Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 262 of 310
Found at i:86546037 original size:29 final size:28
Alignment explanation
Indices: 86545995--86546049 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
86545985 AGATTGAATT
* *
86545995 AGGGCTTAGGCCCATACTGCTACTGTTTA
1 AGGGCTAAGGCCCAGACTG-TACTGTTTA
86546024 AGGGCTAAGGCCCAGACTGTACTGTT
1 AGGGCTAAGGCCCAGACTGTACTGTT
86546050 ACTGAATAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (28 bp):
AGGGCTAAGGCCCAGACTGTACTGTTTA
Found at i:86546053 original size:34 final size:33
Alignment explanation
Indices: 86546009--86546080 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
86545999 CTTAGGCCCA
**
86546009 TACTGCTACTGTTTAAGGGCTAAGGCCCAGACTG
1 TACTGCTACTGAAT-AGGGCTAAGGCCCAGACTG
* ** *
86546043 TACTGTTACTGAATAGGGCTTTGGCCCAGATTG
1 TACTGCTACTGAATAGGGCTAAGGCCCAGACTG
86546076 TACTG
1 TACTG
86546081 ACACTGTGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 21 0.66
34 11 0.34
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (33 bp):
TACTGCTACTGAATAGGGCTAAGGCCCAGACTG
Found at i:86549095 original size:28 final size:28
Alignment explanation
Indices: 86549063--86549116 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
86549053 AAATATTAAA
86549063 AATATTAATATAAA-ATAT-TATATTTTTT
1 AATATT-AT-TAAACATATATATATTTTTT
86549091 AATATTATTAAACATATATATATTTT
1 AATATTATTAAACATATATATATTTT
86549117 ATTATTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 4 0.17
27 6 0.25
28 14 0.58
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
AATATTATTAAACATATATATATTTTTT
Found at i:86549110 original size:26 final size:28
Alignment explanation
Indices: 86549063--86549127 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 28
86549053 AAATATTAAA
*
86549063 AATATTAATATAAAATATTATATTTTTT
1 AATATTAATATAAAATATTATATATTTT
86549091 AATATT-AT-TAAACATA-TATATATTTT
1 AATATTAATATAAA-ATATTATATATTTT
* *
86549117 ATTATTTATAT
1 AATATTAATAT
86549128 TTAGTCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 18 0.56
27 7 0.22
28 7 0.22
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (28 bp):
AATATTAATATAAAATATTATATATTTT
Found at i:86549224 original size:15 final size:16
Alignment explanation
Indices: 86549197--86549227 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
86549187 ATTTTACTTT
86549197 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
86549213 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
86549228 TAGTATTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:86549285 original size:15 final size:15
Alignment explanation
Indices: 86549265--86549321 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
86549255 ATTCAATATT
86549265 AATATTTTAATAATA
1 AATATTTTAATAATA
*
86549280 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
86549299 AATATATTAATAATA
1 AATATTTTAATAATA
*
86549314 AATGTTTT
1 AATATTTT
86549322 GTATTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:86549645 original size:25 final size:25
Alignment explanation
Indices: 86549617--86549694 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
86549607 TAAAGATAAA
*
86549617 ATAAATTCGATTAAACAATGAAAAT
1 ATAAATTCAATTAAACAATGAAAAT
** ** * *
86549642 AT-AATAAAATTTTATAAAGATAAA-
1 ATAAATTCAATTAAACAATGA-AAAT
86549666 ATAAATTCAATTAAACAATGAAAAT
1 ATAAATTCAATTAAACAATGAAAAT
86549691 ATAA
1 ATAA
86549695 GAAAATCTCA
Statistics
Matches: 37, Mismatches: 13, Indels: 6
0.66 0.23 0.11
Matches are distributed among these distances:
24 16 0.43
25 21 0.57
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (25 bp):
ATAAATTCAATTAAACAATGAAAAT
Found at i:86549660 original size:49 final size:49
Alignment explanation
Indices: 86549584--86549700 Score: 179
Period size: 49 Copynumber: 2.5 Consensus size: 49
86549574 ATATATGCAA
* *
86549584 AAACAATGTAAA-AT-AT-AAA-TTTATAAAGATAAAATAAATTCGATT
1 AAACAATGAAAATATAATAAAATTTTATAAAGATAAAATAAATTCAATT
86549629 AAACAATGAAAATATAATAAAATTTTATAAAGATAAAATAAATTCAATT
1 AAACAATGAAAATATAATAAAATTTTATAAAGATAAAATAAATTCAATT
*
86549678 AAACAATGAAAATATAAGAAAAT
1 AAACAATGAAAATATAATAAAAT
86549701 CTCAAATGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
45 11 0.17
46 2 0.03
47 2 0.03
48 3 0.05
49 47 0.72
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (49 bp):
AAACAATGAAAATATAATAAAATTTTATAAAGATAAAATAAATTCAATT
Found at i:86549848 original size:14 final size:14
Alignment explanation
Indices: 86549829--86549858 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
86549819 TCAGGAAAGT
86549829 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
86549843 AAATCATTTTTCAG
1 AAATCATTTTCCAG
86549857 AA
1 AA
86549859 GCCATTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:86555285 original size:27 final size:26
Alignment explanation
Indices: 86555254--86555614 Score: 436
Period size: 27 Copynumber: 13.4 Consensus size: 26
86555244 CCCCAAAATA
* *
86555254 GGTAAAATGATCGTAATAACCCTGTAG
1 GGTAAAATGACCGTAAT-GCCCTGTAG
*
86555281 GGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAAT-GCCCTGTAG
*
86555308 GGTAAAATGACCGTAATACCCATGTAG
1 GGTAAAATGACCGTAATGCCC-TGTAG
* * *
86555335 TGTAAAATGACCGTAATGCTCCTATTG
1 GGTAAAATGACCGTAATGC-CCTGTAG
**
86555362 GGTAAAATGATTGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCC-TGTAG
*
86555389 GGTAAAATGATCGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCC-TGTAG
* *
86555416 GGTAAAATGATCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAAT-GCCCTGTAG
*
86555443 GGTAAAATGACCGTAATGACCCTATAG
1 GGTAAAATGACCGTAATG-CCCTGTAG
*
86555470 GGTAAAATGACCGTAATGACCCTATAG
1 GGTAAAATGACCGTAATG-CCCTGTAG
86555497 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATG-CCCTGTAG
* *
86555524 GGTAAAAT-ACCATAATGCCCCTATAG
1 GGTAAAATGACCGTAATG-CCCTGTAG
86555550 GGTAAAATGACCGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCC-TGTAG
*
86555577 GGTAAAATAACCGTAATGGCCCTGTAG
1 GGTAAAATGACCGTAAT-GCCCTGTAG
*
86555604 GATAAAATGAC
1 GGTAAAATGAC
86555615 TATAATGACT
Statistics
Matches: 300, Mismatches: 26, Indels: 16
0.88 0.08 0.05
Matches are distributed among these distances:
26 32 0.11
27 259 0.86
28 9 0.03
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (26 bp):
GGTAAAATGACCGTAATGCCCTGTAG
Found at i:86561929 original size:26 final size:26
Alignment explanation
Indices: 86561900--86561981 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 26
86561890 TATTTTGAGA
86561900 ATGAAAATGGTTTGATTTATTCTCTG
1 ATGAAAATGGTTTGATTTATTCTCTG
* * ** * **
86561926 ATGATAGAT-CTTT-AAGTATTTTGAG
1 ATGA-AAATGGTTTGATTTATTCTCTG
*
86561951 AATGAAAATGGTTTGATTTATTCTCTA
1 -ATGAAAATGGTTTGATTTATTCTCTG
86561978 ATGA
1 ATGA
86561982 TAGATCTTTA
Statistics
Matches: 37, Mismatches: 15, Indels: 8
0.62 0.25 0.13
Matches are distributed among these distances:
25 10 0.27
26 18 0.49
27 9 0.24
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (26 bp):
ATGAAAATGGTTTGATTTATTCTCTG
Found at i:86561947 original size:52 final size:52
Alignment explanation
Indices: 86561890--86561993 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
86561880 ATTGAGAGAA
*
86561890 TATTTTGAGAATGAAAATGGTTTGATTTATTCTCTGATGATAGATCTTTAAG
1 TATTTTGAGAATGAAAATGGTTTGATTTATTCTCTAATGATAGATCTTTAAG
86561942 TATTTTGAGAATGAAAATGGTTTGATTTATTCTCTAATGATAGATCTTTAAG
1 TATTTTGAGAATGAAAATGGTTTGATTTATTCTCTAATGATAGATCTTTAAG
86561994 AACATGCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (52 bp):
TATTTTGAGAATGAAAATGGTTTGATTTATTCTCTAATGATAGATCTTTAAG
Found at i:86563114 original size:14 final size:15
Alignment explanation
Indices: 86563088--86563116 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
86563078 ATAATTTAGC
86563088 AAATAATAACAAAAT
1 AAATAATAACAAAAT
86563103 AAATAA-AACAAAAT
1 AAATAATAACAAAAT
86563117 TAAGCTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
AAATAATAACAAAAT
Found at i:86564081 original size:25 final size:25
Alignment explanation
Indices: 86564043--86564135 Score: 114
Period size: 25 Copynumber: 3.7 Consensus size: 25
86564033 TTCCAACCCA
*
86564043 CAGCTTGTGTGAGCATACCGATTTG
1 CAGCTCGTGTGAGCATACCGATTTG
* * * *
86564068 TAGCTCGTGAGAGCATACCGATCTA
1 CAGCTCGTGTGAGCATACCGATTTG
*
86564093 CAGCTCGAGTGAGCATACCGATTTG
1 CAGCTCGTGTGAGCATACCGATTTG
* *
86564118 CAGCTCGTATTAGCATAC
1 CAGCTCGTGTGAGCATAC
86564136 ATGTACATGA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.27
Consensus pattern (25 bp):
CAGCTCGTGTGAGCATACCGATTTG
Found at i:86567831 original size:9 final size:9
Alignment explanation
Indices: 86567817--86567847 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
86567807 ATTGGCCCAC
*
86567817 CATTTGGAA
1 CATTTGAAA
86567826 CATTTGAAA
1 CATTTGAAA
86567835 CATTTGAAA
1 CATTTGAAA
86567844 CATT
1 CATT
86567848 ACTGGTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (9 bp):
CATTTGAAA
Found at i:86568078 original size:11 final size:11
Alignment explanation
Indices: 86568030--86568085 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
86568020 AAGGTCCATC
86568030 TTGAATTGTCT
1 TTGAATTGTCT
* *
86568041 TTGAGTTGTTCG
1 TTGAATTG-TCT
*
86568053 TTCACATCT-TCT
1 TTGA-AT-TGTCT
86568065 TTGAATTGTCT
1 TTGAATTGTCT
86568076 TTGAATTGTC
1 TTGAATTGTC
86568086 ATAAACACTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
10 1 0.03
11 22 0.63
12 10 0.29
13 1 0.03
14 1 0.03
ACGTcount: A:0.16, C:0.14, G:0.18, T:0.52
Consensus pattern (11 bp):
TTGAATTGTCT
Found at i:86572370 original size:31 final size:31
Alignment explanation
Indices: 86572328--86572413 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 31
86572318 TCAATCTCAG
*
86572328 CATAT-ACTGGGCCAAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
86572358 CATATCATTGGGCCGAAGCCTCTT-TATTATT
1 CATATCACTGGGCCGAAGCCT-TTACATTATT
* *
86572389 CATATCACTAGGCTGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
86572414 TGTAAACGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
30 7 0.15
31 37 0.80
32 2 0.04
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:86572669 original size:25 final size:25
Alignment explanation
Indices: 86572637--86572700 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
86572627 TTAATAACTA
86572637 GGGCAAAGCCCTTTTCGATAAAATG
1 GGGCAAAGCCCTTTTCGATAAAATG
* * *
86572662 GGGCAAAGTCCTTTTCGGTAAACTG
1 GGGCAAAGCCCTTTTCGATAAAATG
*
86572687 GGGCATAGCCCTTT
1 GGGCAAAGCCCTTT
86572701 AGCACTTACT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (25 bp):
GGGCAAAGCCCTTTTCGATAAAATG
Found at i:86572773 original size:21 final size:20
Alignment explanation
Indices: 86572749--86572793 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
86572739 ATATATATAT
86572749 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATG-GC
*
86572770 ATATCATGGCATATTATGGC
1 ATATCATGGCATATCATGGC
86572790 ATAT
1 ATAT
86572794 TATGTACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (20 bp):
ATATCATGGCATATCATGGC
Found at i:86572797 original size:10 final size:10
Alignment explanation
Indices: 86572749--86572793 Score: 72
Period size: 10 Copynumber: 4.4 Consensus size: 10
86572739 ATATATATAT
86572749 ATATCATGGC
1 ATATCATGGC
86572759 ATATCATGTGC
1 ATATCATG-GC
86572770 ATATCATGGC
1 ATATCATGGC
*
86572780 ATATTATGGC
1 ATATCATGGC
86572790 ATAT
1 ATAT
86572794 TATGTACAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
10 23 0.70
11 10 0.30
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Found at i:86574754 original size:27 final size:27
Alignment explanation
Indices: 86574724--86574901 Score: 164
Period size: 27 Copynumber: 6.6 Consensus size: 27
86574714 ATATTGAGCC
* *
86574724 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
86574751 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
86574778 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
86574806 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
86574833 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
86574860 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
86574887 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
86574902 GTACAATTTA
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 2 0.02
27 101 0.80
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:86574863 original size:82 final size:81
Alignment explanation
Indices: 86574745--86574900 Score: 208
Period size: 82 Copynumber: 1.9 Consensus size: 81
86574735 TGCTATATAA
* * *
86574745 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCA-AACTCGC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACAAAGT-AGAA-TCGC
86574809 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
86574827 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACAAAGTAGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACAAAGTAGAATCGCA
86574891 CACTTAGTGC
65 CACTTAGTGC
86574901 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACAAAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:86582941 original size:27 final size:27
Alignment explanation
Indices: 86582911--86583087 Score: 144
Period size: 27 Copynumber: 6.5 Consensus size: 27
86582901 ATATTGAGCC
* * *
86582911 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCCACATAATCAACT
* * *
86582938 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACATAATCAACT
* *
86582965 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCCACATAAT-CAACT
* ** *
86582993 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAATCAACT
* **
86583020 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAATCAACT
* *
86583047 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCCACATAA-TCA-ACT
86583074 CGCACACTTAGTGC
1 CGCACACTTAGTGC
86583088 TGTACAATTT
Statistics
Matches: 122, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.02
27 95 0.78
28 24 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAATCAACT
Found at i:86588232 original size:40 final size:40
Alignment explanation
Indices: 86588186--86588410 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
86588176 CTTGCGCAAG
* * *
86588186 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
86588226 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
86588266 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
86588306 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
86588346 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
86588387 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
86588411 CATTCGAATA
Statistics
Matches: 159, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.81
41 29 0.18
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:86588281 original size:80 final size:80
Alignment explanation
Indices: 86588150--86588410 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
86588140 CTCAAGTAAT
* * * * * * * *
86588150 CTTCGGGATTTAG-CCGGATATAACTACTTGCGC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
86588213 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
86588228 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
86588292 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
86588308 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
86588373 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
86588389 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
86588411 CATTCGAATA
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
78 12 0.08
79 15 0.10
80 94 0.61
81 33 0.21
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:86595786 original size:40 final size:40
Alignment explanation
Indices: 86595756--86596005 Score: 394
Period size: 40 Copynumber: 6.3 Consensus size: 40
86595746 GGACTAAGAT
* * * *
86595756 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
86595796 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
86595836 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
86595876 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
86595916 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
86595956 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
86595995 CCGAAGGCATT
1 CCGAAGGCATT
86596006 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
39 34 0.17
40 165 0.83
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:86595840 original size:80 final size:80
Alignment explanation
Indices: 86595703--86596005 Score: 396
Period size: 80 Copynumber: 3.8 Consensus size: 80
86595693 TTGAATGCTG
* * * * * * * *
86595703 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGCTAAG-TCCCGAAGGCAT
* * *
86595766 TTGTGCGAGATACTAAA
64 TCGTGCGAGTTATTAAA
*
86595783 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
86595848 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
*
86595863 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
*
86595928 GTGCGAGTTGTTAAA
66 GTGCGAGTTATTAAA
* * * * *
86595943 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATT
86596006 TGAACGAGGA
Statistics
Matches: 202, Mismatches: 19, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
79 35 0.17
80 161 0.80
81 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:86595916 original size:120 final size:119
Alignment explanation
Indices: 86595703--86596005 Score: 410
Period size: 120 Copynumber: 2.5 Consensus size: 119
86595693 TTGAATGCTG
* * * * * * *
86595703 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
*
86595767 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
86595823 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTC
* * *
86595888 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * * *
86595943 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATT
86596006 TGAACGAGGA
Statistics
Matches: 162, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
119 35 0.22
120 123 0.76
121 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:86606222 original size:40 final size:40
Alignment explanation
Indices: 86606178--86606481 Score: 450
Period size: 40 Copynumber: 7.6 Consensus size: 40
86606168 AAGTGAATAT
* * * * **
86606178 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
*
86606218 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
86606258 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
86606298 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
86606338 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
86606378 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * * **
86606418 ATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
86606457 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
86606482 TGAACGAGGA
Statistics
Matches: 248, Mismatches: 14, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 33 0.13
40 215 0.87
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:86606276 original size:80 final size:80
Alignment explanation
Indices: 86606139--86606481 Score: 449
Period size: 80 Copynumber: 4.3 Consensus size: 80
86606129 TTGAATGCTG
* * * * * * * *
86606139 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* *
86606202 TTGTGCGAGATACTAAA
64 TCGTGCGAGTTACTAAA
86606219 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
**
86606284 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
*
86606299 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
**
86606364 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
86606379 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTCCCGAAGGCA-TG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
86606443 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* * *
86606458 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
86606482 TGAACGAGGA
Statistics
Matches: 240, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
79 35 0.15
80 199 0.83
81 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:86606352 original size:120 final size:120
Alignment explanation
Indices: 86606139--86606481 Score: 469
Period size: 120 Copynumber: 2.9 Consensus size: 120
86606129 TTGAATGCTG
* * * * * * *
86606139 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
* *
86606201 TTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
63 TTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
86606259 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
** *
86606324 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
86606379 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTCCCGAAGGCA-TG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * * *
86606443 GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
66 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
86606482 TGAACGAGGA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
119 35 0.17
120 157 0.79
121 8 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:86607417 original size:14 final size:14
Alignment explanation
Indices: 86607398--86607426 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
86607388 ATAAGAAGAA
86607398 TGAAGAACATGGCT
1 TGAAGAACATGGCT
86607412 TGAAGAACATGGCT
1 TGAAGAACATGGCT
86607426 T
1 T
86607427 TAATTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (14 bp):
TGAAGAACATGGCT
Found at i:86608258 original size:15 final size:15
Alignment explanation
Indices: 86608238--86608274 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
86608228 AGCCGTGTGT
86608238 CACACACGGCCAAGA
1 CACACACGGCCAAGA
86608253 CACACACGGCCAAGA
1 CACACACGGCCAAGA
86608268 CACACAC
1 CACACAC
86608275 CTATGTGGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.43, G:0.16, T:0.00
Consensus pattern (15 bp):
CACACACGGCCAAGA
Found at i:86608481 original size:19 final size:20
Alignment explanation
Indices: 86608459--86608507 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 20
86608449 ATTATTTTCG
* *
86608459 AAAAATAATGAATTTTTA-T
1 AAAAATAATGAAATTGTACT
*
86608478 -AAAATAATTAAATTGTACT
1 AAAAATAATGAAATTGTACT
86608497 AAAAAT-ATGAA
1 AAAAATAATGAA
86608508 CATGATGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 14 0.58
19 5 0.21
20 5 0.21
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (20 bp):
AAAAATAATGAAATTGTACT
Found at i:86611885 original size:17 final size:19
Alignment explanation
Indices: 86611843--86611886 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
86611833 ATGAAATTTT
*
86611843 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
86611862 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
86611880 AA-TATTA
1 AATTATTA
86611887 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:86612889 original size:34 final size:34
Alignment explanation
Indices: 86612850--86612919 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
86612840 CAATTCTCTC
*
86612850 ATTTTTTTT-TTATTTTCTTTCCTTCTCTTATCT
1 ATTTTTTTTATTATTTTCTTTCCTTCTCTCATCT
86612883 ATTTTTTTTATTATTTTCTTTCCTTCTCTCATCT
1 ATTTTTTTTATTATTTTCTTTCCTTCTCTCATCT
86612917 ATT
1 ATT
86612920 CCCCTCTTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 9 0.26
34 26 0.74
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.70
Consensus pattern (34 bp):
ATTTTTTTTATTATTTTCTTTCCTTCTCTCATCT
Found at i:86613942 original size:20 final size:20
Alignment explanation
Indices: 86613919--86613977 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
86613909 TAAACATGGT
86613919 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
* * * *
86613939 ATGTATGATAAT-AAAATTAT
1 ATGTATGAT-ATGCACATGAC
86613959 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
86613978 TGTATTCATA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:86619577 original size:31 final size:31
Alignment explanation
Indices: 86619539--86619614 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
86619529 TGCCCTAAGA
* ** *
86619539 TACACGGGCGTGTGAGTCCACACGGCCCACT
1 TACACGGGTGTGTGAGTCCACACAACCCACC
*
86619570 TACACGGGTGTGTGAGTCCATACAACCCACC
1 TACACGGGTGTGTGAGTCCACACAACCCACC
86619601 TACACGGGTGTGTG
1 TACACGGGTGTGTG
86619615 TCCCTTTATG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.21, C:0.30, G:0.29, T:0.20
Consensus pattern (31 bp):
TACACGGGTGTGTGAGTCCACACAACCCACC
Found at i:86621910 original size:47 final size:47
Alignment explanation
Indices: 86621852--86621973 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
86621842 GCATTGGCAC
* *
86621852 TAAGACAAGGATACCATGTAACACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
86621899 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
* *
86621946 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
86621974 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
Found at i:86622010 original size:54 final size:54
Alignment explanation
Indices: 86621946--86622133 Score: 227
Period size: 54 Copynumber: 3.5 Consensus size: 54
86621936 TGACATTTGG
* * *
86621946 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTA
* * * * * * *
86622000 TAAGGTAAGGAAATCATGTAATACCATGTCGAGACATGGCATTGATGAGTACTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTA
* * *
86622054 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-A
1 TAAGG-TAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTA
*
86622107 TAAGGCAAGGATACCATGTAAGACCAT
1 TAAGGTAAGGATACCATGTAAGACCAT
86622134 ATCAAACTAT
Statistics
Matches: 112, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
52 4 0.04
53 21 0.19
54 83 0.74
55 4 0.04
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (54 bp):
TAAGGTAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTA
Found at i:86622162 original size:45 final size:45
Alignment explanation
Indices: 86622107--86622192 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
86622097 GGTGAGTTCA
86622107 TAAGGCAAGGATACCATGTAAGACCATATCAA-ACTATGGCATCGG
1 TAAGGCAAGGATACCATGTAAGACCATATCAAGAC-ATGGCATCGG
* * * *
86622152 TAAGTCAAGGATCCCGTGTAAGACCATGTCAAGACATGGCA
1 TAAGGCAAGGATACCATGTAAGACCATATCAAGACATGGCA
86622193 ATGGTGAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
45 34 0.94
46 2 0.06
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (45 bp):
TAAGGCAAGGATACCATGTAAGACCATATCAAGACATGGCATCGG
Found at i:86622895 original size:55 final size:55
Alignment explanation
Indices: 86622829--86622940 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 55
86622819 TGGTATGTAA
*
86622829 ATATTTGATAATGATTAGCTATTGAAATGGATAATGAAGAACATGTTTTGGTGTT
1 ATATTTGATAATGATTAGCTATTGAAATGGATAATGAAGAACATGTTTTGCTGTT
* *
86622884 ATATTTGATAATGGTTAGCTATTGAAATGGCTAATGAAGAACATGTTTTGCTGTT
1 ATATTTGATAATGATTAGCTATTGAAATGGATAATGAAGAACATGTTTTGCTGTT
86622939 AT
1 AT
86622941 GTATGCCTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.40
Consensus pattern (55 bp):
ATATTTGATAATGATTAGCTATTGAAATGGATAATGAAGAACATGTTTTGCTGTT
Found at i:86630941 original size:28 final size:28
Alignment explanation
Indices: 86630909--86630966 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
86630899 CCATTTGTGG
86630909 TTTTAAGTCTTATTTGGGCTTTGATTTC
1 TTTTAAGTCTTATTTGGGCTTTGATTTC
*
86630937 TTTTAAGTTTTATTTGGGCTTTGATTTC
1 TTTTAAGTCTTATTTGGGCTTTGATTTC
86630965 TT
1 TT
86630967 ACCTTAAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.09, G:0.17, T:0.60
Consensus pattern (28 bp):
TTTTAAGTCTTATTTGGGCTTTGATTTC
Found at i:86638583 original size:17 final size:18
Alignment explanation
Indices: 86638557--86638590 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
86638547 TTTTTGTTTA
86638557 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
86638574 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
86638591 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:86640146 original size:13 final size:13
Alignment explanation
Indices: 86640128--86640152 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86640118 CCAAGCATAC
86640128 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
86640141 GCCCGTGTCCTT
1 GCCCGTGTCCTT
86640153 TACACGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:86647030 original size:22 final size:22
Alignment explanation
Indices: 86647002--86647123 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
86646992 TTTCACATCC
86647002 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
86647024 ATCACATATATACACGTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
86647048 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
86647071 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
86647095 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
86647118 ATCACA
1 ATCACA
86647124 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:86647037 original size:47 final size:47
Alignment explanation
Indices: 86646974--86647381 Score: 588
Period size: 47 Copynumber: 8.6 Consensus size: 47
86646964 CCCTTCGGGA
* *
86646974 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
86647021 CTTATCACATATATACACGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
86647068 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
86647115 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * * *
86647162 CTTATCACACATACACA-TGTTCACATTAATCATATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
86647209 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
86647256 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* **
86647303 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
86647350 CTTATCACATATATATACACTTTCACATTCAT
1 CTTATCAC--ATATATACACTTTCACATTCAT
86647382 NNNNNNNNNN
Statistics
Matches: 338, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
47 315 0.93
48 1 0.00
49 22 0.07
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:86663222 original size:40 final size:41
Alignment explanation
Indices: 86663167--86663318 Score: 195
Period size: 40 Copynumber: 3.8 Consensus size: 41
86663157 CGGATGATAA
* *
86663167 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATAT
* *
86663207 CCGGGCTAAGTCCCGAAGGCATTTGTGCGGGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATAT
* *
86663247 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATAT
** *
86663287 CCGGGCTAACACCCGACGGCA-TTGTGCGAGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTG
86663319 GTTATATTCG
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
39 12 0.12
40 87 0.88
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.24
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATAT
Found at i:86663302 original size:80 final size:79
Alignment explanation
Indices: 86663167--86663314 Score: 226
Period size: 80 Copynumber: 1.9 Consensus size: 79
86663157 CGGATGATAA
* * **
86663167 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCAATTCCGGGCTAACACCCGAAGGCA-TTG
86663232 TGCGGGTTACTATAT
65 TGCGGGTTACTATAT
*
86663247 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC-ATATCCGGGCTAACACCCGACGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCAAT-TCCGGGCTAACACCCGAAGGCATTG
86663311 TGCG
65 TGCG
86663315 AGTGGTTATA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
79 9 0.15
80 53 0.85
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCAATTCCGGGCTAACACCCGAAGGCATTGT
GCGGGTTACTATAT
Found at i:86673575 original size:48 final size:49
Alignment explanation
Indices: 86673504--86673730 Score: 239
Period size: 48 Copynumber: 4.7 Consensus size: 49
86673494 TATGTGTGCT
* *
86673504 AGTGTAAGAACATGTCTGGGACATAGCATCGGCCA-CATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACCATTATGAGAGCC
* * * * *
86673552 AGTGTAGGACCATGTCTGGGACATGGCATCAGCC-TCAATATGCGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACCATTATGAGAGCC
* * * *** * *
86673600 AGTGTAAGACCATGTTTGGAACATGGCATC-ACCATTGTTAT-ATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACCATTATGA-GAGCC
86673648 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACCGATGTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACC-AT-TATGAGAGCC
* *
86673698 AGTGTAAGACCATGTCTGAGACATGACATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
86673731 ATTTTACCCT
Statistics
Matches: 145, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
47 2 0.01
48 105 0.72
49 1 0.01
50 36 0.25
51 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACCATTATGAGAGCC
Found at i:86687181 original size:29 final size:29
Alignment explanation
Indices: 86687149--86687225 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 29
86687139 AATCATACTC
*
86687149 ATATTGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACCTGT
*
86687178 ATATGGCCCATTAGGCCCAAATCACCTTT
1 ATATGGCCCATTAGGCCCAAATCACCTGT
*
86687207 ATATGGCCCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
86687226 GTCACATTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACCTGT
Found at i:86687475 original size:24 final size:24
Alignment explanation
Indices: 86687448--86687498 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
86687438 GTAGCCAAAC
*
86687448 TTTCGACTTTTC-AGCATTTCTGCT
1 TTTCGACTTTTCGA-CATTTCGGCT
86687472 TTTCGACTTTTCGACATTTCGGCT
1 TTTCGACTTTTCGACATTTCGGCT
86687496 TTT
1 TTT
86687499 GCCGATACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.12, C:0.24, G:0.14, T:0.51
Consensus pattern (24 bp):
TTTCGACTTTTCGACATTTCGGCT
Found at i:86692315 original size:43 final size:43
Alignment explanation
Indices: 86692238--86692361 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 43
86692228 AGTACAATAT
* * * * * *
86692238 CAACGTCCTAGACGTGGTCTTACATGTAATCACATATCAATGC
1 CAACGTCCCAAACGTGGTCTTAAACGAAAACACATATCAATGC
** * * * *
86692281 CATTGTCCCATACAG-GGTTTTACACGAAAACACATGTCAATGC
1 CAACGTCCCAAAC-GTGGTCTTAAACGAAAACACATATCAATGC
*
86692324 CAACGTCCCAAACGTGGTCTTAAACGAGAACACATATC
1 CAACGTCCCAAACGTGGTCTTAAACGAAAACACATATC
86692362 GAAAATCCTA
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
42 1 0.02
43 61 0.97
44 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
CAACGTCCCAAACGTGGTCTTAAACGAAAACACATATCAATGC
Found at i:86698486 original size:46 final size:46
Alignment explanation
Indices: 86698414--86698565 Score: 184
Period size: 46 Copynumber: 3.4 Consensus size: 46
86698404 GCTAATTATG
*
86698414 TGCACTTAGTGTGCGAAATCGAGATAGCTTCGGCTATATATATTTT
1 TGCACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATATATTTT
* * * *
86698460 TGCATTTAGTGTGCGAGATCAAGATAGCTTTGGCTATATATATATT
1 TGCACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATATATTTT
* * * * *
86698506 GGCACTTAGTGTGCAAGATTGATACAGCTTCGGCTAT-T-TA-TTT
1 TGCACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATATATTTT
*
86698549 TGCACTAAGTGTGCGAG
1 TGCACTTAGTGTGCGAG
86698566 TTTCTCGAGT
Statistics
Matches: 89, Mismatches: 17, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
43 16 0.18
44 2 0.02
45 1 0.01
46 70 0.79
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (46 bp):
TGCACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATATATTTT
Found at i:86699558 original size:28 final size:28
Alignment explanation
Indices: 86699499--86699558 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
86699489 TATTCAGTAT
* *
86699499 CAGTACAGTCTGGGCCTAGGCCCTATAG
1 CAGTACAGTCTGGGCCTAAGCCCAATAG
*
86699527 -AGTAGCAGTGTGGGCCTAAGCCCAAT-G
1 CAGTA-CAGTCTGGGCCTAAGCCCAATAG
86699554 CAGTA
1 CAGTA
86699559 ACAATACAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.20
Consensus pattern (28 bp):
CAGTACAGTCTGGGCCTAAGCCCAATAG
Found at i:86699710 original size:26 final size:26
Alignment explanation
Indices: 86699681--86699751 Score: 124
Period size: 26 Copynumber: 2.7 Consensus size: 26
86699671 CACCAATATC
* *
86699681 GCAGCAAAGCTACCAGAAATAATGAT
1 GCAGCATAGCTGCCAGAAATAATGAT
86699707 GCAGCATAGCTGCCAGAAATAATGAT
1 GCAGCATAGCTGCCAGAAATAATGAT
86699733 GCAGCATAGCTGCCAGAAA
1 GCAGCATAGCTGCCAGAAA
86699752 CAATAAATGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.15
Consensus pattern (26 bp):
GCAGCATAGCTGCCAGAAATAATGAT
Found at i:86699797 original size:27 final size:27
Alignment explanation
Indices: 86699767--86699831 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
86699757 AATGTGGTAA
* *
86699767 AGCCACCAGTATCAGT-AATTATGGCAT
1 AGCCACCAGTAACAGTGAA-TATGACAT
*
86699794 AGCCACCAGTAACAGTGAATGTGACAT
1 AGCCACCAGTAACAGTGAATATGACAT
*
86699821 AGTCACCAGTA
1 AGCCACCAGTA
86699832 CAGAACTTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (27 bp):
AGCCACCAGTAACAGTGAATATGACAT
Found at i:86700060 original size:27 final size:26
Alignment explanation
Indices: 86699973--86700065 Score: 96
Period size: 27 Copynumber: 3.5 Consensus size: 26
86699963 TGCACAATCA
* * * *
86699973 TCATTTTACCATATAGGGGTATCACGG
1 TCATTTTACC-TACAAGGGCATTACGG
* *
86700000 TCACTTTACCCTACAAGGGCTTTACGG
1 TCATTTTA-CCTACAAGGGCATTACGG
86700027 TCATTTTATCCTACAAGGGCATTACGG
1 TCATTTTA-CCTACAAGGGCATTACGG
*
86700054 TCTTTTTACCTA
1 TCATTTTACCTA
86700066 TTAGGGGTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.07
27 49 0.89
28 2 0.04
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (26 bp):
TCATTTTACCTACAAGGGCATTACGG
Found at i:86700071 original size:26 final size:27
Alignment explanation
Indices: 86699996--86700065 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
86699986 TAGGGGTATC
* * *
86699996 ACGGTCACTTTACCCTACAAGGGCTTT
1 ACGGTCATTTTATCCTACAAGGGCATT
86700023 ACGGTCATTTTATCCTACAAGGGCATT
1 ACGGTCATTTTATCCTACAAGGGCATT
*
86700050 ACGGTCTTTTTA-CCTA
1 ACGGTCATTTTATCCTA
86700066 TTAGGGGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 4 0.10
27 35 0.90
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (27 bp):
ACGGTCATTTTATCCTACAAGGGCATT
Found at i:86700146 original size:27 final size:27
Alignment explanation
Indices: 86700116--86700294 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
86700106 GGTAAATCTA
* * *
86700116 CAAACTAAGGGTATTTTAATAATTTTG
1 CAAATTAAGGGTATTTTAGTAATTTTC
** * *
86700143 CAAACCAATGGTATTTTAGTAATTTTT
1 CAAATTAAGGGTATTTTAGTAATTTTC
* * *
86700170 AAAAGTTAAGGGTATTTTTGTAATTTTG
1 CAAA-TTAAGGGTATTTTAGTAATTTTC
* *
86700198 TAAATCAAGGGTATTTCTA-TAATTTTC
1 CAAATTAAGGGTATTT-TAGTAATTTTC
*
86700225 CAAATTAAGGGTATTTTGGTAATTTTC
1 CAAATTAAGGGTATTTTAGTAATTTTC
* * * *
86700252 CAAATCAGGGGTATTTTGGTAATTTTA
1 CAAATTAAGGGTATTTTAGTAATTTTC
86700279 CAAATTAAGGGTATTT
1 CAAATTAAGGGTATTT
86700295 CGATAATGTT
Statistics
Matches: 127, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 104 0.82
28 22 0.17
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (27 bp):
CAAATTAAGGGTATTTTAGTAATTTTC
Found at i:86700257 original size:54 final size:53
Alignment explanation
Indices: 86700114--86700294 Score: 211
Period size: 54 Copynumber: 3.3 Consensus size: 53
86700104 TTGGTAAATC
* * * *
86700114 TACAAACTAAGGGTATTTTAATAATTTTGCAAACCAATGGTATTTTAGTAATTTT
1 TACAAATTAAGGGTATTTTAGTAATTTTGCAAATCAAGGGTATTTTA-TAA-TTT
* *
86700169 TA-AAAGTTAAGGGTATTTTTGTAATTTTGTAAATCAAGGGTATTTCTATAATTT
1 TACAAA-TTAAGGGTATTTTAGTAATTTTGCAAATCAAGGGTATTT-TATAATTT
* * * * *
86700223 TCCAAATTAAGGGTATTTTGGTAATTTTCCAAATCAGGGGTATTTTGGTAATTT
1 TACAAATTAAGGGTATTTTAGTAATTTTGCAAATCAAGGGTATTTT-ATAATTT
86700277 TACAAATTAAGGGTATTT
1 TACAAATTAAGGGTATTT
86700295 CGATAATGTT
Statistics
Matches: 109, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
53 1 0.01
54 65 0.60
55 41 0.38
56 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (53 bp):
TACAAATTAAGGGTATTTTAGTAATTTTGCAAATCAAGGGTATTTTATAATTT
Found at i:86700301 original size:27 final size:27
Alignment explanation
Indices: 86700095--86700307 Score: 164
Period size: 27 Copynumber: 7.9 Consensus size: 27
86700085 TTCACCCTAC
* * * * *
86700095 AAGGGTGTTTTGGTAAATCTACAAACT
1 AAGGGTATTTTGATAATTTTACAAATT
* * **
86700122 AAGGGTATTTTAATAATTTTGCAAACC
1 AAGGGTATTTTGATAATTTTACAAATT
*
86700149 AATGGTATTTT-AGTAATTTTTA-AAAGTT
1 AAGGGTATTTTGA-TAA-TTTTACAAA-TT
** *
86700177 AAGGGTATTTTTG-TAATTTTGTAAATC
1 AAGGGTA-TTTTGATAATTTTACAAATT
*
86700204 AAGGGTATTTCT-ATAATTTTCCAAATT
1 AAGGGTATTT-TGATAATTTTACAAATT
* * *
86700231 AAGGGTATTTTGGTAATTTTCCAAATC
1 AAGGGTATTTTGATAATTTTACAAATT
* *
86700258 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGATAATTTTACAAATT
* *
86700285 AAGGGTATTTCGATAATGTTACA
1 AAGGGTATTTTGATAATTTTACA
86700308 GGTCGAAGGT
Statistics
Matches: 151, Mismatches: 26, Indels: 18
0.77 0.13 0.09
Matches are distributed among these distances:
26 5 0.03
27 126 0.83
28 16 0.11
29 4 0.03
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.42
Consensus pattern (27 bp):
AAGGGTATTTTGATAATTTTACAAATT
Found at i:86700319 original size:54 final size:54
Alignment explanation
Indices: 86700114--86700336 Score: 143
Period size: 54 Copynumber: 4.1 Consensus size: 54
86700104 TTGGTAAATC
* ** * * * *
86700114 TACAAACTAAGGGTATTTTAATAATTTTGCAAACCA-ATGGTATTTTAGTAATTTT
1 TACAAATTAAGGGTATTTCGATAATGTTACAAATCAGA-GGTATTTCAGTAA-TTT
* * **
86700169 TA-AAAGTTAAGGGTATTTTTG-TAATTTTGTAAATCA-AGGGTATTTCTA-TAATTT
1 TACAAA-TTAAGGGTA-TTTCGATAATGTTACAAATCAGA-GGTATTTC-AGTAATTT
* * * * * * **
86700223 TCCAAATTAAGGGTATTTTGGTAATTTTCCAAATCAGGGGTATTTTGGTAATTT
1 TACAAATTAAGGGTATTTCGATAATGTTACAAATCAGAGGTATTTCAGTAATTT
** *
86700277 TACAAATTAAGGGTATTTCGATAATGTTACAGGTC-GAAGGTATTTCAGTAACTT
1 TACAAATTAAGGGTATTTCGATAATGTTACAAATCAG-AGGTATTTCAGTAATTT
86700331 TACAAA
1 TACAAA
86700337 CCAGGGGTAT
Statistics
Matches: 137, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
53 6 0.04
54 89 0.65
55 37 0.27
56 5 0.04
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.41
Consensus pattern (54 bp):
TACAAATTAAGGGTATTTCGATAATGTTACAAATCAGAGGTATTTCAGTAATTT
Found at i:86700319 original size:81 final size:81
Alignment explanation
Indices: 86700152--86700355 Score: 205
Period size: 81 Copynumber: 2.5 Consensus size: 81
86700142 GCAAACCAAT
* * * ** *
86700152 GGTATTTTAGTAATTTTTA-AAAGTTAAGGGTATTTTTGTAATTTTGTAAATCAAGGGTATTTCT
1 GGTATTTTAGTAA-TTTTACAAA-TCAGGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCG
* * *
86700216 ATAATTTTCCAAATTAAG
64 ATAATGTTACAAATGAAG
* * * *
86700234 GGTATTTTGGTAATTTTCCAAATCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGAT
1 GGTATTTTAGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCGAT
**
86700299 AATGTTACAGGTCGAA-
66 AATGTTACAAAT-GAAG
* * *
86700315 GGTATTTCAGTAACTTTACAAACCAGGGGTATTTTAGTAAT
1 GGTATTTTAGTAATTTTACAAATCAGGGGTATTTTAGTAAT
86700356 ACTAGCCTAC
Statistics
Matches: 100, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
81 83 0.83
82 17 0.17
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (81 bp):
GGTATTTTAGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCGAT
AATGTTACAAATGAAG
Found at i:86703108 original size:33 final size:33
Alignment explanation
Indices: 86703070--86703161 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
86703060 GAGGTGTACA
86703070 TTCCTTTCCAAATGGTACACACAAAGTATACCT
1 TTCCTTTCCAAATGGTACACACAAAGTATACCT
* * * *
86703103 TTCCTTTTCATATGGTATACACAAAGTATATCT
1 TTCCTTTCCAAATGGTACACACAAAGTATACCT
** * *
86703136 AACCTTTCCAAGT-GTACACAAAAAGT
1 TTCCTTTCCAAATGGTACACACAAAGT
86703162 GTACATAACA
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
32 11 0.23
33 37 0.77
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (33 bp):
TTCCTTTCCAAATGGTACACACAAAGTATACCT
Found at i:86720844 original size:16 final size:16
Alignment explanation
Indices: 86720804--86720846 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
86720794 CTTACCATTC
*
86720804 ATGTTCATCAAGTAAT
1 ATGTTCATTAAGTAAT
*
86720820 -TCGTACATTAAGTAAT
1 AT-GTTCATTAAGTAAT
86720836 ATGTTCATTAA
1 ATGTTCATTAA
86720847 CTTAGTCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (16 bp):
ATGTTCATTAAGTAAT
Found at i:86721144 original size:32 final size:33
Alignment explanation
Indices: 86721085--86721149 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
86721075 CATATAGTAT
*
86721085 ACACAAAGTAGACCTAACATTTCCAAG-TGTAC
1 ACACAAAGTAGACATAACATTTCCAAGTTGTAC
* *
86721117 ACACAAAG-AGTACATAACCTTTTCAAGTTGTAC
1 ACACAAAGTAG-ACATAACATTTCCAAGTTGTAC
86721150 CATTTGGGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 2 0.07
32 21 0.75
33 5 0.18
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (33 bp):
ACACAAAGTAGACATAACATTTCCAAGTTGTAC
Found at i:86723837 original size:96 final size:96
Alignment explanation
Indices: 86723730--86723903 Score: 253
Period size: 96 Copynumber: 1.8 Consensus size: 96
86723720 TTTACTTTCT
* * *
86723730 TCTCTTGTTGGATATTTAATTGGACATCGAAAACCCTTAT-ATCCTTTTCAACTACACCAATAAC
1 TCTCTAGTTGGATATTTAATTGGACATCGAAAACCCTCATGAT-CTTTGCAACTACACCAATAAC
86723794 A-TTGCACAAAAGGTGATAGCTCAATCTTGTTC
65 AGTT-CACAAAAGGTGATAGCTCAATCTTGTTC
* * *
86723826 TCTCTAGTTGGATATTTTATTGGACATCGGAAACCCTCATGATCTTTGGAACTACACCAATAACA
1 TCTCTAGTTGGATATTTAATTGGACATCGAAAACCCTCATGATCTTTGCAACTACACCAATAACA
*
86723891 GTTCACAATAGGT
66 GTTCACAAAAGGT
86723904 AAAAGATCAA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
96 65 0.94
97 4 0.06
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (96 bp):
TCTCTAGTTGGATATTTAATTGGACATCGAAAACCCTCATGATCTTTGCAACTACACCAATAACA
GTTCACAAAAGGTGATAGCTCAATCTTGTTC
Found at i:86741609 original size:41 final size:41
Alignment explanation
Indices: 86741464--86741609 Score: 152
Period size: 41 Copynumber: 3.6 Consensus size: 41
86741454 CCCGATTCTT
* * *
86741464 AGCACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTA-G
1 AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTC-GATTATG
* * * * * * *
86741505 ACCACTGGCTCGAAGGCCCTTCGGAACTTAGTCCGGTTATG
1 AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGATTATG
* * *
86741546 A-CACTGGCTCTAACGCCCTTCGAAACTAAGTTCGATTATT
1 AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGATTATG
86741586 AGCACTGGCTCAAAAGCCCTTCGA
1 AGCACTGGCTCAAAAGCCCTTCGA
86741610 GACCAAGCTC
Statistics
Matches: 84, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
40 37 0.44
41 47 0.56
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (41 bp):
AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGATTATG
Found at i:86745935 original size:46 final size:46
Alignment explanation
Indices: 86745885--86746060 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
86745875 TGGTTGAGCA
*
86745885 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
86745931 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
86745978 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
86746024 CCCGAGCTCGTTGAGTTGAGTCCGAATTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
86746061 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:86746041 original size:93 final size:93
Alignment explanation
Indices: 86745882--86746053 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
86745872 GGATGGTTGA
* *
86745882 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
86745947 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAATTCGTGAGATGTAACTAG
* * *
86745975 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
86746040 TGAGTCCGAATTCG
66 TGAGTCCGAATTCG
86746054 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAATTCGTGAGATGTAACTAG
Found at i:86753092 original size:81 final size:81
Alignment explanation
Indices: 86752992--86753844 Score: 1600
Period size: 81 Copynumber: 10.5 Consensus size: 81
86752982 CGATTCTTAG
86752992 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
86753057 CTAAGTCCGATTATGA
66 CTAAGTCCGATTATGA
* * ** * * **
86753073 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTTAGACC-CCGATTAGCATTCCCTTCGGA
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGA-TTAGACCACTGGCTCGAAGGCCCTTCGGA
86753137 ACTAAGTCCGATTATGA
65 ACTAAGTCCGATTATGA
86753154 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
86753219 CTAAGTCCGATTATGA
66 CTAAGTCCGATTATGA
86753235 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
86753300 CTAAGTCCGATTATGA
66 CTAAGTCCGATTATGA
86753316 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
86753381 CTAAGTCCGATTATGA
66 CTAAGTCCGATTATGA
86753397 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
86753462 CTAAGTCCGATTATGA
66 CTAAGTCCGATTATGA
86753478 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
86753543 CTAAGTCCGATTATGA
66 CTAAGTCCGATTATGA
86753559 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
86753624 CTAAGTCCGATTATGA
66 CTAAGTCCGATTATGA
86753640 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
86753705 CTAAGTCCGATTATGA
66 CTAAGTCCGATTATGA
86753721 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
86753786 CTAAGTCCGATTATGA
66 CTAAGTCCGATTATGA
*
86753802 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTTAGACC
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGA-TTAGACC
86753845 CCGATTAGCA
Statistics
Matches: 752, Mismatches: 17, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
80 7 0.01
81 731 0.97
82 14 0.02
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (81 bp):
CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGACCACTGGCTCGAAGGCCCTTCGGAA
CTAAGTCCGATTATGA
Found at i:86755494 original size:72 final size:72
Alignment explanation
Indices: 86755377--86755522 Score: 265
Period size: 72 Copynumber: 2.0 Consensus size: 72
86755367 AATTCGTTAC
86755377 CTCATTTTATAATCTAAAAATGTTAATAGAAAAATACATATTATCATTAATAACCCATACCATGG
1 CTCATTTTATAATCTAAAAATGTTAATAGAAAAATACATATTATCATTAATAACCCATACCATGG
**
86755442 TTGGCCA
66 CCGGCCA
*
86755449 CTCATTTTATAATCTTAAAATGTTAATAGAAAAATACATATTATCATTAATAACCCATACCATGG
1 CTCATTTTATAATCTAAAAATGTTAATAGAAAAATACATATTATCATTAATAACCCATACCATGG
86755514 CCGGCCA
66 CCGGCCA
86755521 CT
1 CT
86755523 ATCCATACTT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.33
Consensus pattern (72 bp):
CTCATTTTATAATCTAAAAATGTTAATAGAAAAATACATATTATCATTAATAACCCATACCATGG
CCGGCCA
Found at i:86757127 original size:29 final size:30
Alignment explanation
Indices: 86757095--86757168 Score: 114
Period size: 29 Copynumber: 2.5 Consensus size: 30
86757085 GCTATCGGTT
*
86757095 ATGAAAAGGGATGGTGATGACCAT-CAACA
1 ATGAAAAGGGATGGTGACGACCATACAACA
* *
86757124 ATGAAAAGGGATGGTGACGACCATAGAACT
1 ATGAAAAGGGATGGTGACGACCATACAACA
86757154 ATGAAAAGGGATGGT
1 ATGAAAAGGGATGGT
86757169 TTCGGTTGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 23 0.56
30 18 0.44
ACGTcount: A:0.41, C:0.11, G:0.31, T:0.18
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATACAACA
Found at i:86757160 original size:30 final size:29
Alignment explanation
Indices: 86757094--86757285 Score: 127
Period size: 30 Copynumber: 6.4 Consensus size: 29
86757084 GGCTATCGGT
*
86757094 TATGAAAAGGGATGGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* *
86757123 AATGAAAAGGGATGGTGACGACCATAGAAC
1 TATGAAAAGGGATGGTGACGACCAT-CAAC
** **** **
86757153 TATGAAAAGGGATGGTTTCGGTTGTCGATT
1 TATGAAAAGGGATGGTGACGACCATC-AAC
* * * *
86757183 TATGAAAAGGGAGTGCT-TC-AGCTATCAAAT
1 TATGAAAAGGGA-TGGTGACGA-CCATC-AAC
*
86757213 TATGAAAATGGATGGTGACGACCATCAAGC
1 TATGAAAAGGGATGGTGACGACCATCAA-C
* * * *
86757243 AATAAAAAGGGATGGTGATGACCATCAAAT
1 TATGAAAAGGGATGGTGACGACCATC-AAC
86757273 TATGAAAAGGGAT
1 TATGAAAAGGGAT
86757286 AGCTTCGGCT
Statistics
Matches: 124, Mismatches: 31, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
29 28 0.23
30 90 0.73
31 6 0.05
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:86757331 original size:30 final size:30
Alignment explanation
Indices: 86757270--86757341 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
86757260 ATGACCATCA
* *
86757270 AATTATGAAAAGGGATAGCTTCGGCTGTCG
1 AATTATGAAAAGGGATAGCTTCAGCTATCG
* *
86757300 AATTATAAAAAGGGATAAG-TTCAGTTATCG
1 AATTATGAAAAGGGAT-AGCTTCAGCTATCG
*
86757330 AACTATGAAAAG
1 AATTATGAAAAG
86757342 AGATGGGTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 33 0.94
31 2 0.06
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (30 bp):
AATTATGAAAAGGGATAGCTTCAGCTATCG
Found at i:86770130 original size:20 final size:21
Alignment explanation
Indices: 86770086--86770133 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
86770076 TGACCCCTAT
*
86770086 AGTTT-TG-AAAATTTTCATT
1 AGTTTCTGAAAAATTTTCATG
*
86770105 ATTTTCTGAAAAATTTT-ATG
1 AGTTTCTGAAAAATTTTCATG
86770125 AGTTTCTGA
1 AGTTTCTGA
86770134 TTTAGTCCCG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.17
20 12 0.50
21 8 0.33
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (21 bp):
AGTTTCTGAAAAATTTTCATG
Found at i:86777130 original size:23 final size:23
Alignment explanation
Indices: 86777104--86777155 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
86777094 ACGGTACAAG
* *
86777104 TTAAAGTACATCAACGGCTAAGA
1 TTAAAATACATCAACGACTAAGA
86777127 TTAAAATACATCAACGACTAAGA
1 TTAAAATACATCAACGACTAAGA
86777150 TTAAAA
1 TTAAAA
86777156 ACAATCTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (23 bp):
TTAAAATACATCAACGACTAAGA
Found at i:86777215 original size:17 final size:17
Alignment explanation
Indices: 86777193--86777246 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
86777183 TTTTCAGAAT
**
86777193 CATATCTTTTAAGATTA
1 CATATCTTCCAAGATTA
*
86777210 CATATCATCCAAGATTA
1 CATATCTTCCAAGATTA
*
86777227 CATATCTTCGAAGATTA
1 CATATCTTCCAAGATTA
86777244 CAT
1 CAT
86777247 TCCATATTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (17 bp):
CATATCTTCCAAGATTA
Found at i:86777912 original size:19 final size:18
Alignment explanation
Indices: 86777884--86777919 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
86777874 AGTTTGTAAT
*
86777884 ATAATATATAGATAAATA
1 ATAATATATACATAAATA
86777902 ATAACTATATACATAAAT
1 ATAA-TATATACATAAAT
86777920 TTTAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (18 bp):
ATAATATATACATAAATA
Found at i:86782089 original size:21 final size:21
Alignment explanation
Indices: 86782055--86782096 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
86782045 AATGTGGCAA
*
86782055 GTTAACTTGCCACATCAGCTG
1 GTTAAATTGCCACATCAGCTG
*
86782076 GTTAAATTGTCACATCAGCTG
1 GTTAAATTGCCACATCAGCTG
86782097 TCCCGTTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (21 bp):
GTTAAATTGCCACATCAGCTG
Found at i:86790746 original size:19 final size:19
Alignment explanation
Indices: 86790702--86790749 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
86790692 AAAATAATTT
*
86790702 TAAAAAATGTAATAGTAAA
1 TAAAAAATATAATAGTAAA
**
86790721 TTTAAAATATATATA-TAAA
1 TAAAAAATATA-ATAGTAAA
86790740 TAAAAAATAT
1 TAAAAAATAT
86790750 TGTTGAAAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (19 bp):
TAAAAAATATAATAGTAAA
Found at i:86790809 original size:30 final size:30
Alignment explanation
Indices: 86790775--86790843 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 30
86790765 ATAGGACCGT
86790775 TTTACTAGAAAAGGCTTATTTCT-TATT-TTA
1 TTTACTAGAAAAGGCTTATTT-TAT-TTATTA
* * *
86790805 TTTAC-GGAAATGGGTTATTTTATTTATTA
1 TTTACTAGAAAAGGCTTATTTTATTTATTA
86790834 TTTACTAGAA
1 TTTACTAGAA
86790844 TGGGCCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
28 3 0.09
29 21 0.66
30 8 0.25
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.49
Consensus pattern (30 bp):
TTTACTAGAAAAGGCTTATTTTATTTATTA
Found at i:86791174 original size:28 final size:28
Alignment explanation
Indices: 86791130--86791195 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
86791120 GGAGATTTAT
*
86791130 AAAATAAATTGGAGTTTAGGGA-TTTAAA
1 AAAATAAATTGAAGTTTA-GGATTTTAAA
*
86791158 AAAATAAA-TGAAGGTTTAGGATTTTTAA
1 AAAATAAATTGAA-GTTTAGGATTTTAAA
*
86791186 AAAATTAATT
1 AAAATAAATT
86791196 AAATTAGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 6 0.19
28 25 0.78
29 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (28 bp):
AAAATAAATTGAAGTTTAGGATTTTAAA
Found at i:86791188 original size:27 final size:28
Alignment explanation
Indices: 86791125--86791188 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
86791115 GGTTTGGAGA
*
86791125 TTTATAAAATAAATTGGAGTTTAGGGATT
1 TTTA-AAAATAAATTGAAGTTTAGGGATT
**
86791154 TAAAAAAATAAA-TGAAGGTTTA-GGATT
1 TTTAAAAATAAATTGAA-GTTTAGGGATT
86791181 TTTAAAAA
1 TTTAAAAA
86791189 ATTAATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 14 0.48
28 13 0.45
29 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (28 bp):
TTTAAAAATAAATTGAAGTTTAGGGATT
Found at i:86791223 original size:33 final size:32
Alignment explanation
Indices: 86791169--86791260 Score: 123
Period size: 32 Copynumber: 2.8 Consensus size: 32
86791159 AAATAAATGA
*
86791169 AGGTTTAGGATTTTTAAAAAATTAATTAAATT
1 AGGTTTAGGGTTTTTAAAAAATTAATTAAATT
* *
86791201 AGGTTTAGGGCTTTTAAGAAAATTAATTAACTT
1 AGGTTTAGGGTTTTTAA-AAAATTAATTAAATT
*
86791234 AGGGTTTAGGGTTTTTTAAAAA-TAATT
1 A-GGTTTAGGGTTTTTAAAAAATTAATT
86791261 TTGTGTTTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
32 20 0.38
33 19 0.36
34 14 0.26
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.42
Consensus pattern (32 bp):
AGGTTTAGGGTTTTTAAAAAATTAATTAAATT
Found at i:86798293 original size:12 final size:12
Alignment explanation
Indices: 86798248--86798307 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
86798238 TTTATTGTAT
86798248 TAAATATTAATA
1 TAAATATTAATA
*
86798260 TAATTATATTTAT-
1 TAA--ATATTAATA
**
86798273 TTTATATTAATA
1 TAAATATTAATA
*
86798285 TGAATATTAATA
1 TAAATATTAATA
*
86798297 TAAATTTTAAT
1 TAAATATTAAT
86798308 TTTTTATTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
11 7 0.19
12 22 0.59
13 1 0.03
14 7 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
TAAATATTAATA
Found at i:86798330 original size:29 final size:28
Alignment explanation
Indices: 86798298--86798372 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 28
86798288 ATATTAATAT
86798298 AAATTTTAATTTTTTATTATAT-TTTATGA
1 AAATTTTAATTTTTTATTATATATTT-T-A
*
86798327 AAA-TAT-ATTTATTT-TTATATATTTTA
1 AAATTTTAATTT-TTTATTATATATTTTA
86798353 AAATTTTATATATTTTTATT
1 AAATTTTA-AT-TTTTTATT
86798373 TCTTGTCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
26 4 0.11
27 13 0.35
28 8 0.22
29 8 0.22
30 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (28 bp):
AAATTTTAATTTTTTATTATATATTTTA
Found at i:86798344 original size:27 final size:27
Alignment explanation
Indices: 86798308--86798371 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
86798298 AAATTTTAAT
*
86798308 TTTTTATTATATTTTATGAAAATATATTTA
1 TTTTTA-TATATTTTA--AAATTATATTTA
* *
86798338 TTTTTATATATTTTAAAATTTTATATA
1 TTTTTATATATTTTAAAATTATATTTA
86798365 TTTTTAT
1 TTTTTAT
86798372 TTCTTGTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 16 0.52
29 9 0.29
30 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (27 bp):
TTTTTATATATTTTAAAATTATATTTA
Found at i:86798423 original size:21 final size:21
Alignment explanation
Indices: 86798396--86798450 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
86798386 ATTTTTTTAT
86798396 TTTATATATTTTTAAAAAAT-
1 TTTATATATTTTTAAAAAATA
*
86798416 TATTATAT-TTTTT-GAAAATA
1 T-TTATATATTTTTAAAAAATA
*
86798436 TTTATGTATTTTTAA
1 TTTATATATTTTTAA
86798451 TTTCTTGAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 10 0.36
20 12 0.43
21 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTATATATTTTTAAAAAATA
Found at i:86800235 original size:27 final size:27
Alignment explanation
Indices: 86800205--86800265 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
86800195 CCTAAATTCG
86800205 AATGTAAAAACCTTAT-AGTTTCATTAA
1 AATGTAAAAACCTTATGA-TTTCATTAA
*
86800232 AATGTAAAAACGTTATGATTTCATTAA
1 AATGTAAAAACCTTATGATTTCATTAA
86800259 AATGTAA
1 AATGTAA
86800266 CACCTACTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (27 bp):
AATGTAAAAACCTTATGATTTCATTAA
Found at i:86801404 original size:51 final size:52
Alignment explanation
Indices: 86801347--86801452 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 52
86801337 AAGCTTTTAT
* *
86801347 TTTAAAAT-ATTTGAAAAAAATCAAAATTTT-GTTTTAAAATTTAAACTTTC-C
1 TTTAAAATGA-TT-AAAAAAAACAAAATTTTAGTTTTAAAATCTAAACTTTCTC
* *
86801398 TTTAAAATGATTAAAAAAAACATATTTTTAGTTTTAAAATCTAAACTTTCTC
1 TTTAAAATGATTAAAAAAAACAAAATTTTAGTTTTAAAATCTAAACTTTCTC
86801450 TTT
1 TTT
86801453 TTTTAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
50 14 0.29
51 29 0.60
52 5 0.10
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.44
Consensus pattern (52 bp):
TTTAAAATGATTAAAAAAAACAAAATTTTAGTTTTAAAATCTAAACTTTCTC
Found at i:86801441 original size:145 final size:143
Alignment explanation
Indices: 86801178--86801463 Score: 389
Period size: 145 Copynumber: 2.0 Consensus size: 143
86801168 AATCATGTAC
** *
86801178 TTTTCTTAAAAATCAAAATTTTATTTCGAATAGTTGAAAAATATCAAAAATTTGTTTTAAAAAAT
1 TTTTCTTAAAAATCAAAATTTTATTTAAAATAGTTGAAAAAAATCAAAAATTTGTTTT-AAAAAT
*
86801243 CTAAACTTTTCCTTTAAAACGACTAAAAAACATATTTTTATTTTAAAAATCTAAACTTTCTTTTT
65 CTAAACTTTTCCTTTAAAACGACTAAAAAACATATTTTTATTTTAAAAATCTAAACTTTCTCTTT
*
86801308 TTTTTAAAAAATAT
130 TTTTAAAAAAATAT
* * * *
86801322 TTTTCTTAAAGATCAAAGCTTTTATTTTAAAATATTTGAAAAAAATCAAAATTTTGTTTT-AAAA
1 TTTTCTTAAAAATCAAA-ATTTTA-TTTAAAATAGTTGAAAAAAATCAAAAATTTGTTTTAAAAA
* * *
86801386 TTTAAAC-TTTCCTTTAAAATGATTAAAAAAAACATATTTTTAGTTTT-AAAATCTAAACTTTCT
64 TCTAAACTTTTCCTTTAAAACGACT--AAAAAACATATTTTTA-TTTTAAAAATCTAAACTTTCT
86801449 CTTTTTTTAAAAAAA
126 CTTTTTTTAAAAAAA
86801464 ATCTAAACTT
Statistics
Matches: 125, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
143 15 0.12
144 26 0.21
145 50 0.40
146 34 0.27
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (143 bp):
TTTTCTTAAAAATCAAAATTTTATTTAAAATAGTTGAAAAAAATCAAAAATTTGTTTTAAAAATC
TAAACTTTTCCTTTAAAACGACTAAAAAACATATTTTTATTTTAAAAATCTAAACTTTCTCTTTT
TTTAAAAAAATAT
Found at i:86802066 original size:26 final size:26
Alignment explanation
Indices: 86802013--86802066 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
86802003 TTGTTCGGTC
* **
86802013 AAATAAATTATTTAAAAAATTCACAA
1 AAATAAAATATTTAAAAAATAAACAA
* *
86802039 AAATAAAATATTTAAACAATAAAGAA
1 AAATAAAATATTTAAAAAATAAACAA
86802065 AA
1 AA
86802067 TCAATACAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.26
Consensus pattern (26 bp):
AAATAAAATATTTAAAAAATAAACAA
Found at i:86802403 original size:15 final size:14
Alignment explanation
Indices: 86802342--86802394 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
86802332 AAATGAAGAA
86802342 AAAAGAAAAAAAAAT
1 AAAAG-AAAAAAAAT
**
86802357 AAATAGAGAAATAATGT
1 AAA-AGA-AAA-AAAAT
86802374 AAAAGAAAAAAAAT
1 AAAAGAAAAAAAAT
86802388 AAAAGAA
1 AAAAGAA
86802395 TTAAAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 10 0.32
15 7 0.23
16 8 0.26
17 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (14 bp):
AAAAGAAAAAAAAT
Found at i:86804190 original size:24 final size:23
Alignment explanation
Indices: 86804159--86804214 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
86804149 AGTCTTATAA
86804159 CGGGAAGCTCACAAAGAGCCATAT
1 CGGGAAGCTCACAAAGAGCC-TAT
* * *
86804183 CGGGAAGCTTATATAGAGCCTAT
1 CGGGAAGCTCACAAAGAGCCTAT
*
86804206 CGAGAAGCT
1 CGGGAAGCT
86804215 TATCTGGGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (23 bp):
CGGGAAGCTCACAAAGAGCCTAT
Found at i:86804212 original size:23 final size:24
Alignment explanation
Indices: 86804173--86804217 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
86804163 AAGCTCACAA
*
86804173 AGAGCCATATCGGGAAGCTTATAT
1 AGAGCCATATCGAGAAGCTTATAT
86804197 AGAGCC-TATCGAGAAGCTTAT
1 AGAGCCATATCGAGAAGCTTAT
86804218 CTGGGCTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (24 bp):
AGAGCCATATCGAGAAGCTTATAT
Found at i:86804518 original size:52 final size:52
Alignment explanation
Indices: 86804456--86804561 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
86804446 ACTGTTTGCT
*
86804456 TTAGAGAAAACTAAATTTTAGTCGTGCTTATCAGTAATAAAATCATCAACAG
1 TTAGAGAAAACCAAATTTTAGTCGTGCTTATCAGTAATAAAATCATCAACAG
*
86804508 TTAGAGAAAACCAAATTTTAGTCGTGCTTATCAGTGATAAAATCATCAACAG
1 TTAGAGAAAACCAAATTTTAGTCGTGCTTATCAGTAATAAAATCATCAACAG
86804560 TT
1 TT
86804562 CAACAGTCGA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (52 bp):
TTAGAGAAAACCAAATTTTAGTCGTGCTTATCAGTAATAAAATCATCAACAG
Found at i:86817517 original size:18 final size:19
Alignment explanation
Indices: 86817476--86817517 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
86817466 AATTTAAAAC
86817476 TTATAAAAAAATATAAATA
1 TTATAAAAAAATATAAATA
*
86817495 -AATAAAAAAATA-AAATA
1 TTATAAAAAAATATAAATA
86817512 TTATAA
1 TTATAA
86817518 GTTTATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
TTATAAAAAAATATAAATA
Found at i:86817640 original size:9 final size:9
Alignment explanation
Indices: 86817626--86817665 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
86817616 ATAATAATAT
86817626 TATTTTATA
1 TATTTTATA
86817635 TATTTTA-A
1 TATTTTATA
86817643 -ATTTTATA
1 TATTTTATA
*
86817651 TATTTTTTA
1 TATTTTATA
86817660 -ATTTTA
1 TATTTTA
86817666 CAATAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
7 6 0.22
8 7 0.26
9 14 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TATTTTATA
Found at i:86817660 original size:18 final size:15
Alignment explanation
Indices: 86817627--86817656 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
86817617 TAATAATATT
86817627 ATTTTATATATTTTAA
1 ATTTTATATATTTT-A
86817643 ATTTTATATATTTT
1 ATTTTATATATTTT
86817657 TTAATTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTATATATTTTA
Found at i:86817677 original size:24 final size:24
Alignment explanation
Indices: 86817618--86817677 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
86817608 ATTTTTTAAT
*
86817618 AATAATATTATTTTATATATTTTA
1 AATAATAATATTTTATATATTTTA
** *
86817642 AATTTTATATATTTTTTA-ATTTTA
1 AATAATA-ATATTTTATATATTTTA
86817666 CAATAATAATAT
1 -AATAATAATAT
86817678 AAATAACATG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
AATAATAATATTTTATATATTTTA
Found at i:86817822 original size:8 final size:8
Alignment explanation
Indices: 86817791--86817836 Score: 65
Period size: 8 Copynumber: 5.5 Consensus size: 8
86817781 AAAAGATTAT
86817791 ATTTTTTA
1 ATTTTTTA
*
86817799 ATTAATTTA
1 ATT-TTTTA
86817808 TATTTTTTA
1 -ATTTTTTA
86817817 ATTTTTTA
1 ATTTTTTA
86817825 ATTTTTTA
1 ATTTTTTA
86817833 ATTT
1 ATTT
86817837 AGATCCATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 23 0.68
9 8 0.24
10 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
ATTTTTTA
Found at i:86817828 original size:16 final size:17
Alignment explanation
Indices: 86817787--86817836 Score: 75
Period size: 18 Copynumber: 2.9 Consensus size: 17
86817777 GTGAAAAAGA
*
86817787 TTATATTTTTTAATTAAT
1 TTATATTTTTTAATT-TT
86817805 TTATATTTTTTAATTTT
1 TTATATTTTTTAATTTT
86817822 TTA-ATTTTTTAATTT
1 TTATATTTTTTAATTT
86817837 AGATCCATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 12 0.39
17 4 0.13
18 15 0.48
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATATTTTTTAATTTT
Found at i:86819115 original size:17 final size:18
Alignment explanation
Indices: 86819089--86819127 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
86819079 TGAATTGTGG
86819089 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
86819105 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
86819123 AAAAT
1 AAAAT
86819128 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:86819304 original size:15 final size:15
Alignment explanation
Indices: 86819284--86819314 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
86819274 AAAACAATAT
*
86819284 AACTCTTGACCTTTC
1 AACTCTTGACATTTC
86819299 AACTCTTGACATTTC
1 AACTCTTGACATTTC
86819314 A
1 A
86819315 CTTACATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACATTTC
Found at i:86822686 original size:15 final size:15
Alignment explanation
Indices: 86822676--86822705 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
86822666 TCCCTTCTTG
86822676 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
86822691 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
86822706 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:86823473 original size:17 final size:18
Alignment explanation
Indices: 86823447--86823485 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
86823437 CAAATTGTGG
86823447 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
86823463 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
86823481 AAAAT
1 AAAAT
86823486 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:86823662 original size:15 final size:15
Alignment explanation
Indices: 86823642--86823672 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
86823632 AAAACAATAT
86823642 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
86823657 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
86823672 A
1 A
86823673 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:86825705 original size:21 final size:21
Alignment explanation
Indices: 86825660--86825727 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
86825650 TTTCCCTTTA
* **
86825660 AGCCAGCGCTGCTCTTCTCTT
1 AGCCAGCGCTGCTCTTCACGG
*
86825681 AGCCAGCGTTGCTCTTCACGG
1 AGCCAGCGCTGCTCTTCACGG
* * * *
86825702 AGCCATCGCTGTTCCTCACGA
1 AGCCAGCGCTGCTCTTCACGG
86825723 AGCCA
1 AGCCA
86825728 CCTGGTTTCT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.16, C:0.37, G:0.22, T:0.25
Consensus pattern (21 bp):
AGCCAGCGCTGCTCTTCACGG
Found at i:86829019 original size:15 final size:13
Alignment explanation
Indices: 86828981--86829010 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
86828971 GGGGACACAC
86828981 GGCCGTGTCACCT
1 GGCCGTGTCACCT
*
86828994 GGCCGTGTCACTT
1 GGCCGTGTCACCT
86829007 GGCC
1 GGCC
86829011 ATGTGTCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.37, G:0.33, T:0.23
Consensus pattern (13 bp):
GGCCGTGTCACCT
Found at i:86837710 original size:87 final size:87
Alignment explanation
Indices: 86837564--86837731 Score: 327
Period size: 87 Copynumber: 1.9 Consensus size: 87
86837554 CTTGAACCTC
86837564 CTTTTTAGCATTTTTGAGTGAGCACATATGTGCATTGGTTGCTAAATGGAGAAGAATCGGCTAGC
1 CTTTTTAGCATTTTTGAGTGAGCACATATGTGCATTGGTTGCTAAATGGAGAAGAATCGGCTAGC
86837629 AAGTTGTGTGCTAAGGAATCTT
66 AAGTTGTGTGCTAAGGAATCTT
*
86837651 CTTTTTAGCATTTTTGAGTGAGCACATATGTGCATTGGTTGCTAGATGGAGAAGAATCGGCTAGC
1 CTTTTTAGCATTTTTGAGTGAGCACATATGTGCATTGGTTGCTAAATGGAGAAGAATCGGCTAGC
86837716 AAGTTGTGTGCTAAGG
66 AAGTTGTGTGCTAAGG
86837732 CCGAATATAA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (87 bp):
CTTTTTAGCATTTTTGAGTGAGCACATATGTGCATTGGTTGCTAAATGGAGAAGAATCGGCTAGC
AAGTTGTGTGCTAAGGAATCTT
Found at i:86837857 original size:15 final size:15
Alignment explanation
Indices: 86837837--86837867 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
86837827 AAAACAATAT
86837837 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
86837852 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
86837867 A
1 A
86837868 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:86839900 original size:21 final size:21
Alignment explanation
Indices: 86839855--86839922 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
86839845 TTTCCCTTTA
* **
86839855 AGCCAGCGCTGCTCTTCTCTT
1 AGCCAGCGCTGCTCTTCACGG
*
86839876 AGCCAGCGTTGCTCTTCACGG
1 AGCCAGCGCTGCTCTTCACGG
* * * *
86839897 AGCCATCGCTGTTCCTCACGA
1 AGCCAGCGCTGCTCTTCACGG
86839918 AGCCA
1 AGCCA
86839923 CCTGGTTTCT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.16, C:0.37, G:0.22, T:0.25
Consensus pattern (21 bp):
AGCCAGCGCTGCTCTTCACGG
Found at i:86843214 original size:15 final size:13
Alignment explanation
Indices: 86843176--86843205 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
86843166 GGGGACACAC
86843176 GGCCGTGTCACCT
1 GGCCGTGTCACCT
*
86843189 GGCCGTGTCACTT
1 GGCCGTGTCACCT
86843202 GGCC
1 GGCC
86843206 ATGTGTCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.37, G:0.33, T:0.23
Consensus pattern (13 bp):
GGCCGTGTCACCT
Found at i:86848989 original size:42 final size:42
Alignment explanation
Indices: 86848883--86849038 Score: 199
Period size: 42 Copynumber: 3.7 Consensus size: 42
86848873 TACCGTACCA
*
86848883 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCGTATCG
* * ***
86848925 AAT-CCAATAGCCCAGCTATGGTCTTACACGAAGTCTCACCTCG
1 -ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCGTATCG
*
86848968 ATGCCATATCCCAGATATGGTCTTATACGAAGTCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCGTATCG
*
86849010 ATGCCACATCCCAGATATGGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
86849039 TAATCTTAGT
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 64 0.67
43 32 0.33
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCGTATCG
Found at i:86852644 original size:40 final size:40
Alignment explanation
Indices: 86852561--86852706 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 40
86852551 TTGAATGATG
* * * *
86852561 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
86852601 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
86852641 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
86852682 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
86852707 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 80 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:86852724 original size:80 final size:80
Alignment explanation
Indices: 86852561--86852739 Score: 177
Period size: 80 Copynumber: 2.2 Consensus size: 80
86852551 TTGAATGATG
* *
86852561 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
** *
86852626 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* * * * * *
86852641 TCCGGGTTAAGTCCCGAAGGCATTTGTG-TGAGTTACTATAACTGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
86852704 TTGAACGAG-GAGCTATA
64 TTGAACGAGTGA-CTAAA
* *
86852721 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
86852740 TACGTGATTT
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
79 16 0.20
80 60 0.73
81 6 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:86852944 original size:40 final size:40
Alignment explanation
Indices: 86852884--86852976 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 40
86852874 AAATGAGCTA
*
86852884 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTC
* * *
86852924 CCGAAGGCATTTGTGTGAGTTACTATAACTGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTC
86852964 CCGAAGGCATTTG
1 CCGAAGGCATTTG
86852977 AACGAGGAGC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTC
Found at i:86853095 original size:270 final size:270
Alignment explanation
Indices: 86852614--86853153 Score: 1037
Period size: 270 Copynumber: 2.0 Consensus size: 270
86852604 GGACTAAGAT
86852614 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTA
86852679 TAACTGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACG
66 TAACTGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACG
*
86852744 TGATTTGGGAATGAATGATCTTGCTGTAAAAATTTCAGTAAATACTCTAGAAACATCCCAACATT
131 TGATTTGGGAATGAATGATCTTGCTGTAAAAATTTCAGTAAATACGCTAGAAACATCCCAACATT
86852809 GAGGTATGTTTCGTATGTGC-TTGAATTTAGTTGAGCCCTTACAAATAAGTATTCGCTCAGTTGA
196 GAGGTATGTTTCGTATGTGCTTTGAA-TTAGTTGAGCCCTTACAAATAAGTATTCGCTCAGTTGA
86852873 TAAATGAGCTA
260 TAAATGAGCTA
86852884 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTA
86852949 TAACTGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACG
66 TAACTGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACG
* *
86853014 TGATTTGGGAATGAATGATCTTGCTGTAAAAATTTCAGTTAATACGCTTGAAACATCCCAACATT
131 TGATTTGGGAATGAATGATCTTGCTGTAAAAATTTCAGTAAATACGCTAGAAACATCCCAACATT
86853079 GAGGTATGTTTCGTATGTGCTTTGAATTAGTTGAGCCCTTACAAATAAGTATTCGCTCAGTTGAT
196 GAGGTATGTTTCGTATGTGCTTTGAATTAGTTGAGCCCTTACAAATAAGTATTCGCTCAGTTGAT
86853144 AAATGAGCTA
261 AAATGAGCTA
86853154 TCAGCCTTTG
Statistics
Matches: 266, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
270 261 0.98
271 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (270 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTA
TAACTGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACG
TGATTTGGGAATGAATGATCTTGCTGTAAAAATTTCAGTAAATACGCTAGAAACATCCCAACATT
GAGGTATGTTTCGTATGTGCTTTGAATTAGTTGAGCCCTTACAAATAAGTATTCGCTCAGTTGAT
AAATGAGCTA
Done.