Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 1 of 259
Found at i:13183 original size:7 final size:7
Alignment explanation
Indices: 13171--13200 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
13161 GTATTTCTTA
13171 AATCAAT
1 AATCAAT
13178 AATCAAT
1 AATCAAT
13185 AATCAAT
1 AATCAAT
13192 AATCAAT
1 AATCAAT
13199 AA
1 AA
13201 AATATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (7 bp):
AATCAAT
Found at i:24425 original size:117 final size:117
Alignment explanation
Indices: 24208--24427 Score: 336
Period size: 117 Copynumber: 1.9 Consensus size: 117
24198 TAGAAATATA
* * *
24208 GTGATTATTCGAGCTATGTGCTTAGCAAGTTGTGTGCCGGTAATTATTTGGGCTATGTGCCTAGC
1 GTGATTATTCGAGCTATGTGCCTAGCAAGTAGTGTGCCGGTAATTATTCGGGCTATGTGCCTAGC
* * *
24273 AGGCTGTGTGCCGTTGATTATTCGAGGCATGTGCCTAGCAGGCTGTGTGCCG
66 AGGCTCTGTGCCGGTGATTATTCGAGGCATATGCCTAGCAGGCTGTGTGCCG
* *
24325 GTGATTATTC-AGGCTATGTGCCTAGCAAGTAGTGTGTCGGTAATTATTCGGGCTTTGTGCCTAG
1 GTGATTATTCGA-GCTATGTGCCTAGCAAGTAGTGTGCCGGTAATTATTCGGGCTATGTGCCTAG
24389 CAGGCTCTGTGCCGGTGATTATTCG-GGCTATATGCCTAG
65 CAGGCTCTGTGCCGGTGATTATTCGAGGC-ATATGCCTAG
24428 TAGGTTGTAT
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
116 4 0.04
117 89 0.96
ACGTcount: A:0.17, C:0.18, G:0.31, T:0.34
Consensus pattern (117 bp):
GTGATTATTCGAGCTATGTGCCTAGCAAGTAGTGTGCCGGTAATTATTCGGGCTATGTGCCTAGC
AGGCTCTGTGCCGGTGATTATTCGAGGCATATGCCTAGCAGGCTGTGTGCCG
Found at i:24444 original size:39 final size:39
Alignment explanation
Indices: 24208--24427 Score: 282
Period size: 39 Copynumber: 5.6 Consensus size: 39
24198 TAGAAATATA
* * * *
24208 GTGATTATTCGAGCTATGTGCTTAGCAAGTTGTGTGCCG
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCG
* *
24247 GTAATTATTTGGGCTATGTGCCTAGCAGGCTGTGTGCCG
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCG
*
24286 TTGATTATTCGAGGC-ATGTGCCTAGCAGGCTGTGTGCCG
1 GTGATTATTCG-GGCTATGTGCCTAGCAGGCTGTGTGCCG
* * *
24325 GTGATTATTCAGGCTATGTGCCTAGCAAG-TAGTGTGTCG
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCT-GTGTGCCG
* * *
24364 GTAATTATTCGGGCTTTGTGCCTAGCAGGCTCTGTGCCG
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCG
*
24403 GTGATTATTCGGGCTATATGCCTAG
1 GTGATTATTCGGGCTATGTGCCTAG
24428 TAGGTTGTAT
Statistics
Matches: 155, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
38 4 0.03
39 147 0.95
40 4 0.03
ACGTcount: A:0.17, C:0.18, G:0.31, T:0.34
Consensus pattern (39 bp):
GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCG
Found at i:42153 original size:24 final size:24
Alignment explanation
Indices: 42125--42203 Score: 99
Period size: 24 Copynumber: 3.3 Consensus size: 24
42115 CCGGTTAGGT
42125 TCCCGGTGGTGCTCCGGTGATCCG
1 TCCCGGTGGTGCTCCGGTGATCCG
*
42149 TCCCGGCGGTGCTCCGGTG-TACCG
1 TCCCGGTGGTGCTCCGGTGAT-CCG
*
42173 TCCC-GTCGGTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGTGATCCG
*
42197 TTCCGGT
1 TCCCGGT
42204 AGCATAGGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
23 2 0.04
24 43 0.91
25 2 0.04
ACGTcount: A:0.05, C:0.35, G:0.35, T:0.24
Consensus pattern (24 bp):
TCCCGGTGGTGCTCCGGTGATCCG
Found at i:42328 original size:43 final size:43
Alignment explanation
Indices: 42208--43271 Score: 926
Period size: 43 Copynumber: 24.9 Consensus size: 43
42198 TCCGGTAGCA
*
42208 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * * * * *
42251 T-GGTGCTAGGAT-GTGCAGGAGCCCCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * *
42293 TAAGCCCTTGGTATTGCAGGAGCCTCGGGCGCCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * *
42335 TTGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGTAACC
1 TAGGCCCTT-GGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
42378 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG-TACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * ** *
42420 TCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACT
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
42463 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * * **
42506 TAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATAGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * * *
42549 TAGGCCATTGGTCGTGCGAGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
42592 TAGGCTCTTGGTCGTACGGGAGCCTCGGGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * *
42634 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTATCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
42677 TAGGCCCTTGGTTGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * * *
42719 TTGGTGCTTGGAT-GTGCGAGAACCTCGCGTACCATCGACAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * * *
42762 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGTAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * **
42805 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGTAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
42848 TAGGCCCTTGGTCCTGCGGGAGCCTCGGCCACCATCGGC-TCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * * * *
42890 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGTAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
42933 TAGGCCCTTGGCCGTGCGGGAGCCTCGAGCACCATCGAC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * *
42975 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
43018 TAGACCCTTGGTCGTGCGAGAAG-CTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCG-GGAGCCTCGGGCACCATCGGCAACC
* * **
43061 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
43104 TAGGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATCGG-TACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
43146 TCA-GCCCTTGGTCGTGCGGGAGCCTCGGGCAGCATCGGC-ACC
1 T-AGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * ** * *
43188 TCGGTGGCTAGGAGGTGCGGGAGCCTCGGACACCATCGGTAA-C
1 TAGG-CCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** *
43231 TTGGTGCTTGAAT-GTGCGGGAGCCTCGGGCACCCATCGGCA
1 TAGGCCCTTG-GTCGTGCGGGAGCCTCGGGCA-CCATCGGCA
43272 CCTTGGTGCC
Statistics
Matches: 814, Mismatches: 177, Indels: 60
0.77 0.17 0.06
Matches are distributed among these distances:
42 289 0.36
43 522 0.64
44 3 0.00
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.18
Consensus pattern (43 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
Found at i:42357 original size:85 final size:84
Alignment explanation
Indices: 42208--43294 Score: 633
Period size: 85 Copynumber: 12.7 Consensus size: 84
42198 TCCGGTAGCA
* * *
42208 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCCTGGTGCTAGGATGTGCAGGAGC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCT-TGATGTGCGGGAGC
*
42273 CCCGGACACCATCGGCAAAC
65 CTCGGACACCATCGGCAAAC
* ** * *
42293 TAAGCCCTTGGTATTGCAGGAGCCTCGGGCGCCATCGGCACCTTGGTGCTTCGATGTGCGGGAGC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCTT-GATGTGCGGGAGC
* * *
42358 CTCGGGCACCATCGGTAACC
65 CTCGGACACCATCGGCAAAC
* *
42378 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGTACCTCGGTGCTATGATGTGCGGGAGC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCT-TGATGTGCGGGAGC
**
42443 CTCGGACACTGTCGGC-AAC
65 CTCGGACACCATCGGCAAAC
* * * ** ** *
42462 TTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGA
1 -TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGAT-GTGCGGGA
* * *
42527 GCCTCGGCCACCATAGGCAAAA
63 GCCTCGGACACCATCGGCAAAC
* * * * * * *
42549 TAGGCCATTGGTCGTGCGAGAGCCTCGGACACCATCGGCAAACTAGGCT-CTTGGTCGTACGGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGG-TGCTTGAT-GTGCGGGA
* *
42613 GCCTCGGGCACCATCGGC-ACC
63 GCCTCGGACACCATCGGCAAAC
* ** * * * * * ** *
42634 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTATCGGCAACCTAGGCCCTTGGTTGTGCGGGA
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTT-GATGTGCGGGA
*
42698 GCCTC-GAGCACCATCGGC-ACC
63 GCCTCGGA-CACCATCGGCAAAC
* ** * * * * * * ** * *
42719 TTGGTGCTTGGAT-GTGCGAGAACCTCGCGTACCATCGACAACCTAGGCCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGAT-GTGCGGGA
* * *
42783 GGCTCGGGCACCATCGGTAAAC
63 GCCTCGGACACCATCGGCAAAC
* * ** * ** * *
42805 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCCTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG-CACCTTGGTGCTTGAT-GTGCGGGAG
* **
42870 CCTCGGCCACCATCGGC-TCC
64 CCTCGGACACCATCGGCAAAC
** * * * * * ** **
42890 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGTAAACTAGGCCCTTGGCCGTGCGGGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGG-CACCTTGGTGCTT-GATGTGCGGGA
* *
42954 GCCTC-GAGCACCATCGAC-ACC
63 GCCTCGGA-CACCATCGGCAAAC
* ** * * * *** * *
42975 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGAT-GTGCG-GG
*
43039 AG-CTCGGGCACCATCGGCAAAC
62 AGCCTCGGACACCATCGGCAAAC
* * ** * ** * *
43061 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAAAAATAGGCCCTTGGTCGTGCGGGGG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG-CACCTTGGTGCTTGAT-GTGCGGGAG
* * *
43126 CCTCGGCCACCATCGG-TACC
64 CCTCGGACACCATCGGCAAAC
* * * *
43146 TCA-GCCCTTGGTCGTGCGGGAGCCTCGGGCAGCATCGGCACCTCGGTGGCTAGGAGGTGCGGGA
1 T-AGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGT-GCT-TGATGTGCGGGA
*
43210 GCCTCGGACACCATCGG-TAAC
63 GCCTCGGACACCATCGGCAAAC
* ** * *
43231 TTGGTGCTTGAAT-GTGCGGGAGCCTCGGGCACCCATCGGCACCTTGGTGCCTGGGATGTGCGGG
1 TAGGCCCTTG-GTCGTGCGGGAGCCTCGGGCA-CCATCGGCACCTTGGTG-CT-TGATGTGCGGG
43295 TTAAAGAAGG
Statistics
Matches: 809, Mismatches: 158, Indels: 69
0.78 0.15 0.07
Matches are distributed among these distances:
84 13 0.02
85 523 0.65
86 271 0.33
87 2 0.00
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.19
Consensus pattern (84 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGATGTGCGGGAGCC
TCGGACACCATCGGCAAAC
Found at i:42492 original size:170 final size:171
Alignment explanation
Indices: 42207--43098 Score: 521
Period size: 171 Copynumber: 5.2 Consensus size: 171
42197 TTCCGGTAGC
42207 ATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCCTGGTGCTAGGATGTGCAGGAG
1 ATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCCTGGTGCTAGGATGTGCAGGAG
* * *
42272 CCCCGGACACCATCGGCAAACTAAGCCCTTGGTATTGCAGGAGCCTCGGGCGCCATCGGC-ACCT
66 CCCCGGACACCATCGGCAAACTAAGCCCTTGGTAGTGCAGGAGCCTCGGGCACCATCGGCAAACT
** ** * * * *
42336 TGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGTAAC
131 AAGCCCTT-GATCGTGCGGGAGCCTCGGCCACCATAGGCAAA
* * * *
42377 CTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGTA-CCTCGGTGCTATGATGTGCGGGA
1 ATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCCT-GGTGCTAGGATGTGCAGGA
* ** * * *
42441 GCCTCGGACACTGTCGGC-AACTTAGGCCCTTGGTCGTGC-GAGAGGCTCGGGCACCATCGGCAA
65 GCCCCGGACACCATCGGCAAAC-TAAGCCCTTGGTAGTGCAG-GAGCCTCGGGCACCATCGGCAA
*
42504 ACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATAGGCAAA
128 ACTAAGCCCTTGATCGTGCGGGAGCCTCGGCCACCATAGGCAAA
* * * ** * * *
42548 ATAGGCCATTGGTCGTGCGAGAGCCTCGGACACCATCGGCAAACTAGGCT-CTTGG-TCGTACGG
1 ATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCCT-GG-TGCTAGGAT-GTGCAG
* * * ** ** * * * * *
42611 GAGCCTCGGGCACCATCGGC-ACCTCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTATCGGCA
63 GAGCCCCGGACACCATCGGCAAACTAAGCCCT-TGGTAGTGCAGGAGCCTCGGGCACCATCGGCA
* * * * * *
42674 ACCTAGGCCCTTGGTTGTGCGGGAGCCTCGAG-CACCATCGGC-AC
127 AACTAAGCCCTTGATCGTGCGGGAGCCTCG-GCCACCATAGGCAAA
* * ** * * * * * * ** *
42718 CTTGGTGCTTGGAT-GTGCGAGAACCTCGCGTACCATCGACAACCTAGGCCCTTGG-TCGTGC-G
1 ATAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCACCCT-GGTGCTAGGAT-GTGCAG
* * * * * * *
42780 AGAGGCTCGGGCACCATCGGTAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGTA
63 -GAGCCCCGGACACCATCGGCAAACTAAGCCCTTGGTAGTGCAGGAGCCTCGGGCACCATCGGCA
* * * * * **
42845 AAATAGGCCCTTGGTCCTGCGGGAGCCTCGGCCACCATCGGC-TC
127 AACTAAGCCCTTGATCGTGCGGGAGCCTCGGCCACCATAGGCAAA
* ** * * * ** ** * ** *
42889 CTAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGTAAACTAGGCCCTTGGCCGTGCGGG
1 ATAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCACCCT-GGTGCTAGGATGTGCAGG
* * * ** ** * *
42953 AGCCTC-GAGCACCATCGAC-ACCTTGGTGCTTGG-ATGTGCCGGAACCTCGGGCACCATCGGCA
64 AGCCCCGGA-CACCATCGGCAAACTAAGCCCTTGGTA-GTGCAGGAGCCTCGGGCACCATCGGCA
* * * * *
43015 ACCT-AGACCCTTGGTCGTGCGAGAAG-CTCGGGCACCATCGGCAAA
127 AACTAAG-CCCTTGATCGTGCG-GGAGCCTCGGCCACCATAGGCAAA
* *
43060 CTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG
1 ATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG
43099 AAAAATAGGC
Statistics
Matches: 581, Mismatches: 116, Indels: 49
0.78 0.16 0.07
Matches are distributed among these distances:
169 9 0.02
170 238 0.41
171 296 0.51
172 37 0.06
173 1 0.00
ACGTcount: A:0.18, C:0.31, G:0.33, T:0.18
Consensus pattern (171 bp):
ATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCCTGGTGCTAGGATGTGCAGGAG
CCCCGGACACCATCGGCAAACTAAGCCCTTGGTAGTGCAGGAGCCTCGGGCACCATCGGCAAACT
AAGCCCTTGATCGTGCGGGAGCCTCGGCCACCATAGGCAAA
Found at i:42738 original size:256 final size:253
Alignment explanation
Indices: 42279--43271 Score: 1016
Period size: 256 Copynumber: 3.9 Consensus size: 253
42269 GAGCCCCGGA
** * * * ** * **
42279 CACCATCGGCAAACTAAGCCCTTGGTATTGCAGGAGCCTCGGGCGCCATCGG-CACCTTGGTGCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAAAAATAGGCCCT
* * * * ** * *
42343 TCGAT-GTGCGGGAGCCTCGGGCACCATCGGTAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGG
66 T-GGTCGTGCGGGAGCCTCGGCCACCATCGG-CACCTCGGTGCTTGAT-GTGCGGGAGCCTCGGA
* * ** ** **
42407 CACCATCGG-TACCTCGGTGCTAT-GATGTGCGGGAGCCTCGGACACTGTCGGCAACTTAGGCCC
128 CA-CATCGGCAACCTAGGCCCT-TGGATGTGCGGGAGCCTCGGACACCATCGGCAACTT-GGTGC
** *
42470 TTGG-TCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGG
190 TTGGAT-GTGCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGTCGTGCGGGAG-CTCGG
*
42534 C
253 G
* * * * * * * * *
42535 CACCATAGGCAAAATAGGCCATTGGTCGTGCGAGAGCCTCGGACACCATCGGCAAACTAGGCTCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAAAAATAGGCCCT
* * *
42600 TGGTCGTACGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACA
66 TGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTCGGTGCT-TGATGTGCGGGAGCCTCGGACA
* *
42665 CTATCGGCAACCTAGGCCCTTGGTTGTGCGGGAGCCTC-GAGCACCATCGGCACCTTGGTGCTTG
130 C-ATCGGCAACCTAGGCCCTTGGATGTGCGGGAGCCTCGGA-CACCATCGGCAACTTGGTGCTTG
* * * * *
42729 GATGTGCGAGAACCTCGCGTACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
193 GATGTGCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGTCGTGCGGGA-GCTCGGG
* *
42791 CACCATCGGTAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGTAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAAAAATAGGCCCT
* * * *
42856 TGGTCCTGCGGGAGCCTCGGCCACCATCGGCTCCTAGGTGCTGGGATGTGCGGGAGCCTCGGACA
66 TGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTCGGTGCT-TGATGTGCGGGAGCCTCGGACA
* * ** * *
42921 CCATCGGTAAACTAGGCCCTTGGCCGTGCGGGAGCCTC-GAGCACCATCGACACCTTGGTGCTTG
130 -CATCGGCAACCTAGGCCCTTGGATGTGCGGGAGCCTCGGA-CACCATCGGCAACTTGGTGCTTG
*
42985 GATGTGCCG-GAACCTCGGGCACCATCGGCAACCT-AGACCCTTGGTCGTGCGAGAAGCTCGGG
193 GATGTG-CGAGAACCTCGGGCACCATCGGCAACCTAAG-CCCTTGGTCGTGCG-GGAGCTCGGG
43047 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAAAAATAGGCCCT
* * * ** * *
43112 TGGTCGTGCGGGGGCCTCGGCCACCATCGGTACCTCAGCCCTTGGTCGTGCGGGAGCCTCGGGCA
66 TGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTCGGTGCTTGAT-GTGCGGGAGCCTCGGACA
* ** * * *
43177 GCATCGGC-ACCTCGGTGGCTAGGAGGTGCGGGAGCCTCGGACACCATCGGTAACTTGGTGCTTG
130 -CATCGGCAACCTAGG-CCCTTGGATGTGCGGGAGCCTCGGACACCATCGGCAACTTGGTGCTTG
* * *
43241 AATGTGCGGGAGCCTCGGGCACCCATCGGCA
193 GATGTGCGAGAACCTCGGGCA-CCATCGGCA
43272 CCTTGGTGCC
Statistics
Matches: 620, Mismatches: 99, Indels: 35
0.82 0.13 0.05
Matches are distributed among these distances:
255 11 0.02
256 522 0.84
257 87 0.14
ACGTcount: A:0.18, C:0.31, G:0.33, T:0.19
Consensus pattern (253 bp):
CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAAAAATAGGCCCT
TGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTCGGTGCTTGATGTGCGGGAGCCTCGGACAC
ATCGGCAACCTAGGCCCTTGGATGTGCGGGAGCCTCGGACACCATCGGCAACTTGGTGCTTGGAT
GTGCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGTCGTGCGGGAGCTCGGG
Found at i:42813 original size:299 final size:296
Alignment explanation
Indices: 42269--43271 Score: 1013
Period size: 299 Copynumber: 3.4 Consensus size: 296
42259 GGATGTGCAG
* * * * * *
42269 GAGCCCCGGACACCATCGGCAAACTAAGCCCTTGGTATTGCAGGAGCCTCGGGCGCCATCGGCAC
1 GAGCCTCGGACACCATCGGCAAACTAGGCTCTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAC
* * * *
42334 CTTGGTGCTTCGATGTGCGGGAGCCTCGGGCACCATCGGTAACCTAGGCCCTTGGTCGTGCGGGA
65 CTAGGTGCTTCGATGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTTGTGCGGGA
* * * * * *
42399 GCCTCGGGCACCATCGGTACCTCGGTGCTAT-GATGTGCGGGAGCCTCGGACACTGTCGGCAACT
130 GCCTCGGGCACCATCGGCACCTAGGTGCT-TGGATGTGCGAGAACCTCGGAC-C-ATCGGCAACC
*
42463 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
192 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGAAAACTAAGCCCTTGGTCGTGCGGGAG
*
42528 CCTCGGCCACCATAGGCAAAATAGGCCATTGGTCGTGCGA
257 CCTCGGCCACCATAGGCAAAATAGGCCATTGGTCCTGCGA
*
42568 GAGCCTCGGACACCATCGGCAAACTAGGCTCTTGGTCGTACGGGAGCCTCGGGCACCATCGGCAC
1 GAGCCTCGGACACCATCGGCAAACTAGGCTCTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAC
* * *
42633 CTCGGTGCTAT-GATGGGCGGGAGCCTCGGACACTATCGGCAACCTAGGCCCTTGGTTGTGCGGG
65 CTAGGTGCT-TCGATGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTTGTGCGGG
* * *
42697 AGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGTACCATCGACAACC
129 AGCCTCGGGCACCATCGGCACCTAGGTGCTTGGATGTGCGAGAACCTCG-G-ACCATCGGCAACC
*
42762 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGTAAACTAAGCCCTTGGTCGTGCGGGAG
192 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGAAAACTAAGCCCTTGGTCGTGCGGGAG
* * * * *
42827 CCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCCTGCGG
257 CCTCGGCCACCATAGGCAAAATAGGCCATTGGTCCTGCGA
* ** * * *
42867 GAGCCTCGGCCACCATCGGC-TCCTAGG-TGCTGGGATGTGCGGGAGCCTCGGACACCATCGGTA
1 GAGCCTCGGACACCATCGGCAAACTAGGCT-CTTGG-TGTGCGGGAGCCTCGGGCACCATCGG-C
* ** * ** * * ** * *
42930 AACTAGGCCCTTGGCCGTGCGGGAGCCTC-GAGCACCATCGAC-ACCTTGGTGCTTGGATGTGCC
63 ACCTAGGTGCTTCGATGTGCGGGAGCCTCGGA-CACCATCGGCAACCTAGGCCCTTGGTTGTGCG
* *** *
42993 GGAACCTCGGGCACCATCGGCAACCTAGACCCTTGG-TCGTGCGAGAAGCTCGGGCACCATCGGC
127 GGAGCCTCGGGCACCATCGGC-ACCTAGGTGCTTGGAT-GTGCGAGAACCTC-GG-ACCATCGGC
* * * * * *
43057 AAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAAAAATAGGCCCTTGGTCGTGCG
188 AACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGAAAACTAAGCCCTTGGTCGTGCG
* * * ** * * *
43122 GGGGCCTCGGCCACCATCGG-TACCTCA-GCCCTTGGTCGTGCGG
253 GGAGCCTCGGCCACCATAGGCAAAAT-AGGCCATTGGTCCTGCGA
* * * * * * * *
43165 GAGCCTCGGGCAGCATCGGC-ACCTCGG-TGGCTAGGAGGTGCGGGAGCCTCGGACACCATCGGT
1 GAGCCTCGGACACCATCGGCAAACTAGGCT--CTTGG-TGTGCGGGAGCCTCGGGCACCATCGGC
* * *
43228 AACTTGGTGCTT-GAATGTGCGGGAGCCTCGGGCACCCATCGGCA
63 ACCTAGGTGCTTCG-ATGTGCGGGAGCCTCGGACA-CCATCGGCA
43272 CCTTGGTGCC
Statistics
Matches: 600, Mismatches: 86, Indels: 35
0.83 0.12 0.05
Matches are distributed among these distances:
297 2 0.00
298 137 0.23
299 455 0.76
300 4 0.01
301 2 0.00
ACGTcount: A:0.18, C:0.31, G:0.33, T:0.18
Consensus pattern (296 bp):
GAGCCTCGGACACCATCGGCAAACTAGGCTCTTGGTGTGCGGGAGCCTCGGGCACCATCGGCACC
TAGGTGCTTCGATGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTTGTGCGGGAG
CCTCGGGCACCATCGGCACCTAGGTGCTTGGATGTGCGAGAACCTCGGACCATCGGCAACCTAGG
CCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGAAAACTAAGCCCTTGGTCGTGCGGGAGCCTC
GGCCACCATAGGCAAAATAGGCCATTGGTCCTGCGA
Found at i:47308 original size:42 final size:42
Alignment explanation
Indices: 47204--47495 Score: 283
Period size: 42 Copynumber: 6.9 Consensus size: 42
47194 GAGCCTCCAT
*
47204 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* * *
47247 TAACCTTGATGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
47290 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * * * *
47332 CAAACTAGGCCCTTGGTTATG-GGGAGCCTCG-GAAACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
*
47374 CACCTCGGTGCTAT-GATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
47416 CACCTTGGTGCTTGGATGTGCGGGAACCTCGAGCACCATCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
**
47458 CACCTTGGTGCATGGATAAGCGGGAGCCTTC-AGCACCA
1 CACCTTGGTGCATGGATGTGCGGGAGCC-TCGAGCACCA
47496 AAGCTAAAGT
Statistics
Matches: 206, Mismatches: 33, Indels: 20
0.80 0.13 0.08
Matches are distributed among these distances:
41 12 0.06
42 142 0.69
43 42 0.20
44 10 0.05
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.20
Consensus pattern (42 bp):
CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
Found at i:47732 original size:24 final size:24
Alignment explanation
Indices: 47704--47776 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 24
47694 CCGGTTAGGT
*
47704 TCCCGGTGGTGCTCCGGTGATCCG
1 TCCCGGTGGTGCTCCGGTGAACCG
*
47728 TCCCGGTGGTGCTCCGGCGAACCG
1 TCCCGGTGGTGCTCCGGTGAACCG
*
47752 TCCC-GTCGCTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGTGAACCG
47776 T
1 T
47777 TCGGTAGCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.07, C:0.37, G:0.34, T:0.22
Consensus pattern (24 bp):
TCCCGGTGGTGCTCCGGTGAACCG
Found at i:47906 original size:43 final size:43
Alignment explanation
Indices: 47786--48635 Score: 776
Period size: 43 Copynumber: 19.9 Consensus size: 43
47776 TTCGGTAGCA
* **
47786 TAGGCTCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
** * * * *
47829 T-GGTGCTAGGAT-GTGCAGGAGCCCCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
* ** * * *
47871 TAAGCCCTTGGTATTGCAGGAGCCTCGGGCGCCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
* ** * *
47913 TTGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTT-GGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
* *
47956 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG-TACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
* ** * * * * **
47998 TCGGTGCTATGAT-GGGCGGGAGCCTCAGACACTGTCGGC-AAC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
* *
48040 TTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 -TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
* ** * * * * *
48083 TTGGTGCTTGGAT-GTGCGAGAACCTCGCGTACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
* *
48126 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
* * * *
48169 TAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGTAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
* *
48212 TAGGCCATTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
*
48255 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
* ** * * ** *
48297 TCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
* *
48340 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
* ** * * *
48382 TTGGTGCTTGGAT-GTGCGAGAACCTCGCGCACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
* * *
48425 TAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
* *
48468 TAGGCCCTTGGTCGTGCGGTAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
* *
48511 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGAC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
* ** * * * ** *
48553 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
*
48596 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
48636 CCTTGGTGCT
Statistics
Matches: 648, Mismatches: 137, Indels: 44
0.78 0.17 0.05
Matches are distributed among these distances:
42 228 0.35
43 420 0.65
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.18
Consensus pattern (43 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAC
Found at i:47935 original size:85 final size:85
Alignment explanation
Indices: 47786--48547 Score: 632
Period size: 85 Copynumber: 8.9 Consensus size: 85
47776 TTCGGTAGCA
* * * *
47786 TAGGCTCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCCTGGTGCTAGGATGTGCAGGAGC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGC
*
47851 CCCGGACACCATCGGCAAAC
66 CTCGGACACCATCGGCAAAC
* ** * * *
47871 TAAGCCCTTGGTATTGCAGGAGCCTCGGGCGCCATCGGCACCTTGGTGCTTCGATGTGCGGGAGC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGC
* *
47936 CTCGGGCACCATCGGCAACC
66 CTCGGACACCATCGGCAAAC
* * *
47956 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGTACCTCGGTGCTAT-GATGGGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCT-TGGATGTGCGGGAG
* **
48020 CCTCAGACACTGTCGGC-AAC
65 CCTCGGACACCATCGGCAAAC
* * *
48040 TTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAA
1 -TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAG
* *
48105 CCTCGCG-TACCATCGGCAACC
65 CCTCG-GACACCATCGGCAAAC
* * * ** **
48126 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGG-TCGTGCGGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGGGA
* * *
48190 GCCTCGGCCACCATCGGTAAAA
64 GCCTCGGACACCATCGGCAAAC
* * * * **
48212 TAGGCCATTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGGGA
* *
48276 GCCTCGGGCACCATCGGC-ACC
64 GCCTCGGACACCATCGGCAAAC
* ** * * ** * **
48297 TCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGG-TCGTGCGGG
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGGG
*
48360 AGCCTC-GAGCACCATCGGC-ACC
63 AGCCTCGGA-CACCATCGGCAAAC
* ** * * * * ** **
48382 TTGGTGCTTGGAT-GTGCGAGAACCTCGCGCACCATCGGCAAACTAAGCCCTTGG-TCGTGCGGG
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGGG
* *
48445 AGCCTCGGCCACCATCGGCAAAA
63 AGCCTCGGACACCATCGGCAAAC
* * * * **
48468 TAGGCCCTTGGTCGTGCGGTAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGGGA
*
48532 GCCTCGGGCACCATCG
64 GCCTCGGACACCATCG
48548 ACACCTCGGT
Statistics
Matches: 571, Mismatches: 92, Indels: 27
0.83 0.13 0.04
Matches are distributed among these distances:
84 6 0.01
85 382 0.67
86 183 0.32
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (85 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGC
CTCGGACACCATCGGCAAAC
Found at i:48394 original size:299 final size:297
Alignment explanation
Indices: 47847--48547 Score: 1080
Period size: 299 Copynumber: 2.3 Consensus size: 297
47837 GGATGTGCAG
* * ** * * * * *
47847 GAGCCCCGGACACCATCGGCAAACTAAGCCCTTGGTATTGCAGGAGCCTCGGGCGCCATCGGCAC
1 GAGCCTCGGCCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGAAA
* * * *
47912 CTTGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGG
66 CTAGG-CCTT-GGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGG
* *
47976 AGCCTCGGGCACCATCGGTACCTCGGTGCTATGATGGGCGGGAGCCTCAGACACTGTCGGCAACT
129 AGCCTCGGGCACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCAGACACTGTCGGCAACC
48041 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAAC
194 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAAC
* * *
48106 CTCGCGTACCATCGGCAACCTAGGCCCTTGGTCGTGCGA
259 CTCGCGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGA
* * *
48145 GAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGTAA
1 GAGCCTCGGCCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGG-AA
* *
48210 AATAGGCCATTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGG
65 ACTAGGCC-TTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGG
* *
48275 AGCCTCGGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACC
129 AGCCTCGGGCACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCAGACACTGTCGGCAACC
48340 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAAC
194 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAAC
*
48405 CTCGCGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGG
259 CTCGCGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGA
* * *
48444 GAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGTAGCCTCGGACACCATCGGCAA
1 GAGCCTCGGCCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGG-AA
48509 ACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCG
65 ACTAGG-CCTTGGTCGTGCGGGAGCCTCGGGCACCATCG
48548 ACACCTCGGT
Statistics
Matches: 366, Mismatches: 33, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
298 57 0.16
299 307 0.84
300 2 0.01
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (297 bp):
GAGCCTCGGCCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGAAA
CTAGGCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
CCTCGGGCACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCAGACACTGTCGGCAACCTA
GGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCT
CGCGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGA
Found at i:48594 original size:256 final size:256
Alignment explanation
Indices: 48113--48660 Score: 972
Period size: 256 Copynumber: 2.1 Consensus size: 256
48103 AACCTCGCGT
* ** ** *
48113 ACCATCGGCAACCTAGGCCCTTGG-TCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCT
1 ACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAGAACCTCGCGCACCATCGGCAAACTAAGCCCT
*
48177 TGGTCGTGCGGGAGCCTCGGCCACCATCGGTAAAATAGGCCATTGGTCGTGCGGGAGCCTCGGAC
64 TGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCATTGGTCGTGCGGGAGCCTCGGAC
*
48242 ACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTAT
129 ACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGACACCTCGGTGCTAT
*
48307 GATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGC
194 GATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGC
48370 ACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGCACCATCGGCAAACTAAGCCCTTG
1 ACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGCACCATCGGCAAACTAAGCCCTTG
* *
48435 GTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGTAGCCTCGGACAC
66 GTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCATTGGTCGTGCGGGAGCCTCGGACAC
48500 CATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGACACCTCGGTGCTATGA
131 CATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGACACCTCGGTGCTATGA
48565 TGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGC
196 TGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGC
48626 ACCATCGGCACCTTGGTGCTTGGATGTGCGAGAAC
1 ACCATCGGCACCTTGGTGCTTGGATGTGCGAGAAC
48661 GTAGGTTGTC
Statistics
Matches: 279, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
256 269 0.96
257 10 0.04
ACGTcount: A:0.18, C:0.31, G:0.33, T:0.18
Consensus pattern (256 bp):
ACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGCACCATCGGCAAACTAAGCCCTTG
GTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCATTGGTCGTGCGGGAGCCTCGGACAC
CATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGACACCTCGGTGCTATGA
TGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGC
Found at i:48631 original size:85 final size:84
Alignment explanation
Indices: 47926--48655 Score: 616
Period size: 85 Copynumber: 8.5 Consensus size: 84
47916 GTGCTTCGAT
* * ** * *
47926 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGAGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAGCCTCGGACACCAT
* * * ** *
47991 CGG-TACCTCGGTGCTATGAT-
64 CGGCAAACTAGGCCCT-TGGTC
* ** * * ** *
48011 GGGCGGGAGCCTC-AGACACTGTCGGCAACTTAGGCCCTTGGTCGTGCGGGAGCCTC-GAGCACC
1 GTGCGGGAGCCTCGAG-CACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAGCCTCGGA-CACC
* * **
48074 ATCGGC-ACCTTGGTGCTTGGAT-
62 ATCGGCAAACTAGGCCCTTGG-TC
* * * * * ** * * * *
48096 GTGCGAGAACCTCGCGTACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCAT
1 GTGCGGGAGCCTCGAGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAGCCTCGGACACCAT
*
48161 CGGCAAACTAAGCCCTTGGTC
64 CGGCAAACTAGGCCCTTGGTC
* ** * * *
48182 GTGCGGGAGCCTCG-GCCACCATCGGTAAAATAGG-CCATTGGTCGTGCGGGAGCCTCGGACACC
1 GTGCGGGAGCCTCGAG-CACCATCGG-CACCTCGGTGC-TTGAT-GTGCGGGAGCCTCGGACACC
48245 ATCGGCAAACTAGGCCCTTGGTC
62 ATCGGCAAACTAGGCCCTTGGTC
* **
48268 GTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTC
1 GTGCGGGAGCCTCGAGCACCATCGGCACCTCGGTGCT-TGATGTGCGGGAGCCTCGGACACCATC
*
48333 GGCAACCTAGGCCCTTGGTC
65 GGCAAACTAGGCCCTTGGTC
* * *
48353 GTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCG-CACCAT
1 GTGCGGGAGCCTCGAGCACCATCGGCACCTCGGTGCTT-GATGTGCGGGAGCCTCG-GACACCAT
*
48417 CGGCAAACTAAGCCCTTGGTC
64 CGGCAAACTAGGCCCTTGGTC
** * ** * *
48438 GTGCGGGAGCCTCG-GCCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGTAGCCTCGGACACCA
1 GTGCGGGAGCCTCGAG-CACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAGCCTCGGACACCA
48502 TCGGCAAACTAGGCCCTTGGTC
63 TCGGCAAACTAGGCCCTTGGTC
* * * **
48524 GTGCGGGAGCCTCGGGCACCATCGACACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTC
1 GTGCGGGAGCCTCGAGCACCATCGGCACCTCGGTGCT-TGATGTGCGGGAGCCTCGGACACCATC
*
48589 GGCAACCTAGGCCCTTGGTC
65 GGCAAACTAGGCCCTTGGTC
*
48609 GTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCG
1 GTGCGGGAGCCTCGAGCACCATCGGCACCTCGGTGCTT-GATGTGCG
48656 AGAACGTAGG
Statistics
Matches: 545, Mismatches: 77, Indels: 46
0.82 0.12 0.07
Matches are distributed among these distances:
84 7 0.01
85 357 0.66
86 179 0.33
87 2 0.00
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.18
Consensus pattern (84 bp):
GTGCGGGAGCCTCGAGCACCATCGGCACCTCGGTGCTTGATGTGCGGGAGCCTCGGACACCATCG
GCAAACTAGGCCCTTGGTC
Found at i:48769 original size:43 final size:43
Alignment explanation
Indices: 48662--49601 Score: 789
Period size: 43 Copynumber: 22.0 Consensus size: 43
48652 TGCGAGAACG
* * * **
48662 TAGGTTGTCGATGGTG-CGCGAGGTTCTCGCAC-ATCCAAGCACC
1 TAGGTTGCCGATGGTGTC-CGAGGCTCCCGCACGA-CCAAGGGCC
*
48705 AAGG-TGCCGATGGTG-CTCGAGGCTCCCGCACGACCAAGGGCC
1 TAGGTTGCCGATGGTGTC-CGAGGCTCCCGCACGACCAAGGGCC
** * * **
48747 TAGGTTGCCGACAGTGTCCGAGGCTCCCGC-CCATCATAGCACC
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCACGACCA-AGGGCC
* *
48790 GAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCC
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCC
*
48832 TAGTTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCC
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCC
** * *
48875 TATTTTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCT
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCC
* * * * *
48918 TAGTTTGCCGATGGTGCCCGAGCCTCTCGTACGACCAAGGGCC
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCC
* * *
48961 TAGGTTGCCGATGGT-ACGCGAGGTTCTCGCAC-ATCCAA--GCAC
1 TAGGTTGCCGATGGTGTC-CGAGGCTCCCGCACGA-CCAAGGGC-C
49003 TAAGG-TGCCGATGGTG-CTCGAGGCTCCCGCACGACCAAGGGCC
1 T-AGGTTGCCGATGGTGTC-CGAGGCTCCCGCACGACCAAGGGCC
** ** **
49046 TAGGTTGCCGACAGTGTCCGAGGCTCCCGCAC-ATTATAGCACC
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCACGACCA-AGGGCC
* *
49089 GAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCC
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCC
*
49131 TAGTTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCC
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCC
** * * * *
49174 TATTTTGTCGATGGTGGCCGAGGCTCCCGCACGACCAATGGCT
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCC
* * * * *
49217 TAGTTTACCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCC
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCC
* * * **
49260 TAGGTTGCCGATGGT-ACGCGAGGTTCTCGCAC-ATCCAAGCACC
1 TAGGTTGCCGATGGTGTC-CGAGGCTCCCGCACGA-CCAAGGGCC
* *
49303 AAGG-TGCCGATGGTG-CTCGAGGCTCCCGCATGACCAAGGGCC
1 TAGGTTGCCGATGGTGTC-CGAGGCTCCCGCACGACCAAGGGCC
** * **
49345 TAGGTTGCCGACAGTGTCCGAGGCTCCCGCAC-ATCATAGCACC
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCACGACCA-AGGGCC
* * *
49388 GAGG-TGCCGATGGT-TCCCGAGGCTTCCACACGACCAAGGGCC
1 TAGGTTGCCGATGGTGT-CCGAGGCTCCCGCACGACCAAGGGCC
* * * * **
49430 TAGGTTGCCAATGGTGCCCGAGGCTCCAGCAC-ATCGAAGCACC
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCACGA-CCAAGGGCC
* * ** *
49473 GAGG-TGCCGATGGCT-TCCGAGGCTCCTGCAATACCAAGGGCT
1 TAGGTTGCCGATGG-TGTCCGAGGCTCCCGCACGACCAAGGGCC
* * * * **
49515 TAGTTTGCCGATGGTGTCCGGGGCTCCTGCAC-ATCCTAGCACC
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCACGA-CCAAGGGCC
* ** *
49558 -AGGGTGCCGATGGTACCCGAGGCTCCCGCACGACCAAGGTCC
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCC
49600 TA
1 TA
49602 TGCTACCGGA
Statistics
Matches: 723, Mismatches: 136, Indels: 76
0.77 0.15 0.08
Matches are distributed among these distances:
41 3 0.00
42 258 0.36
43 457 0.63
44 5 0.01
ACGTcount: A:0.19, C:0.32, G:0.31, T:0.18
Consensus pattern (43 bp):
TAGGTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCC
Found at i:48805 original size:85 final size:84
Alignment explanation
Indices: 48662--49601 Score: 743
Period size: 85 Copynumber: 11.0 Consensus size: 84
48652 TGCGAGAACG
* * * * * *
48662 TAGGTTGTCGATGGTG-CGCGAGGTTCTCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAG
1 TAGGTTGCCGATGGTGTC-CGAGGCTCCCGCCCA-CCAAGCACCTAGGTGCCGATGGTGCCCGAG
48726 GCTCCCGCACGACCAAGGGCC
64 GCTCCCGCACGACCAAGGGCC
** * *
48747 TAGGTTGCCGACAGTGTCCGAGGCTCCCGCCCATCATAGCACCGAGGTGCCGATGGTGCCCGAGG
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCCCACCA-AGCACCTAGGTGCCGATGGTGCCCGAGG
48812 CTCCCGCACGACCAAGGGCC
65 CTCCCGCACGACCAAGGGCC
* * ** ** *
48832 TAGTTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGGCCGAG
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGC-CCACCAAGCACCTA-GGTGCCGATGGTGCCCGAG
*
48897 GCTCCCGCACGACCAAGGGCT
64 GCTCCCGCACGACCAAGGGCC
* * * * * * ** * *
48918 TAGTTTGCCGATGGTGCCCGAGCCTCTCGTACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAG
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCG-CCCACCAAGCACCTAGG-TGCCGATGGTGCCCGAG
* *
48983 GTTCTCGCAC-ATCCAA--GCAC
64 GCTCCCGCACGA-CCAAGGGC-C
* ** ** *
49003 TAAGG-TGCCGATGGTG-CTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCG
1 T-AGGTTGCCGATGGTGTC-CGAGGCTCCCGC-CCACCAAGCACCTAGG-TGCCGATGGTGCCCG
** **
49066 AGGCTCCCGCAC-ATTATAGCACC
62 AGGCTCCCGCACGACCA-AGGGCC
* * * ** * *
49089 GAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAG
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGC-CCACCAAGCACCTAG-GTGCCGATGGTGCCCGAG
49153 GCTCCCGCACGACCAAGGGCC
64 GCTCCCGCACGACCAAGGGCC
** * * * * * * *
49174 TATTTTGTCGATGGTGGCCGAGGCTCCCGCACGACCAATG-GCTTAGTTTACCGATGGTGCCCGA
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGC-CCACCAA-GCACCTAG-GTGCCGATGGTGCCCGA
* *
49238 GCCTCTCGCACGACCAAGGGCC
63 GGCTCCCGCACGACCAAGGGCC
* * * * * *
49260 TAGGTTGCCGATGGT-ACGCGAGGTTCTCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAG
1 TAGGTTGCCGATGGTGTC-CGAGGCTCCCGCCCA-CCAAGCACCTAGGTGCCGATGGTGCCCGAG
*
49324 GCTCCCGCATGACCAAGGGCC
64 GCTCCCGCACGACCAAGGGCC
** * * * *
49345 TAGGTTGCCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGGTGCCGATGGTTCCCGAGG
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCCCACCA-AGCACCTAGGTGCCGATGGTGCCCGAGG
* *
49410 CTTCCACACGACCAAGGGCC
65 CTCCCGCACGACCAAGGGCC
* * * * * * *
49430 TAGGTTGCCAATGGTGCCCGAGGCTCCAGCACATCGAAGCACCGAGGTGCCGATGGCT-TCCGAG
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCCCA-CCAAGCACCTAGGTGCCGATGG-TGCCCGAG
* ** *
49494 GCTCCTGCAATACCAAGGGCT
64 GCTCCCGCACGACCAAGGGCC
* * * * * *
49515 TAGTTTGCCGATGGTGTCCGGGGCTCCTGCACATCCTAGCACC-AGGGTGCCGATGGTACCCGAG
1 TAGGTTGCCGATGGTGTCCGAGGCTCCCGCCCA-CCAAGCACCTA-GGTGCCGATGGTGCCCGAG
*
49579 GCTCCCGCACGACCAAGGTCC
64 GCTCCCGCACGACCAAGGGCC
49600 TA
1 TA
49602 TGCTACCGGA
Statistics
Matches: 706, Mismatches: 121, Indels: 56
0.80 0.14 0.06
Matches are distributed among these distances:
84 10 0.01
85 477 0.68
86 217 0.31
87 2 0.00
ACGTcount: A:0.19, C:0.32, G:0.31, T:0.18
Consensus pattern (84 bp):
TAGGTTGCCGATGGTGTCCGAGGCTCCCGCCCACCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
TCCCGCACGACCAAGGGCC
Found at i:49200 original size:299 final size:299
Alignment explanation
Indices: 48662--49530 Score: 1456
Period size: 299 Copynumber: 2.9 Consensus size: 299
48652 TGCGAGAACG
* *
48662 TAGGTTGTCGATGGTGCGCGAGGTTCTCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGG
1 TAGGTTGCCGATGGTACGCGAGGTTCTCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGG
*
48727 CTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCCCATCATAGCACCGA
66 CTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGA
48792 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCT
131 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCT
48857 CCCGCACGACCAAGGGCCTATTTTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCTTAGT
196 CCCGCACGACCAAGGGCCTATTTTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCTTAGT
*
48922 TTGCCGATGGTGCCCGAGCCTCTCGTACGACCAAGGGCC
261 TTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCC
*
48961 TAGGTTGCCGATGGTACGCGAGGTTCTCGCACATCCAAGCACTAAGGTGCCGATGGTGCTCGAGG
1 TAGGTTGCCGATGGTACGCGAGGTTCTCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGG
*
49026 CTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACATTATAGCACCGA
66 CTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGA
49091 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCT
131 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCT
* *
49156 CCCGCACGACCAAGGGCCTATTTTGTCGATGGTGGCCGAGGCTCCCGCACGACCAATGGCTTAGT
196 CCCGCACGACCAAGGGCCTATTTTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCTTAGT
*
49221 TTACCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCC
261 TTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCC
49260 TAGGTTGCCGATGGTACGCGAGGTTCTCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGG
1 TAGGTTGCCGATGGTACGCGAGGTTCTCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGG
*
49325 CTCCCGCATGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGA
66 CTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGA
* * * * * *
49390 GGTGCCGATGGTTCCCGAGGCTTCCACACGACCAAGGGCCTAGGTTGCCAATGGTGCCCGAGGCT
131 GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCT
* * ** * ** * * **
49455 CCAGCAC-ATCGAAGCACCGA-GGTGCCGATGGCT-TCCGAGGCTCCTGCAATACCAAGGGCTTA
196 CCCGCACGA-CCAAGGGCCTATTTTGCCGATGG-TGGCCGAGGCTCCCGCACGACCAAGGGCTTA
49517 GTTTGCCGATGGTG
259 GTTTGCCGATGGTG
49531 TCCGGGGCTC
Statistics
Matches: 536, Mismatches: 32, Indels: 5
0.94 0.06 0.01
Matches are distributed among these distances:
298 46 0.09
299 490 0.91
ACGTcount: A:0.19, C:0.32, G:0.31, T:0.18
Consensus pattern (299 bp):
TAGGTTGCCGATGGTACGCGAGGTTCTCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGG
CTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGA
GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCT
CCCGCACGACCAAGGGCCTATTTTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCTTAGT
TTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCC
Found at i:49230 original size:214 final size:211
Alignment explanation
Indices: 48709--49461 Score: 779
Period size: 214 Copynumber: 3.5 Consensus size: 211
48699 AGCACCAAGG
** *
48709 TGCCGATGGTG-CTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTC
1 TGCCGATGGTGTC-CGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGACCGAGGCTC
* * ** *
48773 CCGCCCATC-ATAGCACCGAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTT
65 CCGCACACCAAT-GCACTAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
* * ** *** *
48837 TGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGGCCGAGGCTCC
129 TGCCGA-AGTGTCCGAGGCTCCCGCAC-ATCAAGCACC-AAGGTGCCGATGGTGCCCGAGGCTCC
*
48902 CGCACGACCAAGGGCTTAGTT
191 CGCACGACCAAGGGCCTAGTT
* * * * *
48923 TGCCGATGGTGCCCGAGCCTCTCGTACGACCAAGGGCCTAGGTTGCCGATGGT-ACGCGAGGTTC
1 TGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGAC-CGAGGCTC
* *
48987 TCGCACATCCAA-GCACTAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGT
65 CCGCACA-CCAATGCACTAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
* *
49051 TGCCGACAGTGTCCGAGGCTCCCGCACATTATAGCACCGAGGTGCCGATGGTGCCCGAGGCTCCC
129 TGCCGA-AGTGTCCGAGGCTCCCGCACATCA-AGCACCAAGGTGCCGATGGTGCCCGAGGCTCCC
49116 GCACGACCAAGGGCCTAGTT
192 GCACGACCAAGGGCCTAGTT
** * *
49136 TGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCCTATTTTGTCGATGGTGGCCGAGGCTCC
1 TGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGACCGAGGCTCC
* * * * * *
49201 CGCACGACCAATG-GCTTAGTTTACCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGT
66 CGCAC-ACCAATGCACTAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
* * * *
49265 TGCCGATG-GTACGCGAGGTTCTCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCC
129 TGCCGAAGTGT-C-CGAGGCTCCCGCACAT-CAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCC
* *
49329 CGCATGACCAAGGGCCTAGGT
191 CGCACGACCAAGGGCCTAGTT
** * ** * ** *
49350 TGCCGACAGTGTCCGAGGCTCCCGCAC-ATCATAGCACCGAGG-TGCCGATGGTTCCCGAGGCTT
1 TGCCGATGGTGTCCGAGGCTCCCGCACGACCA-AGGGCCTAGGTTGCCGATGGTGACCGAGGCTC
* * * *
49413 CCACACGACCAAGGGC-CT-AGGTTGCCAATGGTGCCCGAGGCTCCAGCAC
65 CCGCAC-ACCAA-TGCACTAAGG-TGCCGATGGTGCCCGAGGCTCCCGCAC
49462 ATCGAAGCAC
Statistics
Matches: 452, Mismatches: 71, Indels: 33
0.81 0.13 0.06
Matches are distributed among these distances:
212 2 0.00
213 167 0.37
214 279 0.62
215 3 0.01
216 1 0.00
ACGTcount: A:0.18, C:0.33, G:0.31, T:0.18
Consensus pattern (211 bp):
TGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGACCGAGGCTCC
CGCACACCAATGCACTAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTG
CCGAAGTGTCCGAGGCTCCCGCACATCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCAC
GACCAAGGGCCTAGTT
Found at i:49642 original size:24 final size:24
Alignment explanation
Indices: 49615--49661 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
49605 TACCGGAACG
49615 GTTCACCGAAGCACCGACGGGACT
1 GTTCACCGAAGCACCGACGGGACT
* * *
49639 GTTCGCCGGAGCACCGCCGGGAC
1 GTTCACCGAAGCACCGACGGGAC
49662 GGATCGCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.36, G:0.34, T:0.11
Consensus pattern (24 bp):
GTTCACCGAAGCACCGACGGGACT
Found at i:49668 original size:24 final size:24
Alignment explanation
Indices: 49624--49677 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
49614 GGTTCACCGA
* * *
49624 AGCACCGACGGGACTGTTCGCCGG
1 AGCACCGACGGGACGGATCGCCAG
*
49648 AGCACCGCCGGGACGGATCGCCAG
1 AGCACCGACGGGACGGATCGCCAG
49672 AGCACC
1 AGCACC
49678 ACCGAAAACC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.37, G:0.35, T:0.07
Consensus pattern (24 bp):
AGCACCGACGGGACGGATCGCCAG
Found at i:52717 original size:43 final size:42
Alignment explanation
Indices: 52627--53950 Score: 838
Period size: 43 Copynumber: 31.0 Consensus size: 42
52617 CACATTCCAG
* *
52627 GCACCAAGGTACCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAA
1 GCACCAAGTTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAA
* * * **
52670 CCACCAAGTTGCCGACGGTGTCCGAGGCTCCCGCACCTCCAA
1 GCACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
* * * * *
52712 GCCACCGAGGTGCCGATGCTGCCCGAGGCTCCCGCAC-ATTCGA
1 G-CACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAA
*
52755 GCCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
1 G-CACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** ** * *
52798 GGGCTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAA
1 GCACCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** * * * *
52841 GGGTCTAGGTTGCCGATGGTGCCCGAGGTTCCGGCAC-ATCCAA
1 -GCACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAA
* * *
52884 GCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAA
1 GCACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** * * * *
52926 GGGCCTAGTTTCCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCA
1 GCACCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAA
* ** *
52969 GCACCTAGGAGCCGATGGTGGCCGAGGCTCCCGCACGACCAA
1 GCACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** * **
53011 GGGCTTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
1 GCAC-CAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** ** * *
53054 GGGCTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAA
1 GCACCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** * * * * *
53097 GGGCCTAGGTTGTCGATGGTGCGCGAGGTTCTCGCAC-ATCCAA
1 GCACC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAA
* *
53140 GCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAA
1 GCACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** * ** * * *
53182 GGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGC-CCATCATA
1 GCACC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCA-A
* * *
53225 GCACCGAGGTGTCGATGGTGCCCCGAGGCTCCCGCACGACCAA
1 GCACCAAGTTGCCGATGGTG-CCCGAGGCTCCCGCACGACCAA
** * *
53268 GGGCCTAGTTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAA
1 GCACCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** ** * *
53311 GGGCTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAA
1 GCACCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** * * * * * *
53354 GGGCCTAGGTTGCCGATGGTACGCAAGGTTCTCGCAC-ATCCAA
1 GCACC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAA
* * *
53397 GTACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAA
1 GCACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** * ** * *
53439 GGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCAC-ATCATA
1 GCACC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCA-A
* * * *
53482 GCACCGAGGTACCGATGGTGCCCAAGGCTCCCGCACGACCAA
1 GCACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** ** * *
53524 GGGCCTATTTTGCCGATGGTGGCCGAGGCTCCCGCATGACCAA
1 GCACC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
* ** * * *
53567 TG-GCTTAGTTTACCGATGGTGCCCGAGCCTCTCGCACGACCAA
1 -GCACCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** * * * * *
53610 GGGCCTAGGTTGCCGATGGTACGCGAGGTTCTCGCAC-ATCCAA
1 GCACC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAA
* * * *
53653 GCACTAAGGTACCGATGGTGCTCGAGGCTCCCGCACGACCAA
1 GCACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** * ** * * *
53695 GGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCACAC-ATCATA
1 GCACC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCA-A
* * *
53738 GCACCGAGGTGCCGATGGTGCCCAAGGCTCCCGCACGACCAA
1 GCACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** * *
53780 GGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCGAA
1 GCACC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAA
* * * * * **
53823 GCACCGAGGTGCCGATGGCGCCCAAGGCTCCTGCAATACCAA
1 GCACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** ** * * ** *
53865 GGGCTTAGTTTGCCGATGGTGTCCGGGGCTCTTGCAC-ATCCTA
1 GCACCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAA
* *
53908 GCACCAGGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
1 GCACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
53950 G
1 G
53951 GTCCTATGCT
Statistics
Matches: 983, Mismatches: 255, Indels: 87
0.74 0.19 0.07
Matches are distributed among these distances:
42 324 0.33
43 635 0.65
44 24 0.02
ACGTcount: A:0.19, C:0.34, G:0.31, T:0.17
Consensus pattern (42 bp):
GCACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
Found at i:52928 original size:85 final size:85
Alignment explanation
Indices: 52613--53956 Score: 1371
Period size: 85 Copynumber: 15.7 Consensus size: 85
52603 TCTTCTTTAG
* * ***
52613 CCCGCACATTCCAGGCACCAAGGTACCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAACCACC-A
1 CCCGCACA-TCCAAGCACCAAGGTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTA
* * *
52676 AGTTGCCGACGGTGTCCGAGGCT
63 GGTTGCCGATGGTGCCCGAGGCT
* * * * * ** *
52699 CCCGCACCTCCAAGCCACCGAGGTGCCGATGCTGCCCGAGGCTCCCGCAC-ATTCGAGCCACCAA
1 CCCGCACATCCAAG-CACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GGCCTA
52763 GG-TGCCGATGGTGCCCGAGGCT
63 GGTTGCCGATGGTGCCCGAGGCT
** ** * * * *
52785 CCCGCACGA-CCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGTCTAG
1 CCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
*
52849 GTTGCCGATGGTGCCCGAGGTT
64 GTTGCCGATGGTGCCCGAGGCT
* * * *
52871 CCGGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGTT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
* *
52936 TCCCGATGGTGTCCGAGGCT
66 TGCCGATGGTGCCCGAGGCT
* * * * * **
52956 CCCGCACATCCCAGCACCTAGGAGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCTTATTT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
53021 TGCCGATGGTGCCCGAGGCT
66 TGCCGATGGTGCCCGAGGCT
** ** * * *
53041 CCCGCACGA-CCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAG
1 CCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
* * *
53105 GTTGTCGATGGTGCGCGAGGTT
64 GTTGCCGATGGTGCCCGAGGCT
* *
53127 CTCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
** *
53192 TGCCGACAGTGTCCGAGGCT
66 TGCCGATGGTGCCCGAGGCT
* * *
53212 CCCGCCCAT-CATAGCACCGAGGTGTCGATGGTGCCCCGAGGCTCCCGCACGACCAAGGGCCTAG
1 CCCGCACATCCA-AGCACCAAGGTGCCGATGGTG-CCCGAGGCTCCCGCACGACCAAGGGCCTAG
* *
53276 TTTGCCGATGGTGTCCGAGGCT
64 GTTGCCGATGGTGCCCGAGGCT
** ** * * *
53298 CCCGCACGA-CCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAG
1 CCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
* * * *
53362 GTTGCCGATGGTACGCAAGGTT
64 GTTGCCGATGGTGCCCGAGGCT
* * *
53384 CTCGCACATCCAAGTACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
** *
53449 TGCCGACAGTGTCCGAGGCT
66 TGCCGATGGTGCCCGAGGCT
* * * **
53469 CCCGCACAT-CATAGCACCGAGGTACCGATGGTGCCCAAGGCTCCCGCACGACCAAGGGCCTATT
1 CCCGCACATCCA-AGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
*
53533 TTGCCGATGGTGGCCGAGGCT
65 TTGCCGATGGTGCCCGAGGCT
* * ** * * * *
53554 CCCGCATGA-CCAATG-GCTTAGTTTACCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTA
1 CCCGCA-CATCCAA-GCACCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
* * *
53617 GGTTGCCGATGGTACGCGAGGTT
63 GGTTGCCGATGGTGCCCGAGGCT
* * * *
53640 CTCGCACATCCAAGCACTAAGGTACCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
** *
53705 TGCCGACAGTGTCCGAGGCT
66 TGCCGATGGTGCCCGAGGCT
* * *
53725 CCCACACAT-CATAGCACCGAGGTGCCGATGGTGCCCAAGGCTCCCGCACGACCAAGGGCCTAGG
1 CCCGCACATCCA-AGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
53789 TTGCCGATGGTGCCCGAGGCT
65 TTGCCGATGGTGCCCGAGGCT
* * * * * ** * *
53810 CCCGCACATCGAAGCACCGAGGTGCCGATGGCGCCCAAGGCTCCTGCAATACCAAGGGCTTAGTT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
* *
53875 TGCCGATGGTGTCCGGGGCT
66 TGCCGATGGTGCCCGAGGCT
** * * *
53895 CTTGCACATCCTAGCACCAGGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGTCCTA
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
53957 TGCTACAGGA
Statistics
Matches: 1038, Mismatches: 194, Indels: 53
0.81 0.15 0.04
Matches are distributed among these distances:
84 6 0.01
85 645 0.62
86 371 0.36
87 16 0.02
ACGTcount: A:0.19, C:0.34, G:0.30, T:0.17
Consensus pattern (85 bp):
CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
TGCCGATGGTGCCCGAGGCT
Found at i:53083 original size:256 final size:256
Alignment explanation
Indices: 52615--53956 Score: 1876
Period size: 256 Copynumber: 5.2 Consensus size: 256
52605 TTCTTTAGCC
* * * *** *
52615 CGCACATTCCAGGCACCAAGGTACCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAACCACC-AAG
1 CGCACA-TCCAAGCACCAAGGTGCCGAT-GGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGG
* * *
52678 TTGCCGACGGTGTCCGAGGCTCCCGCACCTCCA-AGCCACCGAGGTGCCGATGCTGCCCGAGGCT
63 TTGCCGACAGTGTCCGAGGCTCCCGCACAT-CATAG-CACCGAGGTGCCGATGGTGCCCGAGGCT
* * ** * *
52742 CCCGCAC-ATTCGAGCCACCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTA
126 CCCGCACGA-CCAAG-GGCCTAGTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTA
* *
52805 GTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGTCTAGGTTGCCGATGGTGCCCGAGGT
189 GTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCGCGAGGT
52870 TC-
254 TCT
* *
52872 CGGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGTTT
1 C-GCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTT
* ** ** * * *
52937 CCCGATGGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGAGCCGATGGTGGCCGAGGCTCCCG
65 GCCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGGTGCCGATGGTGCCCGAGGCTCCCG
* *
53002 CACGACCAAGGGCTTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGC
130 CACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGC
*
53067 CGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGTCGATGGTGCGCGAGGTTCT
195 CGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCGCGAGGTTCT
53129 CGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTG
1 CGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTG
* *
53194 CCGACAGTGTCCGAGGCTCCCGCCCATCATAGCACCGAGGTGTCGATGGTGCCCCGAGGCTCCCG
66 CCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGGTGCCGATGGTG-CCCGAGGCTCCCG
*
53259 CACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGC
130 CACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGC
* *
53324 CGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCAAGGTTCT
195 CGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCGCGAGGTTCT
*
53386 CGCACATCCAAGTACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTG
1 CGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTG
* *
53451 CCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGGTACCGATGGTGCCCAAGGCTCCCGC
66 CCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGGTGCCGATGGTGCCCGAGGCTCCCGC
* * * * *
53516 ACGACCAAGGGCCTATTTTGCCGATGGTGGCCGAGGCTCCCGCATGACCAATGGCTTAGTTTACC
131 ACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCC
*
53581 GATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCT
196 GATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCGCGAGGTTCT
* *
53642 CGCACATCCAAGCACTAAGGTACCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTG
1 CGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTG
* *
53707 CCGACAGTGTCCGAGGCTCCCACACATCATAGCACCGAGGTGCCGATGGTGCCCAAGGCTCCCGC
66 CCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGGTGCCGATGGTGCCCGAGGCTCCCGC
* * ** ** *
53772 ACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCGAAGCACCGAG-GTGC
131 ACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCTTAGTTTGC
* * * ** * * * *
53835 CGATGGCGCCCAAGGCTC-CTGCAATACCAAGGGCTTAGTTTGCCGATGGTGTC-CGGGGCTCT
195 CGATGGTGCCCGAGCCTCTC-GCACGACCAAGGGCCTAGGTTGCCGATGGTG-CGCGAGGTTCT
* * * * *
53897 TGCACATCCTAGCACCAGGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGTCCTA
1 CGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTA
53957 TGCTACAGGA
Statistics
Matches: 983, Mismatches: 91, Indels: 24
0.90 0.08 0.02
Matches are distributed among these distances:
254 1 0.00
255 106 0.11
256 574 0.58
257 297 0.30
258 5 0.01
ACGTcount: A:0.19, C:0.34, G:0.30, T:0.17
Consensus pattern (256 bp):
CGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTG
CCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGGTGCCGATGGTGCCCGAGGCTCCCGC
ACGACCAAGGGCCTAGTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCC
GATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCGCGAGGTTCT
Found at i:54002 original size:24 final size:24
Alignment explanation
Indices: 53967--54032 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 24
53957 TGCTACAGGA
*
53967 ACGGTTCACCGGAGCACCGACGGG
1 ACGGTTCGCCGGAGCACCGACGGG
*
53991 ACGGTTCGCCGGAGCACCGCCGGG
1 ACGGTTCGCCGGAGCACCGACGGG
* *
54015 ACGGATCGTCGGAGCACC
1 ACGGTTCGCCGGAGCACC
54033 ACCGAAAACC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.18, C:0.35, G:0.38, T:0.09
Consensus pattern (24 bp):
ACGGTTCGCCGGAGCACCGACGGG
Found at i:55900 original size:42 final size:42
Alignment explanation
Indices: 55845--56135 Score: 263
Period size: 42 Copynumber: 6.9 Consensus size: 42
55835 ACTTTAGCTT
* *
55845 TGGTGCT-GAAGGCTCCCGCTCATCCATGCACCAAGGTTCCGA
1 TGGTGCTCG-AGGCTCCCGCACATCCAAGCACCAAGGTTCCGA
*
55887 TGGTGCTCGAGGCTCCCGCACATCCAAGCACTAAGGTGT-CGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGT-TCCGA
* * * *
55929 TGGTGCTCGAGGCTCCCACACAT-CATAGCATCGAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCA-AGCACCAAGGTTCCGA
* ** * * *
55971 TGGT-CTCCGAGGCTCCC-CACAACCAAGGGCCTAGTTTACCGG
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAGGTT-CCGA
* * *
56013 TGGTG-TCTGATGCTCCCGCACATCCATGCACCAAGGTGCCGA
1 TGGTGCTC-GAGGCTCCCGCACATCCAAGCACCAAGGTTCCGA
* * *
56055 TGGCGATCGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTT-CCGA
* *
56098 TGGTGGCT-GAGGCTCCCACACATCCGAGCCACCAAGGT
1 TGGT-GCTCGAGGCTCCCGCACATCCAAG-CACCAAGGT
56136 GATGGAGGCT
Statistics
Matches: 200, Mismatches: 35, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
41 15 0.08
42 133 0.67
43 42 0.21
44 10 0.05
ACGTcount: A:0.21, C:0.33, G:0.27, T:0.19
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTTCCGA
Found at i:60669 original size:40 final size:41
Alignment explanation
Indices: 60624--61000 Score: 113
Period size: 42 Copynumber: 9.2 Consensus size: 41
60614 GAAGCTCGGA
*
60624 ACCATCGACAAACTAAG-CCTT-GTCGTGCAGAGCCTCGAG-C
1 ACCATCG-CAAAATAAGCCCTTGGTCGTGCAGAGCCTCG-GCC
* **
60664 ACCATCGCAAAATAGGCCCTTGGTCGTGTGGAGCCTCGGCC
1 ACCATCGCAAAATAAGCCCTTGGTCGTGCAGAGCCTCGGCC
*** * ** * * *
60705 ACCATCGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGAC
1 ACCATC-GCAAAATAAGCCCTTGG-TCGTGC-AGAGCCTCGGCC
* * *
60747 ACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGG-C
1 ACCATC-GCAAAATAAGCCCTTGGTCGTGC-AGAGCCTCGGCC
** ** ** * *
60789 ACCATCG-ACACCTTGGTGCTTGGAT-GTGCCGGAACCTCAGG-C
1 ACCATCGCA-AAATAAGCCCTTGG-TCGTG-CAGAGCCTC-GGCC
** *
60831 ACCATCGGCAACCT-AGACCCTTGGTCGTGCGAGAGGCTCGG-C
1 ACCATC-GCAAAATAAG-CCCTTGGTCGTGC-AGAGCCTCGGCC
* * *
60873 ACCATAGGC-AACT-AG-CCTTGGTCGTGCGGAG-CTCGG-C
1 ACCAT-CGCAAAATAAGCCCTTGGTCGTGCAGAGCCTCGGCC
* * * *
60910 ACCATCGGCAAAATAGGCCATTGGTCGTGCGGGGCCTCGGCC
1 ACCATC-GCAAAATAAGCCCTTGGTCGTGCAGAGCCTCGGCC
** ** * *
60952 ACCATCGGC-ACCTCGGCCCTTGGTCGTGCGGGAGCCTCGGGC
1 ACCATC-GCAAAATAAGCCCTTGGTCGTGC-AGAGCCTCGGCC
60994 ACCATCG
1 ACCATCG
61001 GCACCTTGGT
Statistics
Matches: 270, Mismatches: 42, Indels: 49
0.75 0.12 0.14
Matches are distributed among these distances:
37 13 0.05
38 6 0.02
39 20 0.07
40 27 0.10
41 80 0.30
42 81 0.30
43 42 0.16
44 1 0.00
ACGTcount: A:0.18, C:0.32, G:0.31, T:0.18
Consensus pattern (41 bp):
ACCATCGCAAAATAAGCCCTTGGTCGTGCAGAGCCTCGGCC
Found at i:60742 original size:42 final size:41
Alignment explanation
Indices: 60693--61155 Score: 336
Period size: 43 Copynumber: 11.0 Consensus size: 41
60683 TTGGTCGTGT
* *
60693 GGAGCCTCGGCCACCATCGGCTCCTAGGTGCTGGGATGTGCG
1 GGAGCCTCGG-CACCATCGGCACCTAGGTGCTTGGATGTGCG
* **
60735 GGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-TCGTGCG
1 GGAGCCTCGG-CACCATCGGC-ACCTAGGTGCTTGGAT-GTGCG
* * *
60778 GGAGCCTCGGCACCATCGACACCTTGGTGCTTGGATGTGCC
1 GGAGCCTCGGCACCATCGGCACCTAGGTGCTTGGATGTGCG
* ***
60819 GGAACCTCAGGCACCATCGGCAACCTAGACCCTTGG-TCGTGCG
1 GGAGCCTC-GGCACCATCGGC-ACCTAGGTGCTTGGAT-GTGCG
* * * * *
60862 AGAGGCTCGGCACCATAGGCAACTA-G-CCTTGG-TCGTGC-
1 GGAGCCTCGGCACCATCGGCACCTAGGTGCTTGGAT-GTGCG
** *
60900 GGAG-CTCGGCACCATCGGCAAAATAGG-CCATTGG-TCGTGCG
1 GGAGCCTCGGCACCATCGGC-ACCTAGGTGC-TTGGAT-GTGCG
* **
60941 GG-GCCTCGGCCACCATCGGCACCTCGGCCCTTGG-TCGTGCG
1 GGAGCCTCGG-CACCATCGGCACCTAGGTGCTTGGAT-GTGCG
* * *
60982 GGAGCCTCGGGCACCATCGGCACCTTGGTGGCTCGAATGTGCG
1 GGAGCCTC-GGCACCATCGGCACCTAGGT-GCTTGGATGTGCG
* * * * *
61025 GAAGCCTCGGGCAGCATCGGCACCTCGGTGGCTAGGAGGTGCG
1 GGAGCCTC-GGCACCATCGGCACCTAGGT-GCTTGGATGTGCG
* *
61068 GGAGCCTCGGACACCATCGGCAACTTGGTGCTTGGATGTGCG
1 GGAGCCTCGG-CACCATCGGCACCTAGGTGCTTGGATGTGCG
* * *
61110 GGAGCCTCGGGCACCCATTGGCACCTTGGTGCGTGGGATGTGCG
1 GGAGCCTC-GGCA-CCATCGGCACCTAGGTGC-TTGGATGTGCG
61154 GG
1 GG
61156 CTAAAGAAGA
Statistics
Matches: 349, Mismatches: 51, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
37 14 0.04
38 7 0.02
39 15 0.04
40 11 0.03
41 49 0.14
42 110 0.32
43 130 0.37
44 13 0.04
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (41 bp):
GGAGCCTCGGCACCATCGGCACCTAGGTGCTTGGATGTGCG
Found at i:60770 original size:84 final size:83
Alignment explanation
Indices: 60653--61155 Score: 413
Period size: 84 Copynumber: 6.0 Consensus size: 83
60643 TTGTCGTGCA
* * *
60653 GAGCCTC-GAGCACCATC-GCAAAATAGGCCCTTGGTCGTGTGGAGCCTCGGCCACCATCGGCTC
1 GAGCCTCGGA-CACCATCGGCAAACTAGGCCCTTGGTCGTGCGGAGCCTCGG-CACCATCGGCAC
*
60716 CTAGGTGCTGGGATGTGCGG
64 CTAGGTGCTTGGATGTGCGG
*
60736 GAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCACCATCGACACC
1 GAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGC-GGAGCCTCGGCACCATCGGCACC
* *
60801 TTGGTGCTTGGATGTGCCG
65 TAGGTGCTTGGATGTGCGG
* * * * * *
60820 GAACCTCAGG-CACCATCGGCAACCTAGACCCTTGGTCGTGCGAGAGGCTCGGCACCATAGGCAA
1 GAGCCTC-GGACACCATCGGCAAACTAGGCCCTTGGTCGTGCG-GAGCCTCGGCACCATCGGCAC
*
60884 CTA-G-CCTTGG-TCGTGC-G
64 CTAGGTGCTTGGAT-GTGCGG
* * *
60901 GAG-CTCGG-CACCATCGGCAAAATAGGCCATTGGTCGTGCGGGGCCTCGGCCACCATCGGCACC
1 GAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGAGCCTCGG-CACCATCGGCACC
* **
60964 TCGGCCCTTGG-TCGTGCGG
65 TAGGTGCTTGGAT-GTGCGG
* * * ** * * *
60983 GAGCCTCGGGCACCATCGGC-ACCTTGGTGGCTCGAAT-GTGCGGAAGCCTCGGGCAGCATCGGC
1 GAGCCTCGGACACCATCGGCAAACTAGG-CCCTTG-GTCGTGCGG-AGCCTC-GGCACCATCGGC
* * *
61046 ACCTCGGTGGCTAGGAGGTGCGG
62 ACCTAGGT-GCTTGGATGTGCGG
* ** *
61069 GAGCCTCGGACACCATCGGC-AACTTGGTGCTTGGAT-GTGCGGGAGCCTCGGGCACCCATTGGC
1 GAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-TCGTGC-GGAGCCTC-GGCA-CCATCGGC
* *
61132 ACCTTGGTGCGTGGGATGTGCGG
62 ACCTAGGTGC-TTGGATGTGCGG
61155 G
1 G
61156 CTAAAGAAGA
Statistics
Matches: 348, Mismatches: 50, Indels: 41
0.79 0.11 0.09
Matches are distributed among these distances:
78 7 0.02
79 42 0.12
80 4 0.01
81 16 0.05
82 13 0.04
83 25 0.07
84 122 0.35
85 56 0.16
86 63 0.18
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (83 bp):
GAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGAGCCTCGGCACCATCGGCACCT
AGGTGCTTGGATGTGCGG
Found at i:61045 original size:85 final size:85
Alignment explanation
Indices: 60943--61135 Score: 244
Period size: 85 Copynumber: 2.3 Consensus size: 85
60933 GTCGTGCGGG
* * * * *
60943 GCCTCGGCCACCATCGGCACCTCGG-CCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCT
1 GCCTCGGGCACCATCGGCACCTCGGTCCCTAGGACGTGCGGGAGCCTCGGACACCATCGGCAACT
61007 TGGTGGCTCGAATGTGCGGAA
66 TGGT-GCTCGAATGTGCGGAA
* ** *
61028 GCCTCGGGCAGCATCGGCACCTCGGTGGCTAGGAGGTGCGGGAGCCTCGGACACCATCGGCAACT
1 GCCTCGGGCACCATCGGCACCTCGGTCCCTAGGACGTGCGGGAGCCTCGGACACCATCGGCAACT
* * *
61093 TGGTGCTTGGATGTGCGGGA
66 TGGTGCTCGAATGTGCGGAA
*
61113 GCCTCGGGCACCCATTGGCACCT
1 GCCTCGGGCA-CCATCGGCACCT
61136 TGGTGCGTGG
Statistics
Matches: 92, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
85 46 0.50
86 46 0.50
ACGTcount: A:0.14, C:0.33, G:0.36, T:0.18
Consensus pattern (85 bp):
GCCTCGGGCACCATCGGCACCTCGGTCCCTAGGACGTGCGGGAGCCTCGGACACCATCGGCAACT
TGGTGCTCGAATGTGCGGAA
Found at i:68478 original size:267 final size:267
Alignment explanation
Indices: 68003--69498 Score: 2974
Period size: 267 Copynumber: 5.6 Consensus size: 267
67993 ACCATCCTTG
68003 GATCTATGAAGACATCAACTCAAGATAACCCAGTATTCAAGTTTAACCTACGCAATTACTATATC
1 GATCTATGAAGACATCAACTCAAGATAACCCAGTATTCAAGTTTAACCTACGCAATTACTATATC
68068 ATATTTCATCACAATGCACTTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCT
66 ATATTTCATCACAATGCACTTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCT
68133 CTGTTCATGGAAATCAAAGGTATACACATATTTCATACCAATCCTTGAAACCAAAATTTCATAAC
131 CTGTTCATGGAAATCAAAGGTATACACATATTTCATACCAATCCTTGAAACCAAAATTTCATAAC
68198 ACTAATGAAACTAATAAAGATCTGTAAACCGAGACAATTAGAGACAATGAAGTATCACGGCAACA
196 ACTAATGAAACTAATAAAGATCTGTAAACCGAGACAATTAGAGACAATGAAGTATCACGGCAACA
68263 AAATGTA
261 AAATGTA
68270 GATCTATGAAGACATCAACTCAAGATAACCCAGTATTCAAGTTTAACCTACGCAATTACTATATC
1 GATCTATGAAGACATCAACTCAAGATAACCCAGTATTCAAGTTTAACCTACGCAATTACTATATC
68335 ATATTTCATCACAATGCACTTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCT
66 ATATTTCATCACAATGCACTTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCT
*
68400 CTGTTCATGGAAATCAAAGGTATACACATATTTCATAACAATCCTTGAAACCAAAATTTCATAAC
131 CTGTTCATGGAAATCAAAGGTATACACATATTTCATACCAATCCTTGAAACCAAAATTTCATAAC
68465 ACTAATGAAACTAATAAAGATCTGTAAACCGAGACAATTAGAGACAATGAAGTATCACGGCAACA
196 ACTAATGAAACTAATAAAGATCTGTAAACCGAGACAATTAGAGACAATGAAGTATCACGGCAACA
68530 AAATGTA
261 AAATGTA
68537 GATCTATGAAGACATCAACTCAAGATAACCCAGTATTCAAGTTTAACCTACGCAATTACTATATC
1 GATCTATGAAGACATCAACTCAAGATAACCCAGTATTCAAGTTTAACCTACGCAATTACTATATC
68602 ATATTTCATCACAATGCACTTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCT
66 ATATTTCATCACAATGCACTTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCT
68667 CTGTTCATGGAAATCAAAGGTATACACATATTTCATACCAATCCTTGAAACCAAAATTTCATAAC
131 CTGTTCATGGAAATCAAAGGTATACACATATTTCATACCAATCCTTGAAACCAAAATTTCATAAC
68732 ACTAATGAAACTAATAAAGATCTGTAAACCGAGACAATTAGAGACAATGAAGTATCACGGCAACA
196 ACTAATGAAACTAATAAAGATCTGTAAACCGAGACAATTAGAGACAATGAAGTATCACGGCAACA
68797 AAATGTA
261 AAATGTA
68804 GATCTATGAAGACATCAACTCAAGATAACCCAGTATTCAAGTTTAACCTACGCAATTACTATATC
1 GATCTATGAAGACATCAACTCAAGATAACCCAGTATTCAAGTTTAACCTACGCAATTACTATATC
68869 ATATTTCATCACAATGCACTTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCT
66 ATATTTCATCACAATGCACTTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCT
68934 CTGTTCATGGAAATCAAAGGTATACACATATTTCATACCAATCCTTGAAACCAAAATTTCATAAC
131 CTGTTCATGGAAATCAAAGGTATACACATATTTCATACCAATCCTTGAAACCAAAATTTCATAAC
68999 ACTAATGAAACTAATAAAGATCTGTAAACCGAGACAATTAGAGACAATGAAGTATCACGGCAACA
196 ACTAATGAAACTAATAAAGATCTGTAAACCGAGACAATTAGAGACAATGAAGTATCACGGCAACA
69064 AAATGTA
261 AAATGTA
69071 GATCTATGAAGACATCAACTCAAGATAACCCAGTATTCAAGTTTAACCTACGCAATTACTATATC
1 GATCTATGAAGACATCAACTCAAGATAACCCAGTATTCAAGTTTAACCTACGCAATTACTATATC
69136 ATATTTCATCACAATGCACTTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCT
66 ATATTTCATCACAATGCACTTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCT
*
69201 CTGTTCATGGAAATCAAAGGTATACACATATTTCATAACAATCCTTGAAACCAAAATTTCATAAC
131 CTGTTCATGGAAATCAAAGGTATACACATATTTCATACCAATCCTTGAAACCAAAATTTCATAAC
69266 ACTAATGAAACTAATAAAGATCTGTAAACCGAGACAATTAGAGACAATGAAGTATCACGGCAACA
196 ACTAATGAAACTAATAAAGATCTGTAAACCGAGACAATTAGAGACAATGAAGTATCACGGCAACA
69331 AAATGTA
261 AAATGTA
69338 GATCTATGAAGACATCAACTCAAGATAACCCAGTATTCAAGTTTAACCTACGCAATTACTATATC
1 GATCTATGAAGACATCAACTCAAGATAACCCAGTATTCAAGTTTAACCTACGCAATTACTATATC
69403 ATATTTCATCACAATGCACTTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCT
66 ATATTTCATCACAATGCACTTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCT
69468 CTGTTCATGGAAATCAAAGGTATACACATAT
131 CTGTTCATGGAAATCAAAGGTATACACATAT
69499 CCCGTAGGCA
Statistics
Matches: 1226, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
267 1226 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (267 bp):
GATCTATGAAGACATCAACTCAAGATAACCCAGTATTCAAGTTTAACCTACGCAATTACTATATC
ATATTTCATCACAATGCACTTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCT
CTGTTCATGGAAATCAAAGGTATACACATATTTCATACCAATCCTTGAAACCAAAATTTCATAAC
ACTAATGAAACTAATAAAGATCTGTAAACCGAGACAATTAGAGACAATGAAGTATCACGGCAACA
AAATGTA
Found at i:74866 original size:6 final size:6
Alignment explanation
Indices: 74852--74890 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
74842 GCAGAAGGTA
* *
74852 AAAGGC AAAGTC AAAGGC AAAGGC GAAGGC AAAGGC AAA
1 AAAGGC AAAGGC AAAGGC AAAGGC AAAGGC AAAGGC AAA
74891 AGGATTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.15, G:0.31, T:0.03
Consensus pattern (6 bp):
AAAGGC
Found at i:79994 original size:14 final size:13
Alignment explanation
Indices: 79974--80067 Score: 73
Period size: 13 Copynumber: 7.0 Consensus size: 13
79964 CCAGCCAATC
79974 CCTAAACCTTAAA
1 CCTAAACCTTAAA
79987 CTCTAAA-CTCTAAA
1 C-CTAAACCT-TAAA
* *
80001 CCCTAAACCATAAC
1 -CCTAAACCTTAAA
* *
80015 CCTTAAATCTTATA
1 CC-TAAACCTTAAA
* * *
80029 TCTAAACCCTAGA
1 CCTAAACCTTAAA
*
80042 CCTAAACCCTAAA
1 CCTAAACCTTAAA
80055 CCTAAACCTTAAA
1 CCTAAACCTTAAA
80068 ACTTAAAACC
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
13 36 0.57
14 25 0.40
15 2 0.03
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.24
Consensus pattern (13 bp):
CCTAAACCTTAAA
Found at i:80009 original size:7 final size:7
Alignment explanation
Indices: 79973--80067 Score: 63
Period size: 7 Copynumber: 14.0 Consensus size: 7
79963 TCCAGCCAAT
79973 CCCTAAA
1 CCCTAAA
*
79980 CCTTAAA
1 CCCTAAA
*
79987 CTCTAAA
1 CCCTAAA
*
79994 CTCTAAA
1 CCCTAAA
80001 CCCTAAA
1 CCCTAAA
*
80008 CCAT-AA
1 CCCTAAA
80014 CCCTTAAA
1 CCC-TAAA
* * *
80022 TCTTATA
1 CCCTAAA
*
80029 -TCTAAA
1 CCCTAAA
*
80035 CCCTAGA
1 CCCTAAA
80042 -CCTAAA
1 CCCTAAA
80048 CCCTAAA
1 CCCTAAA
80055 -CCTAAA
1 CCCTAAA
*
80061 CCTTAAA
1 CCCTAAA
80068 ACTTAAAACC
Statistics
Matches: 67, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
6 18 0.27
7 46 0.69
8 3 0.04
ACGTcount: A:0.42, C:0.33, G:0.01, T:0.24
Consensus pattern (7 bp):
CCCTAAA
Found at i:80050 original size:34 final size:35
Alignment explanation
Indices: 79974--80061 Score: 98
Period size: 34 Copynumber: 2.6 Consensus size: 35
79964 CCAGCCAATC
79974 CCTAAA-CCTTAAACTCTAAACTCTAAACCCTAAA
1 CCTAAACCCTTAAACTCTAAACTCTAAACCCTAAA
* *
80008 CC-ATAACCCTTAAA-TCTTATA-TCTAAACCCTAGA
1 CCTA-AACCCTTAAACTC-TAAACTCTAAACCCTAAA
80042 CCTAAACCC-TAAAC-CTAAAC
1 CCTAAACCCTTAAACTCTAAAC
80062 CTTAAAACTT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
32 3 0.07
33 6 0.13
34 25 0.56
35 11 0.24
ACGTcount: A:0.42, C:0.33, G:0.01, T:0.24
Consensus pattern (35 bp):
CCTAAACCCTTAAACTCTAAACTCTAAACCCTAAA
Found at i:80098 original size:14 final size:14
Alignment explanation
Indices: 80079--80108 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
80069 CTTAAAACCA
*
80079 AAGCCCCAGGCCCT
1 AAGCCCCAAGCCCT
80093 AAGCCCCAAGCCCT
1 AAGCCCCAAGCCCT
80107 AA
1 AA
80109 TCTTTAAGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.47, G:0.17, T:0.07
Consensus pattern (14 bp):
AAGCCCCAAGCCCT
Found at i:80149 original size:14 final size:14
Alignment explanation
Indices: 80132--80166 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
80122 AGTCTTAAAC
80132 CTTAAACTCAAAAT
1 CTTAAACTCAAAAT
*
80146 CTTAAACTCTAAAT
1 CTTAAACTCAAAAT
*
80160 CCTAAAC
1 CTTAAAC
80167 CCTAAACACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.29
Consensus pattern (14 bp):
CTTAAACTCAAAAT
Found at i:83096 original size:5 final size:5
Alignment explanation
Indices: 83082--83122 Score: 73
Period size: 5 Copynumber: 8.2 Consensus size: 5
83072 TGGCTGTTGG
*
83082 TTTCT ATTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT T
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT T
83123 CTCCCCAGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTCT
Found at i:90330 original size:19 final size:19
Alignment explanation
Indices: 90286--90333 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
90276 TTAGTAGTTA
*
90286 TTAGAGA-ATGTTGTTATT
1 TTAGAGATATATTGTTATT
* *
90304 TAACGAGATATATTTTTATT
1 TTA-GAGATATATTGTTATT
90324 TTAGAGATAT
1 TTAGAGATAT
90334 TTTATTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 2 0.08
19 11 0.46
20 11 0.46
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (19 bp):
TTAGAGATATATTGTTATT
Found at i:90543 original size:19 final size:20
Alignment explanation
Indices: 90502--90546 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
90492 GTACTTGTTA
90502 GAGA-ATATTATTATTTAGT
1 GAGATATATTATTATTTAGT
* *
90521 GAGATATATTCTTATTTTG-
1 GAGATATATTATTATTTAGT
90540 GAGATAT
1 GAGATAT
90547 TTTGTTATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (20 bp):
GAGATATATTATTATTTAGT
Found at i:92415 original size:20 final size:20
Alignment explanation
Indices: 92380--92492 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
92370 TGTTTTGAAC
* * *
92380 GTGCCTCTAGTCGCACATAT
1 GTGCCTCTATTTGCACATTT
*
92400 GTGCCTCTATTTGCAC-TTCG
1 GTGCCTCTATTTGCACATT-T
*
92420 GTGCCTCTATTTGCACATTC
1 GTGCCTCTATTTGCACATTT
* * *
92440 ATGCCTTTGTTTGCAC-TTT
1 GTGCCTCTATTTGCACATTT
92459 AGTGCCTCTATTTGCACATTT
1 -GTGCCTCTATTTGCACATTT
*
92480 GTGCCTCTGTTTG
1 GTGCCTCTATTTG
92493 TGTCATATCT
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
19 3 0.04
20 68 0.89
21 5 0.07
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.42
Consensus pattern (20 bp):
GTGCCTCTATTTGCACATTT
Found at i:92436 original size:40 final size:39
Alignment explanation
Indices: 92380--92492 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 39
92370 TGTTTTGAAC
* * * *
92380 GTGCCTCTAGTCGCACATATGTGCCTCTATTTGCACTTCG
1 GTGCCTCTATTTGCACAT-TGTGCCTCTGTTTGCACTTCA
* * *
92420 GTGCCTCTATTTGCACATTCATGCCTTTGTTTGCACTTTA
1 GTGCCTCTATTTGCACATT-GTGCCTCTGTTTGCACTTCA
92460 GTGCCTCTATTTGCACATTTGTGCCTCTGTTTG
1 GTGCCTCTATTTGCACA-TTGTGCCTCTGTTTG
92493 TGTCATATCT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.02
40 59 0.95
41 2 0.03
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.42
Consensus pattern (39 bp):
GTGCCTCTATTTGCACATTGTGCCTCTGTTTGCACTTCA
Found at i:92872 original size:150 final size:150
Alignment explanation
Indices: 92601--92902 Score: 595
Period size: 150 Copynumber: 2.0 Consensus size: 150
92591 GTTAGATTCA
*
92601 AGTCCTAATGTTCACACTCTTCTATTTAATTTATTCTAGAGGTCTTAGGTTCAAGTCCTAATATA
1 AGTCCTAATGTTCACACTCTTCTATTTAATTTATCCTAGAGGTCTTAGGTTCAAGTCCTAATATA
92666 CTACACAGAAATGCCCTAGAAAAAAAGAACATCTCAAAATGAATAACCTCAACTTTCAATATGGG
66 CTACACAGAAATGCCCTAGAAAAAAAGAACATCTCAAAATGAATAACCTCAACTTTCAATATGGG
92731 AGTTGGCTTAGAGCTCAGCT
131 AGTTGGCTTAGAGCTCAGCT
92751 AGTCCTAATGTTCACACTCTTCTATTTAATTTATCCTAGAGGTCTTAGGTTCAAGTCCTAATATA
1 AGTCCTAATGTTCACACTCTTCTATTTAATTTATCCTAGAGGTCTTAGGTTCAAGTCCTAATATA
92816 CTACACAGAAATGCCCTAGAAAAAAAGAACATCTCAAAATGAATAACCTCAACTTTCAATATGGG
66 CTACACAGAAATGCCCTAGAAAAAAAGAACATCTCAAAATGAATAACCTCAACTTTCAATATGGG
92881 AGTTGGCTTAGAGCTCAGCT
131 AGTTGGCTTAGAGCTCAGCT
92901 AG
1 AG
92903 AGGGATCAAC
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 151 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (150 bp):
AGTCCTAATGTTCACACTCTTCTATTTAATTTATCCTAGAGGTCTTAGGTTCAAGTCCTAATATA
CTACACAGAAATGCCCTAGAAAAAAAGAACATCTCAAAATGAATAACCTCAACTTTCAATATGGG
AGTTGGCTTAGAGCTCAGCT
Found at i:93768 original size:48 final size:48
Alignment explanation
Indices: 93715--93834 Score: 231
Period size: 48 Copynumber: 2.5 Consensus size: 48
93705 ATTACAAACA
*
93715 TCAATTACTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
1 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
93763 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
1 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
93811 TCAATTATTTACCCTATTAACAAA
1 TCAATTATTTACCCTATTAACAAA
93835 GCTCGGACTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (48 bp):
TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
Found at i:95446 original size:5 final size:5
Alignment explanation
Indices: 95423--95473 Score: 84
Period size: 5 Copynumber: 9.8 Consensus size: 5
95413 TTTGTTTCTT
95423 TATATA TATAA TAATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATA-A TATAA T-ATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
95474 CTTAATTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
5 35 0.80
6 9 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:102965 original size:5 final size:5
Alignment explanation
Indices: 102955--102997 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
102945 TTTATATATA
102955 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
102998 CTTAATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:106956 original size:16 final size:17
Alignment explanation
Indices: 106932--106967 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
106922 AATTTTTAAT
106932 TTTAATTTTCATTT-TC
1 TTTAATTTTCATTTCTC
*
106948 TTTACTTTTCATTTCTC
1 TTTAATTTTCATTTCTC
106965 TTT
1 TTT
106968 GTCCTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTAATTTTCATTTCTC
Found at i:109999 original size:82 final size:81
Alignment explanation
Indices: 109896--110051 Score: 201
Period size: 82 Copynumber: 1.9 Consensus size: 81
109886 TATTCGATAG
* * *
109896 GTGCACTTGCCTTTTTATCGTGATATTAGTTAGT-TTCCT-GGTACGATCAGATTTTATTACTTT
1 GTGCACTTGCCTTTTTATCGTGATAATAGTTAATCTT-CTAGGTACGATCA-A-TTTATTACTTC
109959 ATCACAATCACGAGAGATCA
63 ATCAC-ATCACGAGAGATCA
* * *
109979 GTGCGCTTGCC-TTTTATCGTGATAATAGTTAATCTTTTAGGTACGATTAATTTATTACTTCATC
1 GTGCACTTGCCTTTTTATCGTGATAATAGTTAATCTTCTAGGTACGATCAATTTATTACTTCATC
110043 ACATCACGA
66 ACATCACGA
110052 TCATTGGTTC
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
80 7 0.11
81 15 0.23
82 22 0.34
83 21 0.32
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (81 bp):
GTGCACTTGCCTTTTTATCGTGATAATAGTTAATCTTCTAGGTACGATCAATTTATTACTTCATC
ACATCACGAGAGATCA
Found at i:122661 original size:17 final size:17
Alignment explanation
Indices: 122636--122669 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
122626 TTGTGCAATC
122636 TTAGCTTAGTCTAATAA
1 TTAGCTTAGTCTAATAA
* *
122653 TTAGTTTAGTTTAATAA
1 TTAGCTTAGTCTAATAA
122670 AAATCTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (17 bp):
TTAGCTTAGTCTAATAA
Found at i:124839 original size:42 final size:42
Alignment explanation
Indices: 124773--124881 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 42
124763 CTAAGATTGT
** *
124773 GTGTAAGACCATATTTGGGATATGGCATTGATATGAGATTTC
1 GTGTAAGACCATAGCTGGGATATGGCATCGATATGAGATTTC
* * *
124815 GTGTAAGACTATAGCTGGGCTATGGCATCGATATGAGATTAC
1 GTGTAAGACCATAGCTGGGATATGGCATCGATATGAGATTTC
* * * *
124857 ATGTAAAACCATATCTAGGATATGG
1 GTGTAAGACCATAGCTGGGATATGG
124882 TATTGGTACT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGATATGGCATCGATATGAGATTTC
Found at i:126568 original size:46 final size:46
Alignment explanation
Indices: 126512--126685 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
126502 TATTTGGGCA
126512 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAGCG
* * * * *
126558 TCTGAACTCGTTGAGTTGAGTCCGAGTT--C-GAGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGT---GA-GCG
* * * **
126605 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAGCG
* *
126651 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
126686 GGGCGGGGTA
Statistics
Matches: 105, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 7 0.07
44 1 0.01
46 62 0.59
47 29 0.28
49 1 0.01
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAGCG
Found at i:126667 original size:93 final size:93
Alignment explanation
Indices: 126508--126679 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
126498 GGGATATTTG
* * * *
126508 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAGCGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
126573 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
126601 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
126666 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
126680 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:138534 original size:16 final size:15
Alignment explanation
Indices: 138509--138538 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
138499 TATCGTCTTC
138509 TTAGTTTTAGTTTAG
1 TTAGTTTTAGTTTAG
138524 TTAGATTTTAGTTTA
1 TTAG-TTTTAGTTTA
138539 AAACAATTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (15 bp):
TTAGTTTTAGTTTAG
Found at i:139246 original size:11 final size:11
Alignment explanation
Indices: 139230--139255 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
139220 ATACATTTAA
139230 ACATTCATGTC
1 ACATTCATGTC
139241 ACATTCATGTC
1 ACATTCATGTC
139252 ACAT
1 ACAT
139256 AAATGTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (11 bp):
ACATTCATGTC
Found at i:140050 original size:51 final size:51
Alignment explanation
Indices: 139974--140085 Score: 170
Period size: 51 Copynumber: 2.2 Consensus size: 51
139964 CTCAAACTTA
* * *
139974 CTTCATACTTCATCCGGAATTATTACCTTGTTGCTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCAGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
* * *
140025 CTTCATATTTCATCCAGAATAATTACTTTGTTGCTCTAGCTTTAACAAGAG
1 CTTCATATTTCATCCAGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
140076 CTTCATATTT
1 CTTCATATTT
140086 TATACGGATA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (51 bp):
CTTCATATTTCATCCAGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
Found at i:143203 original size:96 final size:96
Alignment explanation
Indices: 143097--143270 Score: 287
Period size: 96 Copynumber: 1.8 Consensus size: 96
143087 AATTTGAGGG
* * *
143097 TTTTAAGGAAAAAATTAAATAAATTAGGGTTTAAGGTTTCTTAATTAAATTAATTATAAATTTTA
1 TTTTAAGGAAAAAATAAAATAAATTAGGGTTTAAGGTTACTTAAGTAAATTAATTATAAA-TTTA
143162 AAAAA-TTAGATTATGGTTTAATGTTTATGGT
65 AAAAATTTAGATTATGGTTTAATGTTTATGGT
* *
143193 TTTTAAGGAAAAAATAAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTAA
1 TTTTAAGGAAAAAATAAAATAAATTAGGGTTTAAGGTTACTTAAGTAAATTAATTATAAATTTAA
143258 AAAATTTAGATTA
66 AAAATTTAGATTA
143271 GGCTTTTAAG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
95 9 0.12
96 63 0.88
ACGTcount: A:0.44, C:0.01, G:0.14, T:0.41
Consensus pattern (96 bp):
TTTTAAGGAAAAAATAAAATAAATTAGGGTTTAAGGTTACTTAAGTAAATTAATTATAAATTTAA
AAAATTTAGATTATGGTTTAATGTTTATGGT
Found at i:143845 original size:125 final size:127
Alignment explanation
Indices: 143379--143912 Score: 734
Period size: 127 Copynumber: 4.2 Consensus size: 127
143369 AAAAAGATCT
* * ** *
143379 CACGTGGACGCTCTTTTGTTACAGTAGTTTCTGGAAAAAATAATTTTGAGAAAACGTTTCTGAGC
1 CACGTGGACGCTCTTTTGCTATAGTAGTTTCTAAAAAAAATAATTTTGAGAAGACGTTTCTGAGC
*
143444 CAATAGTGTCAAAAACACTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCC
66 AAATAGTGTCAAAAACACTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCC
* * * * *
143506 CGCATAGATGCTCTTTTGCTATAGTATTTTCTAAAAAAAATAATTTTGAGAAGACGTTTCTGAGC
1 CACGTGGACGCTCTTTTGCTATAGTAGTTTCTAAAAAAAATAATTTTGAGAAGACGTTTCTGAGC
* *
143571 AAATAGTGTCAAAAACACTTCAAGTAGGATGCATTGTCAGCAAAAGTATTGAAAGAAGCTCC
66 AAATAGTGTCAAAAACACTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCC
** ** *
143633 CACGTGGACGCTCTTTTGCTATAGTAGTTT-TTGAAAAAATAATTTTGAGAAGATTTTTCTGAGT
1 CACGTGGACGCTCTTTTGCTATAGTAGTTTCTAAAAAAAATAATTTTGAGAAGACGTTTCTGAGC
* * * *
143697 AAATAGTGTCAAAAACGCTTCAAGTAGGATGTATTGTTAGCAAAAGTACTGAAAGAAGCTCC
66 AAATAGTGTCAAAAACACTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCC
* * *
143759 CACGT-GACGCTATTTTGCTATAATAGTTTCT-AAAAAAATAATTTTGAGAAGATGTTTCTGAGC
1 CACGTGGACGCTCTTTTGCTATAGTAGTTTCTAAAAAAAATAATTTTGAGAAGACGTTTCTGAGC
* * * * * *
143822 AAAGAGTGTCAAAATCGA-ATCAAGCAAGATGCAATGTCAGCAAAAATACTGAAAGAAGCTCC
66 AAATAGTGTCAAAAAC-ACTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCC
* *
143884 CACGTGGACACTCTTTTGCTACAGTAGTT
1 CACGTGGACGCTCTTTTGCTATAGTAGTT
143913 CCTATTTGGC
Statistics
Matches: 358, Mismatches: 46, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
125 107 0.30
126 112 0.31
127 139 0.39
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (127 bp):
CACGTGGACGCTCTTTTGCTATAGTAGTTTCTAAAAAAAATAATTTTGAGAAGACGTTTCTGAGC
AAATAGTGTCAAAAACACTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCC
Found at i:149388 original size:20 final size:20
Alignment explanation
Indices: 149338--149405 Score: 100
Period size: 20 Copynumber: 3.3 Consensus size: 20
149328 AAAAATTAAC
*
149338 GAGAGCTTTGAGAGAAATTT
1 GAGAGATTTGAGAGAAATTT
*
149358 GAGAGAAATTTAAGAGAAATTT
1 GAGAG--ATTTGAGAGAAATTT
149380 GAGAGATTTGAGAGAAATTT
1 GAGAGATTTGAGAGAAATTT
149400 GAGAGA
1 GAGAGA
149406 ATATTGAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 25 0.58
22 18 0.42
ACGTcount: A:0.43, C:0.01, G:0.29, T:0.26
Consensus pattern (20 bp):
GAGAGATTTGAGAGAAATTT
Found at i:149412 original size:11 final size:11
Alignment explanation
Indices: 149344--149406 Score: 103
Period size: 11 Copynumber: 5.9 Consensus size: 11
149334 TAACGAGAGC
149344 TTTGAGAGAAA
1 TTTGAGAGAAA
149355 TTTGAGAGAAA
1 TTTGAGAGAAA
*
149366 TTTAAGAGAAA
1 TTTGAGAGAAA
149377 TTTGAGAG--A
1 TTTGAGAGAAA
149386 TTTGAGAGAAA
1 TTTGAGAGAAA
149397 TTTGAGAGAA
1 TTTGAGAGAA
149407 TATTGAAAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
9 9 0.19
11 39 0.81
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:149418 original size:31 final size:31
Alignment explanation
Indices: 149354--149418 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
149344 TTTGAGAGAA
*
149354 ATTTGAGAGAAATTTAAGAGAAATTTGAGAG
1 ATTTGAGAGAAATTTAAGAGAAATTTGAAAG
*
149385 ATTTGAGAGAAATTTGAGAG-AATATTGAAAG
1 ATTTGAGAGAAATTTAAGAGAAAT-TTGAAAG
149416 ATT
1 ATT
149419 GAAGATGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.31
Consensus pattern (31 bp):
ATTTGAGAGAAATTTAAGAGAAATTTGAAAG
Found at i:152177 original size:30 final size:30
Alignment explanation
Indices: 152089--152177 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
152079 CGTTACTTCC
* * *
152089 TTGAAATTTTTAATTAAGTACTCCTAAAATTT
1 TTGAAAATTTTAATTATG-ACTCC-AAAATAT
* * *
152121 TTGAAAATTCTCATTAT-TCTCACAAAATAT
1 TTGAAAATTTTAATTATGACTC-CAAAATAT
*
152151 TTGAAAATTTTAATTATGCCTCCAAAA
1 TTGAAAATTTTAATTATGACTCCAAAA
152178 CTTAGTCCCA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
30 29 0.63
31 4 0.09
32 13 0.28
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (30 bp):
TTGAAAATTTTAATTATGACTCCAAAATAT
Found at i:159954 original size:23 final size:22
Alignment explanation
Indices: 159910--159959 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
159900 ATCAATTTAA
*
159910 CATATTTTCAAGATAAATTCAT
1 CATATTTTCAAGATAAAGTCAT
*
159932 GCATATTTAT-AAGATAACGTCAT
1 -CATATTT-TCAAGATAAAGTCAT
159955 CATAT
1 CATAT
159960 ATCTAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.21
23 18 0.75
24 1 0.04
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (22 bp):
CATATTTTCAAGATAAAGTCAT
Found at i:166413 original size:50 final size:51
Alignment explanation
Indices: 166336--166571 Score: 332
Period size: 50 Copynumber: 4.5 Consensus size: 51
166326 GACCATGGCA
166336 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
166387 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGATAAGTGAAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGG---A--CAAA-TG
*
166443 ATAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
166494 A-AATTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
166544 ACAAGTAAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
166572 CTGATCAATG
Statistics
Matches: 166, Mismatches: 11, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
50 89 0.54
51 25 0.15
52 3 0.02
53 1 0.01
54 1 0.01
55 3 0.02
56 3 0.02
57 41 0.25
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:166447 original size:13 final size:14
Alignment explanation
Indices: 166429--166459 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
166419 TTTGATCAAG
166429 GATAAGTGA-AAGT
1 GATAAGTGATAAGT
166442 GATAAGTGATAAGT
1 GATAAGTGATAAGT
166456 GATA
1 GATA
166460 GCTTCGGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (14 bp):
GATAAGTGATAAGT
Found at i:166450 original size:7 final size:7
Alignment explanation
Indices: 166429--166459 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
166419 TTTGATCAAG
166429 GATAAGT
1 GATAAGT
166436 GA-AAGT
1 GATAAGT
166442 GATAAGT
1 GATAAGT
166449 GATAAGT
1 GATAAGT
166456 GATA
1 GATA
166460 GCTTCGGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (7 bp):
GATAAGT
Found at i:166454 original size:57 final size:57
Alignment explanation
Indices: 166388--166549 Score: 230
Period size: 57 Copynumber: 2.9 Consensus size: 57
166378 GGACAAATGA
* * *
166388 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGATAAGTGAAAGTGAT
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGAT
166445 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG-AA---AT
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGAT
*
166498 ---TGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGACAAGT
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA-AAGT
166550 AAAAAGTGGT
Statistics
Matches: 97, Mismatches: 4, Indels: 11
0.87 0.04 0.10
Matches are distributed among these distances:
50 45 0.46
52 2 0.02
53 2 0.02
56 2 0.02
57 46 0.47
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (57 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGAT
Found at i:166459 original size:107 final size:107
Alignment explanation
Indices: 166338--166537 Score: 373
Period size: 107 Copynumber: 1.9 Consensus size: 107
166328 CCATGGCAAC
166338 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATA
* *
166403 GCTTCGGCTACACTTATTTGATCAAGGATAAGTGAAAGTGAT
66 GCTTCAGCTACACTTATCTGATCAAGGATAAGTGAAAGTGAT
*
166445 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAATTGATAAGTGATA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATA
166510 GCTTCAGCTACACTTATCTGATCAAGGA
66 GCTTCAGCTACACTTATCTGATCAAGGA
166538 CAAATGACAA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 90 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (107 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATA
GCTTCAGCTACACTTATCTGATCAAGGATAAGTGAAAGTGAT
Found at i:166589 original size:31 final size:31
Alignment explanation
Indices: 166551--166609 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
166541 ATGACAAGTA
166551 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
166582 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
166610 TCGGCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:166617 original size:46 final size:46
Alignment explanation
Indices: 166564--166655 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
166554 AGTGGTAGCT
* * *
166564 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCAGCTACCTGATCA
* * *
166610 TCGGCTACTTGATTAGTGAAAAATGGTAGCTCCAGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCAGCTACCTGATCA
166656 GTGAATAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGGTAGCTCCAGCTACCTGATCA
Found at i:166679 original size:31 final size:31
Alignment explanation
Indices: 166610--166679 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
166600 TACCTGATCA
* * *
166610 TCGGCTACTTGATTAGTGAAAAATGGTAGCT
1 TCGGCTACCTGATCAGTGAAAAATGATAGCT
* * * *
166641 CCAGCTACCTGATCAGTGAATAGTGATAGCT
1 TCGGCTACCTGATCAGTGAAAAATGATAGCT
166672 TCGGCTAC
1 TCGGCTAC
166680 AAGTGACAAG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (31 bp):
TCGGCTACCTGATCAGTGAAAAATGATAGCT
Found at i:170945 original size:23 final size:23
Alignment explanation
Indices: 170901--170945 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
170891 ATCAATTTAA
*
170901 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
170924 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
170946 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:174785 original size:26 final size:24
Alignment explanation
Indices: 174755--174802 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
174745 AATAAAAAAA
*
174755 TTAAAAATATAATAAATCAAATATAT
1 TTAAAAACATAA-AAAT-AAATATAT
174781 TTAAAAACATAAAAATAAATAT
1 TTAAAAACATAAAAATAAATAT
174803 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 4 0.19
26 11 0.52
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (24 bp):
TTAAAAACATAAAAATAAATATAT
Found at i:174814 original size:22 final size:20
Alignment explanation
Indices: 174773--174818 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
174763 ATAATAAATC
* *
174773 AAATATATTTAAAAACATAA
1 AAATAAATTTAAAAAAATAA
174793 AAATAAATATTAAAACAAATAA
1 AAATAAAT-TTAAAA-AAATAA
174815 AAAT
1 AAAT
174819 GATACTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 6 0.27
22 9 0.41
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (20 bp):
AAATAAATTTAAAAAAATAA
Found at i:174908 original size:15 final size:16
Alignment explanation
Indices: 174878--174910 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
174868 AAATGGCTAT
174878 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
174895 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
174910 A
1 A
174911 AAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:176251 original size:42 final size:42
Alignment explanation
Indices: 176187--176318 Score: 106
Period size: 42 Copynumber: 3.1 Consensus size: 42
176177 ATGATCTAAG
* * * * *
176187 ACACGGCCTTCGACACGCTCGTGTGTATTAAGTCAGTGAGTC
1 ACACGGCCTACAATACGGTCGTGTGTATTAAGTCAGTGAGTT
* * * *
176229 ACACGGTCTGCAATACGGTCGTGTCTAATT-AGTCAGAGAGTT
1 ACACGGCCTACAATACGGTCGTGTGT-ATTAAGTCAGTGAGTT
** * * *
176271 ACACAACCTACGATACGGCCGTGTG-ACCTAAGTCAGTGAGTT
1 ACACGGCCTACAATACGGTCGTGTGTA-TTAAGTCAGTGAGTT
176313 ACACGG
1 ACACGG
176319 GCAAAGACAC
Statistics
Matches: 68, Mismatches: 19, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 63 0.93
43 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (42 bp):
ACACGGCCTACAATACGGTCGTGTGTATTAAGTCAGTGAGTT
Found at i:177048 original size:17 final size:17
Alignment explanation
Indices: 177026--177058 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
177016 ATCAAGTACC
177026 ATAACTTTTGATTTGTT
1 ATAACTTTTGATTTGTT
177043 ATAACTTTTGATTTGT
1 ATAACTTTTGATTTGT
177059 AATTATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.58
Consensus pattern (17 bp):
ATAACTTTTGATTTGTT
Found at i:177928 original size:19 final size:19
Alignment explanation
Indices: 177883--177943 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
177873 ATCTAATTAC
177883 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
177904 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
*
177923 ATATATTCTAATTA-AATTT
1 AAATATT-TAATTATAATTT
177942 AA
1 AA
177944 TAAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:178198 original size:13 final size:13
Alignment explanation
Indices: 178177--178211 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
178167 AAATTTTTCC
178177 AAAGCACTTCTCA
1 AAAGCACTTCTCA
*
178190 AAAGTACTTCTCA
1 AAAGCACTTCTCA
*
178203 ATAGCACTT
1 AAAGCACTT
178212 TTTCACAGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.29
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:194402 original size:20 final size:20
Alignment explanation
Indices: 194348--194402 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
194338 TGTGGTTCAA
*
194348 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
* * *
194368 CTTATTCGTGTTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
194388 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
194403 TTTAACTCGT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:194739 original size:45 final size:45
Alignment explanation
Indices: 194689--194907 Score: 384
Period size: 45 Copynumber: 4.9 Consensus size: 45
194679 AAGAGGTGGA
194689 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
194734 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
194779 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
194824 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
* * * *
194869 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
194908 CCATGGCCGA
Statistics
Matches: 166, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 166 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
Found at i:195604 original size:65 final size:65
Alignment explanation
Indices: 195528--195655 Score: 238
Period size: 65 Copynumber: 2.0 Consensus size: 65
195518 GGTTTTGTAA
195528 AAAAAAAAAATTACCTACGGTCTAGGCGCGGACGAAAAGAACGTGAAAGATCCGTAAAAAAAATC
1 AAAAAAAAAATTACCTACGGTCTAGGCGCGGACGAAAAGAACGTGAAAGATCCGTAAAAAAAATC
* *
195593 AAAAAAAAAATTGCCTATGGTCTAGGCGCGGACGAAAAGAACGTGAAAGATCCGTAAAAAAAA
1 AAAAAAAAAATTACCTACGGTCTAGGCGCGGACGAAAAGAACGTGAAAGATCCGTAAAAAAAA
195656 AAGAGTCTGG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.49, C:0.16, G:0.21, T:0.14
Consensus pattern (65 bp):
AAAAAAAAAATTACCTACGGTCTAGGCGCGGACGAAAAGAACGTGAAAGATCCGTAAAAAAAATC
Found at i:198157 original size:20 final size:20
Alignment explanation
Indices: 198132--198186 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
198122 TGTGGTTCAA
*
198132 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
198152 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
198172 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
198187 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:198523 original size:45 final size:45
Alignment explanation
Indices: 198473--198781 Score: 546
Period size: 45 Copynumber: 6.9 Consensus size: 45
198463 AAGAGGTGGA
198473 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
198518 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
198563 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
198608 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
198653 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
198698 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
198743 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
198782 CCATGGCCGA
Statistics
Matches: 253, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 253 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:208254 original size:23 final size:23
Alignment explanation
Indices: 208219--208267 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
208209 AATTCGAGGA
**
208219 TTTGTTTATATTTTTTTTATTGT
1 TTTGTTTATATTTTTAATATTGT
208242 TTTG-TTATCATTTTTAATATTGT
1 TTTGTTTAT-ATTTTTAATATTGT
208265 TTT
1 TTT
208268 ACAACCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.16, C:0.02, G:0.08, T:0.73
Consensus pattern (23 bp):
TTTGTTTATATTTTTAATATTGT
Found at i:210376 original size:19 final size:20
Alignment explanation
Indices: 210348--210386 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
210338 TCCCATTATT
210348 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
210367 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
210387 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:210404 original size:25 final size:23
Alignment explanation
Indices: 210367--210412 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
210357 TTTGTTTTAA
*
210367 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
210390 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
210413 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:214570 original size:22 final size:23
Alignment explanation
Indices: 214545--214590 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
214535 CAACCAAATC
214545 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
214567 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
214590 A
1 A
214591 CGTCATTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:214596 original size:23 final size:23
Alignment explanation
Indices: 214552--214596 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
214542 ATCAATTCAA
*
214552 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
214575 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
214597 TAACGCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:216018 original size:93 final size:93
Alignment explanation
Indices: 215906--216077 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
215896 CGCCCATAAG
* *
215906 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
215971 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
215999 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
216064 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
216078 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:216074 original size:46 final size:46
Alignment explanation
Indices: 215899--216074 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
215889 TGTAACCCGC
* * *
215899 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
215945 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
215995 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
216038 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
216075 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:230513 original size:16 final size:17
Alignment explanation
Indices: 230478--230517 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
230468 ATATTATTTC
230478 ATTCGAATTCAAACTCA
1 ATTCGAATTCAAACTCA
230495 ATTC-AATTCAAAC-CGA
1 ATTCGAATTCAAACTC-A
230511 ATTCGAA
1 ATTCGAA
230518 AATTAAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 14 0.67
17 6 0.29
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (17 bp):
ATTCGAATTCAAACTCA
Found at i:238302 original size:20 final size:21
Alignment explanation
Indices: 238262--238311 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
238252 AGTACATTAG
*
238262 TGCTCTCTGTTTAACATATTTA
1 TGCTCTCTGTATAACA-ATTTA
238284 TGCTCTCTGTATAAC-ATTTA
1 TGCTCTCTGTATAACAATTTA
238304 -GTCTCTCT
1 TG-CTCTCT
238312 TTAATAGTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 1 0.04
20 11 0.42
22 14 0.54
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.48
Consensus pattern (21 bp):
TGCTCTCTGTATAACAATTTA
Found at i:240222 original size:21 final size:21
Alignment explanation
Indices: 240187--240253 Score: 100
Period size: 21 Copynumber: 3.1 Consensus size: 21
240177 AGGCACTTTA
240187 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
240210 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
240231 TGTGTCGTATCAGCCA-CTCG
1 TGTGTCGTATCAGGCACCTCG
240251 TGT
1 TGT
240254 TCATTTTAGG
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
20 7 0.16
21 27 0.63
23 9 0.21
ACGTcount: A:0.13, C:0.27, G:0.27, T:0.33
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:245406 original size:6 final size:7
Alignment explanation
Indices: 245387--245413 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
245377 GATGATTGCT
245387 ATAAAAA
1 ATAAAAA
245394 ATAAAAA
1 ATAAAAA
245401 ATAAAAA
1 ATAAAAA
245408 ATAAAA
1 ATAAAA
245414 TGGTATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
ATAAAAA
Found at i:248316 original size:21 final size:21
Alignment explanation
Indices: 248290--248333 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
248280 AATAATAAGA
248290 GAAGAGATTATATGAAACTGT
1 GAAGAGATTATATGAAACTGT
248311 GAAGAGATTATATGAAACTGT
1 GAAGAGATTATATGAAACTGT
248332 GA
1 GA
248334 TTTCACTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.25, T:0.27
Consensus pattern (21 bp):
GAAGAGATTATATGAAACTGT
Found at i:257249 original size:28 final size:28
Alignment explanation
Indices: 257218--257280 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
257208 TCCCATATTA
257218 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * * *
257246 ATGGGGTATATGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
257274 ATGGGGT
1 ATGGGGT
257281 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.33
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:262380 original size:28 final size:28
Alignment explanation
Indices: 262346--262401 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
262336 CATATTAATA
262346 GGGTATAGGAAAAGTCTCATAACTTATG
1 GGGTATAGGAAAAGTCTCATAACTTATG
* * *
262374 GGGTATAGGAAGAGTTTTATAACTTATG
1 GGGTATAGGAAAAGTCTCATAACTTATG
262402 AGGTTGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (28 bp):
GGGTATAGGAAAAGTCTCATAACTTATG
Found at i:265126 original size:10 final size:11
Alignment explanation
Indices: 265087--265125 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
265077 AGGCTTTTTA
265087 GGCCCGAGCTC
1 GGCCCGAGCTC
265098 GGCCCGAGCTC
1 GGCCCGAGCTC
*
265109 GGCCCGATCT-
1 GGCCCGAGCTC
265119 GGCCCGA
1 GGCCCGA
265126 TATGAAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 7 0.26
11 20 0.74
ACGTcount: A:0.10, C:0.44, G:0.36, T:0.10
Consensus pattern (11 bp):
GGCCCGAGCTC
Found at i:265447 original size:11 final size:11
Alignment explanation
Indices: 265433--265468 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
265423 TATGTATTTA
265433 AAAATAATATT
1 AAAATAATATT
265444 AAAATAATATT
1 AAAATAATATT
*
265455 AAAAAAAATATT
1 -AAAATAATATT
265467 AA
1 AA
265469 TACGAGCAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATAATATT
Found at i:265461 original size:14 final size:12
Alignment explanation
Indices: 265430--265468 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
265420 ATATATGTAT
265430 TTAAAAATAATA
1 TTAAAAATAATA
265442 TT-AAAATAATA
1 TTAAAAATAATA
*
265453 TTAAAAAAAATA
1 TTAAAAATAATA
265465 TTAA
1 TTAA
265469 TACGAGCAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TTAAAAATAATA
Found at i:265712 original size:24 final size:22
Alignment explanation
Indices: 265680--265730 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
265670 AAATAGGGAG
* *
265680 AAAACAACAAGAAAATAACATTAA
1 AAAATAACAAAAAAATAACA--AA
265704 AAAATAACAAAAAAATAACAAA
1 AAAATAACAAAAAAATAACAAA
265726 AAAAT
1 AAAAT
265731 TTCCTTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 7 0.28
24 18 0.72
ACGTcount: A:0.76, C:0.10, G:0.02, T:0.12
Consensus pattern (22 bp):
AAAATAACAAAAAAATAACAAA
Found at i:265717 original size:10 final size:11
Alignment explanation
Indices: 265680--265730 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
265670 AAATAGGGAG
* *
265680 AAAACAACAAG
1 AAAATAACAAA
265691 AAAATAACATTAA
1 AAAATAACA--AA
265704 AAAATAACAAA
1 AAAATAACAAA
265715 AAAATAACAAA
1 AAAATAACAAA
265726 AAAAT
1 AAAAT
265731 TTCCTTTAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
11 26 0.72
13 10 0.28
ACGTcount: A:0.76, C:0.10, G:0.02, T:0.12
Consensus pattern (11 bp):
AAAATAACAAA
Found at i:266065 original size:20 final size:20
Alignment explanation
Indices: 266032--266070 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
266022 AAATATATAA
266032 TTATATTAATATTTAAATAT
1 TTATATTAATATTTAAATAT
*
266052 TTATAATTAA-ATTTGAATA
1 TTAT-ATTAATATTTAAATA
266071 AAAATAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
TTATATTAATATTTAAATAT
Found at i:267260 original size:19 final size:21
Alignment explanation
Indices: 267228--267274 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
267218 AATGAAAGGG
**
267228 AGTAAAAATTTTTG-GG-AAA
1 AGTAAAAAAGTTTGAGGTAAA
267247 AGTAAAAAAGTTTGAGGTAAA
1 AGTAAAAAAGTTTGAGGTAAA
267268 ATGTAAA
1 A-GTAAA
267275 GCATTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 12 0.52
20 2 0.09
21 4 0.17
22 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (21 bp):
AGTAAAAAAGTTTGAGGTAAA
Found at i:270241 original size:51 final size:51
Alignment explanation
Indices: 270186--270323 Score: 177
Period size: 51 Copynumber: 2.7 Consensus size: 51
270176 TGGAAACATG
* *
270186 ATCTTAAAAGATATGATTTTATAATCTTAGAGATTTTAGATATGATATGTA
1 ATCTTAAAAGATATGATTTTATAATCTTAGAGATTTTAGATAAGATAGGTA
* * ** * * *
270237 ATCTTATAAGATATTATTTTATAAGATTACATATCTTAGATAAGATAGGTA
1 ATCTTAAAAGATATGATTTTATAATCTTAGAGATTTTAGATAAGATAGGTA
* *
270288 ATCTTAGAAGATATGATTTTATATTCTTAGAGATTT
1 ATCTTAAAAGATATGATTTTATAATCTTAGAGATTT
270324 GATTGTAGAT
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.43
Consensus pattern (51 bp):
ATCTTAAAAGATATGATTTTATAATCTTAGAGATTTTAGATAAGATAGGTA
Found at i:273770 original size:41 final size:39
Alignment explanation
Indices: 273707--273910 Score: 205
Period size: 41 Copynumber: 5.0 Consensus size: 39
273697 GTGATTGAAT
* * *
273707 ATAATACAGACGTTACGTCTAGCAGGCTTAATGCCGGTG
1 ATAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
273746 AAGTAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
1 -A-TAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
* *
273787 ATACATTTCAGACTATATGTCTAGCAGGCTTAATGCCGGTG
1 ATA-A-TTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
* *
273828 ATACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 ATA-A-TTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTG
* * **
273869 TACTGAA-TCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTG
1 -A-T-AATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
273910 A
1 A
273911 ATCTGTTTAA
Statistics
Matches: 146, Mismatches: 10, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
39 2 0.01
40 7 0.05
41 131 0.90
42 3 0.02
43 2 0.01
44 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (39 bp):
ATAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
Found at i:280898 original size:41 final size:41
Alignment explanation
Indices: 280830--281026 Score: 188
Period size: 41 Copynumber: 4.8 Consensus size: 41
280820 GAATATAATA
* * * *
280830 CAGACGTTACGTCTAG-AGGCTTAATGCCGGTGAAGTA-A-CT
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTG-A-TACATTT
280870 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
* * * *
280911 CAGACTATATGTCTAGCAGGCTTAATGCTGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
* * * *
280952 CAGACTATATGTCTAGCAGGCTAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACAT--TT
* * *
280993 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
281027 ATCTGTTTAA
Statistics
Matches: 133, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.02
40 19 0.14
41 111 0.83
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
Found at i:288010 original size:41 final size:41
Alignment explanation
Indices: 287953--288150 Score: 190
Period size: 41 Copynumber: 4.8 Consensus size: 41
287943 GAATATAATA
* * *
287953 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-CT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
*
287994 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
288035 CAGACTATATGTCTAGCAGGCTTAATGCTGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
288076 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
288117 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
288151 ATCTGTTTAA
Statistics
Matches: 135, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
39 3 0.02
40 8 0.06
41 122 0.90
42 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:295597 original size:25 final size:25
Alignment explanation
Indices: 295567--295615 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
295557 GACCCACAAC
295567 TCGTGTGAGCATTCTGATTTACAGG
1 TCGTGTGAGCATTCTGATTTACAGG
*
295592 TCGTGTGAGCATTTTGATTTACAG
1 TCGTGTGAGCATTCTGATTTACAG
295616 CTCATGTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (25 bp):
TCGTGTGAGCATTCTGATTTACAGG
Found at i:295627 original size:25 final size:25
Alignment explanation
Indices: 295574--295628 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
295564 AACTCGTGTG
* * *
295574 AGCATTCTGATTTACAGGTCGTGTG
1 AGCATTCTGATTTACAGCTCATGTA
*
295599 AGCATTTTGATTTACAGCTCATGTA
1 AGCATTCTGATTTACAGCTCATGTA
295624 AGCAT
1 AGCAT
295629 AAATGTACAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.36
Consensus pattern (25 bp):
AGCATTCTGATTTACAGCTCATGTA
Found at i:298065 original size:29 final size:30
Alignment explanation
Indices: 298015--298073 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
298005 CCTGTATTTG
*
298015 GAATTTATATTTTTTATTTTTTGTTTTAAA
1 GAATTTATATTTTTTATTTTTTGATTTAAA
298045 GAATTTAT-TTTTTTATTTTTTGATTTAAA
1 GAATTTATATTTTTTATTTTTTGATTTAAA
298074 AATATAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (30 bp):
GAATTTATATTTTTTATTTTTTGATTTAAA
Found at i:309835 original size:29 final size:30
Alignment explanation
Indices: 309784--309840 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
309774 CACGGGCTGC
309784 CACATGGGCGTGTGGCCAACCCGTGTGGCT
1 CACATGGGCGTGTGGCCAACCCGTGTGGCT
*
309814 CACA-GGGCGTGT-GCTCAGCCCGTGTGG
1 CACATGGGCGTGTGGC-CAACCCGTGTGG
309841 GAATGGTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 2 0.08
29 19 0.76
30 4 0.16
ACGTcount: A:0.12, C:0.30, G:0.39, T:0.19
Consensus pattern (30 bp):
CACATGGGCGTGTGGCCAACCCGTGTGGCT
Found at i:312130 original size:31 final size:31
Alignment explanation
Indices: 312095--312158 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 31
312085 TTTTTTTAAA
* *
312095 TTTGAAAGGT-TTATTAAAATTTTTTCAAGAT
1 TTTGAAAGGTCTAATTAAAATTTTTACAA-AT
312126 TTTGAAAGGTCTAATTAAAATTTTTACAAAT
1 TTTGAAAGGTCTAATTAAAATTTTTACAAAT
312157 TT
1 TT
312159 AAAGAGCCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 14 0.47
32 16 0.53
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.47
Consensus pattern (31 bp):
TTTGAAAGGTCTAATTAAAATTTTTACAAAT
Found at i:312685 original size:16 final size:17
Alignment explanation
Indices: 312651--312689 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
312641 AATATTTTAT
312651 TATTATATAGTGAAATA
1 TATTATATAGTGAAATA
*
312668 TATTATATAGT-TAATA
1 TATTATATAGTGAAATA
312684 TATTAT
1 TATTAT
312690 TTTGTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (17 bp):
TATTATATAGTGAAATA
Found at i:312823 original size:34 final size:33
Alignment explanation
Indices: 312756--312826 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 33
312746 TAAACATATT
*
312756 ATATTTTATATAATTTATATCATAATTATAAAA
1 ATATTTTATATAATTTATATAATAATTATAAAA
312789 ATATTTTA-ATAAATTGTATTATAAT-ATTATAAAA
1 ATATTTTATAT-AATT-TA-TATAATAATTATAAAA
312823 ATAT
1 ATAT
312827 AATAGGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
32 2 0.06
33 12 0.35
34 15 0.44
35 5 0.15
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (33 bp):
ATATTTTATATAATTTATATAATAATTATAAAA
Found at i:320853 original size:25 final size:25
Alignment explanation
Indices: 320820--320869 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
320810 TTGTAAATCA
320820 GAAAAATATCTTTAGA-AATTTTCT
1 GAAAAATATCTTTAGAGAATTTTCT
*
320844 GAAATAATATGTTTAGAGAATTTTCT
1 GAAA-AATATCTTTAGAGAATTTTCT
320870 CTCTACAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 11 0.48
26 8 0.35
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (25 bp):
GAAAAATATCTTTAGAGAATTTTCT
Found at i:321090 original size:37 final size:37
Alignment explanation
Indices: 321007--321098 Score: 100
Period size: 37 Copynumber: 2.5 Consensus size: 37
320997 ATTTATCAAG
*
321007 ATAAA-TATTAAGATAATCACTTTAATATTAAATTAAT
1 ATAAACTATTAAGATAAGCAC-TTAATATTAAATTAAT
*
321044 AAAATACTATTAAGATAAGCA-TTAA-ATTAAATTTAAT
1 ATAA-ACTATTAAGATAAGCACTTAATATTAAA-TTAAT
*
321081 ATTAAACTATTAAAATAA
1 A-TAAACTATTAAGATAA
321099 TATTATTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
36 6 0.13
37 25 0.53
38 3 0.06
39 13 0.28
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.37
Consensus pattern (37 bp):
ATAAACTATTAAGATAAGCACTTAATATTAAATTAAT
Found at i:334053 original size:35 final size:35
Alignment explanation
Indices: 333997--334076 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
333987 ATATCTGTAA
* *
333997 CTGTGTCTGCATCTGAAATGGG-CTCAGGCCCGAAT
1 CTGTATCTGTATCTGAAATGGGCCT-AGGCCCGAAT
*
334032 CTGTATCTGTATCTGACATGGGCCTAGGCCCGAAT
1 CTGTATCTGTATCTGAAATGGGCCTAGGCCCGAAT
* *
334067 ATGAATCTGT
1 CTGTATCTGT
334077 CTCATTTGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 37 0.95
36 2 0.05
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (35 bp):
CTGTATCTGTATCTGAAATGGGCCTAGGCCCGAAT
Found at i:337418 original size:63 final size:63
Alignment explanation
Indices: 337343--337470 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
337333 TTGAGTTTTG
*
337343 GAAGTCCAGTAAGGTAATGTAGTTTCTAACCCTAATTTATGATTTTTCTAATTTTGAAAATGT
1 GAAGTCCAGTAAGATAATGTAGTTTCTAACCCTAATTTATGATTTTTCTAATTTTGAAAATGT
337406 GAAGTCCAGTAAGATAATGTAGTTTCTAACCCTAATTTATGATTTTTCTAATTTTGAAAATGT
1 GAAGTCCAGTAAGATAATGTAGTTTCTAACCCTAATTTATGATTTTTCTAATTTTGAAAATGT
337469 GA
1 GA
337471 TTTTAATGAT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.41
Consensus pattern (63 bp):
GAAGTCCAGTAAGATAATGTAGTTTCTAACCCTAATTTATGATTTTTCTAATTTTGAAAATGT
Done.