Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 68 of 297
Found at i:24180039 original size:19 final size:18
Alignment explanation
Indices: 24179972--24180039 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 18
24179962 ATATAATTTT
*
24179972 AAAT-TTTAAATAGTTAAA
1 AAATATTTAAA-AATTAAA
* *
24179990 ATAATATATATAAATTAAA
1 A-AATATTTAAAAATTAAA
*
24180009 AAATGTTATAAAAATTTAAA
1 AAATATT-TAAAAA-TTAAA
24180029 AAATATTTAAA
1 AAATATTTAAA
24180040 TTTCAAGTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 5 0.13
19 19 0.49
20 15 0.38
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
AAATATTTAAAAATTAAA
Found at i:24180107 original size:23 final size:23
Alignment explanation
Indices: 24180081--24180126 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24180071 TTTAAATATC
*
24180081 TTTTAGAATTTTATAATTGCATA
1 TTTTAGAATTTCATAATTGCATA
* *
24180104 TTTTATAATTTCATAATTTCATA
1 TTTTAGAATTTCATAATTGCATA
24180127 AAAAAATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTTAGAATTTCATAATTGCATA
Found at i:24180108 original size:15 final size:15
Alignment explanation
Indices: 24180088--24180118 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24180078 ATCTTTTAGA
24180088 ATTTTATAATTGCAT
1 ATTTTATAATTGCAT
*
24180103 ATTTTATAATTTCAT
1 ATTTTATAATTGCAT
24180118 A
1 A
24180119 ATTTCATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (15 bp):
ATTTTATAATTGCAT
Found at i:24180270 original size:23 final size:23
Alignment explanation
Indices: 24180195--24180292 Score: 78
Period size: 22 Copynumber: 4.3 Consensus size: 23
24180185 TTTCAATTAT
* * * *
24180195 TATATTTTTGTAAATTTTATTTT
1 TATATTTTTATAGATTTTATATA
*
24180218 TATATTTTTAATA-A-TTTATATG
1 TATATTTTT-ATAGATTTTATATA
* *
24180240 TTTCTTTTTATAGATTTTATATA
1 TATATTTTTATAGATTTTATATA
24180263 TATATTTTT-T-GAATTTTATATA
1 TATATTTTTATAG-ATTTTATATA
*
24180285 TTTATTTT
1 TATATTTT
24180293 CATTTTTTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
21 4 0.06
22 32 0.52
23 24 0.39
24 2 0.03
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (23 bp):
TATATTTTTATAGATTTTATATA
Found at i:24180284 original size:18 final size:18
Alignment explanation
Indices: 24180261--24180310 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
24180251 AGATTTTATA
24180261 TATATATTTTTTGAATTT
1 TATATATTTTTTGAATTT
**
24180279 TATATATTTATTTTCATTT
1 TATATATTT-TTTGAATTT
*
24180298 TTTATACTTTTTT
1 TATATA-TTTTTT
24180311 AATATTGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 9 0.33
19 15 0.56
20 3 0.11
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (18 bp):
TATATATTTTTTGAATTT
Found at i:24180299 original size:20 final size:20
Alignment explanation
Indices: 24180253--24180303 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
24180243 CTTTTTATAG
*
24180253 ATTTTATATATATATTTTTTG
1 ATTTT-TATATATATTTTTTC
*
24180274 AATTTTATATAT-TTATTTTC
1 ATTTTTATATATATT-TTTTC
24180294 ATTTTT-TATA
1 ATTTTTATATA
24180304 CTTTTTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 6 0.23
20 16 0.62
21 4 0.15
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTTTTATATATATTTTTTC
Found at i:24181621 original size:11 final size:11
Alignment explanation
Indices: 24181607--24181646 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
24181597 TGTTTTATCT
24181607 CTATTTTGCTA
1 CTATTTTGCTA
*
24181618 CTATTTTACTA
1 CTATTTTGCTA
*
24181629 -TATGTTGCTA
1 CTATTTTGCTA
24181639 CTATTTTG
1 CTATTTTG
24181647 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.55
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:24181717 original size:30 final size:30
Alignment explanation
Indices: 24181683--24181745 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
24181673 ACTTATTTTA
24181683 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
24181713 TTGTTAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
24181743 TTG
1 TTG
24181746 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.03, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:24182453 original size:28 final size:31
Alignment explanation
Indices: 24182421--24182479 Score: 88
Period size: 28 Copynumber: 2.0 Consensus size: 31
24182411 TATTATTATT
24182421 TAATATTAATA-TAAT-T-ATTTTTATTTAA
1 TAATATTAATATTAATATAATTTTTATTTAA
24182449 TAATATTAATATTAATATAAATTTTTATTTA
1 TAATATTAATATTAATAT-AATTTTTATTTA
24182480 TTTATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 11 0.41
29 4 0.15
30 1 0.04
32 11 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
TAATATTAATATTAATATAATTTTTATTTAA
Found at i:24182487 original size:32 final size:32
Alignment explanation
Indices: 24182404--24182487 Score: 111
Period size: 32 Copynumber: 2.6 Consensus size: 32
24182394 GTGGGGTGAG
24182404 ATATTTTTA-TTATTAT-TTAATATTAATATA
1 ATATTTTTATTTATTATATTAATATTAATATA
*
24182434 ATTATTTTTATTTAATAATATTAATATTAATATA
1 A-TATTTTTATTT-ATTATATTAATATTAATATA
24182468 A-ATTTTTATTTATTTATATT
1 ATATTTTTATTTA-TTATATT
24182488 TTAATAAGGT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
30 1 0.02
31 9 0.19
32 18 0.38
33 4 0.09
34 15 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (32 bp):
ATATTTTTATTTATTATATTAATATTAATATA
Found at i:24182492 original size:28 final size:29
Alignment explanation
Indices: 24182404--24182493 Score: 85
Period size: 31 Copynumber: 2.9 Consensus size: 29
24182394 GTGGGGTGAG
24182404 ATATTTTTATTATTATTTA-ATATTAATATA
1 ATATTTTTA-T-TTATTTATATATTAATATA
*
24182434 ATTATTTTTATTTAATAATATTAATATTAATATA
1 A-TATTTTTATTT-AT-TTA-T-ATATTAATATA
*
24182468 A-ATTTTTATTTATTTATATTTTAATA
1 ATATTTTTATTTATTTATATATTAATA
24182494 AGGTGATAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
28 8 0.16
29 3 0.06
30 6 0.12
31 12 0.24
32 10 0.20
34 12 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (29 bp):
ATATTTTTATTTATTTATATATTAATATA
Found at i:24182492 original size:34 final size:34
Alignment explanation
Indices: 24182419--24182493 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 34
24182409 TTTATTATTA
24182419 TTTAATATTAATATAATTATTTTTATTTAATAAT
1 TTTAATATTAATATAATTATTTTTATTTAATAAT
* *
24182453 ATTAATATTAATATAA--ATTTTTATTTATTTATAT
1 TTTAATATTAATATAATTATTTTTATTTA-ATA-AT
24182487 TTTAATA
1 TTTAATA
24182494 AGGTGATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 11 0.31
33 2 0.06
34 23 0.64
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (34 bp):
TTTAATATTAATATAATTATTTTTATTTAATAAT
Found at i:24186254 original size:18 final size:18
Alignment explanation
Indices: 24186233--24186292 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
24186223 AAATTAACTA
24186233 AATTAACTGAAGTAACCG
1 AATTAACTGAAGTAACCG
* * *
24186251 AATTAACTGACGCAACTG
1 AATTAACTGAAGTAACCG
* * *
24186269 AATCAACCGAATTAACCG
1 AATTAACTGAAGTAACCG
*
24186287 ACTTAA
1 AATTAA
24186293 AGTATTGAAT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.22
Consensus pattern (18 bp):
AATTAACTGAAGTAACCG
Found at i:24190441 original size:5 final size:5
Alignment explanation
Indices: 24190431--24190456 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24190421 ATTTTTATGA
24190431 TTGGG TTGGG TTGGG TTGGG TTGGG T
1 TTGGG TTGGG TTGGG TTGGG TTGGG T
24190457 ACTTGGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.58, T:0.42
Consensus pattern (5 bp):
TTGGG
Found at i:24191173 original size:191 final size:191
Alignment explanation
Indices: 24190849--24191223 Score: 660
Period size: 191 Copynumber: 2.0 Consensus size: 191
24190839 GAAGGTGTTA
* * *
24190849 GAGAGGGTCGCTGGACCCCATTCTAGATCTTAGTGTCGTGGGTCAGTAACTGAACGACTCTAGTC
1 GAGAGGGTCACTGGACCCCATTCTAGATCTGAGTGTCGTAGGTCAGTAACTGAACGACTCTAGTC
*
24190914 CAATGGAGCTGAGCTGTTTAGGGGTATCACTAGAGTCACCCCTGCTGTGGCTGAGTATTGGTTGG
66 CAATGGAGCTGAGCTGTTTAGGGGTATCACTAGAGTCACCCCTGCTGTGGCTAAGTATTGGTTGG
24190979 AGGCAGCCGAGAGGATCATGAACGACATTGATTGAACTCCTAAACAGAAACTTAGGATTTG
131 AGGCAGCCGAGAGGATCATGAACGACATTGATTGAACTCCTAAACAGAAACTTAGGATTTG
* * *
24191040 GAGAGGGTCACTGGACCCCATTCTGGATCTGAGTGTCGTAGGTCAGTAACTGAATGACTCTGGTC
1 GAGAGGGTCACTGGACCCCATTCTAGATCTGAGTGTCGTAGGTCAGTAACTGAACGACTCTAGTC
*
24191105 CAATGGAGCTGAGCTGTTTAGGGGTGTCACTAGAGTCACCCCTGCTGTGGCTAAGTATTGGTTGG
66 CAATGGAGCTGAGCTGTTTAGGGGTATCACTAGAGTCACCCCTGCTGTGGCTAAGTATTGGTTGG
**
24191170 AGGCAGCCGAGAGGATCATGAACGACATTGATTGAACTCCTAAGTAGAAACTTA
131 AGGCAGCCGAGAGGATCATGAACGACATTGATTGAACTCCTAAACAGAAACTTA
24191224 AAGGTGTAGT
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
191 174 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.26
Consensus pattern (191 bp):
GAGAGGGTCACTGGACCCCATTCTAGATCTGAGTGTCGTAGGTCAGTAACTGAACGACTCTAGTC
CAATGGAGCTGAGCTGTTTAGGGGTATCACTAGAGTCACCCCTGCTGTGGCTAAGTATTGGTTGG
AGGCAGCCGAGAGGATCATGAACGACATTGATTGAACTCCTAAACAGAAACTTAGGATTTG
Found at i:24193157 original size:20 final size:20
Alignment explanation
Indices: 24193132--24193177 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
24193122 CTGAAAATGA
24193132 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
24193152 TTTCT-GAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
24193171 TTTCTGG
1 TTTCTGG
24193178 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:24194630 original size:32 final size:32
Alignment explanation
Indices: 24194584--24194644 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
24194574 TGTTAATCAT
24194584 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
24194616 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
24194645 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:24194651 original size:27 final size:30
Alignment explanation
Indices: 24194584--24194654 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 30
24194574 TGTTAATCAT
*
24194584 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
24194616 TTCAATATCTAACAAGCTTGAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
24194644 -TCAATATCTAA
1 TTCAATATCTAA
24194655 GAAATTCAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
27 11 0.30
28 2 0.05
29 2 0.05
32 22 0.59
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.28
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:24198541 original size:29 final size:29
Alignment explanation
Indices: 24198508--24198568 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
24198498 CATGCAGTAC
*
24198508 AAATA-GAACAAGAACAAGAAGAAGAAGAA
1 AAATATGAACAAGAA-AAGAACAAGAAGAA
* *
24198537 AAATATGGACAAGTAAAGAACAAGAAGAA
1 AAATATGAACAAGAAAAGAACAAGAAGAA
24198566 AAA
1 AAA
24198569 AAACAGCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.67, C:0.07, G:0.20, T:0.07
Consensus pattern (29 bp):
AAATATGAACAAGAAAAGAACAAGAAGAA
Found at i:24203732 original size:27 final size:27
Alignment explanation
Indices: 24203713--24203809 Score: 115
Period size: 27 Copynumber: 3.5 Consensus size: 27
24203703 ATATATTAAG
*
24203713 TCCGCACACTCAGTGCTATATAATCAA
1 TCCGCACACTTAGTGCTATATAATCAA
24203740 -CTCGCACACTTAGTGCTATATAATCAA
1 TC-CGCACACTTAGTGCTATATAATCAA
* *
24203767 ACTCGCACACTTAGTGCTATATAATTTAAA
1 TC-CGCACACTTAGTGCTATATAA--TCAA
*
24203797 CCCGCACACTTAG
1 TCCGCACACTTAG
24203810 CGCCAATCTC
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.02
27 24 0.38
28 23 0.37
29 11 0.17
30 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (27 bp):
TCCGCACACTTAGTGCTATATAATCAA
Found at i:24203778 original size:28 final size:28
Alignment explanation
Indices: 24203715--24203809 Score: 147
Period size: 28 Copynumber: 3.4 Consensus size: 28
24203705 ATATTAAGTC
*
24203715 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
24203742 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
24203770 CGCACACTTAGTGCTATATAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
24203799 CGCACACTTAG
1 CGCACACTTAG
24203810 CGCCAATCTC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
27 22 0.35
28 25 0.40
29 16 0.25
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:24212516 original size:40 final size:40
Alignment explanation
Indices: 24212439--24212656 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
24212429 AAACCAAGTA
* * *
24212439 CCTTCGGGATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
24212478 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
24212518 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24212558 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* ** *
24212598 CCTCCGGGACTTAGCCCGGA-ATTAGTTGCTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
24212638 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
24212657 TTACCATCCG
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 15 0.09
40 149 0.91
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:24214105 original size:62 final size:62
Alignment explanation
Indices: 24214034--24214157 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
24214024 ATTTAATTAA
24214034 GATTTACTACATATTTTAATATATGTACCATCATGGCCGGCCACTATGTATAAAAAAAGGAG
1 GATTTACTACATATTTTAATATATGTACCATCATGGCCGGCCACTATGTATAAAAAAAGGAG
24214096 GATTTACTACATATTTTAATATATGTACCATCATGGCCGGCCACTATGTATAAAAAAAGGAG
1 GATTTACTACATATTTTAATATATGTACCATCATGGCCGGCCACTATGTATAAAAAAAGGAG
24214158 TGTTTGACAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (62 bp):
GATTTACTACATATTTTAATATATGTACCATCATGGCCGGCCACTATGTATAAAAAAAGGAG
Found at i:24220604 original size:40 final size:40
Alignment explanation
Indices: 24220527--24220744 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
24220517 AAACCAAGTA
* * *
24220527 CCTTCGGGATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
24220566 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
24220606 CGTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
24220646 CTTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** *
24220686 CCTTCGGGACTTAGCCCGGA-ATTAGTCGCTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
24220726 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
24220745 TTACCATCCG
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 15 0.09
40 148 0.91
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:24231160 original size:40 final size:40
Alignment explanation
Indices: 24231091--24231258 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 40
24231081 CGGATGATAA
* * * *
24231091 CCGGACTAAGATCCGAAGGCATTCGTGCTAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * * * *
24231131 CCAGGCTATGTCCTGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
24231171 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
24231211 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
24231251 CC-GGCTAA
1 CCGGGCTAA
24231259 ATCCTGAAGA
Statistics
Matches: 109, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 8 0.07
40 99 0.91
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:24231535 original size:22 final size:22
Alignment explanation
Indices: 24231495--24231536 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
24231485 GAATGTGCAT
*
24231495 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
24231517 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
24231537 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:24233823 original size:25 final size:25
Alignment explanation
Indices: 24233786--24233855 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
24233776 CTCTTTTAAT
* * *
24233786 AACTAGGGTAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
24233811 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
24233836 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
24233856 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:24234091 original size:27 final size:27
Alignment explanation
Indices: 24234061--24234221 Score: 187
Period size: 27 Copynumber: 6.0 Consensus size: 27
24234051 GGGCAAAATT
* * *
24234061 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* * **
24234088 GTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCG
24234115 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* * **
24234142 GTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
24234169 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
24234196 GTAATTCTACCATACAGGGGTATTTC
1 GTAATTCTACCCTACAAGGGTATTTC
24234222 AATAATTTTG
Statistics
Matches: 115, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 115 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCG
Found at i:24234227 original size:27 final size:27
Alignment explanation
Indices: 24234078--24234228 Score: 203
Period size: 27 Copynumber: 5.6 Consensus size: 27
24234068 TACCCCACAA
* *
24234078 GGGTATCTCGGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTATAG
* * *
24234105 GGGTATTTTAGTAATTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTATAG
*
24234132 GGGTATTTCGGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTATAG
*
24234159 GGGTATTTTAGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTATAG
* * *
24234186 GGGTATTTCGGTAATTCTACCATACAG
1 GGGTATTTCAGTAATTCTACCCTATAG
*
24234213 GGGTATTTCAATAATT
1 GGGTATTTCAGTAATT
24234229 TTGTAAATCG
Statistics
Matches: 107, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTATAG
Found at i:24234228 original size:54 final size:54
Alignment explanation
Indices: 24234061--24234220 Score: 257
Period size: 54 Copynumber: 3.0 Consensus size: 54
24234051 GGGCAAAATT
* * *
24234061 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTA
24234115 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTA
* * * *
24234169 GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCATACAGGGGTATTT
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTT
24234221 CAATAATTTT
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 99 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTA
Found at i:24234254 original size:81 final size:81
Alignment explanation
Indices: 24234087--24234258 Score: 184
Period size: 81 Copynumber: 2.1 Consensus size: 81
24234077 AGGGTATCTC
* * **
24234087 GGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCATACAAGGGTATTTCAATAATTCTAC
** ***
24234152 CCTATAGGGGTATTTT
66 CAAATAGGGGTAAAAT
* * * **
24234168 AGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCATACAGGGGTATTTCAATAATT-TTG
1 GGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCATACAAGGGTATTTCAATAATTCTAC
* *
24234232 TAAATCGAGGGTAAAAT
66 CAAATAG-GGGTAAAAT
24234249 GGTAATTCTA
1 GGTAATTCTA
24234259 AAAATCGGGG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
80 4 0.05
81 69 0.95
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (81 bp):
GGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCATACAAGGGTATTTCAATAATTCTAC
CAAATAGGGGTAAAAT
Found at i:24234325 original size:108 final size:107
Alignment explanation
Indices: 24234213--24234527 Score: 284
Period size: 108 Copynumber: 2.9 Consensus size: 107
24234203 TACCATACAG
* * *
24234213 GGGTATTTCAATAATTTTGTAAA-TCGAGGGTAAAATGGTAA-TTCTAAAAATCGGGGGTACTTT
1 GGGTATTTCAATAATTTTGCAAACT-GAGGGTAAAATAGTAATTTC-AAAAATCAGGGGTACTTT
**
24234276 GGTAATTTTTACAAGTC-GAGGGTATTTTAGTAATTTTAAAATCGA
64 GGTAA-TTTTACAAACCAGA-GGTATTTTAGTAATTTTAAAATCGA
* *** * *
24234321 GGGTATTTCAGTAATTTTGCAAACTGAGGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTGG
1 GGGTATTTCAATAATTTTGCAAACTGAGGGTAAAATAGTAATTTCAAAAATCAGGGGTACTTTGG
*
24234386 TAATTTTACAAACCAGAGGTATTTTAGTAATTTTATAAA-CCA
66 TAATTTTACAAACCAGAGGTATTTTAGTAATTTTA-AAATCGA
*** * * ** *
24234428 CGGGTATTTTGGTAATTTTAC-AAGTCGAGGGT-ATTTCAGTAATTTCACAAATCAGGGGTA-TT
1 -GGGTATTTCAATAATTTTGCAAACT-GAGGGTAAAAT-AGTAATTTCAAAAATCAGGGGTACTT
* * * * *
24234490 TTGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTA
63 TGGTAATTTTACAAACCAGAGGTATTTTAGTAATTTTA
24234528 CAAACCAGGG
Statistics
Matches: 178, Mismatches: 22, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
107 70 0.39
108 104 0.58
109 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (107 bp):
GGGTATTTCAATAATTTTGCAAACTGAGGGTAAAATAGTAATTTCAAAAATCAGGGGTACTTTGG
TAATTTTACAAACCAGAGGTATTTTAGTAATTTTAAAATCGA
Found at i:24234517 original size:161 final size:160
Alignment explanation
Indices: 24234267--24234605 Score: 470
Period size: 161 Copynumber: 2.1 Consensus size: 160
24234257 TAAAAATCGG
* * *
24234267 GGGTACTTTGGTAATTTTTACAAGTCGAGGGTATTTTAGTAATTTTAAAATCGAGGGTATTTCAG
1 GGGTATTTTGGTAA-TTTTACAAGTCGAGGGTATTTCAGTAATTTCAAAATCGAGGGTATTTCAG
** *
24234332 TAATTTTGCAAACTGAGGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAA
65 TAATTTCACAAACTGAGGGTATTTTAGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAA
*
24234397 ACCAGAGGTATTTTAG-TAATTTTATAAACCA
130 ACCAGAGGTATTTT-GTTAATTTTACAAACCA
24234428 CGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATC-AGGGGTATTT-
1 -GGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCA-AAATCGA-GGGTATTTC
* * *
24234491 TGTAATTTCACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTA
63 AGTAATTTCACAAACTGA-GGGTATTTTAGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTA
* * *
24234555 CAAACCAGTGGTATTTTGTTAATTTTACGAACTA
127 CAAACCAGAGGTATTTTGTTAATTTTACAAACCA
24234589 GAGGTATTTTGGTAATT
1 G-GGTATTTTGGTAATT
24234606 CTACCCTATA
Statistics
Matches: 159, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
160 3 0.02
161 130 0.82
162 26 0.16
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (160 bp):
GGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCAAAATCGAGGGTATTTCAGT
AATTTCACAAACTGAGGGTATTTTAGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAA
CCAGAGGTATTTTGTTAATTTTACAAACCA
Found at i:24234582 original size:27 final size:27
Alignment explanation
Indices: 24234248--24234605 Score: 332
Period size: 27 Copynumber: 13.3 Consensus size: 27
24234238 GAGGGTAAAA
* * * * *
24234248 TGGTAATTCTAAAAATCGGGGGTACTT
1 TGGTAATTTTACAAACCAGGGGTATTT
**
24234275 TGGTAATTTTTACAAGTC-GAGGGTATTT
1 TGGTAA-TTTTACAAACCAG-GGGTATTT
* *
24234303 TAGTAATTTTA-AAATC-GAGGGTATTT
1 TGGTAATTTTACAAACCAG-GGGTATTT
** * *
24234329 CAGTAATTTTGCAAA-CTGAGGGTATTT
1 TGGTAATTTTACAAACCAG-GGGTATTT
* * *
24234356 TAGTAATTTCACAAATCAGGGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
*
24234383 TGGTAATTTTACAAACCAGAGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
* * *
24234410 TAGTAATTTTATAAACCACGGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
**
24234437 TGGTAATTTTACAAGTC-GAGGGTATTT
1 TGGTAATTTTACAAACCAG-GGGTATTT
** * *
24234464 CAGTAATTTCACAAATCAGGGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
* *
24234491 T-GTAATTTCACAAACTAGGGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
24234517 TGGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
*
24234544 TGGTAATTTTACAAACCAGTGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
* * * *
24234571 TGTTAATTTTACGAACTAGAGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
24234598 TGGTAATT
1 TGGTAATT
24234606 CTACCCTATA
Statistics
Matches: 283, Mismatches: 40, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
26 48 0.17
27 212 0.75
28 23 0.08
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
TGGTAATTTTACAAACCAGGGGTATTT
Found at i:24234676 original size:27 final size:26
Alignment explanation
Indices: 24234644--24234728 Score: 116
Period size: 27 Copynumber: 3.2 Consensus size: 26
24234634 CACAATAAAA
*
24234644 GGTAAAACGATAATTTTGTAAATCGAG
1 GGTAAAAC-ATAATTCTGTAAATCGAG
*
24234671 GGTAAAACAATAATTCTGTAAATCAAG
1 GGTAAAAC-ATAATTCTGTAAATCGAG
*
24234698 GGTAAAACAGTAATTCTATAAATCGAG
1 GGTAAAACA-TAATTCTGTAAATCGAG
24234725 GGTA
1 GGTA
24234729 CTTTGGTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
26 1 0.02
27 51 0.98
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (26 bp):
GGTAAAACATAATTCTGTAAATCGAG
Found at i:24236232 original size:20 final size:20
Alignment explanation
Indices: 24236207--24236246 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24236197 CTCCTCACGG
24236207 CGTCGTGTAGCATAAACCAA
1 CGTCGTGTAGCATAAACCAA
24236227 CGTCGTGTAGCATAAACCAA
1 CGTCGTGTAGCATAAACCAA
24236247 TGCCGACTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
CGTCGTGTAGCATAAACCAA
Found at i:24240180 original size:24 final size:24
Alignment explanation
Indices: 24240153--24240199 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
24240143 TTATAATATG
* * *
24240153 AAAATGACTATTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
24240177 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
24240200 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:24240367 original size:24 final size:25
Alignment explanation
Indices: 24240311--24240381 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 25
24240301 GGAAGTGCAT
24240311 AAAGGGCTTTTGCCCCAGTT-TGTCA
1 AAAGGGC-TTTGCCCCAGTTATGTCA
24240336 AAAGGGCTTTGCCCCAGTTAT-T-A
1 AAAGGGCTTTGCCCCAGTTATGTCA
**
24240359 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAG-GGCTTTGCC-CCAGTTAT
24240382 ATGAGAAAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.12
24 20 0.49
25 16 0.39
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTATGTCA
Found at i:24240610 original size:30 final size:31
Alignment explanation
Indices: 24240576--24240638 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
24240566 GTTTACAGTG
*
24240576 AAGGCTTCGGCCTAGTAATA-GAAATATGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATGAA
* **
24240606 AAGGCTTTGGCCCAGTGTTATGAAATATGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATGAA
24240637 AA
1 AA
24240639 ATGAAAAGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 16 0.57
31 12 0.43
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTAATATGAAATATGAA
Found at i:24244606 original size:43 final size:43
Alignment explanation
Indices: 24244559--24244647 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
24244549 AACAACGGAG
24244559 TAAGCTTTCATAAGCTTAGTAAGTCTTAAGCAATGCAAACAAA
1 TAAGCTTTCATAAGCTTAGTAAGTCTTAAGCAATGCAAACAAA
24244602 TAAGCTTTCATAAGCTTAGTAAGTCTTAAGCAATGCAAACAAA
1 TAAGCTTTCATAAGCTTAGTAAGTCTTAAGCAATGCAAACAAA
24244645 TAA
1 TAA
24244648 ACGCAATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (43 bp):
TAAGCTTTCATAAGCTTAGTAAGTCTTAAGCAATGCAAACAAA
Found at i:24245511 original size:43 final size:43
Alignment explanation
Indices: 24245463--24245768 Score: 531
Period size: 43 Copynumber: 7.1 Consensus size: 43
24245453 CCGGCATTAC
24245463 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
24245506 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
24245549 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
24245592 GCCTGCTAGGCACGAAGGCCCGAATATATATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
24245635 GCCTGCTAGGCACGAAGGCCCGAATATACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
24245678 GCCTGCTAGGCATGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
24245721 GCCAGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
24245764 GCCTG
1 GCCTG
24245769 TGAGATTTAA
Statistics
Matches: 248, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 248 1.00
ACGTcount: A:0.30, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:24250307 original size:93 final size:93
Alignment explanation
Indices: 24250192--24250363 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
24250182 CGCCCATAAG
* *
24250192 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAACTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAACTGAACTCGGACTCAACTCA
24250257 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* *
24250285 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAACTGAACTCGGACTCAACTCA
24250350 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
24250364 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAACTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:24250360 original size:46 final size:46
Alignment explanation
Indices: 24250185--24250360 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
24250175 TGTAACCCGC
* * *
24250185 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
24250231 CCATAA-CTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGC-GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
24250281 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
24250324 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
24250361 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:24251994 original size:21 final size:20
Alignment explanation
Indices: 24251972--24252039 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
24251962 GTTGAGAAGG
*
24251972 AAGTTGCTACTGCAGAAGAGG
1 AAGTTGCT-CTGCAGAAGAGA
24251993 AAGTT-CT-TGCAGAAGAGA
1 AAGTTGCTCTGCAGAAGAGA
* * *
24252011 AAGTTGTTGCTGAAGAAGAAA
1 AAGTTGCT-CTGCAGAAGAGA
24252032 AAGTTGCT
1 AAGTTGCT
24252040 GAAAATGAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 15 0.38
19 1 0.03
20 2 0.05
21 21 0.54
ACGTcount: A:0.37, C:0.10, G:0.29, T:0.24
Consensus pattern (20 bp):
AAGTTGCTCTGCAGAAGAGA
Found at i:24252005 original size:18 final size:18
Alignment explanation
Indices: 24251982--24252031 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
24251972 AAGTTGCTAC
*
24251982 TGCAGAAGAGGAAGTTCT
1 TGCAGAAGAGAAAGTTCT
*
24252000 TGCAGAAGAGAAAGTTGT
1 TGCAGAAGAGAAAGTTCT
*
24252018 TGCTGAAGAAGAAA
1 TGCAGAAG-AGAAA
24252032 AAGTTGCTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.40, C:0.08, G:0.32, T:0.20
Consensus pattern (18 bp):
TGCAGAAGAGAAAGTTCT
Found at i:24252571 original size:16 final size:16
Alignment explanation
Indices: 24252550--24252604 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
24252540 GTTTGGTTCA
24252550 CTGTAATAGAATATG-G
1 CTGTAATAGAATA-GAG
**
24252566 CTGTAATTCAATAGAG
1 CTGTAATAGAATAGAG
*
24252582 CTGTAATGGAATAGAG
1 CTGTAATAGAATAGAG
24252598 CTGTAAT
1 CTGTAAT
24252605 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 1 0.03
16 33 0.97
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:24252672 original size:44 final size:46
Alignment explanation
Indices: 24252586--24252679 Score: 149
Period size: 44 Copynumber: 2.1 Consensus size: 46
24252576 ATAGAGCTGT
24252586 AATGGAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
*
24252632 AATGGAATAGAGCTGTAAT-AG-AATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAAT-TGTTTGGTTGAATGG
24252676 AATG
1 AATG
24252680 ATGTTGTAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
43 1 0.02
44 24 0.52
45 2 0.04
46 19 0.41
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
Found at i:24252890 original size:12 final size:12
Alignment explanation
Indices: 24252875--24252905 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24252865 AATATATATT
*
24252875 TTAATAACATTA
1 TTAATAACAGTA
24252887 TTAATAACAGTA
1 TTAATAACAGTA
24252899 TTAATAA
1 TTAATAA
24252906 TATTTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (12 bp):
TTAATAACAGTA
Found at i:24252918 original size:13 final size:13
Alignment explanation
Indices: 24252900--24252949 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
24252890 ATAACAGTAT
24252900 TAATAATATTTAA
1 TAATAATATTTAA
24252913 TAATAAT-TTTAA
1 TAATAATATTTAA
*
24252925 T-ATAAAATTATAA
1 TAATAATATT-TAA
*
24252938 TTAAGAATATTT
1 -TAATAATATTT
24252950 CAATGCCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
11 4 0.13
12 8 0.27
13 10 0.33
14 2 0.07
15 6 0.20
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (13 bp):
TAATAATATTTAA
Found at i:24260294 original size:49 final size:49
Alignment explanation
Indices: 24260168--24260631 Score: 800
Period size: 49 Copynumber: 9.6 Consensus size: 49
24260158 CCCTTCGGGA
* * * * *
24260168 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24260215 CCTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24260262 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24260311 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24260360 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24260409 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24260458 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG--C
24260509 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24260556 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24260605 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
24260632 TATTCAAATA
Statistics
Matches: 402, Mismatches: 7, Indels: 16
0.95 0.02 0.04
Matches are distributed among these distances:
46 1 0.00
47 73 0.18
49 319 0.79
51 9 0.02
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24261329 original size:177 final size:177
Alignment explanation
Indices: 24261033--24261385 Score: 688
Period size: 177 Copynumber: 2.0 Consensus size: 177
24261023 TTTTTCTTAA
24261033 AGTTTCCCCTGTTTCACTATTTGACTAATCTGACCAGTCTTCACTACGAATCAAAATTCTCATTG
1 AGTTTCCCCTGTTTCACTATTTGACTAATCTGACCAGTCTTCACTACGAATCAAAATTCTCATTG
*
24261098 TACAGAATTCAAAGTATGTTCTATTTGATTTCATTTGAAACTAGACTCATTAAGGAGTCTAAGCA
66 TACAGAATTCAAAGTATGTTCTATTTGATTTCATTTGAAACTAAACTCATTAAGGAGTCTAAGCA
*
24261163 TATAAATTTTATCTTGTAACCATTTTTGTACAAATTATAGTGATTTC
131 TATAAATTTTATCTTGTAACCATTTTTGTAAAAATTATAGTGATTTC
24261210 AGTTTCCCCTGTTTCACTATTTGACTAATCTGACCAGTCTTCACTACGAATCAAAATTCTCATTG
1 AGTTTCCCCTGTTTCACTATTTGACTAATCTGACCAGTCTTCACTACGAATCAAAATTCTCATTG
24261275 TACAGAATTCAAAGTATGTTCTATTTGATTTCATTTGAAACTAAACTCATTAAGGAGTCTAAGCA
66 TACAGAATTCAAAGTATGTTCTATTTGATTTCATTTGAAACTAAACTCATTAAGGAGTCTAAGCA
24261340 TATAAATTTTATCTTGTAACCATTTTTGTAAAAATTATAGTGATTT
131 TATAAATTTTATCTTGTAACCATTTTTGTAAAAATTATAGTGATTT
24261386 TCTTAAAACA
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
177 174 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.40
Consensus pattern (177 bp):
AGTTTCCCCTGTTTCACTATTTGACTAATCTGACCAGTCTTCACTACGAATCAAAATTCTCATTG
TACAGAATTCAAAGTATGTTCTATTTGATTTCATTTGAAACTAAACTCATTAAGGAGTCTAAGCA
TATAAATTTTATCTTGTAACCATTTTTGTAAAAATTATAGTGATTTC
Found at i:24264095 original size:40 final size:40
Alignment explanation
Indices: 24264025--24264583 Score: 785
Period size: 40 Copynumber: 14.0 Consensus size: 40
24264015 ATTTTGTCCA
*** * *
24264025 AGCACGAATGC-CTTCGGGGTTTAGCACGGATATATCACT
1 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACT
* *
24264064 AGCACGGATGCTCTTCGGAACTTAGTCCGGATACATCACT
1 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACT
24264104 AGCACGAATGCTCTTC-GAGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGA-ACTTAGCCCGGATACATCACT
*
24264144 AGCACGAATACTCTTC-GAGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGA-ACTTAGCCCGGATACATCACT
24264184 AGCACGAATGCTCTTCAGG-ACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTC-GGAACTTAGCCCGGATACATCACT
*
24264224 AGCACGAATGCTCTTC-GAGACTTGGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGA-ACTTAGCCCGGATACATCACT
*
24264264 AGCACGAATGCTCTTC-GAGACTTGGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGA-ACTTAGCCCGGATACATCACT
* *
24264304 AGCACGTATGCTCTTCAGG-ACTTAGCCCCGATACATCACT
1 AGCACGAATGCTCTTC-GGAACTTAGCCCGGATACATCACT
*
24264344 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACT
* *
24264384 AGCACGAATGCTCTTC-GAGACTTGGCCTGGATACATCACT
1 AGCACGAATGCTCTTCGGA-ACTTAGCCCGGATACATCACT
* *
24264424 AGCACGAATGCTTTTC-GAGACTTGGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGA-ACTTAGCCCGGATACATCACT
*
24264464 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACT
* *
24264504 AGCACGAATGCTCTTCGGGACTTAGCCCGGATGCATCACT
1 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACT
* *
24264544 AGCACAAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACT
24264584 CTCAATTCTC
Statistics
Matches: 481, Mismatches: 28, Indels: 21
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.00
39 15 0.03
40 462 0.96
41 1 0.00
42 2 0.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACT
Found at i:24264177 original size:23 final size:23
Alignment explanation
Indices: 24264114--24264177 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
24264104 AGCACGAATG
24264114 CTCTTCGAGACTTAGCCCGGATA
1 CTCTTCGAGACTTAGCCCGGATA
* * *
24264137 --CATC---AC-TAGCACGAATA
1 CTCTTCGAGACTTAGCCCGGATA
24264154 CTCTTCGAGACTTAGCCCGGATA
1 CTCTTCGAGACTTAGCCCGGATA
24264177 C
1 C
24264178 ATCACTAGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 12
0.62 0.13 0.26
Matches are distributed among these distances:
17 9 0.31
18 2 0.07
19 3 0.10
21 3 0.10
22 2 0.07
23 10 0.34
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (23 bp):
CTCTTCGAGACTTAGCCCGGATA
Found at i:24264184 original size:120 final size:119
Alignment explanation
Indices: 24264025--24264583 Score: 877
Period size: 120 Copynumber: 4.7 Consensus size: 119
24264015 ATTTTGTCCA
* ** * * *
24264025 AGCACGAATGC-CTTCGGGGTTTAGCACGGATATATCACTAGCACGGATGCTCTTCGGAACTTAG
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG-ACTTAG
*
24264089 TCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
65 CCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
*
24264144 AGCACGAATACTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCAGGACTTAG
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GGACTTAG
*
24264209 CCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTGGCCCGGATACATCACT
65 CCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
* *
24264264 AGCACGAATGCTCTTCGAGACTTGGCCCGGATACATCACTAGCACGTATGCTCTTCAGGACTTAG
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GGACTTAG
* *
24264329 CCCCGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
65 CCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
* * * *
24264384 AGCACGAATGCTCTTCGAGACTTGGCCTGGATACATCACTAGCACGAATGCTTTTCGAGACTTGG
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCG-GACTTAG
*
24264449 CCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
65 CCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
* * *
24264504 AGCACGAATGCTCTTCGGGACTTAGCCCGGATGCATCACTAGCACAAATGCTCTTCGGGACTTAG
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GGACTTAG
24264569 CCCGGATACATCACT
65 CCCGGATACATCACT
24264584 CTCAATTCTC
Statistics
Matches: 409, Mismatches: 27, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
119 11 0.03
120 395 0.97
121 3 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (119 bp):
AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGACTTAGC
CCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
Found at i:24264537 original size:23 final size:23
Alignment explanation
Indices: 24264471--24264537 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
24264461 ACTAGCACGA
24264471 ATGCTCTTCGGGACTTAGCCCGG
1 ATGCTCTTCGGGACTTAGCCCGG
* * * *
24264494 AT--ACATC---AC-TAGCACGA
1 ATGCTCTTCGGGACTTAGCCCGG
24264511 ATGCTCTTCGGGACTTAGCCCGG
1 ATGCTCTTCGGGACTTAGCCCGG
24264534 ATGC
1 ATGC
24264538 ATCACTAGCA
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 2 0.07
19 3 0.10
21 3 0.10
22 2 0.07
23 12 0.40
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.24
Consensus pattern (23 bp):
ATGCTCTTCGGGACTTAGCCCGG
Found at i:24266071 original size:47 final size:47
Alignment explanation
Indices: 24266000--24266261 Score: 380
Period size: 47 Copynumber: 5.6 Consensus size: 47
24265990 CCCTTCGGGA
* * * * *
24266000 CTTATCACATTTATACACTTTCACATCCATAACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
24266047 CCTATCACATATATACCCTTTCACATTCATCCCATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
24266094 CTTATCACATATATACCCTTTCACATTCATCCCATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
24266141 CTTATCACATATATACCCTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
24266188 CTTATCCCATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
24266235 CTTCTCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
24266262 TATTCAAAGA
Statistics
Matches: 198, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 198 1.00
ACGTcount: A:0.26, C:0.32, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:24273525 original size:23 final size:23
Alignment explanation
Indices: 24273499--24273548 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
24273489 ACCCTATGCA
24273499 ATGCAACATA-ATATCATACATGG-
1 ATGCAACATACATAT-A-ACATGGC
24273522 ATGCAACATACATATAACATGGC
1 ATGCAACATACATATAACATGGC
24273545 ATGC
1 ATGC
24273549 TCAAATACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGC
Found at i:24273629 original size:27 final size:27
Alignment explanation
Indices: 24273584--24273723 Score: 122
Period size: 27 Copynumber: 5.2 Consensus size: 27
24273574 AACAAATTTA
* * * *
24273584 TCATTTTACCTTACCGGGGTATTACAG
1 TCATTTTACCCTACAGGGGTATTTCGG
24273611 TCATTTTACCCTACAGGGGTATTTCGG
1 TCATTTTACCCTACAGGGGTATTTCGG
* * ** *
24273638 TTATTCTACCCTATGGGGGTATTTCTG
1 TCATTTTACCCTACAGGGGTATTTCGG
* * *
24273665 TAATTTTACCCTA-TGACGGTATTTCGG
1 TCATTTTACCCTACAG-GGGTATTTCGG
** *
24273692 TCATTTTACCCTTGA-GGGTGTTTCGG
1 TCATTTTACCCTACAGGGGTATTTCGG
24273718 TCATTT
1 TCATTT
24273724 GATCACATAA
Statistics
Matches: 92, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
26 16 0.17
27 76 0.83
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTTCGG
Found at i:24273721 original size:26 final size:27
Alignment explanation
Indices: 24273600--24273723 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
24273590 TACCTTACCG
* * *
24273600 GGGTATTACAGTCATTTTACCCTA-CA
1 GGGTATTTCGGTCATTTTACCCTATGA
* * *
24273626 GGGGTATTTCGGTTATTCTACCCTATGG
1 -GGGTATTTCGGTCATTTTACCCTATGA
* *
24273654 GGGTATTTCTGTAATTTTACCCTATGA
1 GGGTATTTCGGTCATTTTACCCTATGA
*
24273681 CGGTATTTCGGTCATTTTACCCT-TGA
1 GGGTATTTCGGTCATTTTACCCTATGA
*
24273707 GGGTGTTTCGGTCATTT
1 GGGTATTTCGGTCATTT
24273724 GATCACATAA
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 18 0.22
27 63 0.78
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTATGA
Found at i:24273756 original size:27 final size:27
Alignment explanation
Indices: 24273717--24274030 Score: 402
Period size: 27 Copynumber: 11.8 Consensus size: 27
24273707 GGGTGTTTCG
* * * * *
24273717 GTCATTTGATCACATAAAGGCAAAATT
1 GTCATTTTATCACATGAGGGTAAAATC
* * * *
24273744 ATCATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATGAGGGTAAAATC
* *
24273771 GTCATTTTATCACATAAGGGTAAAATT
1 GTCATTTTATCACATGAGGGTAAAATC
* * * * *
24273798 GTCATTTCATTATATAAGGGAAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
*
24273825 GTCATTTCATCACATGAGGGTAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
24273852 GTCATTTTATCAC---A-GGTAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
24273875 GTCATTTTATCACATGAGGGTAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
*
24273902 GTCATTTTATTACATGAGGGTAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
*
24273929 ATCATTTTATCACATGAGGGTAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
* *
24273956 GTCACTTTATCACATGAGGGTAAAGTC
1 GTCATTTTATCACATGAGGGTAAAATC
24273983 GTCATTTTATCACATGAGGGTAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
*
24274010 ATCATTTTATCACATGAGGGT
1 GTCATTTTATCACATGAGGGT
24274031 TCAAGTACAC
Statistics
Matches: 259, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
23 22 0.08
24 1 0.00
26 1 0.00
27 235 0.91
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (27 bp):
GTCATTTTATCACATGAGGGTAAAATC
Found at i:24273906 original size:104 final size:106
Alignment explanation
Indices: 24273749--24274016 Score: 369
Period size: 104 Copynumber: 2.5 Consensus size: 106
24273739 AAATTATCAT
* * * * *
24273749 TTTATCACATAAGGGCAAAATTGTCATTTTATCACATAAGGGTAAAATTGTCATTTCATTATATA
1 TTTATCAC--AAGGGTAAAATCGTCATTTTATCACATGAGGGTAAAATCGTCATTTCATTACATA
* *
24273814 AGGGAAAAATCGTCATTTCATCACATGAGGGTAAAATCGTCAT
64 AGGGAAAAATCATCATTTCATCACATGAGGGTAAAATCGTCAC
* *
24273857 TTTATCAC-A-GGTAAAATCGTCATTTTATCACATGAGGGTAAAATCGTCATTTTATTACATGAG
1 TTTATCACAAGGGTAAAATCGTCATTTTATCACATGAGGGTAAAATCGTCATTTCATTACATAAG
* *
24273920 GGTAAAATCATCATTTTATCACATGAGGGTAAAATCGTCAC
66 GGAAAAATCATCATTTCATCACATGAGGGTAAAATCGTCAC
* *
24273961 TTTATCACATGAGGGTAAAGTCGTCATTTTATCACATGAGGGTAAAATCATCATTT
1 TTTATCACA--AGGGTAAAATCGTCATTTTATCACATGAGGGTAAAATCGTCATTT
24274017 TATCACATGA
Statistics
Matches: 143, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
104 92 0.64
105 1 0.01
107 1 0.01
108 49 0.34
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (106 bp):
TTTATCACAAGGGTAAAATCGTCATTTTATCACATGAGGGTAAAATCGTCATTTCATTACATAAG
GGAAAAATCATCATTTCATCACATGAGGGTAAAATCGTCAC
Found at i:24275213 original size:24 final size:24
Alignment explanation
Indices: 24275161--24275213 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
24275151 CCCTTGATTT
24275161 CCTCCTAAAATCCCTCCTCATATC
1 CCTCCTAAAATCCCTCCTCATATC
* * *
24275185 TCTCCTCAACTCCCTCCTACAT-TC
1 CCTCCTAAAATCCCTCCT-CATATC
24275209 CCTCC
1 CCTCC
24275214 ATGACCAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.19, C:0.51, G:0.00, T:0.30
Consensus pattern (24 bp):
CCTCCTAAAATCCCTCCTCATATC
Found at i:24275906 original size:48 final size:48
Alignment explanation
Indices: 24275801--24275933 Score: 151
Period size: 48 Copynumber: 2.8 Consensus size: 48
24275791 CTGTGGGCTT
* * * * *
24275801 GAACATATCTTATGTTCCCCAGCTATTCTAATAAGTGTATTAAGTGCAA
1 GAACATATTTTATGTTCCTCAGCAATTCTGATAAG-ATATTAAGTGCAA
* * *
24275850 GAATATATTTTATGTTCCTCAGCAATGCTGATAA-ATATGTAAGTGCGA
1 GAACATATTTTATGTTCCTCAGCAATTCTGATAAGATAT-TAAGTGCAA
* *
24275898 GAACATATTTTATGTTTCTCAGCCATTCTGATAAGA
1 GAACATATTTTATGTTCCTCAGCAATTCTGATAAGA
24275934 CAAATATGTA
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 3 0.04
48 38 0.54
49 29 0.41
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (48 bp):
GAACATATTTTATGTTCCTCAGCAATTCTGATAAGATATTAAGTGCAA
Found at i:24279134 original size:3 final size:3
Alignment explanation
Indices: 24279126--24279157 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
24279116 GTTTGAAAAC
*
24279126 ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
24279158 GAGAGTTGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:24279467 original size:25 final size:25
Alignment explanation
Indices: 24279430--24279496 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
24279420 GTAGAATATT
24279430 TAATATGTAAATTATATTTAAAATAA
1 TAATAT-TAAATTATATTTAAAATAA
* **
24279456 TAATATTAAATTATTTTTTTAATAA
1 TAATATTAAATTATATTTAAAATAA
* *
24279481 TATTGAATAAATTATA
1 TAAT-ATTAAATTATA
24279497 AATTATAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (25 bp):
TAATATTAAATTATATTTAAAATAA
Found at i:24284875 original size:85 final size:85
Alignment explanation
Indices: 24284782--24284941 Score: 266
Period size: 85 Copynumber: 1.9 Consensus size: 85
24284772 ATTATTATTA
* * * *
24284782 ATTTAATTAATAACGTTGAACTTATCAATATTTTACGAAAATATCCTATGCCGGGTTTATGATTT
1 ATTTAATTAATAACGTTGAACCTATCAAGATCTTACGAAAATATCCTATACCGGGTTTATGATTT
24284847 ATCTTACTTTTTTGTAAAAG
66 ATCTTACTTTTTTGTAAAAG
* *
24284867 ATTTAATTAATAACGTTGAACCTATTAAGATCTTACGAAAGTATCCTATACCGGGTTTATGATTT
1 ATTTAATTAATAACGTTGAACCTATCAAGATCTTACGAAAATATCCTATACCGGGTTTATGATTT
24284932 ATCTTACTTT
66 ATCTTACTTT
24284942 AAAATTCTTG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (85 bp):
ATTTAATTAATAACGTTGAACCTATCAAGATCTTACGAAAATATCCTATACCGGGTTTATGATTT
ATCTTACTTTTTTGTAAAAG
Found at i:24285289 original size:27 final size:27
Alignment explanation
Indices: 24285250--24285313 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
24285240 ATCTAAATCC
*
24285250 AAATGTAAGAACCTTATGGTTTCATTA
1 AAATGTAAAAACCTTATGGTTTCATTA
24285277 AAATGTAAAAACCTTATGGTTTCATTA
1 AAATGTAAAAACCTTATGGTTTCATTA
*
24285304 AATTGTAAAA
1 AAATGTAAAA
24285314 CCTATTTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (27 bp):
AAATGTAAAAACCTTATGGTTTCATTA
Found at i:24286216 original size:19 final size:20
Alignment explanation
Indices: 24286130--24286226 Score: 58
Period size: 21 Copynumber: 4.7 Consensus size: 20
24286120 GTGACCCGAT
*
24286130 TTTTTTTTTGCAAAATC-AAAG
1 TTTTTTTTT--AAAATCAAAAC
24286151 TTTTCTTTTTAAAA--AAATCAC
1 TTTT-TTTTTAAAATCAAA--AC
*
24286172 TATTTTTCTTAAAGATCAAAAC
1 T-TTTTTTTTAAA-ATCAAAAC
*
24286194 TTTTTTTTTAAAATTAAAA-
1 TTTTTTTTTAAAATCAAAAC
**
24286213 TTTTCCTTTAAAAT
1 TTTTTTTTTAAAAT
24286227 GACTAAAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
19 14 0.23
20 10 0.16
21 23 0.37
22 12 0.19
24 3 0.05
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.49
Consensus pattern (20 bp):
TTTTTTTTTAAAATCAAAAC
Found at i:24287270 original size:42 final size:42
Alignment explanation
Indices: 24287220--24287364 Score: 175
Period size: 42 Copynumber: 3.5 Consensus size: 42
24287210 GCCTTCATAT
* * * *
24287220 AATGCAATGAAAAGTAAATAAACCTCCATACCTGGGCCTTTA
1 AATGCAACGAAAAGTAAACAAACATCCACACCTGGGCCTTTA
* * *
24287262 AATGCAATGCAAAGTAAACGAAA-ATCCCCACCTGGGCCTTTA
1 AATGCAACGAAAAGTAAAC-AAACATCCACACCTGGGCCTTTA
* * * *
24287304 AATGCAACGAAAAGTAAACAGACATCCACACTTGAGCCTCTA
1 AATGCAACGAAAAGTAAACAAACATCCACACCTGGGCCTTTA
24287346 AATGCAACGAAAAGTAAAC
1 AATGCAACGAAAAGTAAAC
24287365 GGACCTCCAC
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
41 2 0.02
42 84 0.94
43 3 0.03
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (42 bp):
AATGCAACGAAAAGTAAACAAACATCCACACCTGGGCCTTTA
Found at i:24287374 original size:42 final size:42
Alignment explanation
Indices: 24287220--24287394 Score: 172
Period size: 42 Copynumber: 4.2 Consensus size: 42
24287210 GCCTTCATAT
* * * * * *
24287220 AATGCAATGAAAAGTAAATAAACCTCCATACCTGGGCCTTTA
1 AATGCAACGAAAAGTAAACAAACATCCACACCTGAGCCTCTA
* * * * *
24287262 AATGCAATGCAAAGTAAACGAAA-ATCCCCACCTGGGCCTTTA
1 AATGCAACGAAAAGTAAAC-AAACATCCACACCTGAGCCTCTA
* *
24287304 AATGCAACGAAAAGTAAACAGACATCCACACTTGAGCCTCTA
1 AATGCAACGAAAAGTAAACAAACATCCACACCTGAGCCTCTA
** * * *
24287346 AATGCAACGAAAAGTAAACGGACCTCCACACTTGAGTCTCTA
1 AATGCAACGAAAAGTAAACAAACATCCACACCTGAGCCTCTA
24287388 AATGCAA
1 AATGCAA
24287395 TATGAGACAT
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
41 2 0.02
42 111 0.96
43 3 0.03
ACGTcount: A:0.41, C:0.25, G:0.15, T:0.19
Consensus pattern (42 bp):
AATGCAACGAAAAGTAAACAAACATCCACACCTGAGCCTCTA
Found at i:24289127 original size:13 final size:13
Alignment explanation
Indices: 24289109--24289133 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24289099 CGTGAAGTCA
24289109 AATTTCTTGCATC
1 AATTTCTTGCATC
24289122 AATTTCTTGCAT
1 AATTTCTTGCAT
24289134 GTCCAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.48
Consensus pattern (13 bp):
AATTTCTTGCATC
Found at i:24294249 original size:12 final size:12
Alignment explanation
Indices: 24294232--24294256 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24294222 AGCCGAAACT
24294232 AGAAAGAAAAAA
1 AGAAAGAAAAAA
24294244 AGAAAGAAAAAA
1 AGAAAGAAAAAA
24294256 A
1 A
24294257 AATGCTCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAA
Found at i:24295431 original size:39 final size:41
Alignment explanation
Indices: 24295336--24295519 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
24295326 TTGAATGATG
*
24295336 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
24295375 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
24295415 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
24295454 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
24295494 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24295520 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:24295471 original size:79 final size:81
Alignment explanation
Indices: 24295336--24295519 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
24295326 TTGAATGATG
24295336 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
24295399 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
24295414 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
24295475 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
24295494 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24295520 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:24295541 original size:79 final size:79
Alignment explanation
Indices: 24295388--24295552 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
24295378 GGACTAAGAT
* ** *
24295388 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
24295453 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
24295467 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
24295529 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
24295546 CCGAAGG
1 CCGAAGG
24295553 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:24297727 original size:455 final size:455
Alignment explanation
Indices: 24296876--24297967 Score: 2157
Period size: 455 Copynumber: 2.4 Consensus size: 455
24296866 GGGTGTTACA
*
24296876 CATACTTAAGAAAAGTCATAGTCGATCCTATTGCCATAGGGCAAACCTCTACTCGTCGTTCTTCT
1 CATACTTAAGGAAAGTCATAGTCGATCCTATTGCCATAGGGCAAACCTCTACTCGTCGTTCTTCT
24296941 TCTTCCTCCTCATGAGCTTGATGGAATTTTGGTAATGTGCCTGAGCCACCTCCAGAAGTTTCATT
66 TCTTCCTCCTCATGAGCTTGATGGAATTTTGGTAATGTGCCTGAGCCACCTCCAGAAGTTTCATT
24297006 GCAAGCTCGTTTCTAGTCGTAAAAGGGGTAGATTCTTTTTTGAGATCCTCAAACTTTTAAAAATG
131 GCAAGCTCGTTTCTAGTCGTAAAAGGGGTAGATTCTTTTTTGAGATCCTCAAACTTTTAAAAATG
24297071 ATTACATCTCAGAGGACTCAAGGATAGCAGGTAATGGTATGAGTTGCCAGTTGTCCAAGGTAGGT
196 ATTACATCTCAGAGGACTCAAGGATAGCAGGTAATGGTATGAGTTGCCAGTTGTCCAAGGTAGGT
24297136 GTTATACCAGTGAGCTATCCTTGGTCCTTTTCAAATGGCATTTATTTCCAAAGTTAGAAAATTAT
261 GTTATACCAGTGAGCTATCCTTGGTCCTTTTCAAATGGCATTTATTTCCAAAGTTAGAAAATTAT
24297201 TTGGATTTGTCATAAAAAATGTTTTTTTTTATTTTTTTTAAAATAATGTTTCTGAATAAAAAAAT
326 TTGGATTTGTCATAAAAAATGTTTTTTTTTATTTTTTTTAAAATAATGTTTCTGAATAAAAAAAT
24297266 GAGCGAATGACTGAACAAATGGATTAATGACTGTTCAACTTATAATTTTTTTTCTATTTTTCATT
391 GAGCGAATGACTGAACAAATGGATTAATGACTGTTCAACTTATAATTTTTTTTCTATTTTTCATT
24297331 CATACTTAAGGAAAGTCATAGTCGATCCTATTGCCATAGGGCAAACCTCTACTCGTCGTTCTTCT
1 CATACTTAAGGAAAGTCATAGTCGATCCTATTGCCATAGGGCAAACCTCTACTCGTCGTTCTTCT
24297396 TCTTCCTCCTCATGAGCTTGATGGAATTTTGGTAATGTGCCTGAGCCACCTCCAGAAGTTTCATT
66 TCTTCCTCCTCATGAGCTTGATGGAATTTTGGTAATGTGCCTGAGCCACCTCCAGAAGTTTCATT
24297461 GCAAGCTCGTTTCTAGTCGTAAAAGGGGTAGATTCTTTTTTGAGATCCTCAAACTTTTAAAAATG
131 GCAAGCTCGTTTCTAGTCGTAAAAGGGGTAGATTCTTTTTTGAGATCCTCAAACTTTTAAAAATG
24297526 ATTACATCTCAGAGGACTCAAGGATAGCAGGTAATGGTATGAGTTGCCAGTTGTCCAAGGTAGGT
196 ATTACATCTCAGAGGACTCAAGGATAGCAGGTAATGGTATGAGTTGCCAGTTGTCCAAGGTAGGT
24297591 GTTATACCAGTGAGCTATCCTTGGTCCTTTTCAAATGGCATTTATTTCCAAAGTTAGAAAATTAT
261 GTTATACCAGTGAGCTATCCTTGGTCCTTTTCAAATGGCATTTATTTCCAAAGTTAGAAAATTAT
24297656 TTGGATTTGTCATAAAAAATGTTTTTTTTTATTTTTTTTAAAATAATGTTTCTGAATAAAAAAAT
326 TTGGATTTGTCATAAAAAATGTTTTTTTTTATTTTTTTTAAAATAATGTTTCTGAATAAAAAAAT
24297721 GAGCGAATGACTGAACAAATGGATTAATGACTGTTCAACTTATAATTTTTTTTCTATTTTTCATT
391 GAGCGAATGACTGAACAAATGGATTAATGACTGTTCAACTTATAATTTTTTTTCTATTTTTCATT
24297786 CATACTTAAGGAAAGTCATAGTCGATCCTATTGCCATAGGGCAAACCTCTACTCGTCGTTCTTCT
1 CATACTTAAGGAAAGTCATAGTCGATCCTATTGCCATAGGGCAAACCTCTACTCGTCGTTCTTCT
24297851 TCTTCCTCCTCATGAGCTTGATGGAATTTTGGTAATGTGCCTGAGCCACCTCCAGAAGTTTCATT
66 TCTTCCTCCTCATGAGCTTGATGGAATTTTGGTAATGTGCCTGAGCCACCTCCAGAAGTTTCATT
* *
24297916 GCAAGCTCGTTCCTAGTCGTAAAAGGGGTAGATTCTTTTTTAAGATCCTCAA
131 GCAAGCTCGTTTCTAGTCGTAAAAGGGGTAGATTCTTTTTTGAGATCCTCAA
24297968 TCTATTCAAA
Statistics
Matches: 634, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
455 634 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (455 bp):
CATACTTAAGGAAAGTCATAGTCGATCCTATTGCCATAGGGCAAACCTCTACTCGTCGTTCTTCT
TCTTCCTCCTCATGAGCTTGATGGAATTTTGGTAATGTGCCTGAGCCACCTCCAGAAGTTTCATT
GCAAGCTCGTTTCTAGTCGTAAAAGGGGTAGATTCTTTTTTGAGATCCTCAAACTTTTAAAAATG
ATTACATCTCAGAGGACTCAAGGATAGCAGGTAATGGTATGAGTTGCCAGTTGTCCAAGGTAGGT
GTTATACCAGTGAGCTATCCTTGGTCCTTTTCAAATGGCATTTATTTCCAAAGTTAGAAAATTAT
TTGGATTTGTCATAAAAAATGTTTTTTTTTATTTTTTTTAAAATAATGTTTCTGAATAAAAAAAT
GAGCGAATGACTGAACAAATGGATTAATGACTGTTCAACTTATAATTTTTTTTCTATTTTTCATT
Found at i:24300705 original size:46 final size:46
Alignment explanation
Indices: 24300652--24300740 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
24300642 TAGTTAATTA
* *
24300652 TGCAATATTCCTATTTTGCCCTTAAATCATCAATTTTCCTGCTTTT
1 TGCAATATTCCAATTTTGCCCTTAAATCATCAATTCTCCTGCTTTT
* * * *
24300698 TGCAATATTTCAATTTTGCCCTTCATTTATCAATTCTCCTGCT
1 TGCAATATTCCAATTTTGCCCTTAAATCATCAATTCTCCTGCT
24300741 GATTTCATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.21, C:0.25, G:0.07, T:0.47
Consensus pattern (46 bp):
TGCAATATTCCAATTTTGCCCTTAAATCATCAATTCTCCTGCTTTT
Found at i:24317165 original size:207 final size:207
Alignment explanation
Indices: 24316635--24317535 Score: 1554
Period size: 207 Copynumber: 4.4 Consensus size: 207
24316625 GCAGATCTGG
*
24316635 CTGAAGCAAGATCCAAGATGATTTGACATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
24316700 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * ** * **
24316765 AGAGCAGATCGAAGTTTGGCGTCTCCATATTCGACTCAGGGCAGACACATAGCAGATCTAACCTT
131 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
* *
24316830 CAGATGATTAGA
196 CAGATGTTTATA
* * *
24316842 CTGAAGC-AGATCCAATATGATTTGGCATCCTTGTGTTTACAAGAAACAAATCGAA-ATCATAGC
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAGC
*
24316905 TGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTTTGTATTGTCA
65 TGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* *
24316970 GAGAACAAATCGAAGGTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGTAGATCTGGCCT
130 GAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCT
24317035 TCAGATGTTTATA
195 TCAGATGTTTATA
* *
24317048 CTGAAGCAATATCCAAGATAATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
24317113 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTCGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
*
24317178 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAAAGCAGACACATAGCAGATCTGGCCTT
131 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
24317243 CAGATGTTTATA
196 CAGATGTTTATA
*
24317255 CTGAATCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
24317320 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* *
24317385 AGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGAGTAGACACATAGCAGATCTGGCCTT
131 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
24317450 CAGATGTTTATA
196 CAGATGTTTATA
*
24317462 CTGAAGCAAGATCCAAGATAATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
24317527 AATTTGGCT
66 GATTTGGCT
24317536 GAAGCAGACC
Statistics
Matches: 655, Mismatches: 36, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
205 1 0.00
206 188 0.29
207 465 0.71
208 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (207 bp):
CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
CAGATGTTTATA
Found at i:24320626 original size:174 final size:174
Alignment explanation
Indices: 24320336--24320663 Score: 638
Period size: 174 Copynumber: 1.9 Consensus size: 174
24320326 AACTCAAGGT
* *
24320336 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
24320401 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
24320466 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGTAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGTAC
24320510 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
24320575 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
24320640 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
24320664 TGTACAATTT
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 152 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGTAC
Found at i:24320657 original size:29 final size:30
Alignment explanation
Indices: 24320623--24320694 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
24320613 ATCAACCGCG
*
24320623 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
24320652 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
24320681 CACACTTAGTGCCA
1 CACACTTAGTGCCA
24320695 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:24327032 original size:50 final size:50
Alignment explanation
Indices: 24326957--24327056 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
24326947 ATTTTAACCG
24326957 TCAGAAGTCATCACACAGTTAAACATTAACATTCGGCATGTATAGCTAGA
1 TCAGAAGTCATCACACAGTTAAACATTAACATTCGGCATGTATAGCTAGA
24327007 TCAGAAGTCATCACACAGTTAAACATTAACATTCGGCATGTATAGCTAGA
1 TCAGAAGTCATCACACAGTTAAACATTAACATTCGGCATGTATAGCTAGA
24327057 CTCATACGTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (50 bp):
TCAGAAGTCATCACACAGTTAAACATTAACATTCGGCATGTATAGCTAGA
Found at i:24333696 original size:27 final size:27
Alignment explanation
Indices: 24333666--24333842 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
24333656 TATTGAGTCT
* * * *
24333666 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAGTCAAATC
* *
24333693 GCACACTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
24333720 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTCAAA-TC
** * *
24333748 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAGTCAAATC
* **
24333775 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAGTCAAATC
*
24333802 GCACACTTAGTGCAACATAGTCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
24333829 GCACACTTAGTGCT
1 GCACACTTAGTGCT
24333843 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAAATC
Found at i:24333804 original size:82 final size:81
Alignment explanation
Indices: 24333686--24333841 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24333676 TGCTATATAA
* *
24333686 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24333751 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24333768 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24333832 CACTTAGTGC
65 CACTTAGTGC
24333842 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24336335 original size:14 final size:14
Alignment explanation
Indices: 24336316--24336347 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
24336306 AGGTCATTTA
24336316 GCCCAACCAAACAG
1 GCCCAACCAAACAG
*
24336330 GCCCAACCAAACTG
1 GCCCAACCAAACAG
24336344 GCCC
1 GCCC
24336348 GGTGATTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.47, G:0.16, T:0.03
Consensus pattern (14 bp):
GCCCAACCAAACAG
Found at i:24338561 original size:48 final size:46
Alignment explanation
Indices: 24338341--24338652 Score: 228
Period size: 44 Copynumber: 6.7 Consensus size: 46
24338331 TTACCAATGC
* * *
24338341 CATGTCCCAGACATGGTCTTACACTGGCTCACATATATGCGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCACATCTCT--GTGCCGATG
* * * *
24338390 CATGTCCCAGACATGTCTTACACTAG--CACAACTCT-TAACCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTCTGT-GCCGATG
** * * *
24338434 TGTGTCCAAGACACGTCTTACACTGGCT---ATCTCTGTTGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTCTG-T---GCCGATG
* * *
24338481 CATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTGTGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTCTGTGCCGATG
* * * *
24338527 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATTTATGTTTGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCACATCTCTG--TGCCGATG
* *
24338577 CATGTCCCAGACATGTCTTACACTAG--CACAACTCT-TAGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTCTGT-GCCGATG
* * *
24338621 CGTGTCCCAAACATGTCTTACACTGGCGCACA
1 CATGTCCCAGACATGTCTTACACTGGCTCACA
24338653 AATTACCCAA
Statistics
Matches: 210, Mismatches: 36, Indels: 37
0.74 0.13 0.13
Matches are distributed among these distances:
43 7 0.03
44 54 0.26
45 1 0.00
46 21 0.10
47 42 0.20
48 42 0.20
49 29 0.14
50 14 0.07
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCACATCTCTGTGCCGATG
Found at i:24356348 original size:12 final size:12
Alignment explanation
Indices: 24356321--24356359 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
24356311 TAAAAGGGTA
24356321 TAAAATGTAAAG-
1 TAAAATGT-AAGC
*
24356333 TAAATTGTAAGC
1 TAAAATGTAAGC
24356345 TAAAATGTAAGC
1 TAAAATGTAAGC
24356357 TAA
1 TAA
24356360 TAATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 3 0.12
12 21 0.88
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.28
Consensus pattern (12 bp):
TAAAATGTAAGC
Found at i:24361408 original size:22 final size:22
Alignment explanation
Indices: 24361391--24361488 Score: 135
Period size: 22 Copynumber: 4.4 Consensus size: 22
24361381 AGCTCATTGC
24361391 AGCTTATCGTTCAGCTCAATAG
1 AGCTTATCGTTCAGCTCAATAG
*
24361413 AGCTTATTGTTCAGCTCAATAG
1 AGCTTATCGTTCAGCTCAATAG
*
24361435 AGCTTACCGTTTCAGCTCAATAG
1 AGCTTATCG-TTCAGCTCAATAG
* *
24361458 AGTTTATTGTTCAGCTCAA-AGG
1 AGCTTATCGTTCAGCTCAATA-G
24361480 AGCTTATCG
1 AGCTTATCG
24361489 ACCATGACTC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
21 1 0.02
22 46 0.70
23 19 0.29
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (22 bp):
AGCTTATCGTTCAGCTCAATAG
Found at i:24361449 original size:45 final size:44
Alignment explanation
Indices: 24361391--24361485 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 44
24361381 AGCTCATTGC
*
24361391 AGCTTATCGTTCAGCTCAATAGAGCTTATTGTTCAGCTCAATA-G
1 AGCTTACCGTTCAGCTCAATAGAGCTTATTGTTCAGCTCAA-AGG
*
24361435 AGCTTACCGTTTCAGCTCAATAGAGTTTATTGTTCAGCTCAAAGG
1 AGCTTACCG-TTCAGCTCAATAGAGCTTATTGTTCAGCTCAAAGG
24361480 AGCTTA
1 AGCTTA
24361486 TCGACCATGA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
44 9 0.19
45 38 0.81
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (44 bp):
AGCTTACCGTTCAGCTCAATAGAGCTTATTGTTCAGCTCAAAGG
Found at i:24366685 original size:26 final size:26
Alignment explanation
Indices: 24366656--24366716 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
24366646 ATAAGAGCCA
* * *
24366656 TAATCAGGAAGTTCACAAAGAACTTT
1 TAATCAAGAAGCTCACAAAGAACCTT
* *
24366682 TAATCAAGAAGCTCACGAAGAGCCTT
1 TAATCAAGAAGCTCACAAAGAACCTT
24366708 TAATCAAGA
1 TAATCAAGA
24366717 GTGTAACATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (26 bp):
TAATCAAGAAGCTCACAAAGAACCTT
Found at i:24366973 original size:13 final size:13
Alignment explanation
Indices: 24366955--24366979 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24366945 GGTTTGTTTA
24366955 TTAAACTAATTAT
1 TTAAACTAATTAT
24366968 TTAAACTAATTA
1 TTAAACTAATTA
24366980 ACTGGTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:24369920 original size:6 final size:6
Alignment explanation
Indices: 24369888--24369980 Score: 100
Period size: 6 Copynumber: 15.5 Consensus size: 6
24369878 TATGTCTTTC
* * * * *
24369888 AAAAT- AAAATA ATAA-A AAAATT GAAATA AAAATA AAAATT AAAAGA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
24369934 AAAATA AAAATA AAAATA AAAATA AGAATA AATAATAA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA-AAT-A AAAATA AAA
24369981 GGAATCAATG
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
5 9 0.12
6 54 0.75
7 6 0.08
8 3 0.04
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:24380383 original size:21 final size:20
Alignment explanation
Indices: 24380345--24380384 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
24380335 CCCTTAAAAC
*
24380345 AGGGCACACGCCCGTGTGGA
1 AGGGCACACGCCCATGTGGA
*
24380365 AGGGCAACACGCCTATGTGG
1 AGGGC-ACACGCCCATGTGG
24380385 TCATTTTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (20 bp):
AGGGCACACGCCCATGTGGA
Found at i:24383539 original size:8 final size:8
Alignment explanation
Indices: 24383522--24383566 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
24383512 ATTATATACT
*
24383522 TTATTTTA
1 TTATTATA
24383530 TTATTATA
1 TTATTATA
24383538 TTATATTATA
1 -T-TATTATA
*
24383548 TTAATATA
1 TTATTATA
24383556 TTATTATA
1 TTATTATA
24383564 TTA
1 TTA
24383567 ATTTCTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 23 0.72
9 2 0.06
10 7 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTATTATA
Found at i:24383544 original size:18 final size:17
Alignment explanation
Indices: 24383503--24383559 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 17
24383493 TTTGTTTCTT
24383503 TTATATTTTATTATATA
1 TTATATTTTATTATATA
24383520 CTT-TATTTTATTATTATA
1 -TTATATTTTATTA-TATA
*
24383538 TTATATTATATTAATATA
1 TTATATTTTATT-ATATA
24383556 TTAT
1 TTAT
24383560 TATATTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
17 12 0.34
18 22 0.63
19 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATATTTTATTATATA
Found at i:24383547 original size:5 final size:5
Alignment explanation
Indices: 24383503--24383566 Score: 53
Period size: 5 Copynumber: 12.6 Consensus size: 5
24383493 TTTGTTTCTT
* *
24383503 TTATA TTTTA TTATA -TACT- TTATT TTATTA TTATA TTATA TTATA TTA-A
1 TTATA TTATA TTATA TTA-TA TTATA TTA-TA TTATA TTATA TTATA TTATA
24383552 TATATTA TTATA TTA
1 T-TA-TA TTATA TTA
24383567 ATTTCTTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
4 5 0.10
5 36 0.73
6 6 0.12
7 2 0.04
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:24383567 original size:16 final size:17
Alignment explanation
Indices: 24383506--24383568 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 17
24383496 GTTTCTTTTA
*
24383506 TATTTTATT-ATATACTT
1 TATTATATTAATATA-TT
* *
24383523 TATTTTATTATTATATT
1 TATTATATTAATATATT
24383540 ATATTATATTAATATA-T
1 -TATTATATTAATATATT
24383557 TATTATATTAAT
1 TATTATATTAAT
24383569 TTCTTAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
16 12 0.29
17 12 0.29
18 17 0.41
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATATTAATATATT
Found at i:24390840 original size:47 final size:49
Alignment explanation
Indices: 24390767--24390993 Score: 172
Period size: 47 Copynumber: 4.8 Consensus size: 49
24390757 GGTAAGGTGC
* * *
24390767 TGATGCCATGTCCTAGACACGATCTTACACTGGCTCAT-ATCTC-AAGT
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGT
* * * *
24390814 TGATGCCATGTCCCAAACATGGTCTTACATTGACT-ATCATCTCGTA-T
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGT
* * * * * * *
24390861 CTGATG-CATGTCCCAGACAT-ATTTTGCACTCGCTTAT-GTCTCGAGGT
1 -TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGT
* * * * *
24390908 TGATG-CATGTCCCAAACAT-GTCTTACACTAGC-CCTCGTCTC-AATGC
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA-GT
*
24390954 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCAT
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT
24390994 AATGTGACTG
Statistics
Matches: 140, Mismatches: 30, Indels: 19
0.74 0.16 0.10
Matches are distributed among these distances:
45 2 0.01
46 52 0.37
47 64 0.46
48 21 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.31
Consensus pattern (49 bp):
TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGT
Found at i:24390948 original size:46 final size:46
Alignment explanation
Indices: 24390898--24391031 Score: 126
Period size: 47 Copynumber: 2.9 Consensus size: 46
24390888 ACTCGCTTAT
*
24390898 GTCTCGAGGTTGATGCATGTCCCAAACATGTCTTACACTAGCCCTC
1 GTCTCGAGGCTGATGCATGTCCCAAACATGTCTTACACTAGCCCTC
* * * * * *
24390944 GTCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
1 GTCTCGAGGCTGATG-CATGTCCCAAACAT-GTCTTACACTAGCCCTC
* * * * *
24390992 ATAAT-GTGACTGATGCATGTCCCATACATGTCTTACACTA
1 GT-CTCGAGGCTGATGCATGTCCCAAACATGTCTTACACTA
24391032 TCTCACACAC
Statistics
Matches: 69, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
46 21 0.30
47 26 0.38
48 21 0.30
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
GTCTCGAGGCTGATGCATGTCCCAAACATGTCTTACACTAGCCCTC
Found at i:24405414 original size:34 final size:33
Alignment explanation
Indices: 24405351--24405416 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
24405341 GTATTCATTT
* *
24405351 TTGATACTGTACTGAATTGGTCTATGGCCCATA
1 TTGATACTGTACTGAATTGGGCTAAGGCCCATA
24405384 TTGATACTGCTACTGTAA-TGGGCTAAGGCCCAT
1 TTGATACTG-TACTG-AATTGGGCTAAGGCCCAT
24405417 GCTAATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 9 0.31
34 18 0.62
35 2 0.07
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (33 bp):
TTGATACTGTACTGAATTGGGCTAAGGCCCATA
Found at i:24411991 original size:25 final size:25
Alignment explanation
Indices: 24411957--24412005 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
24411947 CATGGTACTT
24411957 AACTTACCATTCATTCTATTTTGAA
1 AACTTACCATTCATTCTATTTTGAA
24411982 AACTTACCATTCATTCTATTTTGA
1 AACTTACCATTCATTCTATTTTGA
24412006 GGTAACTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.45
Consensus pattern (25 bp):
AACTTACCATTCATTCTATTTTGAA
Found at i:24414045 original size:5 final size:5
Alignment explanation
Indices: 24414035--24414061 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
24414025 TGGACCATAT
24414035 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
24414062 ATTTTCAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:24418951 original size:26 final size:26
Alignment explanation
Indices: 24418922--24419070 Score: 107
Period size: 26 Copynumber: 6.0 Consensus size: 26
24418912 TATATAATAA
24418922 GAAGCTCACAAAGAGCCATTAATCAG
1 GAAGCTCACAAAGAGCCATTAATCAG
*
24418948 GAAGCTCACAAAAAGCC--T-ATCAG
1 GAAGCTCACAAAGAGCCATTAATCAG
* * **
24418971 GAAGCTTATC-CAG-GTTATATAA-CAG
1 GAAGCTCA-CAAAGAGCCAT-TAATCAG
*
24418996 GAAGCTCA-TAAGAGCCA-TAATCAG
1 GAAGCTCACAAAGAGCCATTAATCAG
* * **
24419020 GAAGTTCACAAAGAACTTTTAATCAG
1 GAAGCTCACAAAGAGCCATTAATCAG
* * *
24419046 GATGCTCACAAAGGGCCTTTAATCA
1 GAAGCTCACAAAGAGCCATTAATCA
24419071 AGAGCTCCGG
Statistics
Matches: 93, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
22 1 0.01
23 16 0.17
24 14 0.15
25 18 0.19
26 44 0.47
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCATTAATCAG
Found at i:24419204 original size:65 final size:65
Alignment explanation
Indices: 24419123--24419263 Score: 192
Period size: 65 Copynumber: 2.2 Consensus size: 65
24419113 TATCAAGACG
* * * * *
24419123 CTCACAAAGAGTTGCGTTTGTGTCTGCAACATATGCAGGATCACAACCAATCATAAAACAGGACA
1 CTCACAAAGAGCTGCGTTTATGTCCGCAACATATACAAGATCACAACCAATCATAAAACAGGACA
* * * * *
24419188 CTCACAAAGAGCTGCGTTTATGTCCGTAATATATATAAGATCACAACCGATCATATAACAGGACA
1 CTCACAAAGAGCTGCGTTTATGTCCGCAACATATACAAGATCACAACCAATCATAAAACAGGACA
24419253 CTCACAAAGAG
1 CTCACAAAGAG
24419264 ATGCAGTAGT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (65 bp):
CTCACAAAGAGCTGCGTTTATGTCCGCAACATATACAAGATCACAACCAATCATAAAACAGGACA
Found at i:24423594 original size:454 final size:453
Alignment explanation
Indices: 24422614--24423929 Score: 2174
Period size: 454 Copynumber: 2.9 Consensus size: 453
24422604 TATGTCATTA
*
24422614 TTATTGTTTTGATATGCAAAATGTTAAAGTATGATTTTAAGTGCAAGTAGTTAACCTCATATGAT
1 TTATTGTTTTGATATGTAAAATGTTAAAGTATGATTTTAAGTGCAAGTAGTTAACCTCATATGAT
* * **
24422679 ATGTGAACTGAGGAAGATGTTTTAGTGCAAATATATGATATGTGTTAATGGAATGTTGTGACTTT
66 ATGTGAACTAAGGAAGATGTTTTAGTGCAAATATATGGTATGTGTTAATGGAATGTTGTGACTAA
* * *
24422744 GATGCCTAAGTTTGGCATATTGATTGAATGTTACATGGTGTGATTTAACATACTTTGAATGATAG
131 GGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATAG
* *
24422809 TTCTTTTTGTTGCAAAATTGTATATACTTGTGGTATCAATGAGGATACATTGGTTAGGCACTTAG
196 TTCTTTTTGTTGTAAAATTGTATATACTTGTGGTATCAATGAGGATACATTGGTTAGGCACTTAA
* *
24422874 GATTGTTGATTTAGCATGTTTTTAGCTTTTTTTAATGTCACTTTAAATAGGTCTTTTGGCTGGTA
261 GATTCTTGATTTAGCATGTTTTTAGCTTTTTTTAATGTCACTTTGAATAGGTCTTTTGGCTGGTA
*
24422939 AATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTTTTGTTTAAGGTTCATTTTGGG
326 AATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTGTTGTTTAAGGTTCATTTTGGG
* * *
24423004 TTCACATAGCCTGAGACACTACCGTGTAAGACACACGGCCTGGCGACACGGCTGTATGTCACC
391 TTCACATAGCCTGAGACACAACCGTGTAAGACACACAGCCCGGCGACACGGCTGTATGTCACC
* *
24423067 TTATTTTTTTGATATGTAAAATATTAAAGTATGATTTTAAGTGCAAGTAGTTAACCT-AGTATGA
1 TTATTGTTTTGATATGTAAAATGTTAAAGTATGATTTTAAGTGCAAGTAGTTAACCTCA-TATGA
* *
24423131 TATGTGAACTAAGGAAGATATTTTAGTGCAAATATATGGTATGTGTTAATGGAATGTTCTGACTA
65 TATGTGAACTAAGGAAGATGTTTTAGTGCAAATATATGGTATGTGTTAATGGAATGTTGTGACTA
24423196 AGGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATA
130 AGGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATA
*
24423261 GTTCTTTTTGTTGTAAAATTGTATATACTTGTGGTATCAATGAGGATACACTGGTTAGGCACTTA
195 GTTCTTTTTGTTGTAAAATTGTATATACTTGTGGTATCAATGAGGATACATTGGTTAGGCACTTA
*
24423326 AGATTTTTGATTTAGCATGATTTTTAGCTTTTTTTAATGTCACTTTGAATAGGTCTTTTGGCTGG
260 AGATTCTTGATTTAGCATG-TTTTTAGCTTTTTTTAATGTCACTTTGAATAGGTCTTTTGGCTGG
* * *
24423391 TAAATGGATTACTTAGAGTCCAAGTAACCTTGAAATGGTAAACTAGTTGTTTAAGGTTCATTTTG
324 TAAATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTGTTGTTTAAGGTTCATTTTG
* * * * *
24423456 GGTTCACAGAGCCTAAGACACAACCGTGTGAGACATACAGCCCGGTGACACGG-TCGTATGTCAC
389 GGTTCACATAGCCTGAGACACAACCGTGTAAGACACACAGCCCGGCGACACGGCT-GTATGTCAC
24423520 C
453 C
*
24423521 TTATTGTTTTGATATGTAAAATGTTAATGTATGATTTTAAGTGCAAGTAGTTAACCTCATATGAT
1 TTATTGTTTTGATATGTAAAATGTTAAAGTATGATTTTAAGTGCAAGTAGTTAACCTCATATGAT
* * *
24423586 ACGTGAACTAAGGAAGATGTTTTAGTGCAAATATATGGTATGTATTAATGGAATGTTGTGACTGA
66 ATGTGAACTAAGGAAGATGTTTTAGTGCAAATATATGGTATGTGTTAATGGAATGTTGTGACTAA
24423651 GGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATAG
131 GGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATAG
* * * *
24423716 TTCTTTTGGTTGTAAAGTTGTATATACTTGTGGTATCAGTGAGGATACATTGGTTAGGCAC-CAA
196 TTCTTTTTGTTGTAAAATTGTATATACTTGTGGTATCAATGAGGATACATTGGTTAGGCACTTAA
* *
24423780 TGATTCTTGATTTAGCTTGTTTTTAGC-TTGTTTAATGTCACTTTGAATAGGTCTTTTGGCTGGT
261 -GATTCTTGATTTAGCATGTTTTTAGCTTTTTTTAATGTCACTTTGAATAGGTCTTTTGGCTGGT
* *
24423844 AAATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTGTTGGTTAAGGTTTATTTTGG
325 AAATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTGTTGTTTAAGGTTCATTTTGG
24423909 GTAT-ACATAGCCTGAGACACA
390 GT-TCACATAGCCTGAGACACA
24423930 GCTTGGCAAC
Statistics
Matches: 805, Mismatches: 52, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
452 114 0.14
453 272 0.34
454 418 0.52
455 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (453 bp):
TTATTGTTTTGATATGTAAAATGTTAAAGTATGATTTTAAGTGCAAGTAGTTAACCTCATATGAT
ATGTGAACTAAGGAAGATGTTTTAGTGCAAATATATGGTATGTGTTAATGGAATGTTGTGACTAA
GGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATAG
TTCTTTTTGTTGTAAAATTGTATATACTTGTGGTATCAATGAGGATACATTGGTTAGGCACTTAA
GATTCTTGATTTAGCATGTTTTTAGCTTTTTTTAATGTCACTTTGAATAGGTCTTTTGGCTGGTA
AATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTGTTGTTTAAGGTTCATTTTGGG
TTCACATAGCCTGAGACACAACCGTGTAAGACACACAGCCCGGCGACACGGCTGTATGTCACC
Found at i:24424869 original size:17 final size:18
Alignment explanation
Indices: 24424847--24424882 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
24424837 AAACATATAG
*
24424847 TTCTATCAATTAA-CAAT
1 TTCTATCAAATAACCAAT
24424864 TTCTATCAAATAACCAAT
1 TTCTATCAAATAACCAAT
24424882 T
1 T
24424883 CGAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (18 bp):
TTCTATCAAATAACCAAT
Found at i:24427494 original size:43 final size:43
Alignment explanation
Indices: 24427438--24427521 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
24427428 GATATATGTG
* *
24427438 GCATCCGAGCTCGTTGAGTGGTCCAAGTTTATTATGGATGCAA
1 GCATCCGAGCTCGTTGAGTGGTCCAAGTTCATAATGGATGCAA
*
24427481 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGC
1 GCATCCGAGCTCGTTGAGTGGTCCAAGTTCATAATGGATGC
24427522 GATACATGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGTGGTCCAAGTTCATAATGGATGCAA
Found at i:24429485 original size:19 final size:21
Alignment explanation
Indices: 24429453--24429494 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
24429443 ATAGATGTTC
*
24429453 AGTAGAGTTTGTAAGTAG-TT
1 AGTAGAGTTAGTAAGTAGATT
24429473 AGTA-AGTTAGTAAGTAGATT
1 AGTAGAGTTAGTAAGTAGATT
24429493 AG
1 AG
24429495 ATTTATGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (21 bp):
AGTAGAGTTAGTAAGTAGATT
Found at i:24429771 original size:4 final size:4
Alignment explanation
Indices: 24429755--24429795 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
24429745 CTTGTATGAC
* * *
24429755 TTAA TTGA TTAA TTAA TTGA TTAA TTAA TTGA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
24429796 CGATTATTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (4 bp):
TTAA
Found at i:24429772 original size:12 final size:12
Alignment explanation
Indices: 24429755--24429801 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
24429745 CTTGTATGAC
24429755 TTAATTGATTAA
1 TTAATTGATTAA
24429767 TTAATTGATTAA
1 TTAATTGATTAA
24429779 TTAATTGATTAA
1 TTAATTGATTAA
*
24429791 TTAATCGATTA
1 TTAATTGATTA
24429802 TTTGATTGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (12 bp):
TTAATTGATTAA
Found at i:24433695 original size:20 final size:19
Alignment explanation
Indices: 24433650--24433696 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
24433640 AATTTTTTGT
* *
24433650 ATTATAAATTATATAATAT
1 ATTATAAATAATATAATAC
*
24433669 ATGATAACATAATATAATAC
1 ATTATAA-ATAATATAATAC
24433689 ATTATAAA
1 ATTATAAA
24433697 CATTAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (19 bp):
ATTATAAATAATATAATAC
Found at i:24438269 original size:42 final size:42
Alignment explanation
Indices: 24438222--24438313 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
24438212 TGGCCCATAG
* ** *
24438222 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
24438264 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
24438306 GCCCATTT
1 GCCCATTT
24438314 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:24438530 original size:26 final size:26
Alignment explanation
Indices: 24438446--24438581 Score: 199
Period size: 26 Copynumber: 5.3 Consensus size: 26
24438436 CTGGAGGCCT
24438446 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
24438470 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
24438495 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
24438521 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
24438547 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
24438573 AGCCCTTTT
1 AGCCCTTTT
24438582 GCACTTCCTC
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 33 0.33
26 58 0.57
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:24438570 original size:52 final size:51
Alignment explanation
Indices: 24438446--24438581 Score: 233
Period size: 52 Copynumber: 2.7 Consensus size: 51
24438436 CTGGAGGCCT
24438446 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
24438495 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
24438547 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
24438582 GCACTTCCTC
Statistics
Matches: 83, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.08
50 10 0.12
51 25 0.30
52 36 0.43
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:24438656 original size:20 final size:19
Alignment explanation
Indices: 24438631--24438693 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
24438621 TTATGAATAC
24438631 ATCATGTGCATTTCATACAT
1 ATCATGTGCA-TTCATACAT
24438651 ATCATGTGCA-T--TACAT
1 ATCATGTGCATTCATACAT
24438667 ATCATGTGCATATCATATCA-
1 ATCATGTGCAT-TCATA-CAT
24438687 ATCATGT
1 ATCATGT
24438694 ATATCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
16 15 0.39
18 2 0.05
20 19 0.50
21 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATGTGCATTCATACAT
Found at i:24438667 original size:16 final size:15
Alignment explanation
Indices: 24438644--24438686 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
24438634 ATGTGCATTT
24438644 CATACATATCATGTG
1 CATACATATCATGTG
24438659 CATTACATATCATGTG
1 CA-TACATATCATGTG
24438675 CATATCATATCA
1 CATA-CATATCA
24438687 ATCATGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (15 bp):
CATACATATCATGTG
Found at i:24439547 original size:27 final size:26
Alignment explanation
Indices: 24439517--24439572 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
24439507 GTAAATCTAC
*
24439517 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTCCAATAATTTT-T
* *
24439544 AAACCAATGGTATTCCTATAATTTTT
1 AAACCAAGGGTATTCCAATAATTTTT
24439570 AAA
1 AAA
24439573 GAAGTAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (26 bp):
AAACCAAGGGTATTCCAATAATTTTT
Found at i:24439640 original size:27 final size:26
Alignment explanation
Indices: 24439582--24439677 Score: 79
Period size: 27 Copynumber: 3.6 Consensus size: 26
24439572 AGAAGTAAAA
* *
24439582 GGTATTTCT-GTAATTTTATAAATCAAG
1 GGTATTT-TGGTAATTTTACAAAT-TAG
24439609 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTGGTAATTTTACAAATT-AG
*** *
24439636 GGTATTTCATTAATTTCT-CAAACTAG
1 GGTATTTTGGTAATTT-TACAAATTAG
24439662 TGGTATTTTGGTAATT
1 -GGTATTTTGGTAATT
24439678 CTATCCTACA
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
26 3 0.05
27 52 0.93
28 1 0.02
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAATTAG
Found at i:24439746 original size:27 final size:27
Alignment explanation
Indices: 24439709--24440008 Score: 377
Period size: 27 Copynumber: 11.1 Consensus size: 27
24439699 GTAATTTCAC
*
24439709 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
24439736 AA-CTGAGGGTAAAATGGTAATTTTATA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
* * * *
24439763 AATCAAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
24439790 AATCAAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
24439817 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
24439844 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * *
24439871 AATCGAGGGTAAGAGGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
24439898 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * *
24439925 AATCGAGGGTAAGAGGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* ** *
24439952 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* **
24439979 AATCGAGGCTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
24440006 AAT
1 AAT
24440009 TGTGGGTATT
Statistics
Matches: 238, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 236 0.99
28 1 0.00
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:24440035 original size:27 final size:27
Alignment explanation
Indices: 24439994--24440108 Score: 92
Period size: 27 Copynumber: 4.3 Consensus size: 27
24439984 AGGCTAAAAC
** * *
24439994 AGTAATTTTGTAAATTGTGGGTATTTT
1 AGTAATTTTACAAACTGGGGGTATTTT
* *
24440021 AGTAATTTTACAAA-T-CGAGTATATTT
1 AGTAATTTTACAAACTGGGGGTAT-TTT
* * *
24440047 GGGTAATTTTATAAACTGGGGGTACTTT
1 -AGTAATTTTACAAACTGGGGGTATTTT
* *
24440075 GGTAATTTTAC-AACTGGGGGTATTTC
1 AGTAATTTTACAAACTGGGGGTATTTT
24440101 AGTAATTT
1 AGTAATTT
24440109 GGTAAACTAA
Statistics
Matches: 71, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
25 5 0.07
26 24 0.34
27 34 0.48
28 4 0.06
29 4 0.06
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (27 bp):
AGTAATTTTACAAACTGGGGGTATTTT
Found at i:24440039 original size:54 final size:54
Alignment explanation
Indices: 24439709--24440008 Score: 422
Period size: 54 Copynumber: 5.6 Consensus size: 54
24439699 GTAATTTCAC
* * *
24439709 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAATAGTAATTTTGTA
* * *
24439763 AATCAAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* *
24439817 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* *
24439871 AATCGAGGGTAAGAGGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * * * *
24439925 AATCGAGGGTAAGAGGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * *
24439979 AATCGAGGCTAAAACAGTAATTTTGTAAAT
1 AATCGAGGGTAAAACGGTAATTCTGTAAAT
24440009 TGTGGGTATT
Statistics
Matches: 223, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
54 222 1.00
55 1 0.00
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
Done.