Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 78 of 318
Found at i:22827311 original size:6 final size:6
Alignment explanation
Indices: 22827300--22827328 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
22827290 GCAAATGGAT
22827300 CATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTT
22827329 TTGGAAACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.52
Consensus pattern (6 bp):
CATTTC
Found at i:22830831 original size:65 final size:65
Alignment explanation
Indices: 22830727--22830857 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
22830717 CCCCTAGGAT
22830727 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTATCTGA
*
22830792 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTATCTGA
22830857 T
1 T
22830858 GCATGGGACT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTATCTGA
Found at i:22831190 original size:34 final size:32
Alignment explanation
Indices: 22831098--22831191 Score: 91
Period size: 34 Copynumber: 2.8 Consensus size: 32
22831088 GAATGGGCCC
* *
22831098 CTGTTATCTGAAAAGGGGCTAAGGCCCAGTTTA
1 CTGTTATCTGAAAA-GGGCTTAGGCCCAGTTCA
* * *
22831131 CTG-TATTTTGAAAAGGGTTTCGGCCCAGTATCCA
1 CTGTTA-TCTGAAAAGGGCTTAGGCCCAGT-T-CA
*
22831165 CTGTTATCTGAATAGGGCTTAGGCCCA
1 CTGTTATCTGAAAAGGGCTTAGGCCCA
22831192 ATGGGCTTGA
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
32 14 0.29
33 11 0.23
34 21 0.44
35 2 0.04
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (32 bp):
CTGTTATCTGAAAAGGGCTTAGGCCCAGTTCA
Found at i:22837566 original size:30 final size:30
Alignment explanation
Indices: 22837532--22837632 Score: 73
Period size: 30 Copynumber: 3.2 Consensus size: 30
22837522 GACCTGAATG
22837532 CATGTTTGACTATTACTATTTACTGCATGC
1 CATGTTTGACTATTACTATTTACTGCATGC
* * *
22837562 CATG-TT-ATTATTATCTGATAAGGTTGATATGAATG-
1 CATGTTTGACTATTA-CT-AT----TT-A-CTGCATGC
*
22837597 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGACTATTACTATTTACTGCATGC
22837627 CATGTT
1 CATGTT
22837633 AGTATTATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 22
0.65 0.09 0.27
Matches are distributed among these distances:
28 6 0.11
29 9 0.17
30 13 0.25
31 2 0.04
34 2 0.04
35 7 0.13
36 9 0.17
37 5 0.09
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.44
Consensus pattern (30 bp):
CATGTTTGACTATTACTATTTACTGCATGC
Found at i:22837619 original size:65 final size:65
Alignment explanation
Indices: 22837515--22837645 Score: 217
Period size: 65 Copynumber: 2.0 Consensus size: 65
22837505 CCCCTAGGGT
* *
22837515 TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACATGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTAGTATTATCTGA
* * *
22837580 TAAGGTTGATATGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTAGTATTATTTGA
1 TAAGGTTGACATGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTAGTATTATCTGA
22837645 T
1 T
22837646 GCATGGGACT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (65 bp):
TAAGGTTGACATGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTAGTATTATCTGA
Found at i:22837930 original size:33 final size:33
Alignment explanation
Indices: 22837893--22837988 Score: 97
Period size: 34 Copynumber: 2.9 Consensus size: 33
22837883 CTATGGGCCA
* *
22837893 TACTGTTATCTGAAAAGGGGCTAAGGCCCAGT-T
1 TACTGTTATCTGAAAA-GGGCTTAGGCCCAGTAC
* *
22837926 TACTG-TATTTTGAAAAGGGCTTCGGCCCAGTACC
1 TACTGTTA-TCTGAAAAGGGCTTAGGCCCAGTA-C
* *
22837960 CACTGTTATCTGAATAGGGCTTAGGCCCA
1 TACTGTTATCTGAAAAGGGCTTAGGCCCA
22837989 ATGGGCTTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
32 15 0.29
33 12 0.24
34 22 0.43
35 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (33 bp):
TACTGTTATCTGAAAAGGGCTTAGGCCCAGTAC
Found at i:22845436 original size:93 final size:93
Alignment explanation
Indices: 22845324--22845495 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
22845314 GCCCATAAGT
* * *
22845324 GAACTCGGACTCAACTCAACAAGCTAGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22845389 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * *
22845417 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
22845482 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
22845496 CAAATATCCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:22845491 original size:46 final size:46
Alignment explanation
Indices: 22845316--22845491 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
22845306 TGTAACCCGC
* * * *
22845316 CCATAAGTGAACTCGGACTCAACTCAACAAGCTAGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
22845362 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
22845412 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
22845455 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
22845492 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:22850515 original size:8 final size:8
Alignment explanation
Indices: 22850502--22850531 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
22850492 CTAGATCGGC
22850502 AAAAGCCG
1 AAAAGCCG
*
22850510 AAAAGCTG
1 AAAAGCCG
22850518 AAAAGCCG
1 AAAAGCCG
22850526 AAAAGC
1 AAAAGC
22850532 TGGCATTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.53, C:0.20, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:22850523 original size:16 final size:16
Alignment explanation
Indices: 22850502--22850533 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22850492 CTAGATCGGC
22850502 AAAAGCCGAAAAGCTG
1 AAAAGCCGAAAAGCTG
22850518 AAAAGCCGAAAAGCTG
1 AAAAGCCGAAAAGCTG
22850534 GCATTTGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.25, T:0.06
Consensus pattern (16 bp):
AAAAGCCGAAAAGCTG
Found at i:22851307 original size:27 final size:28
Alignment explanation
Indices: 22851255--22851307 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
22851245 TTACTGTAAG
* *
22851255 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
22851283 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
22851308 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:22855975 original size:8 final size:8
Alignment explanation
Indices: 22855962--22855991 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
22855952 CTAGATCGGC
22855962 AAAAGCCG
1 AAAAGCCG
22855970 AAAAGCCG
1 AAAAGCCG
22855978 AAAAGCCG
1 AAAAGCCG
22855986 AAAAGC
1 AAAAGC
22855992 TGGCATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.23, G:0.23, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:22856642 original size:20 final size:21
Alignment explanation
Indices: 22856599--22856644 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
22856589 ACTGTTCTGT
22856599 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
22856619 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
22856638 TATGGGC
1 TATGGGC
22856645 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:22856784 original size:27 final size:28
Alignment explanation
Indices: 22856732--22856784 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
22856722 TTACTGTAAG
* *
22856732 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
22856760 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
22856785 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:22858506 original size:206 final size:206
Alignment explanation
Indices: 22858152--22859145 Score: 1559
Period size: 206 Copynumber: 4.8 Consensus size: 206
22858142 AATCTGCTAT
* * * * * * *
22858152 CTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAGCGTAAGCAA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
22858217 GTGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* *
22858282 GGATCTTGCTTCAGTGAAATTATCTGAAGGTGAGATCTACCATGTATCTGCTCCCCGTCGAAGTG
131 GGATCTTGCTTCAGTGAAATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTG
22858347 GAGATGCCAGA
196 GAGATGCCAGA
22858358 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
**
22858423 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
22858488 GGATCTTGCTTCAGTGAAATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTG
131 GGATCTTGCTTCAGTGAAATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTG
22858553 GAGATGCCAGA
196 GAGATGCCAGA
* * *
22858564 ATTCAATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
22858629 GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCC-AATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
22858693 GGATCTTGCTTCAGTGAAATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTG
131 GGATCTTGCTTCAGTGAAATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTG
22858758 GAGAT-CCAGA
196 GAGATGCCAGA
* *
22858768 CTTCAATTTGTTCTTTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * *
22858833 GTGAAAGCCAAATCAACTATGTCTTCGGTTCGTTCCTTATAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * ** * *
22858898 GGATC-TCCTTTAGT-ATAAACATCTGAAAGTGAGATCTGCTATGTATCTGCTCCCCGTCAAAGT
131 GGATCTTGCTTCAGTGA-AATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGT
*
22858961 AGAGATGCCAGA
195 GGAGATGCCAGA
* *
22858973 CTTTGATTTGTTCTCTGACAATACAGAAATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * * *
22859038 GTGAAAGCTAAATTAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCCTCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* **
22859103 GGATC-TCCTTCAGT-ATAAACATCTGAAGGTGAGATCTGCTATG
131 GGATCTTGCTTCAGTGA-AATTATCTGAAGGTGAGATCTGCTATG
22859146 CTACGGCCTA
Statistics
Matches: 740, Mismatches: 45, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
203 1 0.00
204 173 0.23
205 258 0.35
206 308 0.42
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
GGATCTTGCTTCAGTGAAATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTG
GAGATGCCAGA
Found at i:22859077 original size:409 final size:412
Alignment explanation
Indices: 22858163--22859145 Score: 1557
Period size: 409 Copynumber: 2.4 Consensus size: 412
22858153 TTCGATCTGC
* * * * * * *
22858163 TCTCTGCCAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAGCGTAAGCAAGTGAAAACCAA
1 TCTCTGACAATACAGAAATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
22858228 ATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTT
66 ATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTT
* *
22858293 CAGTGAAATTATCTGAAGGTGAGATCTACCATGTATCTGCTCCCCGTCGAAGTGGAGATGCCAGA
131 CAGTGAAATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTGGAGATGCCAGA
*
22858358 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
196 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * *
22858423 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAAATGCCAAATCATCTT
261 GTGAAAGCCAAATCAACTATGTCTTCGATTCGTTCCTTATAAGCACAAAAATGCCAAATCATCTT
* ** * * *
22858488 GGATCTTGCTTCAGTGAAATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTG
326 GGATCTTCCTTCAGTGAAAACATCTGAAAGTGAGATCTGCTATGTATCTGCTCCCCGTCAAAGTA
22858553 GAGATGCCAGAATTCAATTTGT
391 GAGATGCCAGAATTCAATTTGT
22858575 TCTCTGACAATACA-AAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
1 TCTCTGACAATACAGAA-ATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
* * *
22858639 AATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCC-AATCATCTTGGATCTTGCT
65 AATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCT
22858703 TCAGTGAAATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTGGAGAT-CCAG
130 TCAGTGAAATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTGGAGATGCCAG
*
22858767 ACTTCAATTTGTTCTTTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACA
195 ACTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACA
* **
22858832 CGTGAAAGCCAAATCAACTATGTCTTCGGTTCGTTCCTTATAAGCACAAGGATGCCAAATCATCT
260 CGTGAAAGCCAAATCAACTATGTCTTCGATTCGTTCCTTATAAGCACAAAAATGCCAAATCATCT
*
22858897 TGGATC-TCCTTTAGT-ATAAACATCTGAAAGTGAGATCTGCTATGTATCTGCTCCCCGTCAAAG
325 TGGATCTTCCTTCAGTGA-AAACATCTGAAAGTGAGATCTGCTATGTATCTGCTCCCCGTCAAAG
* **
22858960 TAGAGATGCCAGACTTTGATTTGT
389 TAGAGATGCCAGAATTCAATTTGT
*
22858984 TCTCTGACAATACAGAAATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCTAA
1 TCTCTGACAATACAGAAATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
* * * *
22859049 ATTAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCCTCTTGGATC-TCCTT
66 ATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTT
**
22859113 CAGT-ATAAACATCTGAAGGTGAGATCTGCTATG
131 CAGTGA-AATTATCTGAAGGTGAGATCTGCTATG
22859146 CTACGGCCTA
Statistics
Matches: 526, Mismatches: 40, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
408 2 0.00
409 202 0.38
410 147 0.28
411 78 0.15
412 97 0.18
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (412 bp):
TCTCTGACAATACAGAAATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
ATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTT
CAGTGAAATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTGGAGATGCCAGA
CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAACTATGTCTTCGATTCGTTCCTTATAAGCACAAAAATGCCAAATCATCTT
GGATCTTCCTTCAGTGAAAACATCTGAAAGTGAGATCTGCTATGTATCTGCTCCCCGTCAAAGTA
GAGATGCCAGAATTCAATTTGT
Found at i:22871082 original size:15 final size:15
Alignment explanation
Indices: 22871042--22871087 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
22871032 ATTATCATTA
*
22871042 AAAATATATACATAA-
1 AAAATATTTA-ATAAT
22871057 AAAATATTTAATTAAT
1 AAAATATTTAA-TAAT
22871073 AAAATA-TTAATAAT
1 AAAATATTTAATAAT
22871087 A
1 A
22871088 CATCTACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.21
15 16 0.57
16 6 0.21
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAATATTTAATAAT
Found at i:22871691 original size:19 final size:19
Alignment explanation
Indices: 22871667--22871704 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
22871657 TATAAAAGTA
22871667 AAAAAAAAACTTTAAACCT
1 AAAAAAAAACTTTAAACCT
22871686 AAAAAAAAACTTTAAACCT
1 AAAAAAAAACTTTAAACCT
22871705 TCATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.16, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAAAAAAACTTTAAACCT
Found at i:22881274 original size:42 final size:43
Alignment explanation
Indices: 22881228--22881323 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
22881218 TCCCAAAAAA
* * * *
22881228 GGTCTTACAC-TAA-ATCATATACGATGCCAATGTCCTAGACAT
1 GGTCTTACACGTAATATCAAAT-CAATGCCAAAGTCCCAGACAT
*
22881270 GGTCTTACACGTAATCTCAAATCAATGCCAAAGTCCCAGACAT
1 GGTCTTACACGTAATATCAAATCAATGCCAAAGTCCCAGACAT
22881313 GGTCTTACACG
1 GGTCTTACACG
22881324 ATATCACATC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
42 10 0.21
43 32 0.68
44 5 0.11
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAATATCAAATCAATGCCAAAGTCCCAGACAT
Found at i:22884370 original size:54 final size:52
Alignment explanation
Indices: 22884284--22884441 Score: 158
Period size: 54 Copynumber: 3.0 Consensus size: 52
22884274 GGACTATGAC
* * *
22884284 AACAAGTGATAAGCAATATTCGTATAAAACCATAGCTGGGCTATGGCATCGGAA
1 AACAAGTGATAAG-TAT-TTCGTATAAGACCATAGCTGGGATATGGCATCGGAA
* * *
22884338 AACAAGTGATAAGTGATTTCTGTATAAGACCATAGCTGGGTTATGACATCGGAG
1 AACAAGTGATAAGT-ATTTC-GTATAAGACCATAGCTGGGATATGGCATCGGAA
* * * *
22884392 AA-AAGTGATAAATACTTCCGTGTAAGACCATA-TTCGGGATATGGCATCGG
1 AACAAGTGATAAGTA-TTTCGTATAAGACCATAGCT-GGGATATGGCATCGG
22884442 TATGATATAT
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
51 1 0.01
52 26 0.29
53 16 0.18
54 46 0.52
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (52 bp):
AACAAGTGATAAGTATTTCGTATAAGACCATAGCTGGGATATGGCATCGGAA
Found at i:22884707 original size:16 final size:16
Alignment explanation
Indices: 22884685--22884722 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
22884675 GGAGAAATTA
22884685 ATGAATTATATATGAT
1 ATGAATTATATATGAT
*
22884701 GTGAATTATATATGAT
1 ATGAATTATATATGAT
22884717 ATGAAT
1 ATGAAT
22884723 GTTGCACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (16 bp):
ATGAATTATATATGAT
Found at i:22888934 original size:2 final size:2
Alignment explanation
Indices: 22888927--22888961 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
22888917 GAAATAGAAA
22888927 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22888962 ACAAAACTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22915934 original size:37 final size:37
Alignment explanation
Indices: 22915834--22915936 Score: 107
Period size: 37 Copynumber: 2.7 Consensus size: 37
22915824 GACGACGAGT
* *
22915834 TGATGAGACACTGGGTGTCAATTTACTACTTCAGATTAAT
1 TGATGAGACATTGGGTGTCAA-TT--TACTTCAGATTAAG
* * * * *
22915874 TCGATAAGGCATTGGGTGCCAATTTACTTCAGTTTAGG
1 T-GATGAGACATTGGGTGTCAATTTACTTCAGATTAAG
22915912 TGATGAGACATTGGGTGTCAATTTA
1 TGATGAGACATTGGGTGTCAATTTA
22915937 TTACTTTGAA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
37 21 0.40
38 12 0.23
40 3 0.06
41 16 0.31
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (37 bp):
TGATGAGACATTGGGTGTCAATTTACTTCAGATTAAG
Found at i:22917384 original size:2 final size:2
Alignment explanation
Indices: 22917377--22917403 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22917367 TCAAGTGTTC
22917377 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
22917404 CTTTCTCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22925354 original size:41 final size:40
Alignment explanation
Indices: 22925169--22925356 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
22925159 GCGACTCGTT
* * * * *
22925169 CAAAAGCCTTCGGGACATAGCCCGG-TTATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTAGCA
* * * *
22925209 CAAATGCCTTCGGGACTTAACCCGGATTTGGGAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
* *
22925249 CAAATGCCTTC-GGATCTTAGTCCGAATTTAGTAACTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTAGCA
* *
22925289 CAAATGCCTTCGGGAATT-GACCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGATTTAGTAAC-TAGCA
*
22925330 CAAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAGCCCGGAT
22925357 ACCATTCGAA
Statistics
Matches: 123, Mismatches: 19, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
39 4 0.03
40 85 0.69
41 33 0.27
42 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
Found at i:22929602 original size:40 final size:40
Alignment explanation
Indices: 22929475--22929604 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
22929465 ATGCTGGAAA
* *
22929475 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
22929515 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
22929555 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
22929595 TTATATCCGG
1 TTATATCCGG
22929605 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:22929603 original size:80 final size:80
Alignment explanation
Indices: 22929437--22929604 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
22929427 CAATTGAATG
* * *
22929437 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
22929502 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
22929517 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
22929581 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
22929597 ATATCCGG
1 ATATCCGG
22929605 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:22936149 original size:41 final size:40
Alignment explanation
Indices: 22935964--22936151 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
22935954 GCGACTCGCT
* * * * *
22935964 CAAAAGCCTTCGGGACATAGCCCGG-TTATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTAGCA
* * * *
22936004 CAAATGCCTTCGGGACTTAACCCGGATTTGGGAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
* *
22936044 CAAATGCCTTC-GGATCTTAGTCCGAATTTAGTAACTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTAGCA
* *
22936084 CAAATGCCTTCGGGAATT-GACCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGATTTAGTAAC-TAGCA
*
22936125 CAAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAGCCCGGAT
22936152 ACCATTCGAA
Statistics
Matches: 123, Mismatches: 19, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
39 4 0.03
40 85 0.69
41 33 0.27
42 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
Found at i:22941020 original size:31 final size:31
Alignment explanation
Indices: 22940985--22941044 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
22940975 ATGACCAAAA
22940985 TGCAAATATATAGAATATATGAGTAATATGT
1 TGCAAATATATAGAATATATGAGTAATATGT
*
22941016 TGCAAATATATAGAATATATGAGTTATAT
1 TGCAAATATATAGAATATATGAGTAATAT
22941045 ACTCATGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.37
Consensus pattern (31 bp):
TGCAAATATATAGAATATATGAGTAATATGT
Found at i:22943367 original size:48 final size:48
Alignment explanation
Indices: 22943266--22943370 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
22943256 CCATGCCTAT
* * * * ** *
22943266 TATTTTTGTTACAAAATTTGATTCACATGTTAAGCATGCCCAATGTAC
1 TATTTTTGTAACAAAATCTGATTCACATGATAAACATGCCCAATAAAA
*
22943314 TATTTTTGTAACAAAATCTGA-TCACATGATAAACATGCCCACTAAAA
1 TATTTTTGTAACAAAATCTGATTCACATGATAAACATGCCCAATAAAA
22943361 TAATTTTTGT
1 T-ATTTTTGT
22943371 TTCTATATGG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 21 0.44
48 27 0.56
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (48 bp):
TATTTTTGTAACAAAATCTGATTCACATGATAAACATGCCCAATAAAA
Found at i:22954073 original size:21 final size:20
Alignment explanation
Indices: 22954028--22954073 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
22954018 TTGTTGGAAT
22954028 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
22954047 GATTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
22954068 GGTTGA
1 GGTTGA
22954074 TAGCAATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:22955806 original size:28 final size:28
Alignment explanation
Indices: 22955766--22955822 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
22955756 AGGATGGTAG
22955766 TGGACGCTTTTGCTAATGGTGCTCTTCT
1 TGGACGCTTTTGCTAATGGTGCTCTTCT
22955794 TGGACGCTTTTGCTAATGGTGCTCTTCT
1 TGGACGCTTTTGCTAATGGTGCTCTTCT
22955822 T
1 T
22955823 TCTAAGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.11, C:0.21, G:0.25, T:0.44
Consensus pattern (28 bp):
TGGACGCTTTTGCTAATGGTGCTCTTCT
Found at i:22956700 original size:54 final size:54
Alignment explanation
Indices: 22956618--22956728 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
22956608 AAATGTCAAT
22956618 TTCACAAGAACCAGAATCTATAAAATCCGATAAGATAACTTCAGAACTAGCTAA
1 TTCACAAGAACCAGAATCTATAAAATCCGATAAGATAACTTCAGAACTAGCTAA
*
22956672 TTCACAAGAACCAGAATCTGTAAAATCCGATAAGATAACTTCAGAACTAGCTAA
1 TTCACAAGAACCAGAATCTATAAAATCCGATAAGATAACTTCAGAACTAGCTAA
22956726 TTC
1 TTC
22956729 TGATCAACTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (54 bp):
TTCACAAGAACCAGAATCTATAAAATCCGATAAGATAACTTCAGAACTAGCTAA
Found at i:22963704 original size:39 final size:40
Alignment explanation
Indices: 22963660--22963865 Score: 264
Period size: 40 Copynumber: 5.2 Consensus size: 40
22963650 CCTTCGGAGT
* *
22963660 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
*
22963699 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
22963739 TTAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGA-TATAGTAACTCGCACAAATGCCTTCGGGAC
*
22963778 TTAGCCCGGA-ATTAGTCACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
* * *
22963817 TTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTTGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
22963857 TTAGCCCGG
1 TTAGCCCGG
22963866 GTATCAATCC
Statistics
Matches: 154, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
38 1 0.01
39 76 0.49
40 77 0.50
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:22963727 original size:40 final size:40
Alignment explanation
Indices: 22963683--22963865 Score: 266
Period size: 39 Copynumber: 4.6 Consensus size: 40
22963673 GCTACTAGCT
*
22963683 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
*
22963723 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
*
22963763 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTCACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
22963802 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
22963841 CAAATGCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
22963866 GTATCAATCC
Statistics
Matches: 136, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
39 71 0.52
40 65 0.48
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:22963782 original size:79 final size:79
Alignment explanation
Indices: 22963676--22963865 Score: 269
Period size: 79 Copynumber: 2.4 Consensus size: 79
22963666 GGATATAGCT
* *
22963676 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGG-CT
*
22963740 TAGCCC-GATTATAGTA
64 TAGCCCGGAAT-TAGTA
* *
22963756 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTCACTCGCACAAATGCCTTCGGGCTTA
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGCTTA
*
22963820 GCCCGGAATTAGTC
66 GCCCGGAATTAGTA
*
22963834 ACTAGCACAAATGCCTTTGGGACTTAGCCCGG
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
22963866 GTATCAATCC
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
78 31 0.31
79 48 0.48
80 20 0.20
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGCTTA
GCCCGGAATTAGTA
Found at i:22968318 original size:47 final size:47
Alignment explanation
Indices: 22968264--22968454 Score: 231
Period size: 47 Copynumber: 4.1 Consensus size: 47
22968254 GGATTTTATA
* ** *
22968264 TGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCAATG
1 TGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAATG
* * *
22968311 TGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATG
1 TGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAATG
* * * * *
22968358 TGGTGAATATGAGCATGCATATGTGTGATGAGGCTGAATGGCCAATG
1 TGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAATG
* * *
22968405 TGGTGAATATGAACATGCATATATGTGGTGAA-GCCGAATGGTCAATG
1 TGATGAATATGAACATGCATATATGTGAT-AAGGCCGAATGGCCAATG
22968452 TGA
1 TGA
22968455 AATATATATA
Statistics
Matches: 127, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
47 126 0.99
48 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAATG
Found at i:22968363 original size:25 final size:25
Alignment explanation
Indices: 22968288--22968363 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
22968278 GTGTATATAT
22968288 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
22968313 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
22968335 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
22968360 GTGA
1 GTGA
22968364 ATATGAGCAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:22968417 original size:22 final size:22
Alignment explanation
Indices: 22968346--22968417 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
22968336 TGATAAGGCC
22968346 GAATGGCCAATGTGGTGAATAT
1 GAATGGCCAATGTGGTGAATAT
***
22968368 GAGCAT-G-CATATGTGTGATGAGGCT
1 GA--ATGGCCA-ATGTG-G-TGAATAT
22968393 GAATGGCCAATGTGGTGAATAT
1 GAATGGCCAATGTGGTGAATAT
22968415 GAA
1 GAA
22968418 CATGCATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26
Consensus pattern (22 bp):
GAATGGCCAATGTGGTGAATAT
Found at i:22968704 original size:37 final size:37
Alignment explanation
Indices: 22968654--22968728 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
22968644 AACTTGGAAA
*
22968654 AGTATGTCCGGGTAAGACCCGATGACTACGTGTGGAG
1 AGTATGCCCGGGTAAGACCCGATGACTACGTGTGGAG
*
22968691 AGTATGCCCGGGTAAGACCCGATGACTTCGTGTGGAG
1 AGTATGCCCGGGTAAGACCCGATGACTACGTGTGGAG
22968728 A
1 A
22968729 TTTCGTCTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.20, G:0.35, T:0.21
Consensus pattern (37 bp):
AGTATGCCCGGGTAAGACCCGATGACTACGTGTGGAG
Found at i:22972948 original size:79 final size:82
Alignment explanation
Indices: 22972830--22973014 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
22972820 ACGACTCGCT
** * *
22972830 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
22972893 GGGTTTAGTAACTT-GCA
65 GGATATAGTAACTTAGCA
* **
22972910 CAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGATCCTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
*
22972973 GATATAGTCACTTAGCA
66 GATATAGTAACTTAGCA
22972990 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22973015 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
GATATAGTAACTTAGCA
Found at i:22973014 original size:40 final size:39
Alignment explanation
Indices: 22972823--22973014 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
22972813 CGATATAACG
* ** * *
22972823 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
22972863 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
22972903 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
22972942 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
22972982 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
22973015 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:22979870 original size:40 final size:40
Alignment explanation
Indices: 22979826--22980047 Score: 319
Period size: 39 Copynumber: 5.6 Consensus size: 40
22979816 GCTACTAGCT
* *
22979826 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCACTCGCA
* * *
22979866 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCACTCGCA
22979906 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTCACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTCGCA
22979945 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTCACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTCGCA
* * *
22979984 CAAATTCCTTC-GGCCTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTCGCA
22980023 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
22980048 GTATCAATCC
Statistics
Matches: 171, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
38 2 0.01
39 103 0.60
40 66 0.39
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTCGCA
Found at i:22985963 original size:16 final size:16
Alignment explanation
Indices: 22985944--22985974 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22985934 CTTCTTCACT
22985944 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
22985960 TACTTACTTACTTAA
1 TACTCACTTACTTAA
22985975 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:22985980 original size:20 final size:20
Alignment explanation
Indices: 22985941--22985980 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22985931 AAACTTCTTC
* *
22985941 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
22985961 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
22985981 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:22986366 original size:108 final size:110
Alignment explanation
Indices: 22986213--22986410 Score: 296
Period size: 108 Copynumber: 1.8 Consensus size: 110
22986203 ATCCTTTTGA
* *
22986213 AACTTACCATTGCCATGTCTTGACATGGTCTTACATAGTAGCCTTGCCTTATG-AA-GTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATAGTAGCCTTGCCTTA-GAAACCTCACCAA
22986276 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
22986321 AACTTATCAATGCCATGTCTTGACATGGTCTTACAT-GATTTCCTTGCCTTAGAAACCTTACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATAG-TAGCCTTGCCTTAGAAACCTCACCAA
22986385 TTGCCATGCCTTGGCATGGTCTTACA
65 TTGCCATGCCTTGGCATGGTCTTACA
22986411 CGGTATCCTT
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
107 2 0.03
108 47 0.59
109 6 0.08
110 25 0.31
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATAGTAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:22986420 original size:55 final size:54
Alignment explanation
Indices: 22986166--22986420 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 54
22986156 ACACGGGTAC
* * *
22986166 CTTACC-ATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
22986215 CTTACC-ATTGCCATGTCTTGACATGGTCTTACATAGTAGCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * *
22986268 GTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * *
22986323 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
22986376 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
22986421 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
49 38 0.23
52 4 0.02
53 42 0.25
54 12 0.07
55 69 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:22988064 original size:21 final size:20
Alignment explanation
Indices: 22988019--22988064 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
22988009 TTGTTGGAAT
22988019 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
22988038 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
22988059 GGTTGA
1 GGTTGA
22988065 TTGCATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:23020732 original size:15 final size:17
Alignment explanation
Indices: 23020702--23020734 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
23020692 GAAAACATCT
23020702 CAAAAGCATAAAGAAAA
1 CAAAAGCATAAAGAAAA
23020719 CAAAA-CAT-AAGAAAA
1 CAAAAGCATAAAGAAAA
23020734 C
1 C
23020735 CCAAAACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.70, C:0.15, G:0.09, T:0.06
Consensus pattern (17 bp):
CAAAAGCATAAAGAAAA
Found at i:23026484 original size:40 final size:40
Alignment explanation
Indices: 23026429--23026684 Score: 309
Period size: 40 Copynumber: 6.2 Consensus size: 40
23026419 TGAATGATAC
* * * *
23026429 CCGGGCTAAGTCCCGAAGGCATCTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
23026469 CCGGGCTAAGACCCGAAGGCCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCC----G----AAGGCATTTGTGCGAGTTGTTATAT
*
23026517 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
23026557 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
23026597 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
23026637 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
23026677 CC-GGCTAA
1 CCGGGCTAA
23026685 ATTCTGAAGA
Statistics
Matches: 191, Mismatches: 16, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
39 5 0.03
40 149 0.78
44 2 0.01
48 33 0.17
49 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:23026515 original size:48 final size:40
Alignment explanation
Indices: 23026488--23026684 Score: 315
Period size: 40 Copynumber: 5.0 Consensus size: 40
23026478 GACCCGAAGG
23026488 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA
1 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA
*
23026528 CCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGA
1 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA
23026568 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA
1 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA
* * *
23026608 CCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGA
1 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA
* ** *
23026648 CCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAA
23026685 ATTCTGAAGA
Statistics
Matches: 145, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 5 0.03
40 140 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA
Found at i:23026904 original size:11 final size:11
Alignment explanation
Indices: 23026885--23026914 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
23026875 TATGTTGATG
*
23026885 AAGTGTGAAGT
1 AAGTATGAAGT
23026896 AAGTATGAAGT
1 AAGTATGAAGT
23026907 AAGTATGA
1 AAGTATGA
23026915 TTATGAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (11 bp):
AAGTATGAAGT
Found at i:23034762 original size:40 final size:40
Alignment explanation
Indices: 23034707--23034954 Score: 374
Period size: 40 Copynumber: 6.2 Consensus size: 40
23034697 TGAATGATAC
* * *
23034707 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
23034747 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
23034787 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
23034827 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
23034867 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
23034907 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
23034947 CC-GGCTAA
1 CCGGGCTAA
23034955 ATTCCGAAGA
Statistics
Matches: 192, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
39 5 0.03
40 185 0.96
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:23035173 original size:11 final size:11
Alignment explanation
Indices: 23035154--23035183 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
23035144 TATGTTGATG
*
23035154 AAGTGTGAAGT
1 AAGTATGAAGT
23035165 AAGTATGAAGT
1 AAGTATGAAGT
23035176 AAGTATGA
1 AAGTATGA
23035184 TTATGAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (11 bp):
AAGTATGAAGT
Found at i:23036605 original size:20 final size:20
Alignment explanation
Indices: 23036580--23036652 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
23036570 GTTCATTTCT
*
23036580 CCCACGCCAATGTACATAGG
1 CCCACGCCAGTGTACATAGG
23036600 CCCACGCCAGTGTACATAGG
1 CCCACGCCAGTGTACATAGG
*
23036620 CCCACGCCAGTGTGCATAGG
1 CCCACGCCAGTGTACATAGG
* *
23036640 TCCACGCCCGTGT
1 CCCACGCCAGTGT
23036653 TCGTTTTGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.22, C:0.37, G:0.25, T:0.16
Consensus pattern (20 bp):
CCCACGCCAGTGTACATAGG
Found at i:23048118 original size:25 final size:25
Alignment explanation
Indices: 23048087--23048144 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
23048077 ATGTATCCAA
23048087 CATGATGCAAAGATTCCTTTCGATC
1 CATGATGCAAAGATTCCTTTCGATC
23048112 CATGATGCAAAGATTCCTTTCGATC
1 CATGATGCAAAGATTCCTTTCGATC
23048137 CATGATGC
1 CATGATGC
23048145 GGTCGTTGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (25 bp):
CATGATGCAAAGATTCCTTTCGATC
Found at i:23049143 original size:10 final size:10
Alignment explanation
Indices: 23049125--23049183 Score: 77
Period size: 10 Copynumber: 5.9 Consensus size: 10
23049115 GAAATTCTAG
23049125 AAGATAAATA
1 AAGATAAATA
23049135 CAA-ATAAATA
1 -AAGATAAATA
*
23049145 AAGATAATTA
1 AAGATAAATA
23049155 AAGATAAATA
1 AAGATAAATA
23049165 AAGATAAATGA
1 AAGATAAAT-A
23049176 AA-ATAAAT
1 AAGATAAAT
23049184 CCTAAAATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
9 2 0.05
10 37 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAGATAAATA
Found at i:23049998 original size:96 final size:97
Alignment explanation
Indices: 23049829--23050012 Score: 266
Period size: 96 Copynumber: 1.9 Consensus size: 97
23049819 ATTTTATTTA
* *
23049829 TTTATTTTTACTTAGGAATATAATGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCAA
1 TTTATTTTTACTTAAGAACATAATGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCAA
** *
23049894 CCTGGGTTATTCAACCCAACATACCCCTAATT
66 CCCCGGTTACTCAACCCAACATACCCCTAATT
*
23049926 TTTATTTTT-CTTAAGAACAT-ATCGAACCTTTTGACGTGAAGAGAGATGACAGCCAAGCACCTC
1 TTTATTTTTACTTAAGAACATAAT-GAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACC-C
*
23049989 -ACCCCGGTTACTCAGCCCAACATA
64 AACCCCGGTTACTCAACCCAACATA
23050013 TTCTTAAAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
95 2 0.03
96 66 0.85
97 10 0.13
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATAATGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCAA
CCCCGGTTACTCAACCCAACATACCCCTAATT
Found at i:23050767 original size:28 final size:26
Alignment explanation
Indices: 23050736--23050801 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 26
23050726 TTAATATCTG
23050736 AAAATAATAAATAATAAAATAATAAGA-A
1 AAAATAA-AAATAATAAAATAA-AA-ATA
23050764 AAAATAAACTAA-AATAAAATAAAAATA
1 AAAATAAA--AATAATAAAATAAAAATA
23050791 AAAATAAAAAT
1 AAAATAAAAAT
23050802 TGGGTTACCT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
25 2 0.06
26 1 0.03
27 12 0.35
28 17 0.50
29 2 0.06
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (26 bp):
AAAATAAAAATAATAAAATAAAAATA
Found at i:23050777 original size:11 final size:11
Alignment explanation
Indices: 23050736--23050801 Score: 57
Period size: 10 Copynumber: 6.0 Consensus size: 11
23050726 TTAATATCTG
23050736 AAAATAATAAAT
1 AAAATAA-AAAT
*
23050748 AATAA-AATAAT
1 AA-AATAAAAAT
*
23050759 AAGA-AAAAAT
1 AAAATAAAAAT
*
23050769 AAACT-AAAAT
1 AAAATAAAAAT
23050779 AAAATAAAAAT
1 AAAATAAAAAT
23050790 AAAAATAAAAAT
1 -AAAATAAAAAT
23050802 TGGGTTACCT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
10 17 0.39
11 10 0.23
12 15 0.34
13 2 0.05
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:23050790 original size:6 final size:6
Alignment explanation
Indices: 23050741--23050801 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
23050731 ATCTGAAAAT
*
23050741 AATAAA TAAT-AA AATAATA AGA-AAA AAT-AA ACT-AA AAT-AA AATAAA
1 AATAAA -AATAAA AATAA-A A-ATAAA AATAAA AATAAA AATAAA AATAAA
23050787 AATAAA AATAAA AAT
1 AATAAA AATAAA AAT
23050802 TGGGTTACCT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
5 17 0.36
6 22 0.47
7 7 0.15
8 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:23057171 original size:10 final size:10
Alignment explanation
Indices: 23057152--23057201 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
23057142 TGAAATTCTA
23057152 AAAGATAAAT
1 AAAGATAAAT
23057162 ACAA-ATAAAT
1 A-AAGATAAAT
23057172 AAAGATAAAT
1 AAAGATAAAT
23057182 AAAGATAAAT
1 AAAGATAAAT
23057192 GAAA-ATAAAT
1 -AAAGATAAAT
23057202 CCTAAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:23061657 original size:31 final size:31
Alignment explanation
Indices: 23061619--23061697 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 31
23061609 TACAATGTAC
23061619 AAGGTATGAAAATGCAAATGT-GATCGATTAT
1 AAGGTATGAAAATGCAAATGTAGAT-GATTAT
* * *
23061650 AAGGTATG-ATAGGTAAATGTAGATGATTAT
1 AAGGTATGAAAATGCAAATGTAGATGATTAT
23061680 AAGGTAT-AATAATGCAAA
1 AAGGTATGAA-AATGCAAA
23061698 CACGATTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
30 23 0.59
31 16 0.41
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (31 bp):
AAGGTATGAAAATGCAAATGTAGATGATTAT
Found at i:23064948 original size:5 final size:5
Alignment explanation
Indices: 23064940--23064967 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
23064930 ATAAAAGAAT
23064940 TTATA TTATA TTATA TTATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTA
23064968 ATTTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:23067162 original size:19 final size:19
Alignment explanation
Indices: 23067138--23067177 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
23067128 GGGCTCAGTC
23067138 TCAAGATATTTATCAATAA
1 TCAAGATATTTATCAATAA
23067157 TCAAGATATTTATCAATAA
1 TCAAGATATTTATCAATAA
23067176 TC
1 TC
23067178 TTCTAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (19 bp):
TCAAGATATTTATCAATAA
Found at i:23072988 original size:49 final size:49
Alignment explanation
Indices: 23072931--23073123 Score: 237
Period size: 49 Copynumber: 3.9 Consensus size: 49
23072921 TAGCTGAAGC
*
23072931 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * *
23072980 AATCTGGTACACGTAGTAGCCTGCACTTAGTACT--ACATGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAAT
* * * * *
23073029 TTTCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * *
23073078 TATCCGGTACACGTAGTAGCCTGCACTTAGTGCTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
23073124 TCACAATAGT
Statistics
Matches: 120, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
47 8 0.07
48 1 0.01
49 103 0.86
50 1 0.01
51 7 0.06
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:23073105 original size:98 final size:98
Alignment explanation
Indices: 23072936--23073114 Score: 313
Period size: 98 Copynumber: 1.8 Consensus size: 98
23072926 GAAGCTATCT
* * *
23072936 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
23073001 TGCACTTAGTACTACATGTGATCACAGTTTTCG
66 TGCACTTAGTACTACATGTGATCACAGTTTTCG
*
23073034 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
23073099 TGCACTTAGTGCTACA
66 TGCACTTAGTACTACA
23073115 CACGTGACCT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 76 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (98 bp):
GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACATGTGATCACAGTTTTCG
Found at i:23075141 original size:30 final size:30
Alignment explanation
Indices: 23075101--23075195 Score: 181
Period size: 30 Copynumber: 3.2 Consensus size: 30
23075091 CCATGAATTA
*
23075101 GATCCCATCTGAAATTCAACATCAGAAGTC
1 GATCCAATCTGAAATTCAACATCAGAAGTC
23075131 GATCCAATCTGAAATTCAACATCAGAAGTC
1 GATCCAATCTGAAATTCAACATCAGAAGTC
23075161 GATCCAATCTGAAATTCAACATCAGAAGTC
1 GATCCAATCTGAAATTCAACATCAGAAGTC
23075191 GATCC
1 GATCC
23075196 TCACTGTACT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (30 bp):
GATCCAATCTGAAATTCAACATCAGAAGTC
Found at i:23075696 original size:15 final size:15
Alignment explanation
Indices: 23075649--23075704 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
23075639 CAAGAAAACT
23075649 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
23075664 -AGATAGAA-AAACCCA
1 GA-ATA-AAGAAATCCA
23075679 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
23075694 GAATAAAGAAA
1 GAATAAAGAAA
23075705 CCCAAGATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 3 0.09
15 29 0.83
16 3 0.09
ACGTcount: A:0.62, C:0.12, G:0.14, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:23089991 original size:40 final size:41
Alignment explanation
Indices: 23089915--23090099 Score: 127
Period size: 40 Copynumber: 4.6 Consensus size: 41
23089905 TACACATTCA
* * *
23089915 AATGCCTTCGGGACATAGC-CCGG-TTACAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACTCCGGATT-TAGTAACTCGCACG
* **
23089955 AATGCCTTCGGGACTTAACT-CGGATTTAGTAGCTCGCTTG
1 AATGCCTTCGGGACTTAACTCCGGATTTAGTAACTCGCACG
* * *
23089995 AAAGCCTTC-GGATCTT-AGTCCGGATTTAGTAACTCACACG
1 AATGCCTTCGGGA-CTTAACTCCGGATTTAGTAACTCGCACG
* * * * *
23090035 TATGCCGTC-GGATCTT-ATTCCGGATTTAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACTCCGGATTTAGTAAC-TCGCACG
* *
23090075 AAAGCCTTCGGGACTTAGC-CCGGAT
1 AATGCCTTCGGGACTTAACTCCGGAT
23090100 ATCATTCGAA
Statistics
Matches: 114, Mismatches: 24, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
39 5 0.04
40 100 0.88
41 9 0.08
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (41 bp):
AATGCCTTCGGGACTTAACTCCGGATTTAGTAACTCGCACG
Found at i:23097920 original size:3 final size:3
Alignment explanation
Indices: 23097914--23097954 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
23097904 ATATCAAAAC
23097914 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
23097955 TAAATGTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:23100886 original size:26 final size:26
Alignment explanation
Indices: 23100842--23100892 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
23100832 TTTCTCTTAA
*
23100842 TTTTTAATTGTATTCAATTAATTAATT
1 TTTTTAATTGCATTCAATT-ATTAATT
*
23100869 TTTTTAATT-CATTGAATTATTAAT
1 TTTTTAATTGCATTCAATTATTAAT
23100893 AATTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.27
26 7 0.32
27 9 0.41
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (26 bp):
TTTTTAATTGCATTCAATTATTAATT
Found at i:23100898 original size:25 final size:27
Alignment explanation
Indices: 23100843--23100898 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 27
23100833 TTCTCTTAAT
* **
23100843 TTTTAATTGTATTCAATTAATTAATTT
1 TTTTAATTGCATTCAATTAATTAATAA
*
23100870 TTTTAATT-CATTGAATT-ATTAATAA
1 TTTTAATTGCATTCAATTAATTAATAA
23100895 TTTT
1 TTTT
23100899 TATTAAATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 10 0.40
26 7 0.28
27 8 0.32
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (27 bp):
TTTTAATTGCATTCAATTAATTAATAA
Found at i:23100898 original size:26 final size:28
Alignment explanation
Indices: 23100839--23100900 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 28
23100829 AGTTTTCTCT
*
23100839 TAATTTTTAATTGTATTCAATTAATTAA
1 TAATTTTTAATTGCATTCAATTAATTAA
* *
23100867 T-TTTTTTAATT-CATTGAATT-ATTAA
1 TAATTTTTAATTGCATTCAATTAATTAA
23100892 TAATTTTTA
1 TAATTTTTA
23100901 TTAAATCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 6 0.21
26 13 0.45
27 9 0.31
28 1 0.03
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (28 bp):
TAATTTTTAATTGCATTCAATTAATTAA
Found at i:23103773 original size:19 final size:18
Alignment explanation
Indices: 23103735--23103775 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
23103725 TTCTTGTCGA
* *
23103735 AAAATAATTAAATATTAT
1 AAAATAATTAAACATGAT
23103753 AAAATAATTAAACCATGAT
1 AAAATAATTAAA-CATGAT
23103772 AAAA
1 AAAA
23103776 ATATGAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAATAATTAAACATGAT
Found at i:23110591 original size:3 final size:3
Alignment explanation
Indices: 23110550--23110580 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
23110540 TGAACCACTA
23110550 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
23110581 ATTCCATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:23120781 original size:26 final size:22
Alignment explanation
Indices: 23120759--23120804 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
23120749 ATATATCATG
23120759 AAATATTTGATAATCCAAATATC
1 AAAT-TTTGATAATCCAAATATC
23120782 -AATTTTGATAATCCAAATATC
1 AAATTTTGATAATCCAAATATC
23120803 AA
1 AA
23120805 TTATACATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (22 bp):
AAATTTTGATAATCCAAATATC
Found at i:23120788 original size:21 final size:21
Alignment explanation
Indices: 23120764--23120806 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
23120754 TCATGAAATA
23120764 TTTGATAATCCAAATATCAAT
1 TTTGATAATCCAAATATCAAT
23120785 TTTGATAATCCAAATATCAAT
1 TTTGATAATCCAAATATCAAT
23120806 T
1 T
23120807 ATACATTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.40
Consensus pattern (21 bp):
TTTGATAATCCAAATATCAAT
Found at i:23123479 original size:46 final size:45
Alignment explanation
Indices: 23123383--23123506 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 45
23123373 CATATCTGTA
* * *
23123383 CCGATGCTGTGTCCCAAACATGGTCTTACATTGACACATCTCGTAG
1 CCGATGC-ATGTCCCAAACATGGTCTTACACTGACACATCTCGAAG
*
23123429 CCGATGCATGTCCCAAACAT-GTCTTACACTGACTTACGTCTC-AAGG
1 CCGATGCATGTCCCAAACATGGTCTTACACTGAC--ACATCTCGAA-G
*
23123475 CCGATGCATGTCCCAGACATGGTCTTACACTG
1 CCGATGCATGTCCCAAACATGGTCTTACACTG
23123507 GCTCTCATAA
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
44 12 0.17
45 13 0.19
46 33 0.48
47 11 0.16
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
CCGATGCATGTCCCAAACATGGTCTTACACTGACACATCTCGAAG
Found at i:23128450 original size:17 final size:19
Alignment explanation
Indices: 23128430--23128467 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
23128420 AAGTGAATTG
23128430 AAATTGC-GAAATT-AAAT
1 AAATTGCAGAAATTGAAAT
23128447 AAATTGCAGAAATTGAAAT
1 AAATTGCAGAAATTGAAAT
23128466 AA
1 AA
23128468 TGAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.55, C:0.05, G:0.13, T:0.26
Consensus pattern (19 bp):
AAATTGCAGAAATTGAAAT
Found at i:23129219 original size:19 final size:18
Alignment explanation
Indices: 23129195--23129238 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
23129185 ATAAATAAAG
23129195 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
23129215 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
23129232 ATAATTA
1 ATAATTA
23129239 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:23129253 original size:15 final size:15
Alignment explanation
Indices: 23129233--23129262 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23129223 ATAATCCTAA
*
23129233 TAATTATCTTAATAT
1 TAATTATCCTAATAT
23129248 TAATTATCCTAATAT
1 TAATTATCCTAATAT
23129263 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:23140990 original size:23 final size:24
Alignment explanation
Indices: 23140945--23140990 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
23140935 TAATCAGAAG
23140945 TTAAGTTGGAAACTAAAAATAGAGT
1 TTAAGTTGGAAAC-AAAAATAGAGT
23140970 TTAA-TTGGAAA-AAAAAGTAGA
1 TTAAGTTGGAAACAAAAA-TAGA
23140991 AAAAATGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.25
23 4 0.20
24 7 0.35
25 4 0.20
ACGTcount: A:0.52, C:0.02, G:0.20, T:0.26
Consensus pattern (24 bp):
TTAAGTTGGAAACAAAAATAGAGT
Found at i:23142035 original size:1 final size:1
Alignment explanation
Indices: 23142029--23142054 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
23142019 AGGGACCCTT
23142029 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
23142055 CCAAATTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:23158782 original size:66 final size:66
Alignment explanation
Indices: 23158692--23158819 Score: 202
Period size: 66 Copynumber: 1.9 Consensus size: 66
23158682 ACCTACAAAG
* * *
23158692 TACTTATCCAAGTAATTTCTTAAAATCTTAGATGATGATCAAACTAGTTTTTTAGATCAGTTTAA
1 TACTTAGCCAAGTAATTTCCTAAAATCTTAGATGATGATCAAACTAGTTTGTTAGATCAGTTTAA
23158757 T
66 T
* * *
23158758 TACTTAGCCAAGTAATTTCCTAAAATCTTTGTTGATGATCAAACTTGTTTGTTAGATCAGTT
1 TACTTAGCCAAGTAATTTCCTAAAATCTTAGATGATGATCAAACTAGTTTGTTAGATCAGTT
23158820 CAATCCAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.42
Consensus pattern (66 bp):
TACTTAGCCAAGTAATTTCCTAAAATCTTAGATGATGATCAAACTAGTTTGTTAGATCAGTTTAA
T
Found at i:23162025 original size:53 final size:52
Alignment explanation
Indices: 23161873--23162094 Score: 176
Period size: 53 Copynumber: 4.3 Consensus size: 52
23161863 AGGATACCAT
* * *
23161873 CCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGCCAAGGCATGGC-ATTGGTAA-G-TTCTAAGGCAAGGATACCATGTAAGA
* * *
23161928 CCATGTCAA-G-A---CATTGATAAGTTACTATAAGGCAAAGG-TCCCATGTAAGA
1 CCATGCCAAGGCATGGCATTGGTAAGTT-C--TAAGGC-AAGGATACCATGTAAGA
*
23161978 CCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGA
1 CCATGCCAAGGCATGGCATTGGTAAGTTC-TAAGGCAAGGATACCATGTAAGA
* * * *
23162031 CCATGTCAAGACATGGCAATGGTAAGTT-TCAA---AAGGATACCACGTAAGA
1 CCATGCCAAGGCATGGCATTGGTAAGTTCT-AAGGCAAGGATACCATGTAAGA
* *
23162080 CCATGACAAGTCATG
1 CCATGCCAAGGCATG
23162095 AAAATGGTAA
Statistics
Matches: 139, Mismatches: 17, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
47 2 0.01
48 2 0.01
49 35 0.25
50 24 0.17
51 6 0.04
52 7 0.05
53 43 0.31
54 2 0.01
55 18 0.13
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (52 bp):
CCATGCCAAGGCATGGCATTGGTAAGTTCTAAGGCAAGGATACCATGTAAGA
Found at i:23162318 original size:16 final size:16
Alignment explanation
Indices: 23162297--23162327 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23162287 TTAAATTTGA
23162297 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
23162313 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
23162328 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:23165382 original size:22 final size:22
Alignment explanation
Indices: 23165354--23165405 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
23165344 GTTACTTGAA
23165354 GTTAGTTTTTAAAGTGTTGTGT
1 GTTAGTTTTTAAAGTGTTGTGT
23165376 GTTAGTTTTTAAAGTGTTGTGT
1 GTTAGTTTTTAAAGTGTTGTGT
*
23165398 ATT-GTTTT
1 GTTAGTTTT
23165406 GATCAGGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 5 0.17
22 24 0.83
ACGTcount: A:0.17, C:0.00, G:0.25, T:0.58
Consensus pattern (22 bp):
GTTAGTTTTTAAAGTGTTGTGT
Found at i:23167640 original size:28 final size:28
Alignment explanation
Indices: 23167571--23167671 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
23167561 GACAAGATTG
* * * *
23167571 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
23167601 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
23167629 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
23167658 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
23167672 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:23167665 original size:29 final size:28
Alignment explanation
Indices: 23167600--23167671 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
23167590 AAAATTGTAC
*
23167600 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
23167628 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
23167657 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
23167672 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:23170252 original size:17 final size:17
Alignment explanation
Indices: 23170230--23170265 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
23170220 AAGAGAAGGG
*
23170230 AACTAAGAAGCAAATCC
1 AACTAAGAAACAAATCC
23170247 AACTAAGAAACAAATCC
1 AACTAAGAAACAAATCC
23170264 AA
1 AA
23170266 TGTTTCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.58, C:0.22, G:0.08, T:0.11
Consensus pattern (17 bp):
AACTAAGAAACAAATCC
Found at i:23172742 original size:25 final size:27
Alignment explanation
Indices: 23172705--23172757 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
23172695 TCCAACATGC
23172705 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
23172731 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
23172757 A
1 A
23172758 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:23174826 original size:15 final size:15
Alignment explanation
Indices: 23174802--23174831 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23174792 ATTTTTGAGC
23174802 ATTTGATACTTCTTT
1 ATTTGATACTTCTTT
*
23174817 ATTTGGTACTTCTTT
1 ATTTGATACTTCTTT
23174832 TCAACTCCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.13, G:0.10, T:0.60
Consensus pattern (15 bp):
ATTTGATACTTCTTT
Found at i:23178835 original size:30 final size:30
Alignment explanation
Indices: 23178801--23178859 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
23178791 ATTTTCGAGC
*
23178801 CTAGGGGCAAAATGGTCATTTTGCCAAGGT
1 CTAGGGGCAAAATGGTCATTTTACCAAGGT
23178831 CTAGGGGCAAAATGGTCATTTTACCAAGG
1 CTAGGGGCAAAATGGTCATTTTACCAAGG
23178860 ATGTGAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAGGT
Found at i:23179385 original size:46 final size:47
Alignment explanation
Indices: 23179194--23179406 Score: 145
Period size: 46 Copynumber: 4.6 Consensus size: 47
23179184 CTTGTGGGTG
* * * ** *
23179194 CTAGTGTAAGACATATCTGGGACATGCATCGGCCACATTATGGTAG-
1 CTAGTGTAAAACATGTCTGGGACATGCATCGGCTACAAGATGATAGT
* * * *
23179240 CTAGTGTAAGACCATGTTTGGGACATGGCATCGGC-AC-TGA-GACGAGT
1 CTAGTGTAA-AACATGTCTGGGACAT-GCATCGGCTACAAGATGA-TAGT
* * * * * *
23179287 GCTAGGGTAAGACATGTTTGGGACATGCATCGACCT-CGAGTTG-TAAG-
1 -CTAGTGTAAAACATGTCTGGGACATGCATCG-GCTACAAGATGAT-AGT
*
23179334 CCAGTGTAAAACATGTCTGGGACATGCATCGGCTACAAGATGATAGT
1 CTAGTGTAAAACATGTCTGGGACATGCATCGGCTACAAGATGATAGT
*
23179381 C-AGTGTAAGACCATGTCTGGGACATG
1 CTAGTGTAA-AACATGTCTGGGACATG
23179407 GGATCGACAC
Statistics
Matches: 131, Mismatches: 22, Indels: 27
0.73 0.12 0.15
Matches are distributed among these distances:
45 3 0.02
46 60 0.46
47 48 0.37
48 19 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
CTAGTGTAAAACATGTCTGGGACATGCATCGGCTACAAGATGATAGT
Found at i:23196681 original size:46 final size:47
Alignment explanation
Indices: 23196628--23196742 Score: 139
Period size: 46 Copynumber: 2.5 Consensus size: 47
23196618 CGAGTGCTAG
*
23196628 TGTAAGACATGTCTGGGACATGC-ATCAGCCT-CGATATG-TAAGCCAA
1 TGTAAGACATGTCTGGGACATGCTATC-GCCTACGAGATGAT-AGCCAA
* * *
23196674 TGTAAGACATGTCTGGGACAT-CTATCGGCTACGAGATGATAGTCAG
1 TGTAAGACATGTCTGGGACATGCTATCGCCTACGAGATGATAGCCAA
23196720 TGTAAGACTATGTCTGGGACATG
1 TGTAAGAC-ATGTCTGGGACATG
23196743 GCATTGGCAC
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
45 4 0.07
46 42 0.70
47 14 0.23
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (47 bp):
TGTAAGACATGTCTGGGACATGCTATCGCCTACGAGATGATAGCCAA
Found at i:23200670 original size:26 final size:26
Alignment explanation
Indices: 23200627--23200684 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
23200617 AAAAATAAGT
*
23200627 TTGGGTACTGTTTCCTCATAGCTTCC
1 TTGGGTACTATTTCCTCATAGCTTCC
*
23200653 TTGGGTACTATTTTCTCATAGCTTCC
1 TTGGGTACTATTTCCTCATAGCTTCC
*
23200679 TCGGGT
1 TTGGGT
23200685 TCCCATATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (26 bp):
TTGGGTACTATTTCCTCATAGCTTCC
Found at i:23206124 original size:20 final size:20
Alignment explanation
Indices: 23206101--23206138 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23206091 GAAAATAAAG
23206101 AAATGAAAAAAAAAAAAGGA
1 AAATGAAAAAAAAAAAAGGA
**
23206121 AAATGATGAAAAAAAAAG
1 AAATGAAAAAAAAAAAAG
23206139 AGTATGGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (20 bp):
AAATGAAAAAAAAAAAAGGA
Found at i:23207469 original size:30 final size:28
Alignment explanation
Indices: 23207429--23207529 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
23207419 GACAAGATTG
* * *
23207429 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
23207459 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * * *
23207487 GCACTAAGTGTGCGAGCTGAATACATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
23207516 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
23207530 GATTCACTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 25 0.41
29 19 0.31
30 17 0.28
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:23207493 original size:28 final size:29
Alignment explanation
Indices: 23207458--23207529 Score: 103
Period size: 28 Copynumber: 2.5 Consensus size: 29
23207448 AAAATTGTAC
* *
23207458 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATACATAT
23207486 AGCACTAAGTGTGCGAGCTGAATACATAT
1 AGCACTAAGTGTGCGAGCTGAATACATAT
23207515 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
23207530 GATTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATACATAT
Found at i:23211804 original size:12 final size:12
Alignment explanation
Indices: 23211787--23211816 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23211777 GATCACATGG
*
23211787 CCGTGTCCTAGC
1 CCGTGTCCTACC
23211799 CCGTGTCCTACC
1 CCGTGTCCTACC
23211811 CCGTGT
1 CCGTGT
23211817 AACTCACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.43, G:0.23, T:0.27
Consensus pattern (12 bp):
CCGTGTCCTACC
Found at i:23213620 original size:8 final size:8
Alignment explanation
Indices: 23213597--23213630 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
23213587 GTATATAGAA
23213597 ATTTTGTG
1 ATTTTGTG
*
23213605 TCTTTTGTG
1 -ATTTTGTG
23213614 ATTTTGTG
1 ATTTTGTG
23213622 ATTTTGTG
1 ATTTTGTG
23213630 A
1 A
23213631 ATTAAAGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.12, C:0.03, G:0.24, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:23221772 original size:80 final size:81
Alignment explanation
Indices: 23221634--23221808 Score: 210
Period size: 80 Copynumber: 2.2 Consensus size: 81
23221624 CGAATGGTAT
* *
23221634 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGAATAAATCCGGGTCAACTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGGTCAACTCCCGAAGGCAATT
23221699 GTGCGAGTTACCAAAA
66 GTGCGAGTTACCAAAA
* * * * * *
23221715 CCGGGTTAAGTCCTGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGGTC-AACTCCCGAAGGCAAT
* * * *
23221778 TGTGCGAATCACTATAA
65 TGTGCGAGTTACCAAAA
*
23221795 CCGGGCTATGTCCC
1 CCGGGCTAAGTCCC
23221809 AAAGACAATC
Statistics
Matches: 78, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.01
80 53 0.68
81 24 0.31
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGGTCAACTCCCGAAGGCAATT
GTGCGAGTTACCAAAA
Found at i:23221799 original size:40 final size:39
Alignment explanation
Indices: 23221634--23221826 Score: 156
Period size: 40 Copynumber: 4.8 Consensus size: 39
23221624 CGAATGGTAT
** * * *
23221634 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGAATAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAA
* *
23221674 TCCGGG-TCAACTCCCGAAGGCAATTGTGCGAGTTACCAAAA
1 -CCGGGCT-AAGTCCCGAAGGCAATTGTGCGAGTTA-CTAAA
* *
23221715 CCGGGTTAAGTCCTGAAGGC-ATTCGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATT-GTGCGAGTTACTAAA
* * *
23221754 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AA
* * * * *
23221795 CCGGGCTATGTCCCAAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGT
23221827 CGCTATATCC
Statistics
Matches: 123, Mismatches: 22, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
39 7 0.06
40 84 0.68
41 32 0.26
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
Found at i:23221825 original size:80 final size:80
Alignment explanation
Indices: 23221670--23221826 Score: 190
Period size: 80 Copynumber: 2.0 Consensus size: 80
23221660 GCTAAGTGAA
* * * ** *
23221670 TAAATCCGGGTCAACTCCCGAAGGCAATTGTGCGAGTTACCAAAACCGGGTTAAGTCCTGAAGGC
1 TAAATCCGGGTCAACTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCAAAGAC
* *
23221735 ATTCGTGCGAGTTAC
66 AATCGAGCGAGTTAC
* * * *
23221750 TAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCAAAGA
1 TAAATCCGGGTC-AACTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCAAAGA
23221814 CAATCGAGCGAGT
65 CAATCGAGCGAGT
23221827 CGCTATATCC
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.02
80 63 0.98
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (80 bp):
TAAATCCGGGTCAACTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCAAAGAC
AATCGAGCGAGTTAC
Found at i:23227214 original size:42 final size:42
Alignment explanation
Indices: 23227115--23227307 Score: 278
Period size: 42 Copynumber: 4.6 Consensus size: 42
23227105 TACCAATTAC
* * *
23227115 ATATCCCAGATATGGTCTTACATGAAATCTCGTATCGATGCCA
1 ATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATG-CA
* * *
23227158 ATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCAATGCA
1 ATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGCA
* * **
23227200 ATATCCCAGTTATGGTCTTACATGAAGTCTCATATCGATGTT
1 ATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGCA
*
23227242 ATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGCC
1 ATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGCA
23227284 ATATCCCAGATATGGTCTTACACG
1 ATATCCCAGATATGGTCTTACACG
23227308 TAACCTCAGT
Statistics
Matches: 134, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
42 100 0.75
43 34 0.25
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
ATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGCA
Found at i:23234843 original size:61 final size:60
Alignment explanation
Indices: 23234734--23234857 Score: 135
Period size: 61 Copynumber: 2.0 Consensus size: 60
23234724 TTAAATATAT
** * *
23234734 AAAAATTAATAAATTTAGCCCTCAATGTTTACAAAAATTATCATTTTAGTTCTAA-TTCTA
1 AAAAATTAATAAATTTAGCCCTCAACATTTACAAAAATTATCAATTTAGTCCTAACTT-TA
* * * *
23234794 AAAACATTAATAAATTTGGCTCTCAACATTTAC-AGAATCTATTAATTTAGTCCTAACTTTA
1 AAAA-ATTAATAAATTTAGCCCTCAACATTTACAAAAAT-TATCAATTTAGTCCTAACTTTA
23234855 AAA
1 AAA
23234858 TTTTAAAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
60 8 0.15
61 43 0.81
62 2 0.04
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.38
Consensus pattern (60 bp):
AAAAATTAATAAATTTAGCCCTCAACATTTACAAAAATTATCAATTTAGTCCTAACTTTA
Found at i:23236713 original size:18 final size:18
Alignment explanation
Indices: 23236690--23236725 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
23236680 GAAACTCTAT
23236690 ATCCTTCTA-GGATTTTCA
1 ATCCTTC-AGGGATTTTCA
23236708 ATCCTTCAGGGATTTTCA
1 ATCCTTCAGGGATTTTCA
23236726 TATAATTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 16 0.94
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (18 bp):
ATCCTTCAGGGATTTTCA
Found at i:23241902 original size:48 final size:47
Alignment explanation
Indices: 23241847--23242258 Score: 425
Period size: 48 Copynumber: 8.7 Consensus size: 47
23241837 CATGCGTGCT
* *
23241847 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATCAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATC-GCCACATTATGAGAGCC
* * * * * * *
23241895 AGTGTAAGACCATGTTTGGAACATAGCATCGGCA-TTGATATGTGCGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGCCACAT--TATGAGAGCC
* * * *
23241943 AGTGTAAGACCATGTCTGGGACATGGCGT--CCATATTCTGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGCCACATTATGAGAGCC
*
23241988 AGTGTAAGACCATGTTTAGGACATGGCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATC-GCCACATTATGAGAGCC
* * ** * ** *
23242036 AGTGTAAGACCATGTCTGGGACATGGCATTGGTATTAAGATGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGCCA-CATTATGAGAGCC
*
23242084 AGTATAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATC-GCCACATTATGAGAGCC
* * * * * * * * *
23242132 AATATAAGACCATGTTTGGAACATGGCATCGGCATTAATATGTGCGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGCCA-CATTATGAGAGCC
*
23242180 AGTGTAAGACCAAGTTTGGGACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATC-GCCACATTATGAGAGCC
*
23242228 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTTTGGGACATGGCATCG
23242259 ACAAATTCAC
Statistics
Matches: 292, Mismatches: 62, Indels: 21
0.78 0.17 0.06
Matches are distributed among these distances:
45 32 0.11
46 3 0.01
47 10 0.03
48 242 0.83
49 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGCCACATTATGAGAGCC
Found at i:23242110 original size:96 final size:96
Alignment explanation
Indices: 23241847--23242258 Score: 503
Period size: 96 Copynumber: 4.3 Consensus size: 96
23241837 CATGCGTGCT
* * * *
23241847 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-CATTATCAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCATTAATATGAGAGCCAGTGTAAGACCATGTT
* * * * * *
23241911 TGGAACATAGCATCGG-CA-TTGATATGTGCGCT
65 TGGGACATGGCATCGGCCACAT--TATGAGAGCC
* * *
23241943 AGTGTAAGACCATGTCTGGGACATGGCGTC--CA-TATTCTGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATGAGAGCCAGTGTAAGACCATGTTT
* *
23242005 AGGACATGGCATCAGCCACATTATGAGAGCC
66 GGGACATGGCATCGGCCACATTATGAGAGCC
* * * * *
23242036 AGTGTAAGACCATGTCTGGGACATGGCATTGGTATTAAGATGAGAGCTAGTATAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATGAGAGCCAGTGTAAGACCATGTTT
23242101 GGGACATGGCATCGGCCACATTATGAGAGCC
66 GGGACATGGCATCGGCCACATTATGAGAGCC
* * * * * * * *
23242132 AATATAAGACCATGTTTGGAACATGGCATCGGCATTAATATGTGCGCTAGTGTAAGACCAAGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATGAGAGCCAGTGTAAGACCATGTTT
23242197 GGGACATGGCATCGGCCACATTATGAGAGCC
66 GGGACATGGCATCGGCCACATTATGAGAGCC
23242228 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
23242259 ACAAATTCAC
Statistics
Matches: 274, Mismatches: 37, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
93 75 0.27
94 2 0.01
95 2 0.01
96 195 0.71
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATGAGAGCCAGTGTAAGACCATGTTT
GGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:23242200 original size:144 final size:144
Alignment explanation
Indices: 23241851--23242258 Score: 477
Period size: 144 Copynumber: 2.9 Consensus size: 144
23241841 CGTGCTAGTG
* * * * *
23241851 TAAGACCATGTCTGGGACATGGCATCAGCCACATTATCAGAGCCAGTGTAAGACCATGTTTGGAA
1 TAAGACCATGTTTAGGACATGGCATCAGCCACAATATGAGAGCCAGTGTAAGACCATGTTTGGGA
* * * * * *
23241916 CATAGCATCGGCATTGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGG---CGTCCATAT
66 CATGGCATCGGCATTAATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT
* * *
23241978 TCTGAGAGCCAGTG
131 TATGAGAGCCAATA
* *
23241992 TAAGACCATGTTTAGGACATGGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGA
1 TAAGACCATGTTTAGGACATGGCATCAGCCACAATATGAGAGCCAGTGTAAGACCATGTTTGGGA
* * * * *
23242057 CATGGCATTGGTATTAAGATGAGAGCTAGTATAAGACCATGTTTGGGACATGGCATCGGCCACAT
66 CATGGCATCGGCATTAATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT
23242122 TATGAGAGCCAATA
131 TATGAGAGCCAATA
* * * * * *
23242136 TAAGACCATGTTT-GGAACATGGCATC-GGCATTAATATGTGCGCTAGTGTAAGACCAAGTTTGG
1 TAAGACCATGTTTAGG-ACATGGCATCAGCCA-CAATATGAGAGCCAGTGTAAGACCATGTTTGG
* * *
23242199 GACATGGCATCGGCCA-CATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
64 GACATGGCATCGG-CATTAATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
23242259 ACAAATTCAC
Statistics
Matches: 226, Mismatches: 35, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
141 104 0.46
143 5 0.02
144 116 0.51
145 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (144 bp):
TAAGACCATGTTTAGGACATGGCATCAGCCACAATATGAGAGCCAGTGTAAGACCATGTTTGGGA
CATGGCATCGGCATTAATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT
TATGAGAGCCAATA
Found at i:23243473 original size:21 final size:20
Alignment explanation
Indices: 23243444--23243483 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
23243434 GTTAAAAAGA
*
23243444 CACAGGGGCATGTGACCCTTC
1 CACACGGGCATGTG-CCCTTC
23243465 CACACGGGCATGTGCCCTT
1 CACACGGGCATGTGCCCTT
23243484 GTCTACTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.17, C:0.35, G:0.28, T:0.20
Consensus pattern (20 bp):
CACACGGGCATGTGCCCTTC
Found at i:23245385 original size:40 final size:40
Alignment explanation
Indices: 23245259--23245388 Score: 167
Period size: 40 Copynumber: 3.2 Consensus size: 40
23245249 CGGAATACAA
*
23245259 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATGTAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* *
23245299 CCGGATAG-AACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGAT-GTAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* *
23245339 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATGTAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
23245379 CCGGATGTAA
1 CCGGATGTAA
23245389 TTTCCAGCAT
Statistics
Matches: 79, Mismatches: 7, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
39 4 0.05
40 75 0.95
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATGTAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:23249287 original size:2 final size:2
Alignment explanation
Indices: 23249280--23249304 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23249270 TTGGATCTTT
23249280 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
23249305 TTTTTTTATC
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:23251451 original size:23 final size:23
Alignment explanation
Indices: 23251414--23251474 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
23251404 CTATTATTAC
*
23251414 TATTTTATTTTTTTTACTATCATT
1 TATTTTA-TTATTTTACTATCATT
*
23251438 T-TTTTAGTTATTTTCCTATCATT
1 TATTTTA-TTATTTTACTATCATT
*
23251461 TATTATATTATTTT
1 TATTTTATTATTTT
23251475 TTTACACTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 27 0.84
24 5 0.16
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.69
Consensus pattern (23 bp):
TATTTTATTATTTTACTATCATT
Found at i:23251502 original size:16 final size:15
Alignment explanation
Indices: 23251453--23251503 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
23251443 AGTTATTTTC
*
23251453 CTATCATTTATTATA
1 CTATTATTTATTATA
* *
23251468 TTATT-TTT-TTACA
1 CTATTATTTATTATA
23251481 CTATTATTTATTATA
1 CTATTATTTATTATA
23251496 CTCATTAT
1 CT-ATTAT
23251504 ATCATTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 8 0.29
14 6 0.21
15 9 0.32
16 5 0.18
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (15 bp):
CTATTATTTATTATA
Found at i:23251804 original size:14 final size:14
Alignment explanation
Indices: 23251787--23251829 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
23251777 TTTATTATGC
23251787 TTATTATATTTTAT
1 TTATTATATTTTAT
*
23251801 TTATCATATTTTAT
1 TTATTATATTTTAT
23251815 TTA-T-TATTTTAT
1 TTATTATATTTTAT
23251827 TTA
1 TTA
23251830 CCGTTTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 11 0.41
14 16 0.59
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTATATTTTAT
Found at i:23251852 original size:14 final size:14
Alignment explanation
Indices: 23251833--23251862 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23251823 TTATTTACCG
23251833 TTTACTACTATTAT
1 TTTACTACTATTAT
*
23251847 TTTACTATTATTAT
1 TTTACTACTATTAT
23251861 TT
1 TT
23251863 ATAATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTACTACTATTAT
Found at i:23264067 original size:90 final size:90
Alignment explanation
Indices: 23263860--23264067 Score: 301
Period size: 90 Copynumber: 2.3 Consensus size: 90
23263850 ATACCAGATA
* * * *
23263860 TTATCTTCACTGAGCAGGAGTGAAGCAAATCAAATTTTGGCAAGTCTTATCTCTATGTATCGGCA
1 TTATCTTCACTGAGCAGGAGTGGAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGACA
*
23263925 ATGGAGCAGATTTTAGCCACCAGCC
66 ATGGAGCAGATTTCAGCCACCAGCC
* * * *
23263950 TTATCTTCGCTGAGCAGGAGCGGAGCAGTTCAAATTTTGGTGAA-TCTTATCTCCATGTATCGAC
1 TTATCTTCACTGAGCAGGAGTGGAGCAGATCAAATTTTGG-CAAGTCTTATCTCCATGTATCGAC
*
23264014 AATGGAGTAGATTTCAGCCACCAGCC
65 AATGGAGCAGATTTCAGCCACCAGCC
*
23264040 TTATCTTCACTAAGCAGGAGTGGAGCAG
1 TTATCTTCACTGAGCAGGAGTGGAGCAG
23264068 GCTAAATATA
Statistics
Matches: 104, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
90 102 0.98
91 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (90 bp):
TTATCTTCACTGAGCAGGAGTGGAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGACA
ATGGAGCAGATTTCAGCCACCAGCC
Found at i:23264088 original size:135 final size:135
Alignment explanation
Indices: 23263949--23264255 Score: 443
Period size: 135 Copynumber: 2.3 Consensus size: 135
23263939 AGCCACCAGC
** * * *
23263949 CTTATCTTCGCTGAGCAGGAGCGGAGCAGTTCAAATTTTGGTGAATCTTATCTCCATGTATCGAC
1 CTTATCTTCGCTGAGCAGGAGCAAAGCAGATCAAATTTTGATGAATCTTATCTCCATATATCGAC
* * * * * *
23264014 AATGGAGTAGATTTCAGCCACCAGCCTTATCTTCACTAAGCAGGAGTGGAGCAGGCTAAATATAC
66 AATGGAGCAGATTCCAACCACCAGCCTTATCTTCACTAAGCAAGAGTGGAGCAAGCTAAACATAC
23264079 CAGAT
131 CAGAT
*
23264084 CTTATCTTCGCTGAGCAGGAGCAAAGCAGATCAAATTTTGATGAATCTTATCTCCATATATCGGC
1 CTTATCTTCGCTGAGCAGGAGCAAAGCAGATCAAATTTTGATGAATCTTATCTCCATATATCGAC
* * *
23264149 AATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAAGAGTGGAGCAAGCTAAACATAC
66 AATGGAGCAGATTCCAACCACCAGCCTTATCTTCACTAAGCAAGAGTGGAGCAAGCTAAACATAC
23264214 CAGAT
131 CAGAT
* ** *
23264219 TTTATCTTTACTGAGCAGGAGTAAAGCAGATCAAATT
1 CTTATCTTCGCTGAGCAGGAGCAAAGCAGATCAAATT
23264256 ACAGCAGATC
Statistics
Matches: 153, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
135 153 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (135 bp):
CTTATCTTCGCTGAGCAGGAGCAAAGCAGATCAAATTTTGATGAATCTTATCTCCATATATCGAC
AATGGAGCAGATTCCAACCACCAGCCTTATCTTCACTAAGCAAGAGTGGAGCAAGCTAAACATAC
CAGAT
Done.