Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 230 of 276
Found at i:76344015 original size:44 final size:44
Alignment explanation
Indices: 76343962--76344162 Score: 174
Period size: 44 Copynumber: 4.8 Consensus size: 44
76343952 AAAAAAATAA
76343962 TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
1 TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
* * *
76344006 TTTAATACAAAGAAATCCA---TT-TC-TGC-CATG-TATA-A-
1 TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
* * *
76344041 --TAA-CCAAACAAATTCGTTTATGTCATGCACATGCCATACAC
1 TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
* * * * * * * *
76344082 TTTAATACAAAGAAATCCATTTATGTCATGTACAATAACCAAATAA
1 TTTAATACAAACAAATTCATTTTTGTCATGCAC-AT-GCCATACAC
76344128 TTTAATACAAACAAATTCATTTTTGTCATGCACAT
1 TTTAATACAAACAAATTCATTTTTGTCATGCACAT
76344163 AGTAGACAAT
Statistics
Matches: 121, Mismatches: 22, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
32 9 0.07
33 3 0.02
35 1 0.01
36 3 0.02
37 6 0.05
38 8 0.07
39 6 0.05
40 3 0.02
41 2 0.02
43 3 0.02
44 39 0.32
45 4 0.03
46 34 0.28
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (44 bp):
TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
Found at i:76344051 original size:76 final size:76
Alignment explanation
Indices: 76343969--76344124 Score: 267
Period size: 76 Copynumber: 2.1 Consensus size: 76
76343959 TAATTTAATA
* *
76343969 CAAACAAATTCATTTTTGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTCTGCCA
1 CAAACAAATTCATTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGCCA
*
76344034 TGTATAATAAC
66 TGTACAATAAC
* *
76344045 CAAACAAATTCGTTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTCA
1 CAAACAAATTCATTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGCCA
76344110 TGTACAATAAC
66 TGTACAATAAC
76344121 CAAA
1 CAAA
76344125 TAATTTAATA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (76 bp):
CAAACAAATTCATTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGCCA
TGTACAATAAC
Found at i:76344149 original size:46 final size:44
Alignment explanation
Indices: 76344045--76344163 Score: 139
Period size: 46 Copynumber: 2.7 Consensus size: 44
76344035 GTATAATAAC
* * * *
76344045 CAAACAAATTCGTTTATGTCATGCACATGCCATACACTTTAATA
1 CAAACAAATTCATTTATGTCATGCACATACCAAACAATTTAATA
* * * *
76344089 CAAAGAAATCCATTTATGTCATGTACAATAACCAAATAATTTAATA
1 CAAACAAATTCATTTATGTCATGCAC-AT-ACCAAACAATTTAATA
*
76344135 CAAACAAATTCATTTTTGTCATGCACATA
1 CAAACAAATTCATTTATGTCATGCACATA
76344164 GTAGACAATA
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
44 23 0.38
45 4 0.07
46 34 0.56
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (44 bp):
CAAACAAATTCATTTATGTCATGCACATACCAAACAATTTAATA
Found at i:76344305 original size:11 final size:11
Alignment explanation
Indices: 76344271--76344305 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
76344261 AACTGATTTT
*
76344271 TCATATTTGAT
1 TCATATTTGAA
*
76344282 TCATATTTAAA
1 TCATATTTGAA
76344293 TCATATTTGAA
1 TCATATTTGAA
76344304 TC
1 TC
76344306 CAAAGAAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (11 bp):
TCATATTTGAA
Found at i:76345114 original size:32 final size:33
Alignment explanation
Indices: 76345078--76345142 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
76345068 TATTTTATTC
* **
76345078 TCCTTAATCCCAATTGATCCTTTC-TTTCTTTT
1 TCCTTAATCCAAATCCATCCTTTCTTTTCTTTT
*
76345110 TCCTTAATCCAAATCCATCTTTTCTTTTCTTTT
1 TCCTTAATCCAAATCCATCCTTTCTTTTCTTTT
76345143 CCCAAAACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 20 0.71
33 8 0.29
ACGTcount: A:0.17, C:0.28, G:0.02, T:0.54
Consensus pattern (33 bp):
TCCTTAATCCAAATCCATCCTTTCTTTTCTTTT
Found at i:76345833 original size:20 final size:20
Alignment explanation
Indices: 76345796--76345852 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 20
76345786 AATTTAATTC
*
76345796 AAATATATAAACTCTATTTT
1 AAATATATAAACTATATTTT
*
76345816 AAATAT-TAAACTA-ATATT
1 AAATATATAAACTATATTTT
* * *
76345834 ATATATTTAAAATATATTT
1 AAATATATAAACTATATTT
76345853 CAATAGGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.30
19 12 0.40
20 9 0.30
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATATATAAACTATATTTT
Found at i:76352146 original size:60 final size:61
Alignment explanation
Indices: 76352028--76352151 Score: 144
Period size: 60 Copynumber: 2.0 Consensus size: 61
76352018 TTCTTTAAAC
* * * ** *
76352028 TTTTAGAATTAGAAATAAATTGATAAATTTTGTAAATGTTAAGGGTTAAATTTATTGAATT
1 TTTTAGAATTAGAAATAAATAGACAAATATTGTAAACATTAAGGGCTAAATTTATTGAATT
* * *
76352089 TTTTAGAATTA-AAACTAAA-AGACAAATATTGTAAACATTGAGGGCTAGATTTGTTGAATT
1 TTTTAGAATTAGAAA-TAAATAGACAAATATTGTAAACATTAAGGGCTAAATTTATTGAATT
76352149 TTT
1 TTT
76352152 AGATTTGGGA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
60 38 0.72
61 15 0.28
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.41
Consensus pattern (61 bp):
TTTTAGAATTAGAAATAAATAGACAAATATTGTAAACATTAAGGGCTAAATTTATTGAATT
Found at i:76365501 original size:20 final size:22
Alignment explanation
Indices: 76365454--76365501 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
76365444 AACATTCAAA
76365454 TATAAATAACTAAAATATAACC
1 TATAAATAACTAAAATATAACC
76365476 TA-AAATAAAC-AAAA-ATAA-C
1 TATAAAT-AACTAAAATATAACC
76365495 TATAAAT
1 TATAAAT
76365502 TTAGTTTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 3 0.12
20 8 0.33
21 8 0.33
22 5 0.21
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (22 bp):
TATAAATAACTAAAATATAACC
Found at i:76373394 original size:26 final size:26
Alignment explanation
Indices: 76373363--76373470 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
76373353 TGAAATTCCC
*
76373363 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
76373389 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
76373415 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
76373441 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
76373467 ATCA
1 ATCA
76373471 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:76387285 original size:52 final size:51
Alignment explanation
Indices: 76387175--76387334 Score: 162
Period size: 52 Copynumber: 3.1 Consensus size: 51
76387165 TGACGGAATA
* *
76387175 GATGTGATAAGTGTACCTGTATAAGACCATAGCTGGGCTATGGCATCGG--T
1 GATGTGAT-AGTATACCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* *
76387225 GAATTGTGATATGTATTCCCGTATAAGACCATGGCTGGGCTATGGCATCGGTAT
1 G-A-TGTGATA-GTATACCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * ** * *
76387279 GATGTGATAATATGCCTCCACATAAGACCATATCTGGGATATGGCATCGGTAT
1 GATGTGATAGTAT-AC-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
76387332 GAT
1 GAT
76387335 ATATGATCCA
Statistics
Matches: 92, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
50 1 0.01
51 5 0.05
52 49 0.53
53 35 0.38
54 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (51 bp):
GATGTGATAGTATACCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
Found at i:76391575 original size:41 final size:41
Alignment explanation
Indices: 76391518--76391600 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
76391508 CTATTGATTA
76391518 TGATGTACAAGTTACAAATCTGTTAGGCCAAAGTGTGGTAG
1 TGATGTACAAGTTACAAATCTGTTAGGCCAAAGTGTGGTAG
*
76391559 TGATGTACAAGTTACAAATGTGTTAGGCCAAAGTGTGGTAG
1 TGATGTACAAGTTACAAATCTGTTAGGCCAAAGTGTGGTAG
76391600 T
1 T
76391601 TAATCTAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (41 bp):
TGATGTACAAGTTACAAATCTGTTAGGCCAAAGTGTGGTAG
Found at i:76396248 original size:52 final size:52
Alignment explanation
Indices: 76396156--76396272 Score: 141
Period size: 52 Copynumber: 2.2 Consensus size: 52
76396146 AAGTGTGCCC
*
76396156 GTATAAGACCATAGTTGGGCTATGGCATCAATGTAGTGTGAT-ATGTACTCCT
1 GTATAAGACCATAGCTGGGCTATGGCATC-ATGTAGTGTGATAATGTACTCCT
* * *
76396208 GTATATGACCATGGCTGGGCTATGGCATC-TGTATGATGTGATAATGTGCTCC-
1 GTATAAGACCATAGCTGGGCTATGGCATCATGTA-G-TGTGATAATGTACTCCT
*
76396260 ATATAAGACCATA
1 GTATAAGACCATA
76396273 TATAGGATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
50 4 0.07
51 1 0.02
52 42 0.76
53 8 0.15
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (52 bp):
GTATAAGACCATAGCTGGGCTATGGCATCATGTAGTGTGATAATGTACTCCT
Found at i:76409583 original size:31 final size:30
Alignment explanation
Indices: 76409521--76409592 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
76409511 TTAGACATCT
*
76409521 TTTAGATAATAATATTTAATTTAAATTTAAA
1 TTTAAATAATAATATTTAA-TTAAATTTAAA
76409552 TTTAAATAATAATATTTAGA-TAAATTATAAA
1 TTTAAATAATAATATTTA-ATTAAATT-TAAA
*
76409583 TAATAAATAA
1 T-TTAAATAA
76409593 GTTGTATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
30 6 0.17
31 22 0.61
32 8 0.22
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (30 bp):
TTTAAATAATAATATTTAATTAAATTTAAA
Found at i:76410178 original size:18 final size:18
Alignment explanation
Indices: 76410155--76410189 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
76410145 TTACATATAA
76410155 AAATAATAATGACATTTG
1 AAATAATAATGACATTTG
* *
76410173 AAATAATTATTACATTT
1 AAATAATAATGACATTT
76410190 TATAATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (18 bp):
AAATAATAATGACATTTG
Found at i:76411182 original size:5 final size:5
Alignment explanation
Indices: 76411174--76411203 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
76411164 TAAATTATAT
76411174 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
76411204 AGCCTCTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:76411276 original size:46 final size:47
Alignment explanation
Indices: 76411211--76411306 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 47
76411201 AAAAGCCTCT
* * *
76411211 ACCACCCCGTACCCATCCCTCTCCTCCTCC-CCACTGGAGCTCCCCC
1 ACCACCCCGTACCCATCCCTCTCCCCCTCCTCCACCGGACCTCCCCC
* *
76411257 ACCACCCTGT-CCCTATCCCTCTCCCCCTCCTCCACCGGACCTCCCGC
1 ACCACCCCGTACCC-ATCCCTCTCCCCCTCCTCCACCGGACCTCCCCC
76411304 ACC
1 ACC
76411307 TCCGTCCCTC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
45 3 0.07
46 24 0.56
47 16 0.37
ACGTcount: A:0.12, C:0.61, G:0.08, T:0.18
Consensus pattern (47 bp):
ACCACCCCGTACCCATCCCTCTCCCCCTCCTCCACCGGACCTCCCCC
Found at i:76412456 original size:15 final size:16
Alignment explanation
Indices: 76412436--76412468 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
76412426 TTGGTTTTTG
76412436 ATTTTTTATTTA-TTT
1 ATTTTTTATTTAGTTT
*
76412451 ATTTTTTGTTTAGTTT
1 ATTTTTTATTTAGTTT
76412467 AT
1 AT
76412469 GAGAAATGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (16 bp):
ATTTTTTATTTAGTTT
Found at i:76417894 original size:37 final size:38
Alignment explanation
Indices: 76417819--76417898 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 38
76417809 TATTTTCATC
* * *
76417819 AAATGATTTGGAAAATATAATATAGATATAATTTAAGAA
1 AAATGACTTGAAAAATATAATATA-ATATAATTGAAGAA
76417858 AAATGACTTGAAAAATATAATAT-ATATAATTGAAGAA
1 AAATGACTTGAAAAATATAATATAATATAATTGAAGAA
76417895 AAAT
1 AAAT
76417899 TCACATCTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 17 0.45
39 21 0.55
ACGTcount: A:0.56, C:0.01, G:0.11, T:0.31
Consensus pattern (38 bp):
AAATGACTTGAAAAATATAATATAATATAATTGAAGAA
Found at i:76422966 original size:7 final size:7
Alignment explanation
Indices: 76422954--76422978 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
76422944 ACCAAAAGAA
76422954 TTAATAG
1 TTAATAG
76422961 TTAATAG
1 TTAATAG
76422968 TTAATAG
1 TTAATAG
76422975 TTAA
1 TTAA
76422979 ATGTAAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (7 bp):
TTAATAG
Found at i:76423179 original size:32 final size:32
Alignment explanation
Indices: 76423138--76423202 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
76423128 AACTTTACCA
76423138 TTTATGTAAAACAATAGAGAGAGCAGCAAAGG
1 TTTATGTAAAACAATAGAGAGAGCAGCAAAGG
76423170 TTTATGTAAAACAATAGAGAGAGCAGCAAAGG
1 TTTATGTAAAACAATAGAGAGAGCAGCAAAGG
76423202 T
1 T
76423203 AGTTTTCCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.09, G:0.25, T:0.20
Consensus pattern (32 bp):
TTTATGTAAAACAATAGAGAGAGCAGCAAAGG
Found at i:76426014 original size:41 final size:42
Alignment explanation
Indices: 76425956--76426068 Score: 129
Period size: 41 Copynumber: 2.7 Consensus size: 42
76425946 TGAGATCCCA
* * * * *
76425956 TATATGACCATATCTGGGATATGGCGTTGATATAAGATTTTG
1 TATAAGACCATATCTGGGATATGGCGTCGAAATAAGAATTCG
* * * *
76425998 TGTAAGACCA-CTCTGGGACATGGCGTCGAAATGAGAATTCG
1 TATAAGACCATATCTGGGATATGGCGTCGAAATAAGAATTCG
*
76426039 TATAAGACCATATCTGGGATATGGCATCGA
1 TATAAGACCATATCTGGGATATGGCGTCGA
76426069 TGTGAGATCC
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 33 0.58
42 24 0.42
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (42 bp):
TATAAGACCATATCTGGGATATGGCGTCGAAATAAGAATTCG
Found at i:76426075 original size:42 final size:42
Alignment explanation
Indices: 76425956--76426107 Score: 128
Period size: 42 Copynumber: 3.6 Consensus size: 42
76425946 TGAGATCCCA
* * * * * * *
76425956 TATATGACCATATCTGGGATATGGCGTTGATATAAGATTTTG
1 TATAAGACCATATCTGGGACATGGCATCGATATGAGAATTCG
* * * *
76425998 TGTAAGACCA-CTCTGGGACATGGCGTCGAAATGAGAATTCG
1 TATAAGACCATATCTGGGACATGGCATCGATATGAGAATTCG
* * * *
76426039 TATAAGACCATATCTGGGATATGGCATCGATGTGAG-ATCCCA
1 TATAAGACCATATCTGGGACATGGCATCGATATGAGAAT-TCG
* *
76426081 TGTAAGACCATGTCTGGGACATGGCAT
1 TATAAGACCATATCTGGGACATGGCAT
76426108 TGGCATCTTA
Statistics
Matches: 88, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
41 35 0.40
42 53 0.60
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (42 bp):
TATAAGACCATATCTGGGACATGGCATCGATATGAGAATTCG
Found at i:76428717 original size:41 final size:40
Alignment explanation
Indices: 76428612--76428795 Score: 167
Period size: 40 Copynumber: 4.5 Consensus size: 40
76428602 TCAAATTCTC
* * * *
76428612 GCACACTAAGTGCCAAAACATAGCCAAAGCTATTTTAATCT
1 GCACACTAAGTGCC-ATATATAGCCAAAGCTATCTCAATCT
* * * * *
76428653 CACACACTAAGTTCC-TTTCATAGCCAAAGCTATCACGATCT
1 -GCACACTAAGTGCCATAT-ATAGCCAAAGCTATCTCAATCT
* *
76428694 AGCACACTAAGTGCCATATATAGCCGAAGCTATTTCGAATC-
1 -GCACACTAAGTGCCATATATAGCCAAAGCTATCTC-AATCT
**
76428735 GCACACTAAGTGCCATATATAGCGGAAGCTATCTCAAATCT
1 GCACACTAAGTGCCATATATAGCCAAAGCTATCTC-AATCT
*
76428776 -TACACTAAGTGCCATATATA
1 GCACACTAAGTGCCATATATA
76428796 TATCCGAATC
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
40 56 0.48
41 44 0.38
42 17 0.15
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (40 bp):
GCACACTAAGTGCCATATATAGCCAAAGCTATCTCAATCT
Found at i:76430698 original size:11 final size:11
Alignment explanation
Indices: 76430684--76430728 Score: 72
Period size: 11 Copynumber: 4.1 Consensus size: 11
76430674 AAAGTTAAAC
76430684 AAAAGAAAGAA
1 AAAAGAAAGAA
76430695 AAAAGAAAGAA
1 AAAAGAAAGAA
76430706 AAAAGAAAGAA
1 AAAAGAAAGAA
**
76430717 AAGGGAAAGAA
1 AAAAGAAAGAA
76430728 A
1 A
76430729 CAGACGCAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AAAAGAAAGAA
Found at i:76430701 original size:7 final size:8
Alignment explanation
Indices: 76430685--76430717 Score: 52
Period size: 7 Copynumber: 4.4 Consensus size: 8
76430675 AAGTTAAACA
76430685 AAAGAAAG
1 AAAGAAAG
76430693 AAA-AAAG
1 AAAGAAAG
76430700 AAAGAAA-
1 AAAGAAAG
76430707 AAAGAAAG
1 AAAGAAAG
76430715 AAA
1 AAA
76430718 AGGGAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 14 0.61
8 9 0.39
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (8 bp):
AAAGAAAG
Found at i:76430703 original size:15 final size:15
Alignment explanation
Indices: 76430685--76430717 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
76430675 AAGTTAAACA
76430685 AAAGAAAGAAAAAAG
1 AAAGAAAGAAAAAAG
76430700 AAAGAAA-AAAGAAAG
1 AAAGAAAGAAA-AAAG
76430715 AAA
1 AAA
76430718 AGGGAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAAAAAG
Found at i:76430728 original size:4 final size:4
Alignment explanation
Indices: 76430685--76430717 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
76430675 AAGTTAAACA
76430685 AAAG AAAG AAA- AAAG AAAG AAA- AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
76430718 AGGGAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 6 0.22
4 21 0.78
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:76434259 original size:25 final size:25
Alignment explanation
Indices: 76434196--76434261 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
76434186 GACACACCAC
* *
76434196 AGCTCTTATGAGCGTCTCGATACTT
1 AGCTCTCATGAGCTTCTCGATACTT
* * * *
76434221 GGCTCTCACGAGCTTCTCGTTATTT
1 AGCTCTCATGAGCTTCTCGATACTT
76434246 AGCTCTCATGAGCTTC
1 AGCTCTCATGAGCTTC
76434262 CTGATTAATG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (25 bp):
AGCTCTCATGAGCTTCTCGATACTT
Found at i:76445176 original size:12 final size:12
Alignment explanation
Indices: 76445167--76445191 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
76445157 TTCCTTTTGT
76445167 TTTTATTTTTCA
1 TTTTATTTTTCA
76445179 TTTTATTTTTCA
1 TTTTATTTTTCA
76445191 T
1 T
76445192 GTTCTAACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATTTTTCA
Found at i:76445406 original size:15 final size:15
Alignment explanation
Indices: 76445386--76445418 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
76445376 TCCACGACTG
76445386 CCATGTTCTGCTAGA
1 CCATGTTCTGCTAGA
*
76445401 CCATGTTCTGCTCGA
1 CCATGTTCTGCTAGA
76445416 CCA
1 CCA
76445419 CAACCATAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.33, G:0.18, T:0.30
Consensus pattern (15 bp):
CCATGTTCTGCTAGA
Found at i:76448004 original size:88 final size:88
Alignment explanation
Indices: 76447855--76448024 Score: 304
Period size: 88 Copynumber: 1.9 Consensus size: 88
76447845 GGAGTTGATT
* *
76447855 GCAATCCTAGAGATAGGATGACATAAATCTGCCGGATTAGAGTCAAATCTAATAAGGGAATCCAT
1 GCAATCCTAGAGATAGGACGACATAAATCTGCCAGATTAGAGTCAAATCTAATAAGGGAATCCAT
*
76447920 GGATCGAGTTAATGCGACAATTG
66 AGATCGAGTTAATGCGACAATTG
*
76447943 GCAATCCTAGAGATAGGACGACATAAATCTGCCAGTTTAGAGTCAAATCTAATAAGGGAATCCAT
1 GCAATCCTAGAGATAGGACGACATAAATCTGCCAGATTAGAGTCAAATCTAATAAGGGAATCCAT
76448008 AGATCGAGTTAATGCGA
66 AGATCGAGTTAATGCGA
76448025 AAATAGGGGT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (88 bp):
GCAATCCTAGAGATAGGACGACATAAATCTGCCAGATTAGAGTCAAATCTAATAAGGGAATCCAT
AGATCGAGTTAATGCGACAATTG
Found at i:76454250 original size:26 final size:25
Alignment explanation
Indices: 76454214--76454373 Score: 97
Period size: 26 Copynumber: 6.6 Consensus size: 25
76454204 AGACTCACCA
76454214 CAGCTCGTAAGAGCTTACTGATATAT
1 CAGCTCGTAAGAGCTTACTGAT-TAT
*
76454240 CAGCTCGTAAGAGCTTACT-ATTCT
1 CAGCTCGTAAGAGCTTACTGATTAT
* * *
76454264 CAGCACATATGAGCTTACTGA-T-T
1 CAGCTCGTAAGAGCTTACTGATTAT
* *
76454287 CAGCTAGTCAA-AGCTTACCG-TT-T
1 CAGCTCGT-AAGAGCTTACTGATTAT
* *
76454310 CAGCTC-AATAGAGCTTACT-ATCCAT
1 CAGCTCGTA-AGAGCTTACTGAT-TAT
* *
76454335 CAGCTCAGGAGGAGCTTACTG-TTCAT
1 CAGCTC-GTAAGAGCTTACTGATT-AT
*
76454361 -AGCTCGAAAGAGC
1 CAGCTCGTAAGAGC
76454374 GAAAAATGAT
Statistics
Matches: 104, Mismatches: 18, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 29 0.28
24 26 0.25
25 15 0.14
26 31 0.30
27 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (25 bp):
CAGCTCGTAAGAGCTTACTGATTAT
Found at i:76455331 original size:30 final size:29
Alignment explanation
Indices: 76455297--76455380 Score: 116
Period size: 30 Copynumber: 2.8 Consensus size: 29
76455287 CTCGGCCGTA
*
76455297 TGTGACACACGATTATGTTACACTG-CTGTG
1 TGTGACACACGGTTATGTTACAC-GACT-TG
*
76455327 TGTGACACATGGTTATGTTACACGACCTTG
1 TGTGACACACGGTTATGTTACACGA-CTTG
76455357 TGTGACACACGGTTATGTTACACG
1 TGTGACACACGGTTATGTTACACG
76455381 GTCGTGTGTC
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
29 1 0.02
30 46 0.94
31 2 0.04
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (29 bp):
TGTGACACACGGTTATGTTACACGACTTG
Found at i:76459021 original size:39 final size:39
Alignment explanation
Indices: 76458963--76459041 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
76458953 TTGTAGGACA
*
76458963 TCGGAAGAGATCTCCGTAGCAGTCGTCGCAAATCAGGTG
1 TCGGAAGAGATCTCAGTAGCAGTCGTCGCAAATCAGGTG
*
76459002 TCGGAAGAGATCTCAGTAGCATTCGTCGCAAATCAGGTG
1 TCGGAAGAGATCTCAGTAGCAGTCGTCGCAAATCAGGTG
76459041 T
1 T
76459042 GTACCGAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.23
Consensus pattern (39 bp):
TCGGAAGAGATCTCAGTAGCAGTCGTCGCAAATCAGGTG
Found at i:76470416 original size:17 final size:17
Alignment explanation
Indices: 76470391--76470428 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
76470381 AATAATGACA
76470391 AAAAGAAATACAAAAAT
1 AAAAGAAATACAAAAAT
* *
76470408 AAAATAAATATAAAAAT
1 AAAAGAAATACAAAAAT
76470425 AAAA
1 AAAA
76470429 ATATATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (17 bp):
AAAAGAAATACAAAAAT
Found at i:76470430 original size:18 final size:18
Alignment explanation
Indices: 76470390--76470445 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
76470380 AAATAATGAC
* *
76470390 AAAAAGAAATACAAAAAT
1 AAAAATAAATATAAAAAT
76470408 -AAAATAAATATAAAAAT
1 AAAAATAAATATAAAAAT
*
76470425 AAAAATATAT-TGAAAAAT
1 AAAAATAAATAT-AAAAAT
76470443 AAA
1 AAA
76470446 TGGACTCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 16 0.48
18 17 0.52
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (18 bp):
AAAAATAAATATAAAAAT
Found at i:76473752 original size:30 final size:29
Alignment explanation
Indices: 76473716--76473834 Score: 132
Period size: 30 Copynumber: 3.9 Consensus size: 29
76473706 AAGAAACATT
* * *
76473716 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
76473746 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
76473776 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
*
76473806 ATCAGAATTTCGTGACAGAATCAGAATCA
1 ATCAGAA-TT-GTAACAGAATCAGAATCA
76473835 AAATGTGAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
29 1 0.01
30 53 0.69
31 23 0.30
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:76473833 original size:6 final size:6
Alignment explanation
Indices: 76473737--76473813 Score: 97
Period size: 6 Copynumber: 12.8 Consensus size: 6
76473727 AACCAAAATG
*
76473737 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
76473785 AGTAA-C AGAATC AGAATC AGAATC AGAAT
1 AG-AATC AGAATC AGAATC AGAATC AGAAT
76473814 TTCGTGACAG
Statistics
Matches: 63, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
5 5 0.08
6 54 0.86
7 3 0.05
8 1 0.02
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:76473993 original size:27 final size:26
Alignment explanation
Indices: 76473956--76474021 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
76473946 AGCATGGCTG
*
76473956 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
76473982 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
76474009 CCAGAATCAGATA
1 CCAGAA-CAGATA
76474022 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:76474026 original size:27 final size:27
Alignment explanation
Indices: 76473956--76474029 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
76473946 AGCATGGCTG
* *
76473956 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
76473982 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
76474009 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
76474030 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:76474036 original size:27 final size:27
Alignment explanation
Indices: 76473980--76474037 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
76473970 GTGACAGAGT
* * *
76473980 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
76474007 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
76474034 CACC
1 CACC
76474038 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:76474242 original size:22 final size:22
Alignment explanation
Indices: 76474194--76474252 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
76474184 GTAAATATGT
*
76474194 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
76474216 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
76474238 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
76474253 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:76474413 original size:27 final size:26
Alignment explanation
Indices: 76474343--76474421 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
76474333 ATCGGCCAAT
* *
76474343 AGATATTGTGACAGAGTCACCA-AATC
1 AGATATTGTGGCAGAGCCACCAGAA-C
76474369 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
76474395 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAC
76474422 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
26 26 0.54
27 22 0.46
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:76474650 original size:27 final size:27
Alignment explanation
Indices: 76474620--76474815 Score: 232
Period size: 27 Copynumber: 7.3 Consensus size: 27
76474610 GGGGTAAAAT
* * *
76474620 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
76474647 GGTAATTCTACCCTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
*
76474674 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
76474701 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
76474728 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
76474755 AGTAATTCCACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
76474782 AGAAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
76474809 AGTAATT
1 GGTAATT
76474816 TCACAATCAA
Statistics
Matches: 145, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 3 0.02
27 139 0.96
28 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:76474686 original size:54 final size:54
Alignment explanation
Indices: 76474620--76474815 Score: 259
Period size: 54 Copynumber: 3.6 Consensus size: 54
76474610 GGGGTAAAAT
* * * * *
76474620 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGAGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
76474674 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* * * *
76474728 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTCCACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
76474782 AGAAATTCTACCCTACAAGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
76474816 TCACAATCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 122 0.98
55 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:76475258 original size:27 final size:27
Alignment explanation
Indices: 76474820--76475254 Score: 529
Period size: 27 Copynumber: 16.1 Consensus size: 27
76474810 GTAATTTCAC
*
76474820 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
76474847 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
***
76474874 AA-CTGAGGGTAAATTAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
76474901 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
76474928 AATCGAAGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
76474955 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
76474982 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
76475009 AATCGATGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
76475036 AATCGAGGGTAAAATGGTAATTCAATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
76475063 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
76475090 AA-CTGAGGGTAAAACGATCATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
76475117 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
76475144 AA-CTGAGGGTAAAACGGTAATTTTACA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
76475171 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
76475198 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
76475225 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
76475252 AAT
1 AAT
76475255 TGAGAGTACT
Statistics
Matches: 345, Mismatches: 53, Indels: 19
0.83 0.13 0.05
Matches are distributed among these distances:
26 4 0.01
27 337 0.98
28 4 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:76477020 original size:20 final size:20
Alignment explanation
Indices: 76476995--76477033 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
76476985 TTAAAGAGAT
* *
76476995 AAATAAAGATAAAAGTAAAC
1 AAATAAAAATAAAAATAAAC
76477015 AAATAAAAATAAAAATAAA
1 AAATAAAAATAAAAATAAA
76477034 GTAAAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAC
Found at i:76483447 original size:13 final size:13
Alignment explanation
Indices: 76483429--76483454 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76483419 TCAACAGGGA
76483429 CACGCCCGTGTGG
1 CACGCCCGTGTGG
76483442 CACGCCCGTGTGG
1 CACGCCCGTGTGG
76483455 GGTGGCTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.38, G:0.38, T:0.15
Consensus pattern (13 bp):
CACGCCCGTGTGG
Found at i:76485651 original size:20 final size:20
Alignment explanation
Indices: 76485626--76485665 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
76485616 CCCATGCCGA
76485626 AGTAGGTCCAACATTCCCGT
1 AGTAGGTCCAACATTCCCGT
76485646 AGTAGGTCCAACATTCCCGT
1 AGTAGGTCCAACATTCCCGT
76485666 GTCTAGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (20 bp):
AGTAGGTCCAACATTCCCGT
Found at i:76491789 original size:28 final size:28
Alignment explanation
Indices: 76491757--76491815 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
76491747 TAGATTTGAC
76491757 TCTAATTCAATAGATTTATGTTGTCCTA
1 TCTAATTCAATAGATTTATGTTGTCCTA
76491785 TCTAATTCAATAGATTTATGTTGTCCTA
1 TCTAATTCAATAGATTTATGTTGTCCTA
76491813 TCT
1 TCT
76491816 CTAGGATTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.47
Consensus pattern (28 bp):
TCTAATTCAATAGATTTATGTTGTCCTA
Found at i:76493775 original size:56 final size:56
Alignment explanation
Indices: 76493689--76493852 Score: 312
Period size: 56 Copynumber: 2.9 Consensus size: 56
76493679 GTATCCATTG
*
76493689 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATGAATAATTAAATTTGTAA
1 GATGATAAATCACCACTTTTAATTTGAATAGTGCTTATGAATAATTAAATTTGTAA
76493745 GATGATAAATCACCACTTTTAATTTGAATAGTGCTTATGAATAATTAAATTTGTAA
1 GATGATAAATCACCACTTTTAATTTGAATAGTGCTTATGAATAATTAAATTTGTAA
76493801 GATGATAAATCACCACTTTTAATTTGAATAGTGCTTATGAATAATT-AATTTG
1 GATGATAAATCACCACTTTTAATTTGAATAGTGCTTATGAATAATTAAATTTG
76493853 CAATCGATAA
Statistics
Matches: 107, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
55 6 0.06
56 101 0.94
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (56 bp):
GATGATAAATCACCACTTTTAATTTGAATAGTGCTTATGAATAATTAAATTTGTAA
Found at i:76493797 original size:27 final size:27
Alignment explanation
Indices: 76493709--76493797 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
76493699 CATCACTTTT
76493709 AATTTGAATAGTGCTTATGAATAATTA
1 AATTTGAATAGTGCTTATGAATAATTA
* * * * ** * *
76493736 AATTTGTA-AGATGATAAATCACCACTTTT
1 AATTTGAATAG-TGCT-TATGAATA-ATTA
76493765 AATTTGAATAGTGCTTATGAATAATTA
1 AATTTGAATAGTGCTTATGAATAATTA
76493792 AATTTG
1 AATTTG
76493798 TAAGATGATA
Statistics
Matches: 42, Mismatches: 16, Indels: 8
0.64 0.24 0.12
Matches are distributed among these distances:
26 2 0.05
27 18 0.43
28 8 0.19
29 12 0.29
30 2 0.05
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.40
Consensus pattern (27 bp):
AATTTGAATAGTGCTTATGAATAATTA
Found at i:76497147 original size:13 final size:14
Alignment explanation
Indices: 76497129--76497159 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
76497119 ATTCTAACAC
76497129 TTGTCAA-TGTTTT
1 TTGTCAAGTGTTTT
76497142 TTGTCAAGTGTTTT
1 TTGTCAAGTGTTTT
76497156 TTGT
1 TTGT
76497160 TTTCTTTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.13, C:0.06, G:0.19, T:0.61
Consensus pattern (14 bp):
TTGTCAAGTGTTTT
Found at i:76503537 original size:125 final size:119
Alignment explanation
Indices: 76503329--76503604 Score: 322
Period size: 125 Copynumber: 2.3 Consensus size: 119
76503319 TTTGTAGTGT
* * * * * *
76503329 TTGAAAAACTACCATAGAATCTTTT-AGTACAATCATTCAATAAATACAGGAAAAATGGGTGATA
1 TTGAAAAACTACGATAGAATCTTTTGA-TACAATCATTCAACAAATAAAGGAAAAAGGGGTAAAA
* **
76503393 TGTAAGTAAATGACTAAAGTAAA-TAGTGTAAATTTTGTTTTGAAGTGTTTCAAAAAA
65 TGTAAGTAAATGACTAAAGTAAACTA-TGTAAATTTTATTTTGAA-T-TTAAAAAAAA
* **
76503450 TTGGAAAACTGTGATAGAATCTTTTGATACAATCATTCAACAAATAAAGGAGAAAAAAAGGGGTA
1 TTGAAAAACTACGATAGAATCTTTTGATACAATCATTCAACAAATAAA-G-G--AAAAAGGGGTA
*
76503515 AAATGTAAGTAAATGGCTAAAGTAAACTATGTAAATTTTATTTTGAATTTAAAAAAAA
62 AAATGTAAGTAAATGACTAAAGTAAACTATGTAAATTTTATTTTGAATTTAAAAAAAA
* * *
76503573 TTTAAAAACTACGATCGAATCTTTTGGTACAA
1 TTGAAAAACTACGATAGAATCTTTTGATACAA
76503605 AACTACGATA
Statistics
Matches: 130, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
121 40 0.31
122 2 0.02
123 35 0.27
124 1 0.01
125 50 0.38
126 2 0.02
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (119 bp):
TTGAAAAACTACGATAGAATCTTTTGATACAATCATTCAACAAATAAAGGAAAAAGGGGTAAAAT
GTAAGTAAATGACTAAAGTAAACTATGTAAATTTTATTTTGAATTTAAAAAAAA
Found at i:76503606 original size:26 final size:26
Alignment explanation
Indices: 76503577--76503630 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
76503567 AAAAAATTTA
*
76503577 AAAACTACGATCGAATCTTTTGGTAC
1 AAAACTACGATAGAATCTTTTGGTAC
76503603 AAAACTACGATAGAATCTTTTGGTAC
1 AAAACTACGATAGAATCTTTTGGTAC
76503629 AA
1 AA
76503631 TCATTCAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (26 bp):
AAAACTACGATAGAATCTTTTGGTAC
Found at i:76509159 original size:30 final size:30
Alignment explanation
Indices: 76509115--76509172 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
76509105 CACGGGCTGG
* * *
76509115 CACATGGGCGTGTGTCCAGCCCGTGTGGCT
1 CACACGGGCATGTGTCCAGCCCATGTGGCT
76509145 CACACGGGCATGTGTCCAGCCCATGTGG
1 CACACGGGCATGTGTCCAGCCCATGTGG
76509173 AAATGTCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.31, G:0.34, T:0.21
Consensus pattern (30 bp):
CACACGGGCATGTGTCCAGCCCATGTGGCT
Found at i:76511387 original size:41 final size:41
Alignment explanation
Indices: 76511307--76511445 Score: 172
Period size: 41 Copynumber: 3.4 Consensus size: 41
76511297 CTGAGAGTCG
* * * *
76511307 TACATAGTCGAAGCCATCTCAA-ATCGCACACCAAGTGCCA
1 TACATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCCA
76511347 TACATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCCA
1 TACATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCCA
* ** * * *
76511388 TATATAGCCGAAGCTATCTTGATCTTGTACACTAAATGCCA
1 TACATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCCA
*
76511429 TATATAGCCGAAGCTAT
1 TACATAGCCGAAGCTAT
76511446 GTTGAATAGC
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 20 0.23
41 68 0.77
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (41 bp):
TACATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCCA
Found at i:76511474 original size:40 final size:41
Alignment explanation
Indices: 76511332--76511476 Score: 166
Period size: 41 Copynumber: 3.6 Consensus size: 41
76511322 ATCTCAAATC
* * ** * *
76511332 GCACACCAAGTGCCATACATAGCCGAAGCTATCTCAATCTC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATCTTGATATA
* *
76511373 GCACACTAAGTGCCATATATAGCCGAAGCTATCTTGATCTT
1 GCACACTAAGTGCCATATATAGCCGAAGCTATCTTGATATA
* * *
76511414 GTACACTAAATGCCATATATAGCCGAAGCTATGTTGA-ATA
1 GCACACTAAGTGCCATATATAGCCGAAGCTATCTTGATATA
* *
76511454 GCACACTAGGTGCCACATATAGC
1 GCACACTAAGTGCCATATATAGC
76511477 TGATTTATCA
Statistics
Matches: 90, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 20 0.22
41 70 0.78
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (41 bp):
GCACACTAAGTGCCATATATAGCCGAAGCTATCTTGATATA
Found at i:76512899 original size:49 final size:49
Alignment explanation
Indices: 76512846--76512941 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
76512836 CGATCATGCG
*
76512846 TCATACATGCCATACATTAAACT-GAGTACTATTGTTCATGTATCATACA
1 TCATACATGCCATACATTAAACTAG-GTACTATTGTTCATGCATCATACA
76512895 TCATACATGCCATACATTAAACTAGGTACTATTGTTCATGCATCATA
1 TCATACATGCCATACATTAAACTAGGTACTATTGTTCATGCATCATA
76512942 ATAAATTCCT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 44 0.98
50 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (49 bp):
TCATACATGCCATACATTAAACTAGGTACTATTGTTCATGCATCATACA
Found at i:76514474 original size:21 final size:21
Alignment explanation
Indices: 76514450--76514489 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
76514440 CAAAAATCTA
* *
76514450 TCAAATTTCATTGAAATTTTC
1 TCAAAATTCATTCAAATTTTC
*
76514471 TCAAAATTCTTTCAAATTT
1 TCAAAATTCATTCAAATTT
76514490 CTATTAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.15, G:0.03, T:0.47
Consensus pattern (21 bp):
TCAAAATTCATTCAAATTTTC
Found at i:76514475 original size:32 final size:33
Alignment explanation
Indices: 76514439--76514500 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
76514429 AATATTCCCT
*
76514439 TCAAAAATCTATCAAATTTC-ATTGAAATTTTC
1 TCAAAAATCTATCAAATTTCTATTAAAATTTTC
* *
76514471 TCAAAATTCTTTCAAATTTCTATTAAAATT
1 TCAAAAATCTATCAAATTTCTATTAAAATT
76514501 CTTTGTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 18 0.69
33 8 0.31
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.44
Consensus pattern (33 bp):
TCAAAAATCTATCAAATTTCTATTAAAATTTTC
Found at i:76514700 original size:48 final size:48
Alignment explanation
Indices: 76514646--76514747 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 48
76514636 TTAAATTTTT
76514646 AATACTATTCAATATTATT-TTAATTTATGCAAATT-TAATTA-AATTCGC
1 AATACTATTCAATATT-TTATTAATTTATGC-AATTATAATTACAATT-GC
** * *
76514694 AATACTATTTGATATTTTATTCATTTATGCAATTATAATTACAATTTC
1 AATACTATTCAATATTTTATTAATTTATGCAATTATAATTACAATTGC
76514742 AATACT
1 AATACT
76514748 GCTTATTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
47 6 0.13
48 37 0.79
49 4 0.09
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (48 bp):
AATACTATTCAATATTTTATTAATTTATGCAATTATAATTACAATTGC
Found at i:76515760 original size:7 final size:7
Alignment explanation
Indices: 76515748--76515808 Score: 86
Period size: 7 Copynumber: 8.7 Consensus size: 7
76515738 TAGTCGTTTC
76515748 GTATTTA
1 GTATTTA
76515755 GTATTTA
1 GTATTTA
76515762 GTATTTA
1 GTATTTA
76515769 GTATTTA
1 GTATTTA
*
76515776 CTATTTA
1 GTATTTA
*
76515783 CTATTTA
1 GTATTTA
*
76515790 CTATTTA
1 GTATTTA
*
76515797 CTATTTA
1 GTATTTA
76515804 GTATT
1 GTATT
76515809 ATGTATTATA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.28, C:0.07, G:0.08, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:76515815 original size:21 final size:21
Alignment explanation
Indices: 76515748--76515808 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
76515738 TAGTCGTTTC
*
76515748 GTATTTAGTATTTAGTATTTA
1 GTATTTACTATTTAGTATTTA
*
76515769 GTATTTACTATTTACTATTTA
1 GTATTTACTATTTAGTATTTA
*
76515790 CTATTTACTATTTAGTATT
1 GTATTTACTATTTAGTATT
76515809 ATGTATTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.28, C:0.07, G:0.08, T:0.57
Consensus pattern (21 bp):
GTATTTACTATTTAGTATTTA
Found at i:76516426 original size:18 final size:18
Alignment explanation
Indices: 76516403--76516440 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
76516393 TGCCAGGTGC
*
76516403 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
76516421 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
76516439 GT
1 GT
76516441 TACCTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:76518717 original size:126 final size:126
Alignment explanation
Indices: 76518492--76518999 Score: 696
Period size: 126 Copynumber: 4.0 Consensus size: 126
76518482 TTATAGCCTC
76518492 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTCCAGAAATTTTGCTG
* * * *
76518557 ATAGTGCATCCTACTTAAAGCATTTTCGGCACTATTTGTTCAGAAACGTCTACTTAGAATT
66 ACAGTGCATCCTACTTAAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * * * * *
76518618 ATTTTTCTACGAACTACTGTAGTAAAATAGCATCCACGTGAGAGCTTTTTCCAGAAATTTTGCTA
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTCCAGAAATTTTGCTG
* * * *
76518683 ACAGTGCATCCTACTTGAAGCGTTTTCGGCACTATTTGTTTAGAAACGTCTACTCAGAATC
66 ACAGTGCATCCTACTTAAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
76518744 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTTCC-CGTCGGAGCTTTTTCCAGAAATTTTGCT
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCG-TCCACATGGGAGCTTTTTCCAGAAATTTTGCT
* * * * * *
76518808 GACAGTGCATCTTGCTTAAAGTGTTTTCGACGCTATTTATTTAGAAACGTCTACTCAGAATT
65 GACAGTGCATCCTACTTAAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
*
76518870 ATCTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTCCAGAAATTTTGCTG
** * * * * * *
76518935 ACAGTGCATCCTGTTTGAAGTGTTTTCCGACACTATTT-TTCCAGAAATGTTTGCTCAAAATT
66 ACAGTGCATCCTACTTAAAGCGTTTT-CGACACTATTTGTT-CAGAAACGTCTACTCAGAATT
76518997 ATT
1 ATT
76519000 CTTGCAGAAA
Statistics
Matches: 339, Mismatches: 39, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
125 3 0.01
126 305 0.90
127 31 0.09
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTCCAGAAATTTTGCTG
ACAGTGCATCCTACTTAAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:76523050 original size:19 final size:20
Alignment explanation
Indices: 76523026--76523070 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
76523016 TTGTGACATT
*
76523026 CAATGCATATG-ATGAAATG
1 CAATGCAGATGCATGAAATG
76523045 CAATGCAGATGCATGAAATG
1 CAATGCAGATGCATGAAATG
76523065 -AATGCA
1 CAATGCA
76523071 AAAAGAGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.22
Consensus pattern (20 bp):
CAATGCAGATGCATGAAATG
Found at i:76525063 original size:5 final size:5
Alignment explanation
Indices: 76525053--76525077 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
76525043 ACAAAGAATG
76525053 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
76525078 AGATAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:76525092 original size:3 final size:3
Alignment explanation
Indices: 76525056--76525153 Score: 64
Period size: 3 Copynumber: 33.0 Consensus size: 3
76525046 AAGAATGTAA
76525056 AAT AA- AAT AA- AAT AA- AAT AA- AA- AGAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT -AAT AAT AAT AAT
* * * *
76525098 ACATT ATT AAT AAT AAT AGT AA- AGAT AAT AAT AAC AAT AGT AAT AAT
1 A-A-T AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
*
76525145 AAT TAT AAT
1 AAT AAT AAT
76525154 GATAGTAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
2 10 0.13
3 57 0.76
4 6 0.08
5 2 0.03
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:76525131 original size:21 final size:20
Alignment explanation
Indices: 76525058--76525165 Score: 87
Period size: 21 Copynumber: 5.3 Consensus size: 20
76525048 GAATGTAAAA
76525058 TAAAATAA-AATAA-AATA-
1 TAAAATAATAATAATAATAG
* *
76525075 AAAAGATAATAAATAATAATAA
1 TAAA-ATAAT-AATAATAATAG
* * *
76525097 TACATTATTAATAATAATAG
1 TAAAATAATAATAATAATAG
*
76525117 TAAAGATAATAATAACAATAG
1 TAAA-ATAATAATAATAATAG
* *
76525138 TAATAATAATTATAATGATAG
1 TAA-AATAATAATAATAATAG
76525159 TAAAATA
1 TAAAATA
76525166 TAAAAGTACA
Statistics
Matches: 71, Mismatches: 13, Indels: 11
0.75 0.14 0.12
Matches are distributed among these distances:
17 3 0.04
18 4 0.06
20 22 0.31
21 39 0.55
22 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.30
Consensus pattern (20 bp):
TAAAATAATAATAATAATAG
Found at i:76525423 original size:3 final size:3
Alignment explanation
Indices: 76525415--76525469 Score: 55
Period size: 3 Copynumber: 19.3 Consensus size: 3
76525405 AAAAGGAAAT
* *
76525415 ATA ATA ATA ATA ATA ATA GTA AT- ATA A-A ATTA ATG AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
76525458 AT- ATA ATA ATA A
1 ATA ATA ATA ATA A
76525470 GCATAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
2 8 0.18
3 34 0.77
4 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:76527763 original size:14 final size:14
Alignment explanation
Indices: 76527739--76527772 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
76527729 CCTATGATTT
76527739 AATTCAACACATAAA
1 AATT-AACACATAAA
76527754 AATTAACACATAAA
1 AATTAACACATAAA
76527768 AATTA
1 AATTA
76527773 TAAACCAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.24
Consensus pattern (14 bp):
AATTAACACATAAA
Found at i:76538343 original size:16 final size:15
Alignment explanation
Indices: 76538323--76538351 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
76538313 CCATGTATCT
76538323 TTTTTTTAATATTTA
1 TTTTTTTAATATTTA
76538338 TTTTTTTAATATTT
1 TTTTTTTAATATTT
76538352 TTGTATATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTTAATATTTA
Found at i:76541181 original size:32 final size:33
Alignment explanation
Indices: 76541145--76541212 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 33
76541135 TGAACATTAC
* *
76541145 AATTTTG-GGTTGTTCTTATATTTATATATGCA
1 AATTTTGAGGTTGATCTTATATTTACATATGCA
*
76541177 AA-TTTGAGGTTGATCTTATTTTTACATATGCA
1 AATTTTGAGGTTGATCTTATATTTACATATGCA
76541209 AATT
1 AATT
76541213 CGTGTCGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 4 0.13
32 26 0.84
33 1 0.03
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (33 bp):
AATTTTGAGGTTGATCTTATATTTACATATGCA
Found at i:76546322 original size:25 final size:25
Alignment explanation
Indices: 76546288--76546336 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
76546278 CCGACACAAC
* *
76546288 CTTGGTTTTCGACACGATAGTTTTT
1 CTTGGCTTTCAACACGATAGTTTTT
76546313 CTTGGCTTTCAACACGATAGTTTT
1 CTTGGCTTTCAACACGATAGTTTT
76546337 CTTTTCCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (25 bp):
CTTGGCTTTCAACACGATAGTTTTT
Found at i:76551361 original size:12 final size:12
Alignment explanation
Indices: 76551344--76551368 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
76551334 TCCCCCACGC
76551344 TTCTTCTTCTTG
1 TTCTTCTTCTTG
76551356 TTCTTCTTCTTG
1 TTCTTCTTCTTG
76551368 T
1 T
76551369 CTTTTGCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.08, T:0.68
Consensus pattern (12 bp):
TTCTTCTTCTTG
Found at i:76552855 original size:22 final size:22
Alignment explanation
Indices: 76552827--76552883 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
76552817 AATTTTAAAG
76552827 AAATTAATAAATTTTACAA-ATA
1 AAATTAATAAATTTTA-AATATA
* * *
76552849 AAATTAACAAGTTTTAAATTTA
1 AAATTAATAAATTTTAAATATA
*
76552871 AAAATAATAAATT
1 AAATTAATAAATT
76552884 AATAAAATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (22 bp):
AAATTAATAAATTTTAAATATA
Found at i:76558338 original size:43 final size:43
Alignment explanation
Indices: 76558291--76558636 Score: 347
Period size: 43 Copynumber: 8.3 Consensus size: 43
76558281 AAAAAAAACT
* * * *
76558291 GCTATAGAACATAACCTTTAGCGGCTCTTTTTTCACAAACGCA
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAACGCC
* **
76558334 GCTATAGAGCATGACCTTTAGCGGCGCTTTTTCCACAAACGTA
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAACGCC
* * *
76558377 ACTATAGAACATGACCTTTAGCGGCGC-TTTGCCACAAATGCC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAACGCC
* * *
76558419 GCTAAAGAATATGACCTTTAGCGACGCTTTTTCCACAAACGCC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAACGCC
* *
76558462 GCTAAAGAACATGACCTTTA---GCGC-----CCACAAATGCC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAACGCC
* **
76558497 GCTAAAGAACATGACCTTTAGCGATGCTTTTTCCACAAACGCC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAACGCC
* * * *
76558540 GCTATAGAATA-GACCTTTAGTGGCACTTTTGCCACAAACGCC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAACGCC
* * ** *
76558582 ACTATAGAATA-GACCTTTAGCGGTAC-TTTTCTCACAAACACC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTTC-CACAAACGCC
*
76558624 GCTAAAGAACATG
1 GCTATAGAACATG
76558637 GCTTTTAGAA
Statistics
Matches: 254, Mismatches: 38, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
35 30 0.12
38 2 0.01
40 3 0.01
41 4 0.02
42 100 0.39
43 115 0.45
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
GCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAACGCC
Found at i:76558447 original size:85 final size:86
Alignment explanation
Indices: 76558291--76558636 Score: 356
Period size: 85 Copynumber: 4.2 Consensus size: 86
76558281 AAAAAAAACT
* * ** * * *
76558291 GCTATAGAACATAACCTTTAGCGGCTCTTTTTTCACAAACGCAGCTATAGAGCATGACCTTTAGC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTGCCACAAACGCCGCTAAAGAACATGACCTTTAGC
* **
76558356 GGCGCTTTTTCCACAAACGTA
66 GACGCTTTTTCCACAAACGCC
* * *
76558377 ACTATAGAACATGACCTTTAGCGGCGC-TTTGCCACAAATGCCGCTAAAGAATATGACCTTTAGC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTGCCACAAACGCCGCTAAAGAACATGACCTTTAGC
76558441 GACGCTTTTTCCACAAACGCC
66 GACGCTTTTTCCACAAACGCC
* *
76558462 GCTAAAGAACATGACCTTTA---GCGC-----CCACAAATGCCGCTAAAGAACATGACCTTTAGC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTGCCACAAACGCCGCTAAAGAACATGACCTTTAGC
*
76558519 GATGCTTTTTCCACAAACGCC
66 GACGCTTTTTCCACAAACGCC
* * * * * *
76558540 GCTATAGAATA-GACCTTTAGTGGCACTTTTGCCACAAACGCCACTATAGAATA-GACCTTTAGC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTGCCACAAACGCCGCTAAAGAACATGACCTTTAGC
*** *
76558603 GGTAC-TTTTCTCACAAACACC
66 GACGCTTTTTC-CACAAACGCC
*
76558624 GCTAAAGAACATG
1 GCTATAGAACATG
76558637 GCTTTTAGAA
Statistics
Matches: 221, Mismatches: 29, Indels: 21
0.82 0.11 0.08
Matches are distributed among these distances:
77 8 0.04
78 61 0.28
80 3 0.01
82 4 0.02
83 5 0.02
84 31 0.14
85 85 0.38
86 24 0.11
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (86 bp):
GCTATAGAACATGACCTTTAGCGGCGCTTTTGCCACAAACGCCGCTAAAGAACATGACCTTTAGC
GACGCTTTTTCCACAAACGCC
Found at i:76558498 original size:35 final size:35
Alignment explanation
Indices: 76558451--76558519 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
76558441 GACGCTTTTT
76558451 CCACAAACGCCGCTAAAGAACATGACCTTTAGCGC
1 CCACAAACGCCGCTAAAGAACATGACCTTTAGCGC
*
76558486 CCACAAATGCCGCTAAAGAACATGACCTTTAGCG
1 CCACAAACGCCGCTAAAGAACATGACCTTTAGCG
76558520 ATGCTTTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.35, C:0.32, G:0.17, T:0.16
Consensus pattern (35 bp):
CCACAAACGCCGCTAAAGAACATGACCTTTAGCGC
Found at i:76558537 original size:78 final size:77
Alignment explanation
Indices: 76558408--76558559 Score: 259
Period size: 78 Copynumber: 2.0 Consensus size: 77
76558398 CGGCGCTTTG
*
76558408 CCACAAATGCCGCTAAAGAATATGACCTTTAGCGACGCTTTTTCCACAAACGCCGCTAAAGAACA
1 CCACAAATGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTTCCACAAACGCCGCTAAAGAACA
76558473 TGACCTTTAGCGC
66 -GACCTTTAGCGC
* * *
76558486 CCACAAATGCCGCTAAAGAACATGACCTTTAGCGATGCTTTTTCCACAAACGCCGCTATAGAATA
1 CCACAAATGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTTCCACAAACGCCGCTAAAGAACA
76558551 GACCTTTAG
66 GACCTTTAG
76558560 TGGCACTTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
77 9 0.13
78 61 0.87
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (77 bp):
CCACAAATGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTTCCACAAACGCCGCTAAAGAACA
GACCTTTAGCGC
Found at i:76558574 original size:163 final size:162
Alignment explanation
Indices: 76558324--76558636 Score: 414
Period size: 163 Copynumber: 1.9 Consensus size: 162
76558314 GCTCTTTTTT
* * * *
76558324 CACAAACGCAGCTATAGAGCATGACCTTTAGCGGCGCTTTTTCCACAAACGTAACTATAGAACAT
1 CACAAACGCAGCTAAAGAACATGACCTTTAGCGACGCTTTTTCCACAAACGCAACTATAGAACAT
* * * *
76558389 GACCTTTAGCGGCGCTTTGCCACAAATGCCGCTAAAGAATATGACCTTTAGCGACGCTTTT-TCC
66 GACCTTTAGCGGCACTTTGCCACAAACGCCACTAAAGAATA-GACCTTTAGCGACACTTTTCT-C
*
76558453 ACAAACGCCGCTAAAGAACATGACCTTTAGCGCC
129 ACAAACACCGCTAAAGAACATGACCTTTAGCGCC
* * * ** *
76558487 CACAAATGCCGCTAAAGAACATGACCTTTAGCGATGCTTTTTCCACAAACGCCGCTATAGAATA-
1 CACAAACGCAGCTAAAGAACATGACCTTTAGCGACGCTTTTTCCACAAACGCAACTATAGAACAT
* * **
76558551 GACCTTTAGTGGCACTTTTGCCACAAACGCCACTATAGAATAGACCTTTAGCGGTACTTTTCTCA
66 GACCTTTAGCGGCAC-TTTGCCACAAACGCCACTAAAGAATAGACCTTTAGCGACACTTTTCTCA
76558616 CAAACACCGCTAAAGAACATG
130 CAAACACCGCTAAAGAACATG
76558637 GCTTTTAGAA
Statistics
Matches: 129, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
162 51 0.40
163 78 0.60
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (162 bp):
CACAAACGCAGCTAAAGAACATGACCTTTAGCGACGCTTTTTCCACAAACGCAACTATAGAACAT
GACCTTTAGCGGCACTTTGCCACAAACGCCACTAAAGAATAGACCTTTAGCGACACTTTTCTCAC
AAACACCGCTAAAGAACATGACCTTTAGCGCC
Found at i:76558579 original size:120 final size:119
Alignment explanation
Indices: 76558382--76558603 Score: 311
Period size: 120 Copynumber: 1.9 Consensus size: 119
76558372 ACGTAACTAT
* * *
76558382 AGAACATGACCTTTAGCGGCGCTTTGCCACAAATGCCGCTAAAGAATATGACCTTTAGCGACGCT
1 AGAACATGACCTTTAGCGACGCTTTGCCACAAACGCCGCTAAAGAATATGACCTTTAGCGACACT
* *
76558447 TTTTCCACAAACGCCGCTAAAGAACATGACCTTTAGCGCCCACAAATGCCGCTAA
66 TTTGCCACAAACGCCACTAAAGAACA-GACCTTTAGCGCCCACAAATGCCGCTAA
* * * * *
76558502 AGAACATGACCTTTAGCGATGCTTTTTCCACAAACGCCGCTATAGAATA-GACCTTTAGTGGCAC
1 AGAACATGACCTTTAGCGACGC-TTTGCCACAAACGCCGCTAAAGAATATGACCTTTAGCGACAC
* *
76558566 TTTTGCCACAAACGCCACTATAGAATAGACCTTTAGCG
65 TTTTGCCACAAACGCCACTAAAGAACAGACCTTTAGCG
76558604 GTACTTTTCT
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
119 11 0.12
120 55 0.62
121 23 0.26
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (119 bp):
AGAACATGACCTTTAGCGACGCTTTGCCACAAACGCCGCTAAAGAATATGACCTTTAGCGACACT
TTTGCCACAAACGCCACTAAAGAACAGACCTTTAGCGCCCACAAATGCCGCTAA
Found at i:76563356 original size:24 final size:24
Alignment explanation
Indices: 76563329--76563376 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
76563319 TCAATTGACG
76563329 ATAGTCGATGCACATTCTCATGGT
1 ATAGTCGATGCACATTCTCATGGT
76563353 ATAGTCGATGCACATTCTCATGGT
1 ATAGTCGATGCACATTCTCATGGT
76563377 TCCGTCTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (24 bp):
ATAGTCGATGCACATTCTCATGGT
Found at i:76570814 original size:15 final size:15
Alignment explanation
Indices: 76570794--76570826 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
76570784 TGGCCATGTC
*
76570794 AAAAAAAGAAAAAAG
1 AAAAAAAAAAAAAAG
76570809 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
76570824 AAA
1 AAA
76570827 TCAAAGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:76572831 original size:152 final size:152
Alignment explanation
Indices: 76572639--76572940 Score: 586
Period size: 152 Copynumber: 2.0 Consensus size: 152
76572629 TGATAACCGG
76572639 ATAGTGTGATGACGTCTCCAACAACTTCCAACTCGAGCAATTCACTGAAACTCTAAAGACATAGG
1 ATAGTGTGATGACGTCTCCAACAACTTCCAACTCGAGCAATTCACTGAAACTCTAAAGACATAGG
76572704 AAAAACACACAGAGTAAGCTTCGAGAGCTTAGTAAGTCATAAGCAAATAAATAACTCAATATTAA
66 AAAAACACACAGAGTAAGCTTCGAGAGCTTAGTAAGTCATAAGCAAATAAATAACTCAATATTAA
76572769 TATCAACTTAGTTTAATCAAGA
131 TATCAACTTAGTTTAATCAAGA
* *
76572791 ATAGTTTGATGACGTCTCCAACAACTTCCAACTCGAGCAATTCACTGAATCTCTAAAGACATAGG
1 ATAGTGTGATGACGTCTCCAACAACTTCCAACTCGAGCAATTCACTGAAACTCTAAAGACATAGG
76572856 AAAAACACACAGAGTAAGCTTCGAGAGCTTAGTAAGTCATAAGCAAATAAATAACTCAATATTAA
66 AAAAACACACAGAGTAAGCTTCGAGAGCTTAGTAAGTCATAAGCAAATAAATAACTCAATATTAA
76572921 TATCAACTTAGTTTAATCAA
131 TATCAACTTAGTTTAATCAA
76572941 ACTAATTTAT
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 148 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (152 bp):
ATAGTGTGATGACGTCTCCAACAACTTCCAACTCGAGCAATTCACTGAAACTCTAAAGACATAGG
AAAAACACACAGAGTAAGCTTCGAGAGCTTAGTAAGTCATAAGCAAATAAATAACTCAATATTAA
TATCAACTTAGTTTAATCAAGA
Found at i:76573702 original size:43 final size:41
Alignment explanation
Indices: 76573604--76573741 Score: 206
Period size: 41 Copynumber: 3.3 Consensus size: 41
76573594 ACATAAAATT
* *
76573604 TGCTAGGC-ATAAAGCCTAGTATAATACACCGGCACAGAGCC
1 TGCTAGGCAAT-AAGCCTAATATAATACACCGGCACAAAGCC
*
76573645 TGCTAGGCAATAAGCCTAATATAATACACCGGCATATAAAGCC
1 TGCTAGGCAATAAGCCTAATATAATACACCGGC--ACAAAGCC
*
76573688 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTAATATAATACACCGGCACAAAGCC
76573729 TGCTAGGCAATAA
1 TGCTAGGCAATAA
76573742 AGCTCGAATA
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
41 49 0.55
42 2 0.02
43 38 0.43
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.19
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTAATATAATACACCGGCACAAAGCC
Found at i:76576714 original size:14 final size:14
Alignment explanation
Indices: 76576697--76576738 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
76576687 GAAAAGAGTA
* *
76576697 AGGAGAAAAGGTTG
1 AGGAAAAAAAGTTG
*
76576711 AGGAAAAAAAGTAG
1 AGGAAAAAAAGTTG
76576725 AGGAAAAAAAGTTG
1 AGGAAAAAAAGTTG
76576739 GGCTACAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.33, T:0.12
Consensus pattern (14 bp):
AGGAAAAAAAGTTG
Found at i:76577056 original size:114 final size:112
Alignment explanation
Indices: 76576899--76577171 Score: 286
Period size: 114 Copynumber: 2.4 Consensus size: 112
76576889 GAAATCAACC
* * *
76576899 TTTGCGGCGTTTATCCACC-AGCGCCGCTAAATCCCTACATATTGCGG-TGTTTAACCAAAAAAC
1 TTTGCGGCGTTT-TTCACCTAGCGCCGCTAAA-GCCGACATATTGCGGAT-TTTAA--AAAAAAC
**
76576962 GCCACTAAAAAA-CCTACAAAACGAAC-CATTTTGATTAAAACAAAATAACAT
61 GCCACTAAAAAATCAAACAAAACG-ACGCATTTTGATTAAAACAAAATAACAT
* * * *
76577013 TTTGCGGCATTTTTCACCTAGCGCCGCTAAAGCCAGACCTATTGCGGCATTTTAATAAAAATGCC
1 TTTGCGGCGTTTTTCACCTAGCGCCGCTAAAGCC-GACATATTGCGG-ATTTTAAAAAAAACGCC
* * * *
76577078 ACTAAAAAATCAAATAAAACGACGTCGTTTTGATTAAAACAGAATAACTT
64 ACTAAAAAATCAAACAAAACGACG-CATTTTGATTAAAACAAAATAACAT
* *
76577128 TTTGCGGCGTTTTTCA-CTAGTGCTGCTAAAGGCCGACATATTGC
1 TTTGCGGCGTTTTTCACCTAGCGCCGCTAAA-GCCGACATATTGC
76577172 AACGTTTCAC
Statistics
Matches: 134, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
113 26 0.19
114 62 0.46
115 45 0.34
116 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (112 bp):
TTTGCGGCGTTTTTCACCTAGCGCCGCTAAAGCCGACATATTGCGGATTTTAAAAAAAACGCCAC
TAAAAAATCAAACAAAACGACGCATTTTGATTAAAACAAAATAACAT
Found at i:76578112 original size:21 final size:22
Alignment explanation
Indices: 76578088--76578140 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
76578078 CCATATCCTT
76578088 TAAACCTTAAAT-CATAAAACA
1 TAAACCTTAAATCCATAAAACA
* **
76578109 TAAACCAT-AATCCATAATCCA
1 TAAACCTTAAATCCATAAAACA
*
76578130 TAGACCTTAAA
1 TAAACCTTAAA
76578141 ATAGTAACTC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 3 0.12
21 20 0.80
22 2 0.08
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.25
Consensus pattern (22 bp):
TAAACCTTAAATCCATAAAACA
Found at i:76578718 original size:40 final size:40
Alignment explanation
Indices: 76578661--76578831 Score: 182
Period size: 40 Copynumber: 4.3 Consensus size: 40
76578651 TAATTTTTTT
* * * *
76578661 GCGGCG-TTTTTCAAAAGCGCCTCTAATGGTCGACCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
* * *
76578700 GCGGCGTTTTTTAAAAAGCACCGTTAATGTTCGATCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
* * * * *
76578740 GCTGTGTTTTTTAAAAAGTGCCGCTAATTCTTGATCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
** * * *
76578780 GCGATGTTTTTCAAAAAACGCCGCTAATGCTCAATCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
76578820 GCGGCGTTTTTT
1 GCGGCGTTTTTT
76578832 TATCCAAATG
Statistics
Matches: 106, Mismatches: 25, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
39 6 0.06
40 100 0.94
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (40 bp):
GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:76579047 original size:30 final size:30
Alignment explanation
Indices: 76579013--76579074 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
76579003 AATTCATTAC
76579013 TACATTTTCATATCATTCCTCAAAGAATAT
1 TACATTTTCATATCATTCCTCAAAGAATAT
76579043 TACATTTTCATATCATTCCTCAAAGAATAT
1 TACATTTTCATATCATTCCTCAAAGAATAT
76579073 TA
1 TA
76579075 ACAGAAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.40
Consensus pattern (30 bp):
TACATTTTCATATCATTCCTCAAAGAATAT
Found at i:76580678 original size:18 final size:18
Alignment explanation
Indices: 76580646--76580680 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
76580636 AAATAAATTA
* *
76580646 TTAAAAATCATAAAAAAT
1 TTAAAAATAAAAAAAAAT
76580664 TTAAAAATAAAAAAAAA
1 TTAAAAATAAAAAAAAA
76580681 ATTGTTCAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
TTAAAAATAAAAAAAAAT
Found at i:76585491 original size:66 final size:66
Alignment explanation
Indices: 76585420--76585585 Score: 228
Period size: 66 Copynumber: 2.5 Consensus size: 66
76585410 CCCATTAGCT
* * * * *
76585420 TCTACCCCTTCAACATGATCTTCCCCT-ATAGCTTGTACCCCATCTACAAC-TCCATCCCTATCT
1 TCTACCCCTTCAACATCACCCT-CCCTAACAGCTTGTACCCCATCTACAACGT-CATCCCCATCT
76585483 AAA
64 AAA
*
76585486 TCTACCCCTTCAACATCACCCTCCCTAACAGCTTGTACCCCTTCTACAACGTCATCCCCATCTAA
1 TCTACCCCTTCAACATCACCCTCCCTAACAGCTTGTACCCCATCTACAACGTCATCCCCATCTAA
76585551 A
66 A
* *
76585552 TCTACCCTTTCAACATCACCCTCCCTATCAGCTT
1 TCTACCCCTTCAACATCACCCTCCCTAACAGCTT
76585586 CTACTCCTTT
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
65 4 0.04
66 85 0.94
67 1 0.01
ACGTcount: A:0.25, C:0.42, G:0.04, T:0.29
Consensus pattern (66 bp):
TCTACCCCTTCAACATCACCCTCCCTAACAGCTTGTACCCCATCTACAACGTCATCCCCATCTAA
A
Found at i:76585589 original size:33 final size:33
Alignment explanation
Indices: 76585348--76585603 Score: 133
Period size: 33 Copynumber: 7.8 Consensus size: 33
76585338 CTTATCTGCT
* * * * *
76585348 TCAGCTTGTACACCTTCTACATCATCCTCCATA
1 TCAGCTTCTACCCCTTCAACATCACCCTCCCTA
* * * * *
76585381 TCAGCTTGTACCCTTTCTATATCACCTTTCCC-A
1 TCAGCTTCTACCCCTTCAACATCACC-CTCCCTA
* * * *
76585414 TTAGCTTCTACCCCTTCAACATGATCTTCCCCTA
1 TCAGCTTCTACCCCTTCAACATCACCCT-CCCTA
* * * * * *
76585448 T-AGCTTGTACCCCATCTACAACTCCATCCCTA
1 TCAGCTTCTACCCCTTCAACATCACCCTCCCTA
**
76585480 TCTA-AATCTACCCCTTCAACATCACCCTCCCTA
1 TC-AGCTTCTACCCCTTCAACATCACCCTCCCTA
* * * * ** * *
76585513 ACAGCTTGTACCCCTTCTACAACGTCATCCCCA
1 TCAGCTTCTACCCCTTCAACATCACCCTCCCTA
** *
76585546 TCTA-AATCTACCCTTTCAACATCACCCTCCCTA
1 TC-AGCTTCTACCCCTTCAACATCACCCTCCCTA
* *
76585579 TCAGCTTCTACTCCTTTAACATCAC
1 TCAGCTTCTACCCCTTCAACATCAC
76585604 TTTCCCCAGC
Statistics
Matches: 160, Mismatches: 55, Indels: 16
0.69 0.24 0.07
Matches are distributed among these distances:
32 10 0.06
33 143 0.89
34 7 0.04
ACGTcount: A:0.24, C:0.40, G:0.05, T:0.32
Consensus pattern (33 bp):
TCAGCTTCTACCCCTTCAACATCACCCTCCCTA
Found at i:76590223 original size:23 final size:22
Alignment explanation
Indices: 76590197--76590251 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
76590187 GACTATTTGG
* *
76590197 TTTTTTTTCGGATTATTTATTTC
1 TTTTTTTTAGGA-TATTTAATTC
**
76590220 TTTTTATTTATTATATTTAATTC
1 TTTTT-TTTAGGATATTTAATTC
76590243 TTTTTTTTA
1 TTTTTTTTA
76590252 CACATCATCC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 4 0.15
23 19 0.70
24 4 0.15
ACGTcount: A:0.18, C:0.05, G:0.04, T:0.73
Consensus pattern (22 bp):
TTTTTTTTAGGATATTTAATTC
Found at i:76590940 original size:12 final size:12
Alignment explanation
Indices: 76590923--76590955 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
76590913 CTGCCCACCC
76590923 ATATTAATTTTT
1 ATATTAATTTTT
76590935 ATATT-ATTTTT
1 ATATTAATTTTT
76590946 ATA-TAATTTT
1 ATATTAATTTT
76590956 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:76591123 original size:30 final size:30
Alignment explanation
Indices: 76591080--76591138 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
76591070 CTTAACAAGC
76591080 AAATGCCTCTAAAATAATAACAAAATTAAT
1 AAATGCCTCTAAAATAATAACAAAATTAAT
* *
76591110 AAATGTCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
76591139 CAACAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAT
Found at i:76601470 original size:15 final size:15
Alignment explanation
Indices: 76601450--76601479 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
76601440 TTTAATCTTT
*
76601450 TATAAATTATAAAAA
1 TATAAACTATAAAAA
76601465 TATAAACTATAAAAA
1 TATAAACTATAAAAA
76601480 ATTAATATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:76605415 original size:7 final size:7
Alignment explanation
Indices: 76605399--76605505 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
76605389 AATAAATGAA
*
76605399 ATAATTT
1 ATAATAT
76605406 ATAATAT
1 ATAATAT
76605413 ATAATAT
1 ATAATAT
*
76605420 A-AAAAT
1 ATAATAT
* *
76605426 GTAAGTTT
1 ATAA-TAT
*
76605434 TTAA-A-
1 ATAATAT
*
76605439 ATAATGT
1 ATAATAT
76605446 ATAATAT
1 ATAATAT
*
76605453 A-AATAA
1 ATAATAT
76605459 ATAAATAT
1 AT-AATAT
76605467 ATAAGATAT
1 AT-A-ATAT
76605476 ATAAGT-T
1 ATAA-TAT
76605483 A-AA-AT
1 ATAATAT
76605488 ATAATAT
1 ATAATAT
76605495 ATAATA-
1 ATAATAT
76605501 ATAAT
1 ATAAT
76605506 TTACAAATTT
Statistics
Matches: 77, Mismatches: 12, Indels: 23
0.69 0.11 0.21
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 34 0.44
8 14 0.18
9 6 0.08
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:76605469 original size:21 final size:21
Alignment explanation
Indices: 76605437--76605501 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
76605427 TAAGTTTTTA
*
76605437 AAAT-AATGTATAATATAAAT
1 AAATAAATATATAATATAAAT
* *
76605457 AAATAAATATATAAGATATAT
1 AAATAAATATATAATATAAAT
*
76605478 AAGTTAAA-ATATAATATATAAT
1 AA-ATAAATATATAATATA-AAT
76605500 AA
1 AA
76605502 TAATTTACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 24 0.67
22 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATAAATATATAATATAAAT
Found at i:76605470 original size:28 final size:29
Alignment explanation
Indices: 76605439--76605499 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
76605429 AGTTTTTAAA
76605439 ATAATGTATAATATAA-AT-AAATA-AATAT
1 ATAATG-AT-ATATAAGATAAAATATAATAT
*
76605467 ATAA-GATATATAAGTTAAAATATAATAT
1 ATAATGATATATAAGATAAAATATAATAT
76605495 ATAAT
1 ATAAT
76605500 AATAATTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 6 0.21
28 13 0.46
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
ATAATGATATATAAGATAAAATATAATAT
Found at i:76605540 original size:12 final size:13
Alignment explanation
Indices: 76605521--76605551 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
76605511 AATTTTGAAA
76605521 ATATAAATAATAT
1 ATATAAATAATAT
76605534 A-ATAAATAATAT
1 ATATAAATAATAT
76605546 ATATAA
1 ATATAA
76605552 TAAATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATAAATAATAT
Found at i:76605549 original size:16 final size:15
Alignment explanation
Indices: 76605526--76605556 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
76605516 TGAAAATATA
76605526 AATAATATAATAAAT
1 AATAATATAATAAAT
76605541 AATATATATAATAAAT
1 AATA-ATATAATAAAT
76605557 TAAAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATAATAAAT
Found at i:76605915 original size:17 final size:18
Alignment explanation
Indices: 76605862--76605959 Score: 128
Period size: 18 Copynumber: 5.5 Consensus size: 18
76605852 AATCATATCT
*
76605862 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
76605881 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
76605899 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
* *
76605916 TCAAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
76605934 TCTAATATTG-TATCATA
1 TCTAAGATTGCTATCATA
76605951 TCTAAGATT
1 TCTAAGATT
76605960 ACATATCATT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
17 29 0.42
18 30 0.43
19 10 0.14
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:76605923 original size:35 final size:35
Alignment explanation
Indices: 76605862--76605968 Score: 160
Period size: 35 Copynumber: 3.0 Consensus size: 35
76605852 AATCATATCT
76605862 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
*
76605899 TCTAAGATTGTATCATATCAAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
76605934 TCTAATATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
76605969 TGAAGATTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 50 0.77
36 5 0.08
37 10 0.15
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:76609300 original size:16 final size:17
Alignment explanation
Indices: 76609268--76609316 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
76609258 ATAATTAAGC
*
76609268 TAAAATAAATGAAAAAA-
1 TAAAAAAAAT-AAAAAAT
76609285 TAAAAAAAATAAAAAAT
1 TAAAAAAAATAAAAAAT
* *
76609302 TACAAAAACTAAAAA
1 TAAAAAAAATAAAAA
76609317 CCGGATTGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (17 bp):
TAAAAAAAATAAAAAAT
Found at i:76610496 original size:20 final size:20
Alignment explanation
Indices: 76610473--76610516 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
76610463 TAAAAAATAA
*
76610473 AAAAAAATCAGCAAAATTTT
1 AAAAAAATCAGAAAAATTTT
** *
76610493 AAAAAGTTCATAAAAATTTT
1 AAAAAAATCAGAAAAATTTT
76610513 AAAA
1 AAAA
76610517 TTTATAGACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAAAATCAGAAAAATTTT
Found at i:76614596 original size:10 final size:10
Alignment explanation
Indices: 76614562--76614595 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
76614552 AGTAAACAAC
*
76614562 CACCACACCA
1 CACCACACCT
76614572 CACCACACCT
1 CACCACACCT
*
76614582 CACCTCACCT
1 CACCACACCT
76614592 CACC
1 CACC
76614596 TTATCTCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.29, C:0.62, G:0.00, T:0.09
Consensus pattern (10 bp):
CACCACACCT
Found at i:76617889 original size:16 final size:16
Alignment explanation
Indices: 76617870--76617919 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
76617860 ATTAGAGTTA
76617870 ATTATTTAAATTAATT
1 ATTATTTAAATTAATT
76617886 ATTATTTTAAA-TAA-T
1 ATTA-TTTAAATTAATT
**
76617901 ATTAATTTTTATTAATT
1 ATT-ATTTAAATTAATT
76617918 AT
1 AT
76617920 ATAAAGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 8 0.29
16 11 0.39
17 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTATTTAAATTAATT
Found at i:76623321 original size:47 final size:46
Alignment explanation
Indices: 76623231--76623326 Score: 106
Period size: 47 Copynumber: 2.1 Consensus size: 46
76623221 GTAATAAGGC
* * * *
76623231 GAATCATTGTTCAATGAGACTGTTTGGGATTATGATCAGTATGTGTA
1 GAATAATTGTTCAATGAAACTGTTTGAGATTATGATCAATATGTG-A
*
76623278 GAATAATTGTTCAATGAAA-TCGTTTGAGATTAT-ATTGAATATGTGA
1 GAATAATTGTTCAATGAAACT-GTTTGAGATTATGA-TCAATATGTGA
76623324 GAA
1 GAA
76623327 CTGATTAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
46 6 0.14
47 36 0.86
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (46 bp):
GAATAATTGTTCAATGAAACTGTTTGAGATTATGATCAATATGTGA
Found at i:76623475 original size:30 final size:29
Alignment explanation
Indices: 76623439--76623503 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
76623429 CATATTTGTC
76623439 TAATGATATTTT-CAAAATTTTTAAAGGGTG
1 TAATGATATTTTCCAAAA-TTTTAAAGGG-G
*
76623469 TAATGATATTTTCCCAAAATTTTAGAGGGG
1 TAATGATATTTT-CCAAAATTTTAAAGGGG
76623499 TAATG
1 TAATG
76623504 CCAAATGAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 18 0.56
31 9 0.28
32 5 0.16
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.40
Consensus pattern (29 bp):
TAATGATATTTTCCAAAATTTTAAAGGGG
Found at i:76628798 original size:25 final size:27
Alignment explanation
Indices: 76628761--76628813 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
76628751 TCAAACATGC
76628761 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
76628787 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
76628813 A
1 A
76628814 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:76630384 original size:32 final size:32
Alignment explanation
Indices: 76630347--76630411 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
76630337 AATGCTTACC
*
76630347 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCACTAACTATTAAAATGCTA
76630379 ATGCCCATCATCCACTAACTATTAAAATGCTA
1 ATGCCCATCATCCACTAACTATTAAAATGCTA
76630411 A
1 A
76630412 AATGCATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.29
Consensus pattern (32 bp):
ATGCCCATCATCCACTAACTATTAAAATGCTA
Found at i:76635240 original size:39 final size:40
Alignment explanation
Indices: 76635148--76635245 Score: 102
Period size: 39 Copynumber: 2.5 Consensus size: 40
76635138 AGATATTTTT
* *
76635148 TTATATA-AAAAT-ATATATTATATATTATATTAACTTAA
1 TTATATATAATATAATATATAATATATTATATTAACTTAA
76635186 -TAT-T-TAAGTATTAATATATAATATATTATATT-A-TTATA
1 TTATATATAA-TA-TAATATATAATATATTATATTAACTTA-A
76635224 TTATATATAATATAATATATAA
1 TTATATATAATATAATATATAA
76635246 AACATAAGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
36 3 0.06
37 7 0.14
38 3 0.06
39 31 0.62
40 3 0.06
41 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (40 bp):
TTATATATAATATAATATATAATATATTATATTAACTTAA
Found at i:76635245 original size:7 final size:7
Alignment explanation
Indices: 76635157--76635245 Score: 55
Period size: 7 Copynumber: 13.3 Consensus size: 7
76635147 TTTATATAAA
76635157 AATATAT
1 AATATAT
*
76635164 ATTATAT
1 AATATAT
*
76635171 ATTATATT
1 AATATA-T
*
76635179 AA-CT-T
1 AATATAT
*
76635184 AATATTT
1 AATATAT
76635191 AAGTAT-T
1 AA-TATAT
76635198 AATATAT
1 AATATAT
76635205 AATATAT
1 AATATAT
*
76635212 TATAT-T
1 AATATAT
*
76635218 ATTATAT
1 AATATAT
*
76635225 TATATAT
1 AATATAT
76635232 -A-ATAT
1 AATATAT
76635237 AATATAT
1 AATATAT
76635244 AA
1 AA
76635246 AACATAAGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 7 0.11
6 10 0.15
7 43 0.66
8 5 0.08
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (7 bp):
AATATAT
Found at i:76636401 original size:29 final size:30
Alignment explanation
Indices: 76636369--76636425 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
76636359 GCGCTCTCTG
76636369 ATTATTAGCACATT-AGTGCTCTCTGTTCT
1 ATTATTAGCACATTAAGTGCTCTCTGTTCT
*
76636398 ATTATTAGCACGTTAAGTGCTCTCTGTT
1 ATTATTAGCACATTAAGTGCTCTCTGTT
76636426 TAGCACATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (30 bp):
ATTATTAGCACATTAAGTGCTCTCTGTTCT
Found at i:76636442 original size:22 final size:22
Alignment explanation
Indices: 76636413--76636469 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
76636403 TAGCACGTTA
76636413 AGTGCTCTCTGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCAC-TCT
* *
76636436 -GTGCTCTCTGTATAGCACTTT
1 AGTGCTCTCTGTTTAGCACTCT
76636457 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
76636470 CGTTTGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTCT
Found at i:76639134 original size:25 final size:27
Alignment explanation
Indices: 76639097--76639149 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
76639087 TCAAACATGC
76639097 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
76639123 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
76639149 A
1 A
76639150 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:76643661 original size:567 final size:567
Alignment explanation
Indices: 76642868--76644574 Score: 3405
Period size: 567 Copynumber: 3.0 Consensus size: 567
76642858 CATAAGCATT
76642868 GAGTATGCATTGTTGACAAACAGTAATGGATTCATCAACATAATTTGACTACGCACCGCATTATA
1 GAGTATGCATTGTTGACAAACAGTAATGGATTCATCAACATAATTTGACTACGCACCGCATTATA
76642933 CGTCTCATTGAACCTCATGAGAAACTGGAACAAATGTTATTGCGAAACATGGGCAACTCTCTGTT
66 CGTCTCATTGAACCTCATGAGAAACTGGAACAAATGTTATTGCGAAACATGGGCAACTCTCTGTT
76642998 TAGATTAGACACATCCACAAGAAAAAGATGGCACAAACGCATCATATTCATCCCAAAGCAATCGC
131 TAGATTAGACACATCCACAAGAAAAAGATGGCACAAACGCATCATATTCATCCCAAAGCAATCGC
76643063 AACTTAGAAAAATACGTAGAGATGGAAGCAGTACCTTGAAGCTGCGAGGCAATTTCACAATGCAG
196 AACTTAGAAAAATACGTAGAGATGGAAGCAGTACCTTGAAGCTGCGAGGCAATTTCACAATGCAG
76643128 AAAAAAACTCTTGAACCATCCATTTTATGGAATCGTTCACCAAGATCACTCTATACTACTGCTGC
261 AAAAAAACTCTTGAACCATCCATTTTATGGAATCGTTCACCAAGATCACTCTATACTACTGCTGC
*
76643193 ACTAGAAGTAAAAACAATCCCTTCCGAAAGCTCCTTGCTAACCATATTTAATATCCTAGATAAAA
326 ACTAGAAGTAAAAACAATCCCTTCCGAAAGCTCCTTGCTAACCGTATTTAATATCCTAGATAAAA
76643258 CAATAGCATTACACCTCTCCTACTGGTATCCTAATTCTCCAAGAAACAACTCCTTGGAACAATAA
391 CAATAGCATTACACCTCTCCTACTGGTATCCTAATTCTCCAAGAAACAACTCCTTGGAACAATAA
76643323 CGACCTACCAATCTTAATTTATTTTTGGCCAGCAGTGCAATTTTCATGGTTTGGCTCTAGACATT
456 CGACCTACCAATCTTAATTTATTTTTGGCCAGCAGTGCAATTTTCATGGTTTGGCTCTAGACATT
76643388 ATAGTTTTCAACTCCAGTCAATTGGTGAGAAACTAATAGCGTACCTG
521 ATAGTTTTCAACTCCAGTCAATTGGTGAGAAACTAATAGCGTACCTG
76643435 GAGTATGCATTGTTGACAAACAGTAATGGATTCATCAACATAATTTGACTACGCACCGCATTATA
1 GAGTATGCATTGTTGACAAACAGTAATGGATTCATCAACATAATTTGACTACGCACCGCATTATA
76643500 CGTCTCATTGAACCTCATGAGAAACTGGAACAAATGTTATTGCGAAACATGGGCAACTCTCTGTT
66 CGTCTCATTGAACCTCATGAGAAACTGGAACAAATGTTATTGCGAAACATGGGCAACTCTCTGTT
76643565 TAGATTAGACACATCCACAAGAAAAAGATGGCACAAACGCATCATATTCATCCCAAAGCAATCGC
131 TAGATTAGACACATCCACAAGAAAAAGATGGCACAAACGCATCATATTCATCCCAAAGCAATCGC
76643630 AACTTAGAAAAATACGTAGAGATGGAAGCAGTACCTTGAAGCTGCGAGGCAATTTCACAATGCAG
196 AACTTAGAAAAATACGTAGAGATGGAAGCAGTACCTTGAAGCTGCGAGGCAATTTCACAATGCAG
76643695 AAAAAAACTCTTGAACCATCCATTTTATGGAATCGTTCACCAAGATCACTCTATACTACTGCTGC
261 AAAAAAACTCTTGAACCATCCATTTTATGGAATCGTTCACCAAGATCACTCTATACTACTGCTGC
76643760 ACTAGAAGTAAAAACAATCCCTTCCGAAAGCTCCTTGCTAACCGTATTTAATATCCTAGATAAAA
326 ACTAGAAGTAAAAACAATCCCTTCCGAAAGCTCCTTGCTAACCGTATTTAATATCCTAGATAAAA
76643825 CAATAGCATTACACCTCTCCTACTGGTATCCTAATTCTCCAAGAAACAACTCCTTGGAACAATAA
391 CAATAGCATTACACCTCTCCTACTGGTATCCTAATTCTCCAAGAAACAACTCCTTGGAACAATAA
76643890 CGACCTACCAATCTTAATTTATTTTTGGCCAGCAGTGCAATTTTCATGGTTTGGCTCTAGACATT
456 CGACCTACCAATCTTAATTTATTTTTGGCCAGCAGTGCAATTTTCATGGTTTGGCTCTAGACATT
76643955 ATAGTTTTCAACTCCAGTCAATTGGTGAGAAACTAATAGCGTACCTG
521 ATAGTTTTCAACTCCAGTCAATTGGTGAGAAACTAATAGCGTACCTG
76644002 GAGTATGCATTGTTGACAAACAGTAATGGATTCATCAACATAATTTGACTACGCACCGCATTATA
1 GAGTATGCATTGTTGACAAACAGTAATGGATTCATCAACATAATTTGACTACGCACCGCATTATA
76644067 CGTCTCATTGAACCTCATGAGAAACTGGAACAAATGTTATTGCGAAACATGGGCAACTCTCTGTT
66 CGTCTCATTGAACCTCATGAGAAACTGGAACAAATGTTATTGCGAAACATGGGCAACTCTCTGTT
76644132 TAGATTAGACACATCCACAAGAAAAAGATGGCACAAACGCATCATATTCATCCCAAAGCAATCGC
131 TAGATTAGACACATCCACAAGAAAAAGATGGCACAAACGCATCATATTCATCCCAAAGCAATCGC
76644197 AACTTAGAAAAATACGTAGAGATGGAAGCAGTACCTTGAAGCTGCGAGGCAATTTCACAATGCAG
196 AACTTAGAAAAATACGTAGAGATGGAAGCAGTACCTTGAAGCTGCGAGGCAATTTCACAATGCAG
76644262 AAAAAAACTCTTGAACCATCCATTTTATGGAATCGTTCACCAAGATCACTCTATACTACTGCTGC
261 AAAAAAACTCTTGAACCATCCATTTTATGGAATCGTTCACCAAGATCACTCTATACTACTGCTGC
76644327 ACTAGAAGTAAAAACAATCCCTTCCGAAAGCTCCTTGCTAACCGTATTTAATATCCTAGATAAAA
326 ACTAGAAGTAAAAACAATCCCTTCCGAAAGCTCCTTGCTAACCGTATTTAATATCCTAGATAAAA
76644392 CAATAGCATTACACCTCTCCTACTGGTATCCTAATTCTCCAAGAAACAACTCCTTGGAACAATAA
391 CAATAGCATTACACCTCTCCTACTGGTATCCTAATTCTCCAAGAAACAACTCCTTGGAACAATAA
76644457 CGACCTACCAATCTTAATTTATTTTTGGCCAGCAGTGCAATTTTCATGGTTTGGCTCTAGACATT
456 CGACCTACCAATCTTAATTTATTTTTGGCCAGCAGTGCAATTTTCATGGTTTGGCTCTAGACATT
76644522 ATAGTTTTCAACTCCAGTCAATTGGTGAGAAACTAATAGCGTACCTG
521 ATAGTTTTCAACTCCAGTCAATTGGTGAGAAACTAATAGCGTACCTG
76644569 GAGTAT
1 GAGTAT
76644575 CGGAAGGATG
Statistics
Matches: 1139, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
567 1139 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (567 bp):
GAGTATGCATTGTTGACAAACAGTAATGGATTCATCAACATAATTTGACTACGCACCGCATTATA
CGTCTCATTGAACCTCATGAGAAACTGGAACAAATGTTATTGCGAAACATGGGCAACTCTCTGTT
TAGATTAGACACATCCACAAGAAAAAGATGGCACAAACGCATCATATTCATCCCAAAGCAATCGC
AACTTAGAAAAATACGTAGAGATGGAAGCAGTACCTTGAAGCTGCGAGGCAATTTCACAATGCAG
AAAAAAACTCTTGAACCATCCATTTTATGGAATCGTTCACCAAGATCACTCTATACTACTGCTGC
ACTAGAAGTAAAAACAATCCCTTCCGAAAGCTCCTTGCTAACCGTATTTAATATCCTAGATAAAA
CAATAGCATTACACCTCTCCTACTGGTATCCTAATTCTCCAAGAAACAACTCCTTGGAACAATAA
CGACCTACCAATCTTAATTTATTTTTGGCCAGCAGTGCAATTTTCATGGTTTGGCTCTAGACATT
ATAGTTTTCAACTCCAGTCAATTGGTGAGAAACTAATAGCGTACCTG
Done.