Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 207 of 770
Found at i:62007017 original size:33 final size:34
Alignment explanation
Indices: 62006972--62007068 Score: 101
Period size: 33 Copynumber: 2.9 Consensus size: 34
62006962 GTTACACAAT
* *
62006972 TGGGCCTAAGCCCATATCAGTCGCAATATCAGTC
1 TGGGCCTTAGCCCATATCAGTAGCAATATCAGTC
* * *
62007006 T-GGCCTTAGCCCA-ATACAGTATCAGTATCAGTG
1 TGGGCCTTAGCCCATAT-CAGTAGCAATATCAGTC
* *
62007039 TGGGCCTTAGCCCATCTCAGTA-CAGTATCA
1 TGGGCCTTAGCCCATATCAGTAGCAATATCA
62007069 TAAATGCATA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
32 2 0.04
33 33 0.61
34 18 0.33
35 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (34 bp):
TGGGCCTTAGCCCATATCAGTAGCAATATCAGTC
Found at i:62008269 original size:22 final size:22
Alignment explanation
Indices: 62008243--62008287 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
62008233 GATTCCTGCA
62008243 TCTAACCATTTAATCACTTCCT
1 TCTAACCATTTAATCACTTCCT
62008265 TCTAACCATTTAATCACTTCCT
1 TCTAACCATTTAATCACTTCCT
62008287 T
1 T
62008288 TCTCACAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.42
Consensus pattern (22 bp):
TCTAACCATTTAATCACTTCCT
Found at i:62018719 original size:44 final size:44
Alignment explanation
Indices: 62018669--62018755 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
62018659 ACTAATTATG
*
62018669 TGCACTTAGTGTGTGAAATCAAGATAGCTTTAACTATATATATT
1 TGCACTTAGTGTGCGAAATCAAGATAGCTTTAACTATATATATT
* * **
62018713 TGCACTTAGTGTGCGAGATCGAGATAGCTTTGGCTATATATAT
1 TGCACTTAGTGTGCGAAATCAAGATAGCTTTAACTATATATAT
62018756 GCATATTGGC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.37
Consensus pattern (44 bp):
TGCACTTAGTGTGCGAAATCAAGATAGCTTTAACTATATATATT
Found at i:62018953 original size:9 final size:9
Alignment explanation
Indices: 62018936--62018968 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
62018926 TAATACACTG
*
62018936 AAATGATGA
1 AAATTATGA
62018945 AAATTATGA
1 AAATTATGA
62018954 AAATTATGA
1 AAATTATGA
62018963 AAATTA
1 AAATTA
62018969 CATCTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (9 bp):
AAATTATGA
Found at i:62023039 original size:46 final size:45
Alignment explanation
Indices: 62022987--62023161 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
62022977 TGGTTGAGCA
62022987 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCCAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCCAATG
* * * *
62023033 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCCAA-T--G
* * *
62023078 CATCCGAACTGGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCCAATG
* *
62023126 -CCTGACCTCATTGAGTTGAGTCCGAGTTCACTTAGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
62023162 GGTGGGTTAA
Statistics
Matches: 106, Mismatches: 13, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.07
46 56 0.53
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCCAATG
Found at i:62023143 original size:93 final size:93
Alignment explanation
Indices: 62022984--62023154 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
62022974 GGATGGTTGA
* * *
62022984 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCCAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCCAACGCTCGAACTCATTGAGT
62023049 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
62023077 GCATCCGAACTGGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC-CTGACCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCCAACGCTC-GAACTCATTGAG
62023141 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
62023155 ACTTAGGGGT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCCAACGCTCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62026962 original size:46 final size:46
Alignment explanation
Indices: 62026912--62027083 Score: 308
Period size: 46 Copynumber: 3.7 Consensus size: 46
62026902 TGGTTGAGCA
*
62026912 TCCGAAATCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
62026958 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
62027004 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
62027050 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62027084 GGGGCGGGTT
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 121 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62033436 original size:46 final size:46
Alignment explanation
Indices: 62033384--62033509 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
62033374 TGGTTGAGCA
*
62033384 TCCGAACTCGTTGAGTTGAGTCCGAATTCACTTACGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATG
* *
62033430 TTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATG
*
62033476 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62033510 GGGGCGGGTT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATG
Found at i:62037672 original size:48 final size:48
Alignment explanation
Indices: 62037603--62038130 Score: 876
Period size: 48 Copynumber: 11.0 Consensus size: 48
62037593 AGATAAATAT
*
62037603 ATATATGTGTGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
62037651 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
62037699 ATATATGTGTGATATGTATATGTTGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
62037747 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
62037795 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
62037843 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
62037891 ATATATATGAGATGTGTATATGTGATAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
62037939 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
62037987 ATATATGTGTGATATGTATATGTGGTAAAACCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
62038035 ATATATATGAGATATGTATATGTCGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
62038083 ATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
62038131 TGTTGTAACA
Statistics
Matches: 455, Mismatches: 25, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 455 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:62038225 original size:37 final size:37
Alignment explanation
Indices: 62038175--62038282 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
62038165 GGAAATATAT
62038175 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
62038212 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
62038249 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
62038283 TCGTCTGAGC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:62041751 original size:21 final size:22
Alignment explanation
Indices: 62041726--62041767 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
62041716 ACATACATTT
*
62041726 CTCAAATTCATTTAT-TCATCA
1 CTCAAAATCATTTATATCATCA
62041747 CTCAAAATCATTTATATCATC
1 CTCAAAATCATTTATATCATC
62041768 CCTAATAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (22 bp):
CTCAAAATCATTTATATCATCA
Found at i:62046162 original size:23 final size:24
Alignment explanation
Indices: 62046127--62046172 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
62046117 GAGAGAAAGG
62046127 AAAATAAAAAATCGTTAACGAATT
1 AAAATAAAAAATCGTTAACGAATT
62046151 AAAA-AAAAAATCGTTAACGAAT
1 AAAATAAAAAATCGTTAACGAAT
62046173 AGCTTAGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.22
Consensus pattern (24 bp):
AAAATAAAAAATCGTTAACGAATT
Found at i:62049396 original size:40 final size:40
Alignment explanation
Indices: 62049297--62049527 Score: 333
Period size: 40 Copynumber: 5.8 Consensus size: 40
62049287 TGGATGATAA
* * * * * **
62049297 CCGGGCTAAGTCCCAAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
62049337 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
62049376 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
62049416 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
62049456 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCCT-AA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA--CTAAAT
* *
62049496 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
62049528 AGCTATACCC
Statistics
Matches: 177, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 32 0.18
40 141 0.80
41 2 0.01
42 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:62051815 original size:40 final size:40
Alignment explanation
Indices: 62051720--62051858 Score: 201
Period size: 40 Copynumber: 3.5 Consensus size: 40
62051710 AGACTAAGAT
**
62051720 CCGAAGGCATTTGTGCGAGTTACTAAATTCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
62051759 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
* * *
62051799 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AACCCGGGTTAAGTC
*
62051839 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTTGTGCGAGT
62051859 CGTTATATCC
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 36 0.40
40 46 0.51
41 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:62051882 original size:79 final size:79
Alignment explanation
Indices: 62051719--62051884 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
62051709 CAGACTAAGA
* * * *
62051719 TCCGAAGGCATTTGTGCGAGTTACTAAATTCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
*
62051784 AACCCGGGTTAAGT
66 AACCCGGGTTAAAT
* * *
62051798 CCCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAGGCATTTGAGCGAGTCG
1 TCCGAAGGCATTCGTGCGAGTTACTA-AATCC-GGGTTAAG-CCCGAAGGCATTTGAGCGAGTCA
* * *
62051861 TTATATCC-GGTTAAAT
63 CTAAACCCGGGTTAAAT
62051877 TCCGAAGG
1 TCCGAAGG
62051885 TACGTGATTT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
79 40 0.56
80 32 0.44
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
AACCCGGGTTAAAT
Found at i:62060728 original size:40 final size:40
Alignment explanation
Indices: 62060626--62060815 Score: 233
Period size: 40 Copynumber: 4.8 Consensus size: 40
62060616 TGGATGATAA
* ** * * **
62060626 CCGGGCTAAGTCCCGAAGGCATCTACGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
62060666 CCGGGC-AAGTCCTGAA-GCATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
62060704 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
62060744 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
62060784 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
62060816 AGCTATACCC
Statistics
Matches: 131, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
38 20 0.15
39 18 0.14
40 91 0.69
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:62068149 original size:29 final size:28
Alignment explanation
Indices: 62068115--62068217 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
62068105 TACTCAATCA
*
62068115 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
62068144 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
62068173 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
62068202 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
62068218 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:62078920 original size:19 final size:19
Alignment explanation
Indices: 62078896--62078932 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
62078886 CAATTACTTA
62078896 GTTTTAACAACGAATTTAT
1 GTTTTAACAACGAATTTAT
*
62078915 GTTTTAGCAACGAATTTA
1 GTTTTAACAACGAATTTA
62078933 AGTAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.41
Consensus pattern (19 bp):
GTTTTAACAACGAATTTAT
Found at i:62080849 original size:30 final size:30
Alignment explanation
Indices: 62080813--62080873 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
62080803 AATTCTCAAA
62080813 CTAGTTCATCATCGGGAAGTGAACGAGCAT
1 CTAGTTCATCATCGGGAAGTGAACGAGCAT
62080843 CTAGTTCATCATCGGGAAGTGAACGAGCAT
1 CTAGTTCATCATCGGGAAGTGAACGAGCAT
62080873 C
1 C
62080874 ACAAAATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (30 bp):
CTAGTTCATCATCGGGAAGTGAACGAGCAT
Found at i:62081228 original size:19 final size:20
Alignment explanation
Indices: 62081192--62081229 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
62081182 AGGATGGTGC
*
62081192 AGTGACAACAACAGTGTGTA
1 AGTGACAACAACAATGTGTA
*
62081212 AGTG-CAACGACAATGTGT
1 AGTGACAACAACAATGTGT
62081230 TGTAGCAACG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (20 bp):
AGTGACAACAACAATGTGTA
Found at i:62088704 original size:39 final size:39
Alignment explanation
Indices: 62088643--62088834 Score: 239
Period size: 39 Copynumber: 4.9 Consensus size: 39
62088633 AATATGCATG
* *
62088643 ATAT-TTGGAATTA-ATCTGGACTTAAGGTCCGCAGGCT
1 ATATGTTGAAATTATATCCGGACTTAAGGTCCGCAGGCT
62088680 ATATGTTGAAATTATATCCGGACTTAAGGTCCGCAGGCT
1 ATATGTTGAAATTATATCCGGACTTAAGGTCCGCAGGCT
* * *
62088719 ATATGATGGAATTATATCTGGACTTAAGGTCCGCAGGCT
1 ATATGTTGAAATTATATCCGGACTTAAGGTCCGCAGGCT
* *
62088758 ATATGCTAGAAA-TATATCCGGGCTTAAGGTCCGCAGGCT
1 ATATG-TTGAAATTATATCCGGACTTAAGGTCCGCAGGCT
* * *
62088797 ATATGCT-AGAATTATAATTCGGACTTAAGGTTCGCAGG
1 ATATGTTGA-AATTAT-ATCCGGACTTAAGGTCCGCAGG
62088835 TTACGTGCAG
Statistics
Matches: 134, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
37 5 0.04
38 10 0.07
39 97 0.72
40 22 0.16
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (39 bp):
ATATGTTGAAATTATATCCGGACTTAAGGTCCGCAGGCT
Found at i:62088785 original size:78 final size:78
Alignment explanation
Indices: 62088648--62088863 Score: 287
Period size: 78 Copynumber: 2.8 Consensus size: 78
62088638 GCATGATATT
* *
62088648 TGGAATTA-ATCTGGACTTAAGGTCCGCAGGCTATATG-TTGAAATTATATCCGGACTTAAGGTC
1 TGGAATTATATCTGGACTTAAGGTCCGCAGGCTATATGCTAGAAA-TATATCCGGGCTTAAGGTC
62088711 CGCAGGCTATATGA
65 CGCAGGCTATATGA
62088725 TGGAATTATATCTGGACTTAAGGTCCGCAGGCTATATGCTAGAAATATATCCGGGCTTAAGGTCC
1 TGGAATTATATCTGGACTTAAGGTCCGCAGGCTATATGCTAGAAATATATCCGGGCTTAAGGTCC
*
62088790 GCAGGCTATATGC
66 GCAGGCTATATGA
* * * ** *
62088803 TAGAATTATAAT-TCGGACTTAAGGTTCGCAGGTTACGTGC-AGGAAATATATCCGAGCTTAA
1 TGGAATTAT-ATCT-GGACTTAAGGTCCGCAGGCTATATGCTA-GAAATATATCCGGGCTTAA
62088864 AGTTTAGAAG
Statistics
Matches: 125, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
77 8 0.06
78 70 0.56
79 47 0.38
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (78 bp):
TGGAATTATATCTGGACTTAAGGTCCGCAGGCTATATGCTAGAAATATATCCGGGCTTAAGGTCC
GCAGGCTATATGA
Found at i:62096442 original size:39 final size:39
Alignment explanation
Indices: 62096334--62096548 Score: 281
Period size: 39 Copynumber: 5.5 Consensus size: 39
62096324 GCATGATATT
* * *
62096334 TGGAATTA-ATCTGGACTTAAGGTCCGCAAGCTATATGC
1 TGGAATTATATCCGGACTTAAGGTCCGTAGGCTATATGC
*
62096372 TGGAATTATATCC-GACTTAAGGTCCGCAGGCTATATGC
1 TGGAATTATATCCGGACTTAAGGTCCGTAGGCTATATGC
62096410 TGGAATTATATCCGGACTTAAGGTCCGTAGGCTATATGC
1 TGGAATTATATCCGGACTTAAGGTCCGTAGGCTATATGC
* *
62096449 TGGAAATATATCCGGACTTAAGGTCCGTAGGCTATATGT
1 TGGAATTATATCCGGACTTAAGGTCCGTAGGCTATATGC
** * * **
62096488 TGGAATTATAATTTGGACTTAAGGTTCGTAGGTTACGTGC
1 TGGAATTAT-ATCCGGACTTAAGGTCCGTAGGCTATATGC
* *
62096528 TGGAAATATATCCGGGCTTAA
1 TGGAATTATATCCGGACTTAA
62096549 AGTTCCGAAG
Statistics
Matches: 157, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
38 45 0.29
39 81 0.52
40 31 0.20
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (39 bp):
TGGAATTATATCCGGACTTAAGGTCCGTAGGCTATATGC
Found at i:62096540 original size:79 final size:78
Alignment explanation
Indices: 62096334--62096548 Score: 281
Period size: 79 Copynumber: 2.8 Consensus size: 78
62096324 GCATGATATT
* * * * *
62096334 TGGAATTA-ATCTGGACTTAAGGTCCGCAAGCTATATGCTGGAATTATATCC-GACTTAAGGTCC
1 TGGAATTATATCCGGACTTAAGGTCCGTAGGCTACATGCTGGAAATATATCCGGACTTAAGGTCC
62096397 GCAGGCTATATGC
66 GCAGGCTATATGC
*
62096410 TGGAATTATATCCGGACTTAAGGTCCGTAGGCTATATGCTGGAAATATATCCGGACTTAAGGTCC
1 TGGAATTATATCCGGACTTAAGGTCCGTAGGCTACATGCTGGAAATATATCCGGACTTAAGGTCC
* *
62096475 GTAGGCTATATGT
66 GCAGGCTATATGC
** * * * *
62096488 TGGAATTATAATTTGGACTTAAGGTTCGTAGGTTACGTGCTGGAAATATATCCGGGCTTAA
1 TGGAATTAT-ATCCGGACTTAAGGTCCGTAGGCTACATGCTGGAAATATATCCGGACTTAA
62096549 AGTTCCGAAG
Statistics
Matches: 123, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
76 8 0.07
77 39 0.32
78 32 0.26
79 44 0.36
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (78 bp):
TGGAATTATATCCGGACTTAAGGTCCGTAGGCTACATGCTGGAAATATATCCGGACTTAAGGTCC
GCAGGCTATATGC
Found at i:62100151 original size:81 final size:81
Alignment explanation
Indices: 62100016--62100178 Score: 267
Period size: 81 Copynumber: 2.0 Consensus size: 81
62100006 GTAACACCCT
62100016 TATCCGTATTCAACGTCAGAACAGAGTATAAGGCATTATCAGACTTATCACACAAACAAACATAC
1 TATCCGTATTCAACGTCAGAACAGAGTATAAGGCATTATCAGACTTATCACACAAACAAACATAC
62100081 AATTTCGGGCTATACA
66 AATTTCGGGCTATACA
* *
62100097 TATCCGTATTCAACGTCAGAATAG-GT-TACGAGGCATTATCGGACTTATCACACAAACAAACAT
1 TATCCGTATTCAACGTCAGAACAGAGTATA--AGGCATTATCAGACTTATCACACAAACAAACAT
*
62100160 ACAATTTCGGGTTATACA
64 ACAATTTCGGGCTATACA
62100178 T
1 T
62100179 TTGTGTCCAA
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
79 2 0.03
80 2 0.03
81 73 0.95
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.26
Consensus pattern (81 bp):
TATCCGTATTCAACGTCAGAACAGAGTATAAGGCATTATCAGACTTATCACACAAACAAACATAC
AATTTCGGGCTATACA
Found at i:62104444 original size:40 final size:40
Alignment explanation
Indices: 62104389--62104629 Score: 303
Period size: 40 Copynumber: 6.0 Consensus size: 40
62104379 GATGATAACA
*
62104389 GGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T-C
1 GGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATCC
*
62104429 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * * *
62104469 GGGCTAAATCCCGAAGGCATTTGTACGGGTTATTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
62104509 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
62104549 GGGCTAAGTCTCGAAGGCATTGGTGTGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
62104589 GGGCTATGTCCCGAAGGCA-TCGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
62104628 GG
1 GG
62104630 TTAAATCCCG
Statistics
Matches: 180, Mismatches: 17, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
38 3 0.02
39 23 0.13
40 150 0.83
41 4 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:62112662 original size:39 final size:40
Alignment explanation
Indices: 62112557--62112759 Score: 281
Period size: 40 Copynumber: 5.1 Consensus size: 40
62112547 TGGATGATAA
*
62112557 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
*
62112598 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
62112638 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
62112677 CCGGGCTAAGTCTCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
62112717 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
62112756 CCGG
1 CCGG
62112760 TTAAATCCCA
Statistics
Matches: 149, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 56 0.38
40 63 0.42
41 24 0.16
42 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:62112688 original size:79 final size:80
Alignment explanation
Indices: 62112557--62112759 Score: 281
Period size: 79 Copynumber: 2.5 Consensus size: 80
62112547 TGGATGATAA
*
62112557 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATCCGGGCTAAGTCCCGAAGGCAT
* *
62112620 TTGTGCGAGTTATTATAT
63 TGGTGCGAGTTACTATAT
*
62112638 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCTCGAAGGCATTGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
62112702 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* *
62112717 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCCGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
62112760 TTAAATCCCA
Statistics
Matches: 112, Mismatches: 6, Indels: 10
0.88 0.05 0.08
Matches are distributed among these distances:
78 3 0.03
79 73 0.65
80 21 0.19
81 15 0.13
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTATAT
Found at i:62115338 original size:39 final size:39
Alignment explanation
Indices: 62115257--62115408 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
62115247 TATGGTAACC
* * * *
62115257 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
62115297 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
62115336 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
62115375 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
62115409 CTCGAACATT
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:62121271 original size:29 final size:29
Alignment explanation
Indices: 62121239--62121370 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
62121229 ATAGTGAATC
62121239 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
62121268 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
62121298 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
62121327 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
62121356 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62121371 GTACAATTTT
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:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:62121380 original size:59 final size:59
Alignment explanation
Indices: 62121239--62121370 Score: 239
Period size: 59 Copynumber: 2.3 Consensus size: 59
62121229 ATAGTGAATC
62121239 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
* *
62121298 CGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
62121356 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62121371 GTACAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 24 0.34
59 47 0.66
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:62122734 original size:19 final size:18
Alignment explanation
Indices: 62122710--62122745 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
62122700 CCCCCTTTTT
*
62122710 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
62122729 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
62122746 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:62128958 original size:27 final size:29
Alignment explanation
Indices: 62128928--62129042 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 29
62128918 ACGCAAGAGC
*
62128928 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
62128955 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
62128984 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
* ** *
62129014 ATATATTTTCAGTTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
62129043 GTACAATTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 5 0.06
28 3 0.04
29 43 0.54
30 29 0.36
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:62128995 original size:30 final size:29
Alignment explanation
Indices: 62128940--62129042 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
62128930 ATAGTGAATC
62128940 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
62128969 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
62128999 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
62129028 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62129043 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:62129032 original size:59 final size:60
Alignment explanation
Indices: 62128939--62129072 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
62128929 TATAGTGAAT
* * *
62128939 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
62128998 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
62129058 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
62129073 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:62130408 original size:19 final size:18
Alignment explanation
Indices: 62130384--62130419 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
62130374 CCCCCTTTTT
*
62130384 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
62130403 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
62130420 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:62134246 original size:40 final size:39
Alignment explanation
Indices: 62134202--62134383 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
62134192 GTTCAAAACA
* * ** * *
62134202 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
62134242 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
62134282 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
62134321 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
62134360 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
62134384 CTCGAACATT
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 89 0.69
40 40 0.31
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:62134313 original size:39 final size:39
Alignment explanation
Indices: 62134232--62134383 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
62134222 TATGGTAACC
* * * *
62134232 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
62134272 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
62134311 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
62134350 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
62134384 CTCGAACATT
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:62142524 original size:8 final size:8
Alignment explanation
Indices: 62142511--62142537 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
62142501 GACTGACGAG
62142511 GCTCCTTC
1 GCTCCTTC
62142519 GCTCCTTC
1 GCTCCTTC
62142527 GCTCCTTC
1 GCTCCTTC
62142535 GCT
1 GCT
62142538 TTAATCCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.48, G:0.15, T:0.37
Consensus pattern (8 bp):
GCTCCTTC
Found at i:62148122 original size:40 final size:39
Alignment explanation
Indices: 62148064--62148245 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
62148054 CGTTCAAACA
* * ** * *
62148064 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
62148104 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
62148144 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
62148183 CCTTCGGGCTTAGCCCGGATATCATAGCTCACACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
62148222 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
62148246 CTCGAACATT
Statistics
Matches: 130, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 90 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:62148175 original size:39 final size:39
Alignment explanation
Indices: 62148094--62148245 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
62148084 TATGGTAACC
* * * *
62148094 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
62148134 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
62148173 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
62148212 CACACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
62148246 CTCGAACATT
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 90 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:62156128 original size:37 final size:38
Alignment explanation
Indices: 62156049--62156160 Score: 154
Period size: 37 Copynumber: 2.9 Consensus size: 38
62156039 TATGGTAACC
* *
62156049 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCC-GATATCACAACT
* *
62156089 CGCACAATTGCCTTCGGGCTTAGCCC-ATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGATATCACAACT
62156126 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCC-GATATCAC
62156161 TCGAACATTC
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
37 35 0.54
39 13 0.20
40 17 0.26
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (38 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGATATCACAACT
Found at i:62157988 original size:26 final size:27
Alignment explanation
Indices: 62157952--62158004 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
62157942 TGTCAGCTAG
* *
62157952 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
62157978 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
62158005 CAGAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:62165022 original size:27 final size:27
Alignment explanation
Indices: 62164992--62165083 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
62164982 ATTACCAAAG
* * * * *
62164992 TACCCTTGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
62165019 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
62165046 TACCCTC-AGCTTACAAAATTACCGTTT
1 TACCCTCGA-TTTACAAAATTACCATTT
62165073 TACCCTCGATT
1 TACCCTCGATT
62165084 GTGAAATTAC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.02
27 53 0.96
28 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:62165144 original size:27 final size:27
Alignment explanation
Indices: 62165114--62165315 Score: 149
Period size: 27 Copynumber: 7.4 Consensus size: 27
62165104 TGTAGGATAG
62165114 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
62165141 AATTACCAAAATACCAC-TGGTTTGTGA
1 AATTACCAAAATACC-CTTAGTTTGTAA
* * * *
62165168 AATTACCGAAATACTCTCAATTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* * **
62165195 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
62165222 AATTA-CAGAAATACCCTTCACTTTTGAAA
1 AATTACCA-AAATACCCTT-A-GTTTGTAA
* * * **
62165251 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTTAGTTTGTAA
** *
62165278 AATTACTGAAATACCCTTAGTTTGTAG
1 AATTACCAAAATACCCTTAGTTTGTAA
*
62165305 ATTTACCAAAA
1 AATTACCAAAA
62165316 CACCGTTGTA
Statistics
Matches: 136, Mismatches: 33, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
26 3 0.02
27 109 0.80
28 3 0.02
29 21 0.15
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTGTAA
Found at i:62165172 original size:54 final size:54
Alignment explanation
Indices: 62165114--62165315 Score: 192
Period size: 54 Copynumber: 3.7 Consensus size: 54
62165104 TGTAGGATAG
***
62165114 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTACAA
* * * * * **
62165168 AATTACCGAAATACTCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTACAA
* * * *
62165222 AATTA-CAGAAATACCCTTCACTTTTGAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTT-A-GTTTGTAAAATTACCA-AAATACCACTGGTTTACAA
** * *
62165278 AATTACTGAAATACCCTTAGTTTGTAGATTTACCAAAA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
62165316 CACCGTTGTA
Statistics
Matches: 115, Mismatches: 27, Indels: 12
0.75 0.18 0.08
Matches are distributed among these distances:
53 1 0.01
54 69 0.60
55 4 0.03
56 41 0.36
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (54 bp):
AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTACAA
Found at i:62165384 original size:27 final size:27
Alignment explanation
Indices: 62165341--62165414 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
62165331 AAATGACTAA
*
62165341 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
62165368 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
62165395 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
62165415 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:62165418 original size:27 final size:27
Alignment explanation
Indices: 62165354--62165418 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
62165344 ACCCCTAATA
*
62165354 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
62165381 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
62165408 GGTAAAATGAC
1 GGTAAAATGAC
62165419 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:62166262 original size:25 final size:24
Alignment explanation
Indices: 62166223--62166306 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 24
62166213 GAGGAAGTGC
* *
62166223 TAAAACGGCTATGCCCCAATTTAT
1 TAAAAGGGCTTTGCCCCAATTTAT
*
62166247 TGAAAAGGGCTTTG-CCCATGTTTAT
1 T-AAAAGGGCTTTGCCCCA-ATTTAT
* * *
62166272 CAAAAAGGGCTTTTCCCC-AGTTAT
1 -TAAAAGGGCTTTGCCCCAATTTAT
62166296 TAAAAGAGGCT
1 TAAAAG-GGCT
62166307 AGGCCTCTAG
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
23 5 0.11
24 13 0.28
25 26 0.55
26 3 0.06
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAATTTAT
Found at i:62166300 original size:24 final size:25
Alignment explanation
Indices: 62166242--62166300 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
62166232 TATGCCCCAA
* *
62166242 TTTATTGAAAAGGGCTTTGCCCATG
1 TTTATTAAAAAGGGCTTTCCCCATG
*
62166267 TTTATCAAAAAGGGCTTTTCCCCA-G
1 TTTATTAAAAAGGGC-TTTCCCCATG
62166292 -TTATTAAAA
1 TTTATTAAAA
62166301 GAGGCTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 8 0.28
25 14 0.48
26 7 0.24
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (25 bp):
TTTATTAAAAAGGGCTTTCCCCATG
Found at i:62166500 original size:42 final size:42
Alignment explanation
Indices: 62166441--62166529 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
62166431 TAGTCTCCCC
* *
62166441 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGAGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
62166483 AAATGAGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGAGCTTGCATACATTCATTGATATTTCATGTGATATTG
62166525 AAATG
1 AAATG
62166530 GGCCTATGGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.40
Consensus pattern (42 bp):
AAATGAGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:62166592 original size:31 final size:31
Alignment explanation
Indices: 62166556--62166634 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
62166546 CGTTTACAAT
*
62166556 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
62166587 AAAGGCTTCGGCCCAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
62166618 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
62166635 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:62168312 original size:28 final size:28
Alignment explanation
Indices: 62168253--62168312 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
62168243 ATAGTGCATG
* ** *
62168253 CAGTATCAGTCAGGGCCTGAGCCTTATT
1 CAGTATCAGTCAGGGCCTAAGCCCAATA
**
62168281 CAGTATCAGTGTGGGCCTAAGCCCAATA
1 CAGTATCAGTCAGGGCCTAAGCCCAATA
62168309 CAGT
1 CAGT
62168313 TTTAGTATAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (28 bp):
CAGTATCAGTCAGGGCCTAAGCCCAATA
Found at i:62169779 original size:28 final size:28
Alignment explanation
Indices: 62169748--62169807 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
62169738 ACACAAGCTG
*
62169748 AGAACATGCAAGGGATGAATACAGATCA
1 AGAACACGCAAGGGATGAATACAGATCA
*
62169776 AGAAGACGCAAGGGATGAATACAGATCA
1 AGAACACGCAAGGGATGAATACAGATCA
62169804 AGAA
1 AGAA
62169808 AATGTTACGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.48, C:0.13, G:0.27, T:0.12
Consensus pattern (28 bp):
AGAACACGCAAGGGATGAATACAGATCA
Found at i:62172999 original size:5 final size:5
Alignment explanation
Indices: 62172989--62173049 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
62172979 ATATTGTTAT
* * * * *
62172989 ATATG ATATG ACATG ATATG CACATG ATATG TTATG AGATG CACATG ATATG
1 ATATG ATATG ATATG ATATG -ATATG ATATG ATATG ATATG -ATATG ATATG
*
62173041 CTATG ATAT
1 ATATG ATAT
62173050 ACTCATTATA
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
5 35 0.81
6 8 0.19
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (5 bp):
ATATG
Found at i:62173004 original size:10 final size:10
Alignment explanation
Indices: 62172991--62173049 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
62172981 ATTGTTATAT
62172991 ATGATATGAC
1 ATGATATGAC
62173001 ATGATATGCAC
1 ATGATATG-AC
**
62173012 ATGATATGTT
1 ATGATATGAC
*
62173022 ATGAGATGCAC
1 ATGATATG-AC
62173033 ATGATATG-C
1 ATGATATGAC
62173042 TATGATAT
1 -ATGATAT
62173050 ACTCATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
9 1 0.03
10 22 0.55
11 17 0.43
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (10 bp):
ATGATATGAC
Found at i:62173017 original size:21 final size:20
Alignment explanation
Indices: 62172991--62173065 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
62172981 ATTGTTATAT
62172991 ATGATATGACATGATATGCAC
1 ATGATATG-CATGATATGCAC
* *
62173012 ATGATATGTTATGAGATGCAC
1 ATGATATG-CATGATATGCAC
* *
62173033 ATGATATGCTATGATATACTC
1 ATGATATGC-ATGATATGCAC
*
62173054 ATTATATGCATG
1 ATGATATGCATG
62173066 GGTTGGGTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
20 3 0.07
21 42 0.93
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (20 bp):
ATGATATGCATGATATGCAC
Found at i:62173154 original size:24 final size:24
Alignment explanation
Indices: 62173097--62173168 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
62173087 AGGAAATGCG
*
62173097 AAAAG-GGCTTTGCCCCAGTTTACT
1 AAAAGAGGCTTTGCCCCAG-TTATT
62173121 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATT
**
62173145 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
62173169 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATT
Found at i:62180705 original size:49 final size:49
Alignment explanation
Indices: 62180638--62180757 Score: 224
Period size: 49 Copynumber: 2.5 Consensus size: 49
62180628 TACATAATAG
62180638 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
62180687 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
62180736 TATGTGTGAT-AGGCCTAATGGC
1 TATATGTGATAAGGCCTAATGGC
62180758 TAATGTGAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
48 12 0.17
49 58 0.83
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:62180804 original size:48 final size:48
Alignment explanation
Indices: 62180752--62180909 Score: 264
Period size: 48 Copynumber: 3.3 Consensus size: 48
62180742 TGATAGGCCT
62180752 AATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
* * *
62180800 AATGGCTAATGTGAAATATATATGAGATATGTATATGTAGTAAAGCCG
1 AATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
*
62180848 AATGGCTAATGTGAAATGTATGTGTGATATGTATATGTGGTAAAGCC-
1 AATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
*
62180895 AATGGCTAACGTGAA
1 AATGGCTAATGTGAA
62180910 TGTTGTAACA
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
47 14 0.14
48 88 0.86
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.32
Consensus pattern (48 bp):
AATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
Found at i:62180804 original size:96 final size:94
Alignment explanation
Indices: 62180687--62180910 Score: 247
Period size: 96 Copynumber: 2.3 Consensus size: 94
62180677 AAAGTGTATA
* * * * * *
62180687 TATATGTGATAAGGCCTAATGGCCGATGTG-ATGA-ATGTGAAAGTGTATATATGT-GTGATAGG
1 TATATGTGGTAAAGCC-AATGGCCAATGTGAAT-ATATATGAAA-TATATATATGTAGT-A-AAG
*
62180749 CCTAATGGCTAATGTGAAATATATGTGTGATATG
61 CCGAATGGCTAATGTGAAATATATGTGTGATATG
* * *
62180783 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTAGTAAAGCCG
1 TATATGTGGTAAAGCC-AATGGCCAATGTG-AATATATATGAAATATATATATGTAGTAAAGCCG
*
62180848 AATGGCTAATGTGAAATGTATGTGTGATATG
64 AATGGCTAATGTGAAATATATGTGTGATATG
* *
62180879 TATATGTGGTAAAGCCAATGGCTAACGTGAAT
1 TATATGTGGTAAAGCCAATGGCCAATGTGAAT
62180911 GTTGTAACAT
Statistics
Matches: 111, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
94 3 0.03
95 12 0.11
96 75 0.68
97 11 0.10
98 10 0.09
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.32
Consensus pattern (94 bp):
TATATGTGGTAAAGCCAATGGCCAATGTGAATATATATGAAATATATATATGTAGTAAAGCCGAA
TGGCTAATGTGAAATATATGTGTGATATG
Found at i:62181003 original size:37 final size:37
Alignment explanation
Indices: 62180949--62181076 Score: 220
Period size: 37 Copynumber: 3.4 Consensus size: 37
62180939 AACTTGGAAA
*
62180949 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
62180987 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
* *
62181024 TATGTCCGGGTGAGACCCGATGACTATGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
62181061 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
62181077 TTCGTAATAA
Statistics
Matches: 86, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
37 82 0.95
38 4 0.05
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:62183017 original size:40 final size:40
Alignment explanation
Indices: 62182951--62183302 Score: 515
Period size: 40 Copynumber: 8.8 Consensus size: 40
62182941 GAGAGTTGAG
* * * * *
62182951 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
62182991 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
62183031 AGTGAAGTATCCGAACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
62183071 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
62183111 AGTGAAGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
62183151 AGTAATGCAACCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
62183191 AGTAATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * * * *
62183231 AGTAATGCAACCAGACTAAGTGCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
62183271 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
62183303 ATCATGCTGG
Statistics
Matches: 283, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 283 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:62187259 original size:49 final size:49
Alignment explanation
Indices: 62187131--62187251 Score: 233
Period size: 49 Copynumber: 2.5 Consensus size: 49
62187121 TACATAATAG
62187131 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
62187180 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
62187229 TATGTGTGATAAGGCCTAATGGC
1 TATATGTGATAAGGCCTAATGGC
62187252 TAATGTGAAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:62187301 original size:48 final size:48
Alignment explanation
Indices: 62187227--62187404 Score: 275
Period size: 48 Copynumber: 3.7 Consensus size: 48
62187217 TGAAAGTGTA
* *
62187227 TATATGTGTGATAAGGCCTAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* *
62187277 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* *
62187325 TATATGTAGTAAAGCCGAATGGCTAATGTGAAATGTATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
*
62187373 TATATGTGGTAAAGCCGAATGGCTAACGTGAA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAA
62187405 TGTTGTAACA
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
48 109 0.92
49 1 0.01
50 8 0.07
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
Found at i:62187498 original size:37 final size:37
Alignment explanation
Indices: 62187444--62187569 Score: 216
Period size: 37 Copynumber: 3.4 Consensus size: 37
62187434 AACTTGGAAA
*
62187444 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
62187482 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
* *
62187519 TATGTCCGGGTGAGACCCGATGACTATGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
62187556 TATGTCCGGGTAAG
1 TATGTCCGGGTAAG
62187570 TCTTCGTAAT
Statistics
Matches: 84, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
37 80 0.95
38 4 0.05
ACGTcount: A:0.22, C:0.17, G:0.34, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:62191768 original size:2 final size:2
Alignment explanation
Indices: 62191761--62191787 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62191751 GAGACTAGTC
62191761 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
62191788 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62195568 original size:25 final size:25
Alignment explanation
Indices: 62195540--62195588 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
62195530 TTATAATATG
* * *
62195540 AAAAATGACTATTTTGCCCCTAGGT
1 AAAAATGACCATTATACCCCTAGGT
62195565 AAAAATGACCATTATACCCCTAGG
1 AAAAATGACCATTATACCCCTAGG
62195589 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (25 bp):
AAAAATGACCATTATACCCCTAGGT
Found at i:62195649 original size:21 final size:21
Alignment explanation
Indices: 62195625--62195664 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62195615 ATATTGTTAT
62195625 ACATGATATGAAATGATATGC
1 ACATGATATGAAATGATATGC
**
62195646 ACATGATATGTTATGATAT
1 ACATGATATGAAATGATAT
62195665 ACTCATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.35
Consensus pattern (21 bp):
ACATGATATGAAATGATATGC
Found at i:62195675 original size:21 final size:21
Alignment explanation
Indices: 62195625--62195676 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
62195615 ATATTGTTAT
** *
62195625 ACATGATATGAAATGATATGC
1 ACATGATATGTTATGATATAC
62195646 ACATGATATGTTATGATATAC
1 ACATGATATGTTATGATATAC
* *
62195667 TCATTATATG
1 ACATGATATG
62195677 CATGGGTTGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (21 bp):
ACATGATATGTTATGATATAC
Found at i:62195774 original size:24 final size:24
Alignment explanation
Indices: 62195738--62195783 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
62195728 AGTTTACCAA
*
62195738 AAAGGGCTTGGCC-CCAGTTATTG
1 AAAGGGCTAGGCCTCCAGTTATTG
62195761 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAG-GGCTAGGCCTCCAGTTAT
62195784 ATGATAAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 8 0.40
25 8 0.40
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (24 bp):
AAAGGGCTAGGCCTCCAGTTATTG
Found at i:62200422 original size:56 final size:56
Alignment explanation
Indices: 62200362--62200548 Score: 286
Period size: 56 Copynumber: 3.4 Consensus size: 56
62200352 CCCTAGACAG
* *
62200362 GGTCTTACTCGTACACATATATCGGAGTCATATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
* * *
62200418 GGTCTTCCTCGCACACATATATCAGAGTCACATATCGAAGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
* *
62200474 GGTATTAC-CGCACACATATATCGGAGTCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
* *
62200529 GGACTTACTCGTACACATAT
1 GGTCTTACTCGCACACATAT
62200549 TGTGACAACC
Statistics
Matches: 117, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
55 50 0.43
56 67 0.57
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
Found at i:62201447 original size:41 final size:41
Alignment explanation
Indices: 62201402--62201519 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
62201392 TGAAAGATAA
62201402 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
62201443 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
62201473 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
62201514 ATGTAG
1 ATGTAG
62201520 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:62201458 original size:71 final size:71
Alignment explanation
Indices: 62201370--62201533 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62201360 GAGATGTATC
62201370 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
62201435 AGGACA
66 AGGACA
62201441 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
62201506 AGGACA
66 AGGACA
62201512 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
62201534 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:62208064 original size:41 final size:41
Alignment explanation
Indices: 62208019--62208136 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
62208009 TGAAAGATAA
62208019 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
62208060 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
62208090 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
62208131 ATGTAG
1 ATGTAG
62208137 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:62208075 original size:71 final size:71
Alignment explanation
Indices: 62207987--62208150 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62207977 GAGATGTATC
62207987 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
62208052 AGGACA
66 AGGACA
62208058 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
62208123 AGGACA
66 AGGACA
62208129 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
62208151 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:62214015 original size:2 final size:2
Alignment explanation
Indices: 62214008--62214045 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
62213998 CACATCATTT
62214008 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62214046 TAATTATTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62217400 original size:39 final size:39
Alignment explanation
Indices: 62217346--62217498 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
62217336 GAATGTTCGA
* * *
62217346 GTGATATCCGGGCTAAGCCCGAAGGCAATTTTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
62217385 GTGATATCCGGGCTAAGCCCAAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
62217424 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* **
62217463 GTGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
62217499 GGTTACCATA
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 87 0.84
40 16 0.16
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:62217431 original size:78 final size:79
Alignment explanation
Indices: 62217347--62217529 Score: 242
Period size: 78 Copynumber: 2.3 Consensus size: 79
62217337 AATGTTCGAG
*
62217347 TGATATCCGGGCTAAGCCCGAAGGCAATTTTGCAAATTGTGATATCCGGGCTAAG-CCCAAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCAAAGGC
62217411 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* * * *
62217425 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCAAAGGC
** *
62217490 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
62217504 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
62217530 GTTTGAACGA
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
78 51 0.56
79 31 0.34
80 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCAAAGGC
AATTGTGCGAGTTA
Found at i:62217496 original size:40 final size:39
Alignment explanation
Indices: 62217346--62217534 Score: 209
Period size: 39 Copynumber: 4.8 Consensus size: 39
62217336 GAATGTTCGA
* *
62217346 GTGATATCCGGGCTAAGCCCGAAGGCAATTT-TGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGC-ATTTGTGCGAGTT
* *
62217385 GTGATATCCGGGCTAAGCCCAAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTT
* *
62217424 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTT
* * *
62217463 GTGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTT
1 GTGATATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTT
*** * * *
62217503 ACCATAACCGGGCTATGTCCCGAAGGCGTTTG
1 GTGATATCCGGGCTAAG-CCCGAAGGCATTTG
62217535 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
38 3 0.02
39 83 0.64
40 44 0.34
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTT
Found at i:62219290 original size:56 final size:56
Alignment explanation
Indices: 62219224--62219434 Score: 350
Period size: 56 Copynumber: 3.8 Consensus size: 56
62219214 CCCCAGACAG
* *
62219224 GGTCTTACTCGTACACATATATCGGAGTCATATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGTACACATATATCAGAGTCACATATCGATGCCAACGTATTAAACGT
* * * *
62219280 GGTCTTACTCGCACACATATATCAGAGTTACATATCGAAGCCATCGTATTAAACGT
1 GGTCTTACTCGTACACATATATCAGAGTCACATATCGATGCCAACGTATTAAACGT
62219336 GGTCTTACTCGTACACATATATCAGAGTCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGTACACATATATCAGAGTCACATATCGATGCCAACGTATTAAACGT
* *
62219392 GGACTTACTCGTACACATATATTAGAGTCACATATCGATGCCA
1 GGTCTTACTCGTACACATATATCAGAGTCACATATCGATGCCA
62219435 CATATACTTC
Statistics
Matches: 143, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 143 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGTACACATATATCAGAGTCACATATCGATGCCAACGTATTAAACGT
Found at i:62221275 original size:46 final size:44
Alignment explanation
Indices: 62221154--62221323 Score: 128
Period size: 46 Copynumber: 3.6 Consensus size: 44
62221144 AATGAGAGCT
* * * *
62221154 AGTGTAAGACATGTCTGGGACATGCGTCGGCCT-CGCGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTATGAGATGT--GCC
* * * *
62221200 AGCGTAAGACATGTCGGGGACAAGCATCGGCTATGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGTGCC
* *
62221244 AGTGTAAGACCATGTTTGGGACATGACATCGGC-ATGGAGAGATGACAGCC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCTAT---GAGATG--TGCC
62221294 AGTGTAAGACAATGTCTGGGACATGGCATC
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATC
62221324 CGCCTCGATC
Statistics
Matches: 99, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
44 10 0.10
45 16 0.16
46 38 0.38
48 6 0.06
49 1 0.01
50 27 0.27
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.21
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGTGCC
Found at i:62227912 original size:39 final size:39
Alignment explanation
Indices: 62227826--62228210 Score: 583
Period size: 39 Copynumber: 9.9 Consensus size: 39
62227816 CGATATAGTA
* * * *
62227826 CCAGTACGAAGCCTGC-GACCTTAAGTCCGGATATAGTA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* *
62227864 CCAGTACGAAGCCTGCGGATCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * *
62227903 CCAGCACGAAGCCTGCGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
62227942 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * *
62227981 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAGTA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* *
62228020 CCAGTACGAAGCCTGCGGATCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * *
62228059 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAATT
*
62228099 CCAGCATGAAGCCTGCGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*
62228138 CCAGCACGAAGCCTACGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
62228177 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
62228211 TACATCAAAT
Statistics
Matches: 313, Mismatches: 32, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
38 16 0.05
39 263 0.84
40 34 0.11
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.20
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
Found at i:62228112 original size:196 final size:194
Alignment explanation
Indices: 62227795--62228212 Score: 667
Period size: 196 Copynumber: 2.1 Consensus size: 194
62227785 CACCAACACA
* * *
62227795 AAGCCTACGGGACTTTAAG-CCCGATATAGTACCAGTACGAAGCCTGCGACCTTAAGTCCGGATA
1 AAGCCTGC-GGACCTTAAGTCCGGATATAGTACCAGTACGAAGCCTGCGACCTTAAGTCCGGATA
* * * * * *
62227859 TAGTACCAGTACGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGTCT
65 CAATACCAGCACGAAGCCTGCGGATCTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACC
*
62227924 TTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
130 TTAAGCCCGGATACAATTCCAGCACGAAGCCTACGGACCTTAAGTCCGGATACAATTCCAGCACG
*
62227989 AAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACGAAGCCTGCGGATCTTAAGTCCGGATA
1 AAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACGAAGCCTGC-GACCTTAAGTCCGGATA
* * *
62228054 CAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATGAAGCCTGCGGAC
65 CAATACCAGCACGAAGCCTGCGGATC-TTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGAC
*
62228119 CTTAAGTCCGGATACAATTCCAGCACGAAGCCTACGGACCTTAAGTCCGGATACAATTCCAGCAC
129 CTTAAGCCCGGATACAATTCCAGCACGAAGCCTACGGACCTTAAGTCCGGATACAATTCCAGCAC
62228184 G
194 G
62228185 AAGCCTGCGGACCTTAAGTCCGGATATA
1 AAGCCTGCGGACCTTAAGTCCGGATATA
62228213 CATCAAATAT
Statistics
Matches: 206, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
193 9 0.04
194 34 0.17
195 37 0.18
196 126 0.61
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.20
Consensus pattern (194 bp):
AAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACGAAGCCTGCGACCTTAAGTCCGGATAC
AATACCAGCACGAAGCCTGCGGATCTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCT
TAAGCCCGGATACAATTCCAGCACGAAGCCTACGGACCTTAAGTCCGGATACAATTCCAGCACG
Found at i:62234590 original size:40 final size:40
Alignment explanation
Indices: 62234482--62234731 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
62234472 CGGGATTTAA
* * * * *
62234482 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
62234522 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62234562 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62234602 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62234642 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62234682 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62234722 CCGGATATAT
1 CCGGATATAT
62234732 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:62244995 original size:44 final size:45
Alignment explanation
Indices: 62244943--62245071 Score: 169
Period size: 44 Copynumber: 2.9 Consensus size: 45
62244933 TGGATATTTG
62244943 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-T-
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACTA
* *
62244986 -GCGAGTCCGAACTCGTTGAGTTGAGTCCGAGTT-A-TGAATGAACTA
1 GGC-A-TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGACTA
*
62245031 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62245072 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
42 3 0.04
43 6 0.08
44 56 0.77
45 5 0.07
46 3 0.04
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACTA
Found at i:62248012 original size:15 final size:15
Alignment explanation
Indices: 62247992--62248060 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
62247982 GTATCTTGGG
62247992 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
62248007 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
62248022 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
62248037 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
62248052 TTTCTTTAT
1 TTTCTTTAT
62248061 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:62248061 original size:30 final size:30
Alignment explanation
Indices: 62247983--62248070 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
62247973 CATAGTATCG
* * * *
62247983 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
62248013 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
62248043 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
62248071 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:62250500 original size:46 final size:48
Alignment explanation
Indices: 62250446--62250579 Score: 179
Period size: 46 Copynumber: 2.9 Consensus size: 48
62250436 TGGATATTTG
62250446 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
* * * *
62250493 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--ACGA
62250539 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62250580 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
43 4 0.05
45 2 0.03
46 33 0.45
47 31 0.42
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (48 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
Found at i:62253805 original size:80 final size:80
Alignment explanation
Indices: 62253721--62253869 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
62253711 TATGGTAACC
* * * *
62253721 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
62253785 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
62253801 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
62253866 CCGG
66 CCGG
62253870 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:62253811 original size:40 final size:38
Alignment explanation
Indices: 62253762--62253869 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
62253752 ATCACGATTT
*
62253762 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
62253802 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
62253842 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
62253870 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:62257412 original size:41 final size:40
Alignment explanation
Indices: 62257279--62257502 Score: 299
Period size: 40 Copynumber: 5.6 Consensus size: 40
62257269 AACCTAAGTA
* * * *
62257279 CCTTCGGGATTTA-ACCGGATATAG-CAAATCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
62257318 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
62257358 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATG
** * *
62257399 CCTTCAAGTCTTAGCCCGGATATCGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
62257439 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-TG
*
62257480 CCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
62257503 CATCTGAATA
Statistics
Matches: 164, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 12 0.07
40 93 0.57
41 59 0.36
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:62257503 original size:81 final size:80
Alignment explanation
Indices: 62257279--62257503 Score: 319
Period size: 81 Copynumber: 2.8 Consensus size: 80
62257269 AACCTAAGTA
* * * * *
62257279 CCTTCGGGATTTAA-CCGGATATAG-CAAATCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATC
*
62257342 GTAACTCGCACAAATG
65 GTAACTAGCACAAATG
* **
62257358 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGCCTTCAAGTCTTAGCCCGGATATC
1 CCTTCGGGACTTAACCCGGATATAGTCACTAGCAC-AAATGCCTTCGGGTCTTAGCCCGGATATC
*
62257423 GTCACTAGCACAAATG
65 GTAACTAGCACAAATG
62257439 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAA-TGCCTTCGGGTCTTAGCCCGGATATC
62257504 ATCTGAATAA
Statistics
Matches: 129, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 12 0.09
80 19 0.15
81 98 0.76
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATCG
TAACTAGCACAAATG
Found at i:62258921 original size:14 final size:14
Alignment explanation
Indices: 62258899--62258941 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
62258889 TTTCATTTTG
62258899 TAACATAAAATTAT
1 TAACATAAAATTAT
*
62258913 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
62258926 TAACACAAAATAAT
1 TAACATAAAATTAT
62258940 TA
1 TA
62258942 TAATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:62258935 original size:13 final size:13
Alignment explanation
Indices: 62258899--62258937 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
62258889 TTTCATTTTG
62258899 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
62258913 TAGCATAAAATAT
1 TAACATAAAATAT
*
62258926 TAACACAAAATA
1 TAACATAAAATA
62258938 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:62259312 original size:26 final size:26
Alignment explanation
Indices: 62259282--62259332 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
62259272 AAAATTAATG
62259282 CTAATTAAACTGAAATATTGAATGTC
1 CTAATTAAACTGAAATATTGAATGTC
62259308 CTAATTAAACTGAAATATTGAATGT
1 CTAATTAAACTGAAATATTGAATGT
62259333 TTTCTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTC
Found at i:62264054 original size:13 final size:13
Alignment explanation
Indices: 62264036--62264060 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62264026 CGTTACTTCT
62264036 TCTTCTCTCTCTC
1 TCTTCTCTCTCTC
62264049 TCTTCTCTCTCT
1 TCTTCTCTCTCT
62264061 TTTCTTTGGA
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:0.44, G:0.00, T:0.56
Consensus pattern (13 bp):
TCTTCTCTCTCTC
Found at i:62268700 original size:13 final size:13
Alignment explanation
Indices: 62268682--62268706 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62268672 CCGGAAACAC
62268682 ATCTGTAAACTCA
1 ATCTGTAAACTCA
62268695 ATCTGTAAACTC
1 ATCTGTAAACTC
62268707 CTTTCCTCAA
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:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (13 bp):
ATCTGTAAACTCA
Found at i:62276892 original size:27 final size:28
Alignment explanation
Indices: 62276836--62276905 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
62276826 AAATTTGTAC
62276836 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
62276864 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
62276891 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
62276906 GAATCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:62285510 original size:27 final size:27
Alignment explanation
Indices: 62285473--62285571 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
62285463 ATACTTTAGT
*
62285473 TTGT-AAATTACTAAAATACCCTCGAC
1 TTGTAAAATTACCAAAATACCCTCGAC
* *
62285499 TTGTAAAATTACCAAAGTAGCCC-CGAT
1 TTGTAAAATTACCAAAATA-CCCTCGAC
* * *
62285526 TTATAAAATTACCCAAATATCCTCGAC
1 TTGTAAAATTACCAAAATACCCTCGAC
*
62285553 TTGTAAAATTACTAAAATA
1 TTGTAAAATTACCAAAATA
62285572 AGATAGAATT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
26 6 0.10
27 50 0.85
28 3 0.05
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCTCGAC
Found at i:62285608 original size:27 final size:27
Alignment explanation
Indices: 62285578--62285747 Score: 169
Period size: 27 Copynumber: 6.3 Consensus size: 27
62285568 AATAAGATAG
*
62285578 AATTACCATTTTACCCTCAATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
* * *
62285605 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAA
* *
62285632 AATTACCATTTTACCCTTGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAA
*
62285659 AATTACCATTTTACCCTCGATTTATAA
1 AATTACCATTTTACCCTCGATTTACAA
* ** * * *
62285686 AATTACTATAATACCATTGGTTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
*** ** *
62285713 AATTACCAAAATACCCTCGATCAATAA
1 AATTACCATTTTACCCTCGATTTACAA
62285740 AATTACCA
1 AATTACCA
62285748 AAATACCCCT
Statistics
Matches: 118, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 118 1.00
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.36
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAA
Found at i:62285637 original size:54 final size:54
Alignment explanation
Indices: 62285574--62285691 Score: 191
Period size: 54 Copynumber: 2.2 Consensus size: 54
62285564 CTAAAATAAG
*
62285574 ATAGAATTACCATTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCAATTTACAAAATTACCATTTTACCCTCGATTT
** *
62285628 ATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCAATTTACAAAATTACCATTTTACCCTCGATTT
*
62285682 ATAAAATTAC
1 ATAGAATTAC
62285692 TATAATACCA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (54 bp):
ATAGAATTACCATTTTACCCTCAATTTACAAAATTACCATTTTACCCTCGATTT
Found at i:62285710 original size:54 final size:54
Alignment explanation
Indices: 62285597--62285754 Score: 190
Period size: 54 Copynumber: 2.9 Consensus size: 54
62285587 TTTACCCTCA
* * ** *
62285597 ATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTTG
1 ATTTACAAAATTACCATTTTACCCTCGATTTATAAAATTACCATAATACCATTG
* *
62285651 ATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACTATAATACCATTG
1 ATTTACAAAATTACCATTTTACCCTCGATTTATAAAATTACCATAATACCATTG
* *** ** *
62285705 GTTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCAAAATACC
1 ATTTACAAAATTACCATTTTACCCTCGATTTATAAAATTACCATAATACC
62285755 CCTAGTTTGT
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.35
Consensus pattern (54 bp):
ATTTACAAAATTACCATTTTACCCTCGATTTATAAAATTACCATAATACCATTG
Found at i:62285767 original size:27 final size:27
Alignment explanation
Indices: 62285737--62285987 Score: 236
Period size: 27 Copynumber: 9.3 Consensus size: 27
62285727 CCTCGATCAA
**
62285737 TAAAATTACCAAAATACCCCTAGT-TTG
1 TAAAATTACCAAAATACCCCT-GTAGGG
* **
62285764 TAAAAATTACCAAAATACCCCT-AATTTG
1 T-AAAATTACCAAAATACCCCTGTA-GGG
* **
62285792 TGAAATTACTGAAATACCCCTGTAGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
* **
62285819 TAGAATTACTGAAATACCCCTGTAGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
* * *
62285846 TAGAATTACCGAAATACCCCTATAGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
*
62285873 TAAAATTACCGAAATACCCCTGTAGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
* *
62285900 TAGAATTACCAAAATACCCCTGAAGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
* * *
62285927 TAGAATTACTAAAATACCCCTGTAGAG
1 TAAAATTACCAAAATACCCCTGTAGGG
** * * *
62285954 TGGAATTACCAAGATACCCTTGTGGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
62285981 TAAAATT
1 TAAAATT
62285988 TCCATTTTGC
Statistics
Matches: 193, Mismatches: 27, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
27 168 0.87
28 25 0.13
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTGTAGGG
Found at i:62285770 original size:28 final size:27
Alignment explanation
Indices: 62285711--62285812 Score: 107
Period size: 27 Copynumber: 3.7 Consensus size: 27
62285701 ATTGGTTTAC
* ***
62285711 AAAATTACCAAAATA-CCCTCGATCAAT
1 AAAATTACCAAAATACCCCT-AATTTGT
*
62285738 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGT
62285765 AAAAATTACCAAAATACCCCTAATTTGT
1 -AAAATTACCAAAATACCCCTAATTTGT
* **
62285793 GAAATTACTGAAATACCCCT
1 AAAATTACCAAAATACCCCT
62285813 GTAGGGTAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
27 34 0.53
28 30 0.47
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.26
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAATTTGT
Found at i:62285853 original size:54 final size:54
Alignment explanation
Indices: 62285795--62285987 Score: 262
Period size: 54 Copynumber: 3.6 Consensus size: 54
62285785 TAATTTGTGA
*
62285795 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * *
62285849 AATTACCGAAATACCCCTATAGGGTAAAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * * * *
62285903 AATTACCAAAATACCCCTGAAGGGTAGAATTACTAAAATACCCCTGTAGAGTGG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * *
62285957 AATTACC-AAGATACCCTTGTGGGGTAAAATT
1 AATTACCGAA-ATACCCCTGTAGGGTAGAATT
62285988 TCCATTTTGC
Statistics
Matches: 122, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
53 2 0.02
54 120 0.98
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
Found at i:62285887 original size:81 final size:81
Alignment explanation
Indices: 62285768--62285987 Score: 273
Period size: 81 Copynumber: 2.7 Consensus size: 81
62285758 AGTTTGTAAA
** * **
62285768 AATTACCAAAATACCCCTA-ATTTGTGAAATTACTGAAATACCCCTGTAGGGTAGAATTACTGAA
1 AATTACCAAAATACCCCTATA-GAGTGAAATTACCGAAATACCCCTGTAGGGTAGAATTACCAAA
*
62285832 ATACCCCTGTAGGGTAG
65 ATACCCCTGAAGGGTAG
* * *
62285849 AATTACCGAAATACCCCTATAGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAA
1 AATTACCAAAATACCCCTATAGAGTGAAATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAA
62285914 TACCCCTGAAGGGTAG
66 TACCCCTGAAGGGTAG
* * * * * *
62285930 AATTACTAAAATACCCCTGTAGAGTGGAATTACC-AAGATACCCTTGTGGGGTAAAATT
1 AATTACCAAAATACCCCTATAGAGTGAAATTACCGAA-ATACCCCTGTAGGGTAGAATT
62285988 TCCATTTTGC
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 2 0.02
81 117 0.98
82 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (81 bp):
AATTACCAAAATACCCCTATAGAGTGAAATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAA
TACCCCTGAAGGGTAG
Found at i:62286424 original size:6 final size:6
Alignment explanation
Indices: 62286393--62286485 Score: 68
Period size: 6 Copynumber: 15.3 Consensus size: 6
62286383 TTGCATTCCC
* *
62286393 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG A-TCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
62286441 -TCACCTA ATTCTG ATTTTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
62286486 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
5 7 0.10
6 53 0.78
7 6 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:62286455 original size:30 final size:30
Alignment explanation
Indices: 62286393--62286467 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
62286383 TTGCATTCCC
* * *
62286393 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGA-TCTGTCACCTAATACTG
*
62286424 ATTCTGATTCTGATCTGTCACCTAATTCTG
1 ATTCTGATTCTGATCTGTCACCTAATACTG
*
62286454 ATTTTGATTCTGAT
1 ATTCTGATTCTGAT
62286468 TCTGATTCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 27 0.69
31 12 0.31
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATCTGTCACCTAATACTG
Found at i:62296139 original size:28 final size:27
Alignment explanation
Indices: 62296076--62296145 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
62296066 ATAGTGAGTC
62296076 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
62296103 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
62296131 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62296146 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:62302831 original size:28 final size:28
Alignment explanation
Indices: 62302770--62302867 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
62302760 TCACAAATTG
** * *
62302770 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
62302799 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
62302827 GCACTAAGTGTGCTAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
62302855 GCACTAAGTGTGC
1 GCACTAAGTGTGC
62302868 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:62316139 original size:40 final size:40
Alignment explanation
Indices: 62316084--62316247 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
62316074 TGAATGATAC
* * * *
62316084 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATGT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
62316124 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
62316164 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
62316204 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
62316244 CCGG
1 CCGG
62316248 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.92
41 5 0.05
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:62319190 original size:46 final size:46
Alignment explanation
Indices: 62319046--62319307 Score: 222
Period size: 46 Copynumber: 5.5 Consensus size: 46
62319036 TTTGTGCGCC
* * * *
62319046 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTACGAGAGCT
* *** * *
62319092 AGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGA-GACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAT-ATTACGAGAGCT
* ** *
62319140 AGTGTAAGACATGTCTGGGACATGCATCATCCATATTATTAGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTACGAGAGCT
*
62319186 AGTGTAAGACATGTCTGGGACATGCATCAGCACGTATATACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-CATAT-TACGAGAGCT
* * ** * * *
62319234 AGTGTAAGACCATGTTTGAGACATGGCATCAGCC-TCGAAGATGATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAT--ATTACGAGAGCT
62319283 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
62319308 GCGTCGGCAA
Statistics
Matches: 175, Mismatches: 31, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 51 0.29
47 32 0.18
48 40 0.23
49 42 0.24
50 9 0.05
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTACGAGAGCT
Found at i:62319229 original size:94 final size:94
Alignment explanation
Indices: 62319046--62319309 Score: 309
Period size: 94 Copynumber: 2.8 Consensus size: 94
62319036 TTTGTGCGCC
*
62319046 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
** *
62319111 GACATGGCATCGGTGTTGAGACGAGGGCT
66 GACATGGCATCGACGTTGAGACGAGAGCT
* * * * *
62319140 AGTGTAAGACATGTCTGGGACATGCATCATCCATATTATTAGTGCTAGTGTAAGA-CATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
*
62319204 GACAT-GCATCAGCACGTAT-ATACGAGAGCT
66 GACATGGCATC-G-ACGT-TGAGACGAGAGCT
* * * ** *
62319234 AGTGTAAGACCATGTTTGAGACATGGCATCAGCCTCGAAGATGATAGCCAGTGTAAGACCATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATGAGAGCCAGTGTAAGACCATGTC
62319299 TGGGACATGGC
63 TGGGACATGGC
62319310 GTCGGCAACT
Statistics
Matches: 141, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
92 5 0.04
93 15 0.11
94 69 0.49
95 13 0.09
96 8 0.06
97 15 0.11
98 14 0.10
99 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACGTTGAGACGAGAGCT
Found at i:62325282 original size:94 final size:94
Alignment explanation
Indices: 62325099--62325362 Score: 329
Period size: 94 Copynumber: 2.8 Consensus size: 94
62325089 TTTGTGCGCC
* *
62325099 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCGGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
* *
62325164 GACATGGCATCGGCGTTGAGACGAGGGCT
66 GACATGGCATCGACGTTGAGACGAGAGCT
* *
62325193 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATTAGT-GCTAGTGTAAGA-CATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA-TAGCCAGTGTAAGACCATGTCTG
*
62325256 GGACAT-GCATCAGCACGTAT-ATACGAGAGCT
65 GGACATGGCATC-G-ACGT-TGAGACGAGAGCT
* * **
62325287 AGTATAAGACCATGTCTGGGACATGGCATCAGCCTCAAAGATGATAGCCAGTGTAAGACCATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATGATAGCCAGTGTAAGACCATGTC
*
62325352 TGAGACATGGC
63 TGGGACATGGC
62325363 GTCAGCAACT
Statistics
Matches: 146, Mismatches: 14, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
92 5 0.03
93 15 0.10
94 69 0.47
95 16 0.11
96 11 0.08
97 15 0.10
98 13 0.09
99 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACGTTGAGACGAGAGCT
Found at i:62325362 original size:49 final size:46
Alignment explanation
Indices: 62325096--62325360 Score: 219
Period size: 46 Copynumber: 5.6 Consensus size: 46
62325086 CGATTTGTGC
* * *
62325096 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAATATGATA
* * * ** * * **
62325142 GCCGGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCAATATGATA
* * * *
62325190 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATTAGT-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAATATGA-TA
* * *
62325236 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGT-ATATACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC-C-TCA-ATATGATA
* * *
62325284 GCTAGTATAAGACCATGTCTGGGACATGGCATCAGCCTCAAAGATGATA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTC-AATATGATA
*
62325333 GCCAGTGTAAGACCATGTCTGAGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
62325361 GCGTCAGCAA
Statistics
Matches: 174, Mismatches: 34, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
46 54 0.31
47 30 0.17
48 37 0.21
49 44 0.25
50 9 0.05
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAATATGATA
Found at i:62325791 original size:19 final size:19
Alignment explanation
Indices: 62325767--62325859 Score: 170
Period size: 19 Copynumber: 4.9 Consensus size: 19
62325757 ATAATCTTCA
62325767 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
62325786 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
62325805 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
62325824 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
62325842 ATGATATGTAATCTTAGA
1 ATGATATGCAATCTTAGA
62325860 AGATATGATT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
18 18 0.25
19 54 0.75
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:62325842 original size:37 final size:38
Alignment explanation
Indices: 62325767--62325866 Score: 170
Period size: 37 Copynumber: 2.7 Consensus size: 38
62325757 ATAATCTTCA
62325767 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
62325805 ATGATATGCAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
*
62325842 ATGATATGTAATCTTAGA-A-GATATG
1 ATGATATGCAATCTTAGATATGATATG
62325867 ATTTTGTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
35 3 0.05
36 3 0.05
37 30 0.50
38 24 0.40
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (38 bp):
ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:62325885 original size:22 final size:22
Alignment explanation
Indices: 62325767--62325882 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 22
62325757 ATAATCTTCA
*
62325767 ATGATATGCAATCTT---AGAT
1 ATGATATGTAATCTTAGAAGAT
*
62325786 ATGATATGCAATCTT---AGAT
1 ATGATATGTAATCTTAGAAGAT
*
62325805 ATGATATGCAATCTT---AGAT
1 ATGATATGTAATCTTAGAAGAT
*
62325824 ATGAT-TGCAATCTT---AGAT
1 ATGATATGTAATCTTAGAAGAT
62325842 ATGATATGTAATCTTAGAAGAT
1 ATGATATGTAATCTTAGAAGAT
*
62325864 ATGATTTTGTAATCTTAGA
1 ATGA-TATGTAATCTTAGA
62325883 GATTTAATTT
Statistics
Matches: 90, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
18 18 0.20
19 51 0.57
22 8 0.09
23 13 0.14
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
ATGATATGTAATCTTAGAAGAT
Found at i:62325892 original size:22 final size:23
Alignment explanation
Indices: 62325848--62325892 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
62325838 AGATATGATA
*
62325848 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
62325871 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
62325893 GTAGATACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Done.