copynumber: 4.4 Consensus size: 80
66707902 ATTACCACAA
* ** *
66707912 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
66707977 CGGATATATCAACTT
66 CGGATATATCAACTT
** *
66707992 GCACAATTGCCTTCGGGTCTT-GACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 GCACAATTGCCTTCGGGTCTTAG-CCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
66708056 CCGGATATATCAACTT
65 CCGGATATATCAACTT
* *
66708072 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGG--ATATAGCAACTCGCACAAATGCCTTCGGGTCTTAG
*
66708137 CCCGGATATATCAACTC
64 CCCGGATATATCAACTT
* * * *
66708154 GCACAAATGCCTGCGGGTCTTAGCCTGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
66708219 CGGATATATCAACTT
66 CGGATATATCAACTT
*
66708234 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA
66708265 AAATTCAAAT
Statistics
Matches: 253, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
80 181 0.72
81 1 0.00
82 71 0.28
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (80 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTT
Found at i:66712480 original size:94 final size:90
Alignment explanation
Indices: 66712376--66712586 Score: 255
Period size: 94 Copynumber: 2.3 Consensus size: 90
66712366 TGCACCAATT
66712376 TAAGACATGTCTGGGACATGCATCGGCCAC-ATAATGAGAGCCAGTGTAAGACCATGTCTAGGAC
1 TAAGACATGTCTGGGACATGCATCGGCCACGA-AATGAGAGCCAGTGTAAGA-CATGTCTAGGAC
*
66712440 ATGGCATCG-GTATTGAGACGAGTGCTAGTG
64 AT-GCATCGACTATTG-GA--AGTGCTAGTG
* * * * ** *
66712470 TAAGAAATGTCTGGGACATGCATTGGCCTCGAGATGTTAGCCAGTGTCAGACATGTCTAGGACAT
1 TAAGACATGTCTGGGACATGCATCGGCCACGAAATGAGAGCCAGTGTAAGACATGTCTAGGACAT
* *
66712535 GCGTCGACTATTGGATGTGCTAGTG
66 GCATCGACTATTGGAAGTGCTAGTG
*
66712560 TAAGACATGTCAGGGACATGCATCGGC
1 TAAGACATGTCTGGGACATGCATCGGC
66712587 ACGGTTACAT
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
90 33 0.32
92 7 0.07
93 19 0.19
94 42 0.41
95 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (90 bp):
TAAGACATGTCTGGGACATGCATCGGCCACGAAATGAGAGCCAGTGTAAGACATGTCTAGGACAT
GCATCGACTATTGGAAGTGCTAGTG
Found at i:66712533 original size:46 final size:46
Alignment explanation
Indices: 66712376--66712586 Score: 155
Period size: 46 Copynumber: 4.6 Consensus size: 46
66712366 TGCACCAATT
* * * *
66712376 TAAGACATGTCTGGGACATGCATCGGCCAC-ATAATGAGAGCCAGTG
1 TAAGACATGTCTAGGACATGCATCGGCCTCGA-GATGATAGCCAGTG
** * * *
66712422 TAAGACCATGTCTAGGACATGGCATCGGTATTGAGACGAGT-GCTAGTG
1 TAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGATGA-TAGCCAGTG
* * * *
66712470 TAAGAAATGTCTGGGACATGCATTGGCCTCGAGATGTTAGCCAGTG
1 TAAGACATGTCTAGGACATGCATCGGCCTCGAGATGATAGCCAGTG
* * * * * *
66712516 TCAGACATGTCTAGGACATGCGTCGACTATTG-GATG-T-GCTAGTG
1 TAAGACATGTCTAGGACATGCATCGGC-CTCGAGATGATAGCCAGTG
66712560 TAAGACATGTC-AGGGACATGCATCGGC
1 TAAGACATGTCTA-GGACATGCATCGGC
66712587 ACGGTTACAT
Statistics
Matches: 128, Mismatches: 30, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
43 1 0.01
44 28 0.22
45 2 0.02
46 48 0.38
47 27 0.21
48 21 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
TAAGACATGTCTAGGACATGCATCGGCCTCGAGATGATAGCCAGTG
Found at i:66720290 original size:46 final size:45
Alignment explanation
Indices: 66720152--66720416 Score: 245
Period size: 46 Copynumber: 5.7 Consensus size: 45
66720142 TTTTTGTGCT
* *
66720152 AGTGTAAGACATGTCTAGGACATGCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCC-CATTATGAGAGCC
* *
66720198 AGTGTAAGACCATGTTTGGGACATGGCATCAG--CATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCAGCCCATT---ATGAGAGCC
* *
66720246 AGTGTAAGACATGTCTAGGACATGCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCC-CATTATGAGAGCC
* *
66720292 AGTGTAAGACCATGTTTGGGACATGGCATCAG--CATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCAGCCCATT---ATGAGAGCC
* ** *
66720340 AGTGTAAGACATGTATGGGACATGCATTGGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCC-C-ATTATG-AGAGCC
66720386 AGTGTAAGACATGTTTGGGACATGCATCAGC
1 AGTGTAAGACATGTTTGGGACATGCATCAGC
66720417 TACAAGATGT
Statistics
Matches: 180, Mismatches: 21, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
45 8 0.04
46 70 0.39
47 50 0.28
48 46 0.26
49 5 0.03
50 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTTTGGGACATGCATCAGCCCATTATGAGAGCC
Found at i:66720310 original size:94 final size:94
Alignment explanation
Indices: 66720149--66720416 Score: 436
Period size: 94 Copynumber: 2.9 Consensus size: 94
66720139 TTATTTTTGT
66720149 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTT
66720214 TGGGACATGGCATCAGCATTGAGACGAGA
66 TGGGACATGGCATCAGCATTGAGACGAGA
66720243 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTT
66720308 TGGGACATGGCATCAGCATTGAGACGAGA
66 TGGGACATGGCATCAGCATTGAGACGAGA
* * ** * *
66720337 GCTAGTGTAAGACATGTATGGGACATGCATTGGCCTCGA-GATGTA-AGCCAGTGTAAGA-CATG
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCAC-ATTATG-AGAGCCAGTGTAAGACCATG
66720399 TTTGGGACAT-GCATCAGC
64 TTTGGGACATGGCATCAGC
66720417 TACAAGATGT
Statistics
Matches: 166, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
92 8 0.05
93 14 0.08
94 142 0.86
95 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTT
TGGGACATGGCATCAGCATTGAGACGAGA
Found at i:66720407 original size:140 final size:140
Alignment explanation
Indices: 66720191--66720509 Score: 340
Period size: 140 Copynumber: 2.3 Consensus size: 140
66720181 GCCACATTAT
* * *
66720191 GAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCATTGAGACGAGAGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAGACCATGTATGGGACATGGCATCAGCATCGAGACGAGAGCCAGTGTAAGAC
* * *
66720256 ATGTCTAGGACATGCATCAGCCACATTATGA-GAGCCAGTGTAAGACCATGTTTGGGACATGGCA
66 ATGTCTAGGACATGCATCAGCCACA--A-GATGAGCCAATGTAAAACCATGTCTGGGACATGGCA
66720320 TCAGCATTGAGAC
128 TCAGCATTGAGAC
* ** * *
66720333 GAGAGCTAGTGTAAGA-CATGTATGGGACAT-GCATTGGCCTCGAGATGTA-AGCCAGTGTAAGA
1 GAGAGCCAGTGTAAGACCATGTATGGGACATGGCATCAGCATCGAGACG-AGAGCCAGTGTAAGA
* * * * *
66720395 CATGTTTGGGACATGCATCAGCTACAAGATGTGTCAATGTAAAACCATGTCTGGGACATGGCATC
65 CATGTCTAGGACATGCATCAGCCACAAGATGAGCCAATGTAAAACCATGTCTGGGACATGGCATC
* ** * *
66720460 GGCACGGATATGT
130 AGCATTGAGA--C
* * *
66720473 GAGAGTCAGTGTAAGACCATGTCTAGGACATGGCATC
1 GAGAGCCAGTGTAAGACCATGTATGGGACATGGCATC
66720510 GGTTTAATGG
Statistics
Matches: 145, Mismatches: 26, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
137 2 0.01
138 37 0.26
140 61 0.42
141 26 0.18
142 19 0.13
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (140 bp):
GAGAGCCAGTGTAAGACCATGTATGGGACATGGCATCAGCATCGAGACGAGAGCCAGTGTAAGAC
ATGTCTAGGACATGCATCAGCCACAAGATGAGCCAATGTAAAACCATGTCTGGGACATGGCATCA
GCATTGAGAC
Found at i:66720425 original size:46 final size:47
Alignment explanation
Indices: 66720152--66720556 Score: 289
Period size: 47 Copynumber: 8.6 Consensus size: 47
66720142 TTTTTGTGCT
* **
66720152 AGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACAAGATGAGAGCC
* ** * *
66720198 AGTGTAAGACCATGTTTGGGACATGGCATCAGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCA-CAAGATGAGAGCC
* **
66720246 AGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACAAGATGAGAGCC
* ** * *
66720292 AGTGTAAGACCATGTTTGGGACATGGCATCAGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCA-CAAGATGAGAGCC
* ** * *
66720340 AGTGTAAGA-CATGTATGGGACAT-GCATTGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACAAGATG-AGAGCC
* * *
66720386 AGTGTAAGA-CATGTTTGGGACAT-GCATCAGCTACAAGAT--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-ACAAGATGAGAGCC
* * * *
66720430 AATGTAAAACCATGTCTGGGACATGGCATCGGCACGGATATG-TGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC--A-A-GATGAGAGCC
* ****
66720480 AGTGTAAGACCATGTCTAGGACATGGCATC-GGTTTA-ATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACAAGAT-GA-GAGCC
*
66720527 AGTGTAAGACCATGTTTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
66720557 GACATTATAC
Statistics
Matches: 284, Mismatches: 53, Indels: 43
0.75 0.14 0.11
Matches are distributed among these distances:
44 9 0.03
45 17 0.06
46 87 0.31
47 90 0.32
48 48 0.17
49 2 0.01
50 31 0.11
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCACAAGATGAGAGCC
Found at i:66720485 original size:188 final size:187
Alignment explanation
Indices: 66720149--66720509 Score: 423
Period size: 188 Copynumber: 1.9 Consensus size: 187
66720139 TTATTTTTGT
* *
66720149 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTATAGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTT
* * * *
66720214 TGGGACATGGCATCAGCATTGAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCA
66 TGGGACATGGCATCAGCA-TGACAAGAGAGCTAATGTAAAACATGTCTAGGACATGCATCAGCCA
* *
66720279 CATTATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCATTGAGACGAGA
130 CATTATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCATTGAGACGAGA
* ** *
66720337 GCTAGTGTAAGACATGTATGGGACATGCATTGGCCTCGA-GATGTA-AGCCAGTGTAAGA-CATG
1 GCTAGTGTAAGACATGTATAGGACATGCATCAGCCAC-ATGATG-AGAGCCAGTGTAAGACCATG
* *
66720399 TTTGGGACAT-GCATCAGC-T-ACAAGATGTG-TCAATGTAAAACCATGTCTGGGACATGGCATC
64 TTTGGGACATGGCATCAGCATGACAAGA-GAGCT-AATGTAAAA-CATGTCTAGGACAT-GCATC
* * *
66720460 -GGCACGGATATGTGAGAGTCAGTGTAAGACCATGTCTAGGACATGGCATC
125 AGCCAC--AT-TATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
66720510 GGTTTAATGG
Statistics
Matches: 147, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
183 5 0.03
184 10 0.07
185 17 0.12
186 13 0.09
187 16 0.11
188 84 0.57
189 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (187 bp):
GCTAGTGTAAGACATGTATAGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTT
TGGGACATGGCATCAGCATGACAAGAGAGCTAATGTAAAACATGTCTAGGACATGCATCAGCCAC
ATTATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCATTGAGACGAGA
Found at i:66721675 original size:20 final size:21
Alignment explanation
Indices: 66721636--66721675 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
66721626 GTTATAATGA
66721636 CCACACAGGCGTGTTGCCCTT
1 CCACACAGGCGTGTTGCCCTT
*
66721657 CCACACGGGCGTG-TGCCCT
1 CCACACAGGCGTGTTGCCCT
66721676 ATTACAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACAGGCGTGTTGCCCTT
Found at i:66724950 original size:48 final size:47
Alignment explanation
Indices: 66724877--66725345 Score: 382
Period size: 48 Copynumber: 9.7 Consensus size: 47
66724867 TACGTAAGCC
*
66724877 AGTGTAAGACCATGTTTGGAACATGGCATCGACATTGATATGAGAGCT
1 AGTGTAAGACCATGTTTGG-ACATGGCATCGGCATTGATATGAGAGCT
* * * * * ** * *
66724925 ATTGTAAAACCATGTCTAGGACATGGCATCGACCTCAATATGTGAGCC
1 AGTGTAAGACCATGT-TTGGACATGGCATCGGCATTGATATGAGAGCT
* ** * *
66724973 AGCGTAAGACCATGTTTGGAACATGGCATCAACATTTATATGAAAGCT
1 AGTGTAAGACCATGTTTGG-ACATGGCATCGGCATTGATATGAGAGCT
* * * * * * * *
66725021 AGTGTAAGACCATGTCTGGGACTTGGCGTTGGCCTCGATATGTGACCT
1 AGTGTAAGACCATGT-TTGGACATGGCATCGGCATTGATATGAGAGCT
*
66725069 GGTGTAAGACCATGTTTGGAGCATGGCATCGGCATTGATATGAGAGCT
1 AGTGTAAGACCATGTTTGGA-CATGGCATCGGCATTGATATGAGAGCT
* * * ** * *
66725117 AGTGTAAGACCATGTCTGGGACATCGCATTGGCCCCT-ATATGTGAGCC
1 AGTGTAAGACCATGT-TTGGACATGGCATCGG-CATTGATATGAGAGCT
* * *
66725165 AGTGTAAGACCATGTTTGGAACATGGCATTGGTATTTATATGAGAGCT
1 AGTGTAAGACCATGTTTGG-ACATGGCATCGGCATTGATATGAGAGCT
* * * * *
66725213 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTTAATATGTGAGCT
1 AGTGTAAGACCATGT-TTGGACATGGCATCGGCATTGATATGAGAGCT
* * * * *
66725261 AATGTAAGACCATATTTGGAACATGGCATCGGCACTGATATATGAGAACC
1 AGTGTAAGACCATGTTTGG-ACATGGCATCGGCATTG--ATATGAGAGCT
* * * *
66725311 AGTGTAAAACTATGTCTGGGACATGGCATTGGCAT
1 AGTGTAAGACCATGT-TTGGACATGGCATCGGCAT
66725346 CTTTCTCTTT
Statistics
Matches: 328, Mismatches: 80, Indels: 24
0.76 0.19 0.06
Matches are distributed among these distances:
47 14 0.04
48 264 0.80
49 15 0.05
50 32 0.10
51 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (47 bp):
AGTGTAAGACCATGTTTGGACATGGCATCGGCATTGATATGAGAGCT
Found at i:66725037 original size:96 final size:96
Alignment explanation
Indices: 66724873--66725339 Score: 603
Period size: 96 Copynumber: 4.8 Consensus size: 96
66724863 GGGTTACGTA
* * * *
66724873 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGATATGAGAGCTATTGTAAAACCAT
1 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAAGACCAT
* *
66724938 GTCTAGGACATGGCATCGACCTCAATATGTG
66 GTCTGGGACATGGCATCGGCCTCAATATGTG
* ** *
66724969 AGCCAGCGTAAGACCATGTTTGGAACATGGCATCAACATTTATATGAAAGCTAGTGTAAGACCAT
1 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAAGACCAT
* * * *
66725034 GTCTGGGACTTGGCGTTGGCCTCGATATGTG
66 GTCTGGGACATGGCATCGGCCTCAATATGTG
* * *
66725065 A-CCTGGTGTAAGACCATGTTTGGAGCATGGCATCGGCATTGATATGAGAGCTAGTGTAAGACCA
1 AGCC-AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAAGACCA
* * * *
66725129 TGTCTGGGACATCGCATTGGCCCCTATATGTG
65 TGTCTGGGACATGGCATCGGCCTCAATATGTG
* *
66725161 AGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGTATTTATATGAGAGCTAGTGTAAGACCAT
1 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAAGACCAT
* *
66725226 GTCTGGGACATGGCGTCGGCCTTAATATGTG
66 GTCTGGGACATGGCATCGGCCTCAATATGTG
* * * * * * * *
66725257 AGCTAATGTAAGACCATATTTGGAACATGGCATCGGCACTGATATATGAGAACCAGTGTAAAACT
1 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-T-TTATATGAGAGCTAGTGTAAGACC
66725322 ATGTCTGGGACATGGCAT
64 ATGTCTGGGACATGGCAT
66725340 TGGCATCTTT
Statistics
Matches: 321, Mismatches: 46, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
95 2 0.01
96 280 0.87
97 3 0.01
98 36 0.11
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (96 bp):
AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAAGACCAT
GTCTGGGACATGGCATCGGCCTCAATATGTG
Found at i:66725205 original size:192 final size:192
Alignment explanation
Indices: 66724877--66725343 Score: 664
Period size: 192 Copynumber: 2.4 Consensus size: 192
66724867 TACGTAAGCC
* *
66724877 AGTGTAAGACCATGTTTGGAACATGGCATCGACATTGATATGAGAGCTATTGTAAAACCATGTCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAGTGTAAAACCATGTCT
* * * *
66724942 AGGACATGGCATCGACCTCAATATGTGAGCCAGCGTAAGACCATGTTTGGAACATGGCATCAACA
66 GGGACATGGCATTGGCCCCAATATGTGAGCCAGCGTAAGACCATGTTTGGAACATGGCATCAACA
* * *
66725007 TTTATATGAAAGCTAGTGTAAGACCATGTCTGGGACTTGGCGTTGGCCTCGATATGTGACCT
131 TTTATATGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCAATATGTGACCT
* * *
66725069 GGTGTAAGACCATGTTTGGAGCATGGCATCGGCATTGATATGAGAGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAGTGTAAAACCATGTCT
* * * ****
66725134 GGGACATCGCATTGGCCCCTATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGTA
66 GGGACATGGCATTGGCCCCAATATGTGAGCCAGCGTAAGACCATGTTTGGAACATGGCATCAACA
* * *
66725199 TTTATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTTAATATGTGAGCT
131 TTTATATGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCAATATGTGACCT
* * * * * *
66725261 AATGTAAGACCATATTTGGAACATGGCATCGGCACTGATATATGAGAACCAGTGTAAAACTATGT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTG--ATATGAGAGCTAGTGTAAAACCATGT
66725326 CTGGGACATGGCATTGGC
64 CTGGGACATGGCATTGGC
66725344 ATCTTTCTCT
Statistics
Matches: 241, Mismatches: 32, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
192 202 0.84
194 39 0.16
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (192 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAGTGTAAAACCATGTCT
GGGACATGGCATTGGCCCCAATATGTGAGCCAGCGTAAGACCATGTTTGGAACATGGCATCAACA
TTTATATGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCAATATGTGACCT
Found at i:66735595 original size:20 final size:20
Alignment explanation
Indices: 66735570--66735614 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
66735560 AGGGACTAAA
* *
66735570 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
66735590 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
66735610 ATGAA
1 ATGAA
66735615 TACATATGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:66736129 original size:6 final size:6
Alignment explanation
Indices: 66736118--66736143 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
66736108 TCCCCACATT
66736118 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
66736144 GAGGCCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:66748562 original size:22 final size:22
Alignment explanation
Indices: 66748534--66748575 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
66748524 GTCCACATTT
66748534 TACATTTATTC-ACACTTTACCA
1 TACATTT-TTCAACACTTTACCA
66748556 TACATTTTTCAACACTTTAC
1 TACATTTTTCAACACTTTAC
66748576 AAATAAGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.43
Consensus pattern (22 bp):
TACATTTTTCAACACTTTACCA
Found at i:66756320 original size:16 final size:16
Alignment explanation
Indices: 66756299--66756331 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
66756289 CCTATCTTAT
66756299 CACAACTGCATTTAAA
1 CACAACTGCATTTAAA
66756315 CACAACTGCATTTAAA
1 CACAACTGCATTTAAA
66756331 C
1 C
66756332 TCAAACATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.27, G:0.06, T:0.24
Consensus pattern (16 bp):
CACAACTGCATTTAAA
Found at i:66762634 original size:20 final size:20
Alignment explanation
Indices: 66762609--66762650 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
66762599 AATATAGATG
66762609 TTCATTTTTTATGATATGTA
1 TTCATTTTTTATGATATGTA
66762629 TTCATTTTTTATGATATGTA
1 TTCATTTTTTATGATATGTA
66762649 TT
1 TT
66762651 TTTTAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.62
Consensus pattern (20 bp):
TTCATTTTTTATGATATGTA
Found at i:66762653 original size:16 final size:18
Alignment explanation
Indices: 66762606--66762655 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 18
66762596 AGTAATATAG
66762606 ATGTTCATTTTTTATGAT
1 ATGTTCATTTTTTATGAT
66762624 ATGTATTCATTTTTTATGAT
1 ATG--TTCATTTTTTATGAT
66762644 ATG-T-ATTTTTTA
1 ATGTTCATTTTTTA
66762656 AATTTTGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.27
17 1 0.03
18 3 0.10
20 18 0.60
ACGTcount: A:0.24, C:0.04, G:0.10, T:0.62
Consensus pattern (18 bp):
ATGTTCATTTTTTATGAT
Found at i:66763435 original size:16 final size:16
Alignment explanation
Indices: 66763414--66763444 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
66763404 ACGATGAATA
66763414 GGGGACCGACCCTTCG
1 GGGGACCGACCCTTCG
66763430 GGGGACCGACCCTTC
1 GGGGACCGACCCTTC
66763445 AAGAATACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.39, G:0.35, T:0.13
Consensus pattern (16 bp):
GGGGACCGACCCTTCG
Found at i:66778717 original size:27 final size:26
Alignment explanation
Indices: 66778687--66778890 Score: 192
Period size: 27 Copynumber: 7.5 Consensus size: 26
66778677 AAATTGTACA
66778687 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* *
66778714 GCACTAAGTGTGCGAAATGAATATGTT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* * *
66778741 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
66778768 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
*
66778795 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTT
* * *
66778823 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTT
* * *
66778850 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTT
*
66778877 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
66778891 GACTCGATAT
Statistics
Matches: 154, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 128 0.83
28 25 0.16
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:66778747 original size:54 final size:53
Alignment explanation
Indices: 66778687--66778890 Score: 221
Period size: 54 Copynumber: 3.8 Consensus size: 53
66778677 AAATTGTACA
* * *
66778687 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGTT
1 GCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAATTGAATATGTG
* * ** *
66778741 GCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTA-GCACTAAGTGTGCGAATTGAATATGTG
* * *
66778795 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-T-TGACTATGTAGCACTAAGTGTGCGAATTGAATATGTG
* * *
66778850 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCG
66778891 GACTCGATAT
Statistics
Matches: 127, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.01
54 77 0.61
55 48 0.38
56 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (53 bp):
GCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAATTGAATATGTG
Found at i:66778881 original size:109 final size:108
Alignment explanation
Indices: 66778687--66778890 Score: 284
Period size: 109 Copynumber: 1.9 Consensus size: 108
66778677 AAATTGTACA
* * * *
66778687 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
66778752 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
** *
66778795 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
** * *
66778860 TGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
65 TGCGAAATGAATATGAT-GCACTAAGTGTGCG
66778891 GACTCGATAT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 19 0.23
109 64 0.77
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (108 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
Found at i:66781649 original size:18 final size:19
Alignment explanation
Indices: 66781626--66781664 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
66781616 GGGGTGTTCC
66781626 AAAGGTT-CACTTA-AAGAA
1 AAAGGTTGCA-TTACAAGAA
66781644 AAAGGTTGCATTACAAGAA
1 AAAGGTTGCATTACAAGAA
66781663 AA
1 AA
66781665 CCAAGACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.51, C:0.10, G:0.18, T:0.21
Consensus pattern (19 bp):
AAAGGTTGCATTACAAGAA
Found at i:66790248 original size:23 final size:23
Alignment explanation
Indices: 66790218--66790265 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
66790208 AAGACATTGT
66790218 TTAATTCTATTCAATGAATTTTC
1 TTAATTCTATTCAATGAATTTTC
66790241 TTAATTCTATTCAATGAATTTTC
1 TTAATTCTATTCAATGAATTTTC
66790264 TT
1 TT
66790266 GCTCATATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.54
Consensus pattern (23 bp):
TTAATTCTATTCAATGAATTTTC
Found at i:66791346 original size:15 final size:16
Alignment explanation
Indices: 66791315--66791349 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
66791305 CACACTTATT
66791315 TTCTCAATTTATTTTC
1 TTCTCAATTTATTTTC
*
66791331 TTCTCCATTT-TTTTC
1 TTCTCAATTTATTTTC
66791346 TTCT
1 TTCT
66791350 TTTTCTTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.11, C:0.23, G:0.00, T:0.66
Consensus pattern (16 bp):
TTCTCAATTTATTTTC
Found at i:66798610 original size:17 final size:17
Alignment explanation
Indices: 66798590--66798631 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
66798580 TCTATTCTTT
* *
66798590 ACTTGAATATATTGCAA
1 ACTTGAATATATCGAAA
66798607 ACTTG-ATATATCGAAA
1 ACTTGAATATATCGAAA
66798623 ACTTGAATA
1 ACTTGAATA
66798632 ATTTCTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (17 bp):
ACTTGAATATATCGAAA
Found at i:66800033 original size:29 final size:29
Alignment explanation
Indices: 66799962--66800033 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 29
66799952 ATTCCATAGC
* * *
66799962 TTTTAAATTGTGTC-TTGTTATTACATAG
1 TTTTTAATTGTGTCTTTGTCATTACATAA
**
66799990 TTTTT-ATTACGTCTTTGTCATGT-CATAA
1 TTTTTAATTGTGTCTTTGTCAT-TACATAA
66800018 TTTTTAATTGTGTCTT
1 TTTTTAATTGTGTCTT
66800034 AGTTTGCAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
27 6 0.18
28 19 0.56
29 9 0.26
ACGTcount: A:0.21, C:0.10, G:0.12, T:0.57
Consensus pattern (29 bp):
TTTTTAATTGTGTCTTTGTCATTACATAA
Found at i:66814817 original size:18 final size:18
Alignment explanation
Indices: 66814794--66814841 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
66814784 AAACCCTAGA
66814794 ATTCTTTTGAATCTGATT
1 ATTCTTTTGAATCTGATT
66814812 ATTCTTTGTG-ATCTGATT
1 ATTCTTT-TGAATCTGATT
66814830 -TT-TTTT-AATCTG
1 ATTCTTTTGAATCTG
66814842 TTTTGGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 6 0.21
16 3 0.11
17 2 0.07
18 15 0.54
19 2 0.07
ACGTcount: A:0.19, C:0.10, G:0.12, T:0.58
Consensus pattern (18 bp):
ATTCTTTTGAATCTGATT
Found at i:66829375 original size:16 final size:17
Alignment explanation
Indices: 66829356--66829389 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
66829346 AAATATTATG
66829356 AAATAAAAAT-AAACAA
1 AAATAAAAATCAAACAA
*
66829372 AAATAAACATCAAACAA
1 AAATAAAAATCAAACAA
66829389 A
1 A
66829390 CACCATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (17 bp):
AAATAAAAATCAAACAA
Found at i:66843788 original size:33 final size:33
Alignment explanation
Indices: 66843746--66843809 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
66843736 TATTTTGCTG
66843746 TAGTAAATTGTTGGTAAGCATTTTCAATAGTAA
1 TAGTAAATTGTTGGTAAGCATTTTCAATAGTAA
66843779 TAGTAAATTGTTGGTAAGCATTTTCAATAGT
1 TAGTAAATTGTTGGTAAGCATTTTCAATAGT
66843810 TCCAATTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (33 bp):
TAGTAAATTGTTGGTAAGCATTTTCAATAGTAA
Found at i:66849225 original size:17 final size:17
Alignment explanation
Indices: 66849203--66849235 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
66849193 CTAATTTTCT
66849203 AAAAAAAATC-TAAAAG
1 AAAAAAAATCTTAAAAG
66849219 AAAAAAAATCTTAAAAG
1 AAAAAAAATCTTAAAAG
66849236 CCATTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAAAAAATCTTAAAAG
Found at i:66859973 original size:40 final size:39
Alignment explanation
Indices: 66859889--66860073 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
66859879 TTGAATGATG
* * * *
66859889 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
66859929 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
66859969 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
66860008 TCCGGGTTAAGTCCCGAAGGCATTAGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
66860049 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
66860074 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:66860025 original size:79 final size:81
Alignment explanation
Indices: 66859889--66860073 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
66859879 TTGAATGATG
*
66859889 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
66859953 TGTGCGAGATACTA-A
66 AGTGCGAGATACTATA
* * * **
66859968 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
66860030 TTAGTGCGAGTTACTATA
64 TTAGTGCGAGATACTATA
* * *
66860048 ACCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66860074 AACGAGGAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
AGTGCGAGATACTATA
Found at i:66860095 original size:79 final size:79
Alignment explanation
Indices: 66859890--66860106 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
66859880 TGAATGATGT
** * * * **
66859890 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
* *
66859953 TGTGCGAGATACTAATT
63 AGTGCGAGATACTAATA
** * *
66859970 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTAGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTAGT
*
66860035 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * * *
66860049 CCGGGCTATGTCCCGAAGGTATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
66860107 TACGTGATTT
Statistics
Matches: 114, Mismatches: 18, Indels: 11
0.80 0.13 0.08
Matches are distributed among these distances:
78 3 0.03
79 70 0.61
80 41 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTAGT
GCGAGATACTAATA
Found at i:66862601 original size:16 final size:16
Alignment explanation
Indices: 66862582--66862615 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
66862572 GCATATATGA
*
66862582 ATGGTTGGATTCATGG
1 ATGGCTGGATTCATGG
66862598 ATGGCTGGATTCATGG
1 ATGGCTGGATTCATGG
66862614 AT
1 AT
66862616 ATGGCTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.09, G:0.35, T:0.35
Consensus pattern (16 bp):
ATGGCTGGATTCATGG
Found at i:66868257 original size:17 final size:17
Alignment explanation
Indices: 66868235--66868267 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
66868225 TAGACTATAG
*
66868235 CACCTGGTAAATAGTAT
1 CACCTGGCAAATAGTAT
66868252 CACCTGGCAAATAGTA
1 CACCTGGCAAATAGTA
66868268 CCGCTTGACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (17 bp):
CACCTGGCAAATAGTAT
Found at i:66870085 original size:6 final size:6
Alignment explanation
Indices: 66870017--66870071 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
66870007 TTTATTATAG
66870017 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
66870065 ACATAT A
1 ACATAT A
66870072 GAAATATATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:66873444 original size:27 final size:27
Alignment explanation
Indices: 66873403--66873454 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
66873393 TCATTGAAGC
* *
66873403 ATCTTCATTGCTGTCCATGCATGTATT
1 ATCTTCAATGATGTCCATGCATGTATT
66873430 ATCTTCAATGATGTCCATGCATGTA
1 ATCTTCAATGATGTCCATGCATGTA
66873455 CCTACAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.40
Consensus pattern (27 bp):
ATCTTCAATGATGTCCATGCATGTATT
Found at i:66875566 original size:6 final size:6
Alignment explanation
Indices: 66875557--66875680 Score: 72
Period size: 6 Copynumber: 20.0 Consensus size: 6
66875547 TCATTCTCAA
* * * **
66875557 TTTCTT TTTCAAT TTTCTAT TCTTCAT TTTCTT TTTCTC TCACTT TTT-TT
1 TTTCTT TTTC-TT TTTCT-T T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* ** *
66875607 ATTTCTTT TTTCTT TTACAA TTTCTT TTTCTT TTT-TCT TTTCTA TTTCTT
1 -TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT TTTCT-T TTTCTT TTTCTT
** *
66875657 TTTCAC TTTCCT TTTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT
66875681 CTTTTTCATT
Statistics
Matches: 87, Mismatches: 23, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
5 3 0.03
6 65 0.75
7 14 0.16
8 5 0.06
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTCTT
Found at i:66875572 original size:27 final size:27
Alignment explanation
Indices: 66875542--66875593 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
66875532 TTTTTAGTTT
66875542 TTTTCTCATTC-TCAATTTCTTTTTCAA
1 TTTTCT-ATTCTTCAATTTCTTTTTCAA
*
66875569 TTTTCTATTCTTCATTTTCTTTTTC
1 TTTTCTATTCTTCAATTTCTTTTTC
66875594 TCTCACTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.13, C:0.21, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTCTATTCTTCAATTTCTTTTTCAA
Found at i:66875622 original size:18 final size:17
Alignment explanation
Indices: 66875601--66875696 Score: 70
Period size: 18 Copynumber: 5.5 Consensus size: 17
66875591 TTCTCTCACT
66875601 TTTTTTATTTCTTTTTTC
1 TTTTTTATTTC-TTTTTC
**
66875619 TTTTACAATTTCTTTTTC
1 TTTT-TTATTTCTTTTTC
* *
66875637 TTTTTTCTTTTCTATTTC
1 TTTTTT-ATTTCTTTTTC
* *
66875655 TTTTTCACTTTCCTTTTC
1 TTTTTTA-TTTCTTTTTC
*
66875673 -TTTTT-CTTCTTTTTC
1 TTTTTTATTTCTTTTTC
*
66875688 ATTTTTATT
1 TTTTTTATT
66875697 ACAATGTGAG
Statistics
Matches: 59, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
15 8 0.14
16 5 0.08
17 5 0.08
18 36 0.61
19 5 0.08
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTTATTTCTTTTTC
Found at i:66875636 original size:25 final size:24
Alignment explanation
Indices: 66875608--66875660 Score: 88
Period size: 25 Copynumber: 2.2 Consensus size: 24
66875598 ACTTTTTTTA
66875608 TTTCTTTTTTCTTTTACAATTTCTT
1 TTTCTTTTTTCTTTT-CAATTTCTT
*
66875633 TTTCTTTTTTCTTTTCTATTTCTT
1 TTTCTTTTTTCTTTTCAATTTCTT
66875657 TTTC
1 TTTC
66875661 ACTTTCCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTCTTTTTTCTTTTCAATTTCTT
Found at i:66875653 original size:24 final size:24
Alignment explanation
Indices: 66875608--66875680 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
66875598 ACTTTTTTTA
*
66875608 TTTCTTTTTTCTTTTACAATTTCTT
1 TTTCTTTTTTCTTTT-CTATTTCTT
66875633 TTTCTTTTTTCTTTTCTATTTCTT
1 TTTCTTTTTTCTTTTCTATTTCTT
** * *
66875657 TTTCACTTTCCTTTTCTTTTTCTT
1 TTTCTTTTTTCTTTTCTATTTCTT
66875681 CTTTTTCATT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 28 0.65
25 15 0.35
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTCTTTTTTCTTTTCTATTTCTT
Found at i:66879176 original size:40 final size:40
Alignment explanation
Indices: 66879131--66879438 Score: 535
Period size: 40 Copynumber: 7.7 Consensus size: 40
66879121 GCAAACACAT
* *
66879131 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
66879171 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
66879211 TTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
* *
66879251 TTGCCTTCGGGTCATAGCCCGGATATATTATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
* *
66879291 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
66879331 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
66879371 TTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
66879411 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
66879439 TCCAATGCTC
Statistics
Matches: 255, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 255 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
Found at i:66899736 original size:79 final size:82
Alignment explanation
Indices: 66899625--66899810 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 82
66899615 GCTACTCGTT
* *
66899625 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
66899688 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
66899705 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
66899768 GATATAGTCACTTAGCA
66 GATATAGTAACTTAGCA
*
66899785 CAAAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66899811 CATCATTCGA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
78 3 0.03
79 48 0.52
80 30 0.33
81 11 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:66899739 original size:39 final size:41
Alignment explanation
Indices: 66899625--66899810 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 41
66899615 GCTACTCGTT
* *
66899625 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* *
66899665 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
*
66899705 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * *
66899744 CAAATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATATAGTAAC-TCGCA
*
66899785 CAAAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66899811 CATCATTCGA
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 66 0.52
41 23 0.18
42 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:66912444 original size:20 final size:20
Alignment explanation
Indices: 66912421--66912458 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66912411 ATTTATTCGC
* *
66912421 GATTTTCAATATTTTGTAAA
1 GATTTTAAAAATTTTGTAAA
66912441 GATTTTAAAAATTTTGTA
1 GATTTTAAAAATTTTGTA
66912459 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.50
Consensus pattern (20 bp):
GATTTTAAAAATTTTGTAAA
Found at i:66913153 original size:74 final size:74
Alignment explanation
Indices: 66913032--66913178 Score: 276
Period size: 74 Copynumber: 2.0 Consensus size: 74
66913022 ATTCTTCTTT
66913032 TTCTATTTTTCTTCTTCAAAACCATTCATCAATTCTGCTGTTCATCGATACTTTTGCCGAATCCA
1 TTCTATTTTTCTTCTTCAAAACCATTCATCAATTCTGCTGTTCATCGATACTTTTGCCGAATCCA
66913097 TAAAAGCCG
66 TAAAAGCCG
* *
66913106 TTCTATTTTTCTTCTTCAAAACCATTCATTAATTCTGCTGTTCATCGATACTTTTGCCGAATCTA
1 TTCTATTTTTCTTCTTCAAAACCATTCATCAATTCTGCTGTTCATCGATACTTTTGCCGAATCCA
66913171 TAAAAGCC
66 TAAAAGCC
66913179 AAAATCTTGA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (74 bp):
TTCTATTTTTCTTCTTCAAAACCATTCATCAATTCTGCTGTTCATCGATACTTTTGCCGAATCCA
TAAAAGCCG
Found at i:66924962 original size:37 final size:37
Alignment explanation
Indices: 66924921--66925030 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 37
66924911 CATCACCAAC
66924921 GTCCCAGACATGGTCTTACATGTAATCACATGCC-ACT
1 GTCCCAGACATGGTCTTACATGTAATCACATGCCGA-T
*
66924958 GTCCCAGACAGGGTCTTACATG-AACTCATATACAATGCCGAT
1 GTCCCAGACATGGTCTTACATGTAA-TC----AC-ATGCCGAT
*
66925000 GTCCCAGACATGGTCTTACACGTAAATCACA
1 GTCCCAGACATGGTCTTACATGT-AATCACA
66925031 AATCGATGCC
Statistics
Matches: 61, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.03
37 23 0.38
38 1 0.02
39 2 0.03
41 2 0.03
42 26 0.43
43 3 0.05
44 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (37 bp):
GTCCCAGACATGGTCTTACATGTAATCACATGCCGAT
Found at i:66934769 original size:71 final size:71
Alignment explanation
Indices: 66934681--66934986 Score: 612
Period size: 71 Copynumber: 4.3 Consensus size: 71
66934671 CGATTTTTCT
66934681 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCATGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCATGCATGCGACCTAGCTACATTTAT
66934746 CTCTCA
66 CTCTCA
66934752 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCATGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCATGCATGCGACCTAGCTACATTTAT
66934817 CTCTCA
66 CTCTCA
66934823 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCATGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCATGCATGCGACCTAGCTACATTTAT
66934888 CTCTCA
66 CTCTCA
66934894 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCATGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCATGCATGCGACCTAGCTACATTTAT
66934959 CTCTCA
66 CTCTCA
66934965 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
66934987 GATACATCCC
Statistics
Matches: 235, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 235 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCATGCATGCGACCTAGCTACATTTAT
CTCTCA
Found at i:66951178 original size:34 final size:34
Alignment explanation
Indices: 66951111--66951178 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
66951101 ATTGAAATGA
* * *
66951111 AAGGATATTTGATATTTGATAGTTCTGATCTGTG
1 AAGGATATTTGACATTTGATAGTTCTAAACTGTG
*
66951145 AAGGATATTTGACATTTGATGGTTCTAAACTGTG
1 AAGGATATTTGACATTTGATAGTTCTAAACTGTG
66951179 TTATGAGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (34 bp):
AAGGATATTTGACATTTGATAGTTCTAAACTGTG
Found at i:66961934 original size:48 final size:49
Alignment explanation
Indices: 66961862--66961991 Score: 149
Period size: 48 Copynumber: 2.7 Consensus size: 49
66961852 CTCACACACT
* * * *
66961862 AAGTGCTCATATCATGGCCTGAAGCCAACTCAATA-TATCTCGCACCCG
1 AAGTGCTAATATCATGGCCCGAAGCCAAATCAATAGTAACTCGCACCCG
**
66961910 AAGTGCTAATATCATGGCCCGAAGCCAAATCAA-AGTAACTCGCACTTG
1 AAGTGCTAATATCATGGCCCGAAGCCAAATCAATAGTAACTCGCACCCG
* * *
66961958 AAGT-ATCGATATCATGGCCCGAAGCTAAATCAAT
1 AAGTGCT-AATATCATGGCCCGAAGCCAAATCAAT
66961992 GAATCCCCTA
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
47 2 0.03
48 68 0.97
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (49 bp):
AAGTGCTAATATCATGGCCCGAAGCCAAATCAATAGTAACTCGCACCCG
Found at i:66965416 original size:43 final size:44
Alignment explanation
Indices: 66965294--66965416 Score: 153
Period size: 43 Copynumber: 2.8 Consensus size: 44
66965284 TACTGAGATG
*
66965294 TGATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTATTA
1 TGATTGCATGTAAGACCATGTCTGGGACATTGGCATCTGTATTA
66965337 TGATTGCATGTAAGACCATGTCTGGGACATTGGCATCAT-TATT-
1 TGATTGCATGTAAGACCATGTCTGGGACATTGGCATC-TGTATTA
*** * * *
66965380 TGATTTTGTGTAAGACCCTGTCTAGGACAGTGGCATC
1 TGATTGCATGTAAGACCATGTCTGGGACATTGGCATC
66965417 GACATGTGGT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
43 66 0.93
44 4 0.06
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (44 bp):
TGATTGCATGTAAGACCATGTCTGGGACATTGGCATCTGTATTA
Found at i:66972388 original size:44 final size:43
Alignment explanation
Indices: 66972337--66972420 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 43
66972327 AACTCATATA
*
66972337 CGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAAT
1 CGATGCCAACGTCCCAGACATGGTCTTACACG-AAATCACAAAT
*
66972381 CGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACA
1 CGATGCCAACGTCCCAGACATGGTCTTACACGAAATCACA
66972421 TATCAGAATC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 8 0.21
44 30 0.79
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (43 bp):
CGATGCCAACGTCCCAGACATGGTCTTACACGAAATCACAAAT
Found at i:66973550 original size:13 final size:13
Alignment explanation
Indices: 66973532--66973569 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
66973522 ATAAACGATA
66973532 AAATTTTCACACC
1 AAATTTTCACACC
66973545 AAATTTTCACACC
1 AAATTTTCACACC
66973558 AAATTTTCACAC
1 AAATTTTCACAC
66973570 ATATAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACC
Found at i:66975299 original size:67 final size:68
Alignment explanation
Indices: 66975191--66975330 Score: 203
Period size: 67 Copynumber: 2.1 Consensus size: 68
66975181 GAGGAAGCGT
* * * *
66975191 TCTGGCAGCCTCGCTGCAATCTAGTGGTCTCGCCAC-ATATATCTGTTCTGGTGACTTCGTCACA
1 TCTGGCAGCCTCACTGCAATCTAGTGGTCTCGCCACAATATATCTGTTCTGGTGACCTAGCCACA
66975255 ATA
66 ATA
*
66975258 TCTGGCAGCCTCACTGCAATCTAGTGG-CTTCGCCACATATATATCTGTTCTGGTGGCCTAGCCA
1 TCTGGCAGCCTCACTGCAATCTAGTGGTC-TCGCCACA-ATATATCTGTTCTGGTGACCTAGCCA
66975322 CAATA
64 CAATA
66975327 TCTG
1 TCTG
66975331 TATCTGGTGA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
66 1 0.02
67 33 0.51
69 31 0.48
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.31
Consensus pattern (68 bp):
TCTGGCAGCCTCACTGCAATCTAGTGGTCTCGCCACAATATATCTGTTCTGGTGACCTAGCCACA
ATA
Found at i:66975350 original size:27 final size:26
Alignment explanation
Indices: 66975298--66975357 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
66975288 CGCCACATAT
*
66975298 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
66975324 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
66975351 ATATCTG
1 ATATCTG
66975358 GCAGCCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:66975386 original size:96 final size:96
Alignment explanation
Indices: 66975222--66975469 Score: 462
Period size: 96 Copynumber: 2.6 Consensus size: 96
66975212 TAGTGGTCTC
66975222 GCCACATATATCTGT-TCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTGCAATCTAGTGGC
1 GCCACA-ATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTGCAATCTAGTGGC
66975286 TTCGCCACATATATATCTGTTCTGGTGGCCTA
65 TTCGCCACATATATATCTGTTCTGGTGGCCTA
66975318 GCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTGCAATCTAGTGGCT
1 GCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTGCAATCTAGTGGCT
66975383 TCGCCACATATATATCTGTTCTGGTGGCCTA
66 TCGCCACATATATATCTGTTCTGGTGGCCTA
* *
66975414 GCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCTTCATTGCAAT
1 GCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTGCAAT
66975470 TTCTGTGGTA
Statistics
Matches: 149, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
95 8 0.05
96 141 0.95
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (96 bp):
GCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTGCAATCTAGTGGCT
TCGCCACATATATATCTGTTCTGGTGGCCTA
Found at i:66975446 original size:27 final size:26
Alignment explanation
Indices: 66975394--66975453 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
66975384 CGCCACATAT
*
66975394 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
66975420 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
66975447 ATATCTG
1 ATATCTG
66975454 GCAGCTTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:66982920 original size:67 final size:67
Alignment explanation
Indices: 66982745--66982906 Score: 306
Period size: 67 Copynumber: 2.4 Consensus size: 67
66982735 AAGGAAGCGT
*
66982745 TCTGGTAGCCTCGCTGCAATCTGGTGGCCTTGCGACGTATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTTGCGACGTATATCTGTTCTGGTGACTTCGTCACAA
66982810 TA
66 TA
66982812 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTTGCGACGTATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTTGCGACGTATATCTGTTCTGGTGACTTCGTCACAA
66982877 TA
66 TA
*
66982879 TCTGGCAGCCTCGCTGCAATCTAGTGGC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGC
66982907 TTCGCCGCAT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 93 1.00
ACGTcount: A:0.16, C:0.27, G:0.26, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTTGCGACGTATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:66984235 original size:72 final size:72
Alignment explanation
Indices: 66984118--66984375 Score: 516
Period size: 72 Copynumber: 3.6 Consensus size: 72
66984108 ATCATAATTA
66984118 CACATTTTACATACAATTAACATGATAAAAATTAGCATGAATTTTATTAAAATCTTATAGTCATA
1 CACATTTTACATACAATTAACATGATAAAAATTAGCATGAATTTTATTAAAATCTTATAGTCATA
66984183 ACCTAAT
66 ACCTAAT
66984190 CACATTTTACATACAATTAACATGATAAAAATTAGCATGAATTTTATTAAAATCTTATAGTCATA
1 CACATTTTACATACAATTAACATGATAAAAATTAGCATGAATTTTATTAAAATCTTATAGTCATA
66984255 ACCTAAT
66 ACCTAAT
66984262 CACATTTTACATACAATTAACATGATAAAAATTAGCATGAATTTTATTAAAATCTTATAGTCATA
1 CACATTTTACATACAATTAACATGATAAAAATTAGCATGAATTTTATTAAAATCTTATAGTCATA
66984327 ACCTAAT
66 ACCTAAT
66984334 CACATTTTACATACAATTAACATGATAAAAATTAGCATGAAT
1 CACATTTTACATACAATTAACATGATAAAAATTAGCATGAAT
66984376 AATATTCCTA
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 186 1.00
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (72 bp):
CACATTTTACATACAATTAACATGATAAAAATTAGCATGAATTTTATTAAAATCTTATAGTCATA
ACCTAAT
Found at i:66994326 original size:20 final size:19
Alignment explanation
Indices: 66994301--66994338 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
66994291 AATACCACTA
66994301 TTAAAACAAAATAAAAATAT
1 TTAAAA-AAAATAAAAATAT
*
66994321 TTAAAAATAATAAAAATA
1 TTAAAAAAAATAAAAATA
66994339 AAACTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
TTAAAAAAAATAAAAATAT
Found at i:66994336 original size:25 final size:22
Alignment explanation
Indices: 66994308--66994376 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 22
66994298 CTATTAAAAC
*
66994308 AAAATAAAAATATTTAAAAATAATA
1 AAAATAAAAATA-AT-AAAA-AATA
*
66994333 AAAATAAAACTAATAAAAAATA
1 AAAATAAAAATAATAAAAAATA
*
66994355 AAAAT-AAAA-AATAAGAAATA
1 AAAATAAAAATAATAAAAAATA
66994375 AA
1 AA
66994377 GCCAAAAAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 12 0.30
21 3 0.08
22 9 0.22
23 4 0.10
24 1 0.03
25 11 0.28
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.20
Consensus pattern (22 bp):
AAAATAAAAATAATAAAAAATA
Found at i:66994340 original size:15 final size:15
Alignment explanation
Indices: 66994322--66994375 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
66994312 TAAAAATATT
66994322 TAAAAATAATAAAAA
1 TAAAAATAATAAAAA
*
66994337 TAAAACTAATAAAAAA
1 TAAAAATAAT-AAAAA
66994353 TAAAAAT-A-AAAAA
1 TAAAAATAATAAAAA
66994366 TAAGAAATAA
1 TAA-AAATAA
66994376 AGCCAAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 8 0.24
14 4 0.12
15 11 0.32
16 11 0.32
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (15 bp):
TAAAAATAATAAAAA
Found at i:66994357 original size:22 final size:20
Alignment explanation
Indices: 66994324--66994376 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 20
66994314 AAAATATTTA
66994324 AAAATAATAAAAATAAAACTAAT
1 AAAA-AATAAAAATAAAA--AAT
66994347 AAAAAATAAAAATAAAAAAT
1 AAAAAATAAAAATAAAAAAT
*
66994367 AAGAAATAAA
1 AAAAAATAAA
66994377 GCCAAAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 12 0.41
22 13 0.45
23 4 0.14
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (20 bp):
AAAAAATAAAAATAAAAAAT
Found at i:66994362 original size:13 final size:14
Alignment explanation
Indices: 66994344--66994376 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
66994334 AAATAAAACT
66994344 AATAAAAAATAA-A
1 AATAAAAAATAAGA
66994357 AATAAAAAATAAGA
1 AATAAAAAATAAGA
66994371 AATAAA
1 AATAAA
66994377 GCCAAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (14 bp):
AATAAAAAATAAGA
Found at i:67000534 original size:47 final size:46
Alignment explanation
Indices: 67000480--67000797 Score: 405
Period size: 47 Copynumber: 6.8 Consensus size: 46
67000470 TCTATCAATA
*
67000480 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCC-AG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAAC-T-CCCCTAG
*
67000527 AGTACCTATACCATGGCCTC-TAGCCAAATCAAGGTAACTCCCCTTTG
1 AGTACCTATACCATGGCC-CGTAGCCAAATCAAGGTAACTCCCC-TAG
* *
67000574 AATACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCC-AG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAAC-T-CCCCTAG
*
67000621 AGTACCTATACCATGGCCTC-TAGCCAAATCAAGGTAACTCCCCTTTG
1 AGTACCTATACCATGGCC-CGTAGCCAAATCAAGGTAACTCCCC-TAG
* *
67000668 AATACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCC-AG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAAC-T-CCCCTAG
*
67000715 AGTACCTATACCATGGCCTC-TAGCCAAATCAAGGTAACTCCCCTTTG
1 AGTACCTATACCATGGCC-CGTAGCCAAATCAAGGTAACTCCCC-TAG
*
67000762 AATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
67000798 TCACTCAAAC
Statistics
Matches: 240, Mismatches: 15, Indels: 32
0.84 0.05 0.11
Matches are distributed among these distances:
45 9 0.04
46 6 0.03
47 214 0.89
48 5 0.02
49 6 0.03
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (46 bp):
AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCCCTAG
Found at i:67000643 original size:94 final size:94
Alignment explanation
Indices: 67000482--67000797 Score: 632
Period size: 94 Copynumber: 3.4 Consensus size: 94
67000472 TATCAATAAG
67000482 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCAGAGTACCTATACCATGGCCTC
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCAGAGTACCTATACCATGGCCTC
67000547 TAGCCAAATCAAGGTAACTCCCCTTTGAA
66 TAGCCAAATCAAGGTAACTCCCCTTTGAA
67000576 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCAGAGTACCTATACCATGGCCTC
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCAGAGTACCTATACCATGGCCTC
67000641 TAGCCAAATCAAGGTAACTCCCCTTTGAA
66 TAGCCAAATCAAGGTAACTCCCCTTTGAA
67000670 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCAGAGTACCTATACCATGGCCTC
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCAGAGTACCTATACCATGGCCTC
67000735 TAGCCAAATCAAGGTAACTCCCCTTTGAA
66 TAGCCAAATCAAGGTAACTCCCCTTTGAA
67000764 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
67000798 TCACTCAAAC
Statistics
Matches: 222, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 222 1.00
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (94 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCAGAGTACCTATACCATGGCCTC
TAGCCAAATCAAGGTAACTCCCCTTTGAA
Found at i:67009426 original size:36 final size:36
Alignment explanation
Indices: 67009374--67009447 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
67009364 AAGGTGTGAT
*
67009374 ATCAACTTTTCTATATTTTATTCAATTCTTATTCAA
1 ATCAACTTTTCTATATTTTATTCAATTCTTAGTCAA
*
67009410 ATCATCTTTTCTATATTTTATTCAATTCTTAGTCAA
1 ATCAACTTTTCTATATTTTATTCAATTCTTAGTCAA
67009446 AT
1 AT
67009448 AGGCCACCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.30, C:0.16, G:0.01, T:0.53
Consensus pattern (36 bp):
ATCAACTTTTCTATATTTTATTCAATTCTTAGTCAA
Found at i:67011103 original size:51 final size:51
Alignment explanation
Indices: 67011027--67011131 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 51
67011017 TCCTCAATGA
*
67011027 GAATGGGAACAATCGTAAGTGTATAGTATCATCAGTAACGCCATTGATCTT
1 GAATGGGAACAACCGTAAGTGTATAGTATCATCAGTAACGCCATTGATCTT
* *
67011078 GAATGGGAACAACCGTAAGTGTATAGTATCATTAGTAACGTCATTGATCTT
1 GAATGGGAACAACCGTAAGTGTATAGTATCATCAGTAACGCCATTGATCTT
67011129 GAA
1 GAA
67011132 AGTGTCAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (51 bp):
GAATGGGAACAACCGTAAGTGTATAGTATCATCAGTAACGCCATTGATCTT
Found at i:67011589 original size:13 final size:14
Alignment explanation
Indices: 67011539--67011590 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
67011529 AAAACCTATC
*
67011539 AAAATCAAACAAACA
1 AAAAT-AAAAAAACA
*
67011554 AAAATAAAAAATC-
1 AAAATAAAAAAACA
*
67011567 AAATTAAAAAAACA
1 AAAATAAAAAAACA
67011581 AAAATAAAAA
1 AAAATAAAAA
67011591 TGACTAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 11 0.35
14 15 0.48
15 5 0.16
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAATAAAAAAACA
Found at i:67017667 original size:45 final size:45
Alignment explanation
Indices: 67017618--67017704 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
67017608 CCAAAACATG
* * * * *
67017618 TGTCACATAAATCATGAATTTAGACCACAACTCAATGAGTTCGGA
1 TGTCACATAAATCATGAACTCAAAACACAACTCAATAAGTTCGGA
*
67017663 TGTCACATATATCATGAACTCAAAACACAACTCAATAAGTTC
1 TGTCACATAAATCATGAACTCAAAACACAACTCAATAAGTTC
67017705 AGATTAGATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.26
Consensus pattern (45 bp):
TGTCACATAAATCATGAACTCAAAACACAACTCAATAAGTTCGGA
Found at i:67019222 original size:32 final size:32
Alignment explanation
Indices: 67019186--67019277 Score: 121
Period size: 32 Copynumber: 2.9 Consensus size: 32
67019176 TTGAATTTTT
*
67019186 GTACATACATGTACTATATTGTACCAATTTCC
1 GTACATACATGTACCATATTGTACCAATTTCC
*
67019218 GTACATACGTGTACCATATTGTACCAATTTCC
1 GTACATACATGTACCATATTGTACCAATTTCC
* * * * *
67019250 GTAGATACCTGTATCATCTCGTACCAAT
1 GTACATACATGTACCATATTGTACCAAT
67019278 CTCATACTCA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (32 bp):
GTACATACATGTACCATATTGTACCAATTTCC
Found at i:67019386 original size:28 final size:28
Alignment explanation
Indices: 67019355--67019454 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 28
67019345 CCGATACCTT
*
67019355 GCACACTAAGTGCCGTTCTGGATGTTTC
1 GCACACTAAGTGCCATTCTGGATGTTTC
* *
67019383 GCACACTAAGTGCCATCCT-CAT-TACTTC
1 GCACACTAAGTGCCATTCTGGATGT--TTC
*
67019411 GCACACTAAGTGCCATTCTGGATGTATC
1 GCACACTAAGTGCCATTCTGGATGTTTC
*
67019439 GCACACTAAGTACCAT
1 GCACACTAAGTGCCAT
67019455 CCCCGATACT
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.02
27 2 0.03
28 55 0.90
29 2 0.03
30 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTGGATGTTTC
Found at i:67019386 original size:56 final size:56
Alignment explanation
Indices: 67019355--67019481 Score: 184
Period size: 56 Copynumber: 2.3 Consensus size: 56
67019345 CCGATACCTT
* *
67019355 GCACACTAAGTGCCGTTCTGGATGTTTCGCACACTAAGTGCCATCCTCATTACTTC
1 GCACACTAAGTGCCATTCTGGATGTATCGCACACTAAGTGCCATCCTCATTACTTC
* *
67019411 GCACACTAAGTGCCATTCTGGATGTATCGCACACTAAGTACCATCCCCGA-TACTTC
1 GCACACTAAGTGCCATTCTGGATGTATCGCACACTAAGTGCCATCCTC-ATTACTTC
**
67019467 GCACGTTAAGTGCCA
1 GCACACTAAGTGCCA
67019482 CATATAATTA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
56 63 0.98
57 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (56 bp):
GCACACTAAGTGCCATTCTGGATGTATCGCACACTAAGTGCCATCCTCATTACTTC
Done.