Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 223 of 378
Found at i:66087936 original size:49 final size:48
Alignment explanation
Indices: 66087864--66088041 Score: 200
Period size: 49 Copynumber: 3.7 Consensus size: 48
66087854 GGGGTAGAAT
* * * *
66087864 GCCGATGCCATGTCCCAAACATGGTCTTACACTGACTATCGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-AAATCGTG
* * * *
66087913 GCCGACGCCATGTCCCAGACATGGTCTTTCACTGGCTCTCACATCTCTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAATC-GTG
* *
66087962 TACTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-AATCGTG
*
66088011 GCCGATG-CATGTCCTAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
66088042 AGCACACAAT
Statistics
Matches: 109, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
46 10 0.09
47 13 0.12
48 9 0.08
49 38 0.35
50 37 0.34
51 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAATCGTG
Found at i:66092329 original size:47 final size:47
Alignment explanation
Indices: 66092260--66092354 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
66092250 TGGGCTAGAT
66092260 GGGCCACACGAGCGTGTAGGTTATCTAAGTCGCTCGAGGCAACGGTA
1 GGGCCACACGAGCGTGTAGGTTATCTAAGTCGCTCGAGGCAACGGTA
**
66092307 GGGCCACACGAGCGTGTAGGTTATCTAAGTCGCTCGAGGTGACGGTA
1 GGGCCACACGAGCGTGTAGGTTATCTAAGTCGCTCGAGGCAACGGTA
66092354 G
1 G
66092355 ACCCTCTAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.22, C:0.22, G:0.36, T:0.20
Consensus pattern (47 bp):
GGGCCACACGAGCGTGTAGGTTATCTAAGTCGCTCGAGGCAACGGTA
Found at i:66094041 original size:30 final size:30
Alignment explanation
Indices: 66093987--66094043 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
66093977 TTTACGAGCA
*
66093987 TTGGGGCAAAAGTGCAAATATGTAAAAGTT
1 TTGGGGCAAAAGTGAAAATATGTAAAAGTT
*
66094017 TTGGGGTCAAAA-TGAAAATTTGTAAAA
1 TTGGGG-CAAAAGTGAAAATATGTAAAA
66094044 ATATGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.42, C:0.05, G:0.25, T:0.28
Consensus pattern (30 bp):
TTGGGGCAAAAGTGAAAATATGTAAAAGTT
Found at i:66099529 original size:40 final size:39
Alignment explanation
Indices: 66099484--66099647 Score: 165
Period size: 40 Copynumber: 4.2 Consensus size: 39
66099474 CGGAATATAA
66099484 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAT-AC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
66099524 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAAT-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
66099564 CCGGATAT-A-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
66099601 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAA-TACTAGCACAAATGCCTTCGGGTCTTAGC
66099640 CCGGATAT
1 CCGGATAT
66099648 CATTCAATTT
Statistics
Matches: 105, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
37 31 0.30
38 1 0.01
39 15 0.14
40 58 0.55
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:66099631 original size:77 final size:76
Alignment explanation
Indices: 66099500--66099647 Score: 192
Period size: 77 Copynumber: 1.9 Consensus size: 76
66099490 ATAATCACGT
*
66099500 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
66099565 CGGATATAACTA
65 CGGATATAACTA
* * ** * *
66099577 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
66099640 CCGGATAT
64 CCGGATAT
66099648 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
76 17 0.27
77 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (76 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAACTA
Found at i:66100496 original size:17 final size:19
Alignment explanation
Indices: 66100473--66100518 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
66100463 AAGAAGCATG
66100473 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
66100491 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
66100509 AATCATGCTC
1 AATCATGCTC
66100519 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:66107531 original size:40 final size:40
Alignment explanation
Indices: 66107486--66107652 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
66107476 CGGAATATAA
66107486 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
66107526 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
66107566 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
66107606 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
66107645 CCGGATAT
1 CCGGATAT
66107653 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:66107636 original size:80 final size:79
Alignment explanation
Indices: 66107486--66107652 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
66107476 CGGAATATAA
* *
66107486 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
66107551 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
66107566 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
66107628 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
66107645 CCGGATAT
1 CCGGATAT
66107653 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:66108501 original size:17 final size:19
Alignment explanation
Indices: 66108478--66108523 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
66108468 AAGAAGCATG
66108478 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
66108496 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
66108514 AATCATGCTC
1 AATCATGCTC
66108524 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:66111867 original size:21 final size:21
Alignment explanation
Indices: 66111841--66111881 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
66111831 TCAAAACAAC
*
66111841 ATAGTTTTGCCTTTTAACTTG
1 ATAGTTTTGACTTTTAACTTG
*
66111862 ATAGTTTTTACTTTTAACTT
1 ATAGTTTTGACTTTTAACTT
66111882 TAGAAAAGGT
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:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (21 bp):
ATAGTTTTGACTTTTAACTTG
Found at i:66112698 original size:70 final size:70
Alignment explanation
Indices: 66112615--66112753 Score: 226
Period size: 70 Copynumber: 2.0 Consensus size: 70
66112605 AAAAATTGGA
66112615 CCACGATTCGATTTCTTGATTTTCTTGAAAACAAG-AATGTAAATCTTGATTTTCTTTTTCCGTC
1 CCACGATTCGATTTCTTGATTTTCTTGAAAACAAGAAAT-TAAATCTTGATTTTCTTTTTCCGTC
66112679 ATGTGC
65 ATGTGC
* * * *
66112685 CCACGATTTGATTTCTTGATTTTCTTGAAAACAAGAAATTGATTCTTGATTTTCTTTTTCTGTCA
1 CCACGATTCGATTTCTTGATTTTCTTGAAAACAAGAAATTAAATCTTGATTTTCTTTTTCCGTCA
66112750 TGTG
66 TGTG
66112754 TGCATCTAGG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
70 61 0.95
71 3 0.05
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (70 bp):
CCACGATTCGATTTCTTGATTTTCTTGAAAACAAGAAATTAAATCTTGATTTTCTTTTTCCGTCA
TGTGC
Found at i:66118777 original size:26 final size:26
Alignment explanation
Indices: 66118739--66118793 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
66118729 TTAAGATCCC
66118739 AGTACGTAAAGTATCTGCCAAATTAA
1 AGTACGTAAAGTATCTGCCAAATTAA
*
66118765 AGTACGTAGAGTATCTGCCAAATTAA
1 AGTACGTAAAGTATCTGCCAAATTAA
66118791 AGT
1 AGT
66118794 GTTGGAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (26 bp):
AGTACGTAAAGTATCTGCCAAATTAA
Found at i:66120642 original size:20 final size:20
Alignment explanation
Indices: 66120617--66120657 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
66120607 TGAATAAAAA
66120617 AAACTATGATTTTATATTCT
1 AAACTATGATTTTATATTCT
66120637 AAACTATGATTTTATATTCT
1 AAACTATGATTTTATATTCT
66120657 A
1 A
66120658 CTCAATAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.49
Consensus pattern (20 bp):
AAACTATGATTTTATATTCT
Found at i:66123032 original size:18 final size:18
Alignment explanation
Indices: 66123009--66123043 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
66122999 CTCAAACCAA
66123009 ATACCAAAATATCTAATG
1 ATACCAAAATATCTAATG
*
66123027 ATACCAAAATTTCTAAT
1 ATACCAAAATATCTAAT
66123044 AAATAACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (18 bp):
ATACCAAAATATCTAATG
Found at i:66123083 original size:26 final size:26
Alignment explanation
Indices: 66123053--66123106 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
66123043 TAAATAACAA
66123053 AAATCTGTAAATAATACCAAATCTCT
1 AAATCTGTAAATAATACCAAATCTCT
*
66123079 AAATCTGTAAATGATACCAAATCTCT
1 AAATCTGTAAATAATACCAAATCTCT
66123105 AA
1 AA
66123107 TGTATAACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (26 bp):
AAATCTGTAAATAATACCAAATCTCT
Found at i:66123801 original size:263 final size:250
Alignment explanation
Indices: 66123441--66123962 Score: 595
Period size: 250 Copynumber: 2.0 Consensus size: 250
66123431 TTGTAAACTA
* * * *
66123441 AAAAATTTCAATACACCTCTGATATTTTTTAGATTTAAAATCAACACCCAAAATAATTTTTTTAT
1 AAAATTTTCAATACAACTCTCATATTTTTTA-ATTCAAAATCAACACCCAAAATAATTTTTTTAT
* *** * *
66123506 AAAACATTTTTTAAATTTTTAACACCAAAATCTCTCTCTTCAAAAACAAAAAAAAAATTGAAAAT
65 AAAAAATTTCGAAAAATTTTAACACCAAAA--TCT-T-TTC----A-AAAAAAAAAA-GGAAAA-
* *
66123571 TTCTTAAAACT-ATTTGGCAATGAAGATGAGTAAGAACAACTATAATTTGTAAGAGAAGTCAGCA
119 TT-TGAAAACTGA-TTGGCAATGAAGATGAGCAAGAACAAC-ATAATTTGTAAGAGAAGTCAGCA
* ** * * *
66123635 ACATAAATCGATTGGAGTTGTTGACTTTTCATTTATATTTTAGTATTTATTACA-AATTTCG-AT
181 ACATAAATCAAGAGGAGTTGGTGACTTTTCATTTATATTTCAGTATTCATTACAGAATTTCGTAT
*
66123698 GTCTTT
246 CT-TTT
* *
66123704 AAAATTTTCAATACAACTCTCAT-TTTTTT-ATTCAAAATCAACGCTCAAAATAAATTTTGTTTA
1 AAAATTTTCAATACAACTCTCATATTTTTTAATTCAAAATCAACACCCAAAAT-AATTTT-TTTA
* ** *
66123767 TAAAAAAATTTCGAAAAATTTTAACACTAAAATCTTTTCATTAAAAAAAAGGGAAATTTGAAAAC
64 T-AAAAAATTTCGAAAAATTTTAACACCAAAATCTTTTCAAAAAAAAAAAGGAAAATTTGAAAAC
**
66123832 TGATTGTTAATGAAGATGAGCAAGAACAACATAATTTGTAAGAGAAGTCAGCAACATAAATCAAG
128 TGATTGGCAATGAAGATGAGCAAGAACAACATAATTTGTAAGAGAAGTCAGCAACATAAATCAAG
66123897 AGGAGTTGGTGACTTTTCATTTATATTTCAGTATTCATTACAGAATTTCGTATCTTTT
193 AGGAGTTGGTGACTTTTCATTTATATTTCAGTATTCATTACAGAATTTCGTATCTTTT
66123955 AAAATTTT
1 AAAATTTT
66123963 TACTATTGCT
Statistics
Matches: 226, Mismatches: 27, Indels: 24
0.82 0.10 0.09
Matches are distributed among these distances:
250 71 0.31
251 49 0.22
252 6 0.03
253 4 0.02
254 8 0.04
255 1 0.00
259 3 0.01
260 20 0.09
261 9 0.04
262 11 0.05
263 44 0.19
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.36
Consensus pattern (250 bp):
AAAATTTTCAATACAACTCTCATATTTTTTAATTCAAAATCAACACCCAAAATAATTTTTTTATA
AAAAATTTCGAAAAATTTTAACACCAAAATCTTTTCAAAAAAAAAAAGGAAAATTTGAAAACTGA
TTGGCAATGAAGATGAGCAAGAACAACATAATTTGTAAGAGAAGTCAGCAACATAAATCAAGAGG
AGTTGGTGACTTTTCATTTATATTTCAGTATTCATTACAGAATTTCGTATCTTTT
Found at i:66124002 original size:20 final size:21
Alignment explanation
Indices: 66123955--66124004 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
66123945 CGTATCTTTT
66123955 AAAATTTTTACTATTGCTTTAG
1 AAAA-TTTTACTATTGCTTTAG
* *
66123977 -AGATTTTATTATTGC-TTAG
1 AAAATTTTACTATTGCTTTAG
66123996 AAAATTTTA
1 AAAATTTTA
66124005 AAAACAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 4 0.17
20 18 0.75
21 2 0.08
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (21 bp):
AAAATTTTACTATTGCTTTAG
Found at i:66134591 original size:25 final size:25
Alignment explanation
Indices: 66134557--66134606 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
66134547 TTGAATCAAA
66134557 GACTTGTATGAGAAAAGAACCAATG
1 GACTTGTATGAGAAAAGAACCAATG
66134582 GACTTGTATGAGAAAAGAACCAATG
1 GACTTGTATGAGAAAAGAACCAATG
66134607 TTATTGAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (25 bp):
GACTTGTATGAGAAAAGAACCAATG
Found at i:66135267 original size:22 final size:22
Alignment explanation
Indices: 66135225--66135268 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
66135215 ACCACAAGTT
66135225 CTTTATTTAAACATGTGAATAAA
1 CTTTATTTAAACA-GTGAATAAA
66135248 CTTTATTTAAGAC-GTGAATAA
1 CTTTATTTAA-ACAGTGAATAA
66135269 GAAAGACCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 10 0.50
24 2 0.10
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (22 bp):
CTTTATTTAAACAGTGAATAAA
Found at i:66137042 original size:9 final size:9
Alignment explanation
Indices: 66137028--66137053 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
66137018 TTTCTCGTTT
66137028 TCAAGAAAA
1 TCAAGAAAA
66137037 TCAAGAAAA
1 TCAAGAAAA
66137046 TCAAGAAA
1 TCAAGAAA
66137054 CCGAATCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (9 bp):
TCAAGAAAA
Found at i:66137596 original size:23 final size:24
Alignment explanation
Indices: 66137565--66137626 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
66137555 ACACATACAA
* *
66137565 TTGATTTTTTTTAA-TAATT-CTC
1 TTGAGTTTTTTTAAGGAATTACTC
66137587 TTTGAGTTTTTCTTAAGGAATTACTC
1 -TTGAGTTTTT-TTAAGGAATTACTC
66137613 TTGAGTTTCTTTTA
1 TTGAGTTT-TTTTA
66137627 GAAGCTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 9 0.27
24 4 0.12
25 15 0.45
26 5 0.15
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.58
Consensus pattern (24 bp):
TTGAGTTTTTTTAAGGAATTACTC
Found at i:66141701 original size:48 final size:48
Alignment explanation
Indices: 66141646--66142072 Score: 355
Period size: 48 Copynumber: 8.9 Consensus size: 48
66141636 GTGAGTTGCC
* * * * *
66141646 GATGCCATGTTCCAAACATAGTCTTACACTGGCTCAAATGTCGAGGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGCT
* * * * *
66141694 GATGCCATG-TCTCAAACATAGTCTTACACTAGCTCTCGTCTCAATGCT
1 GATGCCATGTTC-CAAACATGGTCTTACACTGGCTCACATATCAATGCT
* * * *
66141742 GATGCCATG-TCCTAGACATGGTCTTACACTAGCGCACATATCAATGTT
1 GATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATATCAATGCT
* * * * * * * *
66141790 GATGCCATGTCCCAGACATGGTCTTACATTTGCTCTCACAAC-ATCGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAT-GCT
* *
66141838 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATC-ATGGT
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGCT
* * * * *
66141885 CGATGCCATGTCCCAGACATGGTCTTACAC-GAGCGCACATATCAATACC
1 -GATGCCATGTTCCAAACATGGTCTTACACTG-GCTCACATATCAATGCT
* * * * * *
66141934 GATGCCATGTCCCAAACATAGTCTTACACTGGCTCTCAGAACAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGCT
* * *
66141982 AATGCCATGTTCCAAACATGGTCTTACACTGACTCTCATATC-ATAGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAT-GCT
* * * * *
66142030 GATGTCATG-TCCTAGACGTGGTCTAACACTGGCACACATATCA
1 GATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATATCA
66142073 CCCAAATGTC
Statistics
Matches: 308, Mismatches: 60, Indels: 21
0.79 0.15 0.05
Matches are distributed among these distances:
47 12 0.04
48 291 0.94
49 5 0.02
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGCT
Found at i:66141814 original size:96 final size:97
Alignment explanation
Indices: 66141643--66142072 Score: 401
Period size: 96 Copynumber: 4.5 Consensus size: 97
66141633 AGGGTGAGTT
* * * * * *
66141643 GCCGATGCCATGTTCC-AAACATAGTCTTACACTGGCTCAAATGTCGA-GGCTGATGCCATGTCT
1 GCCGATGCCATG-TCCTAAACATGGTCTTACACTGGCTCACATATCAATGTC-GATGCCATGTCC
* * *
66141706 CAAACATAGTCTTACACTAGCTCTCGTCTCAAT-
64 CAAACATGGTCTTACACTAGCTCTCATATCAATA
* * * * *
66141739 GCTGATGCCATGTCCTAGACATGGTCTTACACTAGCGCACATATCAATGTTGATGCCATGTCCCA
1 GCCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATATCAATGTCGATGCCATGTCCCA
* * * * * *
66141804 GACATGGTCTTACATTTGCTCTCACAAC-ATC
66 AACATGGTCTTACACTAGCTCTCATATCAATA
*
66141835 GCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCTCATATC-ATGGTCGATGCCATGTCC
1 GCCGATGCCATG-TCCTAAACATGGTCTTACACTGGCTCACATATCAAT-GTCGATGCCATGTCC
* * * *
66141898 CAGACATGGTCTTACACGAGCGCACATATCAATA
64 CAAACATGGTCTTACACTAGCTCTCATATCAATA
* * * * * * * *
66141932 -CCGATGCCATGTCCCAAACATAGTCTTACACTGGCTCTCAGAACAATGCCAATGCCATGTTCCA
1 GCCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATATCAATGTCGATGCCATGTCCCA
66141996 AACATGGTCTTACACT-GACTCTCATATC-ATA
66 AACATGGTCTTACACTAG-CTCTCATATCAATA
* * * * * *
66142027 GCTGATGTCATGTCCTAGACGTGGTCTAACACTGGCACACATATCA
1 GCCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATATCA
66142073 CCCAAATGTC
Statistics
Matches: 270, Mismatches: 54, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
95 14 0.05
96 248 0.92
97 8 0.03
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (97 bp):
GCCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATATCAATGTCGATGCCATGTCCCA
AACATGGTCTTACACTAGCTCTCATATCAATA
Found at i:66141906 original size:144 final size:144
Alignment explanation
Indices: 66141644--66142072 Score: 506
Period size: 144 Copynumber: 3.0 Consensus size: 144
66141634 GGGTGAGTTG
* ** *** * * *
66141644 CCGATGCCATGTTCCAAACATAGTCTTACACTGGCTCAAATGTCGAGGCTGATGCCATG-TCTCA
1 CCGATGCCATGTCCCAAACATAGTCTTACACTGGCTCTCACAACAATGCCGATGCCATGTTC-CA
* * * * *
66141708 AACATAGTCTTACACTAGCTCTCGTCTCAATGCT-GATGCCATGTCCTAGACATGGTCTTACACT
65 AACATGGTCTTACACTGGCTCTCATATC-ATGGTCGATGCCATGTCCTAGACATGGTCTTACACT
*
66141772 AGCGCACATATCAATG
129 AGCGCACATATCAATA
** * * * *
66141788 TTGATGCCATGTCCCAGACATGGTCTTACATTTGCTCTCACAAC-ATCGCCGATGCCATGTTCCA
1 CCGATGCCATGTCCCAAACATAGTCTTACACTGGCTCTCACAACAAT-GCCGATGCCATGTTCCA
* *
66141852 AACATGGTCTTACACTGGCTCTCATATCATGGTCGATGCCATGTCCCAGACATGGTCTTACACGA
65 AACATGGTCTTACACTGGCTCTCATATCATGGTCGATGCCATGTCCTAGACATGGTCTTACACTA
66141917 GCGCACATATCAATA
130 GCGCACATATCAATA
* *
66141932 CCGATGCCATGTCCCAAACATAGTCTTACACTGGCTCTCAGAACAATGCCAATGCCATGTTCCAA
1 CCGATGCCATGTCCCAAACATAGTCTTACACTGGCTCTCACAACAATGCCGATGCCATGTTCCAA
* * * * * *
66141997 ACATGGTCTTACACTGACTCTCATATCATAG-CTGATGTCATGTCCTAGACGTGGTCTAACACTG
66 ACATGGTCTTACACTGGCTCTCATATCATGGTC-GATGCCATGTCCTAGACATGGTCTTACACTA
*
66142061 GCACACATATCA
130 GCGCACATATCA
66142073 CCCAAATGTC
Statistics
Matches: 241, Mismatches: 39, Indels: 10
0.83 0.13 0.03
Matches are distributed among these distances:
143 6 0.02
144 231 0.96
145 4 0.02
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (144 bp):
CCGATGCCATGTCCCAAACATAGTCTTACACTGGCTCTCACAACAATGCCGATGCCATGTTCCAA
ACATGGTCTTACACTGGCTCTCATATCATGGTCGATGCCATGTCCTAGACATGGTCTTACACTAG
CGCACATATCAATA
Found at i:66143774 original size:43 final size:43
Alignment explanation
Indices: 66143727--66143835 Score: 148
Period size: 43 Copynumber: 2.5 Consensus size: 43
66143717 GATTAACGAG
*
66143727 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTGATTATGTGTAAGACCATATCTGGGACATTGGCATCATT
* * *
66143770 ATGTGATTACGTGTAAAACCATATCTGGGACATTGGCATCGTT
1 ATGTGATTATGTGTAAGACCATATCTGGGACATTGGCATCATT
* *
66143813 ATTTGATT-TCGTATAAGACCATA
1 ATGTGATTAT-GTGTAAGACCATA
66143836 GTTGAGCTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATATCTGGGACATTGGCATCATT
Found at i:66148303 original size:43 final size:43
Alignment explanation
Indices: 66148253--66148409 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
66148243 TATCCTAGAT
* *
66148253 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
* * * * *
66148296 AGGGTCTTACACG-AACTCGA-TTAACGATGCCAATGTCCCTGAC
1 ATGGTCTTACATGTAA-TC-ACATATCGATGCCAATGTCCCAGAC
** * *
66148339 ATGGTCTTATGTGTAATCTCA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAGAC
* *
66148382 ATGGTCTTATATGTAATCACATCTCGAT
1 ATGGTCTTACATGTAATCACATATCGAT
66148410 AACCTAATGT
Statistics
Matches: 88, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
42 2 0.02
43 82 0.93
44 4 0.05
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:66156008 original size:43 final size:43
Alignment explanation
Indices: 66155940--66156108 Score: 159
Period size: 43 Copynumber: 4.0 Consensus size: 43
66155930 TAAACTCGTA
* * * * *
66155940 CAATGCC-ATATCCCATATATGGTCTTACATGTTATCACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
* * * *
66155982 CGATGCCACTGTCCCAGACA-GCGTCTTACACG-AACTCGA-TTAA
1 CAATGCCAATGTCCCAGACATG-GTCTTACACGTAA-TC-ACATAT
* *
66156025 CAACGCCAATGTCCCAGACATGGTCTTACACGTAATCTCA-AT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
*
66156067 ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 -CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
66156109 CTCGATAACC
Statistics
Matches: 100, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
42 9 0.09
43 87 0.87
44 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
Found at i:66156997 original size:24 final size:24
Alignment explanation
Indices: 66156937--66156996 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
66156927 AATGATGGGC
*
66156937 TAAATTCATTTTATTTTTGTTTAT
1 TAAATTTATTTTATTTTTGTTTAT
66156961 TAAATTTATTTTATTTTTGTTTAT
1 TAAATTTATTTTATTTTTGTTTAT
*
66156985 TAACCTTTATTT
1 TAA-ATTTATTT
66156997 ACACAATTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
24 26 0.79
25 7 0.21
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (24 bp):
TAAATTTATTTTATTTTTGTTTAT
Found at i:66160849 original size:20 final size:20
Alignment explanation
Indices: 66160824--66160863 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
66160814 ACACGTGGTG
*
66160824 GATGTTTTCGATAAGATAAA
1 GATGTTTGCGATAAGATAAA
*
66160844 GATGTTTGCGGTAAGATAAA
1 GATGTTTGCGATAAGATAAA
66160864 TCTTGTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (20 bp):
GATGTTTGCGATAAGATAAA
Found at i:66162016 original size:17 final size:17
Alignment explanation
Indices: 66161994--66162029 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
66161984 TAAATAATAT
66161994 AAAATA-TACTAATATTA
1 AAAATATTA-TAATATTA
66162011 AAAATATTATAATATTA
1 AAAATATTATAATATTA
66162028 AA
1 AA
66162030 TCCATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATATTATAATATTA
Found at i:66166314 original size:25 final size:26
Alignment explanation
Indices: 66166286--66166342 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
66166276 CTCGCTTGAA
66166286 CTTCCCGATATATGGCTATTCG-GAG
1 CTTCCCGATATATGGCTATTCGTGAG
* * *
66166311 CTTCCCGTTATATGGCTCTTTGTGAG
1 CTTCCCGATATATGGCTATTCGTGAG
66166337 CTTCCC
1 CTTCCC
66166343 AAGTTTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 19 0.68
26 9 0.32
ACGTcount: A:0.14, C:0.28, G:0.21, T:0.37
Consensus pattern (26 bp):
CTTCCCGATATATGGCTATTCGTGAG
Found at i:66181979 original size:1 final size:1
Alignment explanation
Indices: 66181973--66182003 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
66181963 GTTCTATATT
66181973 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
66182004 GCAGCTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:66186605 original size:29 final size:29
Alignment explanation
Indices: 66186560--66186649 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 29
66186550 ACACGGTCCA
* * *
66186560 GCACACGGTCTGTCACACGACTGTGTGTC
1 GCACACGGCCTGCCACACGACCGTGTGTC
*
66186589 GCACACGGCCTGCCACATGACCGTGTGTC
1 GCACACGGCCTGCCACACGACCGTGTGTC
** ** *
66186618 GCACACGATCTATCACACAACCGTGTGTC
1 GCACACGGCCTGCCACACGACCGTGTGTC
66186647 GCA
1 GCA
66186650 TACAACCTAC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.21, C:0.34, G:0.24, T:0.20
Consensus pattern (29 bp):
GCACACGGCCTGCCACACGACCGTGTGTC
Found at i:66186666 original size:29 final size:29
Alignment explanation
Indices: 66186573--66186673 Score: 94
Period size: 29 Copynumber: 3.5 Consensus size: 29
66186563 CACGGTCTGT
* * ** *
66186573 CACACGACTGTGTGTCGCACACGGCCTGC
1 CACACAACCGTGTGTCGCACACAACCTAC
** * * *
66186602 CACATGACCGTGTGTCGCACACGATCTAT
1 CACACAACCGTGTGTCGCACACAACCTAC
*
66186631 CACACAACCGTGTGTCGCATACAACCTAC
1 CACACAACCGTGTGTCGCACACAACCTAC
*
66186660 CATACAACCGTGTG
1 CACACAACCGTGTG
66186674 GCGTCGAAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.25, C:0.35, G:0.21, T:0.20
Consensus pattern (29 bp):
CACACAACCGTGTGTCGCACACAACCTAC
Found at i:66189366 original size:46 final size:48
Alignment explanation
Indices: 66189263--66189534 Score: 238
Period size: 46 Copynumber: 5.7 Consensus size: 48
66189253 TCATTGGTGT
* * * *
66189263 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGA
* * *
66189311 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATG-A
* *
66189358 -AGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGG-CTACAAGAT--
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGA
* * * * * *
66189401 GTGTCAATGTAAGACCATGTTTGGGACATGGCATCGGCAC-AGATATGCAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATG--A
* * *
66189451 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCCTCGATGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGA
* * *
66189500 TAGCCAGTGTAAGACCATGTCCGGGATATGGCATC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
66189535 AACAACTTAC
Statistics
Matches: 182, Mismatches: 29, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
44 10 0.05
45 16 0.09
46 59 0.32
47 15 0.08
48 13 0.07
49 31 0.17
50 35 0.19
51 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGA
Found at i:66193630 original size:40 final size:40
Alignment explanation
Indices: 66193585--66193752 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
66193575 CGGAATATAA
66193585 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
66193625 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
66193665 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
66193705 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
66193745 CCGGATAT
1 CCGGATAT
66193753 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:66193735 original size:80 final size:80
Alignment explanation
Indices: 66193601--66193750 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
66193591 ATAATCACGT
*
66193601 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
66193665 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
66193681 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
66193744 CCCGGAT
64 CCCGGAT
66193751 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:66201635 original size:40 final size:40
Alignment explanation
Indices: 66201590--66201757 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
66201580 CGGAATATAA
66201590 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
66201630 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
66201670 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
66201710 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
66201750 CCGGATAT
1 CCGGATAT
66201758 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:66201740 original size:80 final size:80
Alignment explanation
Indices: 66201606--66201755 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
66201596 ATAATCACGT
*
66201606 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
66201670 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
66201686 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
66201749 CCCGGAT
64 CCCGGAT
66201756 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:66206311 original size:14 final size:14
Alignment explanation
Indices: 66206253--66206311 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
66206243 ACCTAAACCG
*
66206253 ACCAATTCGTTCAT
1 ACCATTTCGTTCAT
*
66206267 ATCC-CTTCGTTCAT
1 A-CCATTTCGTTCAT
* *
66206281 ACCATTTCATTCCT
1 ACCATTTCGTTCAT
*
66206295 ACCATTTCGTTCGT
1 ACCATTTCGTTCAT
66206309 ACC
1 ACC
66206312 CCTCTTTCTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
13 2 0.05
14 33 0.89
15 2 0.05
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (14 bp):
ACCATTTCGTTCAT
Found at i:66210447 original size:46 final size:45
Alignment explanation
Indices: 66210336--66210462 Score: 137
Period size: 46 Copynumber: 2.7 Consensus size: 45
66210326 CATTGGTGTG
*
66210336 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAGACGA
1 AGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGACATCGAGACGA
* * * * * *
66210383 ATGCTAGTGTACGTCATGTCTGGGACATGTATCGACCTCGAGACGTA
1 A-GCCAGTGTAAGACATGTCTAGGACATGCATCGACATCGAGACG-A
* *
66210430 AGCCAATGTAAGACATGTCTTGGACATGCATCG
1 AGCCAGTGTAAGACATGTCTAGGACATGCATCG
66210463 GCTACGAGAT
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
46 40 0.62
47 16 0.25
48 9 0.14
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTAGGACATGCATCGACATCGAGACGA
Found at i:66210471 original size:46 final size:45
Alignment explanation
Indices: 66210336--66210507 Score: 125
Period size: 46 Copynumber: 3.7 Consensus size: 45
66210326 CATTGGTGTG
*
66210336 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGAC-ATTGAGACGA
1 AGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGACTA-CGAGACGA
* * * * *
66210383 ATGCTAGTGTACGTCATGTCTGGGACATGTATCGACCT-CGAGACGTA
1 A-GCCAGTGTAAGACATGTCTAGGACATGCATCGA-CTACGAGACG-A
* * * *
66210430 AGCCAATGTAAGACATGTCTTGGACATGCATCGGCTACGAGATG-
1 AGCCAGTGTAAGACATGTCTAGGACATGCATCGACTACGAGACGA
* * * *
66210474 TGTCAGTGCAAGACCATGTCTGGGACATAGCATC
1 AGCCAGTGTAAGA-CATGTCTAGGACAT-GCATC
66210508 TGCACGGATA
Statistics
Matches: 99, Mismatches: 19, Indels: 15
0.74 0.14 0.11
Matches are distributed among these distances:
44 9 0.09
45 15 0.15
46 49 0.49
47 17 0.17
48 9 0.09
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTAGGACATGCATCGACTACGAGACGA
Found at i:66211751 original size:20 final size:21
Alignment explanation
Indices: 66211713--66211751 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
66211703 TCGAGTTGGT
*
66211713 CACATGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
66211734 CACACGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
66211752 GTTTTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.36, G:0.31, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:66213643 original size:123 final size:123
Alignment explanation
Indices: 66213424--66213670 Score: 485
Period size: 123 Copynumber: 2.0 Consensus size: 123
66213414 TGATAAAATC
66213424 TGTATGTCAGATATTCAATGTGTTTAATTGGCATGGCTTTGGATTATATGGCCTTATGTGGCAAT
1 TGTATGTCAGATATTCAATGTGTTTAATTGGCATGGCTTTGGATTATATGGCCTTATGTGGCAAT
66213489 TATTCCATTGAATTTTTGAGTGGTCATAAATGACCTTGTCTCATGTAATTTATATGTT
66 TATTCCATTGAATTTTTGAGTGGTCATAAATGACCTTGTCTCATGTAATTTATATGTT
*
66213547 TGTATGTTAGATATTCAATGTGTTTAATTGGCATGGCTTTGGATTATATGGCCTTATGTGGCAAT
1 TGTATGTCAGATATTCAATGTGTTTAATTGGCATGGCTTTGGATTATATGGCCTTATGTGGCAAT
66213612 TATTCCATTGAATTTTTGAGTGGTCATAAATGACCTTGTCTCATGTAATTTATATGTT
66 TATTCCATTGAATTTTTGAGTGGTCATAAATGACCTTGTCTCATGTAATTTATATGTT
66213670 T
1 T
66213671 ATTAATGAAG
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 123 1.00
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (123 bp):
TGTATGTCAGATATTCAATGTGTTTAATTGGCATGGCTTTGGATTATATGGCCTTATGTGGCAAT
TATTCCATTGAATTTTTGAGTGGTCATAAATGACCTTGTCTCATGTAATTTATATGTT
Found at i:66221924 original size:42 final size:43
Alignment explanation
Indices: 66221874--66222023 Score: 164
Period size: 42 Copynumber: 3.5 Consensus size: 43
66221864 TCTGAGACAT
*
66221874 CGTATAAGACCGTGTCTGGGACACAGGC-TCG-ATTGAGATTTA
1 CGTATAAGACCATGTCTGGGACACAGGCATCGAATTGA-ATTTA
* ** *
66221916 CGTATAAGACCATGTCTGGAACATTGGCATCGAATTCAATTT-
1 CGTATAAGACCATGTCTGGGACACAGGCATCGAATTGAATTTA
* * *
66221958 CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAA-TTA
1 CGTATAAGACCATGTCTGGGACACAGGCATCGA-ATTGAATTTA
* *
66222001 CATGTAAGACCATGTCTGGGACA
1 CGTATAAGACCATGTCTGGGACA
66222024 TCGGCATTGT
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 54 0.59
43 33 0.36
44 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (43 bp):
CGTATAAGACCATGTCTGGGACACAGGCATCGAATTGAATTTA
Found at i:66222030 original size:85 final size:84
Alignment explanation
Indices: 66221873--66222030 Score: 212
Period size: 85 Copynumber: 1.9 Consensus size: 84
66221863 ATCTGAGACA
* *
66221873 TCGTATAAGACCGTGTCTGGGACACAGGCTCGATTGAGATTTACGTATAAGACCATGTCTGGAAC
1 TCGTATAAGACCCTGTCTGGGACACAGGCTCGATTGAGATTTACATATAAGACCATGTCTGGAAC
*
66221938 ATTGGCATCGAATTCAATT
66 ATCGGCATCGAATTCAATT
* * *
66221957 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCATGTCTGG
1 TCGTATAAGACCCTGTCTGGGACACAGGC-TCG--ATTGAGATTTACATATAAGACCATGTCTGG
*
66222020 GACATCGGCAT
63 AACATCGGCAT
66222031 TGTACTTAGT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
84 26 0.41
85 32 0.50
86 1 0.02
87 5 0.08
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (84 bp):
TCGTATAAGACCCTGTCTGGGACACAGGCTCGATTGAGATTTACATATAAGACCATGTCTGGAAC
ATCGGCATCGAATTCAATT
Found at i:66223391 original size:47 final size:46
Alignment explanation
Indices: 66223286--66223418 Score: 142
Period size: 47 Copynumber: 2.8 Consensus size: 46
66223276 CGGCCGCATT
* * * * *
66223286 ATGAGTACTAGTGTAAGACCATGTTTGGGACATGGCATCGGCGTAGAG
1 ATGAGTGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTAGAG
* *
66223334 ATTAGTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGATG
1 ATGAGTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTAGA-G
* *
66223381 ATGA-TAGCCAGTGCAAGACGTGTCTAGGACATGCATCG
1 ATGAGT-GCCAGTGTAAGACATGTCTAGGACATGCATCG
66223419 ATTAAGACTC
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
46 12 0.16
47 46 0.63
48 15 0.21
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
ATGAGTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTAGAG
Found at i:66223686 original size:18 final size:18
Alignment explanation
Indices: 66223665--66223704 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
66223655 GAGCTCAAAT
66223665 TAGAAAATGTGATTTGAG
1 TAGAAAATGTGATTTGAG
66223683 TAGAAAATGTGATTTGAG
1 TAGAAAATGTGATTTGAG
66223701 TAGA
1 TAGA
66223705 CAGTAATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.33
Consensus pattern (18 bp):
TAGAAAATGTGATTTGAG
Found at i:66227766 original size:21 final size:20
Alignment explanation
Indices: 66227740--66227783 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
66227730 TTAAAAATTC
66227740 TAAAAAATACAAAAATTATTT
1 TAAAAAAT-CAAAAATTATTT
* *
66227761 TAAAAAATTAAAATTTATTT
1 TAAAAAATCAAAAATTATTT
66227781 TAA
1 TAA
66227784 GATTAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAAAATCAAAAATTATTT
Found at i:66227773 original size:20 final size:20
Alignment explanation
Indices: 66227740--66227796 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 20
66227730 TTAAAAATTC
*
66227740 TAAAAAATACAAAAATTATTT
1 TAAAAAAT-TAAAAATTATTT
*
66227761 TAAAAAATTAAAATTTATTT
1 TAAAAAATTAAAAATTATTT
*
66227781 T--AAGATTAAAAATTAT
1 TAAAAAATTAAAAATTAT
66227797 AAAAAATTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 13 0.41
20 11 0.34
21 8 0.25
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TAAAAAATTAAAAATTATTT
Found at i:66228539 original size:21 final size:21
Alignment explanation
Indices: 66228513--66228555 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
66228503 CATTGTTGGG
*
66228513 AAAAAACACTTTTGAGACAAA
1 AAAAAACACTTTTAAGACAAA
* *
66228534 AAAAAATACTTTTAAGATAAA
1 AAAAAACACTTTTAAGACAAA
66228555 A
1 A
66228556 TCATTCTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.23
Consensus pattern (21 bp):
AAAAAACACTTTTAAGACAAA
Found at i:66233086 original size:27 final size:26
Alignment explanation
Indices: 66233056--66233108 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
66233046 TTCATATCTC
66233056 ATTTCTCATCTCA-TAATCTTTTCTCAT
1 ATTTCTCATCTCAGT-AT-TTTTCTCAT
* *
66233083 ATTTTTCATTTCAGTATTTTTCTCAT
1 ATTTCTCATCTCAGTATTTTTCTCAT
66233109 CTCATATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 9 0.39
27 13 0.57
28 1 0.04
ACGTcount: A:0.21, C:0.21, G:0.02, T:0.57
Consensus pattern (26 bp):
ATTTCTCATCTCAGTATTTTTCTCAT
Found at i:66233108 original size:44 final size:45
Alignment explanation
Indices: 66233032--66233144 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 45
66233022 AAGTTTCACA
* *
66233032 TCTCA-ATTTATCATTTCATATCTCATTTCTCATCTCATAATCTTT
1 TCTCATATTTTTCATTTCATATCT-ATTTCTCATCTCATAATCATT
*
66233077 TCTCATATTTTTCATTTCAGTAT-T-TTTCTCATCTCATATTCATT
1 TCTCATATTTTTCATTTCA-TATCTATTTCTCATCTCATAATCATT
*
66233121 TCTCAT-TTTTGCTATTTCAATATC
1 TCTCATATTTTTC-ATTTC-ATATC
66233145 AATCACATAA
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
43 5 0.08
44 32 0.54
45 6 0.10
46 13 0.22
47 3 0.05
ACGTcount: A:0.22, C:0.22, G:0.02, T:0.54
Consensus pattern (45 bp):
TCTCATATTTTTCATTTCATATCTATTTCTCATCTCATAATCATT
Found at i:66236550 original size:20 final size:20
Alignment explanation
Indices: 66236512--66236553 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
66236502 AATTAAGGTT
* * *
66236512 TTGAATTGTGTTTCTAATGA
1 TTGAATTGTATCTCAAATGA
66236532 TTGAATTGTATCTCAAATGA
1 TTGAATTGTATCTCAAATGA
66236552 TT
1 TT
66236554 TAGATTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.48
Consensus pattern (20 bp):
TTGAATTGTATCTCAAATGA
Found at i:66238630 original size:24 final size:24
Alignment explanation
Indices: 66238598--66238647 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
66238588 AGAAAAAGAG
66238598 TACACATATCTATAATACGCATAA
1 TACACATATCTATAATACGCATAA
66238622 TACACATATCTATAATACGCATAA
1 TACACATATCTATAATACGCATAA
66238646 TA
1 TA
66238648 TGCTGCCCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (24 bp):
TACACATATCTATAATACGCATAA
Found at i:66240140 original size:21 final size:22
Alignment explanation
Indices: 66240098--66240140 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
66240088 TATGCTTCAG
*
66240098 CCACACGGTCGTGTGCCTCCTC
1 CCACACGGTCGTGTGACTCCTC
66240120 CCACACGG-CGTGTTGAC-CCTC
1 CCACACGGTCGTG-TGACTCCTC
66240141 ACATGGCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.12, C:0.44, G:0.23, T:0.21
Consensus pattern (22 bp):
CCACACGGTCGTGTGACTCCTC
Found at i:66243220 original size:31 final size:31
Alignment explanation
Indices: 66243182--66243242 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
66243172 AAAATAACAT
66243182 AATATCATCATCTTCCTTAAGTGATTAGCAC
1 AATATCATCATCTTCCTTAAGTGATTAGCAC
*
66243213 AATATCATCATCTTTCTTAAGTGATTAGCA
1 AATATCATCATCTTCCTTAAGTGATTAGCA
66243243 TCGAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (31 bp):
AATATCATCATCTTCCTTAAGTGATTAGCAC
Found at i:66245573 original size:11 final size:11
Alignment explanation
Indices: 66245557--66245585 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
66245547 AAAAAAATTC
66245557 AAAGTTTTGTG
1 AAAGTTTTGTG
66245568 AAAGTTTTGTG
1 AAAGTTTTGTG
66245579 AAAGTTT
1 AAAGTTT
66245586 CTTAAGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (11 bp):
AAAGTTTTGTG
Found at i:66247265 original size:23 final size:22
Alignment explanation
Indices: 66247234--66247276 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
66247224 AGCAAGGAGA
*
66247234 AGAAGAGAAAAAGAAAGAAAAGG
1 AGAAAAGAAAAAG-AAGAAAAGG
66247257 AGAAAAGAAAAAGAAGAAAA
1 AGAAAAGAAAAAGAAGAAAA
66247277 TGGTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (22 bp):
AGAAAAGAAAAAGAAGAAAAGG
Found at i:66247601 original size:348 final size:346
Alignment explanation
Indices: 66246933--66247624 Score: 1125
Period size: 348 Copynumber: 2.0 Consensus size: 346
66246923 AAATTTAGGG
66246933 TTTTTTACAAAAATAAGACAAAAAAATAAAATAATACTAAAATAGTATAACAAAAAAAGTATGTA
1 TTTTTTACAAAAATAAGACAAAAAAATAAAATAATACTAAAATAGTATAACAAAAAAAGTATGTA
*
66246998 CCAAAATGGTACATCCCAGGGTGGTGCCGCCTATGGCAGTGGCGTGACCACCCTGGTCTGACATT
66 CCAAAATGGTACATCCCAAGGTGGTGCCGCCTATGGCAGTGGCGTGACCACCCTGGTCTGACATT
* *
66247063 TCCTCTGCCATTTTTTGTTTAAAAAAAAGCGAAAAATAAAAAAAAAATTGAAAAAAAAGGGATGG
131 TCCTCTGCCATTTTCTGTTTAAAAAAAAGCGAAAAAAAAAAAAAAAATTGAAAAAAAAGGGATGG
*
66247128 AGGGGGTGCCAGAGGAAGCACCGATTGTGCCTCTGGCACAGGCGGCACCTAAGCAGTATAAAAAT
196 AGGGGGTGCCAGAGGAAGCACCGATTGTGCCTCTGGCACAGACGGCACCTAAGCAGTATAAAAAT
*
66247193 TCAAGTTGCAACTCCGGAAGCAAGAAGCAGCAGCAAGGAGAAGAAGAGAAAAAGAAAGAAAAGGA
261 TCAAGCTGCAACTCCGGAAGCAAGAAGCAGCAGCAAGGAGAAGAAGAG--AAAGAAAGAAAAGGA
66247258 GAAAAGAAAAAGAAGAAAATGGT
324 GAAAAGAAAAAGAAGAAAATGGT
* *
66247281 TTTTTTACAAAAATAAGACAAAAAAATAAAATAATACTAAAATAGTATTACAGAAAAAGTATGTA
1 TTTTTTACAAAAATAAGACAAAAAAATAAAATAATACTAAAATAGTATAACAAAAAAAGTATGTA
*
66247346 CCAAAATGGTACATCCCAAGGTGGTGCCGCCTATGGCAGTGGCGTGACCACCCTGGTCTGATATT
66 CCAAAATGGTACATCCCAAGGTGGTGCCGCCTATGGCAGTGGCGTGACCACCCTGGTCTGACATT
*
66247411 TCCTCTGCCATTTTCTGTTTAAAAAAAAGTGAAAACGAAAAAAAATAAAAATAT-AAAAAAAAGG
131 TCCTCTGCCATTTTCTGTTTAAAAAAAAGCG-AAA--AAAAAAAA-AAAAAT-TGAAAAAAAAGG
*** * * *
66247475 GATGGAGGGGGTGCCAGAGGCTTCATCGGTTGTTCCTCTGGCACAGACGGCACCTAAGCAGTATA
191 GATGGAGGGGGTGCCAGAGGAAGCACCGATTGTGCCTCTGGCACAGACGGCACCTAAGCAGTATA
**
66247540 AAAATTCAAGCTGCAACTCCGGAAGCAAGAAGCAGCAGCAATTAGAAGAAGAGAAAAAGAAAGAA
256 AAAATTCAAGCTGCAACTCCGGAAGCAAGAAGCAGCAGCAAGGAGAAGAAGAG--AAAGAAAGAA
* *
66247605 AAGGAGAAGAGAAGAAGAAG
319 AAGGAGAAAAGAAAAAGAAG
66247625 GAGGAGGAGG
Statistics
Matches: 320, Mismatches: 19, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
348 155 0.48
349 3 0.01
351 7 0.02
352 154 0.48
353 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.19
Consensus pattern (346 bp):
TTTTTTACAAAAATAAGACAAAAAAATAAAATAATACTAAAATAGTATAACAAAAAAAGTATGTA
CCAAAATGGTACATCCCAAGGTGGTGCCGCCTATGGCAGTGGCGTGACCACCCTGGTCTGACATT
TCCTCTGCCATTTTCTGTTTAAAAAAAAGCGAAAAAAAAAAAAAAAATTGAAAAAAAAGGGATGG
AGGGGGTGCCAGAGGAAGCACCGATTGTGCCTCTGGCACAGACGGCACCTAAGCAGTATAAAAAT
TCAAGCTGCAACTCCGGAAGCAAGAAGCAGCAGCAAGGAGAAGAAGAGAAAGAAAGAAAAGGAGA
AAAGAAAAAGAAGAAAATGGT
Found at i:66247612 original size:23 final size:24
Alignment explanation
Indices: 66247586--66247656 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 24
66247576 AGCAATTAGA
66247586 AGAAGAGAAAAAGAA-AGAAAAGG
1 AGAAGAGAAAAAGAAGAGAAAAGG
* **
66247609 AGAAGAGAAGAAGAAGGAGGAGGAGG
1 AGAAGAGAAAAAGAA-GA-GAAAAGG
*
66247635 AGAAG-GAAAAAGAATAGAAAAG
1 AGAAGAGAAAAAGAAGAGAAAAG
66247657 AAAGGTATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
23 18 0.47
24 1 0.03
25 9 0.24
26 10 0.26
ACGTcount: A:0.62, C:0.00, G:0.37, T:0.01
Consensus pattern (24 bp):
AGAAGAGAAAAAGAAGAGAAAAGG
Found at i:66247740 original size:23 final size:23
Alignment explanation
Indices: 66247714--66247757 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
66247704 TGCTATTGTG
* *
66247714 TTTTTGCTGTTATTTTTTATTTT
1 TTTTTGCTGTTAGTTATTATTTT
*
66247737 TTTTTGTTGTTAGTTATTATT
1 TTTTTGCTGTTAGTTATTATT
66247758 ATTAGTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.75
Consensus pattern (23 bp):
TTTTTGCTGTTAGTTATTATTTT
Found at i:66247764 original size:13 final size:13
Alignment explanation
Indices: 66247746--66247777 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
66247736 TTTTTTGTTG
66247746 TTAGTTATTATTA
1 TTAGTTATTATTA
66247759 TTAGTTATTATTA
1 TTAGTTATTATTA
66247772 TT-GTTA
1 TTAGTTA
66247778 GTAAAAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.62
Consensus pattern (13 bp):
TTAGTTATTATTA
Found at i:66247771 original size:16 final size:17
Alignment explanation
Indices: 66247745--66247779 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
66247735 TTTTTTTGTT
66247745 GTTAGTTATTATTATTA
1 GTTAGTTATTATTATTA
*
66247762 GTTA-TTATTATTGTTA
1 GTTAGTTATTATTATTA
66247778 GT
1 GT
66247780 AAAAAACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (17 bp):
GTTAGTTATTATTATTA
Found at i:66247793 original size:39 final size:39
Alignment explanation
Indices: 66247750--66247932 Score: 203
Period size: 39 Copynumber: 4.7 Consensus size: 39
66247740 TTGTTGTTAG
66247750 TTATTATTATTAGTTATTATTATTGTTAGTAAAAAACTA
1 TTATTATTATTAGTTATTATTATTGTTAGTAAAAAACTA
** *
66247789 TTATTAGGATT-GTTGGTTATTATTGTTAGTAAAAAATCCTA
1 TTATTATTATTAGTT-ATTATTATTGTTAGTAAAAAA--CTA
*
66247830 --ATTATTGTTAGTTATTATTATTGTTAGTAAAAAACTA
1 TTATTATTATTAGTTATTATTATTGTTAGTAAAAAACTA
** * **
66247867 TTATTAGGATT-GTTGGTTATTATTGTTAGTAAAAAACCC
1 TTATTATTATTAGTT-ATTATTATTGTTAGTAAAAAACTA
* *
66247906 TAACTATTATTAGTTATTATTATTGTT
1 TTATTATTATTAGTTATTATTATTGTT
66247933 GATTTATATT
Statistics
Matches: 118, Mismatches: 18, Indels: 16
0.78 0.12 0.11
Matches are distributed among these distances:
37 3 0.03
38 6 0.05
39 100 0.85
40 6 0.05
41 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (39 bp):
TTATTATTATTAGTTATTATTATTGTTAGTAAAAAACTA
Found at i:66247834 original size:78 final size:78
Alignment explanation
Indices: 66247752--66247932 Score: 335
Period size: 78 Copynumber: 2.3 Consensus size: 78
66247742 GTTGTTAGTT
66247752 ATTATTATTAGTTATTATTATTGTTAGTAAAAAACTATTATTAGGATTGTTGGTTATTATTGTTA
1 ATTATTATTAGTTATTATTATTGTTAGTAAAAAACTATTATTAGGATTGTTGGTTATTATTGTTA
*
66247817 GTAAAAAATCCTA
66 GTAAAAAACCCTA
*
66247830 ATTATTGTTAGTTATTATTATTGTTAGTAAAAAACTATTATTAGGATTGTTGGTTATTATTGTTA
1 ATTATTATTAGTTATTATTATTGTTAGTAAAAAACTATTATTAGGATTGTTGGTTATTATTGTTA
66247895 GTAAAAAACCCTA
66 GTAAAAAACCCTA
*
66247908 ACTATTATTAGTTATTATTATTGTT
1 ATTATTATTAGTTATTATTATTGTT
66247933 GATTTATATT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 99 1.00
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (78 bp):
ATTATTATTAGTTATTATTATTGTTAGTAAAAAACTATTATTAGGATTGTTGGTTATTATTGTTA
GTAAAAAACCCTA
Found at i:66250666 original size:93 final size:94
Alignment explanation
Indices: 66250551--66250816 Score: 457
Period size: 93 Copynumber: 2.9 Consensus size: 94
66250541 CGCCCATAAG
* * * *
66250551 CGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTC
66250615 AACGAGCTCGGATGCCTAGTTACATCTCT
66 AACGAGCTCGGATGCCTAGTTACATCTCT
*
66250644 CGAACTCGGACTCAACTCAACGAG-TTCGGACATTCTCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTC
66250708 AACGAGCTCGGATGCCTAGTTACATCTCT
66 AACGAGCTCGGATGCCTAGTTACATCTCT
66250737 CGAACTCGGACTCAACTCAACGA-CTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTC
*
66250801 AACGAGTTCGGATGCC
66 AACGAGCTCGGATGCC
66250817 CAAATATCCT
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
92 2 0.01
93 163 0.99
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.22
Consensus pattern (94 bp):
CGAACTCGGACTCAACTCAACGAGCTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTC
AACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:66250766 original size:47 final size:47
Alignment explanation
Indices: 66250598--66250759 Score: 215
Period size: 47 Copynumber: 3.5 Consensus size: 47
66250588 ATCCACAAGT
66250598 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * ***
66250645 GAACTCGGACTCAACTCAACGAGTTCGGACAT-TCTCA--TCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCCT-AGTTACATCTCTC
66250691 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
66250738 GAACTCGGACTCAACTCAACGA
1 GAACTCGGACTCAACTCAACGA
66250760 CTTCGGACAT
Statistics
Matches: 96, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 32 0.33
47 54 0.56
48 2 0.02
49 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:66250811 original size:46 final size:46
Alignment explanation
Indices: 66250544--66250812 Score: 245
Period size: 46 Copynumber: 5.8 Consensus size: 46
66250534 TGTAACTCGC
* * *
66250544 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACATTCACAT
* * *
66250590 CCACAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
*
66250640 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCTCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
* *
66250683 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
*
66250733 CTC-T---CGAACTCGGACTCAACTCAACGACTTCGGACATTCACAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
66250776 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
66250813 TGCCCAAATA
Statistics
Matches: 182, Mismatches: 18, Indels: 46
0.74 0.07 0.19
Matches are distributed among these distances:
42 6 0.03
43 13 0.07
44 2 0.01
45 1 0.01
46 87 0.48
47 55 0.30
49 2 0.01
50 10 0.05
51 6 0.03
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:66252614 original size:20 final size:20
Alignment explanation
Indices: 66252589--66252627 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
66252579 ATAGCATGAA
66252589 TATATTAGTGGATTACACAG
1 TATATTAGTGGATTACACAG
66252609 TATATTAGTGGATTACACA
1 TATATTAGTGGATTACACA
66252628 TTTGTAGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (20 bp):
TATATTAGTGGATTACACAG
Found at i:66254533 original size:26 final size:26
Alignment explanation
Indices: 66254504--66254587 Score: 91
Period size: 26 Copynumber: 3.1 Consensus size: 26
66254494 AGTTTGTCCC
66254504 AATTAGATTAATGTTGTAATGTATTT
1 AATTAGATTAATGTTGTAATGTATTT
*
66254530 AATTA-ATGTTCCAAT-TAGATTAATGTATTT
1 AATTAGA--TT--AATGTTG--TAATGTATTT
66254560 AATTAGATTAATGTTGTAATGTATTT
1 AATTAGATTAATGTTGTAATGTATTT
66254586 AA
1 AA
66254588 GGTTTGTTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
25 1 0.02
26 17 0.35
27 5 0.10
28 4 0.08
29 5 0.10
30 15 0.31
31 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.48
Consensus pattern (26 bp):
AATTAGATTAATGTTGTAATGTATTT
Found at i:66255007 original size:33 final size:34
Alignment explanation
Indices: 66254960--66255039 Score: 128
Period size: 33 Copynumber: 2.4 Consensus size: 34
66254950 TGTCATGCTG
*
66254960 TAGTGGATACGGGCCAAGGGTAGTGCTGTACTGC
1 TAGTGGATATGGGCCAAGGGTAGTGCTGTACTGC
*
66254994 -AGTGGATATGGGCCGAGGGTAGTGCTGTACTGC
1 TAGTGGATATGGGCCAAGGGTAGTGCTGTACTGC
66255027 TA-TGGATATGGGC
1 TAGTGGATATGGGC
66255040 TGAGAGAAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
33 42 0.98
34 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.40, T:0.25
Consensus pattern (34 bp):
TAGTGGATATGGGCCAAGGGTAGTGCTGTACTGC
Found at i:66257655 original size:152 final size:152
Alignment explanation
Indices: 66257311--66258609 Score: 2091
Period size: 152 Copynumber: 8.6 Consensus size: 152
66257301 ATTTATTCAA
* ** *
66257311 TGATTTTGGCCCTTTGTTTGCATTTTTAAAATTTTCAGATTTTATTTTTTAAAGTATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTT
* * * *
66257376 CGTATTTTA-TTTTTATATTATTTTAATACATAATATTTCACATGTATTATTTTAGTATTTTTT-
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
*
66257439 ATATTAATTTAGTAAATAACCT
131 ATATTAATTTAGTAAATAACCC
* *
66257461 TGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTTGAATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTT
66257526 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
66257591 ATATTAATTTAGTAAATAACCC
131 ATATTAATTTAGTAAATAACCC
* ** * *
66257613 TGATTTTAGCTTTTTATTTGTATTTTTTAAATTTTTGGATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTT
* *
66257678 CGTATTTTATTTTTTATAGTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTT
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
*
66257743 ATATTAATTTAGTAAATAACTC
131 ATATTAATTTAGTAAATAACCC
* *
66257765 TAATTTTGGCCATTTGTTTGTATTTTTAAAATTTTTGGATTTTA-TTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTT
66257829 CGTATTTTATTTTTTATATTATTTT-GTACATAATGTTTCAAATGTATTATTTTA--GTTTTTTA
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
*
66257891 ATATTAATTTAGTAAATAACTC
131 ATATTAATTTAGTAAATAACCC
* * * *
66257913 TAATTTTGGCCCTTTGTTTGTTTTTTTAAAATTTTTAGATTTTATTTTTTAAAATATATTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTT
** *
66257978 TTTATTTTATTTTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTTAGTGTTTTTTA
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
66258043 ATATTAATTTAGTAAATAACCC
131 ATATTAATTTAGTAAATAACCC
66258065 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTT
*
66258130 CGTATTTTA-TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTA
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
* *
66258194 ATATTAATTTATTAAATAATCC
131 ATATTAATTTAGTAAATAACCC
* **
66258216 TTATTTTGGCCCTTTGTTTGTATTTTTAAAA-TTTCAGATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTT
* * *
66258280 CATATTTTATTTTTTTATATTATTTTAGTACATAATTTTTCAAATATATTATTTTAGTGTTTTTT
66 CGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTT
66258345 AATATTAATTTAGTAAATAACCC
130 AATATTAATTTAGTAAATAACCC
* * * *
66258368 TTATTTTGGCCCTTTGTTTGTATTTTTAGAATTTTCGAATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTT
* * *
66258433 C--ATATT-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATATTTTTT-
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
66258494 ATATTAATTTAGTAAATAACCC
131 ATATTAATTTAGTAAATAACCC
*
66258516 TGATTTTGGCCCTTTATTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTT
66258581 CGTATTTTATTTTTTATATTATTTTAGTA
66 CGTATTTTATTTTTTATATTATTTTAGTA
66258610 AAAAACCGGC
Statistics
Matches: 1068, Mismatches: 69, Indels: 23
0.92 0.06 0.02
Matches are distributed among these distances:
148 153 0.14
149 93 0.09
150 168 0.16
151 221 0.21
152 401 0.38
153 32 0.03
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (152 bp):
TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTT
CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
ATATTAATTTAGTAAATAACCC
Found at i:66257966 original size:452 final size:452
Alignment explanation
Indices: 66257313--66258609 Score: 2119
Period size: 452 Copynumber: 2.9 Consensus size: 452
66257303 TTATTCAATG
* *
66257313 ATTTTGGCCCTTTGTTTGCATTTTTAAAATTTTCAGATTTTATTTTTTAAAGTATACTATTTTCG
1 ATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCAGATTTTATTTTTTAAAATATACTATTTTCG
* * *
66257378 TATTTTA-TTTTTATATTATTTTAATACATAATATTTCACATGTATTATTTTAGTATTTTTTATA
66 TATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGT-TTTTTAATA
* *
66257442 TTAATTTAGTAAATAACCTTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTTGAATTTTATT
130 TTAATTTAGTAAATAACC-TAATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGAATTTTATT
66257507 TTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGT
194 TTTTAAAATATACTATTTTC-TATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGT
* **
66257572 ATTATTTTAGTGTTTTTTAATATTAATTTAGTAAATAACCCTGATTTTAGCTTTTTATTTGTATT
258 ATTATTTTAGTGTTTTTTAATATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTATTTGTATT
* *
66257637 TTTTAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAGTATTT
323 TTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTT
* *
66257702 TAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAA-CTCT
388 TAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTAATATTAATTTAGTAAATAATC-CT
66257766 A
452 A
* **
66257767 ATTTTGGCCATTTGTTTGTATTTTTAAAATTTTTGGATTTTA-TTTTTAAAATATACTATTTTCG
1 ATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCAGATTTTATTTTTTAAAATATACTATTTTCG
*
66257831 TATTTTATTTTTTATATTATTTT-GTACATAATGTTTCAAATGTATTATTTTAGTTTTTTAATAT
66 TATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTTTTTTAATAT
*
66257895 TAATTTAGTAAATAACTCTAATTTTGGCCCTTTGTTTGTTTTTTTAAAATTTTT-AGATTTTATT
131 TAATTTAGTAAATAAC-CTAATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGA-ATTTTATT
* * *
66257959 TTTTAAAATATATTATTTTTTTATTTTATTTTTTATATTATTTTAGTACATAATGTTTTAAATGT
194 TTTTAAAATATACTA-TTTTCTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGT
*
66258024 ATTATTTTAGTGTTTTTTAATATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTGTTTGTATT
258 ATTATTTTAGTGTTTTTTAATATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTATTTGTATT
66258089 TTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTATATTATTT
323 TTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTT
* *
66258153 TAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTAATATTAATTTATTAAATAATCCTT
388 TAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTAATATTAATTTAGTAAATAATCCTA
*
66258218 ATTTTGGCCCTTTGTTTGTATTTTTAAAA-TTTCAGATTTTATTTTTTAAAATATACTATTTTCA
1 ATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCAGATTTTATTTTTTAAAATATACTATTTTCG
* *
66258282 TATTTTATTTTTTTATATTATTTTAGTACATAATTTTTCAAATATATTATTTTAGTGTTTTTTAA
66 TATTTTA-TTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTA--GTTTTTTAA
* * *
66258347 TATTAATTTAGTAAATAACCCTTATTTTGGCCCTTTGTTTGTATTTTTAGAATTTTCGAATTTTA
128 TATTAATTTAGTAAATAA-CCTAATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGAATTTTA
*
66258412 TTTTTTAAAATATACTATTTTC-ATATT-TTTTTTATATTATTTTAGTACATAATGTTTCAAATG
192 TTTTTTAAAATATACTATTTTCTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATG
* *
66258475 TATTATTTTAATATTTTTT-ATATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTATTTGTAT
257 TATTATTTTAGTGTTTTTTAATATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTATTTGTAT
66258539 TTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATT
322 TTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATT
66258604 TTAGTA
387 TTAGTA
66258610 AAAAACCGGC
Statistics
Matches: 788, Mismatches: 42, Indels: 28
0.92 0.05 0.03
Matches are distributed among these distances:
450 10 0.01
451 224 0.28
452 321 0.41
453 92 0.12
454 57 0.07
455 82 0.10
456 2 0.00
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (452 bp):
ATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCAGATTTTATTTTTTAAAATATACTATTTTCG
TATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTTTTTTAATAT
TAATTTAGTAAATAACCTAATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGAATTTTATTTT
TTAAAATATACTATTTTCTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATT
ATTTTAGTGTTTTTTAATATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTATTTGTATTTTT
AAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAG
TACATAATGTTTCAAATGTATTATTTTAGTATTTTTTAATATTAATTTAGTAAATAATCCTA
Found at i:66257978 original size:23 final size:22
Alignment explanation
Indices: 66257933--66257986 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
66257923 CCTTTGTTTG
*
66257933 TTTTTTTAAAATTTTTAGATTT
1 TTTTTTTAAAATTATTAGATTT
*
66257955 TATTTTTTAAAATATATTA-TTTT
1 T-TTTTTTAAAAT-TATTAGATTT
66257978 TTTATTTTA
1 TTT-TTTTA
66257987 TTTTTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 3 0.11
23 20 0.74
24 4 0.15
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTTTAAAATTATTAGATTT
Found at i:66257989 original size:13 final size:13
Alignment explanation
Indices: 66257967--66258002 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
66257957 TTTTTTAAAA
66257967 TATATTATTTTTT
1 TATATTATTTTTT
*
66257980 TATTTTA-TTTTT
1 TATATTATTTTTT
66257992 TATATTATTTT
1 TATATTATTTT
66258003 AGTACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TATATTATTTTTT
Found at i:66258001 original size:17 final size:17
Alignment explanation
Indices: 66257951--66258003 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
66257941 AAATTTTTAG
* *
66257951 ATTTTATTTTTTAAAAT
1 ATTTTATTTTTTATATT
*
66257968 ATATTA--TTTT-T-TT
1 ATTTTATTTTTTATATT
66257981 ATTTTATTTTTTATATT
1 ATTTTATTTTTTATATT
66257998 ATTTTA
1 ATTTTA
66258004 GTACATAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
13 6 0.21
15 8 0.29
16 1 0.04
17 13 0.46
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATTTTTTATATT
Found at i:66258296 original size:603 final size:603
Alignment explanation
Indices: 66257313--66258609 Score: 2111
Period size: 603 Copynumber: 2.2 Consensus size: 603
66257303 TTATTCAATG
* * *
66257313 ATTTTGGCCCTTTGTTTGCATTTTTAAAATTTTCAGATTTTATTTTTTAAAGTATACTATTTTCG
1 ATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTAGATTTTATTTTTTAAAATATACTATTTTCG
* *
66257378 TATTTTA-TTTTTATATTATTTTAATACATAATATTTCACATGTATTATTTTAGTATTTTTTATA
66 TATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTATTTTTTATA
*
66257442 TTAATTTAGTAAATAACCTTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTTGAATTTTATT
131 TTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTTGAATTTTATT
66257507 TTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGT
196 TTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGT
* **
66257572 ATTATTTTAGTGTTTTTTAATATTAATTTAGTAAATAACCCTGATTTTAGCTTTTTATTTGTATT
261 ATTATTTTAGTATTTTTTAATATTAATTTAGTAAATAACCCTGATTTTAGCCCTTTATTTGTATT
* ** *
66257637 TTTTAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAGTATTT
326 TTTTAAAATTTCAGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATAGTATTT
* * *
66257702 TAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAACTCTA
391 TAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTAATATTAATTTAGTAAATAACCCTA
* *
66257767 ATTTTGGCCATTTGTTTGTATTTTTAAAATTTTTGGATTTTA-TTTTTAAAATATACTATTTTCG
456 ATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTC-
* *
66257831 TATTTTATTTTTTATATTATTTT-GTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTAATA
520 -ATATT-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATATTTTTAATA
*
66257894 TTAATTTAGTAAATAACTCTA
583 TTAATTTAGTAAATAACCCTA
* * **
66257915 ATTTTGGCCCTTTGTTTGTTTTTTTAAAATTTTTAGATTTTATTTTTTAAAATATATTATTTTTT
1 ATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTAGATTTTATTTTTTAAAATATACTATTTTCG
* * *
66257980 TATTTTATTTTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTTAGTGTTTTTTAAT
66 TATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTATTTTTT-AT
* *
66258045 ATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTAT
130 ATTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTTGAATTTTAT
66258110 TTTTTAAAATATACTATTTTCGTATTTTA-TTTTTATATTATTTTAGTACATAATGTTTCAAATG
195 TTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATG
* * * * *
66258174 TATTATTTTAGTATTTTTTAATATTAATTTATTAAATAATCCTTATTTTGGCCCTTTGTTTGTA-
260 TATTATTTTAGTATTTTTTAATATTAATTTAGTAAATAACCCTGATTTTAGCCCTTTATTTGTAT
*
66258238 TTTTTAAAATTTCAGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTTATATTAT
325 TTTTTAAAATTTCAGATTTTATTTTTTAAAATATACTATTTTCATATTTTA-TTTTTTATAGTAT
*
66258303 TTTAGTACATAATTTTTCAAATATATTATTTTAGTGTTTTTTAATATTAATTTAGTAAATAACCC
389 TTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTAATATTAATTTAGTAAATAACCC
* * *
66258368 TTATTTTGGCCCTTTGTTTGTATTTTTAGAATTTTCGAATTTTATTTTTTAAAATATACTATTTT
454 TAATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTT
*
66258433 CATATTTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATATTTTTTATAT
519 CATATTTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATATTTTTAATAT
*
66258498 TAATTTAGTAAATAACCCTG
584 TAATTTAGTAAATAACCCTA
* *
66258518 ATTTTGGCCCTTTATTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCG
1 ATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTAGATTTTATTTTTTAAAATATACTATTTTCG
66258583 TATTTTATTTTTTATATTATTTTAGTA
66 TATTTTATTTTTTATATTATTTTAGTA
66258610 AAAAACCGGC
Statistics
Matches: 641, Mismatches: 48, Indels: 11
0.92 0.07 0.02
Matches are distributed among these distances:
601 16 0.02
602 146 0.23
603 365 0.57
604 114 0.18
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (603 bp):
ATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTAGATTTTATTTTTTAAAATATACTATTTTCG
TATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTATTTTTTATA
TTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTTGAATTTTATT
TTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGT
ATTATTTTAGTATTTTTTAATATTAATTTAGTAAATAACCCTGATTTTAGCCCTTTATTTGTATT
TTTTAAAATTTCAGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATAGTATTT
TAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTAATATTAATTTAGTAAATAACCCTA
ATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCA
TATTTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATATTTTTAATATTA
ATTTAGTAAATAACCCTA
Found at i:66258696 original size:32 final size:31
Alignment explanation
Indices: 66258647--66258714 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 31
66258637 AAAAAATATT
* *
66258647 TTTTTTCATATTTTATTTATTTT-GTATTTTA
1 TTTTTTCATAATATATTT-TTTTAGTATTTTA
66258678 TTTTTTCATTAATATATTTTTTTAGTATTTTA
1 TTTTTTCA-TAATATATTTTTTTAGTATTTTA
66258710 TTTTT
1 TTTTT
66258715 ATACTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 12 0.36
32 21 0.64
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (31 bp):
TTTTTTCATAATATATTTTTTTAGTATTTTA
Found at i:66258711 original size:16 final size:16
Alignment explanation
Indices: 66258646--66258724 Score: 72
Period size: 16 Copynumber: 4.9 Consensus size: 16
66258636 CAAAAAATAT
66258646 TTTTTTTCA-TATTTTA
1 TTTTTTT-AGTATTTTA
66258662 TTTATTTT-GTATTTTA
1 TTT-TTTTAGTATTTTA
* * * *
66258678 TTTTTTCATTAATATA
1 TTTTTTTAGTATTTTA
66258694 TTTTTTTAGTATTTTA
1 TTTTTTTAGTATTTTA
* *
66258710 TTTTTATACTATTTT
1 TTTTTTTAGTATTTT
66258725 TGTAAAATAG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
15 3 0.06
16 43 0.86
17 4 0.08
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTTTTTAGTATTTTA
Found at i:66259150 original size:14 final size:14
Alignment explanation
Indices: 66259114--66259169 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
66259104 TTTTTTTCTT
66259114 TCTTTTTCTTCT-C
1 TCTTTTTCTTCTCC
*
66259127 TCCTTCTTCTTCTCC
1 T-CTTTTTCTTCTCC
* *
66259142 TCTTTTTCTTTTTC
1 TCTTTTTCTTCTCC
66259156 T-TTTTTCTTC-CC
1 TCTTTTTCTTCTCC
66259168 TC
1 TC
66259170 ACCAGTGCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
12 2 0.06
13 9 0.26
14 21 0.62
15 2 0.06
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (14 bp):
TCTTTTTCTTCTCC
Found at i:66259243 original size:21 final size:23
Alignment explanation
Indices: 66259203--66259261 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 23
66259193 CTTCTCCTTC
66259203 CTCTTCTTCTCTTCTTTTTTCTT
1 CTCTTCTTCTCTTCTTTTTTCTT
*
66259226 CTCTT-TTTTCTT-TTTTTTCTT
1 CTCTTCTTCTCTTCTTTTTTCTT
66259247 CTCCTTCTTC-CTTCT
1 CT-CTTCTTCTCTTCT
66259262 CGAAATAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
21 11 0.35
22 12 0.39
23 8 0.26
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (23 bp):
CTCTTCTTCTCTTCTTTTTTCTT
Found at i:66259875 original size:18 final size:17
Alignment explanation
Indices: 66259842--66259875 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
66259832 TCAGGGTGTG
*
66259842 TGTTAGTGGGATTTAGT
1 TGTTAGTGGGAGTTAGT
66259859 TGTTAGTGGGGAGTTAG
1 TGTTAGT-GGGAGTTAG
66259876 GATATTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (17 bp):
TGTTAGTGGGAGTTAGT
Found at i:66269030 original size:93 final size:93
Alignment explanation
Indices: 66268873--66269058 Score: 284
Period size: 93 Copynumber: 2.0 Consensus size: 93
66268863 AGCAATCCTT
* * *
66268873 TTCTTAGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGACTAGATATTTTGTTTTGGGTTTAAT
1 TTCTTAGCCTTTATTTACTTTTATTAGGATTGAACTCTGACTAGAGATTTTGTTTTGGGTTTAAT
66268938 TATTGATTCATCCTTTTTTCTATTATTTC
66 TATTGATTCAT-CTTTTTTCTATTATTTC
* * *
66268967 TTCTTCGCCTTTATTTAC-TTTATTAGGATTGAACTTTGATTAGAGATTTTGTTTTGGGTTTAAT
1 TTCTTAGCCTTTATTTACTTTTATTAGGATTGAACTCTGACTAGAGATTTTGTTTTGGGTTTAAT
* *
66269031 TGTTTATTCATCTTTTTTCTATTATTTC
66 TATTGATTCATCTTTTTTCTATTATTTC
66269059 CTGGCAGCTC
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 17 0.20
93 50 0.60
94 17 0.20
ACGTcount: A:0.18, C:0.12, G:0.13, T:0.56
Consensus pattern (93 bp):
TTCTTAGCCTTTATTTACTTTTATTAGGATTGAACTCTGACTAGAGATTTTGTTTTGGGTTTAAT
TATTGATTCATCTTTTTTCTATTATTTC
Found at i:66270484 original size:20 final size:20
Alignment explanation
Indices: 66270459--66270498 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
66270449 AAAAATTAAA
66270459 ATATAAATTTATTAATATAT
1 ATATAAATTTATTAATATAT
66270479 ATATAAATTTATTAATATAT
1 ATATAAATTTATTAATATAT
66270499 GTAAAAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATAAATTTATTAATATAT
Found at i:66270506 original size:20 final size:20
Alignment explanation
Indices: 66270463--66270506 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
66270453 ATTAAAATAT
*
66270463 AAATTTATTAATATATATAT
1 AAATTTATTAATATATATAA
*
66270483 AAATTTATTAATATATGTAA
1 AAATTTATTAATATATATAA
66270503 AAAT
1 AAAT
66270507 AGCTTTTCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AAATTTATTAATATATATAA
Found at i:66270605 original size:19 final size:20
Alignment explanation
Indices: 66270581--66270624 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
66270571 TCTAAACACT
66270581 AGAAAAGTAAATCA-TTTCC
1 AGAAAAGTAAATCATTTTCC
66270600 AGAAAAGTAAATCATTTTCC
1 AGAAAAGTAAATCATTTTCC
66270620 AGAAA
1 AGAAA
66270625 TCATTTTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (20 bp):
AGAAAAGTAAATCATTTTCC
Found at i:66271999 original size:44 final size:44
Alignment explanation
Indices: 66271934--66272022 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 44
66271924 GTTTATGAGT
*
66271934 ATAAGAAAATGGGAGA-GAAAAAGTAGTTAGAAATCAAGATTGA
1 ATAAGAAAATGGGAGACAAAAAAGTAGTTAGAAATCAAGATTGA
66271977 ATAAGAAAAATGGGAGACAAAAAAGTAGTTAGAAATCAAGATTGA
1 ATAAG-AAAATGGGAGACAAAAAAGTAGTTAGAAATCAAGATTGA
66272022 A
1 A
66272023 GATGAACGAT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 5 0.12
44 11 0.26
45 27 0.63
ACGTcount: A:0.55, C:0.03, G:0.24, T:0.18
Consensus pattern (44 bp):
ATAAGAAAATGGGAGACAAAAAAGTAGTTAGAAATCAAGATTGA
Found at i:66274800 original size:49 final size:49
Alignment explanation
Indices: 66274747--66274971 Score: 287
Period size: 49 Copynumber: 4.7 Consensus size: 49
66274737 GATTTTACGC
* * * * *
66274747 GATGAATGTGAATGTGTATATATATGTGATAAGGCCTAGTGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAACGT
* *
66274796 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAACGT
* * * *
66274845 GATGAATGTGAAAGTGTATGTATATGTGACAAGGCCGAATGACCAATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAACGT
* *
66274894 GATGAATGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAACGT
* *
66274941 GATGGATGTGAAAGTGTGTA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATATATATGTGATAAG
66274972 TCCCGAAGGG
Statistics
Matches: 157, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
47 49 0.31
48 1 0.01
49 107 0.68
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.28
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAACGT
Found at i:66279119 original size:48 final size:48
Alignment explanation
Indices: 66279012--66279371 Score: 505
Period size: 48 Copynumber: 7.6 Consensus size: 48
66279002 GTGCTAAATT
*
66279012 TGCCTGTGTAAGACCATGTCTAGGACATGGCATCA--G-TGATATATG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATG
* * *
66279057 TGCCTATGTAAGACCATGTCCGGGACATGGCATCGGCGATGATATATG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATG
* *
66279105 TGCCTGTGTAAGACCATGTCTGAGACATGGCATTAGCGATGATATATG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATG
* * *
66279153 TGCCCGTGTAAGACCATG-CTGGGACATGGCATTAGCAATGATATATG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATG
* * * *
66279200 TGCCTGTGTAAGACCATGTCTGGGACATGGTATCGGCAACGATATATG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATG
* * *
66279248 TGCCCGTGTAAGACCATGTTTGGGACATGGCATCAACGATGATATATG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATG
* * *
66279296 TGCCTGTGTAAGACCTTGTCT-GGACATGGCATCGGCGATGATATGTG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATG
*
66279343 TGCCAGTGTAAGACCATGTCTGGGACATG
1 TGCCTGTGTAAGACCATGTCTGGGACATG
66279372 ACATTGGTAC
Statistics
Matches: 278, Mismatches: 32, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
45 31 0.11
47 87 0.31
48 160 0.58
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (48 bp):
TGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATG
Found at i:66279208 original size:95 final size:96
Alignment explanation
Indices: 66279012--66279371 Score: 507
Period size: 95 Copynumber: 3.8 Consensus size: 96
66279002 GTGCTAAATT
**
66279012 TGCCTGTGTAAGACCATGTCT-AGGACATGGCATCA--G-TGATATATGTGCCTATGTAAGACCA
1 TGCCTGTGTAAGACCATGTCTGA-GACATGGCATCAGCGATGATATATGTGCCCGTGTAAGACCA
* *
66279073 TGTCCGGGACATGGCATCGGCGATGATATATG
65 TGTCTGGGACATGGCATCAGCGATGATATATG
*
66279105 TGCCTGTGTAAGACCATGTCTGAGACATGGCATTAGCGATGATATATGTGCCCGTGTAAGACCAT
1 TGCCTGTGTAAGACCATGTCTGAGACATGGCATCAGCGATGATATATGTGCCCGTGTAAGACCAT
* *
66279170 G-CTGGGACATGGCATTAGCAATGATATATG
66 GTCTGGGACATGGCATCAGCGATGATATATG
* * * * *
66279200 TGCCTGTGTAAGACCATGTCTGGGACATGGTATCGGCAACGATATATGTGCCCGTGTAAGACCAT
1 TGCCTGTGTAAGACCATGTCTGAGACATGGCATCAGCGATGATATATGTGCCCGTGTAAGACCAT
* *
66279265 GTTTGGGACATGGCATCAACGATGATATATG
66 GTCTGGGACATGGCATCAGCGATGATATATG
* * * *
66279296 TGCCTGTGTAAGACCTTGTCTG-GACATGGCATCGGCGATGATATGTGTGCCAGTGTAAGACCAT
1 TGCCTGTGTAAGACCATGTCTGAGACATGGCATCAGCGATGATATATGTGCCCGTGTAAGACCAT
66279360 GTCTGGGACATG
66 GTCTGGGACATG
66279372 ACATTGGTAC
Statistics
Matches: 238, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
93 32 0.13
94 1 0.00
95 134 0.56
96 71 0.30
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (96 bp):
TGCCTGTGTAAGACCATGTCTGAGACATGGCATCAGCGATGATATATGTGCCCGTGTAAGACCAT
GTCTGGGACATGGCATCAGCGATGATATATG
Found at i:66279306 original size:143 final size:142
Alignment explanation
Indices: 66279012--66279371 Score: 510
Period size: 143 Copynumber: 2.5 Consensus size: 142
66279002 GTGCTAAATT
* *
66279012 TGCCTGTGTAAGACCATGTCTAGGACATGGCA-T-CAGTGATATATGTGCCTATGTAAGACCATG
1 TGCCTGTGTAAGACCATGTCT-GGACATGGCATTGCAATGATATATGTGCCTGTGTAAGACCATG
* * * * *
66279075 TCCGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCATGTCTGAGACATGGCATTA
65 TCTGGGACATGGCATCGGCAACGATATATGTGCCCGTGTAAGACCATGTCTGAGACATGGCATCA
*
66279140 GCGATGATATATG
130 ACGATGATATATG
*
66279153 TGCCCGTGTAAGACCATG-CTGGGACATGGCATTAGCAATGATATATGTGCCTGTGTAAGACCAT
1 TGCCTGTGTAAGACCATGTCT-GGACATGGCATT-GCAATGATATATGTGCCTGTGTAAGACCAT
* * *
66279217 GTCTGGGACATGGTATCGGCAACGATATATGTGCCCGTGTAAGACCATGTTTGGGACATGGCATC
64 GTCTGGGACATGGCATCGGCAACGATATATGTGCCCGTGTAAGACCATGTCTGAGACATGGCATC
66279282 AACGATGATATATG
129 AACGATGATATATG
* * * * *
66279296 TGCCTGTGTAAGACCTTGTCTGGACATGGCATCGGCGATGATATGTGTGCCAGTGTAAGACCATG
1 TGCCTGTGTAAGACCATGTCTGGACATGGCAT-TGCAATGATATATGTGCCTGTGTAAGACCATG
66279361 TCTGGGACATG
65 TCTGGGACATG
66279372 ACATTGGTAC
Statistics
Matches: 195, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
140 12 0.06
141 18 0.09
143 163 0.84
144 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (142 bp):
TGCCTGTGTAAGACCATGTCTGGACATGGCATTGCAATGATATATGTGCCTGTGTAAGACCATGT
CTGGGACATGGCATCGGCAACGATATATGTGCCCGTGTAAGACCATGTCTGAGACATGGCATCAA
CGATGATATATG
Found at i:66280208 original size:18 final size:18
Alignment explanation
Indices: 66280185--66280220 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
66280175 ATCATGCATG
66280185 AGTTAAAGCTATGGATGT
1 AGTTAAAGCTATGGATGT
66280203 AGTTAAAGCTATGGATGT
1 AGTTAAAGCTATGGATGT
66280221 CTAAGTAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (18 bp):
AGTTAAAGCTATGGATGT
Found at i:66286459 original size:48 final size:48
Alignment explanation
Indices: 66286394--66286669 Score: 417
Period size: 48 Copynumber: 5.8 Consensus size: 48
66286384 ATCGTGCTAA
66286394 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
* *
66286442 ATGTTCCTATGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
* * *
66286490 TTGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGATGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
** *
66286538 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTAGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
* * * *
66286586 ATGTGCTTGTGTAAGACCTTGTCTGGGACATGGAATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
* * *
66286634 GTGTGCCAGTGTAAGACCCTGTCTGGGACATGGCAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCAT
66286670 TGGTACTTTA
Statistics
Matches: 205, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 205 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
Found at i:66287503 original size:18 final size:18
Alignment explanation
Indices: 66287480--66287515 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
66287470 ATCATGCATG
66287480 AGTTAAAGCTATGGATGT
1 AGTTAAAGCTATGGATGT
66287498 AGTTAAAGCTATGGATGT
1 AGTTAAAGCTATGGATGT
66287516 CTAAGTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (18 bp):
AGTTAAAGCTATGGATGT
Found at i:66287700 original size:42 final size:42
Alignment explanation
Indices: 66287641--66287730 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
66287631 CCCATGGATA
* * *
66287641 TGTGTCACACACGGCCAGCCCTATGGGCATGTAGCCTGACTG
1 TGTGTCACACACAGCCAGCCCCATGGGCATGTAGCCCGACTG
* * *
66287683 TGTGTGACACACAGCCAGCCCCATGGGCGTGTAGCCCGGCTG
1 TGTGTCACACACAGCCAGCCCCATGGGCATGTAGCCCGACTG
66287725 TGTGTC
1 TGTGTC
66287731 TCCTGCACCC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.31, T:0.21
Consensus pattern (42 bp):
TGTGTCACACACAGCCAGCCCCATGGGCATGTAGCCCGACTG
Found at i:66288554 original size:46 final size:45
Alignment explanation
Indices: 66288487--66288690 Score: 248
Period size: 46 Copynumber: 4.4 Consensus size: 45
66288477 ATATGGTCTT
* *
66288487 ACATGTTTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAG
1 ACATGTCTTACACTAGCTT-CATCTCGAGGCCGATGCATGTCCCAG
*
66288533 ACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAG
1 ACATGTCTTACACTAGCTT-CATCTCGAGGCCGATGCATGTCCCAG
* * * *
66288579 ACATGTCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCCAG
1 ACATGTCTTACACTAGC-TTCATCTCGAGGCCGATG-CATGTCCCAG
* * *
66288626 ACATGGTCTTACACTAGCTCTCATAAT-GTGGCCGATGCATGTCCCAA
1 ACAT-GTCTTACACTAGCT-TCAT-CTCGAGGCCGATGCATGTCCCAG
66288673 ACATGTCTTACACTAGCT
1 ACATGTCTTACACTAGCT
66288691 CACAGAAGTG
Statistics
Matches: 140, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
46 88 0.63
47 28 0.20
48 23 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
ACATGTCTTACACTAGCTTCATCTCGAGGCCGATGCATGTCCCAG
Found at i:66288665 original size:94 final size:92
Alignment explanation
Indices: 66288516--66288689 Score: 262
Period size: 94 Copynumber: 1.9 Consensus size: 92
66288506 ACATCTCGAG
* * *
66288516 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCATGTCCCAAAC
66288581 ATGTCTTACACTAGCACTCGTCTCAAT
66 ATGTCTTACACTAGCACTCGTCTCAAT
*
66288608 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGCCGATGCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-ATCGAGGCCGATGCATGTCCC
66288671 AAACATGTCTTACACTAGC
62 AAACATGTCTTACACTAGC
66288690 TCACAGAAGT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
92 7 0.09
93 14 0.19
94 51 0.69
95 2 0.03
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCATGTCCCAAAC
ATGTCTTACACTAGCACTCGTCTCAAT
Found at i:66293252 original size:20 final size:21
Alignment explanation
Indices: 66293216--66293259 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
66293206 TTAAAAAATT
66293216 AATGACAAAATTTAATTAAAA
1 AATGACAAAATTTAATTAAAA
*
66293237 AATGACCAAA-TTAATTAAAA
1 AATGACAAAATTTAATTAAAA
66293257 AAT
1 AAT
66293260 ATTAAAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (21 bp):
AATGACAAAATTTAATTAAAA
Found at i:66295808 original size:16 final size:16
Alignment explanation
Indices: 66295786--66295821 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
66295776 GTGGTTTGAC
*
66295786 AAAAAAAATTAAATATT
1 AAAAAAAA-TAAAAATT
66295803 AAAAAAAATAAAAATT
1 AAAAAAAATAAAAATT
66295819 AAA
1 AAA
66295822 TGTAAGACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAAAAATAAAAATT
Found at i:66296459 original size:3 final size:3
Alignment explanation
Indices: 66296451--66296498 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
66296441 GTATCCTCAC
66296451 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
66296499 CTCACAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:66298201 original size:13 final size:13
Alignment explanation
Indices: 66298183--66298243 Score: 95
Period size: 13 Copynumber: 4.7 Consensus size: 13
66298173 ACTTAAATTT
66298183 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
66298196 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* *
66298209 TCCACAGCACTTC
1 TCAAAAGCACTTC
66298222 TCAAAAGCACTTC
1 TCAAAAGCACTTC
66298235 TCAAAAGCA
1 TCAAAAGCA
66298244 TTGCCAAACT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:66299980 original size:234 final size:233
Alignment explanation
Indices: 66299571--66300040 Score: 868
Period size: 234 Copynumber: 2.0 Consensus size: 233
66299561 CCACACTTAG
* *
66299571 AAAAGTGATATGTTCGGTTAACAAGGAAAGGATAGATGCCACAAGCAAAGCTTGATAAGTCAGAT
1 AAAAGTGATAAGTTCGGTTAACAAGGAAAGGATAGACGCCACAAGCAAAGCTTGATAAGTCAGAT
* *
66299636 CAGTTTCAAAAGAACAAAGAGAATTGGATAACTCACGAAACTCAAATATAGCATAAATTCAGCAA
66 CAGTTCCAAAAGAACAAAGAGAATTGGATAACCCACGAAACTCAAATATAGCATAAATTCAGCAA
66299701 AAAGGTTCTCTACAAAAGGCTGATTACACATATTTATAGTACCAAAGAGGTCTAGCCGAATAGTC
131 AAAGGTTCTCTACAAAAGGCTGATTACACATATTTATAGTACCAAAGAGGTCTAGCCGAATAGTC
66299766 ACATATGATCATCTTAATGAGCTAATAATGAGCTCAAAT
196 ACA-ATGATCATCTTAATGAGCTAATAATGAGCTCAAAT
66299805 AAAAGTGATAAGTTCGGTTAACAAGGAAAGGATAGACGCCACAAGCAAAGCTTGATAAGTCAGAT
1 AAAAGTGATAAGTTCGGTTAACAAGGAAAGGATAGACGCCACAAGCAAAGCTTGATAAGTCAGAT
*
66299870 CAGTTCCGAAAGAACAAAGAGAATTGGATAACCCACGAAACTCAAATATAGCATAAATTCAGCAA
66 CAGTTCCAAAAGAACAAAGAGAATTGGATAACCCACGAAACTCAAATATAGCATAAATTCAGCAA
*
66299935 AAAGGTTCTCTACAAAAGGTTGATTACACATATTTATAGTACCAAAGAGGTCTAGCCGAATAGTC
131 AAAGGTTCTCTACAAAAGGCTGATTACACATATTTATAGTACCAAAGAGGTCTAGCCGAATAGTC
*
66300000 ACAATGATCATCTTAATGAGCTAATAATGAGCTGAAAT
196 ACAATGATCATCTTAATGAGCTAATAATGAGCTCAAAT
66300038 AAA
1 AAA
66300041 GCTAAAAAAC
Statistics
Matches: 229, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
233 37 0.16
234 192 0.84
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (233 bp):
AAAAGTGATAAGTTCGGTTAACAAGGAAAGGATAGACGCCACAAGCAAAGCTTGATAAGTCAGAT
CAGTTCCAAAAGAACAAAGAGAATTGGATAACCCACGAAACTCAAATATAGCATAAATTCAGCAA
AAAGGTTCTCTACAAAAGGCTGATTACACATATTTATAGTACCAAAGAGGTCTAGCCGAATAGTC
ACAATGATCATCTTAATGAGCTAATAATGAGCTCAAAT
Found at i:66300460 original size:18 final size:20
Alignment explanation
Indices: 66300413--66300468 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 20
66300403 AGACACCTGA
66300413 AATTAAACACATTAAAACAGAC
1 AATTAAACACA-TAAAACA-AC
66300435 ATATTAAACACATAAAAC-AC
1 A-ATTAAACACATAAAACAAC
*
66300455 -ATTAAACACTTAAA
1 AATTAAACACATAAA
66300469 TAAATAAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 13 0.41
20 2 0.06
22 7 0.22
23 10 0.31
ACGTcount: A:0.59, C:0.18, G:0.02, T:0.21
Consensus pattern (20 bp):
AATTAAACACATAAAACAAC
Found at i:66300471 original size:22 final size:21
Alignment explanation
Indices: 66300446--66300498 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
66300436 TATTAAACAC
66300446 ATAAAACACATTAAACACTTAA
1 ATAAAACACATTAAA-ACTTAA
*
66300468 ATAAATAAAC-TTAAAACTTAA
1 ATAAA-ACACATTAAAACTTAA
66300489 A-AAAACACAT
1 ATAAAACACAT
66300499 GTATCATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 3 0.11
20 4 0.15
21 7 0.26
22 10 0.37
23 3 0.11
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (21 bp):
ATAAAACACATTAAAACTTAA
Found at i:66300548 original size:19 final size:19
Alignment explanation
Indices: 66300521--66300613 Score: 77
Period size: 19 Copynumber: 5.1 Consensus size: 19
66300511 TTATTCCAGC
*
66300521 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
66300540 AACTTAATTAACTAACATG
1 AACTTAATTAACTAAGATG
* * * *
66300559 AA--TAATTTATTCCAG--C
1 AACTTAATTAACT-AAGATG
*
66300575 AACTTAATTAATTAAGATG
1 AACTTAATTAACTAAGATG
*
66300594 AACTCAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
66300613 A
1 A
66300614 GTAATTTATT
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
16 2 0.04
17 9 0.16
18 9 0.16
19 37 0.65
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:66300636 original size:54 final size:54
Alignment explanation
Indices: 66300511--66300643 Score: 203
Period size: 54 Copynumber: 2.5 Consensus size: 54
66300501 ATCATTAAAA
* * *
66300511 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAACATGAATAAT
1 TTATTCCAGCAACTTAATTAATTAAGATGAACTCAATTAACTAACATGAATAAT
* *
66300565 TTATTCCAGCAACTTAATTAATTAAGATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTTAATTAATTAAGATGAACTCAATTAACTAACATGAATAAT
* *
66300619 TTATTCCATCAATTTAATTAATTAA
1 TTATTCCAGCAACTTAATTAATTAA
66300644 ACTAAGTATT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.35
Consensus pattern (54 bp):
TTATTCCAGCAACTTAATTAATTAAGATGAACTCAATTAACTAACATGAATAAT
Found at i:66302766 original size:53 final size:53
Alignment explanation
Indices: 66302582--66302788 Score: 189
Period size: 53 Copynumber: 3.8 Consensus size: 53
66302572 CATTAGGTTT
* * * * * * *
66302582 AAGGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTTTACAAGAC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG-TTCACAAGGC
* * * * * * *
66302636 AAGGATATCATGTAAGACCATGTGAAGACATGGCATTGATAAACTACTAGAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTC-ACAAGGC
* * * * *
66302691 AAAGATCCCATGTAAGACCATGTCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCACAAGGC
* * *
66302744 AAGGATACCACGTAAGACCATGTCAAAACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
66302789 TAAAAAGGAA
Statistics
Matches: 121, Mismatches: 30, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 44 0.36
54 37 0.31
55 40 0.33
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCACAAGGC
Found at i:66304368 original size:28 final size:28
Alignment explanation
Indices: 66304325--66304379 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
66304315 TTCATGACAT
*
66304325 AGTTCATTTGGTCACTTACTGTTCCTTC
1 AGTTCATTTGGACACTTACTGTTCCTTC
66304353 AGTTCATTTGGACACTTACTGTTCCTT
1 AGTTCATTTGGACACTTACTGTTCCTT
66304380 TCCTTTTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.16, C:0.24, G:0.15, T:0.45
Consensus pattern (28 bp):
AGTTCATTTGGACACTTACTGTTCCTTC
Found at i:66308568 original size:11 final size:11
Alignment explanation
Indices: 66308548--66308577 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
66308538 GCCGAAGGCC
*
66308548 ATATCGCAATA
1 ATATCACAATA
66308559 ATATCACAATA
1 ATATCACAATA
66308570 ATATCACA
1 ATATCACA
66308578 CATGCAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.20, G:0.03, T:0.27
Consensus pattern (11 bp):
ATATCACAATA
Found at i:66309067 original size:27 final size:27
Alignment explanation
Indices: 66309032--66309134 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 27
66309022 GGCAAAACAA
* *
66309032 TCATTTTAC-CTTACAGGGGTATGTCGG
1 TCATTTTACAC-TACAAGGGTATATCGG
* * *
66309059 TCATTTTACACTATAGGGGTATATCAG
1 TCATTTTACACTACAAGGGTATATCGG
* *
66309086 TCATTTTACACTACAAGGGTATTTTGG
1 TCATTTTACACTACAAGGGTATATCGG
*
66309113 TAATTTTACACTACAAGGGTAT
1 TCATTTTACACTACAAGGGTAT
66309135 TTAAGTAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
27 65 0.98
28 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (27 bp):
TCATTTTACACTACAAGGGTATATCGG
Found at i:66309106 original size:54 final size:54
Alignment explanation
Indices: 66309032--66309229 Score: 170
Period size: 54 Copynumber: 3.7 Consensus size: 54
66309022 GGCAAAACAA
* * * * * * *
66309032 TCATTTTAC-CTTACAGGGGTATGTCGGTCATTTTACACTATAGGGGTATATCAG
1 TCATTTTACAC-TACAAGGGTATTTTGGTAATTTTACACTACAAGGGTATATAAG
*
66309086 TCATTTTACACTACAAGGGTATTTTGGTAATTTTACACTACAAGGGTATTTAAG
1 TCATTTTACACTACAAGGGTATTTTGGTAATTTTACACTACAAGGGTATATAAG
* * * * * * **
66309140 TAATTTTACA-AATAAGGGTATTTTGGTAATTTTACA-AATCAAGGATATTTCGG
1 TCATTTTACACTACAAGGGTATTTTGGTAATTTTACACTA-CAAGGGTATATAAG
* * *
66309193 TAATTTTACA-AATCGAGGGTATTTTGGTAATTTTACA
1 TCATTTTACACTA-CAAGGGTATTTTGGTAATTTTACA
66309230 AATCAAGGGT
Statistics
Matches: 124, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
52 1 0.01
53 47 0.38
54 75 0.60
55 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (54 bp):
TCATTTTACACTACAAGGGTATTTTGGTAATTTTACACTACAAGGGTATATAAG
Found at i:66309135 original size:27 final size:27
Alignment explanation
Indices: 66309099--66309466 Score: 395
Period size: 27 Copynumber: 13.7 Consensus size: 27
66309089 TTTTACACTA
* *
66309099 CAAGGGTATTTTGGTAATTTTAC-ACT
1 CAAGGGTATTTCGGTAATTTTACAAAT
**
66309125 ACAAGGGTATTTAAGTAATTTTACAAAT
1 -CAAGGGTATTTCGGTAATTTTACAAAT
*
66309153 -AAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
66309179 CAAGGATATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
66309206 CGAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
66309233 CAAGGGTGTTTCGATAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* **
66309260 CGAGGGTATTTTAGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * * *
66309287 CGAGGGTATTTCAGTAATTTCACAATT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
66309314 GAA-GGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* ** *
66309340 CAAGGGTTTTTTAGTAATTTCAC-AAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
66309366 CGAGGGTATTTCAGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
** *
66309393 CGGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
66309420 CAGGGGTACTTCGGTAATTTTACAAA-
1 CAAGGGTATTTCGGTAATTTTACAAAT
**
66309446 CTGGGGGTATTTCGGTAATTT
1 C-AAGGGTATTTCGGTAATTT
66309467 CTCTTTGTTA
Statistics
Matches: 292, Mismatches: 44, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
26 68 0.23
27 222 0.76
28 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAT
Found at i:66309189 original size:80 final size:81
Alignment explanation
Indices: 66309099--66309466 Score: 458
Period size: 80 Copynumber: 4.6 Consensus size: 81
66309089 TTTTACACTA
* * *
66309099 CAAGGGTATTTTGGTAATTTTAC-ACTACAAGGGTATTTAAGTAATTTTACAAAT-AAGGGTATT
1 CAAGGGTATTTTGGTAATTTTACAAAT-CGAGGGTATTTCAGTAATTTTACAAATCAAGGGTATT
66309162 TTGGTAATTTTACAAAT
65 TTGGTAATTTTACAAAT
* * ** *
66309179 CAAGGATATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCAAGGGTGTTT
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCAAGGGTATTT
* *
66309244 CGATAATTTTACAAAT
66 TGGTAATTTTACAAAT
* * * * *
66309260 CGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATTGAA-GGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCAAGGGTATTT
66309324 TGGTAATTTTACAAAT
66 TGGTAATTTTACAAAT
* * * **
66309340 CAAGGGTTTTTTAGTAATTTCAC-AATCGAGGGTATTTCAGTAATTTTACAAATCGGGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCAAGGGTATTT
66309404 TGGTAATTTTACAAAT
66 TGGTAATTTTACAAAT
* * * * *
66309420 CAGGGGTACTTCGGTAATTTTACAAA-CTGGGGGTATTTCGGTAATTT
1 CAAGGGTATTTTGGTAATTTTACAAATC-GAGGGTATTTCAGTAATTT
66309467 CTCTTTGTTA
Statistics
Matches: 246, Mismatches: 37, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
79 28 0.11
80 126 0.51
81 92 0.37
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCAAGGGTATTT
TGGTAATTTTACAAAT
Found at i:66309452 original size:54 final size:54
Alignment explanation
Indices: 66309101--66309466 Score: 429
Period size: 53 Copynumber: 6.8 Consensus size: 54
66309091 TTACACTACA
* ** *
66309101 AGGGTATTTTGGTAATTTTAC-ACTACAAGGGTATTTAAGTAATTTTACAAAT-A
1 AGGGTATTTTGGTAATTTTACAAAT-CAAGGGTATTTCGGTAATTTTACAAATCG
*
66309154 AGGGTATTTTGGTAATTTTACAAATCAAGGATATTTCGGTAATTTTACAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCG
* *
66309208 AGGGTATTTTGGTAATTTTACAAATCAAGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCG
* * * * *
66309262 AGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCAC-AATTG
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCG
* * ** *
66309315 AAGGTATTTTGGTAATTTTACAAATCAAGGGTTTTTTAGTAATTTCAC-AATCG
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCG
** ** *
66309368 AGGGTATTTCAGTAATTTTACAAATCGGGGGTATTTTGGTAATTTTACAAATC-
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCG
* * **
66309421 AGGGGTACTTCGGTAATTTTACAAA-CTGGGGGTATTTCGGTAATTT
1 A-GGGTATTTTGGTAATTTTACAAATC-AAGGGTATTTCGGTAATTT
66309467 CTCTTTGTTA
Statistics
Matches: 276, Mismatches: 32, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
53 138 0.50
54 138 0.50
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCG
Found at i:66309820 original size:28 final size:28
Alignment explanation
Indices: 66309783--66309846 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
66309773 TGGCCCCTTT
66309783 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCTCGTTCACATGGCCCATC
66309811 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCTCGTTCACATGGCCCATC
66309839 AGGCCCAA
1 AGGCCCAA
66309847 CTACTTCCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.23, C:0.39, G:0.19, T:0.19
Consensus pattern (28 bp):
AGGCCCAATCTCGTTCACATGGCCCATC
Found at i:66312465 original size:51 final size:50
Alignment explanation
Indices: 66312305--66312487 Score: 197
Period size: 50 Copynumber: 3.6 Consensus size: 50
66312295 CTGGTACGCA
* * * * * ** *
66312305 TAGTAGCCTGCACTTAGTACTTCACATGCGACCTAAAAATCTGGTACACG
1 TAGTAGCTTGCACTTAGTACTACACACGTGACTTAACCATCGGGTACACG
* * * * *
66312355 TAGTAGCCTACACTTAGTACAACACACGTGACTTAACCATCGGATCCACG
1 TAGTAGCTTGCACTTAGTACTACACACGTGACTTAACCATCGGGTACACG
* *
66312405 TAGTAGCTTGCACTTAGTATTACACACGTGA-TTGAAGCTATCGGGTACACG
1 TAGTAGCTTGCACTTAGTACTACACACGTGACTT-AA-CCATCGGGTACACG
*
66312456 TAGTAGCTTGCACTTAGTACTACACATGTGAC
1 TAGTAGCTTGCACTTAGTACTACACACGTGAC
66312488 CTAAAACCAT
Statistics
Matches: 110, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 2 0.02
50 68 0.62
51 40 0.36
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (50 bp):
TAGTAGCTTGCACTTAGTACTACACACGTGACTTAACCATCGGGTACACG
Found at i:66321858 original size:41 final size:41
Alignment explanation
Indices: 66321813--66321930 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
66321803 TGAAAGATAA
66321813 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
66321854 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
66321884 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
66321925 ATGTAG
1 ATGTAG
66321931 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:66321870 original size:71 final size:71
Alignment explanation
Indices: 66321785--66321944 Score: 320
Period size: 71 Copynumber: 2.3 Consensus size: 71
66321775 TGTATCCCAC
66321785 GTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGA
1 GTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGA
66321850 CACCAT
66 CACCAT
66321856 GTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGA
1 GTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGA
66321921 CACCAT
66 CACCAT
66321927 GTAGACAAGAGAGCTACG
1 GTAGACAAGAGAGCTACG
66321945 AGACAAATCG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 89 1.00
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.19
Consensus pattern (71 bp):
GTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGA
CACCAT
Found at i:66325275 original size:28 final size:28
Alignment explanation
Indices: 66325210--66325310 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
66325200 ATAGTGAATC
*
66325210 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
66325239 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
66325267 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
66325297 CGCACACTTAGTGC
1 CGCACACTTAGTGC
66325311 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Done.