Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 181 of 427
Found at i:49996360 original size:27 final size:27
Alignment explanation
Indices: 49996236--49996471 Score: 174
Period size: 27 Copynumber: 8.7 Consensus size: 27
49996226 TGTAGGATAG
*
49996236 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
*
49996263 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* * * *
49996290 AATTACCGAAATACAAC-TGGTTTGTGA
1 AATTACCAAAATAC-CCTTAGTTTGTAA
* * *
49996317 AATTATCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* **
49996344 AATTACCAAAATACCCTTAATTTACAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
49996371 AATTA-CAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCTT-AGTTTGT-AA
* * **
49996400 AATTA-TAGAAATACCATT-GATTTACAA
1 AATTACCA-AAATACCCTTAG-TTTGTAA
** * *
49996427 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
49996454 ATTTACCAAAACACCCTT
1 AATTACCAAAATACCCTT
49996472 GTAGGATGAA
Statistics
Matches: 171, Mismatches: 30, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.02
27 140 0.82
28 10 0.06
29 18 0.11
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTGTAA
Found at i:49996533 original size:27 final size:27
Alignment explanation
Indices: 49996490--49996563 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
49996480 AAATGATTAA
*
49996490 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
49996517 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
49996544 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
49996564 TGATAAATAC
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:49997394 original size:25 final size:25
Alignment explanation
Indices: 49997356--49997425 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
49997346 AGGAAGTGCT
* *
49997356 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
49997381 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
49997406 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
49997426 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:49997438 original size:24 final size:24
Alignment explanation
Indices: 49997355--49997450 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
49997345 GAGGAAGTGC
*
49997355 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
49997380 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
49997404 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
49997428 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
49997451 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:49997449 original size:50 final size:50
Alignment explanation
Indices: 49997356--49997450 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
49997346 AGGAAGTGCT
**
49997356 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
49997406 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
49997451 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:49997631 original size:42 final size:42
Alignment explanation
Indices: 49997572--49997663 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
49997562 TAGTCTCCCC
* * *
49997572 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGGCATTACATGTGATATTG
49997614 AAATGGGCTTGCATACATCCATTGGCATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGGCATTACATGTGATATTG
49997656 AAATGGGC
1 AAATGGGC
49997664 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGGCATTACATGTGATATTG
Found at i:49999547 original size:42 final size:42
Alignment explanation
Indices: 49999500--49999606 Score: 178
Period size: 42 Copynumber: 2.5 Consensus size: 42
49999490 TATTGGTCTC
*
49999500 GGCACTAAGTGTGCAGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
*
49999542 GGCACTAAGTGTGCGGGTATAAATGGTCACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
49999584 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
49999607 ATTGTACAGC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:49999671 original size:27 final size:28
Alignment explanation
Indices: 49999614--49999683 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
49999604 AAAATTGTAC
**
49999614 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
49999642 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
49999669 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49999684 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:50013170 original size:68 final size:68
Alignment explanation
Indices: 50013023--50013178 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
50013013 AGCCGATTTG
* * * * *
50013023 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
50013088 TATC
65 TATA
* *
50013092 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
50013154 ATATAGTA
62 ATATA-TA
50013162 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
50013179 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:50014302 original size:11 final size:11
Alignment explanation
Indices: 50014286--50014312 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
50014276 ATTTCATCAT
50014286 GAAATTTTCAC
1 GAAATTTTCAC
50014297 GAAATTTTCAC
1 GAAATTTTCAC
50014308 GAAAT
1 GAAAT
50014313 CATGAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (11 bp):
GAAATTTTCAC
Found at i:50016127 original size:22 final size:22
Alignment explanation
Indices: 50016102--50016151 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
50016092 ATTAGGGGAT
50016102 TTCAACAATAATGGATTATGGG
1 TTCAACAATAATGGATTATGGG
50016124 TTCAACAATAATGGATTATGGG
1 TTCAACAATAATGGATTATGGG
50016146 -TCAACA
1 TTCAACA
50016152 TTGAGGGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (22 bp):
TTCAACAATAATGGATTATGGG
Found at i:50017582 original size:13 final size:13
Alignment explanation
Indices: 50017564--50017598 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
50017554 TGTTGGTGCA
50017564 CACGGCCGTGTCG
1 CACGGCCGTGTCG
*
50017577 CACGGCTGTGTCG
1 CACGGCCGTGTCG
50017590 CACGGCCGT
1 CACGGCCGT
50017599 ATTCTGCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.09, C:0.37, G:0.37, T:0.17
Consensus pattern (13 bp):
CACGGCCGTGTCG
Found at i:50021817 original size:40 final size:40
Alignment explanation
Indices: 50021756--50021940 Score: 268
Period size: 40 Copynumber: 4.6 Consensus size: 40
50021746 GGGCTAAGTC
*
50021756 CCGAAGGC-TTTGTGCTAAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGAT
* * *
50021796 CCGAAGGCAATTGTGCGAGTTATTAAATCCAGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
50021836 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
50021876 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGA-TAAG-T
1 CCGAAGGCATTTGTGCGAGTTACTAAATCC-GGACTAAGAT
* *
50021915 CCCGAAGGCATTTGTGTGAGCTACTA
1 -CCGAAGGCATTTGTGCGAGTTACTA
50021941 TAACCGGGCT
Statistics
Matches: 133, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 123 0.92
41 9 0.07
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
Found at i:50021948 original size:40 final size:40
Alignment explanation
Indices: 50021750--50021968 Score: 220
Period size: 40 Copynumber: 5.5 Consensus size: 40
50021740 ATGTCTGGGC
*
50021750 TAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAATCC-GGA
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA
* * *
50021789 CTAAGAT-CCGAAGGCAATTGTGCGAGTTATTAAATCC-AGA
1 -TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGA
50021829 CTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCC-GGA
1 -TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGA
50021869 CTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGA
1 -TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGA
* * *
50021910 TAAGTCCCGAAGGCATTTGTGTGAGCTACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGA
* * *
50021950 TATGTCTCGAAGGTATTTG
1 TAAGTCCCGAAGGCATTTG
50021969 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 148 0.92
41 12 0.07
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGA
Found at i:50021987 original size:80 final size:80
Alignment explanation
Indices: 50021750--50021975 Score: 246
Period size: 80 Copynumber: 2.8 Consensus size: 80
50021740 ATGTCTGGGC
* * * **
50021750 TAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGC-GAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGA
* *
50021814 GTTATTAAATCC-AGA
65 GTTACTAAATCCGGGA
* **
50021829 CTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCG
1 -TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACG
50021893 AGTTACTAAATCCGGGA
64 AGTTACTAAATCCGGGA
* * * *
50021910 TAAGTCCCGAAGGCATTTGTGTGAGCTACTATAA-CCGGGCTATG-TCTCGAAGGTATTTGAACG
1 TAAGTCCCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGATC-CGAAGGCATTTGAACG
50021973 AGT
64 AGT
50021976 AGCTATATCC
Statistics
Matches: 129, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
79 3 0.02
80 114 0.88
81 12 0.09
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG
TTACTAAATCCGGGA
Found at i:50021987 original size:120 final size:120
Alignment explanation
Indices: 50021756--50021975 Score: 261
Period size: 120 Copynumber: 1.8 Consensus size: 120
50021746 GGGCTAAGTC
* *
50021756 CCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTGTGCGAGTTATTA
1 CCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTGTGCGAGCTACTA
**
50021821 AATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
66 AATCCAGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAATCCGGACTAAGAT
* * *
50021876 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA-TAAG-TCCCGAAGGCATTTGTGTGAGCTA
1 CCGAAGGC-TTTGTGCTAAGTTACTAAATCC-GGACTAAGAT-CCGAAGGCAATTGTGCGAGCTA
* * * *
50021938 CTATAA-CCGGGCTATG-TCTCGAAGGTATTTGAACGAGT
63 CTA-AATCCAGACTAAGATC-CGAAGGCATTTGAACGAGT
50021976 AGCTATATCC
Statistics
Matches: 84, Mismatches: 11, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
119 3 0.04
120 69 0.82
121 12 0.14
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (120 bp):
CCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTGTGCGAGCTACTA
AATCCAGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAATCCGGACTAAGAT
Found at i:50025192 original size:40 final size:39
Alignment explanation
Indices: 50025147--50025276 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
50025137 CGGAATATAA
50025147 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
50025187 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
50025227 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
50025267 CCGGATATAA
1 CCGGATATAA
50025277 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:50025291 original size:40 final size:40
Alignment explanation
Indices: 50025163--50025314 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
50025153 ATAACCATGT
* * *
50025163 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
50025203 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
50025243 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
50025283 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
50025315 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:50025297 original size:80 final size:80
Alignment explanation
Indices: 50025163--50025312 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
50025153 ATAACCATGT
*
50025163 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
50025227 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
50025243 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
50025306 CCCGGAT
64 CCCGGAT
50025313 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:50033193 original size:40 final size:39
Alignment explanation
Indices: 50033148--50033277 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
50033138 CGGAATATAA
50033148 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
50033188 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
50033228 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
50033268 CCGGATATAA
1 CCGGATATAA
50033278 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:50033292 original size:40 final size:40
Alignment explanation
Indices: 50033164--50033315 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
50033154 ATAACCATGT
* * *
50033164 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
50033204 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
50033244 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
50033284 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
50033316 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:50033298 original size:80 final size:80
Alignment explanation
Indices: 50033164--50033313 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
50033154 ATAACCATGT
*
50033164 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
50033228 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
50033244 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
50033307 CCCGGAT
64 CCCGGAT
50033314 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:50037837 original size:54 final size:54
Alignment explanation
Indices: 50037734--50037856 Score: 153
Period size: 54 Copynumber: 2.3 Consensus size: 54
50037724 AGAATTTGCA
* *
50037734 GCATGGCTACCAGAACAGATATTGTGACAGAGTCACCAGATACAGATA-TTGTG
1 GCATGGCCACCAGAACAGATATTGTGACAGAGTCACCAGAAACAGATATTTGTG
* * *
50037787 GCA-GTGCCACCAGAACAGATATTTGTGGCATAG-CGACCAGAAACATATATTTGTG
1 GCATG-GCCACCAGAACAGATA-TTGTGACAGAGTC-ACCAGAAACAGATATTTGTG
50037842 GCATGGCCACCAGAA
1 GCATGGCCACCAGAA
50037857 TGCTTCCTCC
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
52 1 0.02
53 19 0.32
54 21 0.35
55 18 0.30
56 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (54 bp):
GCATGGCCACCAGAACAGATATTGTGACAGAGTCACCAGAAACAGATATTTGTG
Found at i:50037840 original size:28 final size:27
Alignment explanation
Indices: 50037742--50037856 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
50037732 CAGCATGGCT
* * *
50037742 ACCAG-AACAGATA-TTGTGACAGAGTC
1 ACCAGAAACAGATATTTGTGGCA-TGCC
*
50037768 ACCAGATACAGATA-TTGTGGCAGTGCC
1 ACCAGAAACAGATATTTGTGGCA-TGCC
*
50037795 ACCAG-AACAGATATTTGTGGCATAGCG
1 ACCAGAAACAGATATTTGTGGCAT-GCC
*
50037822 ACCAGAAACATATATTTGTGGCATGGCC
1 ACCAGAAACAGATATTTGTGGCAT-GCC
50037850 ACCAGAA
1 ACCAGAA
50037857 TGCTTCCTCC
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
26 13 0.17
27 37 0.49
28 26 0.34
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
ACCAGAAACAGATATTTGTGGCATGCC
Found at i:50045566 original size:27 final size:28
Alignment explanation
Indices: 50045525--50045630 Score: 139
Period size: 27 Copynumber: 3.9 Consensus size: 28
50045515 CTGCTAGAAA
* *
50045525 AGATA-TTGTGACAGAGTCACCAGATAC
1 AGATATTTGTGGCAGAGCCACCAGATAC
50045552 AGATA-TTGTGGCAGAGCCACCAG-TAC
1 AGATATTTGTGGCAGAGCCACCAGATAC
* *
50045578 AGATATTTGTGGCATAGCCACCAGAAAC
1 AGATATTTGTGGCAGAGCCACCAGATAC
50045606 AGATATTTGTGGCATG-GCCACCAGA
1 AGATATTTGTGGCA-GAGCCACCAGA
50045631 ACGCTTCCTC
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
26 8 0.11
27 38 0.54
28 25 0.35
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.22
Consensus pattern (28 bp):
AGATATTTGTGGCAGAGCCACCAGATAC
Found at i:50047542 original size:18 final size:18
Alignment explanation
Indices: 50047491--50047542 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
50047481 AGTCAAAACA
* *
50047491 CAAAAATTCTAAAATTAT
1 CAAAAATCCTAAAAATAT
* *
50047509 CAAAAATCAC-AGAAATCT
1 CAAAAATC-CTAAAAATAT
50047527 CAAAAATCCTAAAAAT
1 CAAAAATCCTAAAAAT
50047543 TGGGGCGTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 1 0.04
18 25 0.93
19 1 0.04
ACGTcount: A:0.58, C:0.17, G:0.02, T:0.23
Consensus pattern (18 bp):
CAAAAATCCTAAAAATAT
Found at i:50060144 original size:46 final size:46
Alignment explanation
Indices: 50060094--50060266 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
50060084 TGGTTGAGCA
*
50060094 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
50060140 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
50060187 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
50060233 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
50060267 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:50060250 original size:93 final size:93
Alignment explanation
Indices: 50060091--50060261 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
50060081 GGATGGTTGA
* *
50060091 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
50060156 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
50060184 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
50060249 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
50060262 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50067717 original size:46 final size:46
Alignment explanation
Indices: 50067667--50067837 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
50067657 TGGTTGAGCA
*
50067667 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
50067713 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
50067760 TCCGAACTCGTTGAGTTGAGT-CGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
50067805 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
50067838 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
43 6 0.06
44 19 0.18
45 15 0.14
46 36 0.34
47 24 0.23
49 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:50068098 original size:18 final size:19
Alignment explanation
Indices: 50068061--50068098 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
50068051 GATAAGGTGG
50068061 TAAGATGATGAATGATGTT
1 TAAGATGATGAATGATGTT
50068080 TAAGATG-TGATAT-ATGTT
1 TAAGATGATGA-ATGATGTT
50068098 T
1 T
50068099 TGGTGGTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (19 bp):
TAAGATGATGAATGATGTT
Found at i:50073744 original size:17 final size:17
Alignment explanation
Indices: 50073718--50073751 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50073708 TATATATTTG
*
50073718 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
50073735 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
50073752 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:50075101 original size:24 final size:24
Alignment explanation
Indices: 50075069--50075201 Score: 160
Period size: 24 Copynumber: 5.5 Consensus size: 24
50075059 GAAATGACAT
50075069 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
50075093 TGGCACTATGTGTGCAGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * *
50075117 TGGCACTATATGTACAGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * *
50075141 TGGCACTACGTGTGTGGATTAGGAA
1 TGGCACTATGTGTGCGGATT-TGAA
* * *
50075166 -GGCACTATGTGTGCGGGTTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
50075189 TGGCACTATGTGT
1 TGGCACTATGTGT
50075202 ACAAATTTCC
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
23 2 0.02
24 88 0.95
25 3 0.03
ACGTcount: A:0.23, C:0.14, G:0.32, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:50075192 original size:72 final size:72
Alignment explanation
Indices: 50075069--50075209 Score: 185
Period size: 72 Copynumber: 2.0 Consensus size: 72
50075059 GAAATGACAT
* * * *
50075069 TGGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCAGATTTGAATGGCACTATATGTACAG
1 TGGCACTACGTGTGCGGATTGGAATGGCACTATGTGTGCAGATTAGAATGGCACTATATGTACAA
50075134 ATTTGAA
66 ATTTGAA
* * * * *
50075141 TGGCACTACGTGTGTGGATTAGGAA-GGCACTATGTGTGCGGGTTAGCATGGCACTATGTGTACA
1 TGGCACTACGTGTGCGGATT-GGAATGGCACTATGTGTGCAGATTAGAATGGCACTATATGTACA
50075205 AATTT
65 AATTT
50075210 CCTTGACCGA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
72 56 0.95
73 3 0.05
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (72 bp):
TGGCACTACGTGTGCGGATTGGAATGGCACTATGTGTGCAGATTAGAATGGCACTATATGTACAA
ATTTGAA
Found at i:50082066 original size:93 final size:93
Alignment explanation
Indices: 50081952--50082122 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
50081942 GCCCATAAGT
* * *
50081952 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCGTAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
50082017 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
50082045 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
50082110 CGAGTTCGGATGC
66 CGAGTTCGGATGC
50082123 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:50082138 original size:46 final size:46
Alignment explanation
Indices: 50081944--50082124 Score: 215
Period size: 46 Copynumber: 3.9 Consensus size: 46
50081934 TGTAACCCGC
* * *
50081944 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * * *
50081990 CCGTAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
50082040 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
50082083 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
50082125 AACCATCCTA
Statistics
Matches: 113, Mismatches: 15, Indels: 14
0.80 0.11 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 70 0.62
47 31 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:50084275 original size:16 final size:17
Alignment explanation
Indices: 50084256--50084288 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
50084246 TATATATTTG
*
50084256 AAATATGTTAT-ATATA
1 AAATAAGTTATAATATA
50084272 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
50084289 TTAAGTGGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:50085637 original size:24 final size:24
Alignment explanation
Indices: 50085605--50085715 Score: 136
Period size: 24 Copynumber: 4.6 Consensus size: 24
50085595 GAAATGACAT
*
50085605 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTAGAA
* *
50085629 TGGCACTATGTGTACGGATTTGAA
1 TGGCACTATGTGTGCGGATTAGAA
* *
50085653 TGGCACTACGTGTGTGGATTAGCAA
1 TGGCACTATGTGTGCGGATTAG-AA
*
50085678 -GGCACTATGTGTGCTGG-TTAGCA
1 TGGCACTATGTGTGC-GGATTAGAA
50085701 TGGCACTATGTGTGC
1 TGGCACTATGTGTGC
50085716 AATTTCCTTG
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
23 1 0.01
24 71 0.93
25 4 0.05
ACGTcount: A:0.21, C:0.15, G:0.32, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTAGAA
Found at i:50089479 original size:64 final size:64
Alignment explanation
Indices: 50089405--50089545 Score: 194
Period size: 64 Copynumber: 2.2 Consensus size: 64
50089395 CATTAATTAT
* * * *
50089405 ATATGTACTTACCATACATGCAATATTAAAGCATTTAAAGTATG-GTACATATTGCATAATTTGC
1 ATATGAACTTACCATACATGCAATATTAAAGCATTTAAAATA-GAGTACATATTGCATAACTCGC
* * *
50089469 ATATGAACTTACCATACATGTAATATTTAAGCATTTAAAATAGAGTACATATTGCATTACTCGC
1 ATATGAACTTACCATACATGCAATATTAAAGCATTTAAAATAGAGTACATATTGCATAACTCGC
*
50089533 ATACGAACTTACC
1 ATATGAACTTACC
50089546 CCGATACCAA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 1 0.01
64 67 0.99
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (64 bp):
ATATGAACTTACCATACATGCAATATTAAAGCATTTAAAATAGAGTACATATTGCATAACTCGC
Found at i:50097814 original size:30 final size:30
Alignment explanation
Indices: 50097759--50097889 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
50097749 ATAGTGAATC
*
50097759 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
50097788 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
50097818 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
50097846 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
50097876 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50097890 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:50097869 original size:58 final size:58
Alignment explanation
Indices: 50097758--50097889 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
50097748 TATAGTGAAT
* * * * *
50097758 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
50097817 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
50097875 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
50097890 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:50105755 original size:30 final size:30
Alignment explanation
Indices: 50105700--50105830 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
50105690 ATAGTGAATC
*
50105700 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
50105729 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
50105759 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
50105787 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
50105817 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50105831 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:50105810 original size:58 final size:58
Alignment explanation
Indices: 50105699--50105830 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
50105689 TATAGTGAAT
* * * * *
50105699 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
50105758 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
50105816 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
50105831 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:50117441 original size:24 final size:24
Alignment explanation
Indices: 50117403--50117476 Score: 103
Period size: 24 Copynumber: 3.1 Consensus size: 24
50117393 CATGTATTGA
*
50117403 CATTCAAATCAGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
* * *
50117427 CATTCAATTTCGCACACATAATGC
1 CATTCAAATCCGCACACATAGTGC
*
50117451 CATTCAAATCCGCACACTTAGTGC
1 CATTCAAATCCGCACACATAGTGC
50117475 CA
1 CA
50117477 ATGTTGACCC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.34, C:0.31, G:0.11, T:0.24
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGTGC
Found at i:50121201 original size:27 final size:27
Alignment explanation
Indices: 50121171--50121446 Score: 239
Period size: 27 Copynumber: 9.8 Consensus size: 27
50121161 ATTATTGAAG
* * *
50121171 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
50121198 TACCCTCGATTTATAGAAGTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
50121225 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
50121252 TACCC-CTGATTTACATAATTACCATTT
1 TACCCTC-GATTTACAGAATTACCATTT
* *
50121279 TACCCCCGATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
50121306 TACCCCCGTTTTACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCG-ATT----T--AC--AG--AATTACCATTT
* * *
50121344 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
50121371 TACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
50121398 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
50121425 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
50121447 AGAAATACCC
Statistics
Matches: 208, Mismatches: 28, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
27 178 0.86
28 3 0.01
29 1 0.00
31 2 0.01
32 1 0.00
33 1 0.00
34 2 0.01
36 1 0.00
37 2 0.01
38 17 0.08
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:50121292 original size:38 final size:39
Alignment explanation
Indices: 50121277--50121357 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 39
50121267 TAATTACCAT
* * *
50121277 TTTA-CCCCCGATTTACATAATTACCATTTTACCCCCGT
1 TTTACCCCCCGACTTACAGAATTACCATTTTACCCCCGA
* * *
50121315 TTTA-CCCTCGACTTACAGAATTACCGTTTTACCCTCGA
1 TTTACCCCCCGACTTACAGAATTACCATTTTACCCCCGA
50121353 TTTAC
1 TTTAC
50121358 AAAATTATCG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.23, C:0.32, G:0.07, T:0.37
Consensus pattern (39 bp):
TTTACCCCCCGACTTACAGAATTACCATTTTACCCCCGA
Found at i:50121302 original size:81 final size:81
Alignment explanation
Indices: 50121171--50121446 Score: 311
Period size: 81 Copynumber: 3.3 Consensus size: 81
50121161 ATTATTGAAG
* * *
50121171 TACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTATAGAAGTACCATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTTGATT
50121236 TACAGAATTACCATTT
66 TACAGAATTACCATTT
* * * * *
50121252 TACCC-CTGATTTACATAATTACCATTTTACCCCCGATTTACATAATTACCATTTTACCCCCGTT
1 TACCCTC-GATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTA--CCC---
* *
50121316 TTACCCTCGACTTACAGAATTACCGTTT
60 -T----T-GATTTACAGAATTACCATTT
* * *
50121344 TACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTTGATT
*
50121409 TACAGAATTACTATTT
66 TACAGAATTACCATTT
50121425 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
50121447 AGAAATACCC
Statistics
Matches: 163, Mismatches: 19, Indels: 26
0.78 0.09 0.12
Matches are distributed among these distances:
80 1 0.01
81 87 0.53
82 1 0.01
83 3 0.02
86 1 0.01
87 1 0.01
90 3 0.02
91 1 0.01
92 64 0.39
93 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTTGATT
TACAGAATTACCATTT
Found at i:50121318 original size:65 final size:65
Alignment explanation
Indices: 50121249--50121374 Score: 173
Period size: 65 Copynumber: 1.9 Consensus size: 65
50121239 AGAATTACCA
* * *
50121249 TTTTACCC-CTGATTTACATAATTACCATTTTACCCCCGATTTACATAATTACCATTTTACCCCC
1 TTTTACCCTC-GACTTACAGAATTACCATTTTACCCCCGATTTACAAAATTACCATTTTACCCCC
50121313 G
65 G
* * * *
50121314 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACC
1 TTTTACCCTCGACTTACAGAATTACCATTTTACCCCCGATTTACAAAATTACCATTTTACC
50121375 GTCGATTTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
65 52 0.98
66 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (65 bp):
TTTTACCCTCGACTTACAGAATTACCATTTTACCCCCGATTTACAAAATTACCATTTTACCCCCG
Found at i:50121331 original size:92 final size:92
Alignment explanation
Indices: 50121222--50121402 Score: 247
Period size: 92 Copynumber: 2.0 Consensus size: 92
50121212 AGAAGTACCA
* * *
50121222 TTTTACCCTTGATTTACAGAATTACCATTTTACCC-CTGATTTACATAATTACCATTTTACCCCC
1 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTC-GATTTACAAAATTACCATTTTACCCCC
*
50121286 GATTTACATAATTACCATTTTACCCCCG
65 GATTTACAGAATTACCATTTTACCCCCG
* * * **
50121314 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTCG
1 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCCCG
* *
50121379 ATTTATAGAATTACTATTTTACCC
66 ATTTACAGAATTACCATTTTACCC
50121403 TTGATTTACA
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
92 76 0.99
93 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.07, T:0.40
Consensus pattern (92 bp):
TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCCCG
ATTTACAGAATTACCATTTTACCCCCG
Found at i:50121409 original size:119 final size:119
Alignment explanation
Indices: 50121192--50121438 Score: 316
Period size: 119 Copynumber: 2.1 Consensus size: 119
50121182 TACATAATTA
* * * *
50121192 CCGTTTTACCCTCGATTTATAGAAGTACCATTTTACCCTTGATTTACAGAATTACCATTTTACCC
1 CCGTTTTACCCTCGACTTACAGAAGTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCC
* *
50121257 CTGATTTACATAATTACCATTTTACCCCCGATTTACATAATTACCATTTTACCC
66 CTGATTTACAGAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACCC
* * * *
50121311 CCGTTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTA-CC
1 CCGTTTTACCCTCGACTTACAGAAGTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCC
* * * ** *
50121375 GTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCC
66 CT-GATTTACAGAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACCC
* *
50121430 TCGATTTAC
1 CCGTTTTAC
50121439 AAAATTACAG
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
118 3 0.03
119 106 0.97
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (119 bp):
CCGTTTTACCCTCGACTTACAGAAGTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCC
CTGATTTACAGAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACCC
Found at i:50121455 original size:27 final size:27
Alignment explanation
Indices: 50121425--50121684 Score: 158
Period size: 27 Copynumber: 9.6 Consensus size: 27
50121415 ATTACTATTT
**
50121425 TACCCTCGATTTACAAAATTACAGAAA
1 TACCCTCGATTTGTAAAATTACAGAAA
*
50121452 TACCCTCAATTTGTAAAATTACCA-AAA
1 TACCCTCGATTTGTAAAATTA-CAGAAA
*
50121479 TACCC-CTAGTTTGTAAAATTACCA-AAA
1 TACCCTCGA-TTTGTAAAATTA-CAGAAA
*
50121506 TACCC-CTAGTTTGTAAAATTACCA-AAA
1 TACCCTCGA-TTTGTAAAATTA-CAGAAA
* * *
50121533 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACAGAAA
*
50121560 TACCCTCAATTTGTAAAATTACCA-AAA
1 TACCCTCGATTTGTAAAATTA-CAGAAA
** *
50121587 TACCC-CTGATTTACAAAGTTACAGAAA
1 TACCCTC-GATTTGTAAAATTACAGAAA
* * * *
50121614 TGCCCTTGACTTTCTAAAAATTATAGAAA
1 TACCCTCGA-TTTGT-AAAATTACAGAAA
* * * ** *
50121643 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTGTAAAATTACAGAAA
* *
50121670 TACCCTTGGTTTGTA
1 TACCCTCGATTTGTA
50121685 GATTTACCAA
Statistics
Matches: 189, Mismatches: 32, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
26 8 0.04
27 154 0.81
28 10 0.05
29 17 0.09
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACAGAAA
Found at i:50121456 original size:146 final size:146
Alignment explanation
Indices: 50121171--50121456 Score: 376
Period size: 146 Copynumber: 2.0 Consensus size: 146
50121161 ATTATTGAAG
* * * * *
50121171 TACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTATAGAAGTACCATTTTACCCTTGATT
1 TACCCCCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACCATTTTACCCTCGATT
* *
50121236 TACAGAATTACCATTTTACCCCTGATTTACATAATTACCATTTTACCCCCGATTTACATAATTAC
66 TACAGAATTACCATTTTACCCCTGATTTACAGAATTACCATTTTACCCCCGATTTACAAAATTAC
***
50121301 CATTTTACCCCCGTTT
131 CAAAATACCCCCGTTT
* * * * *
50121317 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTCGATT
1 TACCCCCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACCATTTTACCCTCGATT
* * * * *
50121382 TATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTA-
66 TACAGAATTACCATTTTACCCCTGATTTACAGAATTACCATTTTACCCCCGATTTACAAAATTAC
50121446 CAGAAATACCC
131 CA-AAATACCC
50121457 TCAATTTGTA
Statistics
Matches: 119, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
145 2 0.02
146 117 0.98
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (146 bp):
TACCCCCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACCATTTTACCCTCGATT
TACAGAATTACCATTTTACCCCTGATTTACAGAATTACCATTTTACCCCCGATTTACAAAATTAC
CAAAATACCCCCGTTT
Found at i:50121472 original size:54 final size:53
Alignment explanation
Indices: 50121425--50121619 Score: 214
Period size: 54 Copynumber: 3.6 Consensus size: 53
50121415 ATTACTATTT
50121425 TACCCTCGATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCC-CGATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAA
* ** *
50121479 TACCCCTAGTTTGTAAAATTACCA-AAATACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCCGA-TTTACAAAATTA-CAGAAATACCCTC-AATTTGTAAAATTACCAAAA
* * *** *
50121533 TACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACC-CCGATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAA
* *
50121587 TACCCCTGATTTACAAAGTTACAGAAATGCCCT
1 TACCCC-GATTTACAAAATTACAGAAATACCCT
50121620 TGACTTTCTA
Statistics
Matches: 116, Mismatches: 18, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
53 5 0.04
54 107 0.92
55 4 0.03
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (53 bp):
TACCCCGATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAA
Found at i:50121472 original size:81 final size:81
Alignment explanation
Indices: 50121314--50121473 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 81
50121304 TTTACCCCCG
* *** * *
50121314 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTCG
1 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGAAATACCCTCA
*
50121379 ATTTATAGAATTACTA
66 ATTTATAAAATTACTA
* * *
50121395 TTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTA-CAGAAATACCCTC
1 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATC-GAAATACCCTC
*
50121459 AATTTGTAAAATTAC
65 AATTTATAAAATTAC
50121474 CAAAATACCC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
80 1 0.01
81 66 0.99
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (81 bp):
TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGAAATACCCTCA
ATTTATAAAATTACTA
Found at i:50121510 original size:81 final size:79
Alignment explanation
Indices: 50121425--50121619 Score: 223
Period size: 81 Copynumber: 2.4 Consensus size: 79
50121415 ATTACTATTT
*
50121425 TACCCTCGATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCC-CTAGT
1 TACCC-CGATTTACAAAATTACAGAAATACCCT-AATTTGTAAAATTACCAAAATACCCTC-AAT
50121489 TTGTAAAATTACCAAAA
63 TTGTAAAATTACCAAAA
* ** ** * *
50121506 TACCCCTAGTTTGTAAAATTACCA-AAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAAT
1 TACCCCGA-TTTACAAAATTA-CAGAAATACC-CTAATTTGTAAAATTACCAAAATACCCTCAAT
50121570 TTGTAAAATTACCAAAA
63 TTGTAAAATTACCAAAA
* *
50121587 TACCCCTGATTTACAAAGTTACAGAAATGCCCT
1 TACCCC-GATTTACAAAATTACAGAAATACCCT
50121620 TGACTTTCTA
Statistics
Matches: 95, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
80 6 0.06
81 83 0.87
82 6 0.06
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (79 bp):
TACCCCGATTTACAAAATTACAGAAATACCCTAATTTGTAAAATTACCAAAATACCCTCAATTTG
TAAAATTACCAAAA
Found at i:50121826 original size:27 final size:27
Alignment explanation
Indices: 50121735--50121826 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
50121725 ACCCCTATTG
* *
50121735 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAT
* *
50121762 GGTAAAGTGACCGTAAAGCCCCTGTAA
1 GGTAAAATGACCGTAAAGCCCCTGTAT
*
50121789 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAT
50121816 GGTAAAATGAC
1 GGTAAAATGAC
50121827 GAATATGCCC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAT
Found at i:50123084 original size:9 final size:9
Alignment explanation
Indices: 50123072--50123148 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
50123062 TTTGATAAAC
50123072 ATGATATGT
1 ATGATATGT
*
50123081 ATGATATGCAC
1 ATGATATG--T
50123092 ATGATATGT
1 ATGATATGT
*
50123101 ATGATATGCAC
1 ATGATATG--T
*
50123112 ATGACATGT
1 ATGATATGT
*
50123121 ATGATATGCAC
1 ATGATATG--T
50123132 ATGATATGT
1 ATGATATGT
50123141 ATGATATG
1 ATGATATG
50123149 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:50123097 original size:11 final size:11
Alignment explanation
Indices: 50123081--50123152 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
50123071 CATGATATGT
50123081 ATGATATGCAC
1 ATGATATGCAC
*
50123092 ATGATATG--T
1 ATGATATGCAC
50123101 ATGATATGCAC
1 ATGATATGCAC
* *
50123112 ATGACATG--T
1 ATGATATGCAC
50123121 ATGATATGCAC
1 ATGATATGCAC
*
50123132 ATGATATG--T
1 ATGATATGCAC
50123141 ATGATATGCAC
1 ATGATATGCAC
50123152 A
1 A
50123153 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:50123160 original size:20 final size:20
Alignment explanation
Indices: 50123070--50123152 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
50123060 ATTTTGATAA
50123070 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
50123090 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
50123110 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
50123130 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
50123150 ACA
1 ACA
50123153 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:50123263 original size:24 final size:23
Alignment explanation
Indices: 50123207--50123373 Score: 210
Period size: 24 Copynumber: 7.0 Consensus size: 23
50123197 GAGGAAGTGA
50123207 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
50123230 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
50123253 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
50123277 CAAAAGGGCTTACGCCCTAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
50123301 TAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
50123324 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
50123349 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
50123373 A
1 A
50123374 TGATAAAGCA
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
23 43 0.34
24 74 0.58
25 11 0.09
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:50123276 original size:47 final size:47
Alignment explanation
Indices: 50123207--50123373 Score: 212
Period size: 47 Copynumber: 3.5 Consensus size: 47
50123197 GAGGAAGTGA
*
50123207 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
50123253 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCTAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
50123301 TAAAGGGCTTATGCCCTAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
50123349 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
50123374 TGATAAAGCA
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
47 63 0.61
48 30 0.29
49 11 0.11
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:50123323 original size:71 final size:71
Alignment explanation
Indices: 50123207--50123372 Score: 244
Period size: 71 Copynumber: 2.3 Consensus size: 71
50123197 GAGGAAGTGA
* *
50123207 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
50123272 GTTATC
66 GTTATC
* * *
50123278 AAAAGGGCTTACGCCCTAGTTATTAAAGGGCTTATGCCCTAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
50123343 GTTATT
66 GTTATC
*
50123349 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
50123373 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
71 75 0.88
72 10 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:50123601 original size:31 final size:31
Alignment explanation
Indices: 50123566--50123629 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
50123556 CGTTTACAGT
* *
50123566 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
**
50123597 AAAGGCTTCGACCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
50123628 AA
1 AA
50123630 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:50124960 original size:64 final size:64
Alignment explanation
Indices: 50124890--50125024 Score: 193
Period size: 64 Copynumber: 2.1 Consensus size: 64
50124880 TTATATATTT
* * *
50124890 ACTTACCATACATGCAATATTAAAGCATTTAAAGTATG-GTACATATTGCATAAT-TCGCATATG
1 ACTTACCATACATGCAATATTAAAGAATTTAAAATA-GAGTACATATTACAT-ATCTCGCATATG
50124953 A
64 A
* *
50124954 ACTTACCATACATGCAATATTTAAGAATTTAAAATAGAGTACATATTACATTTCTCGCATATGA
1 ACTTACCATACATGCAATATTAAAGAATTTAAAATAGAGTACATATTACATATCTCGCATATGA
50125018 ACTTACC
1 ACTTACC
50125025 TCGATACCCT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
63 2 0.03
64 62 0.97
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (64 bp):
ACTTACCATACATGCAATATTAAAGAATTTAAAATAGAGTACATATTACATATCTCGCATATGA
Found at i:50129059 original size:40 final size:40
Alignment explanation
Indices: 50129015--50129127 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
50129005 TGCTGGAAAT
* * *
50129015 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* * *
50129055 TATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* *
50129095 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGC
50129128 ACGTGATTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.05
40 57 0.92
41 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:50137040 original size:40 final size:40
Alignment explanation
Indices: 50136974--50137124 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
50136964 AAATTGAATG
* * *
50136974 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
50137013 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
50137053 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
50137093 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
50137125 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:50139242 original size:40 final size:40
Alignment explanation
Indices: 50139134--50139383 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
50139124 CGGGATTTAA
* * * * *
50139134 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
50139174 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
50139214 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
50139254 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
50139294 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
50139334 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
50139374 CCGGATATAT
1 CCGGATATAT
50139384 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:50144642 original size:49 final size:49
Alignment explanation
Indices: 50144580--50144811 Score: 293
Period size: 49 Copynumber: 4.7 Consensus size: 49
50144570 CTGGTATGCA
* *
50144580 TAGTAGCCTGCACTTAATACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
* * ** *
50144629 TAGTAGCCCGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTGGTACACG
* ** * * * *
50144679 TTGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCTGGTACACG
*
50144730 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
*
50144779 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
50144812 TCACAATAGC
Statistics
Matches: 153, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 71 0.46
50 46 0.30
51 36 0.24
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
Found at i:50144743 original size:101 final size:98
Alignment explanation
Indices: 50144580--50144805 Score: 290
Period size: 100 Copynumber: 2.3 Consensus size: 98
50144570 CTGGTATGCA
* ** * *
50144580 TAGTAGCCTGCACTTAATACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCCGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACACGACCAATTATCAGGTACACATAGTAGCCCGCACTTA
*
50144645 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACC-AACCATCTGATACACG
* * * * *
50144679 TTGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACACGA-CCAA-TTATCAGGTACACATAGTAGCCCGCACT
* ** *
50144744 TAGTACTACACATGCGACCAATTATCTGGTACACG
64 TAGTACTACACACGCGACCAACCATCTGATACACG
50144779 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
50144806 GTGACCTCAC
Statistics
Matches: 109, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
99 26 0.24
100 42 0.39
101 41 0.38
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACACGACCAATTATCAGGTACACATAGTAGCCCGCACTTA
GTACTACACACGCGACCAACCATCTGATACACG
Found at i:50146685 original size:17 final size:17
Alignment explanation
Indices: 50146663--50146720 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
50146653 TTGTCACATA
50146663 AATTAAATTAATTAATG
1 AATTAAATTAATTAATG
*
50146680 AATTAATTTAATT--TG
1 AATTAAATTAATTAATG
50146695 ACTATTAAA-T-ATTAAATG
1 A--ATTAAATTAATT-AATG
50146713 AATTAAAT
1 AATTAAAT
50146721 GTACAAGCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 6 0.18
16 7 0.21
17 17 0.52
18 3 0.09
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (17 bp):
AATTAAATTAATTAATG
Found at i:50146828 original size:13 final size:13
Alignment explanation
Indices: 50146812--50146837 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50146802 TTATTTGCCG
50146812 AAATTATTATAAT
1 AAATTATTATAAT
50146825 AAATTATTATAAT
1 AAATTATTATAAT
50146838 TATGATTTCG
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:50149190 original size:20 final size:20
Alignment explanation
Indices: 50149141--50149206 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
50149131 ATTTTGATAA
*
50149141 ACATGGTATGTATGAT-TGC
1 ACATGATATGTATGATATGC
*
50149160 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
50149180 GCATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
50149200 ACATGAT
1 ACATGAT
50149207 GTATTCATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
19 14 0.34
20 27 0.66
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:50149283 original size:24 final size:24
Alignment explanation
Indices: 50149256--50149434 Score: 304
Period size: 24 Copynumber: 7.4 Consensus size: 24
50149246 GAGGAAGTGC
50149256 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
50149280 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
50149304 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
50149328 AAAAAGGGCTTATGCCCCAGTTATC
1 -AAAAGGGCTTATGCCCCAGTTATT
*
50149353 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
50149377 AAAAGGGCTTATTCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
50149401 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
50149425 AAAAGAGGCT
1 AAAAG-GGCT
50149435 AGGCCTACAG
Statistics
Matches: 148, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
24 121 0.82
25 27 0.18
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:50149446 original size:97 final size:97
Alignment explanation
Indices: 50149255--50149448 Score: 311
Period size: 97 Copynumber: 2.0 Consensus size: 97
50149245 GGAGGAAGTG
*
50149255 CAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCC
1 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCC
* *
50149320 CAGTTATTAAAAAGGGCTTATGCCCCAGTTAT
66 CAGTTATTAAAAAGGGCTTAGGCCACAGTTAT
* *
50149352 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATTCCCCAGTTATTAAAAGGGCTTTTGCCC
1 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCC
50149417 CAGTTATT-AAAAGAGGC-TAGGCCTACAGTTAT
66 CAGTTATTAAAAAG-GGCTTAGGCC-ACAGTTAT
50149449 ATGATAAAGT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
96 10 0.11
97 80 0.89
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (97 bp):
CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCC
CAGTTATTAAAAAGGGCTTAGGCCACAGTTAT
Found at i:50149448 original size:73 final size:73
Alignment explanation
Indices: 50149256--50149434 Score: 306
Period size: 73 Copynumber: 2.5 Consensus size: 73
50149246 GAGGAAGTGC
*
50149256 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
50149321 AGTTATTA
66 AGTTATTA
* *
50149329 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATTCCCC
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
50149394 AGTTATT-
66 AGTTATTA
*
50149401 AAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCT
50149435 AGGCCTACAG
Statistics
Matches: 100, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
72 27 0.27
73 73 0.73
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (73 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTATTA
Found at i:50153676 original size:40 final size:40
Alignment explanation
Indices: 50153610--50153776 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
50153600 AAATTGAATG
* * *
50153610 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
50153649 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
50153689 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
50153729 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
50153769 ATATCCGG
1 ATATCCGG
50153777 TTATATTCTG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:50160749 original size:11 final size:11
Alignment explanation
Indices: 50160713--50160768 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
50160703 CATGGTATGT
50160713 ATGATATGCAC
1 ATGATATGCAC
* *
50160724 ATGACATG--T
1 ATGATATGCAC
50160733 ATGATATGCAC
1 ATGATATGCAC
*
50160744 ATGATATG--T
1 ATGATATGCAC
50160753 ATGATATGCAC
1 ATGATATGCAC
50160764 ATGAT
1 ATGAT
50160769 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:50160768 original size:20 final size:20
Alignment explanation
Indices: 50160702--50160768 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
50160692 ATTTTGATAA
*
50160702 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
50160722 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
50160742 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
50160762 ACATGAT
1 ACATGAT
50160769 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:50160845 original size:24 final size:24
Alignment explanation
Indices: 50160818--50160994 Score: 311
Period size: 24 Copynumber: 7.4 Consensus size: 24
50160808 GAGGAAGTGC
50160818 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
50160842 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
50160866 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
50160890 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
50160914 AAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
50160938 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
50160962 -AAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
50160985 AAAAGAGGCT
1 AAAAG-GGCT
50160995 AGGCCTCTAG
Statistics
Matches: 146, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
23 22 0.15
24 120 0.82
25 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:50163070 original size:17 final size:18
Alignment explanation
Indices: 50163043--50163076 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
50163033 GATATGAAAA
50163043 ATGATTTTCAACACAATT
1 ATGATTTTCAACACAATT
*
50163061 ATGA-TTTCAACGCAAT
1 ATGATTTTCAACACAAT
50163077 ATATCTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (18 bp):
ATGATTTTCAACACAATT
Found at i:50168210 original size:27 final size:27
Alignment explanation
Indices: 50168180--50168271 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
50168170 ATTACCAAAG
*
50168180 TACCCTCGATTTCTAGAATTATTGTTT
1 TACCCTCGATTTCTAGAATTACTGTTT
** * *
50168207 TACCCTTAATTTATAGAATTACTATTT
1 TACCCTCGATTTCTAGAATTACTGTTT
* *
50168234 TACCCTCGATTTAC-AAAATTACCGTTT
1 TACCCTCGATTT-CTAGAATTACTGTTT
*
50168261 TACTCTCGATT
1 TACCCTCGATT
50168272 GTGAAATTAC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.45
Consensus pattern (27 bp):
TACCCTCGATTTCTAGAATTACTGTTT
Found at i:50168293 original size:27 final size:27
Alignment explanation
Indices: 50168263--50168396 Score: 94
Period size: 27 Copynumber: 5.0 Consensus size: 27
50168253 TACCGTTTTA
**
50168263 CTCTCGATTGTGAAATTACTGAAATAC
1 CTCTCGATTGTGAAATTACCAAAATAC
* *
50168290 CTCT--ATAGGGTAGAATTACCAAAATAC
1 CTCTCGATTGTG-A-AATTACCAAAATAC
* * * * *
50168317 CCCTAGTTTGTAAAATTATCAAAATAC
1 CTCTCGATTGTGAAATTACCAAAATAC
* * * *
50168344 CACTGGTTTGTGAAATTACCGAAATAC
1 CTCTCGATTGTGAAATTACCAAAATAC
*
50168371 C-CTCGATTTGTAAAATTACCAAAATA
1 CTCTCGA-TTGTGAAATTACCAAAATA
50168397 TCCCTGATTT
Statistics
Matches: 83, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
25 4 0.05
26 4 0.05
27 72 0.87
28 1 0.01
29 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.31
Consensus pattern (27 bp):
CTCTCGATTGTGAAATTACCAAAATAC
Found at i:50168405 original size:27 final size:26
Alignment explanation
Indices: 50168303--50168406 Score: 120
Period size: 27 Copynumber: 3.8 Consensus size: 26
50168293 TATAGGGTAG
50168303 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATA-CCCTGA-TTTGTAA
* * *
50168330 AATTATCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTGATTTGTAA
*
50168357 AATTACCGAAATACCCTCGATTTGTAA
1 AATTACCAAAATACCCT-GATTTGTAA
50168384 AATTACCAAAATATCCCTGATTT
1 AATTACCAAAATA-CCCTGATTT
50168407 ACACAATTAC
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
26 4 0.06
27 57 0.88
28 4 0.06
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (26 bp):
AATTACCAAAATACCCTGATTTGTAA
Found at i:50168414 original size:27 final size:27
Alignment explanation
Indices: 50168303--50168427 Score: 78
Period size: 27 Copynumber: 4.6 Consensus size: 27
50168293 TATAGGGTAG
* **
50168303 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTCGA-TTTACAA
* * ***
50168330 AATTATCAAAATACCACT-GGTTTGTGA
1 AATTACCAAAATACC-CTCGATTTACAA
* **
50168357 AATTACCGAAATACCCTCGATTTGTAA
1 AATTACCAAAATACCCTCGATTTACAA
*
50168384 AATTACCAAAATATCCCT-GATTTACAC
1 AATTACCAAAATA-CCCTCGATTTACAA
50168411 AATTA-CAGAAATACCCT
1 AATTACCA-AAATACCCT
50168428 TAACTTTCTA
Statistics
Matches: 81, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
26 8 0.10
27 68 0.84
28 5 0.06
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTACAA
Found at i:50168415 original size:54 final size:55
Alignment explanation
Indices: 50168303--50168504 Score: 146
Period size: 54 Copynumber: 3.7 Consensus size: 55
50168293 TATAGGGTAG
* * * * **
50168303 AATTACCAAAATACCC-CTAGTTTGTAAAATTATCAAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCCTCGAGTTTGTAAAATTACCAAAATACCACTGATTTGACA
50168357 AATTACCGAAATACCCTCGA-TTTGTAAAATTACCAAAATATCC-CTGATTT-ACA
1 AATTACCGAAATACCCTCGAGTTTGTAAAATTACCAAAATA-CCACTGATTTGACA
* ** * * ** * *
50168410 CAATTACAGAAATACCCTTAACTTTCTAAAAATTATAAAAATACCATTGGTTT-ACAA
1 -AATTACCGAAATACCCTCGAGTTTGT-AAAATTACCAAAATACCACTGATTTGAC-A
* * * * *
50168467 AAATACTGAAATACCCTTG-GTTTGTAGATTTACCAAAA
1 AATTACCGAAATACCCTCGAGTTTGTAAAATTACCAAAA
50168505 CACCCTTGTA
Statistics
Matches: 118, Mismatches: 23, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
53 1 0.01
54 66 0.56
55 14 0.12
56 36 0.31
57 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (55 bp):
AATTACCGAAATACCCTCGAGTTTGTAAAATTACCAAAATACCACTGATTTGACA
Found at i:50168415 original size:81 final size:81
Alignment explanation
Indices: 50168270--50168425 Score: 185
Period size: 81 Copynumber: 1.9 Consensus size: 81
50168260 TTACTCTCGA
* * * *
50168270 TTGTGAAATTACTGAAATACCTCTATAGGGTAGAATTACCAAAATACCCCTAGTTTGTAAAATTA
1 TTGTGAAATTACCGAAATACCTCGATAGGGTAAAATTACCAAAATACCCCTAGATTGTAAAATTA
50168335 TCA-AAATACCACTGGT
66 -CAGAAATACCACTGGT
** *
50168351 TTGTGAAATTACCGAAATACCCTCGAT-TTGTAAAATTACCAAAATATCCCT-GATT-TACACAA
1 TTGTGAAATTACCGAAATA-CCTCGATAGGGTAAAATTACCAAAATACCCCTAGATTGTA-A-AA
50168413 TTACAGAAATACC
63 TTACAGAAATACC
50168426 CTTAACTTTC
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
79 2 0.03
80 6 0.09
81 50 0.78
82 6 0.09
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (81 bp):
TTGTGAAATTACCGAAATACCTCGATAGGGTAAAATTACCAAAATACCCCTAGATTGTAAAATTA
CAGAAATACCACTGGT
Found at i:50169491 original size:24 final size:25
Alignment explanation
Indices: 50169428--50169484 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
50169418 AGGGCCATGC
* * *
50169428 CCCAGTTTACCGAAAAGGGCTTTGT
1 CCCAGTTTATCAAAAAGGGCTTTGG
50169453 CCCAGTTTATCAAAAAGGGC-TTGG
1 CCCAGTTTATCAAAAAGGGCTTTGG
50169477 CCTCAGTT
1 CC-CAGTT
50169485 ATTAAAAGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (25 bp):
CCCAGTTTATCAAAAAGGGCTTTGG
Found at i:50169740 original size:30 final size:31
Alignment explanation
Indices: 50169704--50169773 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
50169694 CGCTTACAGT
*
50169704 AAAGGCTTCGGAC-AGTGATATGATTTATGA
1 AAAGGCTTCGGACTAGTGATATGATTTATAA
*
50169734 AAAGGCTTCGGCCTAGTGATATGATTTATAA
1 AAAGGCTTCGGACTAGTGATATGATTTATAA
50169765 AAAGGCTTC
1 AAAGGCTTC
50169774 AGCCCAGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
30 12 0.32
31 25 0.68
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGACTAGTGATATGATTTATAA
Found at i:50169755 original size:31 final size:30
Alignment explanation
Indices: 50169704--50169786 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 30
50169694 CGCTTACAGT
* *
50169704 AAAGGCTTCGGACAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAGTGATATGATTTATAA
50169734 AAAGGCTTCGGCCTAGTGATATGATTTATAA
1 AAAGGCTTCGGCC-AGTGATATGATTTATAA
*
50169765 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTC-GGCCAGTGATATG
50169787 TCGAGACTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
30 17 0.35
31 28 0.58
32 3 0.06
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTGATATGATTTATAA
Found at i:50171008 original size:27 final size:27
Alignment explanation
Indices: 50170957--50171041 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
50170947 GTAAGCTAGC
* *
50170957 ATTATTGAAATACACCTATAAGGTAGA
1 ATTATTGAAATACCCCTATAGGGTAGA
*
50170984 ATTATTGAAATACCCCTGTAGGGTAGA
1 ATTATTGAAATACCCCTATAGGGTAGA
* * *
50171011 ATTACTGGAATGCCCCTATAGGGTAGA
1 ATTATTGAAATACCCCTATAGGGTAGA
50171038 ATTA
1 ATTA
50171042 CCAAAATACC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.29
Consensus pattern (27 bp):
ATTATTGAAATACCCCTATAGGGTAGA
Found at i:50171042 original size:27 final size:27
Alignment explanation
Indices: 50170957--50171052 Score: 111
Period size: 27 Copynumber: 3.6 Consensus size: 27
50170947 GTAAGCTAGC
* * *
50170957 ATTATTGAAATACACCTATAAGGTAGA
1 ATTACTGAAATACCCCTATAGGGTAGA
* *
50170984 ATTATTGAAATACCCCTGTAGGGTAGA
1 ATTACTGAAATACCCCTATAGGGTAGA
* *
50171011 ATTACTGGAATGCCCCTATAGGGTAGA
1 ATTACTGAAATACCCCTATAGGGTAGA
**
50171038 ATTACCAAAATACCC
1 ATTACTGAAATACCC
50171053 TTGGTTTATA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
ATTACTGAAATACCCCTATAGGGTAGA
Found at i:50171064 original size:27 final size:27
Alignment explanation
Indices: 50171034--50171134 Score: 132
Period size: 27 Copynumber: 3.7 Consensus size: 27
50171024 CCCTATAGGG
50171034 TAGAATTACCAAAATACCCTTGGTTTA
1 TAGAATTACCAAAATACCCTTGGTTTA
50171061 TAGAATTACCAAAATACCCTTGGTTTA
1 TAGAATTACCAAAATACCCTTGGTTTA
* * * *
50171088 CA-AGATTACCAAAATACCCCTGATTTG
1 TAGA-ATTACCAAAATACCCTTGGTTTA
* *
50171115 TAAAATTACCGAAATACCCT
1 TAGAATTACCAAAATACCCT
50171135 CGACCTGTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.02
27 63 0.97
28 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
TAGAATTACCAAAATACCCTTGGTTTA
Found at i:50171150 original size:54 final size:54
Alignment explanation
Indices: 50171037--50171296 Score: 236
Period size: 54 Copynumber: 4.8 Consensus size: 54
50171027 TATAGGGTAG
* * * * * * **
50171037 AATTACCAAAATACCCTTGGTTTATAGAATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGATTTGTAAAATTACCGAAATACCCTCGATTTGTAA
* * **
50171091 GATTACCAAAATACCCCTGATTTGTAAAATTACCGAAATACCCTCGACCTGTAA
1 AATTACCAAAATACCCTTGATTTGTAAAATTACCGAAATACCCTCGATTTGTAA
* * *
50171145 AATTACCCGAAATA-CCTTCGACTTGTAAAATTATCGAAATACCCTCGATTTGTAA
1 AATTA-CCAAAATACCCTT-GATTTGTAAAATTACCGAAATACCCTCGATTTGTAA
* * * * * ** *
50171200 AGTTACCAAAATACCCCTAATTTGGAAAAGTACCGAAATACCCTTAATTTGGAA
1 AATTACCAAAATACCCTTGATTTGTAAAATTACCGAAATACCCTCGATTTGTAA
* **
50171254 AATTA-CAGAAATACCCTTGACTTTCTAAAATTATAGAAATACC
1 AATTACCA-AAATACCCTTGA-TTTGTAAAATTACCGAAATACC
50171297 ATTGGTTTGC
Statistics
Matches: 163, Mismatches: 38, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
53 2 0.01
54 98 0.60
55 63 0.39
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (54 bp):
AATTACCAAAATACCCTTGATTTGTAAAATTACCGAAATACCCTCGATTTGTAA
Found at i:50171165 original size:28 final size:27
Alignment explanation
Indices: 50171092--50171296 Score: 171
Period size: 27 Copynumber: 7.5 Consensus size: 27
50171082 GGTTTACAAG
* *
50171092 ATTACCAAAATACCC-CTGATTTGTAAA
1 ATTACCGAAATACCCTC-GACTTGTAAA
*
50171119 ATTACCGAAATACCCTCGACCTGTAAA
1 ATTACCGAAATACCCTCGACTTGTAAA
*
50171146 ATTACCCGAAATACCTTCGACTTGTAAA
1 ATTA-CCGAAATACCCTCGACTTGTAAA
* *
50171174 ATTATCGAAATACCCTCGATTTGTAAA
1 ATTACCGAAATACCCTCGACTTGTAAA
* * * * *
50171201 GTTACCAAAATACCC-CTAATTTGGAAA
1 ATTACCGAAATACCCTC-GACTTGTAAA
* ** * *
50171228 AGTACCGAAATACCCTTAATTTGGAAA
1 ATTACCGAAATACCCTCGACTTGTAAA
* * *
50171255 ATTACAGAAATACCCTTGACTTTCTAAA
1 ATTACCGAAATACCCTCGAC-TTGTAAA
**
50171283 ATTATAGAAATACC
1 ATTACCGAAATACC
50171297 ATTGGTTTGC
Statistics
Matches: 149, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.01
27 104 0.70
28 44 0.30
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (27 bp):
ATTACCGAAATACCCTCGACTTGTAAA
Found at i:50171183 original size:55 final size:54
Alignment explanation
Indices: 50171092--50171214 Score: 158
Period size: 55 Copynumber: 2.3 Consensus size: 54
50171082 GGTTTACAAG
* *
50171092 ATTACCAAAATACC-CCTGATTTGTAAAATTACCGAAATACCCTCGACCTGTAAA
1 ATTACCAAAATACCTTC-GACTTGTAAAATTACCGAAATACCCTCGACCTGTAAA
* * **
50171146 ATTACCCGAAATACCTTCGACTTGTAAAATTATCGAAATACCCTCGATTTGTAAA
1 ATTA-CCAAAATACCTTCGACTTGTAAAATTACCGAAATACCCTCGACCTGTAAA
*
50171201 GTTACCAAAATACC
1 ATTACCAAAATACC
50171215 CCTAATTTGG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 13 0.22
55 45 0.76
56 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (54 bp):
ATTACCAAAATACCTTCGACTTGTAAAATTACCGAAATACCCTCGACCTGTAAA
Found at i:50171311 original size:28 final size:28
Alignment explanation
Indices: 50171252--50171323 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
50171242 CTTAATTTGG
* *
50171252 AAAATTACAGAAATACCCTTGACTTTCT
1 AAAATTACAGAAATACCATTGACTTTCA
* *
50171280 AAAATTATAGAAATACCATTG-GTTTGCA
1 AAAATTACAGAAATACCATTGACTTT-CA
*
50171308 AAAA-TACTGAAATACC
1 AAAATTACAGAAATACC
50171324 CTTAGTTTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 13 0.35
28 24 0.65
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (28 bp):
AAAATTACAGAAATACCATTGACTTTCA
Found at i:50171321 original size:109 final size:109
Alignment explanation
Indices: 50171072--50171324 Score: 285
Period size: 109 Copynumber: 2.3 Consensus size: 109
50171062 AGAATTACCA
* * * * * *
50171072 AAATACCCTTGGTTTACAAGATTACCAAAATACCCCTGATTTGTAAAATTACCGAAATACCCTCG
1 AAATACCCTTGGTTTGCAAAATTACCAAAATACCCCTAATTTGGAAAAGTACCGAAATACCCTCA
* * * *
50171137 ACCTGTAAAATTACCCGAAATACCTTCGACTTGTAAAATTATCG
66 ACCTGGAAAATTACCAGAAATACCTTCGACTTCTAAAATTATAG
* * * * *
50171181 AAATACCCTCGATTTGTAAAGTTACCAAAATACCCCTAATTTGGAAAAGTACCGAAATACCCTTA
1 AAATACCCTTGGTTTGCAAAATTACCAAAATACCCCTAATTTGGAAAAGTACCGAAATACCCTCA
**
50171246 ATTTGGAAAATTA-CAGAAATACCCTT-GACTTTCTAAAATTATAG
66 ACCTGGAAAATTACCAGAAATA-CCTTCGAC-TTCTAAAATTATAG
* * **
50171290 AAATACCATTGGTTTGCAAAAATACTGAAATACCC
1 AAATACCCTTGGTTTGCAAAATTACCAAAATACCC
50171325 TTAGTTTGTA
Statistics
Matches: 117, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
108 10 0.09
109 107 0.91
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.28
Consensus pattern (109 bp):
AAATACCCTTGGTTTGCAAAATTACCAAAATACCCCTAATTTGGAAAAGTACCGAAATACCCTCA
ACCTGGAAAATTACCAGAAATACCTTCGACTTCTAAAATTATAG
Found at i:50171406 original size:27 final size:27
Alignment explanation
Indices: 50171372--50171434 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
50171362 AAATGACTAA
50171372 AATACCCCTAATAG-GTAAAAAGACCGT
1 AATACCCCT-ATAGTGTAAAAAGACCGT
* **
50171399 AATCCCCCTATAGTGTAAAGTGACCGT
1 AATACCCCTATAGTGTAAAAAGACCGT
50171426 AATACCCCT
1 AATACCCCT
50171435 TCTCTCTGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (27 bp):
AATACCCCTATAGTGTAAAAAGACCGT
Found at i:50172831 original size:26 final size:27
Alignment explanation
Indices: 50172802--50172856 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
50172792 TTTACCACAC
*
50172802 TTATTGTTACTGGCAGCTATGCTGCGT
1 TTATTATTACTGGCAGCTATGCTGCGT
*
50172829 TATCATTATTACTGGCAGCTTTGCTGCG
1 T-T-ATTATTACTGGCAGCTATGCTGCG
50172857 ATATTAGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 1 0.04
29 22 0.92
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (27 bp):
TTATTATTACTGGCAGCTATGCTGCGT
Found at i:50173041 original size:33 final size:33
Alignment explanation
Indices: 50173004--50173132 Score: 188
Period size: 33 Copynumber: 3.9 Consensus size: 33
50172994 CTACTGTTTA
*
50173004 AGGGCTAAGGCCCAGACTGTACTGATACTGAAT
1 AGGGCTAAGGCCCAGACTATACTGATACTGAAT
*
50173037 AGGGC-ATTGGCCCAGACTATACTGATACTGAAT
1 AGGGCTA-AGGCCCAGACTATACTGATACTGAAT
* *
50173070 AGGGCTTAGGCCCAGACTGTACTGATACTGAAT
1 AGGGCTAAGGCCCAGACTATACTGATACTGAAT
**
50173103 AGGGCTTTGGCCCAGACTATACTGATACTG
1 AGGGCTAAGGCCCAGACTATACTGATACTG
50173133 TGTTATTCAC
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 86 0.99
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (33 bp):
AGGGCTAAGGCCCAGACTATACTGATACTGAAT
Found at i:50173081 original size:66 final size:66
Alignment explanation
Indices: 50173004--50173132 Score: 240
Period size: 66 Copynumber: 2.0 Consensus size: 66
50172994 CTACTGTTTA
50173004 AGGGCTAAGGCCCAGACTGTACTGATACTGAATAGGGCATTGGCCCAGACTATACTGATACTGAA
1 AGGGCTAAGGCCCAGACTGTACTGATACTGAATAGGGCATTGGCCCAGACTATACTGATACTGAA
50173069 T
66 T
* *
50173070 AGGGCTTAGGCCCAGACTGTACTGATACTGAATAGGGCTTTGGCCCAGACTATACTGATACTG
1 AGGGCTAAGGCCCAGACTGTACTGATACTGAATAGGGCATTGGCCCAGACTATACTGATACTG
50173133 TGTTATTCAC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (66 bp):
AGGGCTAAGGCCCAGACTGTACTGATACTGAATAGGGCATTGGCCCAGACTATACTGATACTGAA
T
Found at i:50175197 original size:27 final size:27
Alignment explanation
Indices: 50175159--50175254 Score: 138
Period size: 27 Copynumber: 3.6 Consensus size: 27
50175149 GTAAGCTAGC
*
50175159 ATTACTTAAATACCCCTATAGGGTAGA
1 ATTACTGAAATACCCCTATAGGGTAGA
* *
50175186 ATTATTGAAATACCCCTGTAGGGTAGA
1 ATTACTGAAATACCCCTATAGGGTAGA
*
50175213 ATTACTGAAATGCCCCTATAGGGTAGA
1 ATTACTGAAATACCCCTATAGGGTAGA
**
50175240 ATTACCAAAATACCC
1 ATTACTGAAATACCC
50175255 TTGGTTTATA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (27 bp):
ATTACTGAAATACCCCTATAGGGTAGA
Found at i:50175371 original size:53 final size:54
Alignment explanation
Indices: 50175295--50175443 Score: 185
Period size: 53 Copynumber: 2.8 Consensus size: 54
50175285 GTTTACAAGA
* * *
50175295 TTACCAAAATACCCCTAATTTGTAAAATTACCGAAATACCCTCGACCTGTAAA-
1 TTACCAAAATACCCCTGACTTGTAAAATTACCGAAATACCCTCGACCTGCAAAG
* * **
50175348 TTACCGAAATA-CCTTCGACTTGTAAAATTACCGAAATACCCTCGATTTGCAAAG
1 TTACCAAAATACCCCT-GACTTGTAAAATTACCGAAATACCCTCGACCTGCAAAG
* * *
50175402 TTACCAAAATACCCCTGATTTGGAAAAGTACCGAAATACCCT
1 TTACCAAAATACCCCTGACTTGTAAAATTACCGAAATACCCT
50175444 TAATTTGGAA
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
52 3 0.04
53 42 0.52
54 33 0.41
55 3 0.04
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.26
Consensus pattern (54 bp):
TTACCAAAATACCCCTGACTTGTAAAATTACCGAAATACCCTCGACCTGCAAAG
Found at i:50175530 original size:27 final size:27
Alignment explanation
Indices: 50175239--50175527 Score: 215
Period size: 27 Copynumber: 10.7 Consensus size: 27
50175229 TATAGGGTAG
* * ** *
50175239 AATTACCAAAATACCCTTGGTTTATAG
1 AATTACCGAAATACCCTTGATTTGCAA
* * * *
50175266 AATTACCAAAATACGCTTGGTTTACAA
1 AATTACCGAAATACCCTTGATTTGCAA
* * * * *
50175293 GATTACCAAAATACCCCTAATTTGTAA
1 AATTACCGAAATACCCTTGATTTGCAA
* ** *
50175320 AATTACCGAAATACCCTCGACCTG-TA
1 AATTACCGAAATACCCTTGATTTGCAA
* *
50175346 AATTACCGAAATA-CCTTCGACTTGTAA
1 AATTACCGAAATACCCTT-GATTTGCAA
*
50175373 AATTACCGAAATACCCTCGATTTGCAA
1 AATTACCGAAATACCCTTGATTTGCAA
* * * *
50175400 AGTTACCAAAATACCCCTGATTTGGAA
1 AATTACCGAAATACCCTTGATTTGCAA
* * *
50175427 AAGTACCGAAATACCCTTAATTTGGAA
1 AATTACCGAAATACCCTTGATTTGCAA
*
50175454 AATTACAGAAATACCCTTGACTTT-CTAA
1 AATTACCGAAATACCCTTGA-TTTGC-AA
** * *
50175482 AATTATAGAAATACCATTGGTTTGCAA
1 AATTACCGAAATACCCTTGATTTGCAA
* *
50175509 AAATACTGAAATACCCTTG
1 AATTACCGAAATACCCTTG
50175528 GTTCGTAGAT
Statistics
Matches: 211, Mismatches: 45, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
25 3 0.01
26 19 0.09
27 163 0.77
28 26 0.12
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGATTTGCAA
Found at i:50175606 original size:27 final size:27
Alignment explanation
Indices: 50175572--50175634 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
50175562 AAATGACTAA
50175572 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-ATAGGGTAAAAAGACCGT
* **
50175599 AATGCCCCTATAGGGTAAAGTGACCGT
1 AATACCCCTATAGGGTAAAAAGACCGT
50175626 AATACCCCT
1 AATACCCCT
50175635 TCTCTCCGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (27 bp):
AATACCCCTATAGGGTAAAAAGACCGT
Found at i:50177257 original size:33 final size:32
Alignment explanation
Indices: 50177215--50177335 Score: 179
Period size: 33 Copynumber: 3.7 Consensus size: 32
50177205 TAAGGGCTAA
50177215 GGCCCAGACTGTACTGATACTGAATAGGGCATT
1 GGCCCAGACTGTACTGATACTGAATAGGGC-TT
*
50177248 GGCCTAGACTGTACTGATACTGAATAGGGCTT
1 GGCCCAGACTGTACTGATACTGAATAGGGCTT
* *
50177280 CAGCCCAGACTGTACTGATACTGAGTAGGGCTTT
1 -GGCCCAGACTGTACTGATACTGAATAGGGC-TT
*
50177314 GGCCCAGACTATACTGATACTG
1 GGCCCAGACTGTACTGATACTG
50177336 TGTTATTCAC
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 2 0.03
33 76 0.95
34 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (32 bp):
GGCCCAGACTGTACTGATACTGAATAGGGCTT
Found at i:50182078 original size:24 final size:24
Alignment explanation
Indices: 50182050--50182126 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
50182040 AAGGCTGTCA
* *
50182050 GGAGAGGATTTAAGTGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
50182074 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
50182098 AGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
50182122 GGAGA
1 GGAGA
50182127 ACAGTGTTGG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.34, C:0.04, G:0.40, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:50185222 original size:30 final size:30
Alignment explanation
Indices: 50185186--50185316 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
50185176 GACAAGATTG
* * * * *
50185186 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
50185216 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
50185244 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
50185274 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
50185303 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50185317 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:50185277 original size:58 final size:58
Alignment explanation
Indices: 50185186--50185316 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
50185176 GACAAGATTG
* * * * * *
50185186 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
50185244 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
50185303 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50185317 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:50193173 original size:30 final size:30
Alignment explanation
Indices: 50193137--50193267 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
50193127 GACAAGATTG
* * * * *
50193137 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
50193167 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
50193195 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
50193225 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
50193254 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50193268 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:50193228 original size:58 final size:58
Alignment explanation
Indices: 50193137--50193267 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
50193127 GACAAGATTG
* * * * * *
50193137 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
50193195 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
50193254 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50193268 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:50194695 original size:27 final size:27
Alignment explanation
Indices: 50194657--50194764 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 27
50194647 GTGTTACATA
* *
50194657 GTGGCTATGCCACATTTATCTGATCTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
* *
50194684 GTGGCTCTGCCACATATATCTGTTTTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
*
50194711 GTGGCTCTGCCACAATTATCTGTTCTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
* ** *
50194738 GTGACTCTATCACA-TTATCTATTCTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
50194764 G
1 G
50194765 CTGCCATGCT
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
26 12 0.17
27 58 0.83
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (27 bp):
GTGGCTCTGCCACATTTATCTGTTCTG
Found at i:50201080 original size:24 final size:24
Alignment explanation
Indices: 50201047--50201100 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
50201037 AAGGCTATCA
*
50201047 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTAATAAG
* *
50201071 GGAGAGGATTTAGGAGCTAATTAG
1 GGAGAAGATTTAGGAGCTAATAAG
50201095 GGAGAA
1 GGAGAA
50201101 CGGTGTTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.39, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTAATAAG
Found at i:50206720 original size:27 final size:27
Alignment explanation
Indices: 50206680--50206790 Score: 161
Period size: 27 Copynumber: 4.1 Consensus size: 27
50206670 AGGAAGCGTC
* *
50206680 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
50206707 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
50206734 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* *
50206761 CTGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
50206787 CTGG
1 CTGG
50206791 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
26 13 0.17
27 64 0.83
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:50211890 original size:29 final size:29
Alignment explanation
Indices: 50211852--50211924 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
50211842 GTTGTGAGAT
* * *
50211852 TGGCAATAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
50211881 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
50211910 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
50211925 ATGGTTGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:50222801 original size:17 final size:18
Alignment explanation
Indices: 50222759--50222807 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
50222749 AGTTGAAAAG
50222759 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
50222778 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
50222795 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
50222808 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:50223693 original size:40 final size:40
Alignment explanation
Indices: 50223627--50223793 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
50223617 AAATTGAATG
* * *
50223627 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
50223666 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
50223706 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
50223746 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
50223786 ATATCCGG
1 ATATCCGG
50223794 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:50232614 original size:27 final size:27
Alignment explanation
Indices: 50232575--50232735 Score: 225
Period size: 27 Copynumber: 6.0 Consensus size: 27
50232565 TAAATTAATT
* *
50232575 AAATGACTATTTTACCTTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
* *
50232602 AAATGACTGTTTTGCCCTTATGTGATA
1 AAATGACTATTTTGCCCTTATGTGGTA
* *
50232629 AAATGACTGTTTTGCCCTTATGTAGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
*
50232656 AAATAACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
*
50232683 AAATAACTATTTTGCCCTTATAG-GGTA
1 AAATGACTATTTTGCCCTTAT-GTGGTA
*
50232710 AGATGACTATTTTGCCCTTATGTGGT
1 AAATGACTATTTTGCCCTTATGTGGT
50232736 GTATGCATAT
Statistics
Matches: 121, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.01
27 119 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.41
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATGTGGTA
Found at i:50233017 original size:23 final size:24
Alignment explanation
Indices: 50232991--50233035 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
50232981 ATATCCCCAC
* *
50232991 ATGGTGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
50233014 ATGGAGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
50233036 GTAGGACTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:50233114 original size:18 final size:18
Alignment explanation
Indices: 50233051--50233112 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
50233041 ACTTGTATAC
50233051 TGTTACTGCACTAATTAT
1 TGTTACTGCACTAATTAT
*
50233069 TGTTACTGCACTAATTAC
1 TGTTACTGCACTAATTAT
* * *
50233087 TATTTCTGTACTAATTAT
1 TGTTACTGCACTAATTAT
50233105 TGTTACTG
1 TGTTACTG
50233113 TAATAGGCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (18 bp):
TGTTACTGCACTAATTAT
Found at i:50241163 original size:40 final size:40
Alignment explanation
Indices: 50241108--50241332 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
50241098 TATTCGGATG
* *
50241108 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
50241148 ATATCTGGGCTAAGTCCCGAAGGCATCTGTGCTAGTAACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
50241188 ATATCCGGGCGAAGTTCCGAAGGCATTTGTGCGAGTACTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG---TTACT
* * ** *
50241231 ATACCCGGGCTAAGTCCCAAAGGCATTTGTGATAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** * *
50241271 ATATCCGGGGAAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
50241311 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
50241333 TACTTGGGTT
Statistics
Matches: 150, Mismatches: 32, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
39 12 0.08
40 106 0.71
43 32 0.21
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Done.