Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 214 of 433
Found at i:66597577 original size:15 final size:15
Alignment explanation
Indices: 66597557--66597604 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
66597547 TCAAAGATGG
66597557 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
66597572 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
66597586 GTTTATGGATATAAA
1 GTTTATGGATATGAA
66597601 GTTT
1 GTTT
66597605 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:66597591 original size:14 final size:14
Alignment explanation
Indices: 66597551--66597594 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
66597541 AAGGATTCAA
66597551 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
66597565 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
66597580 AGATGGGTTTATGG
1 AGATGGGTTTATGG
66597594 A
1 A
66597595 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:66597620 original size:29 final size:29
Alignment explanation
Indices: 66597551--66597610 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
66597541 AAGGATTCAA
*
66597551 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
66597580 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
66597609 AG
1 AG
66597611 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:66600905 original size:14 final size:14
Alignment explanation
Indices: 66600883--66600927 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
66600873 TTAAAGAAGC
66600883 AACTCATTAAATTA
1 AACTCATTAAATTA
*
66600897 AATTCATTAAA-TA
1 AACTCATTAAATTA
*
66600910 AACTCATTTAATTA
1 AACTCATTAAATTA
66600924 AACT
1 AACT
66600928 AAGATGAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:66604056 original size:42 final size:42
Alignment explanation
Indices: 66603997--66604144 Score: 278
Period size: 42 Copynumber: 3.5 Consensus size: 42
66603987 CATTTAAGCC
66603997 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
*
66604039 TCTTAATTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
66604081 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
66604123 TCTTAGTTTAATTAAATGAGTT
1 TCTTAGTTTAA-TAAATGAGTT
66604145 TATTTAATGA
Statistics
Matches: 103, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
42 93 0.90
43 10 0.10
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.40
Consensus pattern (42 bp):
TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
Found at i:66604146 original size:14 final size:14
Alignment explanation
Indices: 66604127--66604171 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
66604117 AACTCATCTT
*
66604127 AGTTTAATTAAATG
1 AGTTTAATTTAATG
66604141 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
66604154 AATTTAATTTAATG
1 AGTTTAATTTAATG
66604168 AGTT
1 AGTT
66604172 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:66605558 original size:14 final size:14
Alignment explanation
Indices: 66605539--66605587 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
66605529 TTACTAGAAG
66605539 TTTATGTAGATGGA
1 TTTATGTAGATGGA
* * *
66605553 TTTATGGATATGAA
1 TTTATGTAGATGGA
66605567 GTTTATGTAGATGGA
1 -TTTATGTAGATGGA
66605582 TTTATG
1 TTTATG
66605588 GATATAAAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.45
Consensus pattern (14 bp):
TTTATGTAGATGGA
Found at i:66605573 original size:15 final size:15
Alignment explanation
Indices: 66605535--66605599 Score: 53
Period size: 14 Copynumber: 4.5 Consensus size: 15
66605525 GGGGTTACTA
*
66605535 GAAGTTTATGTAGAT
1 GAAGTTTATGGAGAT
* *
66605550 GGA-TTTATGGATAT
1 GAAGTTTATGGAGAT
*
66605564 GAAGTTTATGTAGAT
1 GAAGTTTATGGAGAT
* *
66605579 GGA-TTTATGGATAT
1 GAAGTTTATGGAGAT
*
66605593 AAAGTTT
1 GAAGTTT
66605600 TTGTAGGTTT
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
14 21 0.57
15 16 0.43
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (15 bp):
GAAGTTTATGGAGAT
Found at i:66605577 original size:29 final size:29
Alignment explanation
Indices: 66605535--66605605 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
66605525 GGGGTTACTA
66605535 GAAGTTTATGTAGATGGATTTATGGATAT
1 GAAGTTTATGTAGATGGATTTATGGATAT
66605564 GAAGTTTATGTAGATGGATTTATGGATAT
1 GAAGTTTATGTAGATGGATTTATGGATAT
* *
66605593 AAAGTTTTTGTAG
1 GAAGTTTATGTAG
66605606 GTTTGGTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (29 bp):
GAAGTTTATGTAGATGGATTTATGGATAT
Found at i:66611969 original size:70 final size:70
Alignment explanation
Indices: 66611855--66612018 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 70
66611845 CGATTTGTCT
66611855 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGG-GTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
66611920 CTTTCA
65 CTTTCA
66611926 CGTAGCTCTCTTGTCTACATGGGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATC
1 CGTAGCTCTCTTGTCTACATGGGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATC
66611991 TTTCA
66 TTTCA
66611996 CGTAGCTCTCTTGTCTACATGGG
1 CGTAGCTCTCTTGTCTACATGGG
66612019 ATACATCTCG
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 71 0.76
71 22 0.24
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:66614234 original size:66 final size:68
Alignment explanation
Indices: 66614158--66614344 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
66614148 TAGTACCACT
*
66614158 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
66614220 CACG
65 CACG
66614224 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
66614289 ATCACG
63 ATCACG
66614295 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
66614345 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:66614269 original size:71 final size:71
Alignment explanation
Indices: 66614181--66614344 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
66614171 CGATTTGTCT
66614181 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
66614246 CTTTCA
66 CTTTCA
66614252 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
66614317 CTTTCA
66 CTTTCA
66614323 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
66614345 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:66614382 original size:71 final size:70
Alignment explanation
Indices: 66614181--66614378 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
66614171 CGATTTGTCT
* * *
66614181 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
66614246 CTTTCA
65 CTTTCA
* * *
66614252 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
66614317 CTTTCA
65 CTTTCA
* *
66614323 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
66614379 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:66621802 original size:66 final size:68
Alignment explanation
Indices: 66621726--66621912 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
66621716 TAGTACCACT
*
66621726 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
66621788 CACG
65 CACG
66621792 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
66621857 ATCACG
63 ATCACG
66621863 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
66621913 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:66621837 original size:71 final size:71
Alignment explanation
Indices: 66621749--66621912 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
66621739 CGATTTGTCT
66621749 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
66621814 CTTTCA
66 CTTTCA
66621820 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
66621885 CTTTCA
66 CTTTCA
66621891 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
66621913 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:66621950 original size:71 final size:70
Alignment explanation
Indices: 66621749--66621946 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
66621739 CGATTTGTCT
* * *
66621749 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
66621814 CTTTCA
65 CTTTCA
* * *
66621820 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
66621885 CTTTCA
65 CTTTCA
* *
66621891 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
66621947 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:66625062 original size:57 final size:52
Alignment explanation
Indices: 66624853--66625104 Score: 371
Period size: 52 Copynumber: 4.8 Consensus size: 52
66624843 ACCAAAAATA
* * * *
66624853 TTATGAATGCAACAAAACAAACAATGAAGCATAATTAAAAACACCACTTAAT
1 TTATGAATGCAACAAAACAATCAATGAAGCATAAATAAAAACACAACTTTAT
*
66624905 TTATGAATGCAACTAAACAATCAATGAAGCATAAATAAAAACACAACTTTAT
1 TTATGAATGCAACAAAACAATCAATGAAGCATAAATAAAAACACAACTTTAT
66624957 TTATGAATGCAACAAAACAATCAATGAAGCATAAATAAAAACACAACTTTAT
1 TTATGAATGCAACAAAACAATCAATGAAGCATAAATAAAAACACAACTTTAT
*
66625009 TTATGAATGCAACAAAACAAT-AATTGGAGCATAAATAAAAAAAAAACACAACTTTAT
1 TTATGAATGCAACAAAACAATCAA-TGAAGCATAAAT-----AAAAACACAACTTTAT
* *
66625066 TTATGAATGCAACCAAACAAGCAATGAAGCATAAATAAA
1 TTATGAATGCAACAAAACAATCAATGAAGCATAAATAAA
66625105 TATACGACAA
Statistics
Matches: 183, Mismatches: 10, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
51 2 0.01
52 133 0.73
57 46 0.25
58 2 0.01
ACGTcount: A:0.54, C:0.15, G:0.09, T:0.22
Consensus pattern (52 bp):
TTATGAATGCAACAAAACAATCAATGAAGCATAAATAAAAACACAACTTTAT
Found at i:66639081 original size:21 final size:21
Alignment explanation
Indices: 66639055--66639118 Score: 119
Period size: 21 Copynumber: 3.0 Consensus size: 21
66639045 ATCCGAAATG
66639055 ATTGACAAAGGTATTCCATGT
1 ATTGACAAAGGTATTCCATGT
66639076 ATTGACAAAGGTATTCCATGT
1 ATTGACAAAGGTATTCCATGT
*
66639097 ATTGACAAAGGTATTCCGTGT
1 ATTGACAAAGGTATTCCATGT
66639118 A
1 A
66639119 GTCTAACAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (21 bp):
ATTGACAAAGGTATTCCATGT
Found at i:66642606 original size:21 final size:21
Alignment explanation
Indices: 66642582--66642623 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
66642572 TCATCAGATC
*
66642582 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
66642603 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
66642624 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:66644886 original size:29 final size:29
Alignment explanation
Indices: 66644852--66644910 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
66644842 CCCTAATACG
*
66644852 AACTTTGGCAAAATTAC-CATTTTGCCCCT
1 AACTTTGGCAAAATTACAC-TTTTACCCCT
* *
66644881 AACTTTTGCATAATTACACTTTTACCCCT
1 AACTTTGGCAAAATTACACTTTTACCCCT
66644910 A
1 A
66644911 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (29 bp):
AACTTTGGCAAAATTACACTTTTACCCCT
Found at i:66648389 original size:14 final size:14
Alignment explanation
Indices: 66648342--66648389 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
66648332 GTACGAATGG
*
66648342 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
66648356 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
66648370 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
66648384 ATTGGT
1 AATGGT
66648390 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:66654900 original size:14 final size:14
Alignment explanation
Indices: 66654881--66654926 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
66654871 ACTCTTTTTC
66654881 TTTTTTTCG-ATTGT
1 TTTTTTTCGAATT-T
66654895 TTTTTTTCGAA--T
1 TTTTTTTCGAATTT
*
66654907 TTTTTTTCAAATTT
1 TTTTTTTCGAATTT
66654921 TTTTTT
1 TTTTTT
66654927 GATTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 11 0.39
14 16 0.57
15 1 0.04
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.74
Consensus pattern (14 bp):
TTTTTTTCGAATTT
Found at i:66654909 original size:12 final size:12
Alignment explanation
Indices: 66654894--66654936 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
66654884 TTTTCGATTG
66654894 TTTTTTTTCGAA
1 TTTTTTTTCGAA
*
66654906 TTTTTTTTCAAA
1 TTTTTTTTCGAA
*
66654918 TTTTTTTTTG-A
1 TTTTTTTTCGAA
66654929 TTTTTTTT
1 TTTTTTTT
66654937 AACTTGTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 9 0.32
12 19 0.68
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:66655283 original size:14 final size:14
Alignment explanation
Indices: 66655236--66655283 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
66655226 GTACGAATGG
*
66655236 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
66655250 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
66655264 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
66655278 ATTGGT
1 AATGGT
66655284 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:66656800 original size:41 final size:41
Alignment explanation
Indices: 66656755--66656872 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
66656745 TGAAAGATAA
66656755 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
66656796 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
66656826 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
66656867 ATGTAG
1 ATGTAG
66656873 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:66656811 original size:71 final size:71
Alignment explanation
Indices: 66656723--66656886 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
66656713 GAGATGTATC
66656723 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
66656788 AGGACA
66 AGGACA
66656794 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
66656859 AGGACA
66 AGGACA
66656865 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
66656887 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:66660280 original size:54 final size:54
Alignment explanation
Indices: 66660174--66660282 Score: 175
Period size: 55 Copynumber: 2.0 Consensus size: 54
66660164 AGATTGAGAT
*
66660174 AGCATTGGCTATGTATGTGGCACTTTTGTGCAAGATTCCCAAGTATTTGATATTA
1 AGCATTGGCTATGTATGTGGCACTTTTGTG-AAGATTCCCAAGTATTCGATATTA
*
66660229 AGCATTGGTTATGTATGTGGCACTTTGTGTG-AGATTCCCAAGTATTCGATATTA
1 AGCATTGGCTATGTATGTGGCACTTT-TGTGAAGATTCCCAAGTATTCGATATTA
66660283 TTCTGAATGG
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
54 22 0.43
55 25 0.49
56 4 0.08
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (54 bp):
AGCATTGGCTATGTATGTGGCACTTTTGTGAAGATTCCCAAGTATTCGATATTA
Found at i:66666004 original size:40 final size:40
Alignment explanation
Indices: 66665887--66666007 Score: 233
Period size: 40 Copynumber: 3.0 Consensus size: 40
66665877 TACTAACGCT
*
66665887 CCTAGTACCTTTATGCGTTTAATGAACCATGTTCTTCATG
1 CCTAGTACCTTTATGCGTTTAATGAACCATGTTCTTCGTG
66665927 CCTAGTACCTTTATGCGTTTAATGAACCATGTTCTTCGTG
1 CCTAGTACCTTTATGCGTTTAATGAACCATGTTCTTCGTG
66665967 CCTAGTACCTTTATGCGTTTAATGAACCATGTTCTTCGTG
1 CCTAGTACCTTTATGCGTTTAATGAACCATGTTCTTCGTG
66666007 C
1 C
66666008 TTACATTGGT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.40
Consensus pattern (40 bp):
CCTAGTACCTTTATGCGTTTAATGAACCATGTTCTTCGTG
Found at i:66670115 original size:11 final size:11
Alignment explanation
Indices: 66670099--66670150 Score: 54
Period size: 12 Copynumber: 4.6 Consensus size: 11
66670089 TTATACAAGT
66670099 AAAAAAAATCG
1 AAAAAAAATCG
*
66670110 AAAAAAATTC-
1 AAAAAAAATCG
66670120 AAAAAAAATTTCG
1 AAAAAAAA--TCG
66670133 -AAAAAAATCTG
1 AAAAAAAATC-G
66670144 AAAAAAA
1 AAAAAAA
66670151 GTGTTTAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 9 0.26
11 10 0.29
12 15 0.44
ACGTcount: A:0.71, C:0.08, G:0.06, T:0.15
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:66670116 original size:12 final size:12
Alignment explanation
Indices: 66670099--66670139 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
66670089 TTATACAAGT
66670099 AAAAAAAA-TCG
1 AAAAAAAATTCG
66670110 -AAAAAAATTC-
1 AAAAAAAATTCG
66670120 AAAAAAAATTTCG
1 AAAAAAAA-TTCG
66670133 AAAAAAA
1 AAAAAAA
66670140 TCTGAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 7 0.27
11 9 0.35
12 3 0.12
13 7 0.27
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.15
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:66670125 original size:23 final size:24
Alignment explanation
Indices: 66670099--66670150 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
66670089 TTATACAAGT
66670099 AAAAAAAATCGAAAAAAAT-TCAA
1 AAAAAAAATCGAAAAAAATCTCAA
** *
66670122 AAAAAATTTCGAAAAAAATCTGAA
1 AAAAAAAATCGAAAAAAATCTCAA
66670146 AAAAA
1 AAAAA
66670151 GTGTTTAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.71, C:0.08, G:0.06, T:0.15
Consensus pattern (24 bp):
AAAAAAAATCGAAAAAAATCTCAA
Found at i:66670140 original size:12 final size:12
Alignment explanation
Indices: 66670107--66670150 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
66670097 GTAAAAAAAA
66670107 TCGAAAAAAA-T
1 TCGAAAAAAATT
*
66670118 TCAAAAAAAATT
1 TCGAAAAAAATT
*
66670130 TCGAAAAAAATC
1 TCGAAAAAAATT
66670142 T-GAAAAAAA
1 TCGAAAAAAA
66670151 GTGTTTAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 17 0.59
12 12 0.41
ACGTcount: A:0.66, C:0.09, G:0.07, T:0.18
Consensus pattern (12 bp):
TCGAAAAAAATT
Found at i:66671069 original size:9 final size:10
Alignment explanation
Indices: 66671062--66671118 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
66671052 AAGAGAAAAC
66671062 AAAGAAAAGA
1 AAAGAAAAGA
66671072 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
66671084 AAAGAAGA-A
1 AAAGAAAAGA
*
66671093 AAAGAAAATA
1 AAAGAAAAGA
*
66671103 AAATAAAAAGA
1 AAA-GAAAAGA
66671114 AAAGA
1 AAAGA
66671119 GAGGCAAGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
9 8 0.21
10 9 0.24
11 16 0.42
12 5 0.13
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:66671085 original size:21 final size:20
Alignment explanation
Indices: 66671051--66671116 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
66671041 ACATTCTTGT
66671051 AAAGAGAAAACAAAGAAAAG-A
1 AAAGA-AAAACAAA-AAAAGAA
*
66671072 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAA-CAAAAAAAGAA
*
66671093 AAAGAAAATAAAATAAAAAGAA
1 AAAGAAAA-ACAA-AAAAAGAA
66671115 AA
1 AA
66671117 GAGAGGCAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 8 0.21
21 20 0.53
22 10 0.26
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAGAAAAACAAAAAAAGAA
Found at i:66671086 original size:6 final size:5
Alignment explanation
Indices: 66671062--66671118 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
66671052 AAGAGAAAAC
* * *
66671062 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATA AAATAA
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAAGA AAA-GA
66671109 AAAGA AAAGA
1 AAAGA AAAGA
66671119 GAGGCAAGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
4 3 0.07
5 26 0.60
6 14 0.33
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:66671111 original size:25 final size:25
Alignment explanation
Indices: 66671066--66671114 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
66671056 GAAAACAAAG
66671066 AAAAGAAAAGAAAAAGCAAAAGAAGA
1 AAAAGAAAAGAAAAA-CAAAAGAAGA
*
66671092 AAAAGAAAATAAAATA-AAAAGAA
1 AAAAGAAAAGAAAA-ACAAAAGAA
66671115 AAGAGAGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 13 0.62
27 1 0.05
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (25 bp):
AAAAGAAAAGAAAAACAAAAGAAGA
Found at i:66671197 original size:11 final size:12
Alignment explanation
Indices: 66671166--66671196 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
66671156 TTGAGAGAAC
66671166 TTGAAAAAGCCT
1 TTGAAAAAGCCT
66671178 TTGAAAAAGCCT
1 TTGAAAAAGCCT
66671190 TTGAAAA
1 TTGAAAA
66671197 GAAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:66671207 original size:12 final size:12
Alignment explanation
Indices: 66671199--66671223 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66671189 TTTGAAAAGA
66671199 AAAAAGAAAATG
1 AAAAAGAAAATG
66671211 AAAAAGAAAATG
1 AAAAAGAAAATG
66671223 A
1 A
66671224 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:66671233 original size:30 final size:31
Alignment explanation
Indices: 66671199--66671280 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
66671189 TTTGAAAAGA
*
66671199 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
66671229 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
66671259 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
66671281 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:66671435 original size:19 final size:19
Alignment explanation
Indices: 66671411--66671449 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
66671401 TCCTAGAAGT
66671411 TTGTGCGACCAATTCCATC
1 TTGTGCGACCAATTCCATC
66671430 TTGTGCGACCAATTCCATC
1 TTGTGCGACCAATTCCATC
66671449 T
1 T
66671450 ACATTACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (19 bp):
TTGTGCGACCAATTCCATC
Found at i:66676808 original size:43 final size:43
Alignment explanation
Indices: 66676717--66676808 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 43
66676707 AGCTATAGGG
* * *
66676717 GACACATGATCGTTTCACCTAACCGTGTGTCATACATGACTGA
1 GACACATGATCGTGTCACCTAACCGTGTCTCACACATGACTGA
* * ** * *
66676760 TACACATGGTCGTGTCACCTGGCCGTGTCTCACGCATGGCTGA
1 GACACATGATCGTGTCACCTAACCGTGTCTCACACATGACTGA
66676803 GACACA
1 GACACA
66676809 CGCCCGTGTC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (43 bp):
GACACATGATCGTGTCACCTAACCGTGTCTCACACATGACTGA
Found at i:66680830 original size:25 final size:25
Alignment explanation
Indices: 66680762--66680830 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 25
66680752 TGCACATGTA
*
66680762 TGCTCACACGAACTGTGAATCAGAT
1 TGCTCACACGAGCTGTGAATCAGAT
* * *
66680787 TGCTCACATGAGCTATGAATTAGAT
1 TGCTCACACGAGCTGTGAATCAGAT
* *
66680812 TGTTCACACGAGTTGTGAA
1 TGCTCACACGAGCTGTGAA
66680831 AATGGGCTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (25 bp):
TGCTCACACGAGCTGTGAATCAGAT
Found at i:66681564 original size:30 final size:32
Alignment explanation
Indices: 66681528--66681601 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
66681518 TTCTACAGCT
*
66681528 TTTAATTATGCCTTG-TTTATT-ATATACATC
1 TTTAATTATGCCTTGCATTATTAATATACATC
* *
66681558 TTTAATTAATGTCTTGCATTATTAATCTACATC
1 TTTAATT-ATGCCTTGCATTATTAATATACATC
66681591 TTCTAATTATG
1 TT-TAATTATG
66681602 ACAAGCACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 7 0.19
31 7 0.19
32 5 0.14
33 13 0.35
34 5 0.14
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (32 bp):
TTTAATTATGCCTTGCATTATTAATATACATC
Found at i:66681692 original size:50 final size:52
Alignment explanation
Indices: 66681638--66681744 Score: 173
Period size: 50 Copynumber: 2.1 Consensus size: 52
66681628 TAAAGTCATA
* *
66681638 CATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGACATG
1 CATTATGCAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTATGACATG
*
66681688 CATTATGCAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTATGTCATG
1 CATTATGCAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTATGACATG
66681740 CATTA
1 CATTA
66681745 AATAGCTCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
50 22 0.42
51 12 0.23
52 18 0.35
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (52 bp):
CATTATGCAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTATGACATG
Found at i:66691461 original size:42 final size:42
Alignment explanation
Indices: 66691409--66691488 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
66691399 TCTAAACTCA
* * **
66691409 TTCACTGGCATT-TTGCCGGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCGGCTA-GCCCGAAGCCCGATATCAT
*
66691451 TTCACCGGCATTATAGCCTGCTAGCCCGAAGCCCGATA
1 TTCACCGGCATTATAGCCGGCTAGCCCGAAGCCCGATA
66691489 ATATTATTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 24 0.75
43 8 0.25
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (42 bp):
TTCACCGGCATTATAGCCGGCTAGCCCGAAGCCCGATATCAT
Found at i:66691679 original size:28 final size:28
Alignment explanation
Indices: 66691648--66691717 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
66691638 GAATCATTTG
*
66691648 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
66691676 ATATCTCGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
66691704 ATATTTCGTACACT
1 ATATTTCGCACACT
66691718 GAGTACCATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGTCATTCTCA
Found at i:66693306 original size:21 final size:21
Alignment explanation
Indices: 66693282--66693329 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
66693272 GAGTATTTTG
*
66693282 ATGTTTAATGATAGATTATG-A
1 ATGTTTAATGACAG-TTATGCA
*
66693303 ATGTTTGATGACAGTTATGCA
1 ATGTTTAATGACAGTTATGCA
66693324 A-GTTTA
1 ATGTTTA
66693330 TTTTAAGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.42
Consensus pattern (21 bp):
ATGTTTAATGACAGTTATGCA
Found at i:66695349 original size:68 final size:70
Alignment explanation
Indices: 66695277--66695474 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
66695267 ACACCCTGTA
* * * *
66695277 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
66695339 ATAAAT
65 ATAAAT
*
66695345 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
66695410 ATAAAT
65 ATAAAT
*
66695416 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
66695475 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:66695388 original size:41 final size:41
Alignment explanation
Indices: 66695343--66695460 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
66695333 TGAAAGATAA
66695343 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
66695384 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
66695414 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
66695455 ATGTAG
1 ATGTAG
66695461 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:66695400 original size:71 final size:71
Alignment explanation
Indices: 66695311--66695474 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
66695301 GAGATGTATC
66695311 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
66695376 AGGACA
66 AGGACA
66695382 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
66695447 AGGACA
66 AGGACA
66695453 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
66695475 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:66702917 original size:68 final size:70
Alignment explanation
Indices: 66702845--66703042 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
66702835 ACACCCTGTA
* * * *
66702845 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
66702907 ATAAAT
65 ATAAAT
*
66702913 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
66702978 ATAAAT
65 ATAAAT
*
66702984 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
66703043 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:66702956 original size:41 final size:41
Alignment explanation
Indices: 66702911--66703028 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
66702901 TGAAAGATAA
66702911 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
66702952 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
66702982 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
66703023 ATGTAG
1 ATGTAG
66703029 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:66702968 original size:71 final size:71
Alignment explanation
Indices: 66702879--66703042 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
66702869 GAGATGTATC
66702879 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
66702944 AGGACA
66 AGGACA
66702950 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
66703015 AGGACA
66 AGGACA
66703021 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
66703043 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:66705532 original size:50 final size:49
Alignment explanation
Indices: 66705478--66705703 Score: 227
Period size: 50 Copynumber: 4.5 Consensus size: 49
66705468 AAACCAAACC
* * *
66705478 AAGCCTTTATGGTGAGTTATCTTGAAAGCCTTTGTGGTGAGTTATCTATA
1 AAGCCTTTATGGTGAATTATC-TGAAAGCCTTTGTGGCGAGTTATCTGTA
* * * *
66705528 AAGCCTTTATGGCGAATTATCTGAGAAGTCTTTATGGCGAGTTATTTGTA
1 AAGCCTTTATGGTGAATTATCTGA-AAGCCTTTGTGGCGAGTTATCTGTA
* * * * * * *
66705578 AAGCCTTTGTGGCGAGTTATCTGTAAAGCTTTTGTGGCAAATTATTTGTA
1 AAGCCTTTATGGTGAATTATCTG-AAAGCCTTTGTGGCGAGTTATCTGTA
* * * * *
66705628 AAACCTTTATGGTGAATTATCTGAAAAGCTTTTATGGCAAGTTATCTGTG
1 AAGCCTTTATGGTGAATTATCTG-AAAGCCTTTGTGGCGAGTTATCTGTA
* *
66705678 AAGTCTTTGTGGTGAATTATCTGAAA
1 AAGCCTTTATGGTGAATTATCTGAAA
66705704 CATCTTTGTG
Statistics
Matches: 148, Mismatches: 26, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
49 6 0.04
50 141 0.95
51 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.39
Consensus pattern (49 bp):
AAGCCTTTATGGTGAATTATCTGAAAGCCTTTGTGGCGAGTTATCTGTA
Found at i:66705605 original size:75 final size:73
Alignment explanation
Indices: 66705481--66705703 Score: 248
Period size: 75 Copynumber: 3.0 Consensus size: 73
66705471 CCAAACCAAG
* * *
66705481 CCTTTATGGTGAGTTATCTTGAAAGCCTTTGTGGTGAGTTATCTATAAAGCCTTTATGGCGAATT
1 CCTTTATGGTGAGTTAT-TTGAAAGCCTTTGTGGCGAGTTATCTGTAAAGCCTTTGTGGCGAATT
*
66705546 ATCTGAGAAG
65 ATCTGA-AAA
* * * *
66705556 TCTTTATGGCGAGTTATTTGTAAAGCCTTTGTGGCGAGTTATCTGTAAAGCTTTTGTGGCAAATT
1 CCTTTATGGTGAGTTATTTG-AAAGCCTTTGTGGCGAGTTATCTGTAAAGCCTTTGTGGCGAATT
*
66705621 ATTTGTAAAA
65 ATCTG-AAAA
* * * * * * * *
66705631 CCTTTATGGTGAATTATCTGAAAAGCTTTTATGGCAAGTTATCTGTGAAGTCTTTGTGGTGAATT
1 CCTTTATGGTGAGTTATTTG-AAAGCCTTTGTGGCGAGTTATCTGTAAAGCCTTTGTGGCGAATT
66705696 ATCTGAAA
65 ATCTGAAA
66705704 CATCTTTGTG
Statistics
Matches: 123, Mismatches: 23, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
74 6 0.05
75 116 0.94
76 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (73 bp):
CCTTTATGGTGAGTTATTTGAAAGCCTTTGTGGCGAGTTATCTGTAAAGCCTTTGTGGCGAATTA
TCTGAAAA
Found at i:66705697 original size:25 final size:25
Alignment explanation
Indices: 66705478--66705700 Score: 191
Period size: 25 Copynumber: 8.9 Consensus size: 25
66705468 AAACCAAACC
* *
66705478 AAGCCTTTATGGTGAGTTATCT-TGA
1 AAGCCTTTATGGCGAATTATCTGT-A
* * * *
66705503 AAGCCTTTGTGGTGAGTTATCTATA
1 AAGCCTTTATGGCGAATTATCTGTA
66705528 AAGCCTTTATGGCGAATTATCTG-A
1 AAGCCTTTATGGCGAATTATCTGTA
* * *
66705552 GAAGTCTTTATGGCGAGTTATTTGTA
1 -AAGCCTTTATGGCGAATTATCTGTA
* *
66705578 AAGCCTTTGTGGCGAGTTATCTGTA
1 AAGCCTTTATGGCGAATTATCTGTA
* * * *
66705603 AAGCTTTTGTGGCAAATTATTTGTA
1 AAGCCTTTATGGCGAATTATCTGTA
* * *
66705628 AAACCTTTATGGTGAATTATCTGAA
1 AAGCCTTTATGGCGAATTATCTGTA
* *
66705653 AAGCTTTTATGGC-AAGTTATCTGTG
1 AAGCCTTTATGGCGAA-TTATCTGTA
* * *
66705678 AAGTCTTTGTGGTGAATTATCTG
1 AAGCCTTTATGGCGAATTATCTG
66705701 AAACATCTTT
Statistics
Matches: 162, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
24 3 0.02
25 155 0.96
26 4 0.02
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (25 bp):
AAGCCTTTATGGCGAATTATCTGTA
Found at i:66706406 original size:74 final size:74
Alignment explanation
Indices: 66706247--66706391 Score: 290
Period size: 74 Copynumber: 2.0 Consensus size: 74
66706237 TAGTTATCCG
66706247 CCAATAAAAAATCAGAAAAGTTTTAGCCAAGGTCTGAAAGGAAGTCCAGATCTTAAAGCCAAGGA
1 CCAATAAAAAATCAGAAAAGTTTTAGCCAAGGTCTGAAAGGAAGTCCAGATCTTAAAGCCAAGGA
66706312 TTTCCTACA
66 TTTCCTACA
66706321 CCAATAAAAAATCAGAAAAGTTTTAGCCAAGGTCTGAAAGGAAGTCCAGATCTTAAAGCCAAGGA
1 CCAATAAAAAATCAGAAAAGTTTTAGCCAAGGTCTGAAAGGAAGTCCAGATCTTAAAGCCAAGGA
66706386 TTTCCT
66 TTTCCT
66706392 CAGTGACGTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (74 bp):
CCAATAAAAAATCAGAAAAGTTTTAGCCAAGGTCTGAAAGGAAGTCCAGATCTTAAAGCCAAGGA
TTTCCTACA
Found at i:66708448 original size:7 final size:6
Alignment explanation
Indices: 66708421--66708461 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
66708411 TCAAACTTAA
*
66708421 CTTTTT C-TTTT CTTTTT -TTTTT CCTTTTT GTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT -CTTTTT CTTTTT CTTTTT
66708462 ATGGCTGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
5 10 0.33
6 15 0.50
7 5 0.17
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:66716036 original size:18 final size:17
Alignment explanation
Indices: 66716011--66716044 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
66716001 AAATAAAAGT
66716011 AAAGTATAAAAAGTATA
1 AAAGTATAAAAAGTATA
*
66716028 AAAGATATAACAAGTAT
1 AAAG-TATAAAAAGTAT
66716045 TATATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.24
Consensus pattern (17 bp):
AAAGTATAAAAAGTATA
Found at i:66717226 original size:16 final size:16
Alignment explanation
Indices: 66717205--66717239 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
66717195 ATATTTTAGC
66717205 TTTTATCGTATTAAAA
1 TTTTATCGTATTAAAA
* *
66717221 TTTTATTGTATTAGAA
1 TTTTATCGTATTAAAA
66717237 TTT
1 TTT
66717240 GTGTAAACGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (16 bp):
TTTTATCGTATTAAAA
Found at i:66718843 original size:27 final size:27
Alignment explanation
Indices: 66718813--66718896 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 27
66718803 AGACGGTCCA
* *
66718813 TTCAAATTTTGCCACAAAGGCTTTTCT
1 TTCATATTATGCCACAAAGGCTTTTCT
* *
66718840 TTCATATTATGCCACAAAGTCTTTCCT
1 TTCATATTATGCCACAAAGGCTTTTCT
*
66718867 TTCATATTACGCCACAAAGGCTTTTCT
1 TTCATATTATGCCACAAAGGCTTTTCT
66718894 TTC
1 TTC
66718897 CTAACGTGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (27 bp):
TTCATATTATGCCACAAAGGCTTTTCT
Found at i:66721747 original size:47 final size:47
Alignment explanation
Indices: 66721677--66722038 Score: 625
Period size: 47 Copynumber: 7.7 Consensus size: 47
66721667 GTATGAGATA
* * *
66721677 TATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66721724 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
66721771 CATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
66721818 TATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
66721865 TATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
66721912 TATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66721959 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
66722006 TATATATGAGATAAGGCCTAATGGCCGATGTGA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGA
66722039 CAGCCCAAAA
Statistics
Matches: 305, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 305 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:66723836 original size:40 final size:40
Alignment explanation
Indices: 66723781--66724028 Score: 349
Period size: 40 Copynumber: 6.2 Consensus size: 40
66723771 TGAATGATAC
* * *
66723781 CCGGGCTAAGTCCCGAAGGCATTTATGTTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATAT
66723821 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
*
66723861 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
66723901 CCGGGCTAAGACCCGAAGGCATTTGTG-TGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTTGTTATAT
* * * *
66723941 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * * *
66723981 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
66724021 CC-GGCTAA
1 CCGGGCTAA
66724029 ATTCCGAAGA
Statistics
Matches: 187, Mismatches: 18, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
39 6 0.03
40 179 0.96
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:66726578 original size:29 final size:29
Alignment explanation
Indices: 66726538--66726640 Score: 156
Period size: 29 Copynumber: 3.6 Consensus size: 29
66726528 GTTGAGAGAT
*
66726538 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
66726567 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
*
66726596 TGGCACTAAGTGTGCGAG-TTTAAA-GTCTA
1 TGGCACTAAGTGTGCGAGCTTGAAATG-C-A
66726625 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66726641 CGGCTGATTA
Statistics
Matches: 70, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.01
28 6 0.09
29 63 0.90
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:66735272 original size:40 final size:40
Alignment explanation
Indices: 66735217--66735464 Score: 338
Period size: 40 Copynumber: 6.2 Consensus size: 40
66735207 TGAATGATAC
* * **
66735217 CCGGGCTAAGTCCCGAAGGCATTTATGTTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
66735257 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
66735297 CGGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
66735337 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
66735377 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
66735417 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
66735457 CC-GGCTAA
1 CCGGGCTAA
66735465 ATTCCGAAGA
Statistics
Matches: 185, Mismatches: 22, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
39 5 0.03
40 178 0.96
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:66736904 original size:47 final size:47
Alignment explanation
Indices: 66736832--66737007 Score: 289
Period size: 47 Copynumber: 3.7 Consensus size: 47
66736822 GTTACAGCCG
* * *
66736832 ATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCTAATGGCCC
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
*
66736879 ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
*
66736926 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
* *
66736973 ATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
66737008 TCCCGAAGGG
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 121 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:66740019 original size:26 final size:26
Alignment explanation
Indices: 66739951--66740009 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
66739941 ATATAATAGG
* **
66739951 AAGCTCACATAGAGC-CATAATCAGA
1 AAGCTCACATAGAACTTTTAATCAGA
66739976 AAGCTCACATAGAACTTTTAATCA-A
1 AAGCTCACATAGAACTTTTAATCAGA
66740001 GAAGCTCAC
1 -AAGCTCAC
66740010 GAAGAGCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 15 0.52
26 14 0.48
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.20
Consensus pattern (26 bp):
AAGCTCACATAGAACTTTTAATCAGA
Found at i:66750249 original size:40 final size:40
Alignment explanation
Indices: 66750189--66750301 Score: 147
Period size: 40 Copynumber: 2.8 Consensus size: 40
66750179 TATTCGGATG
*
66750189 ATATTCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* *
66750229 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* ** *
66750269 ATAACCGGGTTAAG-TCCCGAAGGCATTCGTGCT
1 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCT
66750302 GGTTGTTACA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.02
40 63 0.98
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
Found at i:66757756 original size:26 final size:27
Alignment explanation
Indices: 66757727--66757798 Score: 87
Period size: 26 Copynumber: 2.7 Consensus size: 27
66757717 CCCCGGCTTA
* * *
66757727 TAAAATTATCGAAATATCGTTGA-TTG
1 TAAAATTATCGAAATACCCTCGATTTG
66757753 TAAAATTA-CTGAAATACCCTCGATTTG
1 TAAAATTATC-GAAATACCCTCGATTTG
66757780 TAAAA-TATCGAAATACCCT
1 TAAAATTATCGAAATACCCT
66757799 TGTAGGGTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 1 0.03
26 30 0.75
27 9 0.22
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCTCGATTTG
Found at i:66757820 original size:27 final size:27
Alignment explanation
Indices: 66757782--66758135 Score: 440
Period size: 27 Copynumber: 13.1 Consensus size: 27
66757772 TCGATTTGTA
* *
66757782 AAATATCGAAATACCCTTGTAGGGTAG
1 AAATACCGAAATACCCCTGTAGGGTAG
*
66757809 AAATACTGAAATACCCCTGTAGGGTAG
1 AAATACCGAAATACCCCTGTAGGGTAG
* *
66757836 AATTACTGAAATACCCCTGTAGGGTAG
1 AAATACCGAAATACCCCTGTAGGGTAG
* * *
66757863 AATTACCAAAATACCCTTGTAGGGTAG
1 AAATACCGAAATACCCCTGTAGGGTAG
*
66757890 AAATACCGAAATACCCTTGTAGGGTAG
1 AAATACCGAAATACCCCTGTAGGGTAG
*
66757917 AAATACCGAAATACCCCTATAGGGTAG
1 AAATACCGAAATACCCCTGTAGGGTAG
* ** * *
66757944 AATTATTGAAATACCCCTGTAGGATTG
1 AAATACCGAAATACCCCTGTAGGGTAG
* *
66757971 AAATACCGAAATAACCTTGTAGGGTAG
1 AAATACCGAAATACCCCTGTAGGGTAG
* *
66757998 AAATATCGAAATACCCCTGTAGCGTAG
1 AAATACCGAAATACCCCTGTAGGGTAG
* * *
66758025 AATTACTGAAATACCCCTGTAGGATAG
1 AAATACCGAAATACCCCTGTAGGGTAG
* *
66758052 AATTACCGAAATACCCTTGTAGGGTAG
1 AAATACCGAAATACCCCTGTAGGGTAG
*
66758079 AAATACCGAAATACACCTGTAGGGTAG
1 AAATACCGAAATACCCCTGTAGGGTAG
* * * *
66758106 AATTACCGAGATACCCTTGTGGGGTA-
1 AAATACCGAAATACCCCTGTAGGGTAG
66758132 AAAT
1 AAAT
66758136 TACCATTTTG
Statistics
Matches: 282, Mismatches: 45, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
26 3 0.01
27 279 0.99
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
AAATACCGAAATACCCCTGTAGGGTAG
Found at i:66757886 original size:81 final size:81
Alignment explanation
Indices: 66757788--66758135 Score: 500
Period size: 81 Copynumber: 4.3 Consensus size: 81
66757778 TGTAAAATAT
* * * *
66757788 CGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCC
1 CGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCC
66757853 TGTAGGGTAGAATTAC
66 TGTAGGGTAGAATTAC
*
66757869 CAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCC
1 CGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCC
* *
66757934 TATAGGGTAGAATTAT
66 TGTAGGGTAGAATTAC
* * * * * *
66757950 TGAAATACCCCTGTAGGATTGAAATACCGAAATAACCTTGTAGGGTAGAAATATCGAAATACCCC
1 CGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCC
*
66758015 TGTAGCGTAGAATTAC
66 TGTAGGGTAGAATTAC
* * * * *
66758031 TGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACACC
1 CGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCC
66758096 TGTAGGGTAGAATTAC
66 TGTAGGGTAGAATTAC
* *
66758112 CGAGATACCCTTGTGGGGTA-AAAT
1 CGAAATACCCTTGTAGGGTAGAAAT
66758136 TACCATTTTG
Statistics
Matches: 238, Mismatches: 29, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
80 3 0.01
81 235 0.99
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (81 bp):
CGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCC
TGTAGGGTAGAATTAC
Found at i:66758600 original size:22 final size:22
Alignment explanation
Indices: 66758572--66758631 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
66758562 GCCTTCTAAT
*
66758572 TATGGCTTTGTGCCAACCT-ACA
1 TATGGCTCTGTGCCAACCTGA-A
*
66758594 TATGGCTCTGTGCCAACCTGAT
1 TATGGCTCTGTGCCAACCTGAA
*
66758616 TATGGCTGTGTGCCAA
1 TATGGCTCTGTGCCAA
66758632 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (22 bp):
TATGGCTCTGTGCCAACCTGAA
Found at i:66758826 original size:26 final size:27
Alignment explanation
Indices: 66758789--66758862 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
66758779 TATTCTGTTA
* *
66758789 AGTGGCTTTGCCACATTATCTAT-TCT
1 AGTGGCTCTGCCACAATATCTATATCT
* *
66758815 GGTGGCTCTGCCACAATATCTGTATCT
1 AGTGGCTCTGCCACAATATCTATATCT
* *
66758842 AGTGACTCTGTCACAATATCT
1 AGTGGCTCTGCCACAATATCT
66758863 TTTTTGGAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 19 0.47
27 21 0.52
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (27 bp):
AGTGGCTCTGCCACAATATCTATATCT
Found at i:66758996 original size:6 final size:6
Alignment explanation
Indices: 66758987--66759071 Score: 57
Period size: 6 Copynumber: 13.8 Consensus size: 6
66758977 TTGCATTCAC
* * *
66758987 ATTCTG ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTTTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * * *
66759036 -TCACCTG ATTCTG ATTCTA ATTCTC ATTTTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
66759072 AGTTTTGATA
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
5 3 0.05
6 52 0.84
7 5 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:66759018 original size:25 final size:25
Alignment explanation
Indices: 66758990--66759059 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
66758980 CATTCACATT
*
66758990 CTGATTCTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTCAC
* * *
66759015 CTGATACTGATTTTGATTTTGTCAC
1 CTGATTCTGATTCTGATTCTGTCAC
*
66759040 CTGATTCTGATTCTAATTCT
1 CTGATTCTGATTCTGATTCT
66759060 CATTTTGATT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.49
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTCAC
Found at i:66768351 original size:46 final size:46
Alignment explanation
Indices: 66768206--66768467 Score: 173
Period size: 46 Copynumber: 5.6 Consensus size: 46
66768196 GCGTAAGCTA
* * *
66768206 TGTAAGACATGTTTGGGACATGCATCGGACA-C-ATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCAG-CATCGA-GATGAGAGCCAG
* * * *
66768252 TGTAAGACCATGTTTGGGACATGGCATCGGCATCGAGATGAGTGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCAGCATCGAGATGAGAGCCAG
* *
66768300 TGTAAGACATGTCTGGGACATGCATCAGCCTTGAGACAT-A-AGCCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCATCGAG--ATGAGAGCCAG
* ** *
66768346 TGTAAGACATGTCTGAGACATGCATCAGC-TACGAGAT--TTGTCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCAT-CGAGATGAGAGCCAG
* * *
66768390 TGTAAGACCATGTTTGGGACATGGCATCGACGCA--GATATGCTAGAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATC-A-GCATCGAGATG--AGAGCCAG
*
66768440 TGTAAGACCATGTTTGGGACATGGCATC
1 TGTAAGA-CATGTCTGGGACAT-GCATC
66768468 GGCACCTGCT
Statistics
Matches: 179, Mismatches: 20, Indels: 30
0.78 0.09 0.13
Matches are distributed among these distances:
44 13 0.07
45 13 0.07
46 62 0.35
47 31 0.17
48 28 0.16
49 1 0.01
50 31 0.17
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCAGCATCGAGATGAGAGCCAG
Found at i:66775929 original size:47 final size:45
Alignment explanation
Indices: 66775820--66775939 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 45
66775810 CTTGCGGGAT
66775820 CTAGTGTAAGACATGTCTGGGACAT-GCATCGGACACATTATGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGGCATCGG--ACATTATGAGAG
66775866 CTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGA-GACGAGTG
1 CTAGTGTAAGA-CATGTCTGGGACATGGCATCGGACATT-ATGA-GA--G
* *
66775914 GTAGTGTAAGACATGTTTGGGACATG
1 CTAGTGTAAGACATGTCTGGGACATG
66775940 CATTAGCCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 11
0.84 0.03 0.14
Matches are distributed among these distances:
45 6 0.09
46 14 0.21
47 28 0.42
48 18 0.27
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.25
Consensus pattern (45 bp):
CTAGTGTAAGACATGTCTGGGACATGGCATCGGACATTATGAGAG
Found at i:66775999 original size:46 final size:46
Alignment explanation
Indices: 66775820--66776085 Score: 167
Period size: 46 Copynumber: 5.7 Consensus size: 46
66775810 CTTGCGGGAT
* * **
66775820 CTAGTGTAAGA-CATGTCTGGGACATGCATCGGAC-AC-ATTATGAGAG
1 CTAGTGTAAGACCATGTTTGGGACATGCATCAG-CTACGAGAAT-A-AG
* * * ** *
66775866 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGACGAGTG
1 CTAGTGTAAGACCATGTTTGGGACAT-GCATCAGCTA-CGAGAATA-AG
* *
66775914 GTAGTGTAAGA-CATGTTTGGGACATGCATTAGCCT-CGAGACATAAG
1 CTAGTGTAAGACCATGTTTGGGACATGCATCAG-CTACGAGA-ATAAG
* **
66775960 CCAGTGTAAGA-CATGTTTGGGACATGCATCAGCTACGAG-ATGTG
1 CTAGTGTAAGACCATGTTTGGGACATGCATCAGCTACGAGAATAAG
*
66776004 TCTA-TGTAAGACCATGTTTGGGACATGACATCAATG-TA-GATATACTAGAG
1 -CTAGTGTAAGACCATGTTTGGGACATG-CATC-A-GCTACGAGA-A-TA-AG
66776054 CTAGTGTAAGACCATGTTTGGGACATGGCATC
1 CTAGTGTAAGACCATGTTTGGGACAT-GCATC
66776086 GACACCTGCA
Statistics
Matches: 178, Mismatches: 23, Indels: 34
0.76 0.10 0.14
Matches are distributed among these distances:
44 10 0.06
45 19 0.11
46 60 0.34
47 34 0.19
48 22 0.12
49 5 0.03
50 27 0.15
51 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (46 bp):
CTAGTGTAAGACCATGTTTGGGACATGCATCAGCTACGAGAATAAG
Found at i:66779749 original size:40 final size:40
Alignment explanation
Indices: 66779704--66779870 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
66779694 CGGAATATAA
66779704 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
66779744 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
66779784 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
66779824 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
66779863 CCGGATAT
1 CCGGATAT
66779871 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:66779854 original size:80 final size:79
Alignment explanation
Indices: 66779720--66779870 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
66779710 ATAATCACGT
*
66779720 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
66779785 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
66779800 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
66779863 CCGGATAT
64 CCGGATAT
66779871 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:66787730 original size:40 final size:40
Alignment explanation
Indices: 66787685--66787851 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
66787675 CGGAATATAA
66787685 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
66787725 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
66787765 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
66787805 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
66787844 CCGGATAT
1 CCGGATAT
66787852 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:66787835 original size:80 final size:79
Alignment explanation
Indices: 66787701--66787851 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
66787691 ATAATCACGT
*
66787701 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
66787766 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
66787781 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
66787844 CCGGATAT
64 CCGGATAT
66787852 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:66789109 original size:57 final size:53
Alignment explanation
Indices: 66789040--66789152 Score: 129
Period size: 57 Copynumber: 2.1 Consensus size: 53
66789030 CCCCTTTTCC
*
66789040 CTTAGTATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTTCTTTTCTTT
1 CTTAGTAATTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTTTT-TTTTCTTT
*** *
66789096 CTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTTTTTTT
1 CTTAGTA-ATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTTTCTTT
66789150 CTT
1 CTT
66789153 TTTCCATATC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
54 10 0.20
55 8 0.16
56 7 0.14
57 22 0.44
58 3 0.06
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.42
Consensus pattern (53 bp):
CTTAGTAATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTTTCTTT
Found at i:66795712 original size:40 final size:39
Alignment explanation
Indices: 66795667--66795832 Score: 172
Period size: 40 Copynumber: 4.2 Consensus size: 39
66795657 CGGAATATAA
66795667 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
66795707 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
** * *
66795746 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
66795786 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
66795825 CCGGATAT
1 CCGGATAT
66795833 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:66795789 original size:79 final size:79
Alignment explanation
Indices: 66795683--66795832 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
66795673 ATAATCACGT
*
66795683 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAAC-CAGCA-GAATTGCCTTCGGGCTTAGC
66795746 CCGGATATAGCCACTA
64 CCGGATATAGCCACTA
* * ** * *
66795762 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
66795827 GGATAT
66 GGATAT
66795833 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:66797112 original size:59 final size:59
Alignment explanation
Indices: 66797018--66797138 Score: 147
Period size: 59 Copynumber: 2.1 Consensus size: 59
66797008 ATCCTCCCCT
*
66797018 TTTCCTTAGTATTTCGGCCAAGAAGATGAGAAAGGATGAACAAATTTTTT-TTTCTTTC
1 TTTCCTTAGTAATTCGGCCAAGAAGATGAGAAAGGATGAACAAATTTTTTCTTTCTTTC
*** ** *
66797076 TTTCCTTAGTACATTCGGCCAAGCCTATG-GAGAAGGATGAACATTTTTTTTCTTTTTTTC
1 TTTCCTTAGTA-ATTCGGCCAAGAAGATGAGA-AAGGATGAACAAATTTTTTCTTTCTTTC
66797136 TTT
1 TTT
66797139 TTCCATACTC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
58 13 0.25
59 30 0.57
60 10 0.19
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.43
Consensus pattern (59 bp):
TTTCCTTAGTAATTCGGCCAAGAAGATGAGAAAGGATGAACAAATTTTTTCTTTCTTTC
Found at i:66799080 original size:42 final size:43
Alignment explanation
Indices: 66798979--66799135 Score: 181
Period size: 43 Copynumber: 3.7 Consensus size: 43
66798969 AGCTCGTACA
* * * *
66798979 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCG
* * * *
66799022 ATGCCACTGTTCCAGACAGGGTCTTACATGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCG
* * *
66799064 ATGTCAATGTCCCAGACATGGTCTTACATATAAATCAAAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACAT-GAAATCAAATATCG
* *
66799108 ATGCCAACGTCCTAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
66799136 CGATAACACA
Statistics
Matches: 94, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
42 27 0.29
43 40 0.43
44 27 0.29
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCG
Found at i:66801071 original size:40 final size:40
Alignment explanation
Indices: 66801026--66801192 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
66801016 CGGAATATAA
66801026 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
66801066 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
66801106 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
66801146 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
66801185 CCGGATAT
1 CCGGATAT
66801193 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 14 0.14
40 88 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:66801176 original size:80 final size:79
Alignment explanation
Indices: 66801042--66801190 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
66801032 ATAACCACGT
*
66801042 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
66801107 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
66801122 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
66801185 CCGGAT
64 CCGGAT
66801191 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:66808259 original size:40 final size:40
Alignment explanation
Indices: 66808214--66808381 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
66808204 CGGAATATAA
66808214 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
66808254 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
66808294 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
66808334 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
66808374 CCGGATAT
1 CCGGATAT
66808382 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:66808364 original size:80 final size:80
Alignment explanation
Indices: 66808230--66808379 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
66808220 ATAACCACGT
* *
66808230 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
66808295 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
66808310 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
66808373 CCCGGAT
64 CCCGGAT
66808380 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:66810752 original size:24 final size:24
Alignment explanation
Indices: 66810720--66810814 Score: 163
Period size: 24 Copynumber: 4.0 Consensus size: 24
66810710 CTGTCAGGAG
66810720 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
66810744 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
66810768 AGGATTGAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
66810792 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
66810815 GGAAATCTAG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.35, C:0.01, G:0.39, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:66812272 original size:27 final size:27
Alignment explanation
Indices: 66812232--66812343 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
66812222 AGGAAGCGTC
*
66812232 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
66812259 CTGGTGGCTCTGCCACATATT-TCT-ATT
1 CTGGTGGCTCTGCCACA-ATTATCTGA-T
*
66812286 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
66812314 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
66812340 CTGG
1 CTGG
66812344 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
26 9 0.12
27 47 0.63
28 18 0.24
29 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:66812342 original size:54 final size:54
Alignment explanation
Indices: 66812232--66812343 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
66812222 AGGAAGCGTC
* *
66812232 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * *
66812286 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
66812340 CTGG
1 CTGG
66812344 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:66818629 original size:24 final size:24
Alignment explanation
Indices: 66818597--66818643 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
66818587 AGTGAAAGTC
66818597 TGATAAGGGATAGGATTTAGGAGT
1 TGATAAGGGATAGGATTTAGGAGT
66818621 TGATAAGGGATAGGATTTAGGAG
1 TGATAAGGGATAGGATTTAGGAG
66818644 CAAATAAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.38, T:0.28
Consensus pattern (24 bp):
TGATAAGGGATAGGATTTAGGAGT
Found at i:66818650 original size:24 final size:24
Alignment explanation
Indices: 66818599--66818654 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
66818589 TGAAAGTCTG
***
66818599 ATAAGGGATAGGATTTAGGAGTTG
1 ATAAGGGATAGGATTTAGGAGCAA
66818623 ATAAGGGATAGGATTTAGGAGCAA
1 ATAAGGGATAGGATTTAGGAGCAA
66818647 ATAAGGGA
1 ATAAGGGA
66818655 GGAAATCTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.39, C:0.02, G:0.36, T:0.23
Consensus pattern (24 bp):
ATAAGGGATAGGATTTAGGAGCAA
Found at i:66820629 original size:28 final size:28
Alignment explanation
Indices: 66820589--66820653 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
66820579 ATGTACTAGA
*
66820589 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
66820617 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
66820645 ATACCCCTA
1 ATACCCCTA
66820654 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:66820817 original size:27 final size:27
Alignment explanation
Indices: 66820759--66820848 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
66820749 AGGAAGCGTC
66820759 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
66820787 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
66820814 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
66820843 CTGGTG
1 CTGGTG
66820849 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:66820867 original size:55 final size:56
Alignment explanation
Indices: 66820759--66820873 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
66820749 AGGAAGCGTC
* *
66820759 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
66820814 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
66820870 CTGG
1 CTGG
66820874 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:66821953 original size:11 final size:10
Alignment explanation
Indices: 66821925--66821958 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
66821915 AGCCTGTAAG
66821925 TATTCTGAAT
1 TATTCTGAAT
*
66821935 TTTTCTGAAT
1 TATTCTGAAT
66821945 ATATTCTGAAT
1 -TATTCTGAAT
66821956 TAT
1 TAT
66821959 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:66828497 original size:27 final size:27
Alignment explanation
Indices: 66828462--66828518 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
66828452 ACTAGAATAC
*
66828462 CCCTATGTATACAAAATTACCAT-TATA
1 CCCTATGTATACAAAATGACC-TCTATA
*
66828489 CCCTATGTATGCAAAATGACCTCTATA
1 CCCTATGTATACAAAATGACCTCTATA
66828516 CCC
1 CCC
66828519 CTAGGGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (27 bp):
CCCTATGTATACAAAATGACCTCTATA
Found at i:66828668 original size:28 final size:26
Alignment explanation
Indices: 66828627--66828715 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 26
66828617 AGGAAGCGTC
66828627 CTGGTGGCTA-TGCCATAAATTATCTGTT
1 CTGGTGGC-ACTGCCA-AAA-TATCTGTT
* *
66828655 CTGGTGGCCCTGCCAATATATCTGTT
1 CTGGTGGCACTGCCAAAATATCTGTT
66828681 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTG-C-CAAAATATCTGT-T
66828710 CTGGTG
1 CTGGTG
66828716 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
26 19 0.36
27 3 0.06
28 24 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (26 bp):
CTGGTGGCACTGCCAAAATATCTGTT
Found at i:66828683 original size:26 final size:28
Alignment explanation
Indices: 66828627--66828715 Score: 103
Period size: 26 Copynumber: 3.2 Consensus size: 28
66828617 AGGAAGCGTC
* *
66828627 CTGGTGGCTA-TGCCATAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* *
66828655 CTGGTGGCCCTG-C-CAATATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
66828681 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
66828710 CTGGTG
1 CTGGTG
66828716 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
26 21 0.41
27 2 0.04
28 21 0.41
29 7 0.14
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:66830896 original size:27 final size:27
Alignment explanation
Indices: 66830856--66830967 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
66830846 AGGAAGCGTC
*
66830856 CTGGTGGCTGTGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
66830883 CTGGTGCCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
66830910 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
66830938 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
66830964 CTGG
1 CTGG
66830968 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.64
28 18 0.25
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:66830962 original size:54 final size:54
Alignment explanation
Indices: 66830856--66830967 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
66830846 AGGAAGCGTC
* * *
66830856 CTGGTGGCTGTGCCACAATTATCTGATCTGGTGCCTCTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* *
66830910 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
66830964 CTGG
1 CTGG
66830968 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:66833326 original size:50 final size:52
Alignment explanation
Indices: 66833268--66833365 Score: 164
Period size: 50 Copynumber: 1.9 Consensus size: 52
66833258 TTAATAAAGT
* *
66833268 CATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTACATCATTAAATTATGA
66833318 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTACATCATTAAATT
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTACATCATTAAATT
66833366 GAGTCCTGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 27 0.61
51 11 0.25
52 6 0.14
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTACATCATTAAATTATGA
Found at i:66833386 original size:52 final size:49
Alignment explanation
Indices: 66833265--66833378 Score: 156
Period size: 50 Copynumber: 2.2 Consensus size: 49
66833255 CATTTAATAA
* *
66833265 AGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATAAATT
1 AGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTACATCATAAATT
*
66833314 ATGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTACATCATTAAATT
1 A-GTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTTACATCA-TAAATT
*
66833366 GAGTCCTGCATTA
1 -AGTCATGCATTA
66833379 AGAAACTCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
49 1 0.02
50 28 0.50
51 11 0.20
52 15 0.27
53 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (49 bp):
AGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTACATCATAAATT
Found at i:66836341 original size:25 final size:25
Alignment explanation
Indices: 66836313--66836364 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
66836303 TGTTTGAACA
66836313 TACCTATGCCTAAATCTCATTTGTT
1 TACCTATGCCTAAATCTCATTTGTT
*
66836338 TACCTATGCCTAAATCTCGTTTGTT
1 TACCTATGCCTAAATCTCATTTGTT
66836363 TA
1 TA
66836365 ACATGTGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (25 bp):
TACCTATGCCTAAATCTCATTTGTT
Found at i:66837531 original size:52 final size:50
Alignment explanation
Indices: 66837411--66837533 Score: 165
Period size: 50 Copynumber: 2.4 Consensus size: 50
66837401 GCATTTAACA
* * *
66837411 AAGTCATGGATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATAAATT
1 AAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTCCATCATAAATT
* *
66837461 ATGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTCCATCATTAAATT
1 AAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTTCCATCA-TAAATT
* *
66837513 AAGTTATGCATTAAGTAACTC
1 AAGTCATGCATTATGTAACTC
66837534 ATTTGTTCAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 28 0.45
51 11 0.18
52 23 0.37
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (50 bp):
AAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTCCATCATAAATT
Found at i:66838126 original size:14 final size:14
Alignment explanation
Indices: 66838107--66838134 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66838097 CTTACAAGAG
66838107 TTAAAAACAAAATT
1 TTAAAAACAAAATT
66838121 TTAAAAACAAAATT
1 TTAAAAACAAAATT
66838135 AGTGTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (14 bp):
TTAAAAACAAAATT
Found at i:66839612 original size:18 final size:17
Alignment explanation
Indices: 66839580--66839620 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
66839570 AAAGAATGAG
66839580 AGAAAA-AGAAATTGAA
1 AGAAAAGAGAAATTGAA
*
66839596 AGGAAAAGAGAACTTGAA
1 A-GAAAAGAGAAATTGAA
66839614 AGAAAAG
1 AGAAAAG
66839621 CAAAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 11 0.50
18 10 0.45
ACGTcount: A:0.63, C:0.02, G:0.24, T:0.10
Consensus pattern (17 bp):
AGAAAAGAGAAATTGAA
Found at i:66841799 original size:59 final size:58
Alignment explanation
Indices: 66841703--66841834 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
66841693 AAAATTGTAC
66841703 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
66841761 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
66841820 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
66841835 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:66841823 original size:88 final size:89
Alignment explanation
Indices: 66841673--66841834 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
66841663 GACAAGATTG
* * *
66841673 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
66841738 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
66841762 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
66841826 AAGTGTGCG
66 AAGTGTGCG
66841835 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:66841846 original size:29 final size:29
Alignment explanation
Indices: 66841703--66841834 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
66841693 AAAATTGTAC
*
66841703 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
66841732 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
66841761 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
66841791 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
66841820 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
66841835 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:66844508 original size:75 final size:75
Alignment explanation
Indices: 66844392--66844539 Score: 208
Period size: 75 Copynumber: 2.0 Consensus size: 75
66844382 AAGTTGGACG
* * * * *
66844392 GTTTAGGCCTTAAATCTCATATGCAAAACGTTGCATGGCTTGGGATTTTATTAGGGGCACAATAC
1 GTTTAGGCCTTAAAGCCCACATGAAAAACGTTGCATGGCTTGGGATTTTATCAGGGGCACAATAC
66844457 AAATTGGATA
66 AAATTGGATA
* *
66844467 GTTTAGGCCTTAAAGCCCACAT-AAAAACGTTTCATGGGCTTGGGATTTTATCAGGGGCCCAATA
1 GTTTAGGCCTTAAAGCCCACATGAAAAACGTTGCAT-GGCTTGGGATTTTATCAGGGGCACAATA
*
66844531 CGAATTGGA
65 CAAATTGGA
66844540 CTTGTGATAT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
74 11 0.17
75 53 0.83
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (75 bp):
GTTTAGGCCTTAAAGCCCACATGAAAAACGTTGCATGGCTTGGGATTTTATCAGGGGCACAATAC
AAATTGGATA
Found at i:66846008 original size:16 final size:17
Alignment explanation
Indices: 66845987--66846031 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
66845977 TTGCTAAAAT
66845987 AAATAAATAAAC-AATA
1 AAATAAATAAACGAATA
* *
66846003 AAATAAACAAACGATTA
1 AAATAAATAAACGAATA
*
66846020 AAATAATTAAAC
1 AAATAAATAAAC
66846032 CAATTAGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.69, C:0.09, G:0.02, T:0.20
Consensus pattern (17 bp):
AAATAAATAAACGAATA
Found at i:66850599 original size:39 final size:40
Alignment explanation
Indices: 66850553--66850665 Score: 122
Period size: 39 Copynumber: 2.8 Consensus size: 40
66850543 TATAATAATT
66850553 CACCGGCATAAAGCCTGCTAGGCCTAAGCCTGAATCT-CA
1 CACCGGCATAAAGCCTGCTAGGCCTAAGCCTGAATCTACA
* * * * * * *
66850592 CACCGGCATAAGGCCTGCTAGACTCAAAGTCTGATTTTATA
1 CACCGGCATAAAGCCTGCTAGGC-CTAAGCCTGAATCTACA
*
66850633 CACCGGCA-ATAAGCCTGCTAGGCATAAGCCTGA
1 CACCGGCATA-AAGCCTGCTAGGCCTAAGCCTGA
66850666 TTTAAATCAC
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
39 21 0.36
40 18 0.31
41 20 0.34
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (40 bp):
CACCGGCATAAAGCCTGCTAGGCCTAAGCCTGAATCTACA
Found at i:66856440 original size:40 final size:39
Alignment explanation
Indices: 66856395--66856562 Score: 137
Period size: 40 Copynumber: 4.2 Consensus size: 39
66856385 CGGAATATAA
66856395 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
66856435 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
66856475 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
* *
66856515 CCGGATATAATTTCCA--GCATAATTGCCTTCGGGAT-TTAGC
1 CCGGATATAA---CCATTGCACAAATGCCTTCGGG-TCTTAGC
66856555 CCGGATAT
1 CCGGATAT
66856563 CATTCAATTT
Statistics
Matches: 104, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
38 1 0.01
40 97 0.93
41 2 0.02
42 1 0.01
43 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:66856542 original size:80 final size:80
Alignment explanation
Indices: 66856411--66856560 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 80
66856401 ATAACCATGT
*
66856411 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
66856475 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * *
66856491 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGCCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
66856554 CCCGGAT
64 CCCGGAT
66856561 ATCATTCAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
79 3 0.05
80 58 0.94
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:66858375 original size:22 final size:22
Alignment explanation
Indices: 66858342--66858383 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
66858332 TAATCGTAGA
66858342 CTTATTATTTTATTTTAATTAT
1 CTTATTATTTTATTTTAATTAT
66858364 CTTAGTTA-TTTATTTTAATT
1 CTTA-TTATTTTATTTTAATT
66858384 GTTTTATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (22 bp):
CTTATTATTTTATTTTAATTAT
Done.