Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01006843.1 Corchorus capsularis cultivar CVL-1 contig06864, whole genome shotgun sequence
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: 78636
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:11836 original size:24 final size:25
Alignment explanation
Indices: 11776--11834 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
11766 TTCAAACCAT
*
11776 AAACTTCATTTCTAACAACTTCTTC
1 AAACTTCATTTCTAACAACATCTTC
11801 AAACTTCATTTCTAACAA-ATCTTC
1 AAACTTCATTTCTAACAACATCTTC
11825 AAA-TTCATTT
1 AAACTTCATTT
11835 TCCTTCATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 7 0.21
24 8 0.24
25 18 0.55
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.41
Consensus pattern (25 bp):
AAACTTCATTTCTAACAACATCTTC
Found at i:11873 original size:26 final size:26
Alignment explanation
Indices: 11844--11911 Score: 127
Period size: 26 Copynumber: 2.6 Consensus size: 26
11834 TTCCTTCATT
11844 TTAATCATAAACTAATTAAATACTAA
1 TTAATCATAAACTAATTAAATACTAA
11870 TTAATCATAAACTAATTAAATACTAA
1 TTAATCATAAACTAATTAAATACTAA
*
11896 TTAAACATAAACTAAT
1 TTAATCATAAACTAAT
11912 AAACTAAGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (26 bp):
TTAATCATAAACTAATTAAATACTAA
Found at i:11911 original size:15 final size:15
Alignment explanation
Indices: 11844--11915 Score: 63
Period size: 11 Copynumber: 5.4 Consensus size: 15
11834 TTCCTTCATT
*
11844 TTAATCATAAACTAA
1 TTAAACATAAACTAA
11859 TT-AA-AT--ACTAA
1 TTAAACATAAACTAA
*
11870 TTAATCATAAACTAA
1 TTAAACATAAACTAA
11885 TT-AA-AT--ACTAA
1 TTAAACATAAACTAA
11896 TTAAACATAAACTAA
1 TTAAACATAAACTAA
11911 -TAAAC
1 TTAAAC
11916 TAAGTAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 17
0.70 0.05 0.26
Matches are distributed among these distances:
11 14 0.30
12 3 0.07
13 8 0.17
14 7 0.15
15 14 0.30
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (15 bp):
TTAAACATAAACTAA
Found at i:12140 original size:22 final size:21
Alignment explanation
Indices: 12111--12155 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
12101 AAAAATTATA
12111 AAAAGGGGGGCGGTATTTAGC
1 AAAAGGGGGGCGGTATTTAGC
*
12132 AAAAGGGGGGCGGTGTTTAGC
1 AAAAGGGGGGCGGTATTTAGC
12153 AAA
1 AAA
12156 CCCCTTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.42, T:0.18
Consensus pattern (21 bp):
AAAAGGGGGGCGGTATTTAGC
Found at i:20424 original size:6 final size:6
Alignment explanation
Indices: 20413--20443 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
20403 TAAAAAAATT
20413 ATGATA ATGATA ATGATA ATGATA ATGATA A
1 ATGATA ATGATA ATGATA ATGATA ATGATA A
20444 AAGTATTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (6 bp):
ATGATA
Found at i:22393 original size:29 final size:29
Alignment explanation
Indices: 22334--22412 Score: 122
Period size: 29 Copynumber: 2.7 Consensus size: 29
22324 ATTTGCTGCA
* *
22334 TGATTGTGATTCTGGAAAAATGGTAATATGG
1 TGATTGTGATTCTGG--AAATGGAAAAATGG
22365 TGATTGTGATTCTGGAAATGGAAAAATGG
1 TGATTGTGATTCTGGAAATGGAAAAATGG
22394 TGATTGTGATTCTGGAAAT
1 TGATTGTGATTCTGGAAAT
22413 ATGGAAGACA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 31 0.67
31 15 0.33
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.35
Consensus pattern (29 bp):
TGATTGTGATTCTGGAAATGGAAAAATGG
Found at i:23666 original size:81 final size:81
Alignment explanation
Indices: 23520--23982 Score: 412
Period size: 81 Copynumber: 5.8 Consensus size: 81
23510 AAAGTGTGCA
* * * * * * * *
23520 AGTAAGCCCCTTCGTTAAACCCAATTTCACATTTACAT-CATATTAAC-TAATTTAACATGAGAA
1 AGTAAGTCTCTTCGTTAAACCCAATGTAACATTTAC-TGCACATT-ACTTAATTTAACCTTACAA
*
23583 GTGAGAGGAGAGAGGGTG
64 GTGAGAGGAGAGAAGGTG
* * *
23601 AGTAAGTCTCTTCGTTAAACCCAATATAACATTTATTGCACATTACTTAATTTACCCTTACAAGT
1 AGTAAGTCTCTTCGTTAAACCCAATGTAACATTTACTGCACATTACTTAATTTAACCTTACAAGT
*
23666 GCGAGGAGAG-A---G
66 GAGAGGAGAGAAGGTG
** * * *
23678 AGTAAGTACT-TTCGTTAAACCCAATGTAGTATTTACTACACATGA-TCTAATTTAACCTTGCAA
1 AGTAAGT-CTCTTCGTTAAACCCAATGTAACATTTACTGCACATTACT-TAATTTAACCTTACAA
** *
23741 GT-AGTACAAGAGAAGATG
64 GTGAG-AGGAGAGAAGGTG
* * *
23759 AGTAAGT-TCCTTCGTTAAACCCAATGTATCATTTACTGCACATTACATAATTTACCCTTACAAG
1 AGTAAGTCT-CTTCGTTAAACCCAATGTAACATTTACTGCACATTACTTAATTTAACCTTACAAG
* * * *
23823 TGGGAGAAGAGAAAGAG
65 TGAGAGGAGAGAAGGTG
* *
23840 AGTAAGTC-CGTTCGTTAAACCCAATGTAGCATTTACTGCACATTA-TCCAATTTAACCTTACAA
1 AGTAAGTCTC-TTCGTTAAACCCAATGTAACATTTACTGCACATTACT-TAATTTAACCTTACAA
* *
23903 GT-AGGAGGAGAGAGGGTC
64 GTGA-GAGGAGAGAAGGTG
* * * * * *
23921 AATAAGTCCCTTCGTTAAACACAATGTAACATTTAATGCACATTACCTAATTTACCCTTACA
1 AGTAAGTCTCTTCGTTAAACCCAATGTAACATTTACTGCACATTACTTAATTTAACCTTACA
23983 CCTTCGTTAA
Statistics
Matches: 311, Mismatches: 52, Indels: 38
0.78 0.13 0.09
Matches are distributed among these distances:
76 2 0.01
77 58 0.19
78 3 0.01
79 1 0.00
80 4 0.01
81 241 0.77
82 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (81 bp):
AGTAAGTCTCTTCGTTAAACCCAATGTAACATTTACTGCACATTACTTAATTTAACCTTACAAGT
GAGAGGAGAGAAGGTG
Found at i:23935 original size:162 final size:157
Alignment explanation
Indices: 23520--23982 Score: 552
Period size: 162 Copynumber: 2.9 Consensus size: 157
23510 AAAGTGTGCA
* * * * * * *
23520 AGTAAGCCCCTTCGTTAAACCCAATTTCA-CATTTACATCATATTAACTAATTTAACATGAGAAG
1 AGTAAGTCCCTTCGTTAAACCCAATGT-AGCATTTAC-TCACATTATCTAATTTAACCTTACAAG
* * * *
23584 T-GAGAGGAGAGAGGGTGAGTAAGTCTCTTCGTTAAACCCAATATAACATTTATTGCACATTACT
64 TAG-GAGGAGAGAGGGTGAGTAAGTCCCTTCGTTAAACCCAATGTAACATTTAATGCACATTACA
23648 TAATTTACCCTTACAAGTGCGAGGAGAGAG
128 TAATTTACCCTTACAAGTGCGAGGAGAGAG
* * * * *
23678 AGTAAGTACTTTCGTTAAACCCAATGTAGTATTTACTACACATGATCTAATTTAACCTTGCAAGT
1 AGTAAGTCCCTTCGTTAAACCCAATGTAGCATTTACT-CACATTATCTAATTTAACCTTACAAGT
* ** * * * * *
23743 AGTACAAGAGAAGATGAGTAAGTTCCTTCGTTAAACCCAATGTATCATTTACTGCACATTACATA
65 AGGAGGAGAGAGGGTGAGTAAGTCCCTTCGTTAAACCCAATGTAACATTTAATGCACATTACATA
*
23808 ATTTACCCTTACAAGTGGGAGAAGAGAAAGAG
130 ATTTACCCTTACAAGTGCGAG--GAG--AGAG
* *
23840 AGTAAGTCCGTTCGTTAAACCCAATGTAGCATTTACTGCACATTATCCAATTTAACCTTACAAGT
1 AGTAAGTCCCTTCGTTAAACCCAATGTAGCATTTACT-CACATTATCTAATTTAACCTTACAAGT
* * * *
23905 AGGAGGAGAGAGGGTCAATAAGTCCCTTCGTTAAACACAATGTAACATTTAATGCACATTACCTA
65 AGGAGGAGAGAGGGTGAGTAAGTCCCTTCGTTAAACCCAATGTAACATTTAATGCACATTACATA
23970 ATTTACCCTTACA
130 ATTTACCCTTACA
23983 CCTTCGTTAA
Statistics
Matches: 255, Mismatches: 43, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
157 2 0.01
158 121 0.47
159 1 0.00
160 3 0.01
162 128 0.50
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (157 bp):
AGTAAGTCCCTTCGTTAAACCCAATGTAGCATTTACTCACATTATCTAATTTAACCTTACAAGTA
GGAGGAGAGAGGGTGAGTAAGTCCCTTCGTTAAACCCAATGTAACATTTAATGCACATTACATAA
TTTACCCTTACAAGTGCGAGGAGAGAG
Found at i:24019 original size:54 final size:54
Alignment explanation
Indices: 23929--24033 Score: 174
Period size: 54 Copynumber: 1.9 Consensus size: 54
23919 TCAATAAGTC
*
23929 CCTTCGTTAAACACAATGTAACATTTAATGCACATTACCTAATTTACCCTTACA
1 CCTTCGTTAAACACAATGTAACATTTAATGCACATTACCAAATTTACCCTTACA
* * *
23983 CCTTCGTTAAACCCAATGTAACATTTACTGCCCATTACCAAATTTACCCTT
1 CCTTCGTTAAACACAATGTAACATTTAATGCACATTACCAAATTTACCCTT
24034 GCAAGTGGGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (54 bp):
CCTTCGTTAAACACAATGTAACATTTAATGCACATTACCAAATTTACCCTTACA
Found at i:24201 original size:81 final size:81
Alignment explanation
Indices: 23983--24605 Score: 545
Period size: 81 Copynumber: 7.7 Consensus size: 81
23973 TACCCTTACA
* ** ** * * *
23983 CCTTCGTTAAACCCAATGTAACATTTACTGCCCATTACCAAATTTACCCTTGCAAGTGGGAGGGG
1 CCTTCGTTAAACCCAATTTTTCATTTACTGTACATTACCTAATTTACCCTTACAAGTGGGAGGAG
** * *
24048 AGTCGGTGAGTAACTC
66 AGAGGGTAAGTAAGTC
* * * * *
24064 CCTTCGTTAAACTCAA-TTTTCATTAACTCTACATTACCTAATTTACCCTTGCAAGTGGTAGGAG
1 CCTTCGTTAAACCCAATTTTTCATTTACTGTACATTACCTAATTTACCCTTACAAGTGGGAGGAG
24128 AGAGGGTAAGTAAGTC
66 AGAGGGTAAGTAAGTC
* * ** *
24144 CCTTCATTAAACTCAATTTTTCATTGGCTGTACATTACCTAATTTACCCTTACAAGTGGTAGGAG
1 CCTTCGTTAAACCCAATTTTTCATTTACTGTACATTACCTAATTTACCCTTACAAGTGGGAGGAG
*
24209 AGAGGGTAAGTAAGCC
66 AGAGGGTAAGTAAGTC
* * * * * *
24225 CCTTCATTAAACTCAAATTTTCATTTACTGCATATTACCTAATTTACCCATACAAGTGGCCGGAG
1 CCTTCGTTAAACCCAATTTTTCATTTACTGTACATTACCTAATTTACCCTTACAAGT-G--GGAG
* * *
24290 GAAAGTGGGTGAGTTAA-TC
63 GAGAGAGGGTAAG-TAAGTC
* * *
24309 CCTTCGTTAAACCCAA-TTTTCAATTTATTGTACATTATCTAATTTACCCTTATAAGTGGGAGGA
1 CCTTCGTTAAACCCAATTTTTC-ATTTACTGTACATTACCTAATTTACCCTTACAAGTGGGAGGA
* * *
24373 GAGAGGGTGAGTAACTA
65 GAGAGGGTAAGTAAGTC
* ** * * *
24390 CCTTCGTTAAACCCAATGTAGCATTTATTGTATATTACCTAATTTACCTTTAC-AGATGGGAGGA
1 CCTTCGTTAAACCCAATTTTTCATTTACTGTACATTACCTAATTTACCCTTACAAG-TGGGAGGA
** *
24454 GAGAGACTAAATAAGTC
65 GAGAGGGTAAGTAAGTC
* * * ** * * * *
24471 CTTTCGTCAAACCCAATGTAGCATTTACTGCACATTACCTAATTTAACCTTTCAAGTGGGAGGAC
1 CCTTCGTTAAACCCAATTTTTCATTTACTGTACATTACCTAATTTACCCTTACAAGTGGGAGGAG
*
24536 AGAGGGT-GGATAAGTC
66 AGAGGGTAAG-TAAGTC
* * ** * * * * * *
24552 ACTTTGTTAAACATAATGTATCATTTACTGCACTTTACCAAATTTTCCCTTACA
1 CCTTCGTTAAACCCAATTTTTCATTTACTGTACATTACCTAATTTACCCTTACA
24606 TCTTCGTTAA
Statistics
Matches: 450, Mismatches: 81, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
80 70 0.16
81 309 0.69
82 5 0.01
83 6 0.01
84 57 0.13
85 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (81 bp):
CCTTCGTTAAACCCAATTTTTCATTTACTGTACATTACCTAATTTACCCTTACAAGTGGGAGGAG
AGAGGGTAAGTAAGTC
Found at i:24434 original size:246 final size:242
Alignment explanation
Indices: 23991--24534 Score: 599
Period size: 246 Copynumber: 2.2 Consensus size: 242
23981 CACCTTCGTT
* * * * * * **
23991 AAACCCAATGTAACATTTACTGCCCATTACCAAATTTACCCTTGCAAGTGGGAGGGGAGTCGGTG
1 AAACCAAATGTAGCATTTACTGCACATTACCTAATTTACCCATACAAGTGGGAGGAAAGTCGGTG
* *
24056 AGTAACTCCCTTCGTTAAACTCAATTTTCATTAACTCTACATTACCTAATTTACCCTTGCAAGTG
66 AGTAACTCCCTTCGTTAAACCCAATTTTCATTAACTCTACATTACCTAATTTACCCTTACAAGTG
* * * * * ** *
24121 GTAGGAGAGAGGGTAAGTAAGTCCCTTCATTAAACTCAATTTTTCATTGGCTGTACATTACCTAA
131 GGAGGAGAGAGGGTAAGTAACTACCTTCATTAAACCCAATGTAGCATTGACTGTACATTACCTAA
* ** * *
24186 TTTACCCTTACA-AGTGGTAGGAGAGAGGGTAAGTAAGCCCCTTCATT
196 TTTACCCTTACAGA-TGGGAGGAGAGAGACTAAATAAGCCCCTTCATC
** * *
24233 AAACTCAAAT-TTTCATTTACTGCATATTACCTAATTTACCCATACAAGTGGCCGGAGGAAAGTG
1 AAAC-CAAATGTAGCATTTACTGCACATTACCTAATTTACCCATACAAGT-G--GGAGGAAAGTC
* * * *
24297 GGTGAGTTAA-TCCCTTCGTTAAACCCAATTTTCAATTTATTGTACATTATCTAATTTACCCTTA
62 GGTGAG-TAACTCCCTTCGTTAAACCCAATTTTC-ATTAACTCTACATTACCTAATTTACCCTTA
* * * * * *
24361 TAAGTGGGAGGAGAGAGGGTGAGTAACTACCTTCGTTAAACCCAATGTAGCATTTATTGTATATT
125 CAAGTGGGAGGAGAGAGGGTAAGTAACTACCTTCATTAAACCCAATGTAGCATTGACTGTACATT
* * * *
24426 ACCTAATTTACCTTTACAGATGGGAGGAGAGAGACTAAATAAGTCCTTTCGTC
190 ACCTAATTTACCCTTACAGATGGGAGGAGAGAGACTAAATAAGCCCCTTCATC
* * * *
24479 AAACCCAATGTAGCATTTACTGCACATTACCTAATTTAACCTTTCAAGTGGGAGGA
1 AAACCAAATGTAGCATTTACTGCACATTACCTAATTTACCCATACAAGTGGGAGGA
24535 CAGAGGGTGG
Statistics
Matches: 247, Mismatches: 47, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
242 36 0.15
243 11 0.04
245 41 0.17
246 158 0.64
247 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (242 bp):
AAACCAAATGTAGCATTTACTGCACATTACCTAATTTACCCATACAAGTGGGAGGAAAGTCGGTG
AGTAACTCCCTTCGTTAAACCCAATTTTCATTAACTCTACATTACCTAATTTACCCTTACAAGTG
GGAGGAGAGAGGGTAAGTAACTACCTTCATTAAACCCAATGTAGCATTGACTGTACATTACCTAA
TTTACCCTTACAGATGGGAGGAGAGAGACTAAATAAGCCCCTTCATC
Found at i:24578 original size:327 final size:325
Alignment explanation
Indices: 23983--24605 Score: 698
Period size: 327 Copynumber: 1.9 Consensus size: 325
23973 TACCCTTACA
* * *
23983 CCTTCGTTAAACCCAATGTAACATTTACTGCCCATTACCAAATTTACCCTTGCAAGTGGGAGGGG
1 CCTTCGTTAAACCCAATGTAACATTTACTGCACATTACCAAATTTACCCTTACAAGTGGGAGGAG
* * * **
24048 AGTCGGTGAGTAACTCCCTTCGTTAAACTCAATTTTCATTAACTCTACATTACCTAATTTACCCT
66 AGACGGTGAGTAACTACCTTCGTTAAACCCAATTAGCATTAACTCTACATTACCTAATTTACCCT
* * ** * * * * ** * *
24113 TGCAAGTGGTAGGAGAGAGGGTAAGTAAGTCCCTTCATTAAACTCAATTTTTCATTGGCTGTACA
131 TACAAGTGGGAGGAGAGAGACTAAATAAGTCCCTTCATCAAACCCAATGTAGCATTGACTGCACA
* * * *
24178 TTACCTAATTTACCCTTACAAGTGGTAGGAGAGAGGGTAAGTAAGCCCCTTCATTAAACTCAAAT
196 TTACCTAATTTAACCTTACAAGTGGGAGGACAGAGGGTAAGTAAGCCACTTCATTAAACT-AAAT
* *
24243 TTTCATTTACTGCA-TATTACCTAATTTACCCATACAAGTGGCCGGAGGAAAGTGGGTGAGTTAA
260 TATCATTTACTGCACT-TTACCAAATTTACCCATACAAGTGGCCGGAGGAAAGTGGGTGAGTTAA
24307 TC
324 TC
** * * * * *
24309 CCTTCGTTAAACCCAAT-TTTCAATTTATTGTACATTATCTAATTTACCCTTATAAGTGGGAGGA
1 CCTTCGTTAAACCCAATGTAAC-ATTTACTGCACATTACCAAATTTACCCTTACAAGTGGGAGGA
* * * * *
24373 GAGAGGGTGAGTAACTACCTTCGTTAAACCCAATGTAGCATTTATTGTATATTACCTAATTTACC
65 GAGACGGTGAGTAACTACCTTCGTTAAACCCAAT-TAGCATTAACTCTACATTACCTAATTTACC
* * * *
24438 TTTAC-AGATGGGAGGAGAGAGACTAAATAAGTCCTTTCGTCAAACCCAATGTAGCATTTACTGC
129 CTTACAAG-TGGGAGGAGAGAGACTAAATAAGTCCCTTCATCAAACCCAATGTAGCATTGACTGC
* * * **
24502 ACATTACCTAATTTAACCTTTCAAGTGGGAGGACAGAGGGT-GGATAAGTCACTTTGTTAAAC-A
193 ACATTACCTAATTTAACCTTACAAGTGGGAGGACAGAGGGTAAG-TAAGCCACTTCATTAAACTA
* *
24565 TAATGTATCATTTACTGCACTTTACCAAATTTTCCCTTACA
257 -AAT-TATCATTTACTGCACTTTACCAAATTTACCCATACA
24606 TCTTCGTTAA
Statistics
Matches: 241, Mismatches: 49, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
325 3 0.01
326 87 0.36
327 150 0.62
328 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (325 bp):
CCTTCGTTAAACCCAATGTAACATTTACTGCACATTACCAAATTTACCCTTACAAGTGGGAGGAG
AGACGGTGAGTAACTACCTTCGTTAAACCCAATTAGCATTAACTCTACATTACCTAATTTACCCT
TACAAGTGGGAGGAGAGAGACTAAATAAGTCCCTTCATCAAACCCAATGTAGCATTGACTGCACA
TTACCTAATTTAACCTTACAAGTGGGAGGACAGAGGGTAAGTAAGCCACTTCATTAAACTAAATT
ATCATTTACTGCACTTTACCAAATTTACCCATACAAGTGGCCGGAGGAAAGTGGGTGAGTTAATC
Found at i:24715 original size:135 final size:135
Alignment explanation
Indices: 24473--24716 Score: 303
Period size: 135 Copynumber: 1.8 Consensus size: 135
24463 AATAAGTCCT
*
24473 TTCGTCAAACCCAATGTAGCATTTACTGCACATTACCTAATTTAACCTTTCAAGTGGGAGGACAG
1 TTCGTCAAACCCAATGTAGCATTTACTGCACATTACCTAATTTAACCTTGCAAGTGGGAGGACAG
* * * *
24538 AGGGTGGATAAGTCACTTTGTTAAACATAATGTATCATTTACTGCACTTTACCAAATTTTCCCTT
66 ACGGTGGATAAATCACTTCGTTAAACACAATGTATCATTTACTGCACTTTACCAAATTTTCCCTT
24603 ACATC
131 ACATC
* * * ** * **
24608 TTCGTTAAATCCAATGTTGCATTTGTTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGGGAG
1 TTCGTCAAACCCAATGTAGCATTTACTGCACATTACCTAATTTAACCTTGCAAGTGGGAGGACAG
* * * *
24673 TCGGT-GAGTAAATCCCTTCGTTAAACCCAAT-TTTACATTTACTG
66 ACGGTGGA-TAAATCACTTCGTTAAACACAATGTAT-CATTTACTG
24717 TCCATTACCT
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
134 4 0.04
135 86 0.96
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (135 bp):
TTCGTCAAACCCAATGTAGCATTTACTGCACATTACCTAATTTAACCTTGCAAGTGGGAGGACAG
ACGGTGGATAAATCACTTCGTTAAACACAATGTATCATTTACTGCACTTTACCAAATTTTCCCTT
ACATC
Found at i:24779 original size:216 final size:216
Alignment explanation
Indices: 24391--24805 Score: 529
Period size: 216 Copynumber: 1.9 Consensus size: 216
24381 GAGTAACTAC
* * *
24391 CTTCGTTAAACCCAATGTAGCATTTATTGTATATTACCTAATTTACCTTTACAGATGGGAGGAGA
1 CTTCGTTAAACCCAATGTAGCATTTATTGCACATTACCTAATTTACCCTTACAGATGGGAGGAGA
* * *
24456 GAGACTAAATAAGTCCTTTCGTCAAACCCAATGTAGCATTTACTGCACATTACCTAATTTAACCT
66 GAGACTAAATAAATCCCTTCGTCAAACCCAATGTAGCATTTACTGCACATTACCTAATTTAAACT
* * * *
24521 TTCAAGTGGGAGGACAGAGGGTGGATAAGTCACTTTGTTAAACATAATGTATCATTTACTGCACT
131 TGCAAGTGGAAGGACAGAGGGTGGATAAGTCACTTTGTTAAACATAATGTAGCATTTACTGCACA
24586 TTACCAAATTTTCCCTTACAT
196 TTACCAAATTTTCCCTTACAT
* * * *
24607 CTTCGTTAAATCCAATGTTGCATTTGTTGCACATTACCTAATTTACCCTTGCA-AGTGGGAGG-G
1 CTTCGTTAAACCCAATGTAGCATTTATTGCACATTACCTAATTTACCCTTACAGA-TGGGAGGAG
* * * * *
24670 -GAGTCGGTGAGTAAATCCCTTCGTTAAACCCAATTTTA-CATTTACTGTC-CATTACCTAATTT
65 AGAGAC--TAAATAAATCCCTTCGTCAAACCCAA-TGTAGCATTTACTG-CACATTACCTAATTT
* *
24732 AAACTTGCAAGTGGAAGGAGAGAGGGTGGGA-AAGTC-CTTTCGTTAAACCTAATGTAGCATTTA
126 AAACTTGCAAGTGGAAGGACAGAGGGT-GGATAAGTCACTTT-GTTAAACATAATGTAGCATTTA
24795 CTGCACATTAC
189 CTGCACATTAC
24806 TTAATTTACC
Statistics
Matches: 171, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
214 4 0.02
215 6 0.04
216 154 0.90
217 7 0.04
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (216 bp):
CTTCGTTAAACCCAATGTAGCATTTATTGCACATTACCTAATTTACCCTTACAGATGGGAGGAGA
GAGACTAAATAAATCCCTTCGTCAAACCCAATGTAGCATTTACTGCACATTACCTAATTTAAACT
TGCAAGTGGAAGGACAGAGGGTGGATAAGTCACTTTGTTAAACATAATGTAGCATTTACTGCACA
TTACCAAATTTTCCCTTACAT
Found at i:25038 original size:243 final size:243
Alignment explanation
Indices: 24607--25142 Score: 645
Period size: 243 Copynumber: 2.2 Consensus size: 243
24597 TCCCTTACAT
* ** * *
24607 CTTCGTTAAATCCAATGTTG-CATTTGTTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGGG
1 CTTCGTTAAACCCAATG-TGACATTTAATACACATTACCTAATTTACCCTTGCAAGCGGGAGGGG
* * *
24671 AGTCGGTGAGTAAATCCCTTCGTTAAACCCAATTTTACATTTACTGTCCATTACCTAATTTAAAC
65 AGTAGGTGAGTAAATCCCTTCGTTAAACCCAATTATACATTTACTGTCCATTAACTAATTTAAAC
* ** * * * *
24736 TTGCAAGTGGAAGGAGAGAGGGTGGGAAAGTCCTTTCGTTAAACCTAATGTAGCATTTACTGCAC
130 TTGCAAGTGGAAGAAGAGAAAGTGAGAAAGTCCATTCGTTAAACCCAATGTAACATTTACTGCAC
* * * * *
24801 ATTA-CTTAATTTACCCTTGCAAGTGGGAGGAGGGTAGG-T-GAGTATGTCC
195 ATTATC-TAATTTAACCTTACAAGTAGGAGGAGAG-AGGTTCGA-TAAGTCC
* * * * *
24850 CTTCGTTAAACCTAATTTAGA-ATTTACTACATATTACCTAATTTACCCTTGCTAGCGGGAGGGG
1 CTTCGTTAAACCCAATGT-GACATTTAATACACATTACCTAATTTACCCTTGCAAGCGGGAGGGG
* * * *
24914 AGTAGGTGAGTAAGTCCCTTCGTTAAACCTAA-TATATCATTTATTG-CACATTAACTAATTTAC
65 AGTAGGTGAGTAAATCCCTTCGTTAAACCCAATTATA-CATTTACTGTC-CATTAACTAATTTAA
* * * * *
24977 CCTTGCATGTGGGAGAAGGGAAAGTGAGTAAGTCCATTCGTTAAACCCAATGTAACATTTACTGC
128 ACTTGCAAGTGGAAGAAGAGAAAGTGAGAAAGTCCATTCGTTAAACCCAATGTAACATTTACTGC
25042 ACATTATCTAATTTAACCTTACAAGTAGGAGGAGAGAGGTTCGATAAGTCC
193 ACATTATCTAATTTAACCTTACAAGTAGGAGGAGAGAGGTTCGATAAGTCC
*
25093 CTTCGTTAAACCCAATGTGACATTTAATGCACATTACCTAATTTACCCTT
1 CTTCGTTAAACCCAATGTGACATTTAATACACATTACCTAATTTACCCTT
25143 ACACCTTCGT
Statistics
Matches: 247, Mismatches: 38, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
242 10 0.04
243 234 0.95
244 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (243 bp):
CTTCGTTAAACCCAATGTGACATTTAATACACATTACCTAATTTACCCTTGCAAGCGGGAGGGGA
GTAGGTGAGTAAATCCCTTCGTTAAACCCAATTATACATTTACTGTCCATTAACTAATTTAAACT
TGCAAGTGGAAGAAGAGAAAGTGAGAAAGTCCATTCGTTAAACCCAATGTAACATTTACTGCACA
TTATCTAATTTAACCTTACAAGTAGGAGGAGAGAGGTTCGATAAGTCC
Found at i:25144 original size:540 final size:535
Alignment explanation
Indices: 24094--25676 Score: 1727
Period size: 540 Copynumber: 2.9 Consensus size: 535
24084 CATTAACTCT
* * ** * * *
24094 ACATTACCTAATTTACCCTTGCAAGTGGTAGGAGAGAGGGTAAGTAAGTCCCTTCATTAAACTCA
1 ACATTACCTAATTTACCCTTGCAAGTGGGAGGGGAGTCGGTGAGTAAGTCCCTTCGTTAAACACA
* ** * * * *
24159 ATTTTTCATTGGCTGTACATTACCTAATTTACCCTTACAAGTGGTAGGAGAGAGGGTAAGTAAGC
66 ATTTTACATTTACTGTCCATTACCTAATTTACCCTTACAAGTGGAAGGAGAGAGGGTGAGTAAGT
* * * * *
24224 CCCTTCATTAAACTCAAATTTTCATTTACTGCATATTACCTAATTTACCCATACAAGTGGCCGGA
131 CCTTTCGTTAAAC-CTAATTTTCATTTACTGCATATTACCTAATTTACCCTTGCAAGT-G--GGA
* * * * * * *
24289 GGAAAGTGGGTGAGT-TAATCCCTTCGTTAAACCCAATTTTCAATTTATTGTACATTATCTAATT
192 GGAGAGTAGGTGAGTAT-GTCCCTTCGTTAAACCCAATTTTCAATTTACTGCATATTACCTAATT
* * * *
24353 TACCCTT-ATAAGTGGGAGGAGAG-AGGGTGAGTAACTACCTTCGTTAAACCCAATGTAGCATTT
256 TACCCTTGCT-AGTGGGAGGAGAGTA-GGTGAGTAAGTCCCTTCGTTAAA-CCAAT-TATCATTT
* * * * * * * * *
24416 ATTGTATATTACCTAATTTACCTTTACAGATGGGAGGAGAGAGACTAAATAAGTCCTTTCGTCAA
317 ATTGCACATTAACTAATTTACCCTTACAG-TGGGAGGAGAGAAAGTAAGTAAGTCCATTCGTTAA
* * *
24481 ACCCAATGTAGCATTTACTGCACATTACCTAATTTAACCTTTCAAGTGGGAGGACAGAGGGTGGA
381 ACCCAATGTAGCATTTACTGCACATTACCTAATTTAACCTTACAAGTGGGAGGAGAGAGGCT-GA
* * ** * * * * *
24546 TAAGTCACTTTGTTAAACATAATGTATCATTTACTGCACTTTACCAAATTTTCCCTTACATCTTC
445 TAAGTCCCTTCGTTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTACACCTTC
** * **
24611 GTTAAATCC-AATGTTGCATTTGTTGC
510 GTTAAA-CCTAATGTAACATATACTGC
* *
24637 ACATTACCTAATTTACCCTTGCAAGTGGGAGGGGAGTCGGTGAGTAAATCCCTTCGTTAAACCCA
1 ACATTACCTAATTTACCCTTGCAAGTGGGAGGGGAGTCGGTGAGTAAGTCCCTTCGTTAAACACA
** * * *
24702 ATTTTACATTTACTGTCCATTACCTAATTTAAACTTGCAAGTGGAAGGAGAGAGGGTGGGAAAGT
66 ATTTTACATTTACTGTCCATTACCTAATTTACCCTTACAAGTGGAAGGAGAGAGGGTGAGTAAGT
** * *
24767 CCTTTCGTTAAACCTAATGTAGCATTTACTGCACATTACTTAATTTACCCTTGCAAGTGGGAGGA
131 CCTTTCGTTAAACCTAAT-TTTCATTTACTGCATATTACCTAATTTACCCTTGCAAGTGGGAGGA
* * ** *
24832 GGGTAGGTGAGTATGTCCCTTCGTTAAACCTAATTTAGAATTTACTACATATTACCTAATTTACC
195 GAGTAGGTGAGTATGTCCCTTCGTTAAACCCAATTTTCAATTTACTGCATATTACCTAATTTACC
* *
24897 CTTGCTAGCGGGAGGGGAGTAGGTGAGTAAGTCCCTTCGTTAAACCTAATATATCATTTATTGCA
260 CTTGCTAGTGGGAGGAGAGTAGGTGAGTAAGTCCCTTCGTTAAACC-AAT-TATCATTTATTGCA
* * * *
24962 CATTAACTAATTTACCCTTGCATGTGGGAGAAGGGAAAGTGAGTAAGTCCATTCGTTAAACCCAA
323 CATTAACTAATTTACCCTTACA-GTGGGAGGAGAGAAAGTAAGTAAGTCCATTCGTTAAACCCAA
* * * *
25027 TGTAACATTTACTGCACATTATCTAATTTAACCTTACAAGTAGGAGGAGAGAGGTTCGATAAGTC
387 TGTAGCATTTACTGCACATTACCTAATTTAACCTTACAAGTGGGAGGAGAGAGGCT-GATAAGTC
*
25092 CCTTCGTTAAACCCAATGT-GACATTTAATGCACATTACCTAATTTACCCTTACACCTTCGTTAA
451 CCTTCGTTAAACCCAATGTAG-CATTTACTGCACATTACCTAATTTACCCTTACACCTTCGTTAA
25156 ACCTAATGTAACATATACTGC
515 ACCTAATGTAACATATACTGC
* ** *
25177 ATATTACCTAATTTACCCTTGCAAGTAAGAGGGAAGTCGGTGAGTAAGTCCCTTCGTTAAACACA
1 ACATTACCTAATTTACCCTTGCAAGTGGGAGGGGAGTCGGTGAGTAAGTCCCTTCGTTAAACACA
* * ** * *
25242 ATTTTGCATTTACTG-CACATTAACTAATTTACCCTTACAAGTGGGGGGAGAGTGGGTGAGTAAC
66 ATTTTACATTTACTGTC-CATTACCTAATTTACCCTTACAAGTGGAAGGAGAGAGGGTGAGTAAG
* * * * *
25306 TCTTTTTGTTAAA-CTCAATTTTTCATTGACTGCATATTACCAAATTTACCCTTGCAAGTGGTAG
130 TCCTTTCGTTAAACCT-AA-TTTTCATTTACTGCATATTACCTAATTTACCCTTGCAAGTGGGAG
* *
25370 GAGAG-AGGGTGAGTAAGTCCCTTCATTAAACCCAATTTTTC-ATTTACTGCATATTACCTAATT
193 GAGAGTA-GGTGAGTATGTCCCTTCGTTAAACCCAA-TTTTCAATTTACTGCATATTACCTAATT
* * * * * * *
25433 TACCTTTGCAAGTGGGAGGAAAGTGGGTGAGTTAGTCCCTTCGTTAAATCCAATTTTCCATTGAC
256 TACCCTTGCTAGTGGGAGGAGAGTAGGTGAGTAAGTCCCTTCGTTAAA-CCAATTAT-CATTTA-
* * * * *
25498 TT-CACATTAGCTAATTTACCCTTACAAGTGAGAGGAGAG-AGGATAAGTAACTCCCTTCGTTAA
318 TTGCACATTAACTAATTTACCCTTAC-AGTGGGAGGAGAGAAAG-TAAGTAAGTCCATTCGTTAA
* * * * *
25561 ACCCAATGTAGCATTTATTAG-ACATTACCTAATTT-ACCTTTGCAGGTGGGAGGAGAAAGACTG
381 ACCCAATGTAGCATTTACT-GCACATTACCTAATTTAACC-TTACAAGTGGGAGGAGAGAGGCTG
*
25624 AGTAAGTCCTTTCGTTAAACCCAATGTAGCATTTACTGC-CATTACCTAATTTA
444 A-TAAGTCCCTTCGTTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTA
25677 ATCTTTCAAG
Statistics
Matches: 873, Mismatches: 145, Indels: 48
0.82 0.14 0.05
Matches are distributed among these distances:
539 31 0.04
540 668 0.77
541 15 0.02
542 5 0.01
543 154 0.18
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (535 bp):
ACATTACCTAATTTACCCTTGCAAGTGGGAGGGGAGTCGGTGAGTAAGTCCCTTCGTTAAACACA
ATTTTACATTTACTGTCCATTACCTAATTTACCCTTACAAGTGGAAGGAGAGAGGGTGAGTAAGT
CCTTTCGTTAAACCTAATTTTCATTTACTGCATATTACCTAATTTACCCTTGCAAGTGGGAGGAG
AGTAGGTGAGTATGTCCCTTCGTTAAACCCAATTTTCAATTTACTGCATATTACCTAATTTACCC
TTGCTAGTGGGAGGAGAGTAGGTGAGTAAGTCCCTTCGTTAAACCAATTATCATTTATTGCACAT
TAACTAATTTACCCTTACAGTGGGAGGAGAGAAAGTAAGTAAGTCCATTCGTTAAACCCAATGTA
GCATTTACTGCACATTACCTAATTTAACCTTACAAGTGGGAGGAGAGAGGCTGATAAGTCCCTTC
GTTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTACACCTTCGTTAAACCTAA
TGTAACATATACTGC
Found at i:25145 original size:81 final size:81
Alignment explanation
Indices: 24607--25142 Score: 575
Period size: 81 Copynumber: 6.6 Consensus size: 81
24597 TCCCTTACAT
* ** *
24607 CTTCGTTAAATCCAATGTTG-CATTTGTTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGGG
1 CTTCGTTAAACCCAATG-TGACATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAG
* *
24671 AGTCGGTGAGTAAATCC
65 AGTAGGTGAGTAAGTCC
* * ** *
24688 CTTCGTTAAACCCAATTTTACATTTACTGTC-CATTACCTAATTTAAACTTGCAAGTGGAAGGAG
1 CTTCGTTAAACCCAATGTGACATTTACTG-CACATTACCTAATTTACCCTTGCAAGTGGGAGGAG
* *
24752 AG-AGGGTGGGAAAGTCC
65 AGTA-GGTGAGTAAGTCC
* * *
24769 TTTCGTTAAACCTAATGT-AGCATTTACTGCACATTACTTAATTTACCCTTGCAAGTGGGAGGAG
1 CTTCGTTAAACCCAATGTGA-CATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAG
* *
24833 GGTAGGTGAGTATGTCC
65 AGTAGGTGAGTAAGTCC
* * * * * * *
24850 CTTCGTTAAACCTAATTTAGA-ATTTACTACATATTACCTAATTTACCCTTGCTAGCGGGAGGGG
1 CTTCGTTAAACCCAATGT-GACATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAG
24914 AGTAGGTGAGTAAGTCC
65 AGTAGGTGAGTAAGTCC
* * * * * *
24931 CTTCGTTAAACCTAATAT-ATCATTTATTGCACATTAACTAATTTACCCTTGCATGTGGGAGAAG
1 CTTCGTTAAACCCAATGTGA-CATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAG
* * *
24995 GGAAAGTGAGTAAGTCC
65 AGTAGGTGAGTAAGTCC
* * * * * *
25012 ATTCGTTAAACCCAATGTAACATTTACTGCACATTATCTAATTTAACCTTACAAGTAGGAGGAGA
1 CTTCGTTAAACCCAATGTGACATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAGA
25077 G-AGGTTCGA-TAAGTCC
66 GTAGG-T-GAGTAAGTCC
*
25093 CTTCGTTAAACCCAATGTGACATTTAATGCACATTACCTAATTTACCCTT
1 CTTCGTTAAACCCAATGTGACATTTACTGCACATTACCTAATTTACCCTT
25143 ACACCTTCGT
Statistics
Matches: 378, Mismatches: 64, Indels: 26
0.81 0.14 0.06
Matches are distributed among these distances:
79 1 0.00
80 5 0.01
81 366 0.97
82 5 0.01
83 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (81 bp):
CTTCGTTAAACCCAATGTGACATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAGA
GTAGGTGAGTAAGTCC
Found at i:25183 original size:54 final size:54
Alignment explanation
Indices: 25092--25196 Score: 165
Period size: 54 Copynumber: 1.9 Consensus size: 54
25082 TCGATAAGTC
* *
25092 CCTTCGTTAAACCCAATGTGACATTTAATGCACATTACCTAATTTACCCTTACA
1 CCTTCGTTAAACCCAATGTAACATATAATGCACATTACCTAATTTACCCTTACA
* * *
25146 CCTTCGTTAAACCTAATGTAACATATACTGCATATTACCTAATTTACCCTT
1 CCTTCGTTAAACCCAATGTAACATATAATGCACATTACCTAATTTACCCTT
25197 GCAAGTAAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (54 bp):
CCTTCGTTAAACCCAATGTAACATATAATGCACATTACCTAATTTACCCTTACA
Found at i:25185 original size:459 final size:459
Alignment explanation
Indices: 24687--25598 Score: 1094
Period size: 459 Copynumber: 2.0 Consensus size: 459
24677 TGAGTAAATC
* * * *
24687 CCTTCGTTAAACCCAATTTTACATTTACTGTCCATTACCTAATTTAAACTTGCAAGT-GGAAGGA
1 CCTTCGTTAAACCCAATGTAACATATACTGTCCATTACCTAATTTAAACTTGCAAGTAAGAAGGA
* * *
24751 GAGAGGGTGGGAAAGTCCTTTCGTTAAAC-CTAATGTAGCATTTACTGCACATT-ACTTAATTTA
66 -AGACGGTGAGAAAGTCCCTTCGTTAAACAC-AATGTAGCATTTACTGCACATTAAC-TAATTTA
* * ** *
24814 CCCTTGCAAGTGGGAGGAGGGTAGGTGAGTATGTCCCTTCGTTAAAC-CTAATTTAGAATTTACT
128 CCCTTACAAGTGGGAGGAGAGTAGGTGAGTAACTCCCTTCGTTAAACTC-AATTTAGAATTGACT
* * * *
24878 ACATATTACCTAATTTACCCTTGCTAGCGGGAGGGGAGTA-GGTGAGTAAGTCCCTTCGTTAAAC
192 ACATATTACCAAATTTACCCTTGCAAGCGGGAGGAGAG-AGGGTGAGTAAGTCCCTTCATTAAAC
* * *
24942 CTAATATATCATTTATTGCACATTAACTAATTTACCCTTGCATGTGGGA-G-AAG-GGAAAGTGA
256 CCAATATATCATTTACTGCACATTAACTAATTTACCCTTGCAAGTGGGAGGAAAGTGG---GTGA
* *
25004 GTAAGTCCATTCGTTAAACCCAATGTAACATTTACTGCACATTATCTAATTTAACCTTACAAGT-
318 GTAAGTCCATTCGTTAAACCCAATGTAACATTGACTGCACATTAGCTAATTTAACCTTACAAGTG
** *
25068 AGGAGGAGAGAGG-TTCGATAAGTCCCTTCGTTAAACCCAATGT-GACATTTAAT-GCACATTAC
383 A-GAGGAGAGAGGATAAG-TAACTCCCTTCGTTAAACCCAATGTAG-CATTTAATAG-ACATTAC
25130 CTAATTTACCCTTACA
444 CTAATTTACCCTTACA
* * ** *
25146 CCTTCGTTAAACCTAATGTAACATATACTG-CATATTACCTAATTTACCCTTGCAAGTAAGAGGG
1 CCTTCGTTAAACCCAATGTAACATATACTGTC-CATTACCTAATTTAAACTTGCAAGTAAGAAGG
* * * *
25210 AAGTCGGTGAGTAAGTCCCTTCGTTAAACACAATTTTGCATTTACTGCACATTAACTAATTTACC
65 AAGACGGTGAGAAAGTCCCTTCGTTAAACACAATGTAGCATTTACTGCACATTAACTAATTTACC
* * ** * *** *
25275 CTTACAAGTGGGGGGAGAGTGGGTGAGTAACTCTTTTTGTTAAACTCAATTTTTCATTGACTGCA
130 CTTACAAGTGGGAGGAGAGTAGGTGAGTAACTCCCTTCGTTAAACTCAATTTAGAATTGACTACA
* *
25340 TATTACCAAATTTACCCTTGCAAGTGGTAGGAGAGAGGGTGAGTAAGTCCCTTCATTAAACCCAA
195 TATTACCAAATTTACCCTTGCAAGCGGGAGGAGAGAGGGTGAGTAAGTCCCTTCATTAAACCCAA
* * * * * *
25405 TTTTTCATTTACTGCATATTACCTAATTTACCTTTGCAAGTGGGAGGAAAGTGGGTGAGTTAGTC
260 TATATCATTTACTGCACATTAACTAATTTACCCTTGCAAGTGGGAGGAAAGTGGGTGAGTAAGTC
* * * ** * *
25470 CCTTCGTTAAATCCAATTTTCCATTGACTTCACATTAGCTAATTTACCCTTACAAGTGAGAGGAG
325 CATTCGTTAAACCCAATGTAACATTGACTGCACATTAGCTAATTTAACCTTACAAGTGAGAGGAG
*
25535 AGAGGATAAGTAACTCCCTTCGTTAAACCCAATGTAGCATTTATTAGACATTACCTAATTTACC
390 AGAGGATAAGTAACTCCCTTCGTTAAACCCAATGTAGCATTTAATAGACATTACCTAATTTACC
25599 TTTGCAGGTG
Statistics
Matches: 382, Mismatches: 58, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
458 2 0.01
459 360 0.94
460 15 0.04
461 3 0.01
462 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (459 bp):
CCTTCGTTAAACCCAATGTAACATATACTGTCCATTACCTAATTTAAACTTGCAAGTAAGAAGGA
AGACGGTGAGAAAGTCCCTTCGTTAAACACAATGTAGCATTTACTGCACATTAACTAATTTACCC
TTACAAGTGGGAGGAGAGTAGGTGAGTAACTCCCTTCGTTAAACTCAATTTAGAATTGACTACAT
ATTACCAAATTTACCCTTGCAAGCGGGAGGAGAGAGGGTGAGTAAGTCCCTTCATTAAACCCAAT
ATATCATTTACTGCACATTAACTAATTTACCCTTGCAAGTGGGAGGAAAGTGGGTGAGTAAGTCC
ATTCGTTAAACCCAATGTAACATTGACTGCACATTAGCTAATTTAACCTTACAAGTGAGAGGAGA
GAGGATAAGTAACTCCCTTCGTTAAACCCAATGTAGCATTTAATAGACATTACCTAATTTACCCT
TACA
Found at i:25259 original size:135 final size:135
Alignment explanation
Indices: 25013--25280 Score: 364
Period size: 135 Copynumber: 2.0 Consensus size: 135
25003 AGTAAGTCCA
* * *
25013 TTCGTTAAACCCAATGTAACATTTACTGCACATTATCTAATTTAACCTTACAAGTAGGAGGAGAG
1 TTCGTTAAACCCAATGTAACATATACTGCACATTACCTAATTTAACCTTACAAGTAAGAGGAGAG
* * *
25078 AGGTTCGATAAGTCCCTTCGTTAAACCCAATGTGACATTTAATGCACATTACCTAATTTACCCTT
66 AGGGTCGATAAGTCCCTTCGTTAAACACAATGTGACATTTAATGCACATTAACTAATTTACCCTT
25143 ACACC
131 ACACC
* * * *
25148 TTCGTTAAACCTAATGTAACATATACTGCATATTACCTAATTTACCCTTGCAAGTAAGAGG-GA-
1 TTCGTTAAACCCAATGTAACATATACTGCACATTACCTAATTTAACCTTACAAGTAAGAGGAGAG
* *
25211 AGTCGGT-GAGTAAGTCCCTTCGTTAAACACAATTTTG-CATTTACTGCACATTAACTAATTTAC
66 AG--GGTCGA-TAAGTCCCTTCGTTAAACACAA-TGTGACATTTAATGCACATTAACTAATTTAC
25274 CCTTACA
127 CCTTACA
25281 AGTGGGGGGA
Statistics
Matches: 117, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
133 2 0.02
134 4 0.03
135 108 0.92
136 3 0.03
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.32
Consensus pattern (135 bp):
TTCGTTAAACCCAATGTAACATATACTGCACATTACCTAATTTAACCTTACAAGTAAGAGGAGAG
AGGGTCGATAAGTCCCTTCGTTAAACACAATGTGACATTTAATGCACATTAACTAATTTACCCTT
ACACC
Found at i:25283 original size:81 final size:82
Alignment explanation
Indices: 25146--25719 Score: 551
Period size: 81 Copynumber: 7.1 Consensus size: 82
25136 TACCCTTACA
* * ** * * **
25146 CCTTCGTTAAACCTAATGTAACATATACTGCATATTACCTAATTTACCCTTGCAAGTAAGAGG-G
1 CCTTCGTTAAACCCAATTTTGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAG
25210 A-AGTCGGTGAGTAAGTC
66 AGAGT-GGTGAGTAAGTC
* * *
25227 CCTTCGTTAAACACAATTTTGCATTTACTGCACATTAACTAATTTACCCTTACAAGTGGG-GG-G
1 CCTTCGTTAAACCCAATTTTGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAG
*
25290 AGAGTGGGTGAGTAACTC
66 AGAGT-GGTGAGTAAGTC
** * * * * * * *
25308 TTTTTGTTAAACTCAATTTTTCATTGACTGCATATTACCAAATTTACCCTTGCAAGTGGTAGGAG
1 CCTTCGTTAAACCCAATTTTGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAG
25373 AGAG-GGTGAGTAAGTC
66 AGAGTGGTGAGTAAGTC
* * * *
25389 CCTTCATTAAACCCAATTTTTCATTTACTGCATATTACCTAATTTACCTTTGCAAGTGGGAGGA-
1 CCTTCGTTAAACCCAATTTTGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAG
*
25453 A-AGTGGGTGAGTTAGTC
66 AGAGT-GGTGAGTAAGTC
* * * * * * *
25470 CCTTCGTTAAATCCAATTTTCCATTGACTTCACATTAGCTAATTTACCCTTACAAGTGAGAGGAG
1 CCTTCGTTAAACCCAATTTTGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAG
* * *
25535 AGAG-GATAAGTAACTC
66 AGAGTGGTGAGTAAGTC
* * * * *
25551 CCTTCGTTAAACCCAATGTAGCATTTATTAG-ACATTACCTAATTTACCTTTGCAGGTGGGAGGA
1 CCTTCGTTAAACCCAATTTTGCATTTACT-GCACATTACCTAATTTACCCTTGCAAGTGGGAGGA
* **
25615 GAAAG-ACTGAGTAAGTC
65 GAGAGTGGTGAGTAAGTC
* * * ** *
25632 CTTTCGTTAAACCCAATGTAGCATTTACTGC-CATTACCTAATTTAATCTTTCAAGTGGGAGGAG
1 CCTTCGTTAAACCCAATTTTGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAG
* *
25696 AGA-TGATGGGTAAGTC
66 AGAGTGGTGAGTAAGTC
*
25712 GCTTCGTT
1 CCTTCGTT
25720 TAACATAAGG
Statistics
Matches: 404, Mismatches: 79, Indels: 21
0.80 0.16 0.04
Matches are distributed among these distances:
79 2 0.00
80 51 0.13
81 341 0.84
82 3 0.01
83 7 0.02
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (82 bp):
CCTTCGTTAAACCCAATTTTGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAG
AGAGTGGTGAGTAAGTC
Found at i:25319 original size:216 final size:215
Alignment explanation
Indices: 24930--25358 Score: 504
Period size: 216 Copynumber: 2.0 Consensus size: 215
24920 TGAGTAAGTC
* * * * *
24930 CCTTCGTTAAACCTAATATATCATTTATTGCACATTAACTAATTTACCCTTGCATGTGGGAGAAG
1 CCTTCGTTAAACCTAATATAACATATACTGCACATTAACTAATTTACCCTTGCAAGT-GAAGAAG
* *
24995 GGAAAGTGAGTAAGTCCATTCGTTAAACCCAATGTAACATTTACTGCACATTATCTAATTTAACC
65 GGAAAGTGAGTAAGTCCATTCGTTAAACACAATGTAACATTTACTGCACATTAACTAATTTAACC
* * *
25060 TTACAAGTAGGAGGAGAGAGGTTCGATAAGTCCCTTCGTTAAACCCAATGTGACATTTAATGCAC
130 TTACAAGTAGGAGGAGAGAGGGTCGATAACTCCCTTCGTTAAACCCAATGTGACATTGAATGCAC
*
25125 ATTACCTAATTTACCCTTACA
195 ATTACCAAATTTACCCTTACA
* * *
25146 CCTTCGTTAAACCTAATGTAACATATACTGCATATTACCTAATTTACCCTTGCAAGT-AAG-AGG
1 CCTTCGTTAAACCTAATATAACATATACTGCACATTAACTAATTTACCCTTGCAAGTGAAGAAGG
* * * ** *
25209 GAAGTCGGTGAGTAAGTCCCTTCGTTAAACACAATTTTGCATTTACTGCACATTAACTAATTTAC
66 GAA---AGTGAGTAAGTCCATTCGTTAAACACAATGTAACATTTACTGCACATTAACTAATTTAA
* * * ** * * * ** *
25274 CCTTACAAGTGGGGGGAGAGTGGGT-GAGTAACTCTTTTTGTTAAACTCAATTTTTCATTGACTG
128 CCTTACAAGTAGGAGGAGAGAGGGTCGA-TAACTCCCTTCGTTAAACCCAATGTGACATTGAATG
*
25338 CATATTACCAAATTTACCCTT
192 CACATTACCAAATTTACCCTT
25359 GCAAGTGGTA
Statistics
Matches: 177, Mismatches: 32, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
213 6 0.03
214 2 0.01
215 2 0.01
216 167 0.94
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (215 bp):
CCTTCGTTAAACCTAATATAACATATACTGCACATTAACTAATTTACCCTTGCAAGTGAAGAAGG
GAAAGTGAGTAAGTCCATTCGTTAAACACAATGTAACATTTACTGCACATTAACTAATTTAACCT
TACAAGTAGGAGGAGAGAGGGTCGATAACTCCCTTCGTTAAACCCAATGTGACATTGAATGCACA
TTACCAAATTTACCCTTACA
Found at i:25597 original size:243 final size:243
Alignment explanation
Indices: 25146--25694 Score: 656
Period size: 243 Copynumber: 2.3 Consensus size: 243
25136 TACCCTTACA
* * * * * ** *
25146 CCTTCGTTAAACCTAATGTAACATATACTGCATATTACCTAATTTACCCTTGCAAGTAAGAGGGA
1 CCTTCATTAAACCCAATGTAGCATTTACTGCATATTACCTAATTTACCTTTGCAAGTGGGAGGAA
* *
25211 AGTCGGTGAGTAAGTCCCTTCGTTAAACACAATTTTGCATTTACTGCACATTAACTAATTTACCC
66 AGTCGGTGAGTAAGTCCCTTCGTTAAACACAATTTTCCATTGACTGCACATTAACTAATTTACCC
* * * * * ** * * * ** *
25276 TTACAAGTGGGGGGAGAGTGGGTGAGTAACTCTTTTTGTTAAACTCAATTTTTCATTGACTGCAT
131 TTACAAGTGAGAGGAGAGAGGATAAGTAACTCCCTTCGTTAAACCCAATGTAGCATTGACTGCAC
* * **
25341 ATTACCAAATTTACCCTTGCAAGTGGTAGGAGAGAGGGTGAGTAAGTC
196 ATTACCAAATTTACCCTTGCAAGTGGGAGGAGAAAGACTGAGTAAGTC
* **
25389 CCTTCATTAAACCCAATTTTTCATTTACTGCATATTACCTAATTTACCTTTGCAAGTGGGAGGAA
1 CCTTCATTAAACCCAATGTAGCATTTACTGCATATTACCTAATTTACCTTTGCAAGTGGGAGGAA
* * * *
25454 AGTGGGTGAGTTAGTCCCTTCGTTAAATC-CAATTTTCCATTGACTTCACATTAGCTAATTTACC
66 AGTCGGTGAGTAAGTCCCTTCGTTAAA-CACAATTTTCCATTGACTGCACATTAACTAATTTACC
* *
25518 CTTACAAGTGAGAGGAGAGAGGATAAGTAACTCCCTTCGTTAAACCCAATGTAGCATTTATTAG-
130 CTTACAAGTGAGAGGAGAGAGGATAAGTAACTCCCTTCGTTAAACCCAATGTAGCATTGACT-GC
* * *
25582 ACATTACCTAATTTACCTTTGCAGGTGGGAGGAGAAAGACTGAGTAAGTC
194 ACATTACCAAATTTACCCTTGCAAGTGGGAGGAGAAAGACTGAGTAAGTC
* * * *
25632 CTTTCGTTAAACCCAATGTAGCATTTACTGC-CATTACCTAATTTAATCTTT-CAAGTGGGAGGA
1 CCTTCATTAAACCCAATGTAGCATTTACTGCATATTACCTAATTT-ACCTTTGCAAGTGGGAGGA
25695 GAGATGATGG
Statistics
Matches: 258, Mismatches: 45, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
242 24 0.09
243 232 0.90
244 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (243 bp):
CCTTCATTAAACCCAATGTAGCATTTACTGCATATTACCTAATTTACCTTTGCAAGTGGGAGGAA
AGTCGGTGAGTAAGTCCCTTCGTTAAACACAATTTTCCATTGACTGCACATTAACTAATTTACCC
TTACAAGTGAGAGGAGAGAGGATAAGTAACTCCCTTCGTTAAACCCAATGTAGCATTGACTGCAC
ATTACCAAATTTACCCTTGCAAGTGGGAGGAGAAAGACTGAGTAAGTC
Found at i:26787 original size:81 final size:82
Alignment explanation
Indices: 26561--26838 Score: 316
Period size: 81 Copynumber: 3.5 Consensus size: 82
26551 TGTGAAATCC
* * * * *
26561 AATGTAGCATTTACTATACAATGCCTAATTTACCCTTGC-AAG-TGAGAAAAGGGTGGGTGAGTA
1 AATGTAGCATTTACTACACATTACCTAATTTACCCTTGCTAAGTTGA-AAGAGAGTGGGTGAGTA
*
26624 TGTCCCTTTGTTATACCT
65 TGTCCCTTTGTTAAACCT
** * * * * * * *
26642 AATGTAAAATTTACT--ACATTACCTAGTTTACCCTTGCT-ACTGGGAGGGGAGTGGGTGAGCAT
1 AATGTAGCATTTACTACACATTACCTAATTTACCCTTGCTAAGTTGAAAGAGAGTGGGTGAGTAT
*
26704 GTCCCTTCGTTAAACCT
66 GTCCCTTTGTTAAACCT
* * *
26721 AATATAGCATTTACTACACATTAACTAATTTACCCTT-CTAAGTTGAAAGAGAGTAGGTGAGTAT
1 AATGTAGCATTTACTACACATTACCTAATTTACCCTTGCTAAGTTGAAAGAGAGTGGGTGAGTAT
*
26785 GTCTCTTTGTTAAACCT
66 GTCCCTTTGTTAAACCT
*
26802 AATGTAGCATTTACTGCACATTACCTAATTTACCCTT
1 AATGTAGCATTTACTACACATTACCTAATTTACCCTT
26839 ACACCTTCGT
Statistics
Matches: 160, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
79 60 0.38
80 3 0.02
81 97 0.61
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (82 bp):
AATGTAGCATTTACTACACATTACCTAATTTACCCTTGCTAAGTTGAAAGAGAGTGGGTGAGTAT
GTCCCTTTGTTAAACCT
Found at i:26957 original size:216 final size:216
Alignment explanation
Indices: 26704--27095 Score: 490
Period size: 216 Copynumber: 1.8 Consensus size: 216
26694 GGGTGAGCAT
* * * *
26704 GTCCCTTCGTTAAACCTAATATAGCATTTACTACACATTAAC-TAATTTACCCTT-CTAAGT-TG
1 GTCCCTGCGTTAAACCCAATATAGCATTTACTACACATT-ACTTAATTTAACCTTGC-AAGTAGG
* *
26766 A-AAGAGAGTAGGTGAGTATGTCT-CTTTGTTAAACCTAATGTAGCATTTACTGCACATTACCTA
64 AGAAGAGAG--GGTGAGTAAGT-TGCTTTGTTAAACCTAATGTAGCATTTACTGCACATTAACTA
* * * *
26829 ATTTACCCTTACACCTTCGTT-AATCCCAATGTTGCATTTACTGCCCATTACCCAATTTACCCTT
126 ATTTACCCGTACAACTTCGTTAAAT-CCAATGTAGCATTTACTGCACATTACCCAATTTACCCTT
26893 GGAAGTAGGAGTGGAGTCAGTGAGTAA
190 GGAAGTAGGAGTGGAGTCAGTGAGTAA
* * * *
26920 GTCCCTGCGTTAAACCCAATTTTGCATTTACTACACATTACTTAATTTAACTTTGCAGGTAGGAG
1 GTCCCTGCGTTAAACCCAATATAGCATTTACTACACATTACTTAATTTAACCTTGCAAGTAGGAG
* * * * *
26985 AAGAGAGGGTGGGTAAGTTGTTTTGTTAAATCTAATGTAGTATTTACTGCATATTAACTAATTTA
66 AAGAGAGGGTGAGTAAGTTGCTTTGTTAAACCTAATGTAGCATTTACTGCACATTAACTAATTTA
* * *
27050 CTCGTACAATTTTGTTAAATCCAATGTAGCATTTACTGCACATTAC
131 CCCGTACAACTTCGTTAAATCCAATGTAGCATTTACTGCACATTAC
27096 TAATTTAACA
Statistics
Matches: 148, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
215 3 0.02
216 132 0.89
217 6 0.04
218 7 0.05
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (216 bp):
GTCCCTGCGTTAAACCCAATATAGCATTTACTACACATTACTTAATTTAACCTTGCAAGTAGGAG
AAGAGAGGGTGAGTAAGTTGCTTTGTTAAACCTAATGTAGCATTTACTGCACATTAACTAATTTA
CCCGTACAACTTCGTTAAATCCAATGTAGCATTTACTGCACATTACCCAATTTACCCTTGGAAGT
AGGAGTGGAGTCAGTGAGTAA
Found at i:27174 original size:79 final size:81
Alignment explanation
Indices: 27064--27234 Score: 222
Period size: 81 Copynumber: 2.1 Consensus size: 81
27054 TACAATTTTG
* * * * * *
27064 TTAAATCCAATGTAGCATTTACTGCACATTA-CTAATTTAACATTGCAA-TGGGAGGAGA-TAGG
1 TTAAACCCAATATAGAATATACTGCACATTACCTAATTTAACATTACAAGTGGGAGGAAAGTA-G
*
27126 GTGACTAAGTCTTTTCA
65 GTGACTAAGTCTCTTCA
* *
27143 TTAAACCCAATATAGAATATACTGCACATTACCTAATTTACCCTTACAAGTGGGAGGAAAGTAGG
1 TTAAACCCAATATAGAATATACTGCACATTACCTAATTTAACATTACAAGTGGGAGGAAAGTAGG
*
27208 TGAGTAAGTCTCTTCA
66 TGACTAAGTCTCTTCA
27224 TTAAACCCAAT
1 TTAAACCCAAT
27235 TGTTCATGTA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 27 0.34
80 14 0.18
81 36 0.46
82 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (81 bp):
TTAAACCCAATATAGAATATACTGCACATTACCTAATTTAACATTACAAGTGGGAGGAAAGTAGG
TGACTAAGTCTCTTCA
Found at i:27180 original size:133 final size:135
Alignment explanation
Indices: 26928--27183 Score: 302
Period size: 133 Copynumber: 1.9 Consensus size: 135
26918 AAGTCCCTGC
* * * *
26928 GTTAAACCCAATTTTGCATTTACTACACATTACTTAATTTAACTTTGCAGGTAGGAGAAGAGAGG
1 GTTAAACCCAATGTAGCATTTACTACACATTACTTAATTTAACATTGCAGATAGGAGAAGAGAGG
** ** * * * * * *
26993 GTGGGTAAGTTGTTTTGTTAAATCTAATGTAGTATTTACTGCATATTAACTAATTTACTCGTACA
66 GTGACTAAGTTGTTTCATTAAACCCAATATAGAATATACTGCACATTAACTAATTTACTCGTACA
27058 ATTTT
131 ATTTT
* * * * *
27063 GTTAAATCCAATGTAGCATTTACTGCACATTAC-TAATTTAACATTGCA-ATGGGAGGAGATAGG
1 GTTAAACCCAATGTAGCATTTACTACACATTACTTAATTTAACATTGCAGATAGGAGAAGAGAGG
*
27126 GTGACTAAGTCT-TTTCATTAAACCCAATATAGAATATACTGCACATTACCTAATTTAC
66 GTGACTAAGT-TGTTTCATTAAACCCAATATAGAATATACTGCACATTAACTAATTTAC
27184 CCTTACAAGT
Statistics
Matches: 100, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
133 56 0.56
134 15 0.15
135 29 0.29
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (135 bp):
GTTAAACCCAATGTAGCATTTACTACACATTACTTAATTTAACATTGCAGATAGGAGAAGAGAGG
GTGACTAAGTTGTTTCATTAAACCCAATATAGAATATACTGCACATTAACTAATTTACTCGTACA
ATTTT
Found at i:27274 original size:81 final size:80
Alignment explanation
Indices: 27064--27276 Score: 204
Period size: 81 Copynumber: 2.6 Consensus size: 80
27054 TACAATTTTG
* * * * *
27064 TTAAATCCAATGTAGCATTTACTGCACATTA-CTAATTTAACAT-TGCAA-TGGGAGGAGATAGG
1 TTAAACCCAATATAGAATATACTGCACATTACCTAATTT-AC-TCTGCAAGTGGGAGGAAATAGG
*
27126 GTGACTAAGTCTTTTCA
64 GTGACTAAGTCTCTTCA
* *
27143 TTAAACCCAATATAGAATATACTGCACATTACCTAATTTACCCTTACAAGTGGGAGGAAAGTA-G
1 TTAAACCCAATATAGAATATACTGCACATTACCTAATTTACTC-TGCAAGTGGGAGGAAA-TAGG
*
27207 GTGAGTAAGTCTCTTCA
64 GTGACTAAGTCTCTTCA
* * * *
27224 TTAAACCCAAT-T-GTTCATGTATTGCATATTACCTAATTTACTTCTGCAAGTGG
1 TTAAACCCAATATAG--AATATACTGCACATTACCTAATTTAC-TCTGCAAGTGG
27277 TATGAGAAAA
Statistics
Matches: 111, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
79 30 0.27
80 12 0.11
81 66 0.59
82 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (80 bp):
TTAAACCCAATATAGAATATACTGCACATTACCTAATTTACTCTGCAAGTGGGAGGAAATAGGGT
GACTAAGTCTCTTCA
Found at i:27541 original size:81 final size:82
Alignment explanation
Indices: 27390--27587 Score: 224
Period size: 81 Copynumber: 2.4 Consensus size: 82
27380 TACATCTTCT
* * * * **
27390 TTAAACCCCATGTAGCATTTA-CTGCACATTTTCCTAATTTACCTTTGCAAGTGGTTGGAAAAAG
1 TTAAACCCAATGTAGCATTTATC-GCACATTATCCTAATTGACCCTTGCAAGTGGGAGGAAAAAG
*
27454 GGTGTGTAAGT-CTCTCCG
65 AGTGTGTAAGTCCT-TCCG
* * *
27472 TTAAACCCAATGTAGCTTTTATCGCACATTAT-CTAATTGACCCTTGCAAGTGGGAGGAGAGAGA
1 TTAAACCCAATGTAGCATTTATCGCACATTATCCTAATTGACCCTTGCAAGTGGGAGGAAAAAGA
*
27536 GTGTGTAAGTCCTTTCG
66 GTGTGTAAGTCCTTCCG
* * *
27553 TTAAACCAAATGTAGCATTTATTGCAAATTA-CCTA
1 TTAAACCCAATGTAGCATTTATCGCACATTATCCTA
27588 CTTTAACTCT
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
81 68 0.69
82 29 0.30
83 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (82 bp):
TTAAACCCAATGTAGCATTTATCGCACATTATCCTAATTGACCCTTGCAAGTGGGAGGAAAAAGA
GTGTGTAAGTCCTTCCG
Found at i:27601 original size:81 final size:80
Alignment explanation
Indices: 27390--27654 Score: 217
Period size: 81 Copynumber: 3.3 Consensus size: 80
27380 TACATCTTCT
** * * * * * ** * *
27390 TTAAACCCCATGTAGCATTTACTGCACATTTTCCTAATTTACCTTTGCAAGTGGTTGGAAAAAGG
1 TTAAACCAAATGTAGCATTTATTGCA-AATTACCT-ATTTAACTCTGCAAGTGGGAGGAGAGAGG
*
27455 GTGTGTAAGT-CTCTCCG
64 GTGTGTAAGTCCT-TTCG
* * * * * * * * *
27472 TTAAACCCAATGTAGCTTTTATCGCACATTATCTAATTGACCCTTGCAAGTGGGAGGAGAGAGAG
1 TTAAACCAAATGTAGCATTTATTGCAAATTACCTATTTAACTC-TGCAAGTGGGAGGAGAGAGGG
27537 TGTGTAAGTCCTTTCG
65 TGTGTAAGTCCTTTCG
* *
27553 TTAAACCAAATGTAGCATTTATTGCAAATTACCTACTTTAACTCTGCAAGTAGGAAGAGAGAGGG
1 TTAAACCAAATGTAGCATTTATTGCAAATTACCTA-TTTAACTCTGCAAGTGGGAGGAGAGAGGG
** * * *
27618 TCAGTAAATCCCTTCA
65 TGTGTAAGTCCTTTCG
*
27634 TTAAATCAAATGTAGCATTTA
1 TTAAACCAAATGTAGCATTTA
27655 ATCAACATTA
Statistics
Matches: 144, Mismatches: 36, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
80 4 0.03
81 111 0.77
82 29 0.20
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (80 bp):
TTAAACCAAATGTAGCATTTATTGCAAATTACCTATTTAACTCTGCAAGTGGGAGGAGAGAGGGT
GTGTAAGTCCTTTCG
Found at i:27798 original size:135 final size:135
Alignment explanation
Indices: 27549--27810 Score: 323
Period size: 135 Copynumber: 1.9 Consensus size: 135
27539 TGTAAGTCCT
* * *
27549 TTCGTTAAACCAAATGTAGCATTTATTGCAAATTACCTACTTTAACTCTGCAAGTAGGAAGAGAG
1 TTCGTTAAACCAAAGGTAGCATTTACTGCAAATTACCTAATTTAACTCTGCAAGTAGGAAGAGAG
* * *
27614 AGGGTCAGTAAATCCCTTCATTAAATCAAATGTAGCATTTAATCAACATTACCGAATTTACCACT
66 AGGGTCAGTAAATCCATTCATTAAACCAAACGTAGCATTTAATCAACATTACCGAATTTACCACT
27679 ACACC
131 ACACC
* * * *
27684 TTCGTTAAACCCAAGGTAGCATTTACTG-AACATTACCTAATTTAA-TCTTGCGAGTGGGAGGAG
1 TTCGTTAAACCAAAGGTAGCATTTACTGCAA-ATTACCTAATTTAACTC-TGCAAGTAGGAAGAG
* * * * * * *
27747 AGAGGGTGAGTAAGTCTATTCGTTAAACCCAACGTAGCATTTACTGC-ACATTACTGAATTTACC
64 AGAGGGTCAGTAAATCCATTCATTAAACCAAACGTAGCATTTAAT-CAACATTACCGAATTTACC
27811 CTTGCAAGTG
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
134 4 0.04
135 102 0.95
136 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (135 bp):
TTCGTTAAACCAAAGGTAGCATTTACTGCAAATTACCTAATTTAACTCTGCAAGTAGGAAGAGAG
AGGGTCAGTAAATCCATTCATTAAACCAAACGTAGCATTTAATCAACATTACCGAATTTACCACT
ACACC
Found at i:27821 original size:81 final size:81
Alignment explanation
Indices: 27683--28213 Score: 526
Period size: 81 Copynumber: 6.6 Consensus size: 81
27673 ACCACTACAC
* * * ** *
27683 CTTCGTTAAACCCAAGGTAGCATTTACTGAACATTACCTAATTTAATCTTGCGAGTGGGAGGAGA
1 CTTCGTTAAACCCAATGTAGCATTTATTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAGA
27748 GAGGGTGAGTAAGTCT
66 GAGGGTGAGTAAGTCT
* * * *
27764 ATTCGTTAAACCCAACGTAGCATTTACTGCACATTA-CTGAATTTACCCTTGCAAGTGGGTGGAG
1 CTTCGTTAAACCCAATGTAGCATTTATTGCACATTACCT-AATTTACCCTTGCAAGTGGGAGGAG
* *
27828 AGAGGTTGAGTAAGTCC
65 AGAGGGTGAGTAAGTCT
* * * * * * *
27845 CTTCGTTAAACTCAATTTAGTATTTATTACA-ATTATCTAATTTACCCTTACAAGTGCGAGGAGA
1 CTTCGTTAAACCCAATGTAGCATTTATTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAGA
* * * *
27909 AATGGTGAGCAAATC-
66 GAGGGTGAGTAAGTCT
* * * * *
27924 CTTCGTTAAACCTAATGTTGGATTTATCGCA-ATTACCTTATTTACCCTTGCAAGTGGGAGGAG-
1 CTTCGTTAAACCCAATGTAGCATTTATTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAGA
*
27987 GTAGAGTGAGTAAGTC-
66 G-AGGGTGAGTAAGTCT
* * * * **
28003 CTTTTGTTAAA-CCAATGTAGCATTTGA-TGCATATTACCTAATTTAACTTTGCAAGTGGGATAA
1 C-TTCGTTAAACCCAATGTAGCATTT-ATTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGA
* * * *
28066 TAGAAGGTGATTAA-TTT
64 GAGAGGGTGAGTAAGTCT
* * *
28083 CCTTCGTTAAACCCAATGTAGAATTTATTGCACATTACCTAATTTACCCTTCCAAGTGGGAGGAC
1 -CTTCGTTAAACCCAATGTAGCATTTATTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAG
*
28148 AGAGGGTGAGTAACTC-
65 AGAGGGTGAGTAAGTCT
* *
28164 CATTCGTTAAA-CCTATGTAGCATTTATTGCAAATTACCTAATTTACCCTT
1 C-TTCGTTAAACCCAATGTAGCATTTATTGCACATTACCTAATTTACCCTT
28214 TGTTAAACCC
Statistics
Matches: 367, Mismatches: 70, Indels: 27
0.79 0.15 0.06
Matches are distributed among these distances:
79 78 0.21
80 128 0.35
81 160 0.44
82 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (81 bp):
CTTCGTTAAACCCAATGTAGCATTTATTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAGA
GAGGGTGAGTAAGTCT
Found at i:27848 original size:216 final size:217
Alignment explanation
Indices: 27470--27859 Score: 502
Period size: 216 Copynumber: 1.8 Consensus size: 217
27460 TAAGTCTCTC
* * * * *
27470 CGTTAAACCCAATGTAGCTTTTATCGCACATTATCTAATTGACCCTTGCAAGTGGGAGGAGAGAG
1 CGTTAAACCCAAGGTAGCATTTATCGAACATTACCTAATTGAACCTTGCAAGTGGGAGGAGAGAG
* * * *
27535 AGTGTGTAAGTCCTTTCGTTAAACCAAATGTAGCATTTATTGCAAATTACCTACTTTAACTCTGC
66 AGTGAGTAAGTCCTTTCGTTAAACCAAACGTAGCATTTACTGCAAATTACCTAATTTAACTCTGC
27600 AAGTAGGAAGAGAGAGGGTCAGTAAATCCCTTCATTAAA-TCAAATGTAGCATTTAATCAACATT
131 AAGTAGGAAGAGAGAGGGTCAGTAAATCCCTTCATTAAACTCAAATGTAGCATTTAATCAACATT
27664 ACCGAATTTACCACTACACCTT
196 ACCGAATTTACCACTACACCTT
* * *
27686 CGTTAAACCCAAGGTAGCATTTA-CTGAACATTACCTAATTTAATCTTGCGAGTGGGAGGAGAGA
1 CGTTAAACCCAAGGTAGCATTTATC-GAACATTACCTAATTGAACCTTGCAAGTGGGAGGAGAGA
* * * *
27750 GGGTGAGTAAGT-CTATTCGTTAAACCCAACGTAGCATTTACTGCACATTA-CTGAATTT-ACCC
65 GAGTGAGTAAGTCCT-TTCGTTAAACCAAACGTAGCATTTACTGCAAATTACCT-AATTTAACTC
* ** * * * *
27812 TTGCAAGTGGGTGGAGAGAGGTTGAGTAAGTCCCTTCGTTAAACTCAA
128 -TGCAAGTAGGAAGAGAGAGGGTCAGTAAATCCCTTCATTAAACTCAA
27860 TTTAGTATTT
Statistics
Matches: 146, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
215 8 0.05
216 134 0.92
217 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (217 bp):
CGTTAAACCCAAGGTAGCATTTATCGAACATTACCTAATTGAACCTTGCAAGTGGGAGGAGAGAG
AGTGAGTAAGTCCTTTCGTTAAACCAAACGTAGCATTTACTGCAAATTACCTAATTTAACTCTGC
AAGTAGGAAGAGAGAGGGTCAGTAAATCCCTTCATTAAACTCAAATGTAGCATTTAATCAACATT
ACCGAATTTACCACTACACCTT
Found at i:28553 original size:135 final size:135
Alignment explanation
Indices: 28299--28555 Score: 327
Period size: 135 Copynumber: 1.9 Consensus size: 135
28289 TCCTTTCGTC
* * *
28299 AAACTCAATGCAGTAATTACTGCATATTATCTAAATTAAAATTGTAAGTGGGAGGAGAGAGGGTG
1 AAACTCAATGCAGCAATTACTGCATATTATCTAAATTAAAATTGCAAGTAGGAGGAGAGAGGGTG
* * * * * * ** *
28364 AGTAAGTCTTTTCGTTAAACCTAATCTATCTTTTATTGCACATTGTCTATTTTACCCTCACACCT
66 AGTAAGTCCTTTCGTTAAACCCAATCTACCATTTACTACACATTACCTAATTTACCCTCACACCT
28429 TCGAT
131 TCGAT
* * * * **
28434 AAACTCAATGTAGCATTTATTGCATATTA-CTAATTTAACCTTGCAAGTAGGAGGAGAGAGGGTG
1 AAACTCAATGCAGCAATTACTGCATATTATCTAAATTAAAATTGCAAGTAGGAGGAGAGAGGGTG
*
28498 AGTAAGTCCTTTCGTTAAAACCCAATGTACCATTTACTACACATTACCTAATTTACCC
66 AGTAAGTCCTTTCGTT-AAACCCAATCTACCATTTACTACACATTACCTAATTTACCC
28556 ATGCAAGTAG
Statistics
Matches: 102, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
134 45 0.44
135 57 0.56
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (135 bp):
AAACTCAATGCAGCAATTACTGCATATTATCTAAATTAAAATTGCAAGTAGGAGGAGAGAGGGTG
AGTAAGTCCTTTCGTTAAACCCAATCTACCATTTACTACACATTACCTAATTTACCCTCACACCT
TCGAT
Found at i:28624 original size:81 final size:81
Alignment explanation
Indices: 28426--29588 Score: 751
Period size: 81 Copynumber: 14.6 Consensus size: 81
28416 TACCCTCACA
* * * * * *
28426 CCTTCGATAAACTCAATGTAGCATTTATTGCATATTA-CTAATTTAACCTTGCAAGTAGGAGGAG
1 CCTTCGTTAAACCCAATGTAGCATTTACTACACATTACCTAATTTACCCTTGCAAGTAGGAGGAG
*
28490 AGAGGGTGAGTAAGTC
66 AGAGAGTGAGTAAGTC
* * *
28506 CTTTCGTTAAAACCCAATGTACCATTTACTACACATTACCTAATTTACCCATGCAAGTAGGAGGA
1 CCTTCGTT-AAACCCAATGTAGCATTTACTACACATTACCTAATTTACCCTTGCAAGTAGGAGGA
* * *
28571 AAGTGAGTGAGTTAGTC
65 GAGAGAGTGAGTAAGTC
* * * * * *
28588 CCTTCGTTAAACCCAATTTTGTATTTACTACACATTATCTAATTTACCCTTGCAACTGGGAGGAG
1 CCTTCGTTAAACCCAATGTAGCATTTACTACACATTACCTAATTTACCCTTGCAAGTAGGAGGAG
* *
28653 ATGAG-TTGAGCAAGTC
66 A-GAGAGTGAGTAAGTC
* * * * * * **
28669 CCTCCGTTAAACCCAATGCAGCATTTACTGCACATTAGCTAATTTACTCTTGCAAGTGGGAGCCG
1 CCTTCGTTAAACCCAATGTAGCATTTACTACACATTACCTAATTTACCCTTGCAAGTAGGAGGAG
* *
28734 AGAGGGTGGGTAAGTC
66 AGAGAGTGAGTAAGTC
* * * * * *
28750 GCTTCGTTAAA-CTAATTTATAACATTTA-TA-AGAATTACCTAATTTGCCCTTGCAAGT-GAGA
1 CCTTCGTTAAACCCAA--TGTAGCATTTACTACA-CATTACCTAATTTACCCTTGCAAGTAG-GA
*
28811 TGAGAGAGAGTGAGTAAGTC
62 GGAGAGAGAGTGAGTAAGTC
* * * * * **
28831 CTTTCGTGAAATCCAATGTAGCATTTACTACACATTACCTAATTTAACCTTGCAAGTGGGATAAG
1 CCTTCGTTAAACCCAATGTAGCATTTACTACACATTACCTAATTTACCCTTGCAAGTAGGAGGAG
* *
28896 GGAGGGT-AGGTAAGGT-
66 AGAGAGTGA-GTAA-GTC
* * * * * * * ** * *
28912 GCTTCGTTAAACCCAACGTAGAATTTATTGCGCA-TATCCTAATTTACCTTTGCATTTGGGAGGT
1 CCTTCGTTAAACCCAATGTAGCATTTACTACACATTA-CCTAATTTACCCTTGCAAGTAGGAGGA
* * *
28976 GAGCGGGTGAGTAACTC
65 GAGAGAGTGAGTAAGTC
* * ** * * * * *
28993 TCTTCGTTAAACCCAATTTTTCATTTATTGCACATTATCTAATTTAACCTTGCAAGTGGGAGGAG
1 CCTTCGTTAAACCCAATGTAGCATTTACTACACATTACCTAATTTACCCTTGCAAGTAGGAGGAG
* *
29058 AGAGGGTGAGTAACTC
66 AGAGAGTGAGTAAGTC
* * * * * * ** ** *
29074 CCCTCGTTAAACCC-ATGTAACTTTTATTACACATTACTTAATTTATCCTTATAAGGGGGAAGAG
1 CCTTCGTTAAACCCAATGTAGCATTTACTACACATTACCTAATTTACCCTTGCAAGTAGGAGGAG
* * *
29138 AGAGGGTGAGTAATTT
66 AGAGAGTGAGTAAGTC
* * * * ** *
29154 CCTTCGTTAAACCC-A---A-C----A-TAGATATTATCTAATTGACCCTACCAAGTGGGAGGAG
1 CCTTCGTTAAACCCAATGTAGCATTTACTACACATTACCTAATTTACCCTTGCAAGTAGGAGGAG
* *
29209 AGATATTATGAGTAAG-C
66 AGAGA--GTGAGTAAGTC
* * * * *
29226 CCTTTCATTAAACCCAATTTAGCTTTTACTGCACATTACCTAATTTACCCTTGCAAGTCA-AAGG
1 CC-TTCGTTAAACCCAATGTAGCATTTACTACACATTACCTAATTTACCCTTGCAAGT-AGGAGG
29290 A-A-AGAG-G-GTAAGTC
64 AGAGAGAGTGAGTAAGTC
* * * * * *
29304 CCTTCATTAAAGCCAATGTAGAATTTACTGCGCATTACCTAATTTACCCTTGCACGT--G-GGAG
1 CCTTCGTTAAACCCAATGTAGCATTTACTACACATTACCTAATTTACCCTTGCAAGTAGGAGGAG
* * *
29366 TG-G-GTGGGTAACTC
66 AGAGAGTGAGTAAGTC
* ** ** *
29380 CCTTCGTTAAACCTAAT-TCTTCATTTACCGCACATTACCTAATTTACCCTTGCTAA-TGGGAGG
1 CCTTCGTTAAACCCAATGT-AGCATTTACTACACATTACCTAATTTACCCTTGC-AAGTAGGAGG
* *
29443 AGAGAGTGTGAGTAAATC
64 AGAGAGAGTGAGTAAGTC
* * * * * * *
29461 CCTTCGTTTAACCTAATTTTGCATTTAC-AGCACATTACCTAATTCAACCTTGCAAGT-GGA-AA
1 CCTTCGTTAAACCCAATGTAGCATTTACTA-CACATTACCTAATTTACCCTTGCAAGTAGGAGGA
*
29523 GAGAGAGGTTAGGTAAGTC
65 GAGAGA-GTGA-GTAAGTC
* * * *
29542 CCTTCGTTAAATCTAAAGTAGCATTTACTGCACATTACCTAATTTAC
1 CCTTCGTTAAACCCAATGTAGCATTTACTACACATTACCTAATTTAC
29589 TCGTACAGAT
Statistics
Matches: 848, Mismatches: 185, Indels: 99
0.75 0.16 0.09
Matches are distributed among these distances:
71 29 0.03
72 3 0.00
73 18 0.02
74 5 0.01
75 3 0.00
76 51 0.06
77 57 0.07
78 6 0.01
79 11 0.01
80 102 0.12
81 470 0.55
82 67 0.08
83 26 0.03
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (81 bp):
CCTTCGTTAAACCCAATGTAGCATTTACTACACATTACCTAATTTACCCTTGCAAGTAGGAGGAG
AGAGAGTGAGTAAGTC
Found at i:29747 original size:81 final size:81
Alignment explanation
Indices: 29602--29886 Score: 389
Period size: 81 Copynumber: 3.5 Consensus size: 81
29592 TACAGATTTC
* *
29602 TTAAACCTAATGTAGCATTTACTGAACATTACCTAATTTACCTTTGCAAGGGGGACGAGG--GTG
1 TTAAACCTAATGTAGCATTTACTGCACATTACCTAATTTACCTTTGCAAGTGGGA-G-GGAAGTG
* * *
29665 GGTAAGCATGTCCCTTGG
64 GGTGAGTATGTCCCTTCG
* *
29683 TTAAACCTAATGTAGAATTTACTGCACATTACCTAATTTACCTTTGCTAGTGGGAGGGAAGTGGG
1 TTAAACCTAATGTAGCATTTACTGCACATTACCTAATTTACCTTTGCAAGTGGGAGGGAAGTGGG
*
29748 TGAGTATATCCCTTCG
66 TGAGTATGTCCCTTCG
* * * *
29764 TTAAACCTAATATAGCATTTATTGCACATTAACTAATTTATCC-TTGCAAGTGGGA-GGAGAGTA
1 TTAAACCTAATGTAGCATTTACTGCACATTACCTAATTTA-CCTTTGCAAGTGGGAGGGA-AGTG
29827 GGTGAGTATGTCCCTTCG
64 GGTGAGTATGTCCCTTCG
*
29845 TTAAACCTAATGTAGCATTTGCTGCACATTACCTAATTTACC
1 TTAAACCTAATGTAGCATTTACTGCACATTACCTAATTTACC
29887 CTTACACCTT
Statistics
Matches: 181, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.01
80 6 0.03
81 171 0.94
82 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (81 bp):
TTAAACCTAATGTAGCATTTACTGCACATTACCTAATTTACCTTTGCAAGTGGGAGGGAAGTGGG
TGAGTATGTCCCTTCG
Found at i:29919 original size:297 final size:294
Alignment explanation
Indices: 29310--30026 Score: 872
Period size: 297 Copynumber: 2.4 Consensus size: 294
29300 AGTCCCTTCA
* * * *
29310 TTAAAGCCAATGTAGAATTTACTGCGCATTACCTAATTTACCCTTGCACGTGGGAGTGGGTGGGT
1 TTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGTGGGTGGGT
* * * *
29375 AA-C--TCCCTTCGTTAAACCTAATTCTTCATTTACCGCACATTACCTAATTTACCCTTGCTAAT
66 AAGCTGTCCCTTGGTTAAACCTAATT-TGCATTTACTGCACATTACCTAATTTACCTTTGCTAAT
* * * *
29437 GGGAGGAGAGAGTGTGAGTAAATCCCTTCGTTTAACCTAATTTTGCATTTACAGCACATTACCTA
130 GGGAGGAGAGAGTGTGAGTAAATCCCTTCGTTAAACCTAATATAGCATTTACAGCACATTAACTA
* *
29502 ATTCAACCTTGCAAGTGGAAAGAGAGAGGTTAGGTAAGTCCCTTCGTTAAATCTAAAGTAGCATT
195 ATTCAACCTTGCAAGTGGAAAGAGAGAGGTGAGGTAAGTCCCTTCGTTAAACCTAAAGTAGCATT
* *
29567 TACTGCACATTACCTAATTTACTCGTACAGATTTC
260 TACTGCACATTACCTAATTTACCCGTACACATTTC
* * * * *
29602 TTAAACCTAATGTAGCATTTACTGAACATTACCTAATTTACCTTTGCAAGGGGGACGAGGGTGGG
1 TTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGA-GTGGGTGGG
* *
29667 TAAGCATGTCCCTTGGTTAAACCTAATGTAGAATTTACTGCACATTACCTAATTTACCTTTGCTA
65 TAAGC-TGTCCCTTGGTTAAACCTAAT-TTGCATTTACTGCACATTACCTAATTTACCTTTGCTA
* * **
29732 GTGGGAGG-GA-AGTGGGTGAGTATATCCCTTCGTTAAACCTAATATAGCATTTATTGCACATTA
128 ATGGGAGGAGAGAGT--GTGAGTAAATCCCTTCGTTAAACCTAATATAGCATTTACAGCACATTA
* * * * * *
29795 ACTAATTTATCCTTGCAAGTGGGAGGAGAGTAGGTGA-GTATGTCCCTTCGTTAAACCTAATGTA
191 ACTAATTCAACCTTGCAAGTGGAAAGAGAG-AGGTGAGGTAAGTCCCTTCGTTAAACCTAAAGTA
* * * *
29859 GCATTTGCTGCACATTACCTAATTTACCCTTACACCTTTG
255 GCATTTACTGCACATTACCTAATTTACCCGTACACATTTC
* * * *
29899 TTAAACCCAATGTTGCATTTACTGCATATTACCTAATTTACCCTTGCAAGTAGGAGTGGAGTCGG
1 TTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGTGG-GTGGG
* * * * *
29964 TGAGTTAGTCCC-TGCATTAAACCCAATTTTGCATTTACTGCACATTACCTAATTTAACTTTGC
65 TAAGCT-GTCCCTTG-GTTAAACCTAA-TTTGCATTTACTGCACATTACCTAATTTACCTTTGC
30027 AGGTTGGAGA
Statistics
Matches: 359, Mismatches: 53, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
292 47 0.13
293 11 0.03
294 1 0.00
295 3 0.01
296 8 0.02
297 282 0.79
298 7 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (294 bp):
TTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGTGGGTGGGT
AAGCTGTCCCTTGGTTAAACCTAATTTGCATTTACTGCACATTACCTAATTTACCTTTGCTAATG
GGAGGAGAGAGTGTGAGTAAATCCCTTCGTTAAACCTAATATAGCATTTACAGCACATTAACTAA
TTCAACCTTGCAAGTGGAAAGAGAGAGGTGAGGTAAGTCCCTTCGTTAAACCTAAAGTAGCATTT
ACTGCACATTACCTAATTTACCCGTACACATTTC
Found at i:29930 original size:54 final size:54
Alignment explanation
Indices: 29839--29943 Score: 165
Period size: 54 Copynumber: 1.9 Consensus size: 54
29829 TGAGTATGTC
* *
29839 CCTTCGTTAAACCTAATGTAGCATTTGCTGCACATTACCTAATTTACCCTTACA
1 CCTTCGTTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTACA
* * *
29893 CCTTTGTTAAACCCAATGTTGCATTTACTGCATATTACCTAATTTACCCTT
1 CCTTCGTTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTT
29944 GCAAGTAGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.38
Consensus pattern (54 bp):
CCTTCGTTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTACA
Found at i:30005 original size:135 final size:135
Alignment explanation
Indices: 29758--30019 Score: 348
Period size: 135 Copynumber: 1.9 Consensus size: 135
29748 TGAGTATATC
* * * *
29758 CCTTCGTTAAACCTAATATAGCATTTATTGCACATTAACTAATTTATCCTTGCAAGTGGGAGGAG
1 CCTTCGTTAAACCCAATATAGCATTTACTGCACATTAACTAATTTACCCTTGCAAGTAGGAGGAG
* * * *
29823 AGTAGGTGAGTATGTCCCTTCGTTAAACCTAATGTAGCATTTGCTGCACATTACCTAATTTACCC
66 AGTAGGTGAGTATGTCCCTGCATTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCC
29888 TTACA
131 TTACA
* * * * *
29893 CCTTTGTTAAACCCAATGTTGCATTTACTGCATATTACCTAATTTACCCTTGCAAGTAGGAGTG-
1 CCTTCGTTAAACCCAATATAGCATTTACTGCACATTAACTAATTTACCCTTGCAAGTAGGAG-GA
* * *
29957 GAGTCGGTGAGT-TAGTCCCTGCATTAAACCCAATTTTGCATTTACTGCACATTACCTAATTTA
65 GAGTAGGTGAGTAT-GTCCCTGCATTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTA
30020 ACTTTGCAGG
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
134 1 0.01
135 107 0.98
136 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (135 bp):
CCTTCGTTAAACCCAATATAGCATTTACTGCACATTAACTAATTTACCCTTGCAAGTAGGAGGAG
AGTAGGTGAGTATGTCCCTGCATTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCC
TTACA
Found at i:30065 original size:81 final size:81
Alignment explanation
Indices: 29893--30065 Score: 193
Period size: 81 Copynumber: 2.1 Consensus size: 81
29883 TACCCTTACA
* * **
29893 CCTTTGTTAAACCCAATGTTGCATTTACTGCATATTACCTAATTTACCCTTGCAAGTAGGAGTGG
1 CCTTTGTTAAACCCAATGTTGCATTTACTGCACATTACCTAATTTAACCTTGCAAGTAGGAGAAG
* *
29958 AGTCGGTGAGTTAGTC
66 AGACGGTGAGTAAGTC
*** * * * *
29974 CCTGCATTAAACCCAATTTTGCATTTACTGCACATTACCTAATTTAACTTTGCAGGTTGGAGAAG
1 CCTTTGTTAAACCCAATGTTGCATTTACTGCACATTACCTAATTTAACCTTGCAAGTAGGAGAAG
* * *
30039 AGAGGGTGGGTAAGTT
66 AGACGGTGAGTAAGTC
*
30055 GCTTTGTTAAA
1 CCTTTGTTAAA
30066 TCAAATATGA
Statistics
Matches: 72, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (81 bp):
CCTTTGTTAAACCCAATGTTGCATTTACTGCACATTACCTAATTTAACCTTGCAAGTAGGAGAAG
AGACGGTGAGTAAGTC
Found at i:30299 original size:36 final size:36
Alignment explanation
Indices: 30259--30351 Score: 177
Period size: 36 Copynumber: 2.6 Consensus size: 36
30249 ACCGGCCACA
*
30259 CCGGCTACATGACCCGGCCATGCCGATCGCACAAGC
1 CCGGCCACATGACCCGGCCATGCCGATCGCACAAGC
30295 CCGGCCACATGACCCGGCCATGCCGATCGCACAAGC
1 CCGGCCACATGACCCGGCCATGCCGATCGCACAAGC
30331 CCGGCCACATGACCCGGCCAT
1 CCGGCCACATGACCCGGCCAT
30352 CCCCATGCAC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.22, C:0.44, G:0.25, T:0.10
Consensus pattern (36 bp):
CCGGCCACATGACCCGGCCATGCCGATCGCACAAGC
Found at i:31373 original size:81 final size:80
Alignment explanation
Indices: 31211--31660 Score: 451
Period size: 81 Copynumber: 5.6 Consensus size: 80
31201 GTATAATTTT
* * *
31211 GTTAAACCCAATGA-AGCAGTTACTGCACATTA-CTAATTTAACCTTGCAAGTGAGAGGAGATAG
1 GTTAAACCCAAT-ATAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAGATA-
* * *
31274 GGTGATTGAGTCACTTC
64 GGTGAGTAAGTCCCTTC
* * *
31291 GTTAAACCCAATATAGGATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGATGAAAGTAG
1 GTTAAACCCAATATAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAGA-TAG
**
31356 GTGAGTAAGTCTTTTC
65 GTGAGTAAGTCCCTTC
* ** * * * *
31372 GTTAAACCCAATTTTTCATTTATTGCATATTACCTAATTTACTCC-TGCAAGTGGGACGAGAAAA
1 GTTAAACCCAATATAGCATTTACTGCACATTACCTAATTTAC-CCTTGCAAGTGGGAGGAG-ATA
*
31436 GGTGAGTAAGTCCCTTT
64 GGTGAGTAAGTCCCTTC
* ** *
31453 GTTAAACCCAATCTAGCATTTACAACTA-ATTACCTAATTTACCCTTGCAACTGGGAGGAGATGA
1 GTTAAACCCAATATAGCATTTACTGC-ACATTACCTAATTTACCCTTGCAAGTGGGAGGAGAT-A
* * *
31517 GTTGAGCAAGTCCCTCC
64 GGTGAGTAAGTCCCTTC
* * * *
31534 GTTAAACCCAATGTAGCATTTACTGCACATTAGCTAATTTACTCTTGCAAGTGGGAGCCGAGA-G
1 GTTAAACCCAATATAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAG--GAGATA
*
31598 GGTGGGTAAGTCCCTTC
64 GGTGAGTAAGTCCCTTC
** * * * *
31615 GTTAAACTTAATGTAGCATTTATTGTATATTACCTAATTTACCCTT
1 GTTAAACCCAATATAGCATTTACTGCACATTACCTAATTTACCCTT
31661 ACACCTTCTT
Statistics
Matches: 306, Mismatches: 53, Indels: 21
0.81 0.14 0.06
Matches are distributed among these distances:
79 1 0.00
80 32 0.10
81 263 0.86
82 6 0.02
83 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (80 bp):
GTTAAACCCAATATAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAGATAGG
TGAGTAAGTCCCTTC
Found at i:31706 original size:54 final size:54
Alignment explanation
Indices: 31610--31714 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
31600 TGGGTAAGTC
** * ** * *
31610 CCTTCGTTAAACTTAATGTAGCATTTATTGTATATTACCTAATTTACCCTTACA
1 CCTTCGTTAAACCAAATGTAGCATTTACTACACATTACCTAATTTAACCTTACA
* *
31664 CCTTCTTTAAACCAAATGTAGCATTTACTACACATTAGCTAATTTAACCTT
1 CCTTCGTTAAACCAAATGTAGCATTTACTACACATTACCTAATTTAACCTT
31715 GAAAGTAGGA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (54 bp):
CCTTCGTTAAACCAAATGTAGCATTTACTACACATTACCTAATTTAACCTTACA
Found at i:31790 original size:135 final size:135
Alignment explanation
Indices: 31535--31797 Score: 327
Period size: 135 Copynumber: 1.9 Consensus size: 135
31525 AGTCCCTCCG
* * * * *
31535 TTAAACCCAATGTAGCATTTACTGCACATTAGCTAATTTACTCTTGCAAGTGGGAGCCGAGAGGG
1 TTAAACCAAATGTAGCATTTACTACACATTAGCTAATTTACTCTTGAAAGTAGGAGCAGAGAGGG
*** * *
31600 TGGGTAAGTCCCTTCGTTAAACTTAATGTAGCATTTATTGTATATTACCTAATTTACCCTTACAC
66 TCAATAAGTCCCTTCGTTAAACTTAATGTAGCATTTATTGTACATGACCTAATTTACCCTTACAC
31665 CTTCT
131 CTTCT
*
31670 TTAAACCAAATGTAGCATTTACTACACATTAGCTAATTTAAC-CTTGAAAGTAGGAGGAGAGAGG
1 TTAAACCAAATGTAGCATTTACTACACATTAGCTAATTT-ACTCTTGAAAGTAGGAGCAGAGAGG
* * * *
31734 GTCAATAAGTCCCTTTGTTAAA-TTCAATTTAGCATTTCA-TG-AGCATGACCTGATTTATCCTT
65 GTCAATAAGTCCCTTCGTTAAACTT-AATGTAGCATTT-ATTGTA-CATGACCTAATTTACCCTT
31796 AC
127 AC
31798 CCGCGGGAGG
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
134 3 0.03
135 103 0.94
136 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (135 bp):
TTAAACCAAATGTAGCATTTACTACACATTAGCTAATTTACTCTTGAAAGTAGGAGCAGAGAGGG
TCAATAAGTCCCTTCGTTAAACTTAATGTAGCATTTATTGTACATGACCTAATTTACCCTTACAC
CTTCT
Found at i:31993 original size:81 final size:80
Alignment explanation
Indices: 31672--31963 Score: 182
Period size: 81 Copynumber: 3.6 Consensus size: 80
31662 CACCTTCTTT
* * * * *
31672 AAACCAAATGTAGCATTTACTACACATTAGCTAATTTAACCTTGAAAGT-AGGAGGAGAGAGGGT
1 AAACCCAATGTAGCATTTACTACA-ATTACCTAATTTAACCTTGCAAGTGA-GAGAAGAGAGAGT
* * *
31736 CAATAAGTCCCTTT-GTT
64 GAGTAAGT-CCTTTCGTG
** * * * * * ** * *
31753 AAATTCAATTTAGCATTT-CATGAGC-ATGACCTGATTTATCCTTACCCGCGGGAGGAAG-GA-A
1 AAACCCAATGTAGCATTTAC-T-A-CAATTACCTAATTTAACCTTGCAAGTGAGA-GAAGAGAGA
* * * *
31814 GGTGAGTAACTCCCTTCCTT
62 -GTGAGTAAGTCCTTTCGTG
* * * * ** *
31834 AAACTCAATGTAACATTTATTAGAATTACCTAATTTGCCCTTGCAAGTGAGAGGAGAGAGAGTGA
1 AAACCCAATGTAGCATTTACTACAATTACCTAATTTAACCTTGCAAGTGAGAGAAGAGAGAGTGA
31899 GTAAGTCCTTTCGTG
66 GTAAGTCCTTTCGTG
*
31914 AAATCCAATGTAGCATTTACTACACATTACCTAATTTAACCTTGCAAGTG
1 AAACCCAATGTAGCATTTACTACA-ATTACCTAATTTAACCTTGCAAGTG
31964 GGATAAGGGA
Statistics
Matches: 152, Mismatches: 47, Indels: 24
0.68 0.21 0.11
Matches are distributed among these distances:
79 3 0.02
80 61 0.40
81 83 0.55
82 4 0.03
83 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (80 bp):
AAACCCAATGTAGCATTTACTACAATTACCTAATTTAACCTTGCAAGTGAGAGAAGAGAGAGTGA
GTAAGTCCTTTCGTG
Found at i:32073 original size:81 final size:81
Alignment explanation
Indices: 31814--32250 Score: 237
Period size: 81 Copynumber: 5.4 Consensus size: 81
31804 GAGGAAGGAA
* * * * * **
31814 GGTGAGTAACTCCCTTCCTTAAACTCAATGTA-ACATTTATTAG-A-ATTACCTAATTTGCCCTT
1 GGTGAGTAACTCCCTTCGTTAAACCCAACGTAGA-AGTTATT-GTACATTATCTAATTTAACCTT
* *
31876 GCAAGTGAGAGGAGAGAG
64 ACAAGTGGGAGGAGAGAG
* * * * * * * * * ** * *
31894 AGTGAGTAAGTCCTTTCGTGAAATCCAATGTAGCATTTACTACACATTACCTAATTTAACCTTGC
1 GGTGAGTAACTCCCTTCGTTAAACCCAACGTAGAAGTTATTGTACATTATCTAATTTAACCTTAC
** *
31959 AAGTGGGATAAGGGAG
66 AAGTGGGAGGAGAGAG
* * * *
31975 GGT-AGGTAAGGT-GCTTCGTTAAACCCAACGTAGAATTTATTGTGCATT-TCCTAATTT-ACCT
1 GGTGA-GTAA-CTCCCTTCGTTAAACCCAACGTAGAAGTTATTGTACATTAT-CTAATTTAACCT
* * * *
32036 ATGCATGTGGGAGGTGAGTG
63 -TACAAGTGGGAGGAGAGAG
** ***
32056 GGTGAGTAACTCCCTTCGTTAAACCCAATTTTTCAGTTATTGTACATTATCTAATTTAACCTTAC
1 GGTGAGTAACTCCCTTCGTTAAACCCAACGTAGAAGTTATTGTACATTATCTAATTTAACCTTAC
32121 AAGTGGGAGGAGAGAG
66 AAGTGGGAGGAGAGAG
* * * * ** ** * *
32137 GGTGAGTAACTCCCCTCGTTAAGCTC-ATGTA-ACTTTTATTACACATTA-CTTACTTTACCCTT
1 GGTGAGTAACTCCCTTCGTTAAACCCAACGTAGA-AGTTATTGTACATTATC-TAATTTAACCTT
* * *
32199 ATAAGGGGGAAGAGAGAG
64 ACAAGTGGGAGGAGAGAG
* * * *
32217 GGTGATTAATTTCCTTCGTTAAACCCAACATAGA
1 GGTGAGTAACTCCCTTCGTTAAACCCAACGTAGA
32251 CATTATCTAA
Statistics
Matches: 272, Mismatches: 70, Indels: 28
0.74 0.19 0.08
Matches are distributed among these distances:
79 1 0.00
80 97 0.36
81 165 0.61
82 9 0.03
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (81 bp):
GGTGAGTAACTCCCTTCGTTAAACCCAACGTAGAAGTTATTGTACATTATCTAATTTAACCTTAC
AAGTGGGAGGAGAGAG
Found at i:32620 original size:81 final size:81
Alignment explanation
Indices: 32458--32720 Score: 281
Period size: 81 Copynumber: 3.3 Consensus size: 81
32448 CCAATGTAGA
* * * * *
32458 ATTTACTGCGCATTATCTAATTTACCCTTGCAAGTGG---GAGTG-GGTG-GGTAACTCCCTTCG
1 ATTTACAGCACATTACCTAATTTACCCTTGCAAGTGGAAAGAGAGAGGTGAGGTAAATCCCTTCG
32518 TTAAACCTAATTCTT-C
66 TTAAACCTAATT-TTGC
* * *
32534 ATTTACCGCACATTACCTAATTTACCCTTGCTAA-TGGGAGGAGAGAGTGTGA-GTAAATCCCTT
1 ATTTACAGCACATTACCTAATTTACCCTTGC-AAGTGGAAAGAGAGAG-GTGAGGTAAATCCCTT
*
32597 CGTTTAACCTAATTTTGC
64 CGTTAAACCTAATTTTGC
* * * *
32615 ATTTACAGCACATTACCTAATTCAACCTTGCAAGTGGAAAGAGAGAGGTTAGGTAAGTCCCTTCG
1 ATTTACAGCACATTACCTAATTTACCCTTGCAAGTGGAAAGAGAGAGGTGAGGTAAATCCCTTCG
* ** *
32680 TTAAATCTAAAGTAGC
66 TTAAACCTAATTTTGC
*
32696 ATTTACTGCACATTACCTAATTTAC
1 ATTTACAGCACATTACCTAATTTAC
32721 TCGTACAGAT
Statistics
Matches: 156, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
76 31 0.20
77 2 0.01
79 4 0.03
80 8 0.05
81 111 0.71
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (81 bp):
ATTTACAGCACATTACCTAATTTACCCTTGCAAGTGGAAAGAGAGAGGTGAGGTAAATCCCTTCG
TTAAACCTAATTTTGC
Found at i:32844 original size:135 final size:135
Alignment explanation
Indices: 32602--32855 Score: 350
Period size: 135 Copynumber: 1.9 Consensus size: 135
32592 CCCTTCGTTT
* * * *
32602 AACCTAATTTTGCATTTACAGCACATTACCTAATTCAACCTTGCAAGTGGAAAGAGAGAGGTTAG
1 AACCTAATGTAGCATTTACAGAACATTACCTAATTCAACCTTGCAAGTGGAAAGAGAGAGGTTAA
* *
32667 GTAAGTCCCTTCGTTAAATCTAAAGTAGCATTTACTGCACATTACCTAATTTACTCGTACAGATT
66 GTAAGTCCCTTCGTTAAACCTAAAGTAGAATTTACTGCACATTACCTAATTTACTCGTACAGATT
32732 TCTTA
131 TCTTA
* * * * *
32737 AACCTAATGTAGCATTTACTGAACATTACCTAATT-TACCTTTGCAAGTGGGAGGAGGGTAGG-T
1 AACCTAATGTAGCATTTACAGAACATTACCTAATTCAACC-TTGCAAGTGGAAAGAGAG-AGGTT
* * *
32800 AAGTATGTCCCTTGGTTAAACCTAATGTAGAATTTACTGCACATTACCTAATTTAC
64 AAGTAAGTCCCTTCGTTAAACCTAAAGTAGAATTTACTGCACATTACCTAATTTAC
32856 CTTTGCTAGT
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
134 3 0.03
135 97 0.94
136 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (135 bp):
AACCTAATGTAGCATTTACAGAACATTACCTAATTCAACCTTGCAAGTGGAAAGAGAGAGGTTAA
GTAAGTCCCTTCGTTAAACCTAAAGTAGAATTTACTGCACATTACCTAATTTACTCGTACAGATT
TCTTA
Found at i:32869 original size:81 final size:81
Alignment explanation
Indices: 32734--33018 Score: 430
Period size: 81 Copynumber: 3.5 Consensus size: 81
32724 TACAGATTTC
* *
32734 TTAAACCTAATGTAGCATTTACTGAACATTACCTAATTTACCTTTGCAAGTGGGAGGAGGGTAGG
1 TTAAACCTAATGTAGCATTTACTGCACATTACCTAATTTACCTTTGCAAGTGGGAGGAGAGTAGG
* *
32799 TAAGTATGTCCCTTGG
66 TGAGTATGTCCCTTCG
* * *
32815 TTAAACCTAATGTAGAATTTACTGCACATTACCTAATTTACCTTTGCTAGTGGGAGG-GAAGTGG
1 TTAAACCTAATGTAGCATTTACTGCACATTACCTAATTTACCTTTGCAAGTGGGAGGAG-AGTAG
32879 GTGAGTATGTCCCTTCG
65 GTGAGTATGTCCCTTCG
* * * *
32896 TTAAACCTAATATAGCATTTATTGCACATTAACTAATTTATCC-TTGCAAGTGGGAGGAGATTAG
1 TTAAACCTAATGTAGCATTTACTGCACATTACCTAATTTA-CCTTTGCAAGTGGGAGGAGAGTAG
32960 GTGAGTATGTCCCTTCG
65 GTGAGTATGTCCCTTCG
*
32977 TTAAACCTAATGTAGCATTTGCTGCACATTACCTAATTTACC
1 TTAAACCTAATGTAGCATTTACTGCACATTACCTAATTTACC
33019 CTTACACCTT
Statistics
Matches: 183, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
80 3 0.02
81 177 0.97
82 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (81 bp):
TTAAACCTAATGTAGCATTTACTGCACATTACCTAATTTACCTTTGCAAGTGGGAGGAGAGTAGG
TGAGTATGTCCCTTCG
Found at i:32893 original size:216 final size:216
Alignment explanation
Indices: 32533--32935 Score: 503
Period size: 216 Copynumber: 1.9 Consensus size: 216
32523 CCTAATTCTT
* *
32533 CATTTACCGCACATTACCTAATTTACCCTTGCTAATGGGAGGAGAGAGTGTGAGTAAATCCCTTC
1 CATTTACCGAACATTACCTAATTTACCCTTGCTAATGGGAGGAGAGAGTGTAAGTAAATCCCTTC
* * * *
32598 GTTTAACCTAATTTTGCATTTACAGCACATTACCTAATTCAACCTTGCAAGTGGAAAGAGAGAGG
66 GTTAAACCTAATGTAGAATTTACAGCACATTACCTAATTCAACCTTGCAAGTGGAAAGAGAGAGG
* * *
32663 TTAGGTAAGTCCCTTCGTTAAATCTAA-AGTAGCATTTACTGCACATTACCTAATTTACTCGTAC
131 TGAGGTAAGTCCCTTCGTTAAACCTAATA-TAGCATTTACTGCACATTAACTAATTTACTCGTAC
32727 AGATTTCTTAAACCTAATGTAG
195 AGATTTCTTAAACCTAATGTAG
* * * **
32749 CATTTACTGAACATTACCTAATTTACCTTTGC-AAGTGGGAGGAGGGTAG-GTAAGTATGTCCCT
1 CATTTACCGAACATTACCTAATTTACCCTTGCTAA-TGGGAGGAGAG-AGTGTAAGTAAATCCCT
* * * * * *
32812 TGGTTAAACCTAATGTAGAATTTACTGCACATTACCTAATT-TACCTTTGCTAGTGG-GAGGGAA
64 TCGTTAAACCTAATGTAGAATTTACAGCACATTACCTAATTCAACC-TTGCAAGTGGAAAGAG-A
* * *
32875 GTGGGTGA-GTATGTCCCTTCGTTAAACCTAATATAGCATTTATTGCACATTAACTAATTTA
127 G-AGGTGAGGTAAGTCCCTTCGTTAAACCTAATATAGCATTTACTGCACATTAACTAATTTA
32936 TCCTTGCAAG
Statistics
Matches: 158, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
215 8 0.05
216 143 0.91
217 7 0.04
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (216 bp):
CATTTACCGAACATTACCTAATTTACCCTTGCTAATGGGAGGAGAGAGTGTAAGTAAATCCCTTC
GTTAAACCTAATGTAGAATTTACAGCACATTACCTAATTCAACCTTGCAAGTGGAAAGAGAGAGG
TGAGGTAAGTCCCTTCGTTAAACCTAATATAGCATTTACTGCACATTAACTAATTTACTCGTACA
GATTTCTTAAACCTAATGTAG
Found at i:32979 original size:297 final size:293
Alignment explanation
Indices: 32437--33158 Score: 841
Period size: 297 Copynumber: 2.4 Consensus size: 293
32427 GGGTAAGTCC
* * * * *
32437 CTTCATTAAAGCCAATGTAGAATTTACTGCGCATTATCTAATTTACCCTTGCAAGTGGGAGTGGG
1 CTTCGTTAAA-CCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGGGG
** * * * *
32502 TGG---GTAACTCCCTTCGTTAAACCTAATTCTTCATTTACCGCACATTACCTAATTTACCCTTG
65 TGGTAAGTATGTCCCTTGGTTAAACCTAATT-TGCATTTACTGCACATTACCTAATTTACCTTTG
* * *
32564 CTAATGGGAGGAGAGAGTGTGAGTAAATCCCTTCGTTTAACCTAATTTTGCATTTACAGCACATT
129 CTAATGGGAGGAGAGAGTGTGAGTAAATCCCTTCGTTAAACCTAATATAGCATTTACAGCACATT
* * *
32629 ACCTAATTCAACCTTGCAAGTGGAAAGAGAGAGGTTAGGTAAGTCCCTTCGTTAAATCTAAAGTA
194 AACTAATTCAACCTTGCAAGTGGAAAGAGAGAGGTGAGGTAAGTCCCTTCGTTAAACCTAAAGTA
*
32694 GCATTTACTGCACATTACCTAATTTACTCGTACAGA
259 GCATTTACTGCACATTACCTAATTTACCCGTACA-A
* * *
32730 TTTC-TTAAACCTAATGTAGCATTTACTGAACATTACCTAATTTACCTTTGCAAGTGGGAGGAGG
1 CTTCGTTAAACC-AATGTAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGG-GG
* *
32794 GTAGGTAAGTATGTCCCTTGGTTAAACCTAATGTAGAATTTACTGCACATTACCTAATTTACCTT
64 GT-GGTAAGTATGTCCCTTGGTTAAACCTAAT-TTGCATTTACTGCACATTACCTAATTTACCTT
* ** **
32859 TGCTAGTGGGAGG-GA-AGTGGGTGAGTATGTCCCTTCGTTAAACCTAATATAGCATTTATTGCA
127 TGCTAATGGGAGGAGAGAGT--GTGAGTAAATCCCTTCGTTAAACCTAATATAGCATTTACAGCA
* * * * * *
32922 CATTAACTAATTTATCCTTGCAAGTGGGAGGAGATTAGGTGA-GTATGTCCCTTCGTTAAACCTA
190 CATTAACTAATTCAACCTTGCAAGTGGAAAGAGA-GAGGTGAGGTAAGTCCCTTCGTTAAACCTA
* * * *
32986 ATGTAGCATTTGCTGCACATTACCTAATTTACCCTTACAC
254 AAGTAGCATTTACTGCACATTACCTAATTTACCCGTACAA
* * *
33026 CTTCGTTAAACCCAATGTTGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTAGGAGTGGA
1 CTTCGTTAAA-CCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAG-GGG
* * *
33091 GTCGGTAAGT-TAGTCCC-TGCATTAAACCCAATTTTGCATTTACTGCACATTACCTAATTTAAC
64 GT-GGTAAGTAT-GTCCCTTG-GTTAAACCTAA-TTTGCATTTACTGCACATTACCTAATTTACC
33154 TTTGC
125 TTTGC
33159 AGGTTGGAGA
Statistics
Matches: 364, Mismatches: 49, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
291 2 0.01
292 48 0.13
293 7 0.02
294 2 0.01
295 3 0.01
296 8 0.02
297 284 0.78
298 10 0.03
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (293 bp):
CTTCGTTAAACCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGGGGT
GGTAAGTATGTCCCTTGGTTAAACCTAATTTGCATTTACTGCACATTACCTAATTTACCTTTGCT
AATGGGAGGAGAGAGTGTGAGTAAATCCCTTCGTTAAACCTAATATAGCATTTACAGCACATTAA
CTAATTCAACCTTGCAAGTGGAAAGAGAGAGGTGAGGTAAGTCCCTTCGTTAAACCTAAAGTAGC
ATTTACTGCACATTACCTAATTTACCCGTACAA
Found at i:33035 original size:54 final size:54
Alignment explanation
Indices: 32971--33075 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 54
32961 TGAGTATGTC
* *
32971 CCTTCGTTAAACCTAATGTAGCATTTGCTGCACATTACCTAATTTACCCTTACA
1 CCTTCGTTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTACA
*
33025 CCTTCGTTAAACCCAATGTTGCATTTACTGCACATTACCTAATTTACCCTT
1 CCTTCGTTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTT
33076 GCAAGTAGGA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.27, C:0.29, G:0.09, T:0.36
Consensus pattern (54 bp):
CCTTCGTTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTACA
Found at i:33137 original size:135 final size:135
Alignment explanation
Indices: 32890--33151 Score: 348
Period size: 135 Copynumber: 1.9 Consensus size: 135
32880 TGAGTATGTC
* * * *
32890 CCTTCGTTAAACCTAATATAGCATTTATTGCACATTAACTAATTTATCCTTGCAAGTGGGAGGAG
1 CCTTCGTTAAACCCAATATAGCATTTACTGCACATTAACTAATTTACCCTTGCAAGTAGGAGGAG
* * * * * *
32955 ATTAGGTGAGTATGTCCCTTCGTTAAACCTAATGTAGCATTTGCTGCACATTACCTAATTTACCC
66 AGTAGGTAAGTATGTCCCTGCATTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCC
33020 TTACA
131 TTACA
* * *
33025 CCTTCGTTAAACCCAATGTTGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTAGGAGTG-
1 CCTTCGTTAAACCCAATATAGCATTTACTGCACATTAACTAATTTACCCTTGCAAGTAGGAG-GA
* * *
33089 GAGTCGGTAAGT-TAGTCCCTGCATTAAACCCAATTTTGCATTTACTGCACATTACCTAATTTA
65 GAGTAGGTAAGTAT-GTCCCTGCATTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTA
33152 ACTTTGCAGG
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
134 1 0.01
135 107 0.98
136 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.34
Consensus pattern (135 bp):
CCTTCGTTAAACCCAATATAGCATTTACTGCACATTAACTAATTTACCCTTGCAAGTAGGAGGAG
AGTAGGTAAGTATGTCCCTGCATTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCC
TTACA
Found at i:33205 original size:216 final size:216
Alignment explanation
Indices: 32809--33205 Score: 494
Period size: 216 Copynumber: 1.8 Consensus size: 216
32799 TAAGTATGTC
* * * * *
32809 CCTTGGTTAAACCTAATGTAGAATTTACTGCACATTACCTAATTTACCTTTGCTAGTGGGAGGGA
1 CCTTCGTTAAACCCAATGTAGAATTTACTGCACATTACCTAATTTACCCTTGCAAGTAGGAGGGA
* * * * * * *
32874 AGTGGGTGAGTATGTCCCTTCGTTAAACCTAATATAGCATTTATTGCACATTAACTAATTTATCC
66 AGTCGGTAAGTATGTCCCTGCATTAAACCCAATATAGCATTTACTGCACATTAACTAATTTAACC
* * *
32939 TTGCAAGTGGGAGGAGATTAGGTGAGTATGTCCCTTCGTTAAACCTAATGTAGCATTTGCTGCAC
131 TTGCAAGTGGGAGAAGATGAGGTGAGTAAGTCCCTTCGTTAAACCTAATGTAGCATTTGCTGCAC
33004 ATTACCTAATTTACCCTTACA
196 ATTACCTAATTTACCCTTACA
* *
33025 CCTTCGTTAAACCCAATGTTGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTAGGAGTGG
1 CCTTCGTTAAACCCAATGTAGAATTTACTGCACATTACCTAATTTACCCTTGCAAGTAGGAG-GG
* * *
33090 -AGTCGGTAAGT-TAGTCCCTGCATTAAACCCAATTTTGCATTTACTGCACATTACCTAATTTAA
65 AAGTCGGTAAGTAT-GTCCCTGCATTAAACCCAATATAGCATTTACTGCACATTAACTAATTTAA
* * * * ** * *
33153 CTTTGCAGGTTGGAGAAGA-GAGGGTGGGTAAGTTGCTTTGTTAAATCTAATGT
129 CCTTGCAAGTGGGAGAAGATGA-GGTGAGTAAGTCCCTTCGTTAAACCTAATGT
33206 GATGCGCCAA
Statistics
Matches: 150, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
215 2 0.01
216 146 0.97
217 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (216 bp):
CCTTCGTTAAACCCAATGTAGAATTTACTGCACATTACCTAATTTACCCTTGCAAGTAGGAGGGA
AGTCGGTAAGTATGTCCCTGCATTAAACCCAATATAGCATTTACTGCACATTAACTAATTTAACC
TTGCAAGTGGGAGAAGATGAGGTGAGTAAGTCCCTTCGTTAAACCTAATGTAGCATTTGCTGCAC
ATTACCTAATTTACCCTTACA
Found at i:34445 original size:81 final size:80
Alignment explanation
Indices: 34307--34921 Score: 488
Period size: 81 Copynumber: 7.5 Consensus size: 80
34297 GTATAATTTT
* * * *
34307 GTTAAACCCAATGTAGCAGTTACTGCACATTA-CTAATTTAACCTTGCAAGTGAGAGGAGATAGG
1 GTTAAACCCAATATAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAGATAGG
* *
34371 ATGATTGAGTCACTTC
66 -TGAGTAAGTCACTTC
* * *
34387 GTTAAACCTAATATAGGATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAAAGTAG
1 GTTAAACCCAATATAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAGA-TAG
**
34452 GTGAGTAAGTCTTTTC
65 GTGAGTAAGTCACTTC
* ** * * * *
34468 GTTAAACCCAATTTTTCATTTATTGCATATTACCTAATTTACTCC-TGCAAGTGGGACGAGAAAA
1 GTTAAACCCAATATAGCATTTACTGCACATTACCTAATTTAC-CCTTGCAAGTGGGAGGAG-ATA
* *
34532 GGTGAGTAAGTCCCTTT
64 GGTGAGTAAGTCACTTC
* * * * * *
34549 GTTAAACCCAATCTAGCATTTACTACAAATTACCTAATTTACCCTTGCAAGTGGGA-CACATTAC
1 GTTAAACCCAATATAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAGA-TAG
* * * *
34613 CTAATTTACTGTTACACCTTC
65 GTGA-GTA-AG-T-CA-CTTC
* * * * * *
34634 TTTAAACCCAATGTAGCATTTACTGCATATTTTCCTAATTTACCCTTGCAAGTGGGAGGAAAAAG
1 GTTAAACCCAATATAGCATTTACTGCACA-TTACCTAATTTACCCTTGCAAGTGGGAGGAGATA-
*
34699 GGTGAGTAAGTCACTCC
64 GGTGAGTAAGTCACTTC
** * * * * *
34716 GTTAAACATAATCTAGCTTTTA-TCGCACATTATCTAATTTACGATCTTGCAAGTGGGAGGAGAG
1 GTTAAACCCAATATAGCATTTACT-GCACATTACCTAATTTAC--CCTTGCAAGTGGGAGGAGAT
34780 AGAGTGAGTAAGTC-CTTTC
63 AG-GTGAGTAAGTCAC-TTC
* * * *
34799 GTTAAA-CCATATATAGCATTTACTGCACATTACCTAATTTAACCGTGCAAGTAGGAGGAGAGAG
1 GTTAAACCCA-ATATAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAGATA-
* * * *
34863 GGTCAATAAGTCCCTTT
64 GGTGAGTAAGTCACTTC
** * * *
34880 GTTAAACGAAATCTAGCATTTAATTCACATTA-CTGAATTTAC
1 GTTAAACCCAATATAGCATTTACTGCACATTACCT-AATTTAC
34922 AATTACACCT
Statistics
Matches: 426, Mismatches: 84, Indels: 49
0.76 0.15 0.09
Matches are distributed among these distances:
79 1 0.00
80 36 0.08
81 220 0.52
82 38 0.09
83 66 0.15
84 3 0.01
85 29 0.07
86 29 0.07
87 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (80 bp):
GTTAAACCCAATATAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAGATAGG
TGAGTAAGTCACTTC
Found at i:34876 original size:331 final size:327
Alignment explanation
Indices: 34308--34901 Score: 791
Period size: 331 Copynumber: 1.8 Consensus size: 327
34298 TATAATTTTG
* *
34308 TTAAACCCAATGTAGCAGTTACTGCACATTACTAATTTAACCTTGCAAGTGAGAGGAGATAGGAT
1 TTAAACCCAATGTAGCAGTTACTGCACATTACTAATTTAACCTTGCAAGTGAGAGGAAAAAGGAT
* * * * *
34373 GATTGAGTCACTTCGTTAAACCTAATATAGGATTTACTGCACATTACCTAATTTACCCTTGCAAG
66 GAGTAAGTCACTCCGTTAAACATAATATAGCATTTACTGCACATTACCTAATTTACCCTTGCAAG
* * ** * *
34438 TGGGAGGAAAGTAGGTGAGTAAGTCTTTTCGTTAAACCCAATTTTTCATTTATTGCATATTACCT
131 TGGGAGGAAAGTAGGTGAGTAAGTCCTTTCGTTAAACCCAATATAGCATTTACTGCACATTACCT
* * * *
34503 AATTTACTCCTGCAAGTGGGACGAGAAAAGGTGAGTAAGTCCCTTTGTTAAACCCAATCTAGCAT
196 AATTTACTCCTGCAAGTAGGACGAGAAAAGGTCAATAAGTCCCTTTGTTAAACCAAATCTAGCAT
34568 TTACTACAAATTACCTAATTTACCCTTGCAAGTGGGACACATTACCTAATTTACTGTTACACCTT
261 TTACTACAAATTACCTAATTTACCCTTGCAAGTGGGACACATTACCTAATTTACTGTTACACCTT
34633 CT
326 CT
* * * * *
34635 TTAAACCCAATGTAGCATTTACTGCATATTTTCCTAATTTACCCTTGCAAGTGGGAGGAAAAAGG
1 TTAAACCCAATGTAGCAGTTACTGCACA--TTACTAATTTAACCTTGCAAGTGAGAGGAAAAAGG
* * * * *
34700 GTGAGTAAGTCACTCCGTTAAACATAATCTAGCTTTTA-TCGCACATTATCTAATTTACGATCTT
64 ATGAGTAAGTCACTCCGTTAAACATAATATAGCATTTACT-GCACATTACCTAATTTAC--CCTT
*
34764 GCAAGTGGGAGGAGAG-AGAGTGAGTAAGTCCTTTCGTTAAA-CCATATATAGCATTTACTGCAC
126 GCAAGTGGGAGGAAAGTAG-GTGAGTAAGTCCTTTCGTTAAACCCA-ATATAGCATTTACTGCAC
* * * * *
34827 ATTACCTAATTTAAC-CGTGCAAGTAGGAGGAGAGAGGGTCAATAAGTCCCTTTGTTAAACGAAA
189 ATTACCTAATTT-ACTCCTGCAAGTAGGACGAGAAAAGGTCAATAAGTCCCTTTGTTAAACCAAA
34891 TCTAGCATTTA
253 TCTAGCATTTA
34902 ATTCACATTA
Statistics
Matches: 226, Mismatches: 33, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
327 26 0.12
328 1 0.00
329 77 0.34
330 5 0.02
331 115 0.51
332 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (327 bp):
TTAAACCCAATGTAGCAGTTACTGCACATTACTAATTTAACCTTGCAAGTGAGAGGAAAAAGGAT
GAGTAAGTCACTCCGTTAAACATAATATAGCATTTACTGCACATTACCTAATTTACCCTTGCAAG
TGGGAGGAAAGTAGGTGAGTAAGTCCTTTCGTTAAACCCAATATAGCATTTACTGCACATTACCT
AATTTACTCCTGCAAGTAGGACGAGAAAAGGTCAATAAGTCCCTTTGTTAAACCAAATCTAGCAT
TTACTACAAATTACCTAATTTACCCTTGCAAGTGGGACACATTACCTAATTTACTGTTACACCTT
CT
Found at i:39399 original size:35 final size:35
Alignment explanation
Indices: 39360--39572 Score: 295
Period size: 35 Copynumber: 6.1 Consensus size: 35
39350 CCATTTGATT
* ***
39360 ATTTACTTAATTACACCGAATTAAGCTAATTATTG
1 ATTTACTTAATTACACCGAATTAAGTTAATTACCA
39395 ATTTACTTAATTACACCGAATTAAGTTAATTACCA
1 ATTTACTTAATTACACCGAATTAAGTTAATTACCA
* *
39430 ATTTACTTAATTACACTGAATTAAGTTGATTA-CA
1 ATTTACTTAATTACACCGAATTAAGTTAATTACCA
*
39464 GA-TTACTTAATTACACCGAATTAAGTTAATTGCCA
1 -ATTTACTTAATTACACCGAATTAAGTTAATTACCA
* *
39499 ATTTGCTTAATTACACCGAATTAAGTTGATTACCA
1 ATTTACTTAATTACACCGAATTAAGTTAATTACCA
* * *
39534 AATTACTTAATTACACCGAATTAAGTTGATCACCA
1 ATTTACTTAATTACACCGAATTAAGTTAATTACCA
39569 ATTT
1 ATTT
39573 GCTTTTTCTT
Statistics
Matches: 159, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
34 30 0.19
35 129 0.81
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (35 bp):
ATTTACTTAATTACACCGAATTAAGTTAATTACCA
Found at i:39542 original size:104 final size:104
Alignment explanation
Indices: 39362--39563 Score: 323
Period size: 104 Copynumber: 1.9 Consensus size: 104
39352 ATTTGATTAT
***
39362 TTACTTAATTACACCGAATTAAGCTAATTATTGATTTACTTAATTACACCGAATTAAGTTAATTA
1 TTACTTAATTACACCGAATTAAGCTAATTACCAATTTACTTAATTACACCGAATTAAGTTAATTA
* *
39427 CCAATTTACTTAATTACACTGAATTAAGTTGATTACAGA
66 CCAAATTACTTAATTACACCGAATTAAGTTGATTACAGA
* * * *
39466 TTACTTAATTACACCGAATTAAGTTAATTGCCAATTTGCTTAATTACACCGAATTAAGTTGATTA
1 TTACTTAATTACACCGAATTAAGCTAATTACCAATTTACTTAATTACACCGAATTAAGTTAATTA
39531 CCAAATTACTTAATTACACCGAATTAAGTTGAT
66 CCAAATTACTTAATTACACCGAATTAAGTTGAT
39564 CACCAATTTG
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
104 89 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (104 bp):
TTACTTAATTACACCGAATTAAGCTAATTACCAATTTACTTAATTACACCGAATTAAGTTAATTA
CCAAATTACTTAATTACACCGAATTAAGTTGATTACAGA
Found at i:44655 original size:2 final size:2
Alignment explanation
Indices: 44650--44674 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44640 CTATTACTAT
44650 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
44675 TTTGCAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45423 original size:81 final size:81
Alignment explanation
Indices: 45307--45520 Score: 266
Period size: 81 Copynumber: 2.6 Consensus size: 81
45297 AATTAGTCCC
* * * * * * * *
45307 TTCGTTAAATCCAATTTTGCATTTACTGCATATTACTTAATTTACCCTTGCAAATATGAGGAGAG
1 TTCGTTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTACAAATAGGAGAAGAG
45372 AGGGTGAGTAACTCCA
66 AGGGTGAGTAACTCCA
* * *
45388 TTCGTTAAACCCAATGTAGCATTTATTGCACATTACCTAATTTACCCTTACAAGTGGGAGAAGAG
1 TTCGTTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTACAAATAGGAGAAGAG
* ** *
45453 TGGGTGAGTATGTCCC
66 AGGGTGAGTAACTCCA
* * *
45469 TTCGTGAAACCTAATGTAGCATTTACTGGACATTACCTAATTTACCCTTACA
1 TTCGTTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTACA
45521 CGTTCGTTAA
Statistics
Matches: 114, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 114 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (81 bp):
TTCGTTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTACAAATAGGAGAAGAG
AGGGTGAGTAACTCCA
Found at i:45563 original size:53 final size:54
Alignment explanation
Indices: 45469--45570 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 54
45459 AGTATGTCCC
* *
45469 TTCGTGAAACCTAATGTAGCATTTACTGGACATTACCTAATTTACCCTTACACG
1 TTCGTGAAACCTAATGTAGCATTTACTGCACATTACATAATTTACCCTTACACG
* * *
45523 TTCGTTAAACC-AATGTTGCATTTACTGCACGTTACATAATTTACCCTT
1 TTCGTGAAACCTAATGTAGCATTTACTGCACATTACATAATTTACCCTT
45571 GCAAGTGGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 33 0.77
54 10 0.23
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (54 bp):
TTCGTGAAACCTAATGTAGCATTTACTGCACATTACATAATTTACCCTTACACG
Found at i:45644 original size:134 final size:135
Alignment explanation
Indices: 45388--45646 Score: 340
Period size: 134 Copynumber: 1.9 Consensus size: 135
45378 AGTAACTCCA
* * *
45388 TTCGTTAAACCCAATGTAGCATTTATTGCACATTACCTAATTTACCCTTACAAGTGGGAGAAGAG
1 TTCGTTAAACCCAATGTAGCATTTACTGCACATTACATAATTTACCCTTACAAGTGGAAGAAGAG
* * * * * *
45453 TGGGTGAGTATGTCCCTTCGTGAAACCTAATGTAGCATTTACTGGACATTACCTAATTTACCCTT
66 TCGGTGACTAAGTCCCTACGTGAAACCAAATGTAGCATTTACTGCACATTACCTAATTTACCCTT
45518 ACACG
131 ACACG
* * * **
45523 TTCGTTAAA-CCAATGTTGCATTTACTGCACGTTACATAATTTACCCTTGCAAGTGGAAGGGGAG
1 TTCGTTAAACCCAATGTAGCATTTACTGCACATTACATAATTTACCCTTACAAGTGGAAGAAGAG
* * * **
45587 TCGGTGACTAAGTCCCTACGTTAAACCAAATTTTGCATTTACTGCACATTATTTAATTTA
66 TCGGTGACTAAGTCCCTACGTGAAACCAAATGTAGCATTTACTGCACATTACCTAATTTA
45647 ACTTTGCAAG
Statistics
Matches: 105, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
134 96 0.91
135 9 0.09
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (135 bp):
TTCGTTAAACCCAATGTAGCATTTACTGCACATTACATAATTTACCCTTACAAGTGGAAGAAGAG
TCGGTGACTAAGTCCCTACGTGAAACCAAATGTAGCATTTACTGCACATTACCTAATTTACCCTT
ACACG
Found at i:45680 original size:81 final size:80
Alignment explanation
Indices: 45525--45673 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 80
45515 CTTACACGTT
* * * *
45525 CGTTAAACCAATGTTGCATTTACTGCACGTTACATAATTTACCCTTGCAAGTGGAAGGGGAGTCG
1 CGTTAAACCAATGTTGCATTTACTGCACATTACATAATTTAACCTTGCAAGTGGAAGGAGAGACG
45590 GTGACTAAGTCCCTA
66 GTGACTAAGTCCCTA
* ** * * *
45605 CGTTAAACCAAATTTTGCATTTACTGCACATTATTTAATTTAACTTTGCAAGTGGGAGGAGAGAG
1 CGTTAAACC-AATGTTGCATTTACTGCACATTACATAATTTAACCTTGCAAGTGGAAGGAGAGAC
45670 GGTG
65 GGTG
45674 GGTAAGTTCC
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
80 9 0.16
81 49 0.84
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (80 bp):
CGTTAAACCAATGTTGCATTTACTGCACATTACATAATTTAACCTTGCAAGTGGAAGGAGAGACG
GTGACTAAGTCCCTA
Found at i:45753 original size:215 final size:212
Alignment explanation
Indices: 45307--45901 Score: 531
Period size: 215 Copynumber: 2.8 Consensus size: 212
45297 AATTAGTCCC
* * * *
45307 TTCGTTAAATCCAATTTTGCATTTACTGCATATTACTTAATTTACCCTTGCAAATATGAGGAGAG
1 TTCGTTAAA-CCAATGTTGCATTTACTGCACATTAC-TAATTTACCCTTGCAAGT-GGAGGAGAG
* * * * * *
45372 AGGGTGAGTAACTCCATTCGTTAAACCCAATGTAGCATTTATTGCACATTACCTAATTTACCCTT
63 ACGGTGACTAACTCCATACGTTAAACCAAATGTAGCATTTACTGCACATTACCTAATTTAACCTT
* * * * **
45437 ACAAGTGGGAGAAGAGTGGGTGAGTATGTCCCTTCGTGAAACCTAATGTAGCATTTACTGGACAT
128 ACAAGTGGGAGAAGAGAGGGTGAGTAAGTCCCTTCG-AAAACCTAATGTAGCACTTACTAAACAT
* *
45502 TACCTAATTTACCCTTACACG
192 TACCTAATTTACCCGTACACA
* * *
45523 TTCGTTAAACCAATGTTGCATTTACTGCACGTTACATAATTTACCCTTGCAAGTGGAAGGGGAGT
1 TTCGTTAAACCAATGTTGCATTTACTGCACATTAC-TAATTTACCCTTGCAAGTGG-AGGAGAGA
* * * * ** * *
45588 CGGTGACTAAGTCCCTACGTTAAACCAAATTTTGCATTTACTGCACATTATTTAATTTAACTTTG
64 CGGTGACTAACTCCATACGTTAAACCAAATGTAGCATTTACTGCACATTACCTAATTTAACCTTA
* * * * *
45653 CAAGTGGGAGGAGAGAGGGTGGGTAAGTTCCTTTC-AAAATCTAATGTAGTACTTACTAAACATT
129 CAAGTGGGAGAAGAGAGGGTGAGTAAG-TCCCTTCGAAAACCTAATGTAGCACTTACTAAACATT
* *
45717 ACCTAATTTTCTCGTACA-A
193 ACCTAATTTACCCGTACACA
* ** * *
45736 TTATGTTAAACCCAATGTAACATTTACTGCACATTACTAATTTAACCTTGCAAGTGGGAGGAGAT
1 TT-CGTTAAA-CCAATGTTGCATTTACTGCACATTACTAATTTACCCTTGCAAGT-GGAGGAGAG
* * * * * * * *
45801 A-GGATCACTAAGTCACTTA-GTTAAAATC-AATATAGAATTTACTGCGCATTACCTAATTTACC
63 ACGG-TGACTAACTC-CATACGTT-AAACCAAATGTAGCATTTACTGCACATTACCTAATTTAAC
* *
45863 CTTGA-GAGTGGGATG-AGAGTA-GGTGAGTAAGTCTCTTCG
125 CTT-ACAAGTGGGA-GAAGAG-AGGGTGAGTAAGTCCCTTCG
45902 TTAAACCCAA
Statistics
Matches: 306, Mismatches: 61, Indels: 26
0.78 0.16 0.07
Matches are distributed among these distances:
213 9 0.03
214 128 0.42
215 154 0.50
216 15 0.05
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (212 bp):
TTCGTTAAACCAATGTTGCATTTACTGCACATTACTAATTTACCCTTGCAAGTGGAGGAGAGACG
GTGACTAACTCCATACGTTAAACCAAATGTAGCATTTACTGCACATTACCTAATTTAACCTTACA
AGTGGGAGAAGAGAGGGTGAGTAAGTCCCTTCGAAAACCTAATGTAGCACTTACTAAACATTACC
TAATTTACCCGTACACA
Found at i:45922 original size:81 final size:79
Alignment explanation
Indices: 45740--46032 Score: 250
Period size: 81 Copynumber: 3.6 Consensus size: 79
45730 GTACAATTAT
* * *
45740 GTTAAACCCAATGTAACATTTACTGCACATTA-CTAATTTAACCTTGCAAGTGGGAGGAGATAGG
1 GTTAAACCCAATATAACATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGACGAGATAGG
* *
45804 ATCACTAAGTCACTTA
66 -TGAGTAAGTC-CTTA
** * *
45820 GTTAAAATCAATATAGA-ATTTACTGCGCATTACCTAATTTACCCTTG-AGAGTGGGATGAGAGT
1 GTTAAACCCAATATA-ACATTTACTGCACATTACCTAATTTACCCTTGCA-AGTGGGACGAGA-T
*
45883 AGGTGAGTAAGTCTCTTC
63 AGGTGAGTAAGTC-CTTA
* ** * * * * * *
45901 GTTAAACCCAATTTTTCATTTATTGCACGTTACCTAATTTACTCTTGCAAGTAGGACAAGAAAAG
1 GTTAAACCCAATATAACATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGACGAG-ATAG
* *
45966 TTGAGTAAGTCCTTTT
65 GTGAGTAAGTCC-TTA
* * * * * *
45982 GTTAAACCCAATCTACCATTTACTACAAATTACCTAATTTGCCCTTACAAG
1 GTTAAACCCAATATAACATTTACTGCACATTACCTAATTTACCCTTGCAAG
46033 CGGAACACAT
Statistics
Matches: 170, Mismatches: 35, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
80 28 0.16
81 136 0.80
82 6 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (79 bp):
GTTAAACCCAATATAACATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGACGAGATAGG
TGAGTAAGTCCTTA
Found at i:46397 original size:54 final size:54
Alignment explanation
Indices: 46299--46406 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
46289 TCAATAAGTC
* **
46299 CCTTCGTTAAACTAAATGTAACATATAATTTACACTACCGAATTTACCATTACA
1 CCTTCGTTAAACCAAATGTAACATATAATGAACACTACCGAATTTACCATTACA
* * * * *
46353 CCTTCGTTAAACCCAATGTAACAT-TTATGGAACATTACCTAATTTACCCTTACA
1 CCTTCGTTAAACCAAATGTAACATATAAT-GAACACTACCGAATTTACCATTACA
46407 AGTGGGAGGA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
53 3 0.07
54 42 0.93
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (54 bp):
CCTTCGTTAAACCAAATGTAACATATAATGAACACTACCGAATTTACCATTACA
Found at i:46491 original size:80 final size:81
Alignment explanation
Indices: 46353--46804 Score: 456
Period size: 81 Copynumber: 5.6 Consensus size: 81
46343 TACCATTACA
* * * *
46353 CCTTCGTTAAACCCAATGTAACATTTA-TGGAACATTACCTAATTTACCCTTACAAGTGGGAGGA
1 CCTTCATTAAACCCAATGTAGCATTTACT-GCACATTACCTAATTTACCCTTGCAAGTGGGAGGA
*
46417 AAGAGGGTGAGTAAGTC
65 GAGAGGGTGAGTAAGTC
* * * **
46434 CCTTCATTAAACCGAATGTAGAATTTACCGTGCA-TACCTAATTTACCCTTGCAAGTGGGAGGAG
1 CCTTCATTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAG
* * *
46498 AGTGGGTGGGTAACTC
66 AGAGGGTGAGTAAGTC
* * ** * * * * *
46514 ACTTTA-TAAACCCAAT-TCTTCATTTACGGTACATTA-TTAACTTACCCTTGCTAA-TGAGAGG
1 CCTTCATTAAACCCAATGT-AGCATTTACTGCACATTACCTAATTTACCCTTGC-AAGTGGGAGG
*
46575 AGAGAGTGTGAGTAA-TCC
64 AGAGAGGGTGAGTAAGT-C
** * * *
46593 CCTTCATTAAA-CCAATGTAGCATTTGTTGCACATTACTTAATTTACCCTTACAAGTGGTAGGAG
1 CCTTCATTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAG
*
46657 AGAGGGTGAGT-AGTTG
66 AGAGGGTGAGTAAG-TC
* *
46673 CCTTCATTAAACCCAATGTAGCATTTACTGCACATTACGTAATTTA-CCTTCGCAAGTGGAAGGA
1 CCTTCATTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTT-GCAAGTGGGAGGA
*
46737 GAGTGGGTGAGTAAGTC
65 GAGAGGGTGAGTAAGTC
* * **
46754 CCTTCGTTAAACCCAATGTATCATTTACTAAACATTACCTAATTTACCCTT
1 CCTTCATTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTT
46805 ACACCTTTGT
Statistics
Matches: 304, Mismatches: 52, Indels: 29
0.79 0.14 0.08
Matches are distributed among these distances:
78 2 0.01
79 75 0.25
80 99 0.33
81 122 0.40
82 6 0.02
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (81 bp):
CCTTCATTAAACCCAATGTAGCATTTACTGCACATTACCTAATTTACCCTTGCAAGTGGGAGGAG
AGAGGGTGAGTAAGTC
Found at i:47375 original size:31 final size:31
Alignment explanation
Indices: 47339--47398 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
47329 ATATTTTTCG
*
47339 ATTGTACCCTTATTTT-TAAAACATATTTCCA
1 ATTGTACCCTT-TTTTAAAAAACATATTTCCA
47370 ATTGTACCCTTTTTTAAAAAACATATTTC
1 ATTGTACCCTTTTTTAAAAAACATATTTC
47399 TTAATTGCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.33, C:0.18, G:0.03, T:0.45
Consensus pattern (31 bp):
ATTGTACCCTTTTTTAAAAAACATATTTCCA
Found at i:47681 original size:22 final size:22
Alignment explanation
Indices: 47656--47795 Score: 131
Period size: 22 Copynumber: 6.3 Consensus size: 22
47646 TTTGATTTTG
*
47656 TGGTTATCAAAATTTCATAAGA
1 TGGTTATCAAAATTTCATAGGA
* * *
47678 TGGTTATTATAATTCCATGAGGA
1 TGGTTATCAAAATTTCAT-AGGA
47701 -GGTTATCAAAATTTCATAGTG-
1 TGGTTATCAAAATTTCATAG-GA
*
47722 TGGTTACCAAAATTTCATAGGA
1 TGGTTATCAAAATTTCATAGGA
* * *
47744 TCAGGTTATTAAAATTTCTTAGGT
1 T--GGTTATCAAAATTTCATAGGA
** *
47768 TGGTTATTGAAATTTCATAGGG
1 TGGTTATCAAAATTTCATAGGA
47790 TGGTTA
1 TGGTTA
47796 ATTATTACAA
Statistics
Matches: 97, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
21 3 0.03
22 73 0.75
23 3 0.03
24 18 0.19
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (22 bp):
TGGTTATCAAAATTTCATAGGA
Found at i:47772 original size:46 final size:46
Alignment explanation
Indices: 47700--47788 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 46
47690 TTCCATGAGG
47700 AGGTTATCAAAATTTCATAGTGTGGTTACCAAAATTTCATAGGATC
1 AGGTTATCAAAATTTCATAGTGTGGTTACCAAAATTTCATAGGATC
* * ***
47746 AGGTTATTAAAATTTCTTAG-GTTGGTTATTGAAATTTCATAGG
1 AGGTTATCAAAATTTCATAGTG-TGGTTACCAAAATTTCATAGG
47789 GTGGTTAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
45 1 0.03
46 36 0.97
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (46 bp):
AGGTTATCAAAATTTCATAGTGTGGTTACCAAAATTTCATAGGATC
Found at i:47782 original size:68 final size:66
Alignment explanation
Indices: 47654--47795 Score: 169
Period size: 68 Copynumber: 2.1 Consensus size: 66
47644 ATTTTGATTT
* *
47654 TGTGGTTATCAAAATTTCATAAGATGGTTATTATAATTCCATGAGGAGGTTATCAAAATTTCATA
1 TGTGGTTACCAAAATTTCATAAGATGGTTATTAAAATTCCATGAGGAGGTTATCAAAATTTCATA
47719 G
66 G
* * * * **
47720 TGTGGTTACCAAAATTTCATAGGATCAGGTTATTAAAATTTC-TTAGGTTGGTTATTGAAATTTC
1 TGTGGTTACCAAAATTTCATAAGAT--GGTTATTAAAATTCCATGAGG-AGGTTATCAAAATTTC
47784 ATAG
63 ATAG
*
47788 GGTGGTTA
1 TGTGGTTA
47796 ATTATTACAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
66 23 0.36
67 4 0.06
68 37 0.58
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (66 bp):
TGTGGTTACCAAAATTTCATAAGATGGTTATTAAAATTCCATGAGGAGGTTATCAAAATTTCATA
G
Found at i:47965 original size:22 final size:22
Alignment explanation
Indices: 47859--48221 Score: 87
Period size: 22 Copynumber: 16.3 Consensus size: 22
47849 AGGTTATACG
* *
47859 AATTTCATAGTG-TGGTTAACAA
1 AATTTCATA-TGAAGGTTATCAA
47881 AATTTCAT-TAGAAGGTTA-CTAA
1 AATTTCATAT-GAAGGTTATC-AA
* * ** *
47903 TACTTCATCGGTAGGTTATCAA
1 AATTTCATATGAAGGTTATCAA
* * *
47925 AATTTGATAGTG-TGATTATCAA
1 AATTTCATA-TGAAGGTTATCAA
47947 AATTTCATATGAAGGTTAT-AA
1 AATTTCATATGAAGGTTATCAA
* * *
47968 AAGTCTCAATTTCAT-AAGGAGTACCAA
1 AA-TTTC-A--T-ATGAAGG-TTATCAA
*
47995 AATTTAATA-GAAGGTTATC-A
1 AATTTCATATGAAGGTTATCAA
* * *
48015 AATCTCACA-G-AGTGATTATCGA
1 AATTTCATATGAAG-G-TTATCAA
*
48037 AATTTCATAAAGATAGGATTATCAA
1 AATTTCAT-ATGA-AGG-TTATCAA
*
48062 AATTT-ATATGAAGATTATCAA
1 AATTTCATATGAAGGTTATCAA
* **
48083 AATTTCATGGTG-TTGTTATCAA
1 AATTTCAT-ATGAAGGTTATCAA
* *
48105 AATTTCA-AAGCGAGGTTATCAA
1 AATTTCATATG-AAGGTTATCAA
* ** *
48127 AATTACATAAT-TTGATTATCAA
1 AATTTCAT-ATGAAGGTTATCAA
* * **
48149 AATTTCATA-GAGGGGTCAAAAA
1 AATTTCATATGA-AGGTTATCAA
*
48171 AATTT--TATAAAGATGTTATCAA
1 AATTTCATATGAAG--GTTATCAA
*
48193 AATTTCATA-AAGAGGTTATCAA
1 AATTTCATATGA-AGGTTATCAA
*
48215 ATTTTCA
1 AATTTCA
48222 AAATGTGATT
Statistics
Matches: 249, Mismatches: 56, Indels: 72
0.66 0.15 0.19
Matches are distributed among these distances:
19 2 0.01
20 14 0.06
21 30 0.12
22 152 0.61
23 12 0.05
24 8 0.03
25 19 0.08
26 8 0.03
27 4 0.02
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (22 bp):
AATTTCATATGAAGGTTATCAA
Found at i:48216 original size:21 final size:22
Alignment explanation
Indices: 47975--48221 Score: 123
Period size: 22 Copynumber: 11.3 Consensus size: 22
47965 TAAAAGTCTC
* *
47975 AATTTCATAAGGA-G-TACCAA
1 AATTTCATAAAGAGGTTATCAA
* *
47995 AATTTAATAGA-AGGTTATC-A
1 AATTTCATAAAGAGGTTATCAA
* * * * * *
48015 AATCTCACAGAGTGATTATCGA
1 AATTTCATAAAGAGGTTATCAA
48037 AATTTCATAAAGATAGGATTATCAA
1 AATTTCATAAAG--AGG-TTATCAA
48062 AATTT-ATATGAAGA--TTATCAA
1 AATTTCATA--AAGAGGTTATCAA
*** **
48083 AATTTCATGGTGTTGTTATCAA
1 AATTTCATAAAGAGGTTATCAA
*
48105 AATTTCA-AAGCGAGGTTATCAA
1 AATTTCATAA-AGAGGTTATCAA
* *** *
48127 AATTACATAATTTGATTATCAA
1 AATTTCATAAAGAGGTTATCAA
* * * **
48149 AATTTCATAGAGGGGTCAAAAA
1 AATTTCATAAAGAGGTTATCAA
* *
48171 AATTTTATAAAGATGTTATCAA
1 AATTTCATAAAGAGGTTATCAA
48193 AATTTCATAAAGAGGTTATCAA
1 AATTTCATAAAGAGGTTATCAA
*
48215 ATTTTCA
1 AATTTCA
48222 AAATGTGATT
Statistics
Matches: 165, Mismatches: 48, Indels: 26
0.69 0.20 0.11
Matches are distributed among these distances:
19 1 0.01
20 19 0.12
21 21 0.13
22 103 0.62
23 2 0.01
24 5 0.03
25 11 0.07
26 3 0.02
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.34
Consensus pattern (22 bp):
AATTTCATAAAGAGGTTATCAA
Found at i:48357 original size:19 final size:19
Alignment explanation
Indices: 48327--48393 Score: 98
Period size: 19 Copynumber: 3.5 Consensus size: 19
48317 TGATGGAGTA
48327 ATCAAAATTTCAGGGAGGAT
1 ATCAAAA-TTCAGGGAGGAT
*
48347 ACCAAAATTCAGGGAGGAT
1 ATCAAAATTCAGGGAGGAT
* *
48366 ATCGAAATTCAGTGAGGAT
1 ATCAAAATTCAGGGAGGAT
48385 ATCAAAATT
1 ATCAAAATT
48394 TCATATGAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 36 0.86
20 6 0.14
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (19 bp):
ATCAAAATTCAGGGAGGAT
Found at i:48410 original size:22 final size:22
Alignment explanation
Indices: 48384--48610 Score: 96
Period size: 22 Copynumber: 10.5 Consensus size: 22
48374 TCAGTGAGGA
48384 TATCAAAATTTCATATGAAGGT
1 TATCAAAATTTCATATGAAGGT
* * *
48406 TATCAAATTTTCATA-GTATGT
1 TATCAAAATTTCATATGAAGGT
* *
48427 AGATCAAAATTTAATAATG-AGGT
1 -TATCAAAATTTCAT-ATGAAGGT
* * ** * * *
48450 AATGAAAAAATCATAGGGAGCT
1 TATCAAAATTTCATATGAAGGT
*
48472 TATCAAAA--T--T-TGTA-GT
1 TATCAAAATTTCATATGAAGGT
* *
48488 TATCAAAATTTCATAAGAAAGT
1 TATCAAAATTTCATATGAAGGT
* * *
48510 TATCAAAATTTTAGATGGAGGTT
1 TATCAAAATTTCATATGAAGG-T
* * * *
48533 TATTAAAATTTTATAGGAAGATT
1 TATCAAAATTTCATATGAAG-GT
*
48556 TATCAAAATTTCATA-GCGAGGT
1 TATCAAAATTTCATATG-AAGGT
* * *
48578 TATCACAATTTCATAGTG-TGAT
1 TATCAAAATTTCATA-TGAAGGT
48600 TATCAAAATTT
1 TATCAAAATTT
48611 TAAAGTGTAA
Statistics
Matches: 151, Mismatches: 39, Indels: 30
0.69 0.18 0.14
Matches are distributed among these distances:
16 9 0.06
17 2 0.01
18 2 0.01
20 2 0.01
21 8 0.05
22 89 0.59
23 37 0.25
24 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.37
Consensus pattern (22 bp):
TATCAAAATTTCATATGAAGGT
Found at i:48577 original size:46 final size:45
Alignment explanation
Indices: 48487--48592 Score: 117
Period size: 45 Copynumber: 2.4 Consensus size: 45
48477 AAATTTGTAG
*
48487 TTATCAAAATTTCATAAGAAAGTTATCAAAATTTTAGATGGAGGT
1 TTATCAAAATTTCATAAGAAAGTTATCAAAATTTCAGATGGAGGT
* * * * *
48532 TTATTAAAATTTTATAGGAAGATTTATCAAAATTTCATA-GCGAGG-
1 TTATCAAAATTTCATAAGAA-AGTTATCAAAATTTCAGATG-GAGGT
*
48577 TTATCACAATTTCATA
1 TTATCAAAATTTCATA
48593 GTGTGATTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
45 31 0.62
46 19 0.38
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (45 bp):
TTATCAAAATTTCATAAGAAAGTTATCAAAATTTCAGATGGAGGT
Found at i:48617 original size:22 final size:22
Alignment explanation
Indices: 48555--48623 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
48545 ATAGGAAGAT
* * *
48555 TTATCAAAATTTCATAGCG-AGG
1 TTATCAAAATTTCAAAGTGTA-A
* * *
48577 TTATCACAATTTCATAGTGTGA
1 TTATCAAAATTTCAAAGTGTAA
*
48599 TTATCAAAATTTTAAAGTGTAA
1 TTATCAAAATTTCAAAGTGTAA
48621 TTA
1 TTA
48624 CTAACAATTC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (22 bp):
TTATCAAAATTTCAAAGTGTAA
Found at i:49754 original size:26 final size:26
Alignment explanation
Indices: 49711--49788 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 26
49701 GCATTAGGAT
*
49711 CACTTAGGGGCATTTTGGTCATTTTTA
1 CACTTA-GGGCATTTTGGTCATTTTCA
*
49738 CACTTAGGGCATTTTGGTCATTTGCA
1 CACTTAGGGCATTTTGGTCATTTTCA
49764 CA-TTCAAGGGCATTTTGGTCATTTT
1 CACTT--AGGGCATTTTGGTCATTTT
49789 AAGTTCACTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
25 2 0.04
26 20 0.43
27 24 0.52
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (26 bp):
CACTTAGGGCATTTTGGTCATTTTCA
Found at i:51565 original size:49 final size:49
Alignment explanation
Indices: 51469--51565 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
51459 TCTTTCTTCT
* *
51469 ACAGAAGAAAAACAGAAACCCTCTCTCCCTAATTCTTAATCACAAACTC
1 ACAGAAGAAAAACAGAAACCCTCTCTCCCTAATTCTTAATAAAAAACTC
51518 ACAGAAGAAAAACAGAAACCCTCTCTCCCTAATTCTTAATAAAAAACT
1 ACAGAAGAAAAACAGAAACCCTCTCTCCCTAATTCTTAATAAAAAACT
51566 TTCCCTCACC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.45, C:0.28, G:0.06, T:0.21
Consensus pattern (49 bp):
ACAGAAGAAAAACAGAAACCCTCTCTCCCTAATTCTTAATAAAAAACTC
Found at i:54161 original size:81 final size:81
Alignment explanation
Indices: 54013--54332 Score: 356
Period size: 80 Copynumber: 4.0 Consensus size: 81
54003 TGTAGCTACA
* * * * * ** *
54013 CTTGGAAGTGGGAGGAGAGTGGGTGAGAAAGTCCTTTCGTTAAATCCAATTTTTCATTTACTGCA
1 CTTGCAAGTGGGAGGAGAGAGGGTGAGTAAGTCCCTTCGTTAAATCCAATGTAACATTTACTACA
54078 CATTACCTAATTTACC
66 CATTACCTAATTTACC
* * * * *
54094 CTTGCAATTGGGAGGAGAGAAGGTGAGTAAGTCCCTTCGTTAAACCCAATGTACCATTTCCTACA
1 CTTGCAAGTGGGAGGAGAGAGGGTGAGTAAGTCCCTTCGTTAAATCCAATGTAACATTTACTACA
54159 CATTACCTAATTTACC
66 CATTACCTAATTTACC
* * * * * * * * *** *
54175 CTTGCAAGT-GGATGAGAGTGGGTGTGTAAGTCGCTTTGGTAAATCAAATTTTGTATTTACTGCA
1 CTTGCAAGTGGGAGGAGAGAGGGTGAGTAAGTCCCTTCGTTAAATCCAATGTAACATTTACTACA
54239 CATTACCTAATTTACC
66 CATTACCTAATTTACC
* ** * *
54255 CTT-TAAGTGGGAGTCGTGAGGGTGAGTAAGTCCCTTCGTTAAATCCAATGTAACATTTATTACA
1 CTTGCAAGTGGGAGGAGAGAGGGTGAGTAAGTCCCTTCGTTAAATCCAATGTAACATTTACTACA
54319 CATTACCTAATTTA
66 CATTACCTAATTTA
54333 GCTTTATACC
Statistics
Matches: 193, Mismatches: 45, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
79 4 0.02
80 112 0.58
81 77 0.40
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (81 bp):
CTTGCAAGTGGGAGGAGAGAGGGTGAGTAAGTCCCTTCGTTAAATCCAATGTAACATTTACTACA
CATTACCTAATTTACC
Found at i:54323 original size:160 final size:162
Alignment explanation
Indices: 54013--54332 Score: 450
Period size: 160 Copynumber: 2.0 Consensus size: 162
54003 TGTAGCTACA
* * *
54013 CTTGGAAGTGGGAGGAGAGTGGGTGAGAAAGTCCTTTCGTTAAATCCAATTTTTCATTTACTGCA
1 CTTGCAAGTGGGAGGAGAGTGGGTGAGAAAGTCCTTTCGGTAAATCAAATTTTTCATTTACTGCA
*
54078 CATTACCTAATTTACCCTTGCAATTGGGAGGAGAGAAGGTGAGTAAGTCCCTTCGTTAAACCCAA
66 CATTACCTAATTTACCCTTGCAAGTGGGAGGAGAGAAGGTGAGTAAGTCCCTTCGTTAAACCCAA
* *
54143 TGTACCATTTCCTACACATTACCTAATTTACC
131 TGTAACATTTACTACACATTACCTAATTTACC
* * *
54175 CTTGCAAGT-GGATGAGAGTGGGTGTGTAAGTCGCTTT-GGTAAATCAAATTTTGT-ATTTACTG
1 CTTGCAAGTGGGAGGAGAGTGGGTGAGAAAGTC-CTTTCGGTAAATCAAATTTT-TCATTTACTG
* ** * * *
54237 CACATTACCTAATTTACCCTT-TAAGTGGGAGTCGTGAGGGTGAGTAAGTCCCTTCGTTAAATCC
64 CACATTACCTAATTTACCCTTGCAAGTGGGAGGAGAGAAGGTGAGTAAGTCCCTTCGTTAAACCC
*
54301 AATGTAACATTTATTACACATTACCTAATTTA
129 AATGTAACATTTACTACACATTACCTAATTTA
54333 GCTTTATACC
Statistics
Matches: 140, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
160 65 0.46
161 62 0.44
162 13 0.09
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (162 bp):
CTTGCAAGTGGGAGGAGAGTGGGTGAGAAAGTCCTTTCGGTAAATCAAATTTTTCATTTACTGCA
CATTACCTAATTTACCCTTGCAAGTGGGAGGAGAGAAGGTGAGTAAGTCCCTTCGTTAAACCCAA
TGTAACATTTACTACACATTACCTAATTTACC
Found at i:72508 original size:37 final size:37
Alignment explanation
Indices: 72467--72542 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
72457 ACACCTCTTC
72467 GTTTTCGCTTCTCTGAGCTTTCACCAACGACAGAAAA
1 GTTTTCGCTTCTCTGAGCTTTCACCAACGACAGAAAA
72504 GTTTTCGCTTCTCTGAGCTTTCACCAACGACAGAAAA
1 GTTTTCGCTTCTCTGAGCTTTCACCAACGACAGAAAA
72541 GT
1 GT
72543 GAGTGATCTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (37 bp):
GTTTTCGCTTCTCTGAGCTTTCACCAACGACAGAAAA
Found at i:72716 original size:31 final size:31
Alignment explanation
Indices: 72681--72743 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
72671 AACTGGACTA
72681 ACTCAAACATCCAAAATCTAAAGATCTGGAG
1 ACTCAAACATCCAAAATCTAAAGATCTGGAG
* *
72712 ACTCAAACATCCAAGATCTAAAGTTCTGGAG
1 ACTCAAACATCCAAAATCTAAAGATCTGGAG
72743 A
1 A
72744 GTGATAACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.21
Consensus pattern (31 bp):
ACTCAAACATCCAAAATCTAAAGATCTGGAG
Found at i:72827 original size:1 final size:1
Alignment explanation
Indices: 72821--72861 Score: 64
Period size: 1 Copynumber: 41.0 Consensus size: 1
72811 ACGAAATATT
**
72821 AAAAAAAAGTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
72862 CCAACTACCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.95, C:0.00, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:75595 original size:17 final size:18
Alignment explanation
Indices: 75557--75595 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
75547 AAGTGAGTTA
*
75557 GTAATAATAATATATACT
1 GTAATAATAATATATAAT
75575 -TAATAATAATA-ATAAT
1 GTAATAATAATATATAAT
75591 GTAAT
1 GTAAT
75596 TAATGATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (18 bp):
GTAATAATAATATATAAT
Done.