Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 292 of 378
Found at i:88335730 original size:64 final size:64
Alignment explanation
Indices: 88335649--88335831 Score: 201
Period size: 67 Copynumber: 2.8 Consensus size: 64
88335639 AGACATTATG
* *
88335649 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
88335713 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
88335778 AA
63 AA
* * * *
88335780 ATG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
88335832 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
61 1 0.01
62 19 0.19
63 1 0.01
64 24 0.24
65 18 0.18
66 2 0.02
67 33 0.34
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:88336913 original size:2 final size:2
Alignment explanation
Indices: 88336906--88336930 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
88336896 TCATGACATG
88336906 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
88336931 GACTAGTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88340159 original size:64 final size:64
Alignment explanation
Indices: 88340078--88340260 Score: 201
Period size: 67 Copynumber: 2.8 Consensus size: 64
88340068 AGACATTATG
* *
88340078 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
88340142 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
88340207 AA
63 AA
* * * *
88340209 ATG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
88340261 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
61 1 0.01
62 19 0.19
63 1 0.01
64 24 0.24
65 18 0.18
66 2 0.02
67 33 0.34
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:88341346 original size:2 final size:2
Alignment explanation
Indices: 88341339--88341369 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
88341329 TCATGACATG
88341339 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88341370 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88343479 original size:54 final size:54
Alignment explanation
Indices: 88343297--88343490 Score: 221
Period size: 55 Copynumber: 3.6 Consensus size: 54
88343287 TTACCATTGT
* * ** * * * *
88343297 CATGTCTTGACATGGTCTTATGTGGTATCCTCGCCTTAT-GAACTCACCAATGT
1 CATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGC
**
88343350 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAATGC
1 CATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATGC
* * * *
88343405 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGC
1 CATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGC
*
88343459 CATACCTTGGCATGGTCTTACATGATATCCTT
1 CATGCCTTGGCATGGTCTTACATGATATCCTT
88343491 ATCTTACCAA
Statistics
Matches: 119, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 30 0.25
54 41 0.34
55 44 0.37
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
CATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGC
Found at i:88349451 original size:107 final size:106
Alignment explanation
Indices: 88349236--88349439 Score: 234
Period size: 107 Copynumber: 1.9 Consensus size: 106
88349226 TGGTCCTAAT
*
88349236 ATAAAGATTCCACTTTTCAATTTACTTCTACAAACAATAAATACATAGCATTCACTACTTATGTT
1 ATAAAGATTACACTTTTCAATTTACTTCTACAAACAATAAATACATAGCATTCACTAC-TATGTT
* * * * *
88349301 TTAAGCTTACCTTTACACATAGGATAATACACGAAACATAAA
65 TCAAGCTTACCTATACACATAGGATAATAAACCAAACACAAA
* * * * * *
88349343 ATAAAGTTTACACTTTTGAATTTACTTCTACGAATAATAAATACATATCCTTCACATA-TATGTT
1 ATAAAGATTACACTTTTCAATTTACTTCTACAAACAATAAATACATAGCATTCAC-TACTATGTT
* **
88349407 TCAAGTTTACCTATGTACATAGGA-AA-AAACCAA
65 TCAAGCTTACCTATACACATAGGATAATAAACCAA
88349440 CTTAGACAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
104 5 0.06
105 2 0.02
106 25 0.30
107 48 0.59
108 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (106 bp):
ATAAAGATTACACTTTTCAATTTACTTCTACAAACAATAAATACATAGCATTCACTACTATGTTT
CAAGCTTACCTATACACATAGGATAATAAACCAAACACAAA
Found at i:88352616 original size:15 final size:14
Alignment explanation
Indices: 88352596--88352655 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 14
88352586 TCTTCTTACG
88352596 TTTTTTCTTTCTTT
1 TTTTTTCTTTCTTT
*
88352610 TTCTTTTCTTTCTCT
1 TT-TTTTCTTTCTTT
***
88352625 TTTTGAGTATTCTTT
1 TTTTTTCT-TTCTTT
88352640 TTATTTTCTTTCTTT
1 TT-TTTTCTTTCTTT
88352655 T
1 T
88352656 CCATTGGTTC
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
14 5 0.14
15 27 0.77
16 3 0.09
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTTTTCTTTCTTT
Found at i:88353817 original size:26 final size:26
Alignment explanation
Indices: 88353782--88353831 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
88353772 TCTAATATGT
*
88353782 TATATGTTCTAAAAATATGAAAATGA
1 TATATGTTCTAAAAAAATGAAAATGA
88353808 TATATGTTCTAAAAAAATGAAAAT
1 TATATGTTCTAAAAAAATGAAAAT
88353832 TTTGATCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.34
Consensus pattern (26 bp):
TATATGTTCTAAAAAAATGAAAATGA
Found at i:88354049 original size:19 final size:19
Alignment explanation
Indices: 88354025--88354062 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
88354015 AATTACGAAC
88354025 TTTTGG-ACTTTTAATTTTG
1 TTTTGGAAC-TTTAATTTTG
88354044 TTTTGGAACTTTAATTTTG
1 TTTTGGAACTTTAATTTTG
88354063 AGTTTGGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.18, C:0.05, G:0.16, T:0.61
Consensus pattern (19 bp):
TTTTGGAACTTTAATTTTG
Found at i:88359519 original size:10 final size:10
Alignment explanation
Indices: 88359479--88359521 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
88359469 AATTGAAATA
*
88359479 TATGCTTTGG
1 TATGATTTGG
88359489 TATGATTTTGG
1 TATGA-TTTGG
*
88359500 TTTAGATTTGG
1 TAT-GATTTGG
88359511 TATGATTTGG
1 TATGATTTGG
88359521 T
1 T
88359522 TGGTAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 12 0.43
11 14 0.50
12 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.28, T:0.53
Consensus pattern (10 bp):
TATGATTTGG
Found at i:88361228 original size:39 final size:39
Alignment explanation
Indices: 88361174--88361335 Score: 261
Period size: 39 Copynumber: 4.2 Consensus size: 39
88361164 TGTGTATGAA
*
88361174 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
88361213 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
88361252 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
88361291 TGTGCGAGTTGTGATATCCGGGTTAAGTCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
88361330 TGTGCG
1 TGTGCG
88361336 GGTTACCATA
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 113 1.00
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:88361351 original size:39 final size:39
Alignment explanation
Indices: 88361174--88361366 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
88361164 TGTGTATGAA
* *
88361174 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
88361213 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
88361252 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
88361291 TGTGCGAGTTGTGATATCCGGGTTAAGTCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* ** * *
88361330 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
88361367 GTTTGAACGA
Statistics
Matches: 135, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 127 0.94
40 8 0.06
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:88370374 original size:39 final size:39
Alignment explanation
Indices: 88370235--88370392 Score: 174
Period size: 40 Copynumber: 4.0 Consensus size: 39
88370225 CGAATGGATG
* * * *
88370235 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACT-AA
* * * *
88370276 TCCCGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAA
88370316 T-CGAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 TCCG-GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
88370355 TCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
88370393 TAACCGGGCT
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 36 0.36
40 38 0.38
41 25 0.25
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:88370382 original size:79 final size:81
Alignment explanation
Indices: 88370242--88370390 Score: 221
Period size: 79 Copynumber: 1.9 Consensus size: 81
88370232 ATGTCCGGGC
* *
88370242 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCCGGTCAATTCCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCCGGTCAATTCCCGAAGGCAATTGTGCGA
*
88370307 GTTACCAAATCGAGGT
66 ATTACCAAATCGAGGT
* * * *
88370323 TAAGTCCCGAAGGCATTTGTGC-GAGTTACT-AATCCGGGTTAATTCCCGAAGGCAATTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCCGGTCAATTCCCGAAGGCAATTGTGCGA
88370386 ATTAC
66 ATTAC
88370391 TATAACCGGG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 34 0.56
80 6 0.10
81 21 0.34
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (81 bp):
TAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCCGGTCAATTCCCGAAGGCAATTGTGCGA
ATTACCAAATCGAGGT
Found at i:88370409 original size:79 final size:80
Alignment explanation
Indices: 88370236--88370409 Score: 217
Period size: 79 Copynumber: 2.2 Consensus size: 80
88370226 GAATGGATGT
* *
88370236 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCCGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCCGGTCAATTCCCGAAGGCAATT
*
88370301 GTGCGAGTTACCAAA
66 GTGCGAATTACCAAA
* * * * * *
88370316 TCGAGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACT-AATCCGGGTTAATTCCCGAAGGCAAT
1 CCG-GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCCGGTCAATTCCCGAAGGCAAT
*
88370379 TGTGCGAATTACTATAA
65 TGTGCGAATTACCA-AA
*
88370396 CCGGGCTATGTCCC
1 CCGGGCTAAGTCCC
88370410 AAAGACAAAT
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
79 44 0.56
80 12 0.15
81 23 0.29
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCCGGTCAATTCCCGAAGGCAATT
GTGCGAATTACCAAA
Found at i:88378343 original size:40 final size:40
Alignment explanation
Indices: 88378242--88378420 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 40
88378232 CGAATGATGT
* * * * *
88378242 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
88378283 CC-GGTTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
88378323 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
88378363 CCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
88378403 CCGGGCTATGTCCCGAAG
1 CCGGGTTAAGTCCCGAAG
88378421 ACAATCGAGC
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
40 92 0.79
41 25 0.21
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:88378390 original size:80 final size:81
Alignment explanation
Indices: 88378242--88378420 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 81
88378232 CGAATGATGT
* *
88378242 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGTTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGTTCAATTCCCGAAGGCAATT
*
88378307 GTGCGAGTTACCAAAA
66 GTGCGAATTACCAAAA
* * * *
88378323 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAGATCCGGGTT-AATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCC-GGTTCAATTCCCGAAGGCAAT
* *
88378386 TGTGCGAATTACTATAA
65 TGTGCGAATTACCAAAA
*
88378403 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
88378421 ACAATCGAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 56 0.65
81 30 0.35
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGTTCAATTCCCGAAGGCAATT
GTGCGAATTACCAAAA
Found at i:88378445 original size:80 final size:79
Alignment explanation
Indices: 88378276--88378450 Score: 197
Period size: 80 Copynumber: 2.2 Consensus size: 79
88378266 GTGCTAAGTG
* * * *
88378276 ACTAAATCCGGTTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAGATCCGGTT-AATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
* * * * *
88378341 GCATTTGTGCGAGTT
65 ACAATCGAGCGAGTC
* * *
88378356 ACTAGATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAG
1 ACTAGATCC-GGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
*
88378421 ACAATCGAGCTAGTC
65 ACAATCGAGCGAGTC
* *
88378436 GCTATATCCGGTTAA
1 ACTAGATCCGGTTAA
88378451 ATTTCGAAGG
Statistics
Matches: 79, Mismatches: 15, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
79 6 0.08
80 69 0.87
81 4 0.05
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (79 bp):
ACTAGATCCGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGA
CAATCGAGCGAGTC
Found at i:88385562 original size:15 final size:15
Alignment explanation
Indices: 88385523--88385602 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
88385513 GTATCTTGGG
* *
88385523 TTTCTTTATCCCGGA
1 TTTCTTTATTCTGGA
*
88385538 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
88385553 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
88385568 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
88385583 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
88385597 TTTCTT
1 TTTCTT
88385603 ATTATCTTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
14 10 0.19
15 42 0.78
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:88385583 original size:30 final size:29
Alignment explanation
Indices: 88385514--88385601 Score: 88
Period size: 30 Copynumber: 3.0 Consensus size: 29
88385504 CATAATATCG
* * * *
88385514 TATCTTGGGTTTCTTTATCCCGGATCTCTT
1 TATCTTGGATTTCTTTAT-TCGGATTTCTC
*
88385544 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTC-GGATTTCTC
*
88385574 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
88385602 TATTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 39 0.80
31 1 0.02
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:88387575 original size:46 final size:45
Alignment explanation
Indices: 88387522--88387692 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 45
88387512 TGGGTATCCG
*
88387522 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCAA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCCA
*
88387568 AACTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATGTAACTAGGCATCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGGAA-T--G--TCCA
* * *
88387615 AGCTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGTGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCCA
* *
88387660 AGCTCGTTGATTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88387693 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 7, Indels: 24
0.77 0.05 0.18
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
45 19 0.18
46 49 0.46
47 20 0.19
49 6 0.06
50 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATGTCCA
Found at i:88392224 original size:40 final size:40
Alignment explanation
Indices: 88392166--88392382 Score: 314
Period size: 40 Copynumber: 5.5 Consensus size: 40
88392156 CGGATGATAA
*
88392166 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
88392206 TCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
88392246 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
88392286 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
88392325 CCGGGCTAAGTCCTGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
88392365 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
88392383 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 52 0.32
40 110 0.68
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:88392348 original size:79 final size:80
Alignment explanation
Indices: 88392166--88392382 Score: 314
Period size: 79 Copynumber: 2.7 Consensus size: 80
88392156 CGGATGATAA
* * *
88392166 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTTCAGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
** *
88392231 TGCGAGTTACTATTT
66 TGCGAACTACTATAT
88392246 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT-CCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
88392310 TGCGAACTACTATAT
66 TGCGAACTACTATAT
* * * *
88392325 CCGGGCTAAGTCCTGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
88392383 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
78 8 0.06
79 69 0.55
80 48 0.38
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAACTACTATAT
Found at i:88393201 original size:15 final size:15
Alignment explanation
Indices: 88393162--88393241 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
88393152 GTATCTTGGG
* *
88393162 TTTCTTTATCCCGGA
1 TTTCTTTATTCTGGA
*
88393177 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
88393192 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
88393207 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
88393222 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
88393236 TTTCTT
1 TTTCTT
88393242 ATTATCTTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
14 10 0.19
15 42 0.78
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:88393222 original size:30 final size:29
Alignment explanation
Indices: 88393153--88393240 Score: 88
Period size: 30 Copynumber: 3.0 Consensus size: 29
88393143 AATTAAATAG
* * * *
88393153 TATCTTGGGTTTCTTTATCCCGGATCTCTT
1 TATCTTGGATTTCTTTAT-TCGGATTTCTC
*
88393183 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTC-GGATTTCTC
*
88393213 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
88393241 TATTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 39 0.80
31 1 0.02
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:88395231 original size:46 final size:44
Alignment explanation
Indices: 88395162--88395334 Score: 143
Period size: 46 Copynumber: 3.8 Consensus size: 44
88395152 TTAGGCATCC
*
88395162 GAACTCGTTGAGTTGAGTTCGAGTTCACATATGGATGCGAATGTCA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATG-GAA-GTCA
* * * * *
88395208 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACATATG-GA-T-GGAAGTCA
* * *
88395255 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATG-GAA-GTC-A
* * *
88395302 -AGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACATATGG
88395335 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 62 0.60
47 32 0.31
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (44 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGGAAGTCA
Found at i:88395312 original size:93 final size:93
Alignment explanation
Indices: 88395153--88395326 Score: 260
Period size: 93 Copynumber: 1.9 Consensus size: 93
88395143 CTAGGATTTT
* * * *
88395153 TAGGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACATATGGATGCGAATGTCAGAACTCGTTG
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAACGCCAGAACTCATTG
88395218 AGTTGAGTCCGAGTTCGAGAGATGTAAC
66 AGTTGAGTCCGAGTTCGAGAGATGTAAC
* * * *
88395246 TAGGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTA-AGCTCATT
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAACGCC-AGAACTCATT
88395310 GAGTTGAGTCCGAGTTC
65 GAGTTGAGTCCGAGTTC
88395327 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAACGCCAGAACTCATTG
AGTTGAGTCCGAGTTCGAGAGATGTAAC
Found at i:88401227 original size:6 final size:6
Alignment explanation
Indices: 88401209--88401323 Score: 69
Period size: 6 Copynumber: 18.7 Consensus size: 6
88401199 AAGAAACATT
* *
88401209 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * *
88401258 ATCAGT ATTAGGTA A-CAGA ATCAAA ATCAGA ATCA-A TATCAGGTA A-CAGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA -ATCA-G-A ATCAGA
*
88401308 ATCAAA ATCAGA ATCA
1 ATCAGA ATCAGA ATCA
88401324 TATTAGGTAA
Statistics
Matches: 84, Mismatches: 12, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
5 7 0.08
6 66 0.79
7 7 0.08
8 3 0.04
9 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:88401352 original size:31 final size:31
Alignment explanation
Indices: 88401220--88401344 Score: 198
Period size: 31 Copynumber: 4.1 Consensus size: 31
88401210 TCAGAACTAG
* * *
88401220 AATCAGAATCAGAATTAGGTGACAGAATCAG
1 AATCAGAATCAGTATTAGGTAACAGAATCAA
88401251 AATCAGAATCAGTATTAGGTAACAGAATCAA
1 AATCAGAATCAGTATTAGGTAACAGAATCAA
* *
88401282 AATCAGAATCAATATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATTAGGTAACAGAATCAA
88401313 AATCAGAATCA-TATTAGGTAACAGAATCAA
1 AATCAGAATCAGTATTAGGTAACAGAATCAA
88401343 AA
1 AA
88401345 ATTAGAATGT
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 20 0.23
31 68 0.77
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.21
Consensus pattern (31 bp):
AATCAGAATCAGTATTAGGTAACAGAATCAA
Found at i:88401531 original size:27 final size:26
Alignment explanation
Indices: 88401489--88401608 Score: 109
Period size: 27 Copynumber: 4.5 Consensus size: 26
88401479 ACTCAGTTAT
* *
88401489 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
88401516 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
88401542 TAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * * * *
88401570 TAGGTAATGTGGCAAAGCCA-CTGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
88401595 CAGA-ATGTGTGGCA
1 CAGATAT-TGTGGCA
88401609 CAAAGCCATA
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
24 1 0.01
25 11 0.14
26 8 0.10
27 52 0.66
28 7 0.09
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:88401777 original size:22 final size:22
Alignment explanation
Indices: 88401749--88401813 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
88401739 CGAAATACGT
*
88401749 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
88401771 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
88401793 TTGACATAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
88401814 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:88402088 original size:16 final size:16
Alignment explanation
Indices: 88402067--88402098 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
88402057 AATCCCAACC
88402067 TATGCAACATGTCATG
1 TATGCAACATGTCATG
*
88402083 TATGCAGCATGTCATG
1 TATGCAACATGTCATG
88402099 CCCATATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (16 bp):
TATGCAACATGTCATG
Found at i:88402295 original size:27 final size:27
Alignment explanation
Indices: 88402255--88402727 Score: 628
Period size: 27 Copynumber: 17.6 Consensus size: 27
88402245 TACCCCACAA
* * *
88402255 GGTATCTCGGTAATTCCACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* *
88402282 GCTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* * *
88402309 GGTATTTC-AGTAACTCTACACTATAGG
1 GGTATTTCGA-TAATTCTACCCTACAGG
* *
88402336 GGTATTGCGATAATTCTACCCTATAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
88402363 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* *
88402390 GGTATTTCGGTAATTCTACCGTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* *
88402417 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
88402444 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* *
88402471 GGTATTGCGATATTTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
88402498 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* *
88402525 GGTATTTCGGTAATTCTACCCTACCGG
1 GGTATTTCGATAATTCTACCCTACAGG
* *
88402552 GGTATTGCGATAATTCTACCCTACAAG
1 GGTATTTCGATAATTCTACCCTACAGG
*
88402579 GGTATTTCGATAATTCTATCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* *
88402606 GGTATTCCGGTAATTCTACCC-ACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* *
88402632 GGTATTGCGATAATTCTACCCTATAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
88402659 GGTATTTC-AGTAATTCTACCCTACAGA
1 GGTATTTCGA-TAATTCTACCCTACAGG
* *
88402686 GGTATTTAGGTAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
88402713 GGTATTTCGATAATT
1 GGTATTTCGATAATT
88402728 TTGTAAATCG
Statistics
Matches: 393, Mismatches: 48, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
26 26 0.07
27 366 0.93
28 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (27 bp):
GGTATTTCGATAATTCTACCCTACAGG
Found at i:88402742 original size:27 final size:27
Alignment explanation
Indices: 88402712--88403070 Score: 94
Period size: 27 Copynumber: 13.3 Consensus size: 27
88402702 TACCCTACAG
*
88402712 GGGTATTTCGATAATTTTGTAAATCGA
1 GGGTATTTCGATAATTTTATAAATCGA
*** * * *
88402739 GGGTAAAACGGTAATTCTATAAATCAA
1 GGGTATTTCGATAATTTTATAAATCGA
* * * *
88402766 AGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCGATAATTTTATAAATCGA
* * ** *
88402793 GGGTATTTCAATAATTTTACAGGTCAA
1 GGGTATTTCGATAATTTTATAAATCGA
* *
88402820 GGGTATTTC-AGTAATTTCATAAAT-TA
1 GGGTATTTCGA-TAATTTTATAAATCGA
* * * *
88402846 GGGGTATTT-TAGTAATTTCACAAAT-TA
1 -GGGTATTTCGA-TAATTTTATAAATCGA
* * * *
88402873 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTCGATAATTTTATAAATCGA
* * *
88402900 GGGGTATTTTGATAATTTTACAAA-CCA
1 -GGGTATTTCGATAATTTTATAAATCGA
* *
88402927 GGGGTATTTTGGA-AATTTTATAAA-CAAA
1 -GGGTA-TTTCGATAATTTTATAAATC-GA
* * *
88402955 GGGTATTT-TAGTAATTTTACAAA-CTA
1 GGGTATTTCGA-TAATTTTATAAATCGA
* * * * *
88402981 GGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTCGATAATTTTATAAATCGA
* * * *
88403009 GGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTCGATAATTTTATAAATCGA
* * * * *
88403035 GGGGTATTTTGGTGATTTTATAAACCAA
1 -GGGTATTTCGATAATTTTATAAATCGA
88403063 GGGTATTT
1 GGGTATTT
88403071 TAGTGATTTT
Statistics
Matches: 268, Mismatches: 48, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.00
26 11 0.04
27 246 0.92
28 10 0.04
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTATAAATCGA
Found at i:88403113 original size:27 final size:27
Alignment explanation
Indices: 88402845--88403106 Score: 344
Period size: 27 Copynumber: 9.7 Consensus size: 27
88402835 TTCATAAATT
* * **
88402845 AGGGGTATTTTAGTAATTTCACAAATT
1 AGGGGTATTTTGGTAATTTTACAAACC
*
88402872 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
*
88402899 AGGGGTATTTTGATAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
88402926 AGGGGTATTTTGGAAATTTTATAAACA
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
88402953 AAGGGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
**
88402980 AGGGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
88403007 AAGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
88403034 AGGGGTATTTTGGTGATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
88403061 AAGGGTATTTTAGTGATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
88403088 AGGGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
88403107 GGTAAACTAA
Statistics
Matches: 204, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 204 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:88403113 original size:54 final size:54
Alignment explanation
Indices: 88402767--88403106 Score: 394
Period size: 54 Copynumber: 6.3 Consensus size: 54
88402757 ATAAATCAAA
* * ** * * * *** *
88402767 GGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCAAG
1 GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGG
** * ** * * **
88402821 GGTATTTCAGTAATTTCATAAATTAGGGGTATTTTAGTAATTTCACAAATTAGG
1 GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGG
* * *
88402875 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTT-GATAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAG-TAATTTTACAAACCAGG
* * *
88402929 GGTATTTTGGAAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGG
* *
88402983 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGG
* *
88403037 GGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTGATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGG
88403091 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
88403107 GGTAAACTAA
Statistics
Matches: 245, Mismatches: 39, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
53 1 0.00
54 243 0.99
55 1 0.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGG
Found at i:88404010 original size:29 final size:30
Alignment explanation
Indices: 88403947--88404062 Score: 127
Period size: 29 Copynumber: 4.1 Consensus size: 30
88403937 AGGGTGTTAC
* * *
88403947 ATGGCCCA-CTAGGCCCGA-TCTTATTCAA
1 ATGGCCCATCTAGGCCCAATTCATATTCAT
* *
88403975 ATGGCCCATCT-GGCCCAGTTCATATTCTT
1 ATGGCCCATCTAGGCCCAATTCATATTCAT
*
88404004 ATGGCCCA-CTAAGCCCAATTCATATTCAT
1 ATGGCCCATCTAGGCCCAATTCATATTCAT
*
88404033 ATGGCCCAT-TAGGCCCAAATCATATT-AT
1 ATGGCCCATCTAGGCCCAATTCATATTCAT
88404061 AT
1 AT
88404063 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
28 19 0.26
29 55 0.74
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (30 bp):
ATGGCCCATCTAGGCCCAATTCATATTCAT
Found at i:88404037 original size:58 final size:57
Alignment explanation
Indices: 88403947--88404058 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 57
88403937 AGGGTGTTAC
* * * **
88403947 ATGGCCCACTAGGCCCGATCTTATTCAAATGGCCCATCT-GGCCCAGTTCATATTCTT
1 ATGGCCCACTAAGCCCAATCATATTCAAATGGCCCAT-TAGGCCCAAATCATATTCTT
*
88404004 ATGGCCCACTAAGCCCAATTCATATTCATATGGCCCATTAGGCCCAAATCATATT
1 ATGGCCCACTAAGCCCAA-TCATATTCAAATGGCCCATTAGGCCCAAATCATATT
88404059 ATATTCATGC
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 17 0.36
58 30 0.64
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (57 bp):
ATGGCCCACTAAGCCCAATCATATTCAAATGGCCCATTAGGCCCAAATCATATTCTT
Found at i:88404164 original size:19 final size:18
Alignment explanation
Indices: 88404131--88404167 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
88404121 TGGGCCCAAC
88404131 AGCCCATTAGGCCCATTT
1 AGCCCATTAGGCCCATTT
*
88404149 AGCCCATTTTGGCCCATTT
1 AGCCCA-TTAGGCCCATTT
88404168 GGTTCGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.32
Consensus pattern (18 bp):
AGCCCATTAGGCCCATTT
Found at i:88409070 original size:21 final size:21
Alignment explanation
Indices: 88409020--88409079 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
88409010 TGAACACACC
*
88409020 AACAAAAGCTCATAAGAACAT
1 AACAAAAGCTCATAAGAGCAT
* * *
88409041 AATAGAAGCTCAAAAGAGC-T
1 AACAAAAGCTCATAAGAGCAT
88409061 GAACAAAAGCTCATAAGAG
1 -AACAAAAGCTCATAAGAG
88409080 TTAAATAGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.53, C:0.17, G:0.17, T:0.13
Consensus pattern (21 bp):
AACAAAAGCTCATAAGAGCAT
Found at i:88409087 original size:42 final size:42
Alignment explanation
Indices: 88409020--88409100 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
88409010 TGAACACACC
*
88409020 AACAAAAGCTCATAAGAACATAATAGAAGCTCAAAAGAGCTG
1 AACAAAAGCTCATAAGAACATAATAGAAACTCAAAAGAGCTG
** *
88409062 AACAAAAGCTCATAAG-AGTTAAATAGAAACTCATAAGAG
1 AACAAAAGCTCATAAGAACAT-AATAGAAACTCAAAAGAG
88409101 TTGATCTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.53, C:0.15, G:0.16, T:0.16
Consensus pattern (42 bp):
AACAAAAGCTCATAAGAACATAATAGAAACTCAAAAGAGCTG
Found at i:88412734 original size:43 final size:43
Alignment explanation
Indices: 88412687--88412825 Score: 176
Period size: 43 Copynumber: 3.2 Consensus size: 43
88412677 TATCCTAAAT
* *
88412687 ATGGTCTTACATGTAATCTCATATCGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
*
88412730 ATGGTCTTACACGAAATCAT-ATAAT-GATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATC-TCAT-ATCGATGCCAATGTCCCAGAC
* * *
88412773 ATGGTCTTACACGTAATCACA-ATACAATGTCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATAT-CGATGCCAATGTCCCAGAC
88412816 ATGGTCTTAC
1 ATGGTCTTAC
88412826 GTAACTTTCA
Statistics
Matches: 84, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.02
43 79 0.94
44 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
Found at i:88416008 original size:38 final size:38
Alignment explanation
Indices: 88415947--88416150 Score: 203
Period size: 38 Copynumber: 5.3 Consensus size: 38
88415937 ATTTGATGTG
* * *
88415947 TATCCGGGCTTAAAGACCCGCAGGCTTTATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCATGCTGGTATTA
*
88415987 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
* * * * *
88416025 CATCCAGGTTAAATCCTGCAGGCTTCGTGATGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
*
88416063 TATCCGGGTTAAATCCCGCAGGCCT-AGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTATTA
* * * * *
88416101 TATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTGGTGTTA
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCATGCTGGTATTA
* *
88416141 TGTTCGGGTT
1 TATCCGGGTT
88416151 TTATACCTTC
Statistics
Matches: 136, Mismatches: 24, Indels: 9
0.80 0.14 0.05
Matches are distributed among these distances:
38 91 0.67
39 14 0.10
40 31 0.23
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
Found at i:88416066 original size:76 final size:78
Alignment explanation
Indices: 88415956--88416150 Score: 232
Period size: 76 Copynumber: 2.5 Consensus size: 78
88415946 GTATCCGGGC
* ** * * * *
88415956 TTAAAGACCCGCAGGCTTTATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 TTAAAGTCCCGCAGGCTTCGTGATGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
88416021 ATTACATC-CAGG
66 ATTACATCTCAGG
*
88416033 TTAAA-TCCTGCAGGCTTCGTGATGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 TTAAAGTCCCGCAGGCTTCGTGATGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
* * *
88416097 ATTATATCTGAGT
66 ATTACATCTCAGG
* * * * *
88416110 TTAAAGTCCCGTAGGCTTCGTGCTGGTGTTATGTTCGGGTT
1 TTAAAGTCCCGCAGGCTTCGTGATGGTATTATATCCGGGTT
88416151 TTATACCTTC
Statistics
Matches: 99, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
76 58 0.59
77 12 0.12
78 29 0.29
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (78 bp):
TTAAAGTCCCGCAGGCTTCGTGATGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
ATTACATCTCAGG
Found at i:88421337 original size:27 final size:28
Alignment explanation
Indices: 88421307--88421406 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
88421297 ATAGTGAGTC
88421307 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
88421334 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
88421362 CGCACACTTAGTGCTGTACAAATTTAAAACC
1 CGCACACTTAGTGCTATA-AAA--TCAAACT
88421393 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88421407 AATCTCATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 2 0.03
31 19 0.31
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:88422258 original size:7 final size:7
Alignment explanation
Indices: 88422248--88422272 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
88422238 TCATCACCAC
88422248 AACATCA
1 AACATCA
88422255 AACATCA
1 AACATCA
88422262 AACATCA
1 AACATCA
88422269 AACA
1 AACA
88422273 AGAAGACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (7 bp):
AACATCA
Found at i:88429199 original size:27 final size:28
Alignment explanation
Indices: 88429169--88429268 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
88429159 ATAGTGAGTC
88429169 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
88429196 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
88429224 CGCACACTTAGTGCTGTACAAATTTAAAACC
1 CGCACACTTAGTGCTATA-AAA--TCAAACT
88429255 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88429269 AATCTCATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 2 0.03
31 19 0.31
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:88429810 original size:2 final size:2
Alignment explanation
Indices: 88429803--88429839 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
88429793 GCCAATATGC
88429803 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
88429840 CAACTATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:88430129 original size:7 final size:7
Alignment explanation
Indices: 88430119--88430143 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
88430109 TCATCACCAC
88430119 AACATCA
1 AACATCA
88430126 AACATCA
1 AACATCA
88430133 AACATCA
1 AACATCA
88430140 AACA
1 AACA
88430144 AGAAGACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (7 bp):
AACATCA
Found at i:88432449 original size:43 final size:43
Alignment explanation
Indices: 88432402--88432531 Score: 131
Period size: 43 Copynumber: 3.0 Consensus size: 43
88432392 AGACTACATT
* **
88432402 TGGGACATTGGCATCGATATGTGATTACATGTAAGATGATGTC
1 TGGGACATTGGCATCGATATATGATTACATGTAAGACCATGTC
* * * *
88432445 TGGGACATTAGCATCG-TATTTTGATT-CCTGTAAGACCTTGTC
1 TGGGACATTGGCATCGATA-TATGATTACATGTAAGACCATGTC
* * *
88432487 TGGGACAGTGGCATCGATCTATGA-TAGCATGTAAGACCACGTC
1 TGGGACATTGGCATCGATATATGATTA-CATGTAAGACCATGTC
88432530 TG
1 TG
88432532 AGATTTTGGC
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.01
42 32 0.46
43 37 0.53
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TGGGACATTGGCATCGATATATGATTACATGTAAGACCATGTC
Found at i:88433279 original size:2 final size:2
Alignment explanation
Indices: 88433272--88433297 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
88433262 GGATTTTGGT
88433272 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
88433298 AGCCATGCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:88440651 original size:43 final size:43
Alignment explanation
Indices: 88440598--88440759 Score: 191
Period size: 43 Copynumber: 3.8 Consensus size: 43
88440588 TGCCATATCT
* * *
88440598 CAGATATGGTCTTACATGTAATCTTATATCGATGCCAATGTCC
1 CAGACATGGTCTTACACGTAATCATATATCGATGCCAATGTCC
* * * *
88440641 CAGACATGGTCTTACACGAAATCATATAACGATACGAATGTCC
1 CAGACATGGTCTTACACGTAATCATATATCGATGCCAATGTCC
* * *
88440684 CAGACATGGTCTTACACGTAATCACA-ATACAATGCCAATTTCC
1 CAGACATGGTCTTACACGTAATCATATAT-CGATGCCAATGTCC
* * *
88440727 CAGACATGGTCTTACATGCAATCATATCTCGAT
1 CAGACATGGTCTTACACGTAATCATATATCGAT
88440760 AATCCTAATG
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 1 0.01
43 96 0.98
44 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
CAGACATGGTCTTACACGTAATCATATATCGATGCCAATGTCC
Found at i:88441759 original size:21 final size:21
Alignment explanation
Indices: 88441735--88441776 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
88441725 AACTTCACAT
88441735 TTAATCAACCATAGCAATTAA
1 TTAATCAACCATAGCAATTAA
88441756 TTAATCAACCATAGCAATTAA
1 TTAATCAACCATAGCAATTAA
88441777 ACACATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.19, G:0.05, T:0.29
Consensus pattern (21 bp):
TTAATCAACCATAGCAATTAA
Found at i:88442987 original size:41 final size:41
Alignment explanation
Indices: 88442942--88443059 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
88442932 TGAAAGATAA
88442942 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
88442983 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
88443013 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
88443054 ATGTAG
1 ATGTAG
88443060 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:88442998 original size:71 final size:71
Alignment explanation
Indices: 88442910--88443073 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
88442900 GAGATGTATC
88442910 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
88442975 AGGACA
66 AGGACA
88442981 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
88443046 AGGACA
66 AGGACA
88443052 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
88443074 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:88450088 original size:41 final size:41
Alignment explanation
Indices: 88450043--88450160 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
88450033 TGAAAGATAA
88450043 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
88450084 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
88450114 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
88450155 ATGTAG
1 ATGTAG
88450161 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:88450099 original size:71 final size:71
Alignment explanation
Indices: 88450011--88450174 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
88450001 GAGATGTATC
88450011 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
88450076 AGGACA
66 AGGACA
88450082 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
88450147 AGGACA
66 AGGACA
88450153 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
88450175 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:88452789 original size:27 final size:27
Alignment explanation
Indices: 88452748--88452848 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 27
88452738 CAGTAACATA
** *
88452748 GCAAAGCTGCCAGTATCAGTATATGTG
1 GCAAAGCCACCAGTAACAGTATATGTG
* * * *
88452775 GTAAAGTCACTAGTAACTGTATATGTG
1 GCAAAGCCACCAGTAACAGTATATGTG
88452802 GCAAAGCCACCAGTAACAGTATATGTG
1 GCAAAGCCACCAGTAACAGTATATGTG
88452829 GCAAAGCCACCAGT-ACAGTA
1 GCAAAGCCACCAGTAACAGTA
88452849 CCCTTCCTCC
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 6 0.10
27 57 0.90
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGTATATGTG
Found at i:88459932 original size:12 final size:12
Alignment explanation
Indices: 88459915--88459954 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
88459905 TCCTTCTATT
88459915 TTTTTATTCTTA
1 TTTTTATTCTTA
*
88459927 TTTTTATTTTTA
1 TTTTTATTCTTA
*
88459939 TTTTTCTTCTTA
1 TTTTTATTCTTA
88459951 TTTT
1 TTTT
88459955 CATTTCAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTATTCTTA
Found at i:88459933 original size:6 final size:6
Alignment explanation
Indices: 88459915--88459959 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
88459905 TCCTTCTATT
* * * *
88459915 TTTTTA TTCTTA TTTTTA TTTTTA TTTTTC TTCTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
88459960 CAATTTTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:88459965 original size:24 final size:24
Alignment explanation
Indices: 88459915--88459979 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
88459905 TCCTTCTATT
* **
88459915 TTTTTATTCTTATTTTTATTTTTA
1 TTTTTATTCTTATTTTCATTTCAA
*
88459939 TTTTTCTTCTTATTTTCATTTCAA
1 TTTTTATTCTTATTTTCATTTCAA
88459963 TTTTATTATT-TTATTTT
1 -TTT-TTATTCTTATTTT
88459980 GAAAAACATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 20 0.59
25 10 0.29
26 4 0.12
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTTATTCTTATTTTCATTTCAA
Found at i:88460311 original size:15 final size:15
Alignment explanation
Indices: 88460291--88460324 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
88460281 CCTCCTTTCC
88460291 TCTTATGATTTTCTT
1 TCTTATGATTTTCTT
88460306 TCTTATGATTTTCTT
1 TCTTATGATTTTCTT
88460321 TCTT
1 TCTT
88460325 TTGAATAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.12, C:0.15, G:0.06, T:0.68
Consensus pattern (15 bp):
TCTTATGATTTTCTT
Found at i:88463227 original size:70 final size:71
Alignment explanation
Indices: 88463101--88463263 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
88463091 GAGATGTATC
88463101 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
88463166 AGGACA
66 AGGACA
88463172 CCATGTAGACAAGAGAGCTACGTGAAAG-TAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
88463236 AGGACA
66 AGGACA
88463242 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
88463264 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 64 0.70
71 28 0.30
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:88470780 original size:70 final size:71
Alignment explanation
Indices: 88470654--88470816 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
88470644 GAGATGTATC
88470654 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
88470719 AGGACA
66 AGGACA
88470725 CCATGTAGACAAGAGAGCTACGTGAAAG-TAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
88470789 AGGACA
66 AGGACA
88470795 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
88470817 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 64 0.70
71 28 0.30
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:88473549 original size:18 final size:18
Alignment explanation
Indices: 88473524--88473566 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
88473514 TTTGGGCCTA
*
88473524 TGGG-CCACACGGGCTTG
1 TGGGCCCACACGGGCGTG
*
88473541 TGGGCCCACATGGGCGTG
1 TGGGCCCACACGGGCGTG
*
88473559 TGAGCCCA
1 TGGGCCCA
88473567 TTTTTCTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.14, C:0.30, G:0.40, T:0.16
Consensus pattern (18 bp):
TGGGCCCACACGGGCGTG
Found at i:88479274 original size:40 final size:40
Alignment explanation
Indices: 88479229--88479396 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
88479219 CGGAATATAA
88479229 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
88479269 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
88479309 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
88479349 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
88479389 CCGGATAT
1 CCGGATAT
88479397 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:88483430 original size:46 final size:46
Alignment explanation
Indices: 88483380--88483508 Score: 197
Period size: 46 Copynumber: 2.8 Consensus size: 46
88483370 TGGTTGAGCA
* *
88483380 TCCGAACTCGTTCAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
*
88483426 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
* *
88483472 -CCCAAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCTGAGTTCACTTATGG
88483509 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 4 0.05
46 72 0.95
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
Found at i:88487948 original size:40 final size:40
Alignment explanation
Indices: 88487852--88488030 Score: 205
Period size: 40 Copynumber: 4.5 Consensus size: 40
88487842 CGAATGATGT
* * * * *
88487852 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
88487893 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
88487933 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
88487973 CCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
88488013 CCGGGCTATGTCCCGAAG
1 CCGGGTTAAGTCCCGAAG
88488031 ACAATCGAGC
Statistics
Matches: 117, Mismatches: 21, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 93 0.79
41 24 0.21
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:88487999 original size:80 final size:81
Alignment explanation
Indices: 88487852--88488030 Score: 252
Period size: 80 Copynumber: 2.2 Consensus size: 81
88487842 CGAATGATGT
* *
88487852 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
*
88487917 GTGCGAGTTACCAAAA
66 GTGCGAATTACCAAAA
* * * * *
88487933 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAGATCCGGGTTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
88487997 GTGCGAATTACTATAA
66 GTGCGAATTACCAAAA
*
88488013 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
88488031 ACAATCGAGC
Statistics
Matches: 86, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 60 0.70
81 26 0.30
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATTACCAAAA
Found at i:88488055 original size:80 final size:80
Alignment explanation
Indices: 88487886--88488070 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
88487876 GTGCTAAGTG
* * * * *
88487886 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAGATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
* * * * *
88487951 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTC
* * *
88487966 ACTAGATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAG
1 ACTAGATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
*
88488031 ACAATCGAGCTAGTC
66 ACAATCGAGCGAGTC
* *
88488046 GCTATATCC-GGTTAAATT-CCGAAGG
1 ACTAGATCCGGGTT-AATTCCCGAAGG
88488071 TACGTGATTC
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 11 0.12
80 77 0.88
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (80 bp):
ACTAGATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:88493522 original size:40 final size:40
Alignment explanation
Indices: 88493477--88493606 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
88493467 CGGAATACAA
88493477 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
88493517 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
88493557 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
88493597 CCGGATATAA
1 CCGGATATAA
88493607 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:88493621 original size:40 final size:40
Alignment explanation
Indices: 88493477--88493640 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
88493467 CGGAATACAA
* **
88493477 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
88493517 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
88493557 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
88493597 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
88493637 CCGG
1 CCGG
88493641 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:88500843 original size:40 final size:40
Alignment explanation
Indices: 88500798--88500927 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
88500788 CGGAATACAA
88500798 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
88500838 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
88500878 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
88500918 CCGGATATAA
1 CCGGATATAA
88500928 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:88500942 original size:40 final size:40
Alignment explanation
Indices: 88500798--88500960 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
88500788 CGGAATACAA
* **
88500798 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
88500838 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
88500878 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
88500918 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
88500957 CCGG
1 CCGG
88500961 GTATCATTCA
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
39 11 0.11
40 89 0.89
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:88506364 original size:80 final size:80
Alignment explanation
Indices: 88506245--88506518 Score: 356
Period size: 80 Copynumber: 3.4 Consensus size: 80
88506235 CGATTTGTAA
* * *
88506245 AATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCGTTAGTTTACAGAATTACTATTT
1 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTGA-TTTACAGAATTACTATTT
*
88506310 TACCCCCGATTTACAG
65 TACCCTCGATTTACAG
* * * *
88506326 AATTACCATTTTACCC-CGATTTACATAATTACCGTTTTACCCCTGATTTACATAATTA-TCGTT
1 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTA-CCCTGATTTACAGAATTACT-ATT
*
88506389 TTACCCTCGACTTACAG
64 TTACCCTCGATTTACAG
* *
88506406 AATTACCGTTTT-TCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTT
1 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT-GATTTACAGAATTACTATTT
**
88506470 TACCCTTAATTTACAG
65 TACCCTCGATTTACAG
* *
88506486 AATTACTGTTTTACCCTCGATTTACAAAATTAC
1 AATTACCGTTTTACCCTCGATTTACAGAATTAC
88506519 TAAAATACCC
Statistics
Matches: 166, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
79 7 0.04
80 121 0.73
81 38 0.23
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (80 bp):
AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTGATTTACAGAATTACTATTTT
ACCCTCGATTTACAG
Found at i:88506519 original size:27 final size:27
Alignment explanation
Indices: 88506245--88506518 Score: 331
Period size: 27 Copynumber: 10.2 Consensus size: 27
88506235 CGATTTGTAA
88506245 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* * *
88506272 AATTACCATTTTACCGT-TAGTTTACAG
1 AATTACCGTTTTACCCTCGA-TTTACAG
** *
88506299 AATTACTATTTTACCCCCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
88506326 AATTACCATTTTACCC-CGATTTACAT
1 AATTACCGTTTTACCCTCGATTTACAG
*
88506352 AATTACCGTTTTACCC-CTGATTTACAT
1 AATTACCGTTTTACCCTC-GATTTACAG
* *
88506379 AATTATCGTTTTACCCTCGACTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
88506406 AATTACCGTTTT-TCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
88506432 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
** **
88506459 AATTACTATTTTACCCTTAATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
88506486 AATTACTGTTTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAG
88506513 AATTAC
1 AATTAC
88506519 TAAAATACCC
Statistics
Matches: 215, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
26 50 0.23
27 163 0.76
28 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTACAG
Found at i:88506527 original size:27 final size:27
Alignment explanation
Indices: 88506443--88506720 Score: 100
Period size: 27 Copynumber: 10.2 Consensus size: 27
88506433 ATTACCGTTT
* * ***
88506443 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
** * ****
88506470 TACCCTTAATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
88506497 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
88506524 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* ** * *
88506551 TACCC-CTAGTTTGTAAAATTTCCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* * *** **
88506578 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
88506605 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
88506632 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
88506659 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
88506688 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
88506715 TACCCT
1 TACCCT
88506721 TAGTTTGTAG
Statistics
Matches: 202, Mismatches: 37, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
26 3 0.01
27 173 0.86
28 7 0.03
29 19 0.09
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:88506544 original size:54 final size:54
Alignment explanation
Indices: 88506318--88506546 Score: 147
Period size: 54 Copynumber: 4.3 Consensus size: 54
88506308 TTTACCCCCG
* * * ***** * *
88506318 ATTTACAGAATTACCATTTTACCC-CGATTTACATAATTACCGTTTTACCCCTG
1 ATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTA
* * * * **** ** **
88506371 ATTTACATAATTATCGTTTTACCCTCGACTTACAGAATTAC-CGTTTTTCCTCG
1 ATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTA
* * * ***
88506424 ATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTA
1 ATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTA
* *
88506478 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTA
1 ATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTA
* **
88506532 GTTTGTAAAATTACC
1 ATTTACAAAATTACC
88506547 AAAATACCCC
Statistics
Matches: 142, Mismatches: 32, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 64 0.45
54 78 0.55
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (54 bp):
ATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTA
Found at i:88506555 original size:54 final size:54
Alignment explanation
Indices: 88506497--88506636 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
88506487 ATTACTGTTT
* ** *
88506497 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * *
88506551 TACCC-CTAGTTTGTAAAATTTCCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
88506605 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
88506637 CTGATTTACA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 71 0.97
55 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:88506582 original size:81 final size:80
Alignment explanation
Indices: 88506497--88506749 Score: 217
Period size: 81 Copynumber: 3.1 Consensus size: 80
88506487 ATTACTGTTT
*
88506497 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTT
1 TACCCTTGATTT-CAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTT
88506562 TGTAAAATTTCCAAAA
65 TGTAAAATTTCCAAAA
* ** ** * * *
88506578 TACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GAT
1 TACCCTTGATTT-CAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTT
* *
88506642 T-TACAAAGTTACAGAAA
65 TGTA-AAATTTCCA-AAA
* * ** ** *
88506659 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTA
1 TACCCTTGA-TTTC--AAAATTACTA-AAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTA
*
88506723 GTTTGT-AGATTTACCAAAA
62 GTTTGTAAAATTT-CCAAAA
*
88506742 CACCCTTG
1 TACCCTTG
88506750 TAGGATGAAA
Statistics
Matches: 132, Mismatches: 31, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
79 2 0.02
80 10 0.08
81 63 0.48
82 3 0.02
83 48 0.36
84 5 0.04
85 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (80 bp):
TACCCTTGATTTCAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTT
GTAAAATTTCCAAAA
Found at i:88506659 original size:54 final size:53
Alignment explanation
Indices: 88506497--88506749 Score: 181
Period size: 54 Copynumber: 4.7 Consensus size: 53
88506487 ATTACTGTTT
* ** * *
88506497 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTT-GGTT-TACAAATTA-CAGAAA
* * ** *
88506551 TACCC-CTAGTTTGTAAAATTTCCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGGTTT-ACAAATTACAGAAA
* *
88506605 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTACAAA-TTACAGAAA
* * * * * *
88506659 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCC-TCAATTTGT-AAAATTACCA-AAATACCCTTGGTTTAC-AAATTACAGAAA
* * * * *
88506715 TACCCTTAGTTTGTAGATTTACCAAAACACCCTTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTG
88506750 TAGGATGAAA
Statistics
Matches: 156, Mismatches: 32, Indels: 22
0.74 0.15 0.10
Matches are distributed among these distances:
52 1 0.01
53 8 0.05
54 95 0.61
55 15 0.10
56 34 0.22
57 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTACAAATTACAGAAA
Found at i:88506726 original size:27 final size:27
Alignment explanation
Indices: 88506506--88506726 Score: 140
Period size: 27 Copynumber: 8.1 Consensus size: 27
88506496 TTACCCTCGA
**
88506506 TTTACAAAATTACTAAAATACCCTTAG
1 TTTACAAAATTACCGAAATACCCTTAG
** * *
88506533 TTTGTAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCGAAATACCCTTAG
** * * *
88506560 TTTGTAAAATTTCCAAAATACCCTTGG
1 TTTACAAAATTACCGAAATACCCTTAG
*** * *
88506587 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACCGAAATACCCTTAG
** * *
88506614 TTTGTAAAATTACCAAAATACCCCT-G
1 TTTACAAAATTACCGAAATACCCTTAG
* * *
88506640 ATTTACAAAGTTACAGAAATACCCTTGAC
1 -TTTACAAAATTACCGAAATACCCTT-AG
** * *
88506669 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTACCGAAATACCCTTAG
*
88506697 TTTACAAAATTACTGAAATACCCTTAG
1 TTTACAAAATTACCGAAATACCCTTAG
88506724 TTT
1 TTT
88506727 GTAGATTTAC
Statistics
Matches: 154, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
27 130 0.84
28 6 0.04
29 18 0.12
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TTTACAAAATTACCGAAATACCCTTAG
Found at i:88507567 original size:8 final size:8
Alignment explanation
Indices: 88507556--88507591 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
88507546 TAAAGCGATA
88507556 AAATGCCG
1 AAATGCCG
88507564 AAATGCCG
1 AAATGCCG
*
88507572 AAAAGCCG
1 AAATGCCG
88507580 AAATGCCG
1 AAATGCCG
88507588 AAAT
1 AAAT
88507592 TTTGGCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (8 bp):
AAATGCCG
Found at i:88508125 original size:11 final size:11
Alignment explanation
Indices: 88508100--88508178 Score: 75
Period size: 9 Copynumber: 7.9 Consensus size: 11
88508090 TTTGATAAAC
88508100 ATGATATG--T
1 ATGATATGCAT
*
88508109 ATGATATGCAC
1 ATGATATGCAT
88508120 ATGATATG--T
1 ATGATATGCAT
*
88508129 ATGATATGCAC
1 ATGATATGCAT
*
88508140 ATGACATG--T
1 ATGATATGCAT
88508149 ATGATATGCAT
1 ATGATATGCAT
88508160 ATGATATG--T
1 ATGATATGCAT
88508169 ATGATATGCA
1 ATGATATGCA
88508179 CACGAGATGT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
9 32 0.57
11 24 0.43
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (11 bp):
ATGATATGCAT
Found at i:88508188 original size:20 final size:20
Alignment explanation
Indices: 88508098--88508180 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
88508088 ATTTTGATAA
88508098 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
88508118 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
88508138 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
88508158 ATATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
88508178 ACA
1 ACA
88508181 CGAGATGTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:88508263 original size:25 final size:25
Alignment explanation
Indices: 88508235--88508362 Score: 140
Period size: 25 Copynumber: 5.2 Consensus size: 25
88508225 AAGAAGTGCA
88508235 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
88508260 AAAGGGCTTATGCCTCAGTTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
88508283 AAAGGGCTTATGCCCCAGTTATTAA
1 AAAGGGCTTATGCCCCAGTTATGAT
*
88508308 AAAGGGCTT-TGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
88508331 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
88508359 AAAG
1 AAAG
88508363 CAGCTATGCT
Statistics
Matches: 90, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
23 27 0.30
24 20 0.22
25 34 0.38
26 1 0.01
27 4 0.04
28 4 0.04
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:88508289 original size:23 final size:23
Alignment explanation
Indices: 88508235--88508332 Score: 144
Period size: 25 Copynumber: 4.1 Consensus size: 23
88508225 AAGAAGTGCA
88508235 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--T
*
88508260 AAAGGGCTTATGCCTCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
88508283 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
88508306 AAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAGGGCTTATGCCCCAGTTATT
88508330 AAA
1 AAA
88508333 AGAGGCTAGG
Statistics
Matches: 69, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
22 3 0.04
23 23 0.33
24 13 0.19
25 30 0.43
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:88508312 original size:48 final size:47
Alignment explanation
Indices: 88508235--88508332 Score: 160
Period size: 48 Copynumber: 2.1 Consensus size: 47
88508225 AAGAAGTGCA
* *
88508235 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCTCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATGAAAAAGGGCTT-TGCCCCAGTTATT
*
88508283 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATGAAAAAGGGCTTTGCCCCAGTTATT
88508330 AAA
1 AAA
88508333 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 15 0.32
48 32 0.68
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATGAAAAAGGGCTTTGCCCCAGTTATT
Found at i:88508582 original size:31 final size:31
Alignment explanation
Indices: 88508547--88508610 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
88508537 CGTTTACCGT
*
88508547 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
88508578 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
88508609 AA
1 AA
88508611 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:88517180 original size:17 final size:15
Alignment explanation
Indices: 88517158--88517197 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 15
88517148 ATTACTGTGA
88517158 GAGAGGGTACCCCAGCT
1 GAGAGGGTA--CCAGCT
88517175 GAGAGGGT-CCAGCT
1 GAGAGGGTACCAGCT
88517189 GAGAGGGTA
1 GAGAGGGTA
88517198 ACATGGGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 14 0.64
17 8 0.36
ACGTcount: A:0.25, C:0.20, G:0.42, T:0.12
Consensus pattern (15 bp):
GAGAGGGTACCAGCT
Found at i:88517188 original size:14 final size:14
Alignment explanation
Indices: 88517169--88517196 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88517159 AGAGGGTACC
88517169 CCAGCTGAGAGGGT
1 CCAGCTGAGAGGGT
88517183 CCAGCTGAGAGGGT
1 CCAGCTGAGAGGGT
88517197 AACATGGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.43, T:0.14
Consensus pattern (14 bp):
CCAGCTGAGAGGGT
Found at i:88523042 original size:40 final size:40
Alignment explanation
Indices: 88522998--88523126 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
88522988 TCCTGGAAAT
* * *
88522998 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* *
88523038 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * *
88523078 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
88523118 TATATCCGG
1 TATATCCGG
88523127 TTATATTCTG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 71 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:88527945 original size:46 final size:44
Alignment explanation
Indices: 88527889--88528163 Score: 133
Period size: 47 Copynumber: 5.9 Consensus size: 44
88527879 GTTGGGTCAC
* *
88527889 TTATGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGTAACT
1 TTATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATC-GGAA-T
* * * * *
88527935 TTATGGGAGCCAGTATAAAATCATGTCTAGGACATGGCATCGGCAT
1 TTATGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGAAT
* * * * **
88527981 TGAGATGAGAGCTAGTGTAAGACATGTTTGGGACATGCATTGGCCT
1 T--TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGAAT
** * **
88528027 CGA-GACGTAAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACG
1 TTATGA-G--AGCCAGTGTAAGACATGTCTGGGACATGCATCGG--AAT
** * * * *
88528075 AGATGATAGTCACTGTAAGACCATGTCTGGGACATGGCATC-GACT
1 TTATGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGAAT
* *
88528120 TGA-GATATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 TTATG--A-GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
88528164 TCACCTTACC
Statistics
Matches: 182, Mismatches: 31, Indels: 30
0.75 0.13 0.12
Matches are distributed among these distances:
43 2 0.01
44 4 0.02
45 4 0.02
46 70 0.38
47 73 0.40
48 27 0.15
49 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (44 bp):
TTATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGAAT
Found at i:88528007 original size:47 final size:47
Alignment explanation
Indices: 88527956--88528163 Score: 214
Period size: 47 Copynumber: 4.4 Consensus size: 47
88527946 AGTATAAAAT
* *
88527956 CATGTCTAGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGA-
1 CATGTCTGGGACATGGCATCGGC-TCGAGATGAGAGCTAGTGTAAGAC
* * *
88528003 CATGTTTGGGACAT-GCATTGGCCTCGAGACGTA-AGCTAGTGTAAGA-
1 CATGTCTGGGACATGGCATCGG-CTCGAGATG-AGAGCTAGTGTAAGAC
* *
88528049 CATGTCTGGGACAT-GCATCGGCTACGAGATGATAG-TCACTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCT-CGAGATGAGAGCT-AGTGTAAGAC
* * *
88528096 CATGTCTGGGACATGGCATCGACTTGAGAT-ATGAGCCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCTCGAGATGA-GAGCTAGTGTAAGAC
*
88528143 CATGTCTAGGACATGGCATCG
1 CATGTCTGGGACATGGCATCG
88528164 TCACCTTACC
Statistics
Matches: 137, Mismatches: 15, Indels: 18
0.81 0.09 0.11
Matches are distributed among these distances:
45 4 0.03
46 61 0.45
47 64 0.47
48 8 0.06
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
CATGTCTGGGACATGGCATCGGCTCGAGATGAGAGCTAGTGTAAGAC
Found at i:88528106 original size:93 final size:94
Alignment explanation
Indices: 88527942--88528163 Score: 238
Period size: 93 Copynumber: 2.4 Consensus size: 94
88527932 ACTTTATGGG
* * * * *
88527942 AGCCAGTATAAAATCATGTCTAGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAGATGAGAGCTACTGTAAGACATG
* * * *
88528007 TTTGGGACAT-GCATTGGCCTCGAGACGTA
66 TCTGGGACATGGCA-TCGACTCGAGACATA
* * *
88528036 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACGAGATGATAG-TCACTGTAAGACC
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCAT-CGAGATGAGAGCT-ACTGTAAGA-C
* * *
88528097 ATGTCTGGGACATGGCATCGACTTGAGATATG
63 ATGTCTGGGACATGGCATCGACTCGAGACATA
88528129 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
88528164 TCACCTTACC
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
91 2 0.02
92 25 0.24
93 47 0.44
94 26 0.25
95 6 0.06
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAGATGAGAGCTACTGTAAGACATG
TCTGGGACATGGCATCGACTCGAGACATA
Found at i:88529098 original size:28 final size:28
Alignment explanation
Indices: 88529056--88529175 Score: 206
Period size: 28 Copynumber: 4.3 Consensus size: 28
88529046 GACACGGGCT
*
88529056 AGGG-CACGGGTGTGTCGTGGCCGTGTG
1 AGGGACACGGGCGTGTCGTGGCCGTGTG
*
88529083 AGGGACACGGGCGTGTCGTGGCCGTGTA
1 AGGGACACGGGCGTGTCGTGGCCGTGTG
88529111 AGGGACACGGGCGTGTCGTGGCCGTGTG
1 AGGGACACGGGCGTGTCGTGGCCGTGTG
*
88529139 AGGGACACAGGCGTGTCGTGGCCGTGTG
1 AGGGACACGGGCGTGTCGTGGCCGTGTG
88529167 AGGGACACG
1 AGGGACACG
88529176 AGCCAATGGC
Statistics
Matches: 87, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 4 0.05
28 83 0.95
ACGTcount: A:0.13, C:0.21, G:0.48, T:0.17
Consensus pattern (28 bp):
AGGGACACGGGCGTGTCGTGGCCGTGTG
Found at i:88531903 original size:43 final size:42
Alignment explanation
Indices: 88531868--88532006 Score: 140
Period size: 42 Copynumber: 3.2 Consensus size: 42
88531858 TCTTATATGT
88531868 AATCAAATATCGATGCC-ACTGTCCCAAACAGGGTCTTACACGA
1 AATCAAATAT-GATGCCGA-TGTCCCAAACAGGGTCTTACACGA
* *
88531911 AATCAAATATGATGCCGATGTCCCAAACATGGTCTTACACATA
1 AATCAAATATGATGCCGATGTCCCAAACAGGGTCTTACAC-GA
* * * *
88531954 AATCTCAAAT-TGATGCCAACGTTCCAAAC-GTGGTCTTACATGA
1 AA--TCAAATATGATGCCGATGTCCCAAACAG-GGTCTTACACGA
*
88531997 AATCACATAT
1 AATCAAATAT
88532007 TGGAATCCTA
Statistics
Matches: 81, Mismatches: 9, Indels: 13
0.79 0.09 0.13
Matches are distributed among these distances:
41 5 0.06
42 28 0.35
43 17 0.21
44 25 0.31
45 6 0.07
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.25
Consensus pattern (42 bp):
AATCAAATATGATGCCGATGTCCCAAACAGGGTCTTACACGA
Found at i:88531981 original size:44 final size:42
Alignment explanation
Indices: 88531837--88532006 Score: 148
Period size: 43 Copynumber: 4.0 Consensus size: 42
88531827 AGCTCGTACA
* * * * *
88531837 ATGCCAAAGT-CCAAGACGTGGTCTTATATGTAATCAAATATCG
1 ATGCCAACGTCCCAA-ACATGGTCTTACACGAAATCAAATAT-G
*
88531880 ATGCC-ACTGTCCCAAACAGGGTCTTACACGAAATCAAATATG
1 ATGCCAAC-GTCCCAAACATGGTCTTACACGAAATCAAATATG
* * *
88531922 ATGCCGATGTCCCAAACATGGTCTTACACATAAATCTCAAAT-TG
1 ATGCCAACGTCCCAAACATGGTCTTACAC-GAAA--TCAAATATG
* * * *
88531966 ATGCCAACGTTCCAAACGTGGTCTTACATGAAATCACATAT
1 ATGCCAACGTCCCAAACATGGTCTTACACGAAATCAAATAT
88532007 TGGAATCCTA
Statistics
Matches: 104, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
41 5 0.05
42 28 0.27
43 35 0.34
44 30 0.29
45 6 0.06
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCAACGTCCCAAACATGGTCTTACACGAAATCAAATATG
Found at i:88532623 original size:32 final size:32
Alignment explanation
Indices: 88532582--88532648 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
88532572 AAACATAGTA
88532582 ATCTAACACATATCTTTCATTTTTCATCAACT
1 ATCTAACACATATCTTTCATTTTTCATCAACT
88532614 ATCTAACACATATCTTTCATTTTTCATCAACT
1 ATCTAACACATATCTTTCATTTTTCATCAACT
88532646 ATC
1 ATC
88532649 ATCACAAAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.43
Consensus pattern (32 bp):
ATCTAACACATATCTTTCATTTTTCATCAACT
Found at i:88536038 original size:28 final size:28
Alignment explanation
Indices: 88536006--88536104 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
88535996 GCAATAAGCC
*
88536006 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
88536034 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
88536062 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
88536091 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88536105 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:88536133 original size:41 final size:41
Alignment explanation
Indices: 88536088--88536189 Score: 204
Period size: 41 Copynumber: 2.5 Consensus size: 41
88536078 TATAATTTGA
88536088 ACCCGCACACTTAGTGCCAATTTGTGATTATAAATGTTTAC
1 ACCCGCACACTTAGTGCCAATTTGTGATTATAAATGTTTAC
88536129 ACCCGCACACTTAGTGCCAATTTGTGATTATAAATGTTTAC
1 ACCCGCACACTTAGTGCCAATTTGTGATTATAAATGTTTAC
88536170 ACCCGCACACTTAGTGCCAA
1 ACCCGCACACTTAGTGCCAA
88536190 AACCGATCAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (41 bp):
ACCCGCACACTTAGTGCCAATTTGTGATTATAAATGTTTAC
Found at i:88540177 original size:48 final size:48
Alignment explanation
Indices: 88540108--88540970 Score: 1377
Period size: 48 Copynumber: 18.0 Consensus size: 48
88540098 AGATAAATAT
* *
88540108 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
88540156 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
88540204 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
88540252 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCGAATATGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
88540300 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
88540348 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
88540396 ATATAT-GGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
88540443 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
88540491 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
** * * *
88540539 ATATATGGGTGATATGTATATGTGGTAAACCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
88540587 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
88540635 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
88540683 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
88540731 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
88540779 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
88540827 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
88540875 ATATATATGAGATATGTATATGTCGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
88540923 ATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
88540971 TGTTGTAACA
Statistics
Matches: 765, Mismatches: 49, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 0.06
48 721 0.94
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:88541065 original size:37 final size:37
Alignment explanation
Indices: 88541015--88541159 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
88541005 GGAAATATAT
88541015 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
88541052 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
88541089 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
88541126 TCCGGGTAAGACCCGATAACTTCGCGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
88541160 TCGTCTGAGC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:88546268 original size:43 final size:43
Alignment explanation
Indices: 88546204--88546326 Score: 155
Period size: 43 Copynumber: 2.9 Consensus size: 43
88546194 CGGAAAGTTC
*
88546204 ATACAATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCAA
1 ATACAATGCCAACTGTCCCAGACATGGTCTTACACGTAATCAA
*
88546246 ATATCAATGCC-ACTGTCCCAGACA-GTGTCTTACACGAAATCAA
1 ATA-CAATGCCAACTGTCCCAGACATG-GTCTTACACGTAATCAA
* * *
88546289 ATACGATGCCGA-TGTTCCAGACATGGTCTTACACGTAA
1 ATACAATGCCAACTGTCCCAGACATGGTCTTACACGTAA
88546327 ATCTCAAATC
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
42 34 0.48
43 37 0.52
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.24
Consensus pattern (43 bp):
ATACAATGCCAACTGTCCCAGACATGGTCTTACACGTAATCAA
Found at i:88546329 original size:43 final size:43
Alignment explanation
Indices: 88546204--88546343 Score: 148
Period size: 43 Copynumber: 3.3 Consensus size: 43
88546194 CGGAAAGTTC
* *
88546204 ATACAATGCCAAC-GTCCCAGACATGGTCTTACATGT-AATCAA
1 ATACGATGCC-ACTGTCCCAGACATGGTCTTACACGTAAATCAA
*
88546246 ATATCAATGCCACTGTCCCAGACA-GTGTCTTACACG-AAATCAA
1 ATA-CGATGCCACTGTCCCAGACATG-GTCTTACACGTAAATCAA
*
88546289 ATACGATGCCGA-TGTTCCAGACATGGTCTTACACGTAAATCTCAA
1 ATACGATGCC-ACTGTCCCAGACATGGTCTTACACGTAAA--TCAA
88546334 AT-CGATGCCA
1 ATACGATGCCA
88546344 ACATCCCATA
Statistics
Matches: 86, Mismatches: 3, Indels: 17
0.81 0.03 0.16
Matches are distributed among these distances:
42 32 0.37
43 41 0.48
44 7 0.08
45 6 0.07
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (43 bp):
ATACGATGCCACTGTCCCAGACATGGTCTTACACGTAAATCAA
Found at i:88549872 original size:27 final size:28
Alignment explanation
Indices: 88549815--88549884 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
88549805 AAACTTGTAC
*
88549815 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
88549843 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
88549870 AGCACTAGGTGTGCG
1 AGCACTAAGTGTGCG
88549885 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:88554250 original size:21 final size:21
Alignment explanation
Indices: 88554224--88554265 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
88554214 ATAATGAGTA
88554224 AATTTTTATTTTCCATTACTT
1 AATTTTTATTTTCCATTACTT
88554245 AATTTTTATTTTCCATTACTT
1 AATTTTTATTTTCCATTACTT
88554266 CTGTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTTTTATTTTCCATTACTT
Found at i:88556381 original size:24 final size:24
Alignment explanation
Indices: 88556352--88556402 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
88556342 GGCTGAGTTT
88556352 AAATCTTGGTTCAGGTTGGTTCAA
1 AAATCTTGGTTCAGGTTGGTTCAA
88556376 AAATCTTGGTTCAGGTTGGTTCAA
1 AAATCTTGGTTCAGGTTGGTTCAA
88556400 AAA
1 AAA
88556403 GTTACTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (24 bp):
AAATCTTGGTTCAGGTTGGTTCAA
Found at i:88556424 original size:3 final size:3
Alignment explanation
Indices: 88556416--88556458 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
88556406 ACTTGTTAAC
88556416 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
88556459 TAGAAAGCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:88557815 original size:19 final size:20
Alignment explanation
Indices: 88557791--88557828 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
88557781 TTTAGGTCAA
*
88557791 TTATTTTT-ACAAATTGATT
1 TTATTTTTAAAAAATTGATT
88557810 TTATTTTTAAAAAATTGAT
1 TTATTTTTAAAAAATTGAT
88557829 ATATGTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
TTATTTTTAAAAAATTGATT
Found at i:88559627 original size:41 final size:41
Alignment explanation
Indices: 88559570--88559650 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
88559560 ATGGAAAGAA
*
88559570 AGAGAATACTTTCTCATCTTCTTCTCCATTGAAAAACACCG
1 AGAGAATACTTTCTCATCTTCTTCTCCATTCAAAAACACCG
88559611 AGAGAATACTTTCTCATCTTCTTCTCCATTCAAAAACACC
1 AGAGAATACTTTCTCATCTTCTTCTCCATTCAAAAACACC
88559651 ATTTTAGCTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.32
Consensus pattern (41 bp):
AGAGAATACTTTCTCATCTTCTTCTCCATTCAAAAACACCG
Found at i:88560590 original size:46 final size:45
Alignment explanation
Indices: 88560502--88560620 Score: 148
Period size: 46 Copynumber: 2.6 Consensus size: 45
88560492 TAGGCTATTT
* * *
88560502 TTTGTGTAAGTTCAACCCTAACGGTGAATAGGCACTATTATCCGA
1 TTTGTGTAGGTTCAACCTTAACGGTGAATAGACACTATTATCCGA
* * *
88560547 TTTGTGTAGGTTCAACTTTAATGGGTGAATAGACACTGTTATCCGA
1 TTTGTGTAGGTTCAACCTTAA-CGGTGAATAGACACTATTATCCGA
**
88560593 TTCATGTAGGTTCAACCTTAACGAGTGA
1 TTTGTGTAGGTTCAACCTTAACG-GTGA
88560621 CCAGACAATA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
45 19 0.31
46 43 0.69
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (45 bp):
TTTGTGTAGGTTCAACCTTAACGGTGAATAGACACTATTATCCGA
Found at i:88562134 original size:2 final size:2
Alignment explanation
Indices: 88562081--88562118 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
88562071 GTTTGTGAAT
*
88562081 TA TA TA AA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88562119 GACATTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:88562174 original size:7 final size:7
Alignment explanation
Indices: 88562162--88562189 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
88562152 ATAATAATGC
88562162 TGATAAA
1 TGATAAA
88562169 TGATAAA
1 TGATAAA
88562176 TGATAAA
1 TGATAAA
88562183 TGATAAA
1 TGATAAA
88562190 AATGTTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TGATAAA
Found at i:88562932 original size:22 final size:22
Alignment explanation
Indices: 88562907--88562954 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
88562897 AAGTACTATG
88562907 TTATACAAACTTACTAAGCATT
1 TTATACAAACTTACTAAGCATT
* **
88562929 TTATGCTTACTTACTAAGCATT
1 TTATACAAACTTACTAAGCATT
88562951 TTAT
1 TTAT
88562955 GCTTACTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (22 bp):
TTATACAAACTTACTAAGCATT
Found at i:88562955 original size:22 final size:22
Alignment explanation
Indices: 88562915--88562965 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
88562905 TGTTATACAA
88562915 ACTTACTAAGCATTTTATGCTT
1 ACTTACTAAGCATTTTATGCTT
88562937 ACTTACTAAGCATTTTATGCTT
1 ACTTACTAAGCATTTTATGCTT
88562959 ACTTACT
1 ACTTACT
88562966 TTTATTTCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (22 bp):
ACTTACTAAGCATTTTATGCTT
Found at i:88563379 original size:26 final size:26
Alignment explanation
Indices: 88563350--88563457 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
88563340 TGGTACAAAT
88563350 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
88563376 TGATAATGGATTACGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
88563402 TTATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
88563428 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88563454 TGAT
1 TGAT
88563458 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:88569408 original size:40 final size:40
Alignment explanation
Indices: 88569343--88569554 Score: 315
Period size: 40 Copynumber: 5.3 Consensus size: 40
88569333 ATTATTCGAA
* * *
88569343 TATAACCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTGAT
1 TATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGAC
*
88569383 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
88569423 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
88569463 TATAT-CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
* * *
88569502 TATGTCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTG-C
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGAC
88569542 TATATCC-GGCTAA
1 TATATCCGGGCTAA
88569555 ATTTCGAAGG
Statistics
Matches: 162, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 45 0.28
40 115 0.71
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
Found at i:88569564 original size:79 final size:79
Alignment explanation
Indices: 88569343--88569554 Score: 311
Period size: 79 Copynumber: 2.7 Consensus size: 79
88569333 ATTATTCGAA
* * *
88569343 TATAACCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGG
1 TATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACTATATCC-GGCTAAGTCCCGAAGG
*
88569407 CATTTGTGCTAGTGAT
64 CATTTGTGCTAGTGAC
*
88569423 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCGGGCTAAGTCCCGAAGGCA
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGTCCCGAAGGCA
88569488 TTTGTGCTAGTGAC
66 TTTGTGCTAGTGAC
* * *
88569502 TATGTCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTG-CTATATCCGGCTAA
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGCTAA
88569555 ATTTCGAAGG
Statistics
Matches: 121, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
79 78 0.64
80 43 0.36
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (79 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGAC
Found at i:88573591 original size:37 final size:37
Alignment explanation
Indices: 88573538--88573659 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
88573528 TATAAAAGAA
*
88573538 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
88573575 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
88573612 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
88573649 GTCTCACCCGG
1 GTCTTACCCGG
88573660 AACATATTCC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Done.