Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1277
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: 53533
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Found at i:3874 original size:42 final size:42
Alignment explanation
Indices: 3764--4055 Score: 292
Period size: 42 Copynumber: 6.9 Consensus size: 42
3754 GAGCCTCCAT
*
3764 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* * * * *
3807 TAACCTTGATGCTTGGACGTACGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
3850 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * *
3892 CAAACTAGGCCCTTGGTTGTG-GGGAGCCTCGGAG-ACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTC-GAGCACCATCGG
*
3934 CACCTCGGTGCTAT-GATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
3976 CACCTTGGTACTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
4018 CACCTTGGTGCATGGATGAGCGGGAGCCTTC-AGCACCA
1 CACCTTGGTGCATGGATGTGCGGGAGCC-TCGAGCACCA
4056 AAGCTAAAGT
Statistics
Matches: 205, Mismatches: 32, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
41 16 0.08
42 137 0.67
43 41 0.20
44 11 0.05
ACGTcount: A:0.18, C:0.29, G:0.34, T:0.20
Consensus pattern (42 bp):
CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
Found at i:4291 original size:24 final size:24
Alignment explanation
Indices: 4264--4342 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
4254 CCGGTTAGGT
*
4264 TCCCGGTGGTGCTCCGGCGATCCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
4288 TCCCGGCGGTGCTCCGGCGAACCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
4312 TCCC-GTCGGTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGCGAACCG
*
4336 TTCCGGT
1 TCCCGGT
4343 AGCATAGGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.02
24 45 0.94
25 2 0.04
ACGTcount: A:0.06, C:0.38, G:0.35, T:0.20
Consensus pattern (24 bp):
TCCCGGTGGTGCTCCGGCGAACCG
Found at i:4626 original size:43 final size:43
Alignment explanation
Indices: 4347--5490 Score: 977
Period size: 43 Copynumber: 26.9 Consensus size: 43
4337 TCCGGTAGCA
*
4347 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
** * * * *
4390 T-GGTGCTAGGAT-GTGCAGGAGCCCCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGACACCATCGGCAACC
* ** * *
4432 TAAGCCCTTGGTATTGC-GGAGCCTCGGGCGCCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
* ** * *
4473 TCGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTT-GGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
*
4516 TAGGCCCTTGGTCGTGC-GGAGCCTCGGGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
* ** * **
4557 TCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
4600 TAGGCCCTTGGTCGTGCGGGAGCCTC-GAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGA-CACCATCGGCAACC
* ** * * *
4642 TTGGTGCTTGGAT-GTGCGAGAACCTCGCG-TACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCG-GACACCATCGGCAACC
* * * *
4685 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
* * **
4728 TAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
*
4771 TAGGCCCTTGGTCGT-CGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
*
4813 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
* ** * * **
4855 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
4898 TAGGCCCTTGGTCGTGCGGGAGCCTC-GAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGA-CACCATCGGCAACC
* ** * * * *
4940 TTGGTGCTTGGAT-GTCCGAGAACCTCGCG-CACCATCGACAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCG-GACACCATCGGCAACC
* * * *
4983 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
* * **
5026 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
* *
5069 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-TCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
** * * *
5111 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACTATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGACACCATCGGCAACC
*
5154 TAGGCCCTTGGTCGTGCGGGAGCCTC-GAGCACCATCGAC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGA-CACCATCGGCAACC
* ** * * *
5196 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGACACCATCGGCAACC
* * * * **
5239 TAGACCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
* *
5282 TAGGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
*
5324 --GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
* ** * *
5364 TTGGTGGCTCGGAT-GTGCGGGAGCCTCGGGC-CGCATCGGC-ACC
1 TAGG-CCCTTGG-TCGTGCGGGAGCCTCGGACAC-CATCGGCAACC
* ** * ** *
5407 TCGGTGGCTAGGAGGTGCGGGAGCCTCGGACACCGTCGGCAA-C
1 TAGG-CCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
* ** *
5450 TTGGTGCTTGGAT-GTGCGGGAGCCTCGGGCACCCATCGGCA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGACA-CCATCGGCA
5491 CCTTGGTGCC
Statistics
Matches: 899, Mismatches: 155, Indels: 94
0.78 0.14 0.08
Matches are distributed among these distances:
40 38 0.04
41 22 0.02
42 354 0.39
43 480 0.53
44 5 0.01
ACGTcount: A:0.16, C:0.32, G:0.34, T:0.18
Consensus pattern (43 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACC
Found at i:4798 original size:213 final size:212
Alignment explanation
Indices: 4347--5490 Score: 1011
Period size: 213 Copynumber: 5.4 Consensus size: 212
4337 TCCGGTAGCA
* * ** * *
4347 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT-GTGCAGGA
1 TAGGCCCTTGGT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGGA
* * * * ** * *
4410 GCCCCGGACACCATCGGCAAACTAAGCCCTTGGTATTGC-GGAGCCTCGGGCGCCATCGGCACCT
64 GCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCT
* ** * *
4474 CGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGC-GGAG
129 AGGCCCTT-GGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
* *
4537 CCTCGGGCACCATCGGCACC
193 CCTCGGCCACCATCGACACC
* ** * ** *
4557 TCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCT-TGGTGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
* ** * ** * * *
4622 CCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAGAACCTC-GCGTACCATCGGCAAC
65 CCTCGGGCACCATCGGCAAAATAGGCCCTTGG-TCGTGCGGGAGCCTCGGC-CACCATCGGC-AC
* * *
4684 CTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGA
127 CTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
* **
4749 GCCTCGGCCACCATCGGCAAAA
192 GCCTCGGCCACCATCGAC-ACC
4771 TAGGCCCTTGGTCGT-CGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
* ** * ** * * * **
4835 CCTCGGCCACCATCGGC-ACCTCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACC
65 CCTCGGGCACCATCGGCAAAATAGGCCCT-TGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACC
* * * ** * *
4898 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTCCGAGA
128 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGGA
*
4961 ACCTC-GCGCACCATCGACAACC
192 GCCTCGGC-CACCATCGAC-ACC
* * * *
4983 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
*
5048 CCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCTCCTA
65 CCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTA
** * * *
5113 GGTGCTGGGAT-GTGCGGGAGCCTCGGACACTATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGC
130 GGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGC
5177 CTCGAG-CACCATCGACACC
194 CTCG-GCCACCATCGACACC
* ** * * * * * *
5196 TTGGTGCTTGGATGTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGGTCGTGCGAGAG
1 TAGGCCCTTGG-TGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
* *
5261 GCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATCGGCACC--
65 CCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTA
* * ** *
5324 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGGCTCGGAT-GTGCGGGAG
130 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGG-CCCTTGG-TCGTGCGGGAG
* *
5387 CCTCGGGCC-GCATCGGCACC
193 CCTC-GGCCACCATCGACACC
* ** * * * * **
5407 TCGGTGGCTAGGAGGTGCGGGAGCCTCGGACACCGTCGGC-AACTTGGTGCTTGGAT-GTGCGGG
1 TAGG-CCCTTGG-TGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGG
5470 AGCCTCGGGCACCCATCGGCA
63 AGCCTCGGGCA-CCATCGGCA
5491 CCTTGGTGCC
Statistics
Matches: 764, Mismatches: 138, Indels: 62
0.79 0.14 0.06
Matches are distributed among these distances:
210 53 0.07
211 135 0.18
212 138 0.18
213 366 0.48
214 71 0.09
216 1 0.00
ACGTcount: A:0.16, C:0.32, G:0.34, T:0.18
Consensus pattern (212 bp):
TAGGCCCTTGGTGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGC
CTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAG
GCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCT
CGGCCACCATCGACACC
Found at i:4830 original size:85 final size:86
Alignment explanation
Indices: 4347--5490 Score: 1036
Period size: 85 Copynumber: 13.5 Consensus size: 86
4337 TCCGGTAGCA
** * *
4347 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT-GTGCAGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGA
* * *
4410 GCCCCGGACACCATCGGCAAAC
65 GCCTCGGCCACCATCGGCAACC
* ** * * ** *
4432 TAAGCCCTTGGTATTGC-GGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTCGAT-GTGCGGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GGTCGTGCGGGA
*
4494 GCCTCGGGCACCATCGGCAACC
65 GCCTCGGCCACCATCGGCAACC
* ** *
4516 TAGGCCCTTGGTCGTGC-GGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTATGAT-GTGCGGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGGTCGTGCGGGA
* **
4578 GCCTCGGACACTGTCGGCAACC
65 GCCTCGGCCACCATCGGCAACC
* * ** *
4600 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGA
* *
4663 ACCTC-GCGTACCATCGGCAACC
65 GCCTCGGC-CACCATCGGCAACC
* * * *
4685 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
**
4750 CCTCGGCCACCATCGGCAAAA
66 CCTCGGCCACCATCGGCAACC
* *
4771 TAGGCCCTTGGTCGT-CGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
4835 CCTCGGCCACCATCGGC-ACC
66 CCTCGGCCACCATCGGCAACC
* ** * * * **
4855 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
4919 GCCTCGAG-CACCATCGGC-ACC
65 GCCTCG-GCCACCATCGGCAACC
* ** * * * * * *
4940 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* * *
5004 GGCTCGGGCACCATCGGCAAAC
65 GCCTCGGCCACCATCGGCAACC
* **
5026 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
*
5091 CCTCGGCCACCATCGGC-TCC
66 CCTCGGCCACCATCGGCAACC
** * * * *
5111 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACTATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
*
5175 GCCTCGAG-CACCATCGAC-ACC
65 GCCTCG-GCCACCATCGGCAACC
* ** * * * *
5196 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* * **
5260 GGCTCGGGCACCATCGGCAAAA
65 GCCTCGGCCACCATCGGCAACC
* *
5282 TAGGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATCGGC-ACC--GGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
*
5344 CCTCGGGCACCATCGGC-ACC
66 CCTCGGCCACCATCGGCAACC
* ** * * ** * **
5364 TTGGTGGCTCGGAT-GTGCGGGAGCCTCGGGC-CGCATCGGC-ACCTCGGTGGCTAGGAGGTGCG
1 TAGG-CCCTTGG-TCGTGCGGGAGCCTCGGGCAC-CATCGGCAACCTAGG-CCCTTGGTCGTGCG
* *
5426 GGAGCCTCGGACACCGTCGGCAA-C
62 GGAGCCTCGGCCACCATCGGCAACC
* **
5450 TTGGTGCTTGGAT-GTGCGGGAGCCTCGGGCACCCATCGGCA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCA-CCATCGGCA
5491 CCTTGGTGCC
Statistics
Matches: 896, Mismatches: 132, Indels: 60
0.82 0.12 0.06
Matches are distributed among these distances:
82 5 0.01
83 67 0.07
84 160 0.18
85 472 0.53
86 188 0.21
87 4 0.00
ACGTcount: A:0.16, C:0.32, G:0.34, T:0.18
Consensus pattern (86 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
CCTCGGCCACCATCGGCAACC
Found at i:10224 original size:48 final size:48
Alignment explanation
Indices: 10135--10228 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 48
10125 TTTCTTGGCT
* *
10135 TAAAAACGCCTAAGTCAGCCTAACTTCCACCTATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAAAGGATTCAACCG
10183 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCGA-CAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-C-ACCAATAAAGGATTCAAC
10229 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
47 4 0.10
48 36 0.88
49 1 0.02
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAAAGGATTCAACCG
Found at i:12611 original size:48 final size:48
Alignment explanation
Indices: 12522--12615 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 48
12512 TTTCTTGGCT
* *
12522 TAAAAACGCCTAAGTCAGCCTAACTTCCACCTATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAAAGGATTCAACCG
12570 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCGA-CAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-C-ACCAATAAAGGATTCAAC
12616 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
47 4 0.10
48 36 0.88
49 1 0.02
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAAAGGATTCAACCG
Found at i:13174 original size:14 final size:14
Alignment explanation
Indices: 13155--13186 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
13145 AGGTCATTTA
13155 GCCCAACCAAACTG
1 GCCCAACCAAACTG
13169 GCCCAACCAAACTG
1 GCCCAACCAAACTG
13183 GCCC
1 GCCC
13187 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:18297 original size:14 final size:14
Alignment explanation
Indices: 18278--18309 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
18268 AGGTCATTTA
18278 GCCCAACCAAACTG
1 GCCCAACCAAACTG
18292 GCCCAACCAAACTG
1 GCCCAACCAAACTG
18306 GCCC
1 GCCC
18310 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:23416 original size:14 final size:14
Alignment explanation
Indices: 23397--23428 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
23387 AGGTCATTTA
23397 GCCCAACCAAACTG
1 GCCCAACCAAACTG
23411 GCCCAACCAAACTG
1 GCCCAACCAAACTG
23425 GCCC
1 GCCC
23429 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:28537 original size:14 final size:14
Alignment explanation
Indices: 28518--28549 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
28508 AGGTCATTTA
28518 GCCCAACCAAACTG
1 GCCCAACCAAACTG
28532 GCCCAACCAAACTG
1 GCCCAACCAAACTG
28546 GCCC
1 GCCC
28550 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:29962 original size:42 final size:42
Alignment explanation
Indices: 29852--30143 Score: 292
Period size: 42 Copynumber: 6.9 Consensus size: 42
29842 GAGCCTCCAT
*
29852 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* * * * *
29895 TAACCTTGATGCTTGGACGTACGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
29938 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * *
29980 CAAACTAGGCCCTTGGTTGTG-GGGAGCCTCGGAG-ACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTC-GAGCACCATCGG
*
30022 CACCTCGGTGCTAT-GATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
30064 CACCTTGGTACTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
30106 CACCTTGGTGCATGGATGAGCGGGAGCCTTC-AGCACCA
1 CACCTTGGTGCATGGATGTGCGGGAGCC-TCGAGCACCA
30144 AAGCTAAAGT
Statistics
Matches: 205, Mismatches: 32, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
41 16 0.08
42 137 0.67
43 41 0.20
44 11 0.05
ACGTcount: A:0.18, C:0.29, G:0.34, T:0.20
Consensus pattern (42 bp):
CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
Found at i:30379 original size:24 final size:24
Alignment explanation
Indices: 30352--30430 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
30342 CCGGTTAGGT
*
30352 TCCCGGTGGTGCTCCGGCGATCCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
30376 TCCCGGCGGTGCTCCGGCGAACCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
30400 TCCC-GTCGGTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGCGAACCG
*
30424 TTCCGGT
1 TCCCGGT
30431 AGCATAGGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.02
24 45 0.94
25 2 0.04
ACGTcount: A:0.06, C:0.38, G:0.35, T:0.20
Consensus pattern (24 bp):
TCCCGGTGGTGCTCCGGCGAACCG
Found at i:30556 original size:43 final size:43
Alignment explanation
Indices: 30435--31443 Score: 985
Period size: 43 Copynumber: 23.9 Consensus size: 43
30425 TCCGGTAGCA
30435 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * * * * *
30478 T-GGTGCTAGGAT-GTGCAGGAGCCCCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** *
30520 TAAGCCCTTGGTATTGCGGGAGCCTCGGGCGCCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** *
30562 TCGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTT-GGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
30605 TAGGCCCTTGGTCGTGC-GGAGCCTCGGGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * **
30646 TCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
30689 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * *
30731 TTGGTGCTTGGAT-GTGCGAGAACCTCGCGTACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
30774 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * **
30817 TAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
30860 TAGGCCCTTGGTCGT-CGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
30902 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * **
30944 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
30987 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * * *
31029 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
31072 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* **
31115 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
31158 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-TCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * * *
31200 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACA-CATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
31242 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGAC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * *
31284 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * * * **
31327 TAGACCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGTAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
31370 TAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-C--C-A--
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
31404 TCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
31444 CCTTGGTGGC
Statistics
Matches: 783, Mismatches: 149, Indels: 70
0.78 0.15 0.07
Matches are distributed among these distances:
34 24 0.03
35 2 0.00
36 1 0.00
37 3 0.00
38 1 0.00
39 1 0.00
40 4 0.01
41 20 0.03
42 336 0.43
43 391 0.50
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (43 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
Found at i:30584 original size:85 final size:84
Alignment explanation
Indices: 30435--31443 Score: 721
Period size: 85 Copynumber: 12.0 Consensus size: 84
30425 TCCGGTAGCA
* *
30435 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGATGTGCAGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCT-TGATGTGCGGGAG
* *
30499 CCCCGGACACCATCGGCAAAC
64 CCTCGGACACCATCGGCAACC
* ** *
30520 TAAGCCCTTGGTATTGCGGGAGCCTCGGGCGCCATCGGCACCTCGGTGCTTCGATGTGCGGGAGC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTT-GATGTGCGGGAGC
*
30585 CTCGGGCACCATCGGCAACC
65 CTCGGACACCATCGGCAACC
30605 TAGGCCCTTGGTCGTGC-GGAGCCTCGGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCT-TGATGTGCGGGAGC
**
30669 CTCGGACACTGTCGGCAACC
65 CTCGGACACCATCGGCAACC
* * * *
30689 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTT-GATGTGCGGGAGC
*
30754 CTCGCG-TACCATCGGCAACC
65 CTCG-GACACCATCGGCAACC
* * * ** ** *
30774 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAG
* **
30839 CCTCGGCCACCATCGGCAAAA
64 CCTCGGACACCATCGGCAACC
* * * ** *
30860 TAGGCCCTTGGTCGT-CGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAG
*
30924 CCTCGGCCACCATCGGC-ACC
64 CCTCGGACACCATCGGCAACC
* ** * * * ** * ** *
30944 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
31008 GCCTC-GAGCACCATCGGC-ACC
63 GCCTCGGA-CACCATCGGCAACC
* ** * * * * * * ** * *
31029 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
* * *
31093 GGCTCGGGCACCATCGGCAAAC
63 GCCTCGGACACCATCGGCAACC
* ** * ** *
31115 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAG
* *
31180 CCTCGGCCACCATCGGC-TCC
64 CCTCGGACACCATCGGCAACC
** * * * * ** *
31200 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACA-CATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
*
31263 GCCTC-GAGCACCATCGAC-ACC
63 GCCTCGGA-CACCATCGGCAACC
* ** * * * *** * *
31284 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
* * * **
31348 GGCTCGGGCACCATCGGTAAAA
63 GCCTCGGACACCATCGGCAACC
* * *
31370 TAGGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATCGGC-CCTTGGT-C-----GTGCGGGAGCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTTGATGTGCGGGAGCC
*
31428 TCGGGCACCATCGGCA
66 TCGGACACCATCGGCA
31444 CCTTGGTGGC
Statistics
Matches: 783, Mismatches: 119, Indels: 52
0.82 0.12 0.05
Matches are distributed among these distances:
77 24 0.03
83 2 0.00
84 170 0.22
85 439 0.56
86 148 0.19
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (84 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTTGATGTGCGGGAGCC
TCGGACACCATCGGCAACC
Found at i:31263 original size:298 final size:299
Alignment explanation
Indices: 30506--31443 Score: 1200
Period size: 298 Copynumber: 3.2 Consensus size: 299
30496 GAGCCCCGGA
** * ** * **
30506 CACCATCGGCAAACTAAGCCCTTGGTATTGCGGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * *
30570 TCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGC-GGAGCCTCGGG
66 T-GGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGA
30633 CACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTT
130 CACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTT
*
30698 GGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGTAC
195 GGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGCAC
30763 CATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
260 CATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
*
30803 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* *
30868 TGGTCGT-CGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCC
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
*
30932 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
131 ACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
*
30997 GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
196 GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGCACC
*
31062 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
261 ATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
31101 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * ** *
31166 TGGTCGTGCGGGAGCCTCGGCCACCATCGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGA
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGA
* * ** * ** * * **
31229 CA-CATCGGCAAACTAGGCCCT-TGGTCGTGCGGGAGCCTC-GAGCACCATCGAC-ACCTTGGTG
130 CACCATCGGC-ACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGA-CACTGTCGGCAACCTAGGCC
* * * * *** **
31290 CTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGG-TCGTGCGAGAGGCTC
192 CTTGG-TCGTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAGAACCTC
* * ** * *
31353 GGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCG-GGGGCCTCGGC
254 GCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGG-CTCGGG
31399 CACCATC-G--------GCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
31444 CCTTGGTGGC
Statistics
Matches: 575, Mismatches: 54, Indels: 32
0.87 0.08 0.05
Matches are distributed among these distances:
289 37 0.06
297 144 0.25
298 371 0.65
299 23 0.04
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (299 bp):
CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
ACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGCACC
ATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
Found at i:31415 original size:34 final size:34
Alignment explanation
Indices: 31372--31450 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
31362 CGGTAAAATA
*
31372 GGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
*
31406 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
31440 GGCACCTTGGT
1 GGC-CCTTGGT
31451 GGCTCGGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
34 35 0.83
35 7 0.17
ACGTcount: A:0.08, C:0.35, G:0.38, T:0.19
Consensus pattern (34 bp):
GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
Found at i:31477 original size:25 final size:25
Alignment explanation
Indices: 31448--31499 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
31438 TCGGCACCTT
* *
31448 GGTGGCTCGGATGTGCGGGAGCCTC
1 GGTGGCTAGGAGGTGCGGGAGCCTC
31473 GGTGGCTAGGAGGTGCGGGAGCCTC
1 GGTGGCTAGGAGGTGCGGGAGCCTC
31498 GG
1 GG
31500 ACACCATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.10, C:0.21, G:0.52, T:0.17
Consensus pattern (25 bp):
GGTGGCTAGGAGGTGCGGGAGCCTC
Found at i:31531 original size:42 final size:44
Alignment explanation
Indices: 31485--31577 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 44
31475 TGGCTAGGAG
*
31485 GTGCGGGAGCCTCGGACA-CCATCGGCAACTTGGTG-CTTGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
* *
31527 GTGCGGGAGCCTCGGGCACCCATCGGCACCTTGGTGCCTGGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
31571 GTGCGGG
1 GTGCGGG
31578 CTAAAGAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 17 0.37
43 16 0.35
44 13 0.28
ACGTcount: A:0.13, C:0.28, G:0.40, T:0.19
Consensus pattern (44 bp):
GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
Found at i:38810 original size:48 final size:48
Alignment explanation
Indices: 38728--38821 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
38718 TTTCTTGGCT
* *
38728 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
38776 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
38822 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:41182 original size:48 final size:48
Alignment explanation
Indices: 41100--41193 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
41090 TTTCTTGGCT
* *
41100 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
41148 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
41194 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:42549 original size:42 final size:42
Alignment explanation
Indices: 42445--42736 Score: 319
Period size: 42 Copynumber: 6.9 Consensus size: 42
42435 GAGCCTCCAT
*
42445 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* * *
42488 TAACCTTGATGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
42531 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * *
42573 CAAACTAGGCCCTTGGTTGTG-GGGAGCCTCGGAG-ACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTC-GAGCACCATCGG
*
42615 CACCTCGGTGCTAT-GATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
42657 CACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
42699 CACCTTGGTGCATGGATGAGCGGGAGCCTTC-AGCACCA
1 CACCTTGGTGCATGGATGTGCGGGAGCC-TCGAGCACCA
42737 AAGCTAAAGT
Statistics
Matches: 211, Mismatches: 26, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
41 16 0.08
42 141 0.67
43 43 0.20
44 11 0.05
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.20
Consensus pattern (42 bp):
CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
Found at i:42972 original size:24 final size:24
Alignment explanation
Indices: 42945--43023 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
42935 CCGGTTAGGT
*
42945 TCCCGGTGGTGCTCCGGCGATCCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
42969 TCCCGGCGGTGCTCCGGCGAACCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
42993 TCCC-GTCGGTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGCGAACCG
*
43017 TTCCGGT
1 TCCCGGT
43024 AGCATAGGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.02
24 45 0.94
25 2 0.04
ACGTcount: A:0.06, C:0.38, G:0.35, T:0.20
Consensus pattern (24 bp):
TCCCGGTGGTGCTCCGGCGAACCG
Found at i:43225 original size:43 final size:43
Alignment explanation
Indices: 43028--44037 Score: 969
Period size: 43 Copynumber: 23.9 Consensus size: 43
43018 TCCGGTAGCA
43028 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * * * * *
43071 T-GGTGCTAGGAT-GTGCAGGAGCCCCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** *
43113 TAAGCCCTTGGTATTGC-GGAGCCTCGGGCGCCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** *
43154 TCGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTT-GGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
43197 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * **
43239 TCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
43282 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * *
43324 TTGGTGCTTGGAT-GTGCGAGAACCTCGCGTACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
43367 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * **
43410 TAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
43453 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
43496 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * **
43538 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
43581 TAGGCCCTTGGCCGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * * *
43623 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
43666 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* **
43709 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
43752 TAGGCCCTTGGTCGTGCGGGAGCCTC-GGCGACCATC-GC-CCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGC-ACCATCGGCAACC
** * * *
43793 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
43836 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGAC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * *
43878 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * * * **
43921 TAGACCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGTAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
43964 TAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-C--C-A--
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
43998 TCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
44038 CCTTGGTGGC
Statistics
Matches: 781, Mismatches: 151, Indels: 72
0.78 0.15 0.07
Matches are distributed among these distances:
34 24 0.03
35 2 0.00
36 1 0.00
37 3 0.00
38 1 0.00
39 1 0.00
40 4 0.01
41 37 0.05
42 253 0.32
43 455 0.58
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (43 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
Found at i:43254 original size:85 final size:86
Alignment explanation
Indices: 43028--44037 Score: 969
Period size: 85 Copynumber: 12.0 Consensus size: 86
43018 TCCGGTAGCA
** * *
43028 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT-GTGCAGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGA
* * *
43091 GCCCCGGACACCATCGGCAAAC
65 GCCTCGGGCACCATCGGCAACC
* ** * * ** *
43113 TAAGCCCTTGGTATTGC-GGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTCGAT-GTGCGGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GGTCGTGCGGGA
43175 GCCTCGGGCACCATCGGCAACC
65 GCCTCGGGCACCATCGGCAACC
* * ** *
43197 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGC-ACCTCGGTGCTATGAT-GTGCGGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGGTCGTGCGGGA
* **
43260 GCCTCGGACACTGTCGGCAACC
65 GCCTCGGGCACCATCGGCAACC
* * ** *
43282 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGA
* * *
43345 ACCTCGCGTACCATCGGCAACC
65 GCCTCGGGCACCATCGGCAACC
* * * *
43367 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
* **
43432 CCTCGGCCACCATCGGCAAAA
66 CCTCGGGCACCATCGGCAACC
* *
43453 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
*
43518 CCTCGGCCACCATCGGC-ACC
66 CCTCGGGCACCATCGGCAACC
* ** * * * ** *
43538 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGA
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
*
43602 GCCTCGAGCACCATCGGC-ACC
65 GCCTCGGGCACCATCGGCAACC
* ** * * * * * *
43623 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* *
43687 GGCTCGGGCACCATCGGCAAAC
65 GCCTCGGGCACCATCGGCAACC
* **
43709 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
*
43774 CCTC-GGCGACCATC-GC-CCC
66 CCTCGGGC-ACCATCGGCAACC
** * * *
43793 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* *
43857 GCCTCGAGCACCATCGAC-ACC
65 GCCTCGGGCACCATCGGCAACC
* ** * * * *
43878 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* * **
43942 GGCTCGGGCACCATCGGTAAAA
65 GCCTCGGGCACCATCGGCAACC
* *
43964 TAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-C--C-A--TCGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
44020 CCTCGGGCACCATCGGCA
66 CCTCGGGCACCATCGGCA
44038 CCTTGGTGGC
Statistics
Matches: 782, Mismatches: 126, Indels: 42
0.82 0.13 0.04
Matches are distributed among these distances:
77 35 0.04
79 1 0.00
80 1 0.00
82 1 0.00
83 7 0.01
84 139 0.18
85 403 0.52
86 195 0.25
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (86 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
CCTCGGGCACCATCGGCAACC
Found at i:43705 original size:299 final size:298
Alignment explanation
Indices: 43099--43832 Score: 1174
Period size: 299 Copynumber: 2.5 Consensus size: 298
43089 GAGCCCCGGA
** * ** * **
43099 CACCATCGGCAAACTAAGCCCTTGGTATTGC-GGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * *
43162 TCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTCGGG
66 T-GGTCGTGCGGGAGCCTC-GGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGA
*
43226 CACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTT
129 CACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTT
* * *
43291 GGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGTAC
194 GGCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCAC
*
43356 CATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
259 CATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
*
43396 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* *
43461 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCC
66 TGGTCGTGCGGGAGCCTCGG-CACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
43526 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
130 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
43591 GCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
195 GCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
43656 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
260 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
43695 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* ** *
43760 TGGTCGTGCGGGAGCCTCGGCGACCATC-GC-CCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGA
66 TGGTCGTGCGGGAGCCTCGGC-ACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGA
43822 CACCATCGGCA
129 CACCATCGGCA
43833 AACTAGGCCC
Statistics
Matches: 406, Mismatches: 25, Indels: 12
0.92 0.06 0.03
Matches are distributed among these distances:
297 64 0.16
298 27 0.07
299 315 0.78
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.18
Consensus pattern (298 bp):
CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
TGGTCGTGCGGGAGCCTCGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACA
CCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGG
CCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACCA
TCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
Found at i:44009 original size:34 final size:34
Alignment explanation
Indices: 43966--44044 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
43956 CGGTAAAATA
*
43966 GGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
*
44000 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
44034 GGCACCTTGGT
1 GGC-CCTTGGT
44045 GGCTCGGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
34 35 0.83
35 7 0.17
ACGTcount: A:0.08, C:0.35, G:0.38, T:0.19
Consensus pattern (34 bp):
GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
Found at i:44072 original size:25 final size:25
Alignment explanation
Indices: 44043--44091 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
44033 CGGCACCTTG
* *
44043 GTGGCTCGGATGTGCGGGAGCCTCA
1 GTGGCTAGGAGGTGCGGGAGCCTCA
44068 GTGGCTAGGAGGTGCGGGAGCCTC
1 GTGGCTAGGAGGTGCGGGAGCCTC
44092 GGACACCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.22, G:0.47, T:0.18
Consensus pattern (25 bp):
GTGGCTAGGAGGTGCGGGAGCCTCA
Found at i:44125 original size:42 final size:44
Alignment explanation
Indices: 44079--44171 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 44
44069 TGGCTAGGAG
*
44079 GTGCGGGAGCCTCGGACA-CCATCGGCAACTTGGTG-CTTGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
* *
44121 GTGCGGGAGCCTCGGGCACCCATCGGCACCTTGGTGCCTGGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
44165 GTGCGGG
1 GTGCGGG
44172 CTAAAGAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 17 0.37
43 16 0.35
44 13 0.28
ACGTcount: A:0.13, C:0.28, G:0.40, T:0.19
Consensus pattern (44 bp):
GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
Found at i:52176 original size:42 final size:42
Alignment explanation
Indices: 52072--52363 Score: 319
Period size: 42 Copynumber: 6.9 Consensus size: 42
52062 GAGCCTCCAT
*
52072 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* * *
52115 TAACCTTGATGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
52158 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * *
52200 CAAACTAGGCCCTTGGTTGTG-GGGAGCCTCGGAG-ACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTC-GAGCACCATCGG
*
52242 CACCTCGGTGCTAT-GATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
52284 CACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
52326 CACCTTGGTGCATGGATGAGCGGGAGCCTTC-AGCACCA
1 CACCTTGGTGCATGGATGTGCGGGAGCC-TCGAGCACCA
52364 AAGCTAAAGT
Statistics
Matches: 211, Mismatches: 26, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
41 16 0.08
42 141 0.67
43 43 0.20
44 11 0.05
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.20
Consensus pattern (42 bp):
CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
Found at i:52598 original size:24 final size:24
Alignment explanation
Indices: 52571--52649 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
52561 CCGGTTAGGT
*
52571 TCCCGGTGGTGCTCCGGCGATCCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
52595 TCCCGGCGGTGCTCCGGCGAACCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
52619 TCCC-GTCGGTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGCGAACCG
*
52643 TTCCGGT
1 TCCCGGT
52650 AGCATAGGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.02
24 45 0.94
25 2 0.04
ACGTcount: A:0.06, C:0.38, G:0.35, T:0.20
Consensus pattern (24 bp):
TCCCGGTGGTGCTCCGGCGAACCG
Found at i:52854 original size:43 final size:43
Alignment explanation
Indices: 52654--53498 Score: 828
Period size: 43 Copynumber: 19.9 Consensus size: 43
52644 TCCGGTAGCA
52654 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * * * * *
52697 T-GGTGCTAGGAT-GTGCAGGAGCCCCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
52739 TAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-ACC
1 TAGGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAACC
* ** *
52783 TCGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTT-GGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
52826 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * **
52868 TCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
52911 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * *
52953 TTGGTGCTTGGAT-GTGCGAGAACCTCGCGTACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
52996 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * **
53039 TAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
53082 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
53125 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * **
53167 TCGGTGCTATGAT-GGGC-GGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
53209 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * * *
53251 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
53294 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
53337 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAA-A
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
53379 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * * *
53421 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATC-GCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
53463 TAGG-CCTTGGTCGTGCGGGAGCCTCGAGCACCATCG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCG
53499 ACCACCCTTT
Statistics
Matches: 651, Mismatches: 123, Indels: 57
0.78 0.15 0.07
Matches are distributed among these distances:
40 1 0.00
41 48 0.07
42 248 0.38
43 324 0.50
44 9 0.01
45 21 0.03
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (43 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
Found at i:52882 original size:85 final size:85
Alignment explanation
Indices: 52654--53498 Score: 754
Period size: 85 Copynumber: 9.9 Consensus size: 85
52644 TCCGGTAGCA
** * *
52654 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT-GTGCAGGA
1 TAGGCCCTTGGTCGTGC-GGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGATCGTGCGGGA
* * *
52717 GCCCCGGACACCATCGGCAAAC
64 GCCTCGGGCACCATCGGCAACC
* * * **
52739 TAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTCGAT-GTGCG
1 TAGGCCCTTGGT-CGTG--C-GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GATCGTGCG
52801 GGAGCCTCGGGCACCATCGGCAACC
61 GGAGCCTCGGGCACCATCGGCAACC
* **
52826 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGC-ACCTCGGTGCTATGAT-GTGCGGGA
1 TAGGCCCTTGGTCGTGCGG-AGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGATCGTGCGGGA
* **
52889 GCCTCGGACACTGTCGGCAACC
64 GCCTCGGGCACCATCGGCAACC
* * ** *
52911 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAGA
1 TAGGCCCTTGGTCGTGC-GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GATCGTGCGGGA
* * *
52974 ACCTCGCGTACCATCGGCAACC
64 GCCTCGGGCACCATCGGCAACC
* * * *
52996 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCG-GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGATCGTGCGGGAG
* **
53061 CCTCGGCCACCATCGGCAAAA
65 CCTCGGGCACCATCGGCAACC
* * *
53082 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGC-GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGATCGTGCGGGAG
*
53147 CCTCGGCCACCATCGGC-ACC
65 CCTCGGGCACCATCGGCAACC
* ** * * * ** *
53167 TCGGTGCTATGAT-GGGCGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCT-TGGTCGTGCGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGATCGTGCGGGAG
*
53231 CCTCGAGCACCATCGGC-ACC
65 CCTCGGGCACCATCGGCAACC
* ** * * * * * *
53251 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCG-GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGATCGTGCGGGA
* *
53315 GGCTCGGGCACCATCGGCAAAC
64 GCCTCGGGCACCATCGGCAACC
* * *
53337 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAA-ATAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGC-GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGATCGTGCGGGAG
* * *
53401 CCTCGGCCACCATTGGC-TCC
65 CCTCGGGCACCATCGGCAACC
** * * * *
53421 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATC-GCAAACTAGG-CCTTGGTCGTGCGGGA
1 TAGGCCCTTGG-TCGTGC-GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGATCGTGCGGGA
*
53483 GCCTCGAGCACCATCG
64 GCCTCGGGCACCATCG
53499 ACCACCCTTT
Statistics
Matches: 648, Mismatches: 90, Indels: 46
0.83 0.11 0.06
Matches are distributed among these distances:
83 35 0.05
84 111 0.17
85 281 0.43
86 150 0.23
87 71 0.11
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (85 bp):
TAGGCCCTTGGTCGTGCGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGATCGTGCGGGAGC
CTCGGGCACCATCGGCAACC
Found at i:53260 original size:298 final size:298
Alignment explanation
Indices: 52725--53457 Score: 1161
Period size: 298 Copynumber: 2.5 Consensus size: 298
52715 GAGCCCCGGA
* * ** * **
52725 CACCATCGGCAAACTAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGCACCTCGGTG
1 CACCATCGGCAAACTAAGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAAATAGGCC
* * *
52789 CTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTCG
63 CTT-GGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG
* *
52853 GGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCC
127 GACACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCC
* *
52918 TTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGT
192 TTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGC
*
52983 ACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
257 ACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
*
53025 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-AAATAGGCCCT
* *
53090 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCC
65 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
53155 ACCATCGGCACCTCGGTGCTATGATGGGC-GGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
130 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
53219 GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
195 GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
53284 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
260 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
53323 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAATAGGCCCTT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAATAGGCCCTT
* * * ** *
53388 GGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGAC
66 GGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGAC
53451 ACCATCG
130 ACCATCG
53458 CAAACTAGGC
Statistics
Matches: 403, Mismatches: 26, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
296 32 0.08
297 41 0.10
298 210 0.52
299 92 0.23
300 28 0.07
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (298 bp):
CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAATAGGCCCTT
GGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACA
CCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGG
TCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACCA
TCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
Done.