Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2426
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: 25966
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Found at i:4380 original size:42 final size:42
Alignment explanation
Indices: 4276--4567 Score: 319
Period size: 42 Copynumber: 6.9 Consensus size: 42
4266 GAGCCTCCAT
*
4276 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* * *
4319 TAACCTTGATGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
4362 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * *
4404 CAAACTAGGCCCTTGGTTGTG-GGGAGCCTCGGAG-ACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTC-GAGCACCATCGG
*
4446 CACCTCGGTGCTAT-GATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
4488 CACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
4530 CACCTTGGTGCATGGATGAGCGGGAGCCTTC-AGCACCA
1 CACCTTGGTGCATGGATGTGCGGGAGCC-TCGAGCACCA
4568 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:4803 original size:24 final size:24
Alignment explanation
Indices: 4776--4854 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
4766 CCGGTTAGGT
*
4776 TCCCGGTGGTGCTCCGGCGATCCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
4800 TCCCGGCGGTGCTCCGGCGAACCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
4824 TCCC-GTCGGTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGCGAACCG
*
4848 TTCCGGT
1 TCCCGGT
4855 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:4936 original size:42 final size:43
Alignment explanation
Indices: 4872--5901 Score: 740
Period size: 43 Copynumber: 24.3 Consensus size: 43
4862 GCCCTTGGTC
*
4872 GTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * * **
4914 GTGCAGGAGCCCCGGACACCATCGGCAAACTAAGCCCTTGGTACT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGG-A-T
* * * *
4959 GCT-CTGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTCGAT
1 G-TGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
**
5001 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* *
5043 CGTGCGGTAGCCTCGGGCACCATCGGC-ACCTCGGTGCTAT-GAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCT-TGGAT
* ** **
5086 GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* *
5128 CGTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * **
5171 GTGCGAGAACCTCGCGTACCATCGGCAACCTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * **
5213 CGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* ** **
5256 CGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * **
5299 CGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* *
5342 CGTGCGGGAGCCTCGGCCACCATCGGC-ACCTCGGTGCTAT-GAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCT-TGGAT
* * ** ** **
5385 GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
** *
5428 GTGCGGGAGCCTCTAGCACCATCGGC-ACCTTGGTGCTTGGAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * * **
5470 GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * **
5512 CGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
** **
5555 CGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * *
5598 CGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * **
5641 GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * *
5683 CGTGCGGGAGCCTCGAGCACCATCGAC-ACCTTGGTGCTTGGAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * ***
5726 GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * ** **
5768 CATGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * *
5811 CGTGCGGGGGCCTCGGCCACCATCGGC--CCTTGGT-C------
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* *
5846 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGGCTCGGAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGT-GCTTGGAT
5889 GTGCGGGAGCCTC
1 GTGCGGGAGCCTC
5902 AGTGGCTAGG
Statistics
Matches: 794, Mismatches: 158, Indels: 71
0.78 0.15 0.07
Matches are distributed among these distances:
34 24 0.03
35 7 0.01
37 1 0.00
40 1 0.00
41 4 0.01
42 247 0.31
43 479 0.60
44 9 0.01
45 21 0.03
46 1 0.00
ACGTcount: A:0.16, C:0.32, G:0.33, T:0.18
Consensus pattern (43 bp):
GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
Found at i:5087 original size:85 final size:86
Alignment explanation
Indices: 4859--5872 Score: 946
Period size: 85 Copynumber: 12.0 Consensus size: 86
4849 TCCGGTAGCA
** * *
4859 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT-GTGCAGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGA
* * *
4922 GCCCCGGACACCATCGGCAAAC
65 GCCTCGGGCACCATCGGCAACC
* * * * ** *
4944 TAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTCGAT-GTGCG
1 TAGGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GGTCGTGCG
5006 GGAGCCTCGGGCACCATCGGCAACC
62 GGAGCCTCGGGCACCATCGGCAACC
* * ** *
5031 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGC-ACCTCGGTGCTATGAT-GTGCGGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGGTCGTGCGGGA
* **
5094 GCCTCGGACACTGTCGGCAACC
65 GCCTCGGGCACCATCGGCAACC
* * ** *
5116 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGA
* * *
5179 ACCTCGCGTACCATCGGCAACC
65 GCCTCGGGCACCATCGGCAACC
* * * *
5201 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
* **
5266 CCTCGGCCACCATCGGCAAAA
66 CCTCGGGCACCATCGGCAACC
* *
5287 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
*
5352 CCTCGGCCACCATCGGC-ACC
66 CCTCGGGCACCATCGGCAACC
* ** * * * ** *
5372 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGA
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
**
5436 GCCTCTAGCACCATCGGC-ACC
65 GCCTCGGGCACCATCGGCAACC
* ** * * * * * *
5457 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* *
5521 GGCTCGGGCACCATCGGCAAAC
65 GCCTCGGGCACCATCGGCAACC
* **
5543 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
* * *
5608 CCTCGGCCACCATTGGC-TCC
66 CCTCGGGCACCATCGGCAACC
** * * *
5628 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* *
5692 GCCTCGAGCACCATCGAC-ACC
65 GCCTCGGGCACCATCGGCAACC
* ** * * * * *
5713 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGGTCATGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* * **
5777 GGCTCGGGCACCATCGGTAAAA
65 GCCTCGGGCACCATCGGCAACC
* *
5799 TAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-C--C-A--TCGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
5855 CCTCGGGCACCATCGGCA
66 CCTCGGGCACCATCGGCA
5873 CCTTGGTGGC
Statistics
Matches: 780, Mismatches: 132, Indels: 42
0.82 0.14 0.04
Matches are distributed among these distances:
77 34 0.04
79 1 0.00
80 1 0.00
82 1 0.00
83 3 0.00
84 4 0.01
85 461 0.59
86 207 0.27
87 67 0.09
88 1 0.00
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (86 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
CCTCGGGCACCATCGGCAACC
Found at i:5491 original size:256 final size:254
Alignment explanation
Indices: 5001--5901 Score: 1040
Period size: 256 Copynumber: 3.5 Consensus size: 254
4991 GTGCTTCGAT
* ** *
5001 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCAT
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * ** * * ** **
5066 CGGCACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGG-TC
66 CGGCAACTAGGCCCT-TGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACCTAGGTGC-TGGAT-
* ** * * * * *
5129 GTGCGGGAGCCTC-GAGCACCATCGGC-ACCTTGGTGCTTGGATGTGCGAGAACCTCGCGTACCA
127 GTGCGGGAGCCTCGGA-CACCATCGGCAACCTAGGCCCTTGGACGTGCGGGAGCCTCGAGCACCA
* ** * ** *
5192 TCGGCAACCTAGGCCCTTGG-TCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGT
191 TCGGC-ACCTTGGTGCTTGGAT-GTCCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGT
5256 C
254 C
* * *
5257 GTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCAT
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
5322 CGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTCGGTGCTATGATGG
66 CGGC-AACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCT-GGATGT
** * *
5387 GCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCTAGCACCATCG
129 GCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGACGTGCGGGAGCCTCGAGCACCATCG
* * *
5452 GCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTC
194 GCACCTTGGTGCTTGGATGTCCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGTC
* * *
5513 GTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
5578 CGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATTGGCTCCTAGGTGCTGGGATGT
66 CGGC-AACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCT-GGATGT
* *
5643 GCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCG
129 GCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGACGTGCGGGAGCCTCGAGCACCATCG
*
5708 ACACCTTGGTGCTTGGATGTGCCG-GAACCTCGGGCACCATCGGCAACCT-AGACCCTTGGTC
194 GCACCTTGGTGCTTGGATGT-CCGAGAACCTCGGGCACCATCGGCAACCTAAG-CCCTTGGTC
* * * *
5769 ATGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
5830 C--C-A-TCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGGCTCGGATGT
66 CGGCAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGT-GCT-GGATGT
5891 GCGGGAGCCTC
129 GCGGGAGCCTC
5902 AGTGGCTAGG
Statistics
Matches: 562, Mismatches: 73, Indels: 28
0.85 0.11 0.04
Matches are distributed among these distances:
247 42 0.07
248 21 0.04
250 1 0.00
252 1 0.00
253 3 0.01
255 4 0.01
256 421 0.75
257 69 0.12
ACGTcount: A:0.16, C:0.32, G:0.34, T:0.18
Consensus pattern (254 bp):
GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
CGGCAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCTGGATGTGC
GGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGACGTGCGGGAGCCTCGAGCACCATCGGC
ACCTTGGTGCTTGGATGTCCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGTC
Found at i:5697 original size:299 final size:299
Alignment explanation
Indices: 4930--5667 Score: 1162
Period size: 299 Copynumber: 2.5 Consensus size: 299
4920 GAGCCCCGGA
* * ** * *
4930 CACCATCGGCAAACTAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-ACCTCGGT
1 CACCATCGGCAAACTAAGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAAAATAGGC
* * * *
4993 GCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTC
63 CCTT-GGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC
*
5057 GGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCC
127 GGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCC
* *
5122 CTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCG
192 CTTGGCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCG
* *
5187 TACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
257 CACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
*
5230 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* *
5295 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCC
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
*
5360 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
131 ACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
*
5425 GCCGTGCGGGAGCCTCTAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
196 GCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
5490 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
261 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
5529 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * * ** *
5594 TGGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGA
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGA
5657 CACCATCGGCA
130 CACCATCGGCA
5668 AACTAGGCCC
Statistics
Matches: 406, Mismatches: 28, Indels: 10
0.91 0.06 0.02
Matches are distributed among these distances:
298 57 0.14
299 321 0.79
300 28 0.07
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.18
Consensus pattern (299 bp):
CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
ACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
GCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
Found at i:5790 original size:299 final size:297
Alignment explanation
Indices: 4861--5872 Score: 1114
Period size: 299 Copynumber: 3.4 Consensus size: 297
4851 CGGTAGCATA
* * * * ** *
4861 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT-GTGC-AGGAG
1 GGCCCTTGGT-ATGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGA-GAG
* * * * *
4923 CCCCGGACACCATCGGCAAACTAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-A
63 GCTCGGGCACCATCGGCAAACTAAGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAA
** * ** * *
4986 CCTCGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
125 AATAGGCCCTT-GGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* *
5050 TAGCCTCGGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAAC
189 GAGCCTCGGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAAC
5115 CTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTT
254 CTAGGCCCTTGGT-GTGCGGGAGCCTCGAGCACCATCGGCACCTT
** * *
5160 GGTGCTTGGATGTGCGAGAACCTCGCGTACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGC
1 GGCCCTTGG-TATGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGC
*
5225 TCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAG
65 TCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAG
*
5290 GCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCT
130 GCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCT
* *
5355 CGGCCACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGC
195 CGGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGC
* *
5420 CCTTGGCCGTGCGGGAGCCTCTAGCACCATCGGCACCTT
260 CCTTGG-TGTGCGGGAGCCTCGAGCACCATCGGCACCTT
** *
5459 GGTGCTTGG-ATGTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGG
1 GGCCCTTGGTATG--CGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGG
5523 CTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATA
64 CTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATA
* * * ** *
5588 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGC
129 GGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGC
* * ** * ** *
5651 CTCGGACACCATCGGCAAACTAGGCCCT-TGGTCGTGCGGGAGCCTC-GAGCACCATCGAC-ACC
193 CTCGGACACCATCGGC-ACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGA-CACTGTCGGCAACC
* ** * * * *
5713 TTGGTGCTTGGATGTGCCGGAACCTCGGGCACCATCGGCAACCTA
255 TAGGCCCTTGG-TGTGCGGGAGCCTCGAGCACCATCGGC-ACCTT
* ** * * ** *
5758 GACCCTTGGTCATGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCG-GGGGC
1 GGCCCTTGGT-ATGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGG-
*
5822 CTCGGCCACCATC-G--------GCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
64 CTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
5873 CCTTGGTGGC
Statistics
Matches: 624, Mismatches: 71, Indels: 45
0.84 0.10 0.06
Matches are distributed among these distances:
290 37 0.06
297 2 0.00
298 98 0.16
299 437 0.70
300 46 0.07
301 4 0.01
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (297 bp):
GGCCCTTGGTATGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCT
CGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGG
CCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC
GGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCC
CTTGGTGTGCGGGAGCCTCGAGCACCATCGGCACCTT
Found at i:5844 original size:34 final size:34
Alignment explanation
Indices: 5801--5879 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
5791 CGGTAAAATA
*
5801 GGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
*
5835 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
5869 GGCACCTTGGT
1 GGC-CCTTGGT
5880 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:5907 original size:25 final size:25
Alignment explanation
Indices: 5878--5926 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
5868 CGGCACCTTG
* *
5878 GTGGCTCGGATGTGCGGGAGCCTCA
1 GTGGCTAGGAGGTGCGGGAGCCTCA
5903 GTGGCTAGGAGGTGCGGGAGCCTC
1 GTGGCTAGGAGGTGCGGGAGCCTC
5927 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:5960 original size:42 final size:44
Alignment explanation
Indices: 5914--6006 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 44
5904 TGGCTAGGAG
*
5914 GTGCGGGAGCCTCGGACA-CCATCGGCAACTTGGTG-CTTGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
* *
5956 GTGCGGGAGCCTCGGGCACCCATCGGCACCTTGGTGCCTGGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
6000 GTGCGGG
1 GTGCGGG
6007 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:17612 original size:42 final size:42
Alignment explanation
Indices: 17508--17799 Score: 319
Period size: 42 Copynumber: 6.9 Consensus size: 42
17498 GAGCCTCCAT
*
17508 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* * *
17551 TAACCTTGATGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
17594 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * *
17636 CAAACTAGGCCCTTGGTTGTG-GGGAGCCTCGGAG-ACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTC-GAGCACCATCGG
*
17678 CACCTCGGTGCTAT-GATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
17720 CACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
17762 CACCTTGGTGCATGGATGAGCGGGAGCCTTC-AGCACCA
1 CACCTTGGTGCATGGATGTGCGGGAGCC-TCGAGCACCA
17800 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:18035 original size:24 final size:24
Alignment explanation
Indices: 18008--18086 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
17998 CCGGTTAGGT
*
18008 TCCCGGTGGTGCTCCGGCGATCCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
18032 TCCCGGCGGTGCTCCGGCGAACCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
18056 TCCC-GTCGGTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGCGAACCG
*
18080 TTCCGGT
1 TCCCGGT
18087 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:18168 original size:42 final size:43
Alignment explanation
Indices: 18104--19133 Score: 740
Period size: 43 Copynumber: 24.3 Consensus size: 43
18094 GCCCTTGGTC
*
18104 GTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * * **
18146 GTGCAGGAGCCCCGGACACCATCGGCAAACTAAGCCCTTGGTACT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGG-A-T
* * * *
18191 GCT-CTGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTCGAT
1 G-TGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
**
18233 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* *
18275 CGTGCGGTAGCCTCGGGCACCATCGGC-ACCTCGGTGCTAT-GAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCT-TGGAT
* ** **
18318 GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* *
18360 CGTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * **
18403 GTGCGAGAACCTCGCGTACCATCGGCAACCTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * **
18445 CGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* ** **
18488 CGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * **
18531 CGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* *
18574 CGTGCGGGAGCCTCGGCCACCATCGGC-ACCTCGGTGCTAT-GAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCT-TGGAT
* * ** ** **
18617 GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
** *
18660 GTGCGGGAGCCTCTAGCACCATCGGC-ACCTTGGTGCTTGGAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * * **
18702 GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * **
18744 CGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
** **
18787 CGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * *
18830 CGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * **
18873 GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * *
18915 CGTGCGGGAGCCTCGAGCACCATCGAC-ACCTTGGTGCTTGGAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * ***
18958 GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * ** **
19000 CATGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * *
19043 CGTGCGGGGGCCTCGGCCACCATCGGC--CCTTGGT-C------
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* *
19078 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGGCTCGGAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGT-GCTTGGAT
19121 GTGCGGGAGCCTC
1 GTGCGGGAGCCTC
19134 AGTGGCTAGG
Statistics
Matches: 794, Mismatches: 158, Indels: 71
0.78 0.15 0.07
Matches are distributed among these distances:
34 24 0.03
35 7 0.01
37 1 0.00
40 1 0.00
41 4 0.01
42 247 0.31
43 479 0.60
44 9 0.01
45 21 0.03
46 1 0.00
ACGTcount: A:0.16, C:0.32, G:0.33, T:0.18
Consensus pattern (43 bp):
GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
Found at i:18319 original size:85 final size:86
Alignment explanation
Indices: 18091--19104 Score: 946
Period size: 85 Copynumber: 12.0 Consensus size: 86
18081 TCCGGTAGCA
** * *
18091 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT-GTGCAGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGA
* * *
18154 GCCCCGGACACCATCGGCAAAC
65 GCCTCGGGCACCATCGGCAACC
* * * * ** *
18176 TAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTCGAT-GTGCG
1 TAGGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GGTCGTGCG
18238 GGAGCCTCGGGCACCATCGGCAACC
62 GGAGCCTCGGGCACCATCGGCAACC
* * ** *
18263 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGC-ACCTCGGTGCTATGAT-GTGCGGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGGTCGTGCGGGA
* **
18326 GCCTCGGACACTGTCGGCAACC
65 GCCTCGGGCACCATCGGCAACC
* * ** *
18348 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGA
* * *
18411 ACCTCGCGTACCATCGGCAACC
65 GCCTCGGGCACCATCGGCAACC
* * * *
18433 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
* **
18498 CCTCGGCCACCATCGGCAAAA
66 CCTCGGGCACCATCGGCAACC
* *
18519 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
*
18584 CCTCGGCCACCATCGGC-ACC
66 CCTCGGGCACCATCGGCAACC
* ** * * * ** *
18604 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGA
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
**
18668 GCCTCTAGCACCATCGGC-ACC
65 GCCTCGGGCACCATCGGCAACC
* ** * * * * * *
18689 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* *
18753 GGCTCGGGCACCATCGGCAAAC
65 GCCTCGGGCACCATCGGCAACC
* **
18775 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
* * *
18840 CCTCGGCCACCATTGGC-TCC
66 CCTCGGGCACCATCGGCAACC
** * * *
18860 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* *
18924 GCCTCGAGCACCATCGAC-ACC
65 GCCTCGGGCACCATCGGCAACC
* ** * * * * *
18945 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGGTCATGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* * **
19009 GGCTCGGGCACCATCGGTAAAA
65 GCCTCGGGCACCATCGGCAACC
* *
19031 TAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-C--C-A--TCGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
19087 CCTCGGGCACCATCGGCA
66 CCTCGGGCACCATCGGCA
19105 CCTTGGTGGC
Statistics
Matches: 780, Mismatches: 132, Indels: 42
0.82 0.14 0.04
Matches are distributed among these distances:
77 34 0.04
79 1 0.00
80 1 0.00
82 1 0.00
83 3 0.00
84 4 0.01
85 461 0.59
86 207 0.27
87 67 0.09
88 1 0.00
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (86 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
CCTCGGGCACCATCGGCAACC
Found at i:18723 original size:256 final size:254
Alignment explanation
Indices: 18233--19133 Score: 1040
Period size: 256 Copynumber: 3.5 Consensus size: 254
18223 GTGCTTCGAT
* ** *
18233 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCAT
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * ** * * ** **
18298 CGGCACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGG-TC
66 CGGCAACTAGGCCCT-TGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACCTAGGTGC-TGGAT-
* ** * * * * *
18361 GTGCGGGAGCCTC-GAGCACCATCGGC-ACCTTGGTGCTTGGATGTGCGAGAACCTCGCGTACCA
127 GTGCGGGAGCCTCGGA-CACCATCGGCAACCTAGGCCCTTGGACGTGCGGGAGCCTCGAGCACCA
* ** * ** *
18424 TCGGCAACCTAGGCCCTTGG-TCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGT
191 TCGGC-ACCTTGGTGCTTGGAT-GTCCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGT
18488 C
254 C
* * *
18489 GTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCAT
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
18554 CGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTCGGTGCTATGATGG
66 CGGC-AACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCT-GGATGT
** * *
18619 GCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCTAGCACCATCG
129 GCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGACGTGCGGGAGCCTCGAGCACCATCG
* * *
18684 GCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTC
194 GCACCTTGGTGCTTGGATGTCCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGTC
* * *
18745 GTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
18810 CGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATTGGCTCCTAGGTGCTGGGATGT
66 CGGC-AACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCT-GGATGT
* *
18875 GCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCG
129 GCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGACGTGCGGGAGCCTCGAGCACCATCG
*
18940 ACACCTTGGTGCTTGGATGTGCCG-GAACCTCGGGCACCATCGGCAACCT-AGACCCTTGGTC
194 GCACCTTGGTGCTTGGATGT-CCGAGAACCTCGGGCACCATCGGCAACCTAAG-CCCTTGGTC
* * * *
19001 ATGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
19062 C--C-A-TCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGGCTCGGATGT
66 CGGCAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGT-GCT-GGATGT
19123 GCGGGAGCCTC
129 GCGGGAGCCTC
19134 AGTGGCTAGG
Statistics
Matches: 562, Mismatches: 73, Indels: 28
0.85 0.11 0.04
Matches are distributed among these distances:
247 42 0.07
248 21 0.04
250 1 0.00
252 1 0.00
253 3 0.01
255 4 0.01
256 421 0.75
257 69 0.12
ACGTcount: A:0.16, C:0.32, G:0.34, T:0.18
Consensus pattern (254 bp):
GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
CGGCAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCTGGATGTGC
GGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGACGTGCGGGAGCCTCGAGCACCATCGGC
ACCTTGGTGCTTGGATGTCCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGTC
Found at i:18929 original size:299 final size:299
Alignment explanation
Indices: 18162--18899 Score: 1162
Period size: 299 Copynumber: 2.5 Consensus size: 299
18152 GAGCCCCGGA
* * ** * *
18162 CACCATCGGCAAACTAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-ACCTCGGT
1 CACCATCGGCAAACTAAGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAAAATAGGC
* * * *
18225 GCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTC
63 CCTT-GGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC
*
18289 GGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCC
127 GGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCC
* *
18354 CTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCG
192 CTTGGCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCG
* *
18419 TACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
257 CACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
*
18462 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* *
18527 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCC
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
*
18592 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
131 ACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
*
18657 GCCGTGCGGGAGCCTCTAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
196 GCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
18722 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
261 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
18761 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * * ** *
18826 TGGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGA
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGA
18889 CACCATCGGCA
130 CACCATCGGCA
18900 AACTAGGCCC
Statistics
Matches: 406, Mismatches: 28, Indels: 10
0.91 0.06 0.02
Matches are distributed among these distances:
298 57 0.14
299 321 0.79
300 28 0.07
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.18
Consensus pattern (299 bp):
CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
ACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
GCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
Found at i:19022 original size:299 final size:297
Alignment explanation
Indices: 18093--19104 Score: 1114
Period size: 299 Copynumber: 3.4 Consensus size: 297
18083 CGGTAGCATA
* * * * ** *
18093 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT-GTGC-AGGAG
1 GGCCCTTGGT-ATGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGA-GAG
* * * * *
18155 CCCCGGACACCATCGGCAAACTAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-A
63 GCTCGGGCACCATCGGCAAACTAAGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAA
** * ** * *
18218 CCTCGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
125 AATAGGCCCTT-GGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* *
18282 TAGCCTCGGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAAC
189 GAGCCTCGGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAAC
18347 CTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTT
254 CTAGGCCCTTGGT-GTGCGGGAGCCTCGAGCACCATCGGCACCTT
** * *
18392 GGTGCTTGGATGTGCGAGAACCTCGCGTACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGC
1 GGCCCTTGG-TATGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGC
*
18457 TCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAG
65 TCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAG
*
18522 GCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCT
130 GCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCT
* *
18587 CGGCCACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGC
195 CGGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGC
* *
18652 CCTTGGCCGTGCGGGAGCCTCTAGCACCATCGGCACCTT
260 CCTTGG-TGTGCGGGAGCCTCGAGCACCATCGGCACCTT
** *
18691 GGTGCTTGG-ATGTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGG
1 GGCCCTTGGTATG--CGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGG
18755 CTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATA
64 CTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATA
* * * ** *
18820 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGC
129 GGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGC
* * ** * ** *
18883 CTCGGACACCATCGGCAAACTAGGCCCT-TGGTCGTGCGGGAGCCTC-GAGCACCATCGAC-ACC
193 CTCGGACACCATCGGC-ACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGA-CACTGTCGGCAACC
* ** * * * *
18945 TTGGTGCTTGGATGTGCCGGAACCTCGGGCACCATCGGCAACCTA
255 TAGGCCCTTGG-TGTGCGGGAGCCTCGAGCACCATCGGC-ACCTT
* ** * * ** *
18990 GACCCTTGGTCATGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCG-GGGGC
1 GGCCCTTGGT-ATGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGG-
*
19054 CTCGGCCACCATC-G--------GCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
64 CTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
19105 CCTTGGTGGC
Statistics
Matches: 624, Mismatches: 71, Indels: 45
0.84 0.10 0.06
Matches are distributed among these distances:
290 37 0.06
297 2 0.00
298 98 0.16
299 437 0.70
300 46 0.07
301 4 0.01
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (297 bp):
GGCCCTTGGTATGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCT
CGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGG
CCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC
GGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCC
CTTGGTGTGCGGGAGCCTCGAGCACCATCGGCACCTT
Found at i:19076 original size:34 final size:34
Alignment explanation
Indices: 19033--19111 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
19023 CGGTAAAATA
*
19033 GGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
*
19067 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
19101 GGCACCTTGGT
1 GGC-CCTTGGT
19112 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:19139 original size:25 final size:25
Alignment explanation
Indices: 19110--19158 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
19100 CGGCACCTTG
* *
19110 GTGGCTCGGATGTGCGGGAGCCTCA
1 GTGGCTAGGAGGTGCGGGAGCCTCA
19135 GTGGCTAGGAGGTGCGGGAGCCTC
1 GTGGCTAGGAGGTGCGGGAGCCTC
19159 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:19192 original size:42 final size:44
Alignment explanation
Indices: 19146--19238 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 44
19136 TGGCTAGGAG
*
19146 GTGCGGGAGCCTCGGACA-CCATCGGCAACTTGGTG-CTTGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
* *
19188 GTGCGGGAGCCTCGGGCACCCATCGGCACCTTGGTGCCTGGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
19232 GTGCGGG
1 GTGCGGG
19239 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
Done.