Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006128.1 Hibiscus syriacus cultivar Beakdansim tig00014530_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96678
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:266 original size:20 final size:20
Alignment explanation
Indices: 216--266 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
206 ATTATTTCTC
*
216 TGTTTTT-TTTTCGGCTCTA
1 TGTTTTTCTTTTTGGCTCTA
*
235 TGTTCTTC-TTTTGGTCTCTA
1 TGTTTTTCTTTTTGG-CTCTA
255 T-TTTTTCTTTTT
1 TGTTTTTCTTTTT
267 TTTCTTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.04, C:0.16, G:0.12, T:0.69
Consensus pattern (20 bp):
TGTTTTTCTTTTTGGCTCTA
Found at i:274 original size:13 final size:13
Alignment explanation
Indices: 258--282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
248 GTCTCTATTT
258 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
271 TTTCTTTTTTTT
1 TTTCTTTTTTTT
283 TTCAGGTTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:707 original size:3 final size:3
Alignment explanation
Indices: 693--800 Score: 164
Period size: 3 Copynumber: 36.3 Consensus size: 3
683 TTTATGTATT
* *
693 TAA TAT TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
741 TAA T-A TAA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
788 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
801 TAAAATATGG
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
2 2 0.02
3 94 0.98
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5276 original size:13 final size:13
Alignment explanation
Indices: 5258--5290 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
5248 TGTTTCCTTG
5258 ATTGTGCCGGAAA
1 ATTGTGCCGGAAA
5271 ATTGTGCCGGAAA
1 ATTGTGCCGGAAA
*
5284 ATAGTGC
1 ATTGTGC
5291 TGGTTCTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.24
Consensus pattern (13 bp):
ATTGTGCCGGAAA
Found at i:6588 original size:302 final size:304
Alignment explanation
Indices: 5822--7033 Score: 2387
Period size: 302 Copynumber: 4.0 Consensus size: 304
5812 GAGACAACCA
*
5822 AAGTCCAAGACCAGCAAACCAAGATTGTCTAACATTCTCTTTTCTTCGACTCTCGTGGGACTTCT
1 AAGTCCAAGACCAGCAAACCAAGATTGTCTAACATTCTCTTTTCTTTGACTCTCGTGGGACTTCT
5887 GTAGCATTTTCAAGATTCAATCTTGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCC
66 GTAGCATTTTCAAGATTCAATCTTGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCC
5952 TCGGTAGCAAGCTTGTTGCTCTCTTGTGTGCTTCGATTGCTTTTTGGGACATTC-TTTTAGTAAG
131 TCGGTAGCAAGCTTGTTGCTCTCTTGTGTGCTTCGATTGCTTTTTGGGACATTCTTTTTAGTAAG
6016 ACCATTCTAGCTAATAAGGAGAGGATGATGAAGGGGTAGGA-TACTATCATGACAATGGCAAGTC
196 ACCATTCTAGCTAATAAGGAGAGGATGATGAAGGGGTAGGACTACTATCATGACAATGGCAAGTC
6080 TCCATGCAATGAATAGTCCCAAGGCACAAGCTAACGTTACACCC
261 TCCATGCAATGAATAGTCCCAAGGCACAAGCTAACGTTACACCC
6124 AAGTCCAAGACCAGCAAACCAAGATTGTCTAACATTCTCTTTTCTTTGACTCTCGTGGGACTTCT
1 AAGTCCAAGACCAGCAAACCAAGATTGTCTAACATTCTCTTTTCTTTGACTCTCGTGGGACTTCT
6189 GTAGCATTTTCAAGATTCAATCTTGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCC
66 GTAGCATTTTCAAGATTCAATCTTGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCC
6254 TCGGTAGCAAGCTTGTTGCTCTCTTGTGTGCTTCGATTGCTTTTTGGGACATTCTTTTTAGTAAG
131 TCGGTAGCAAGCTTGTTGCTCTCTTGTGTGCTTCGATTGCTTTTTGGGACATTCTTTTTAGTAAG
6319 ACCATTCTAGCTAATAAGGAGAGGATGATGAAGGGGTAGGACTACTATCATGACAATGGCAAGTC
196 ACCATTCTAGCTAATAAGGAGAGGATGATGAAGGGGTAGGACTACTATCATGACAATGGCAAGTC
6384 TCCATGCAATGAATAGTCCCAAGGCACAAGCTAACGTTACACCC
261 TCCATGCAATGAATAGTCCCAAGGCACAAGCTAACGTTACACCC
6428 AAGTCCAAGACCAGCAAACCAAGATTGTCTAACATTCTCTTTTCTTTGACTCTCGTGGGACTTCT
1 AAGTCCAAGACCAGCAAACCAAGATTGTCTAACATTCTCTTTTCTTTGACTCTCGTGGGACTTCT
6493 GTAGCATTTTCAAGATTCAATCTTGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCC
66 GTAGCATTTTCAAGATTCAATCTTGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCC
6558 TCGGTAGCAAGCTTGTTGCTCTC-T-TGTGCTTCGATTGCTTTTTGGGACATTCTTTTTAGTAAG
131 TCGGTAGCAAGCTTGTTGCTCTCTTGTGTGCTTCGATTGCTTTTTGGGACATTCTTTTTAGTAAG
6621 ACCATTCTAGCTAATAAGGAGAGGATGATGAAGGGGTAGGACTACTATCATGACAATGGCAAGTC
196 ACCATTCTAGCTAATAAGGAGAGGATGATGAAGGGGTAGGACTACTATCATGACAATGGCAAGTC
6686 TCCATGCAATGAATAGTCCCAAGGCACAAGCTAACGTTACACCC
261 TCCATGCAATGAATAGTCCCAAGGCACAAGCTAACGTTACACCC
6730 AAGTCCAAGACCAGCAAACCAAGATTGTCTAACATTCTCTTTTCTTTGACTCTCGTGGGACTTCT
1 AAGTCCAAGACCAGCAAACCAAGATTGTCTAACATTCTCTTTTCTTTGACTCTCGTGGGACTTCT
6795 GTAGCATTTTCAAGATTCAATCTTGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCC
66 GTAGCATTTTCAAGATTCAATCTTGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCC
6860 TCGGTAGCAAGCTTGTTGCTCTCTTGTGTGCTTCGATTGCTTTTTGGGACATTCTTTTTAGTAAG
131 TCGGTAGCAAGCTTGTTGCTCTCTTGTGTGCTTCGATTGCTTTTTGGGACATTCTTTTTAGTAAG
6925 ACCATTCTAGCTAATAAGGAGAGGATGATGAAGGGGTAGGACTACTATCATGACAATGGCAAGTC
196 ACCATTCTAGCTAATAAGGAGAGGATGATGAAGGGGTAGGACTACTATCATGACAATGGCAAGTC
6990 TCCATGCAATGAATAGTCCCAAGGCACAAGCTAACGTTACACCC
261 TCCATGCAATGAATAGTCCCAAGGCACAAGCTAACGTTACACCC
7034 GAGATGGTTT
Statistics
Matches: 905, Mismatches: 1, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
302 484 0.53
303 53 0.06
304 368 0.41
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (304 bp):
AAGTCCAAGACCAGCAAACCAAGATTGTCTAACATTCTCTTTTCTTTGACTCTCGTGGGACTTCT
GTAGCATTTTCAAGATTCAATCTTGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCC
TCGGTAGCAAGCTTGTTGCTCTCTTGTGTGCTTCGATTGCTTTTTGGGACATTCTTTTTAGTAAG
ACCATTCTAGCTAATAAGGAGAGGATGATGAAGGGGTAGGACTACTATCATGACAATGGCAAGTC
TCCATGCAATGAATAGTCCCAAGGCACAAGCTAACGTTACACCC
Found at i:6974 original size:606 final size:606
Alignment explanation
Indices: 5822--7033 Score: 2383
Period size: 606 Copynumber: 2.0 Consensus size: 606
5812 GAGACAACCA
5822 AAGTCCAAGACCAGCAAACCAAGATTGTCTAACATTCTCTTTTCTTCGACTCTCGTGGGACTTCT
1 AAGTCCAAGACCAGCAAACCAAGATTGTCTAACATTCTCTTTTCTTCGACTCTCGTGGGACTTCT
5887 GTAGCATTTTCAAGATTCAATCTTGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCC
66 GTAGCATTTTCAAGATTCAATCTTGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCC
5952 TCGGTAGCAAGCTTGTTGCTCTCTTGTGTGCTTCGATTGCTTTTTGGGACATTCTTTTAGTAAGA
131 TCGGTAGCAAGCTTGTTGCTCTCTTGTGTGCTTCGATTGCTTTTTGGGACATTCTTTTAGTAAGA
6017 CCATTCTAGCTAATAAGGAGAGGATGATGAAGGGGTAGGATACTATCATGACAATGGCAAGTCTC
196 CCATTCTAGCTAATAAGGAGAGGATGATGAAGGGGTAGGATACTATCATGACAATGGCAAGTCTC
6082 CATGCAATGAATAGTCCCAAGGCACAAGCTAACGTTACACCCAAGTCCAAGACCAGCAAACCAAG
261 CATGCAATGAATAGTCCCAAGGCACAAGCTAACGTTACACCCAAGTCCAAGACCAGCAAACCAAG
6147 ATTGTCTAACATTCTCTTTTCTTTGACTCTCGTGGGACTTCTGTAGCATTTTCAAGATTCAATCT
326 ATTGTCTAACATTCTCTTTTCTTTGACTCTCGTGGGACTTCTGTAGCATTTTCAAGATTCAATCT
6212 TGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCCTCGGTAGCAAGCTTGTTGCTCTC
391 TGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCCTCGGTAGCAAGCTTGTTGCTCTC
6277 TTGTGTGCTTCGATTGCTTTTTGGGACATTCTTTTTAGTAAGACCATTCTAGCTAATAAGGAGAG
456 TTGTGTGCTTCGATTGCTTTTTGGGACATTCTTTTTAGTAAGACCATTCTAGCTAATAAGGAGAG
6342 GATGATGAAGGGGTAGGACTACTATCATGACAATGGCAAGTCTCCATGCAATGAATAGTCCCAAG
521 GATGATGAAGGGGTAGGACTACTATCATGACAATGGCAAGTCTCCATGCAATGAATAGTCCCAAG
6407 GCACAAGCTAACGTTACACCC
586 GCACAAGCTAACGTTACACCC
*
6428 AAGTCCAAGACCAGCAAACCAAGATTGTCTAACATTCTCTTTTCTTTGACTCTCGTGGGACTTCT
1 AAGTCCAAGACCAGCAAACCAAGATTGTCTAACATTCTCTTTTCTTCGACTCTCGTGGGACTTCT
6493 GTAGCATTTTCAAGATTCAATCTTGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCC
66 GTAGCATTTTCAAGATTCAATCTTGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCC
6558 TCGGTAGCAAGCTTGTTGCTCTC-T-TGTGCTTCGATTGCTTTTTGGGACATTCTTTTTAGTAAG
131 TCGGTAGCAAGCTTGTTGCTCTCTTGTGTGCTTCGATTGCTTTTTGGGACATTC-TTTTAGTAAG
6621 ACCATTCTAGCTAATAAGGAGAGGATGATGAAGGGGTAGGACTACTATCATGACAATGGCAAGTC
195 ACCATTCTAGCTAATAAGGAGAGGATGATGAAGGGGTAGGA-TACTATCATGACAATGGCAAGTC
6686 TCCATGCAATGAATAGTCCCAAGGCACAAGCTAACGTTACACCCAAGTCCAAGACCAGCAAACCA
259 TCCATGCAATGAATAGTCCCAAGGCACAAGCTAACGTTACACCCAAGTCCAAGACCAGCAAACCA
6751 AGATTGTCTAACATTCTCTTTTCTTTGACTCTCGTGGGACTTCTGTAGCATTTTCAAGATTCAAT
324 AGATTGTCTAACATTCTCTTTTCTTTGACTCTCGTGGGACTTCTGTAGCATTTTCAAGATTCAAT
6816 CTTGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCCTCGGTAGCAAGCTTGTTGCTC
389 CTTGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCCTCGGTAGCAAGCTTGTTGCTC
6881 TCTTGTGTGCTTCGATTGCTTTTTGGGACATTCTTTTTAGTAAGACCATTCTAGCTAATAAGGAG
454 TCTTGTGTGCTTCGATTGCTTTTTGGGACATTCTTTTTAGTAAGACCATTCTAGCTAATAAGGAG
6946 AGGATGATGAAGGGGTAGGACTACTATCATGACAATGGCAAGTCTCCATGCAATGAATAGTCCCA
519 AGGATGATGAAGGGGTAGGACTACTATCATGACAATGGCAAGTCTCCATGCAATGAATAGTCCCA
7011 AGGCACAAGCTAACGTTACACCC
584 AGGCACAAGCTAACGTTACACCC
7034 GAGATGGTTT
Statistics
Matches: 603, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
604 28 0.05
605 52 0.09
606 523 0.87
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (606 bp):
AAGTCCAAGACCAGCAAACCAAGATTGTCTAACATTCTCTTTTCTTCGACTCTCGTGGGACTTCT
GTAGCATTTTCAAGATTCAATCTTGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCC
TCGGTAGCAAGCTTGTTGCTCTCTTGTGTGCTTCGATTGCTTTTTGGGACATTCTTTTAGTAAGA
CCATTCTAGCTAATAAGGAGAGGATGATGAAGGGGTAGGATACTATCATGACAATGGCAAGTCTC
CATGCAATGAATAGTCCCAAGGCACAAGCTAACGTTACACCCAAGTCCAAGACCAGCAAACCAAG
ATTGTCTAACATTCTCTTTTCTTTGACTCTCGTGGGACTTCTGTAGCATTTTCAAGATTCAATCT
TGAGATGAGAAGGCGGTAATGGTTCGGTGGATGGAAATTGCCTCGGTAGCAAGCTTGTTGCTCTC
TTGTGTGCTTCGATTGCTTTTTGGGACATTCTTTTTAGTAAGACCATTCTAGCTAATAAGGAGAG
GATGATGAAGGGGTAGGACTACTATCATGACAATGGCAAGTCTCCATGCAATGAATAGTCCCAAG
GCACAAGCTAACGTTACACCC
Found at i:7820 original size:18 final size:18
Alignment explanation
Indices: 7769--7811 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
7759 ATTATTTGGT
*
7769 CACGGCTGGAGACATGGG
1 CACGACTGGAGACATGGG
7787 CACGACTGGAGACATGGG
1 CACGACTGGAGACATGGG
7805 CACGACT
1 CACGACT
7812 CTGGGCATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.37, T:0.12
Consensus pattern (18 bp):
CACGACTGGAGACATGGG
Found at i:14684 original size:44 final size:44
Alignment explanation
Indices: 14546--14910 Score: 473
Period size: 44 Copynumber: 8.3 Consensus size: 44
14536 AATTTCTTAT
* * * *
14546 CAATATACATACTATTTAATCCATAAGCTCCTAAGCTTATTTTAC
1 CAATATACTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTAC
* * *
14591 CAATATACTTACCATTAAATCCCTAAGCTCGTAAGCTTATTTTAT
1 CAATATACTTACCATT-ATTCCATAAGCTCGTAAGCTTATTTTAC
* * *
14636 CAATATACTTACCATTATTACATATGCTCATAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* *
14680 CAATATGCTTACCATTATTCTATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* *
14724 CCATATACTTACCATTATTCCATAAACTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* * *
14768 CAATATACTTACCATTAAATCCCTAAGCTCGTAAGCTTATTTTAT
1 CAATATACTTACCATT-ATTCCATAAGCTCGTAAGCTTATTTTAC
* * *
14813 CAATATACTTACTATAATTTCATAAGCTCGTAAGCTTA-TTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* * **
14856 CAATATACTTACTATAATTTAATAAGCTCGTAAGCTTA-TTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
14899 CAATATACTTAC
1 CAATATACTTAC
14911 TATAATTTGC
Statistics
Matches: 286, Mismatches: 32, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
43 58 0.20
44 137 0.48
45 91 0.32
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (44 bp):
CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
Found at i:15233 original size:60 final size:59
Alignment explanation
Indices: 15071--15238 Score: 210
Period size: 60 Copynumber: 2.8 Consensus size: 59
15061 TTCCTTCTCA
* * * ** **
15071 TTTTAGCACACGAAGTGCCCTATTCAAGAATCCATACCATTAATGCGATTCCTTTACCAT
1 TTTTAGCACATGAAGTGCCCTATTGAA-AATCCATACCATTAGTATGACCCCTTTACCAT
* *
15131 TTTTAGCACCTGAAGTGCCCTATTCGAGAATCCATACCATTAGTATGACCCCTTTACCAT
1 TTTTAGCACATGAAGTGCCCTATT-GAAAATCCATACCATTAGTATGACCCCTTTACCAT
**
15191 TTTTAGCACATGAAGTGCCCTATATGAAAATCCATATTATTAGTATGA
1 TTTTAGCACATGAAGTGCCCTAT-TGAAAATCCATACCATTAGTATGA
15239 TTTCCTTATC
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
60 91 0.98
61 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (59 bp):
TTTTAGCACATGAAGTGCCCTATTGAAAATCCATACCATTAGTATGACCCCTTTACCAT
Found at i:15296 original size:59 final size:59
Alignment explanation
Indices: 15232--15553 Score: 398
Period size: 59 Copynumber: 5.5 Consensus size: 59
15222 CCATATTATT
* * * * * *** *
15232 AGTATGATTTCCTTATCCTTGTAGCACCCTTAGTGATTTTTCTGGAAATCCATACACTC
1 AGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTC
* * * * * * * * * *
15291 GGTATGATTCCCTTACCATTTTAGCACA-TATAATGC-CTTATCTGGAAATACATATATTC
1 AGTATGATTTCCTTATCATTTTAGCACACT-CAGTGCTC-CATATGGAAATCCATACACTC
* *
15350 AATATGATTTCTTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTC
1 AGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTC
15409 AGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTC
1 AGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTC
* *
15468 AGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATTCATACATTC
1 AGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTC
15527 AGTATGA-TTCCTTATCATTTTAGCACA
1 AGTATGATTTCCTTATCATTTTAGCACA
15554 TATAGTACCA
Statistics
Matches: 230, Mismatches: 29, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
58 21 0.09
59 207 0.90
60 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.37
Consensus pattern (59 bp):
AGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTC
Found at i:15375 original size:118 final size:117
Alignment explanation
Indices: 15184--15559 Score: 436
Period size: 118 Copynumber: 3.2 Consensus size: 117
15174 TATGACCCCT
* *
15184 TTACCATTTTTAGCACATGA-AGTGCCCTATATGAAAATCCATATTATT-AGTATGATTTCCTTA
1 TTACCA-TTTTAGCACAT-ATAGTGCCTTATATGGAAATCCATA-TATTCAGTATGATTTCCTTA
* * * * * *** * *
15247 TCCTTGTAGCACCCTTAGTGATTTTTCTGGAAATCCATACACTCGGTATGATTCCC
63 TCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATT-CC
* * * * *
15303 TTACCATTTTAGCACATATAATGCCTTATCTGGAAATACATATATTCAATATGATTTCTTTATCA
1 TTACCATTTTAGCACATATAGTGCCTTATATGGAAATCCATATATTCAGTATGATTTCCTTATCA
15368 TTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCC
66 TTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGA-TTCC
* * * * *
15421 TTATCATTTTAGCACACT-CAGTG-CTCCATATGGAAATCCATACACTCAGTATGATTTCCTTAT
1 TTACCATTTTAGCACA-TATAGTGCCT-TATATGGAAATCCATATATTCAGTATGATTTCCTTAT
* *
15484 CATTTTAGCACACTCAGTGCTCCATATGGAAATTCATACATTCAGTATGATTCC
64 CATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTCC
*
15538 TTATCATTTTAGCACATATAGT
1 TTACCATTTTAGCACATATAGT
15560 ACCATTTGGT
Statistics
Matches: 221, Mismatches: 30, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
116 1 0.00
117 30 0.14
118 181 0.82
119 9 0.04
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (117 bp):
TTACCATTTTAGCACATATAGTGCCTTATATGGAAATCCATATATTCAGTATGATTTCCTTATCA
TTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTCC
Found at i:15441 original size:31 final size:31
Alignment explanation
Indices: 15403--15501 Score: 82
Period size: 31 Copynumber: 3.3 Consensus size: 31
15393 GGAAATCCAT
15403 ACACTCAGTATGATTTCCTTATCATTTTAGC
1 ACACTCAGTATGATTTCCTTATCATTTTAGC
* * * * ** *
15434 ACACTCAG--TG--CTCCATATGGAAATCCA-T
1 ACACTCAGTATGATTTCCTTAT--CATTTTAGC
15462 ACACTCAGTATGATTTCCTTATCATTTTAGC
1 ACACTCAGTATGATTTCCTTATCATTTTAGC
15493 ACACTCAGT
1 ACACTCAGT
15502 GCTCCATATG
Statistics
Matches: 47, Mismatches: 14, Indels: 14
0.63 0.19 0.19
Matches are distributed among these distances:
27 6 0.13
28 8 0.17
29 5 0.11
30 5 0.11
31 17 0.36
32 6 0.13
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.35
Consensus pattern (31 bp):
ACACTCAGTATGATTTCCTTATCATTTTAGC
Found at i:17881 original size:23 final size:22
Alignment explanation
Indices: 17855--17899 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
17845 CTGAGTGGCA
*
17855 TATGAAATTTATCCCGAAGGACC
1 TATG-AATTTATCCCAAAGGACC
*
17878 TATGTATTTATCCCAAAGGACC
1 TATGAATTTATCCCAAAGGACC
17900 ATTGTATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (22 bp):
TATGAATTTATCCCAAAGGACC
Found at i:17886 original size:22 final size:23
Alignment explanation
Indices: 17861--17922 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
17851 GGCATATGAA
17861 ATTTATCCCGAAGGACCTA-TGT
1 ATTTATCCCGAAGGACCTATTGT
*
17883 ATTTATCCCAAAGGACC-ATTGT
1 ATTTATCCCGAAGGACCTATTGT
* *
17905 ATATGTCCCGAAGGACCT
1 ATTTATCCCGAAGGACCT
17923 CGTAGACCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (23 bp):
ATTTATCCCGAAGGACCTATTGT
Found at i:20562 original size:210 final size:210
Alignment explanation
Indices: 20187--21715 Score: 2482
Period size: 210 Copynumber: 7.3 Consensus size: 210
20177 ATTTAAGAAT
* * *
20187 TAAATTAAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACGCATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACA--CA---A-AAG
* * *
20252 GGATCAAAAT-GAAATAATTTTAAATTGTGAGGTTGAAATTAATTCAAAAAAGTACTAAAGTATA
60 GGATC-AAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATA
* * * *
20316 CCCATTTAAAAA-TATATGGGCCAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCA
124 CCCATTTAAAAAGT-TATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCA
* *
20380 TATCCAAATAAAATTTGGAGGAC
188 GATGCAAATAAAATTTGGAGGAC
20403 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
*
20468 AATCGAAATAATTTTAAATTATGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
66 AATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
* *
20533 AAAAAGTTATGGTCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCATATGCAAA
131 AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
*
20598 TAAAAATTGGAGGAC
196 TAAAATTTGGAGGAC
20613 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
20678 AATCGAAATAATTTTAAATTGTGATGTTGAAATTAATA-AAAAAAGTACTAAATTATACCCATTT
66 AATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
*
20742 AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGCATGGGTCAATTTCAGATGCAAA
131 AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
*
20807 TAAAAATTGGAGGAC
196 TAAAATTTGGAGGAC
*
20822 TAAATTGAACAAATATAAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
* *
20887 AATCGAAACAATTTTAAATTGTGATGTTGAAATTAATACAAAAATGTACTAAATTATACCCATTT
66 AATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
*
20952 AAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
131 AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
*
21017 TAAAAATTGGAGGAC
196 TAAAATTTGGAGGAC
*
21032 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAGCACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
21097 AATCGAAATAATTTTAAATTGTGATGTTGAAATTAATAC-AAAAAGTACTAAATTATACCCATTT
66 AATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
* *
21161 AAAAAGTTATGGACCAATTTAAAAATAG-----A--AATAAGTATGGGTCAATTTTAGATGCAAA
131 AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
21219 TAAAATTTGGAGGAC
196 TAAAATTTGGAGGAC
* *
21234 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAAAAATACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
21299 AATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
66 AATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
*
21364 AACAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
131 AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
*
21429 AAAAATTTGGAGGAC
196 TAAAATTTGGAGGAC
* *
21444 TAAATTGAACAAATATAAAATTACAAATAAAAATTTAAATAAACTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
* * * * * *
21509 AACCGAAATAATTTTAAATTTTGAGGTTGAAATTAATAC--AAAA--A-TGAACTA-ACTCATTT
66 AATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
*
21568 AAAAAGTTATGGG-CAAATTAATAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAA
131 AAAAAGTTATGGGCCAATTTAA-AAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAA
*
21632 ATAAAATGTGGAGGAC
195 ATAAAATTTGGAGGAC
*
21648 TAAATTGAACAAATATGATATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
21713 AAT
66 AAT
21716 ATGAAAAATA
Statistics
Matches: 1245, Mismatches: 56, Indels: 36
0.93 0.04 0.03
Matches are distributed among these distances:
202 143 0.11
203 58 0.05
204 140 0.11
205 5 0.00
206 1 0.00
208 5 0.00
209 258 0.21
210 580 0.47
211 2 0.00
214 2 0.00
216 51 0.04
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.28
Consensus pattern (210 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
AATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
TAAAATTTGGAGGAC
Found at i:20995 original size:419 final size:419
Alignment explanation
Indices: 20187--21715 Score: 2471
Period size: 419 Copynumber: 3.7 Consensus size: 419
20177 ATTTAAGAAT
* * *
20187 TAAATTAAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACGCATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACA--CA---A-AAG
* *
20252 GGATCAAAAT-GAAATAATTTTAAATTGTGAGGTTGAAATTAATTCAAAAAAGTACTAAAGTATA
60 GGATC-AAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAA-TAAAAAAAGTACTAAATTATA
* * * *
20316 CCCATTTAAAAA-TATATGGGCCAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCA
123 CCCATTTAAAAAGT-TATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCA
* * *
20380 TATCCAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAA
187 GATGCAAATAAAAATTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAA
*
20445 ATTAAACAACACAAAAGGGATCAAATCGAAATAATTTTAAATTATGATGTTGAAATTAATACAAA
252 ATTAAACAACACAAAAGGGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAA
*
20510 AAAGTACTAAATTATACCCATTTAAAAAGTTATGGTCCAATTTAAAAATAGAAATAAGTAATAAG
317 AAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAG
*
20575 TATGGGTCAATTTCATATGCAAATAAAAATTGGAGGAC
382 TATGGGTCAATTTCAGATGCAAATAAAAATTGGAGGAC
20613 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
*
20678 AATCGAAATAATTTTAAATTGTGATGTTGAAATTAATAAAAAAAGTACTAAATTATACCCATTTA
66 AATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAAAAAAAGTACTAAATTATACCCATTTA
*
20743 AAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGCATGGGTCAATTTCAGATGCAAAT
131 AAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAAT
*
20808 AAAAATTGGAGGACTAAATTGAACAAATATAAAATTACAAATAAAAATTTAAATAAATTAAACAA
196 AAAAATTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAA
* *
20873 CACAAAAGGGATCAAATCGAAACAATTTTAAATTGTGATGTTGAAATTAATACAAAAATGTACTA
261 CACAAAAGGGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTA
*
20938 AATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCA
326 AATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCA
21003 ATTTCAGATGCAAATAAAAATTGGAGGAC
391 ATTTCAGATGCAAATAAAAATTGGAGGAC
*
21032 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAGCACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
* *
21097 AATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAGTACTAAATTATACCCATTTA
66 AATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAAAAAAAGTACTAAATTATACCCATTTA
* *
21162 AAAAGTTATGGACCAATTTAAAAATAG-----A--AATAAGTATGGGTCAATTTTAGATGCAAAT
131 AAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAAT
* *
21220 AAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAAAAA
196 AAAAATTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAA
*
21285 TACAAAAGGGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTA
261 CACAAAAGGGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTA
*
21350 AATTATACCCATTTAACAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCA
326 AATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCA
21415 ATTTCAGATGCAAA-AAAAATTTGGAGGAC
391 ATTTCAGATGCAAATAAAAA-TTGGAGGAC
* *
21444 TAAATTGAACAAATATAAAATTACAAATAAAAATTTAAATAAACTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
* * * * * *
21509 AACCGAAATAATTTTAAATTTTGAGGTTGAAATTAAT-ACAAAA--A-TGAACTA-ACTCATTTA
66 AATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAAAAAAAGTACTAAATTATACCCATTTA
*
21569 AAAAGTTATGGG-CAAATTAATAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
131 AAAAGTTATGGGCCAATTTAA-AAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
*
21633 T-AAAATGTGGAGGACTAAATTGAACAAATATGATATTACAAATAAAAATTTAAATAAATTAAAC
195 TAAAAAT-TGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAAC
21697 AACACAAAAGGGATCAAAT
259 AACACAAAAGGGATCAAAT
21716 ATGAAAAATA
Statistics
Matches: 1039, Mismatches: 52, Indels: 36
0.92 0.05 0.03
Matches are distributed among these distances:
406 7 0.01
407 25 0.02
408 5 0.00
409 1 0.00
411 9 0.01
412 335 0.32
413 4 0.00
414 103 0.10
419 457 0.44
420 39 0.04
421 1 0.00
424 2 0.00
426 51 0.05
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.28
Consensus pattern (419 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
AATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAAAAAAAGTACTAAATTATACCCATTTA
AAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAAT
AAAAATTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAA
CACAAAAGGGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTA
AATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCA
ATTTCAGATGCAAATAAAAATTGGAGGAC
Found at i:21836 original size:31 final size:31
Alignment explanation
Indices: 21798--21913 Score: 178
Period size: 31 Copynumber: 3.7 Consensus size: 31
21788 GTTGTTTACC
*
21798 TCATTTACAACAACAACAATAAATCAGTACA
1 TCATTTACATCAACAACAATAAATCAGTACA
* * *
21829 TCATTTACACCAACAACAATAAATTAATACA
1 TCATTTACATCAACAACAATAAATCAGTACA
* *
21860 TCATTTACATCAATAGCAATAAATCAGTACA
1 TCATTTACATCAACAACAATAAATCAGTACA
21891 TCATTTACATCAACAACAATAAA
1 TCATTTACATCAACAACAATAAA
21914 CCAGGACGAA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.50, C:0.22, G:0.03, T:0.26
Consensus pattern (31 bp):
TCATTTACATCAACAACAATAAATCAGTACA
Found at i:22277 original size:20 final size:20
Alignment explanation
Indices: 22249--22309 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
22239 TGCTTAATTC
*
22249 TGCTTGCTTCTGTTTTATAT
1 TGCTTGCTTCTGTTTGATAT
*
22269 TGTTTGCTTCTGTTTGATAT
1 TGCTTGCTTCTGTTTGATAT
**
22289 TGCTTGCTTCTACTTGATAT
1 TGCTTGCTTCTGTTTGATAT
22309 T
1 T
22310 TGTAAGGGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.11, C:0.15, G:0.16, T:0.57
Consensus pattern (20 bp):
TGCTTGCTTCTGTTTGATAT
Found at i:23352 original size:16 final size:16
Alignment explanation
Indices: 23333--23375 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
23323 TGAGTCAATT
*
23333 ACAGGTCAGGTTCATA
1 ACAGGTCAGGTTCAAA
*
23349 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTCAAA
*
23365 ACAAGTCAGGT
1 ACAGGTCAGGT
23376 AATACCAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (16 bp):
ACAGGTCAGGTTCAAA
Found at i:26616 original size:13 final size:12
Alignment explanation
Indices: 26553--26711 Score: 85
Period size: 13 Copynumber: 12.3 Consensus size: 12
26543 GAAAAAAAGG
26553 AAAAAT-AATAA
1 AAAAATAAATAA
26564 TAATAAATAAATATA
1 -AA-AAATAAATA-A
26579 AAAACAT-AA-AA
1 AAAA-ATAAATAA
*
26590 AACAATAAAGTAA
1 AAAAATAAA-TAA
26603 AAAAATCAAAT-A
1 AAAAAT-AAATAA
26615 AAAAATCAAATCAA
1 AAAAAT-AAAT-AA
* **
26629 ATCAAATCAAAGGA
1 A-AAAAT-AAATAA
26643 AAAAATAAATAA
1 AAAAATAAATAA
26655 ATAAAA-AAATGAGA
1 A-AAAATAAAT-A-A
*
26669 TAAAATAAAATAA
1 AAAAAT-AAATAA
*
26682 AAACATAAAATAA
1 AAAAAT-AAATAA
26695 AAAAATTAAATAA
1 AAAAA-TAAATAA
26708 AAAA
1 AAAA
26712 GTTAAATTTA
Statistics
Matches: 118, Mismatches: 12, Indels: 33
0.72 0.07 0.20
Matches are distributed among these distances:
10 2 0.02
11 6 0.05
12 24 0.20
13 55 0.47
14 18 0.15
15 13 0.11
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (12 bp):
AAAAATAAATAA
Found at i:26709 original size:18 final size:17
Alignment explanation
Indices: 26553--26709 Score: 83
Period size: 18 Copynumber: 8.8 Consensus size: 17
26543 GAAAAAAAGG
26553 AAAAAT-AATAATAATAA
1 AAAAATAAATAA-AATAA
*
26570 ATAAATATAAA-AACAT-A
1 A-AAA-ATAAATAAAATAA
* *
26587 AAAAA-CAATAAAGTAA
1 AAAAATAAATAAAATAA
26603 AAAAATCAAATAAAAAATCAA
1 AAAAAT-AAAT--AAAAT-AA
* * **
26624 ATCAAATCAAATCAAAGGA
1 A-AAAAT-AAATAAAATAA
26643 AAAAATAAAT-AAATAA
1 AAAAATAAATAAAATAA
*
26659 AAAAATGAGATAAAATAA
1 AAAAAT-AAATAAAATAA
26677 AATAAA-AACATAAAATAA
1 AA-AAATAA-ATAAAATAA
26695 AAAAATTAAATAAAA
1 AAAAA-TAAATAAAA
26710 AAGTTAAATT
Statistics
Matches: 108, Mismatches: 15, Indels: 33
0.69 0.10 0.21
Matches are distributed among these distances:
14 2 0.02
15 4 0.04
16 19 0.18
17 14 0.13
18 37 0.34
19 11 0.10
20 9 0.08
21 3 0.03
22 9 0.08
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAAATAAATAAAATAA
Found at i:26716 original size:13 final size:12
Alignment explanation
Indices: 26602--26718 Score: 58
Period size: 12 Copynumber: 9.0 Consensus size: 12
26592 CAATAAAGTA
*
26602 AAAAAATCAAAT
1 AAAAAATTAAAT
*
26614 AAAAAATCAAAT
1 AAAAAATTAAAT
* *
26626 CAAATCAAATCAAAGG
1 -AAA--AAATTAAA-T
26642 AAAAAA-TAAAT
1 AAAAAATTAAAT
*
26653 AAATAAA-AAAAT
1 AAA-AAATTAAAT
*
26665 GAGATAAAATAAAAT
1 -A-A-AAAATTAAAT
*
26680 AAAAACATAAAAT
1 AAAAA-ATTAAAT
26693 AAAAAAATTAAAT
1 -AAAAAATTAAAT
26706 AAAAAAGTTAAAT
1 AAAAAA-TTAAAT
26719 TTAAAAAGTA
Statistics
Matches: 88, Mismatches: 5, Indels: 23
0.76 0.04 0.20
Matches are distributed among these distances:
11 3 0.03
12 31 0.35
13 27 0.31
14 10 0.11
15 17 0.19
ACGTcount: A:0.73, C:0.05, G:0.04, T:0.18
Consensus pattern (12 bp):
AAAAAATTAAAT
Found at i:26727 original size:14 final size:13
Alignment explanation
Indices: 26676--26718 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
26666 AGATAAAATA
*
26676 AAATAAAAACA-TA
1 AAATAAAAA-AGTT
*
26689 AAATAAAAAAATT
1 AAATAAAAAAGTT
26702 AAATAAAAAAGTT
1 AAATAAAAAAGTT
26715 AAAT
1 AAAT
26719 TTAAAAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 1 0.04
13 26 0.96
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (13 bp):
AAATAAAAAAGTT
Found at i:28038 original size:20 final size:21
Alignment explanation
Indices: 28007--28061 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
27997 AAAAGTAAAA
28007 AAAATAAAAATAAATAATAGT
1 AAAATAAAAATAAATAATAGT
28028 AAAAT-AAAATAAATAATA-T
1 AAAATAAAAATAAATAATAGT
28047 ATAAA-AAAAGATAAA
1 A-AAATAAAA-ATAAA
28062 AAAAAGAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.06
20 19 0.61
21 10 0.32
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (21 bp):
AAAATAAAAATAAATAATAGT
Found at i:28113 original size:38 final size:37
Alignment explanation
Indices: 28071--28470 Score: 316
Period size: 38 Copynumber: 10.7 Consensus size: 37
28061 AAAAAAGAAC
* **
28071 ATTTTAAAAACTATATACTATATATGCTTTTAAAAATT
1 ATTTTAAAAACTATATATTATATATATTTTTAAAAA-T
* * * *
28109 ATTTTCAAAACCATATAATATATATATTTTCAAATAAT
1 ATTTTAAAAACTATATATTATATATATTTTTAAA-AAT
28147 ATTTT-AAAACTATATATTATATATATTTTTAAAAAT
1 ATTTTAAAAACTATATATTATATATATTTTTAAAAAT
* * * * *
28183 GTTTTCAAAA-TCATATA-T-TATATAGTTTTCAAAAC
1 ATTTTAAAAACT-ATATATTATATATATTTTTAAAAAT
*
28218 ATTTTAAAAACTATATATTATATATATTTTTCAAAAT
1 ATTTTAAAAACTATATATTATATATATTTTTAAAAAT
*
28255 ATTTTTAAAAACCATATATTATATATATTTTTAAAATAT
1 A-TTTTAAAAACTATATATTATATATATTTTTAAAA-AT
* *
28294 ATTTTTTAAAAACCATATATTATATATA-TTTTCAAAAT
1 A--TTTTAAAAACTATATATTATATATATTTTTAAAAAT
* * * *
28332 GCA-TTCAAAATCTATAT-TATATATATATATTTCAAAAT
1 --ATTTTAAAAACTATATAT-TATATATATTTTTAAAAAT
* * * * *
28370 GTTTTAAAAAGTATATAATATATATA-TATT-CAAAT
1 ATTTTAAAAACTATATATTATATATATTTTTAAAAAT
* * * * *
28405 GCTTTCAAAAATTATATATTATATATCTATTTCAAAAAT
1 -ATTTTAAAAACTATATATTATATATAT-TTTTAAAAAT
** *
28444 CA-TTTGCAAACTATATAATATATATAT
1 -ATTTTAAAAACTATATATTATATATAT
28471 ATATATATAT
Statistics
Matches: 295, Mismatches: 48, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
35 31 0.11
36 35 0.12
37 88 0.30
38 98 0.33
39 16 0.05
40 27 0.09
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (37 bp):
ATTTTAAAAACTATATATTATATATATTTTTAAAAAT
Found at i:28161 original size:13 final size:12
Alignment explanation
Indices: 28130--28298 Score: 50
Period size: 12 Copynumber: 13.8 Consensus size: 12
28120 CATATAATAT
*
28130 ATATATTTTCAA
1 ATATATTTTAAA
28142 ATAATATTTTAAA
1 AT-ATATTTTAAA
* *
28155 ACTATATATT-AT
1 A-TATATTTTAAA
28167 ATATATTTTTAAA
1 ATATA-TTTTAAA
*
28180 A-ATGTTTTCAAA
1 ATATATTTT-AAA
*
28192 ATCATATATT---
1 AT-ATATTTTAAA
28202 ATATAGTTTTCAAA
1 ATATA-TTTT-AAA
* *
28216 ACAT-TTTAAAA
1 ATATATTTTAAA
* *
28227 ACTATATATT-AT
1 A-TATATTTTAAA
28239 ATATATTTTTCAAA
1 ATATA-TTTT-AAA
28253 ATAT-TTTTAAAA
1 ATATATTTT-AAA
* * *
28265 ACCATATATT-AT
1 A-TATATTTTAAA
28277 ATATATTTTTAAA
1 ATATA-TTTTAAA
28290 ATATATTTT
1 ATATATTTT
28299 TTAAAAACCA
Statistics
Matches: 112, Mismatches: 24, Indels: 42
0.63 0.13 0.24
Matches are distributed among these distances:
9 3 0.03
10 5 0.04
11 19 0.17
12 40 0.36
13 28 0.25
14 17 0.15
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (12 bp):
ATATATTTTAAA
Found at i:28168 original size:37 final size:37
Alignment explanation
Indices: 28071--28470 Score: 331
Period size: 37 Copynumber: 10.7 Consensus size: 37
28061 AAAAAAGAAC
* *
28071 ATTTTAAAAACTATATACTATATATGCTTTT-AAAAATT
1 ATTTTAAAAACTATATATTATATAT-ATTTTCAAAAA-T
* * *
28109 ATTTTCAAAACCATATAATATATATATTTTCAAATAAT
1 ATTTTAAAAACTATATATTATATATATTTTCAAA-AAT
*
28147 ATTTT-AAAACTATATATTATATATATTTTTAAAAAT
1 ATTTTAAAAACTATATATTATATATATTTTCAAAAAT
* * * *
28183 GTTTTCAAAA-TCATATATTATATA-GTTTTC-AAAAC
1 ATTTTAAAAACT-ATATATTATATATATTTTCAAAAAT
28218 ATTTTAAAAACTATATATTATATATATTTTTC-AAAAT
1 ATTTTAAAAACTATATATTATATATA-TTTTCAAAAAT
* *
28255 ATTTTTAAAAACCATATATTATATATATTTTTAAAATAT
1 A-TTTTAAAAACTATATATTATATATATTTTCAAAA-AT
*
28294 ATTTTTTAAAAACCATATATTATATATATTTTC-AAAAT
1 A--TTTTAAAAACTATATATTATATATATTTTCAAAAAT
* *
28332 GCA-TTCAAAATCTATAT-TATATATATATATTTC-AAAAT
1 --ATTTTAAAAACTATATAT-TATATATAT-TTTCAAAAAT
* * * *
28370 GTTTTAAAAAGTATATAATATATATATATTC--AAAT
1 ATTTTAAAAACTATATATTATATATATTTTCAAAAAT
* * * *
28405 GCTTTCAAAAATTATATATTATATATCTATTTCAAAAAT
1 -ATTTTAAAAACTATATATTATATATAT-TTTCAAAAAT
** *
28444 CA-TTTGCAAACTATATAATATATATAT
1 -ATTTTAAAAACTATATATTATATATAT
28471 ATATATATAT
Statistics
Matches: 300, Mismatches: 41, Indels: 42
0.78 0.11 0.11
Matches are distributed among these distances:
35 28 0.09
36 39 0.13
37 102 0.34
38 88 0.29
39 12 0.04
40 31 0.10
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (37 bp):
ATTTTAAAAACTATATATTATATATATTTTCAAAAAT
Found at i:28305 original size:15 final size:15
Alignment explanation
Indices: 28275--28304 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
28265 ACCATATATT
28275 ATATATATTTTTAAA
1 ATATATATTTTTAAA
28290 ATATAT-TTTTTAAA
1 ATATATATTTTTAAA
28304 A
1 A
28305 ACCATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATATATTTTTAAA
Found at i:28422 original size:150 final size:147
Alignment explanation
Indices: 28068--28470 Score: 415
Period size: 150 Copynumber: 2.7 Consensus size: 147
28058 TAAAAAAAAG
* * * * *
28068 AACATTTTAAAAACTATATACTATATATGCTT-TTAAAAATTATTTTC-AAAACCATATAATATA
1 AACATTTTAAAAACTATATAATATATAT-ATTATTCAAAA-TACTTTCAAAAACCATATATTATA
* * **
28131 TATATTTTCAAATAATATTTTAAAACTATATATTATATATATTTTTAAAAATGTTTTCAAAATCA
64 TATATTTTAAAATAATATTTTAAAACCATATATTATATATATTTTTAAAAATGCATTCAAAATCA
28196 TATATTATATAGTTTTCAA
129 TATATTATATAGTTTTCAA
* * * *
28215 AACATTTTAAAAACTATATATTATATATATTTTTCAAAATATTTTTAAAAACCATATATTATATA
1 AACATTTTAAAAACTATATAATATATATATTATTCAAAATACTTTCAAAAACCATATATTATATA
* *
28280 TATTTTTAAAATATATTTTTTAAAAACCATATATTATATATA-TTTTCAAAATGCATTCAAAATC
66 TA-TTTTAAAATA-ATATTTT-AAAACCATATATTATATATATTTTTAAAAATGCATTCAAAATC
28344 TATATTATATATATA-TATTTCAA
128 -ATA-TAT-TATATAGT-TTTCAA
** * * **
28367 AATGTTTTAAAAAGTATATAATATATATA-TATTC-AAATGCTTTCAAAAATTATATATTATATA
1 AACATTTTAAAAACTATATAATATATATATTATTCAAAATACTTTCAAAAACCATATATTATATA
* * ** * *
28430 TCTATTTCAAA-AATCATTTGCAAACTATATAATATATATAT
66 TAT-TTTAAAATAAT-ATTTTAAAACCATATATTATATATAT
28471 ATATATATAT
Statistics
Matches: 216, Mismatches: 28, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
146 8 0.04
147 52 0.24
148 28 0.13
149 30 0.14
150 53 0.25
151 8 0.04
152 37 0.17
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (147 bp):
AACATTTTAAAAACTATATAATATATATATTATTCAAAATACTTTCAAAAACCATATATTATATA
TATTTTAAAATAATATTTTAAAACCATATATTATATATATTTTTAAAAATGCATTCAAAATCATA
TATTATATAGTTTTCAA
Found at i:28466 original size:2 final size:2
Alignment explanation
Indices: 28455--28495 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
28445 ATTTGCAAAC
*
28455 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
28496 AAATAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:28503 original size:5 final size:5
Alignment explanation
Indices: 28493--28538 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
28483 ATATATACAT
28493 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
28539 AAGTATACGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:31305 original size:21 final size:20
Alignment explanation
Indices: 31219--31376 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
31209 AAATGACCAA
**
31219 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
31238 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
31258 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
31278 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
31299 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
31320 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
31340 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
31361 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
31377 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:31408 original size:20 final size:20
Alignment explanation
Indices: 31343--31592 Score: 229
Period size: 20 Copynumber: 12.5 Consensus size: 20
31333 CGATTTTCCA
* ** *
31343 AAATCGCAACGCGAATATGA
1 AAATCGCAACGTGAATCCGT
* *
31363 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGTGAATC-CGT
*
31383 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
31403 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
31423 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
31443 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
31463 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
31483 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
31503 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
31523 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
31543 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
31563 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
*
31583 AAATCACAAC
1 AAATCGCAAC
31593 ACTGAAATTT
Statistics
Matches: 195, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
20 194 0.99
21 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGTGAATCCGT
Found at i:32510 original size:12 final size:12
Alignment explanation
Indices: 32493--32517 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32483 ATATAATCCT
32493 GAAGAAGAAAAA
1 GAAGAAGAAAAA
32505 GAAGAAGAAAAA
1 GAAGAAGAAAAA
32517 G
1 G
32518 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:34885 original size:19 final size:19
Alignment explanation
Indices: 34845--34942 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
34835 GATTCTCTCG
34845 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
34865 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
34884 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
34898 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
34917 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
34936 TTGCGAT
1 TTGCGAT
34943 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:34939 original size:52 final size:53
Alignment explanation
Indices: 34826--34942 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
34816 GAAATGAAAA
34826 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
34879 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
34931 TCGCATTGCGAT
1 TCGCATTGCGAT
34943 AGTCAATTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:35068 original size:14 final size:14
Alignment explanation
Indices: 35049--35085 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
35039 CATCAATTAC
35049 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
35063 ACAAATCATCTTTT
1 ACAAATCAACTTTT
35077 ACAAATCAA
1 ACAAATCAA
35086 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:37080 original size:14 final size:14
Alignment explanation
Indices: 37061--37117 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
37051 GCGAAATGAA
*
37061 AATCGCAACGACAG
1 AATCGCAACGAAAG
37075 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
37092 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
37108 AATCGCAACG
1 AATCGCAACG
37118 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:37088 original size:33 final size:33
Alignment explanation
Indices: 37042--37134 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
37032 GCGAAACCAA
*
37042 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
37075 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
37108 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
37135 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:37099 original size:19 final size:19
Alignment explanation
Indices: 37005--37139 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
36995 ATAGTTACTT
* *
37005 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
37025 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
37044 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
37063 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
37077 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
37096 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
37110 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
37129 TCGCAATGCGA
1 TCGCAACGCGA
37140 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:37157 original size:19 final size:19
Alignment explanation
Indices: 37135--37263 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
37125 AAAATCGCAA
37135 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
37154 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
*
37168 TGCGATTTTGATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
37187 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
37201 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
37220 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
37239 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
37259 TGCGA
1 TGCGA
37264 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 22 0.25
16 2 0.02
17 2 0.02
18 1 0.01
19 48 0.55
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:37177 original size:33 final size:33
Alignment explanation
Indices: 37135--37226 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
37125 AAAATCGCAA
*
37135 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGATTTCGCGTTGCGATTC-TGTCGT
37168 TGCGATTTTGATTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGATTTCGCGTTGCGATTCTGTCGT
*
37201 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGATTTCGCGTTGCGATT
37227 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGATTTCGCGTTGCGATTCTGTCGT
Found at i:37466 original size:93 final size:93
Alignment explanation
Indices: 37307--37685 Score: 726
Period size: 93 Copynumber: 4.1 Consensus size: 93
37297 TTGAATGGAT
37307 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
37372 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
37400 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
37465 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
37493 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT--CAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
37556 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
37584 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
37649 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
37677 AAATTTACT
1 AAATTTACT
37686 AAGCAATCTA
Statistics
Matches: 281, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
91 90 0.32
93 191 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:37618 original size:184 final size:185
Alignment explanation
Indices: 37307--37685 Score: 724
Period size: 184 Copynumber: 2.0 Consensus size: 185
37297 TTGAATGGAT
37307 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT-ACAGTGTTAAAGAATACAC
37372 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
65 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
37437 TACTATTTCACAGTGTTATAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
130 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
37493 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT-CAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTACAGTGTTAAAGAATACACA
37557 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
66 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
*
37622 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
37677 AAATTTACT
1 AAATTTACT
37686 AAGCAATCTA
Statistics
Matches: 191, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 146 0.76
186 45 0.24
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:39404 original size:14 final size:14
Alignment explanation
Indices: 39385--39474 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
39375 GTTGAAATGA
39385 AATCGCAACGAGAG
1 AATCGCAACGAGAG
39399 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
39416 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
39432 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
39451 AATCGCAACGAGAG
1 AATCGCAACGAGAG
39465 AATCGCAACG
1 AATCGCAACG
39475 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:39422 original size:33 final size:33
Alignment explanation
Indices: 39378--39491 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
39368 TCTTTTGGTT
39378 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
39410 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
39443 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
39476 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
39492 TGCGATTTTG
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 5 0.06
33 72 0.94
ACGTcount: A:0.45, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:39423 original size:19 final size:18
Alignment explanation
Indices: 39381--39496 Score: 94
Period size: 19 Copynumber: 6.9 Consensus size: 18
39371 TTTGGTTGAA
39381 ATGAAATCGCAA--CGAG
1 ATGAAATCGCAACGCGAG
39397 A-G-AATCGCAACGCGAG
1 ATGAAATCGCAACGCGAG
39413 ATGACAATCGCAA--CGAG
1 ATGA-AATCGCAACGCGAG
*
39430 A-G-AATCGCAACGCGAA
1 ATGAAATCGCAACGCGAG
39446 ATGAAAATCGCAA--CGAG
1 ATG-AAATCGCAACGCGAG
*
39463 A-G-AATCGCAACGCGAA
1 ATGAAATCGCAACGCGAG
*
39479 ATGAAAATCGCAATGCGA
1 ATG-AAATCGCAACGCGA
39497 TTTTGGTTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 27
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
15 1 0.01
16 16 0.20
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
ATGAAATCGCAACGCGAG
Found at i:39527 original size:14 final size:14
Alignment explanation
Indices: 39508--39561 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
39498 TTTGGTTTCG
39508 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
39522 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
39541 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
39555 CGTTGCG
1 CGTTGCG
39562 CTTTTCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
16 3 0.09
17 3 0.09
19 10 0.30
ACGTcount: A:0.07, C:0.26, G:0.24, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:39540 original size:33 final size:33
Alignment explanation
Indices: 39492--39572 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
39482 AAAATCGCAA
**
39492 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
39525 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
39558 TGCGCTTTTCATTTC
1 TGCGATTTTCATTTC
39573 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.07, C:0.23, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:39608 original size:41 final size:41
Alignment explanation
Indices: 39548--39625 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
39538 TCGCGTTGCG
* *
39548 ATTCTCTCGTTGCGCTTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
39589 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
39626 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:39624 original size:21 final size:21
Alignment explanation
Indices: 39549--39624 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
39539 CGCGTTGCGA
*
39549 TTCTCTCGTTGCGCTTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
39570 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
39590 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
39611 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
39625 CTCTTCTGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.37
21 29 0.63
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:39751 original size:33 final size:33
Alignment explanation
Indices: 39704--39774 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
39694 AATACTAACT
* *
39704 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
39737 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
39770 TGAAA
1 TGAAA
39775 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:40181 original size:20 final size:20
Alignment explanation
Indices: 40156--40349 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
40146 CTTTAAATAT
40156 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
40176 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
40198 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
40217 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
40237 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
40257 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
40277 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
40297 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
40317 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
40337 CGCGTTGCGATTT
1 CGCGTTGCGATTT
40350 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:40343 original size:60 final size:60
Alignment explanation
Indices: 40156--40349 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
40146 CTTTAAATAT
**
40156 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
40217 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
40277 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
40337 CGCGTTGCGATTT
1 CGCGTTGCGATTT
40350 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:40350 original size:20 final size:20
Alignment explanation
Indices: 40297--40391 Score: 102
Period size: 20 Copynumber: 4.7 Consensus size: 20
40287 TTTACGGATA
* *
40297 CGCGTTGCGATTTAT-GTGTT
1 CGCGTTGCGATTT-TCATATT
40317 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
* * *
40337 CGCGTTGCGATTTTGGAAAAT
1 CGCGTTGCGATTTT-CATATT
**
40358 CGCAATGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
40378 CGCGTTGCGATTTT
1 CGCGTTGCGATTTT
40392 GGAAAATCGC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
19 1 0.02
20 45 0.74
21 15 0.25
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.41
Consensus pattern (20 bp):
CGCGTTGCGATTTTCATATT
Found at i:40366 original size:21 final size:21
Alignment explanation
Indices: 40336--40459 Score: 108
Period size: 21 Copynumber: 6.0 Consensus size: 21
40326 ATTTTCATAT
*
40336 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * *
40357 TCGCAATGCGATTTT-CATAT
1 TCGCATTGCGATTTTGGAAAA
*
40377 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
40398 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
40419 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
40440 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
40460 CTGATTTGCG
Statistics
Matches: 77, Mismatches: 23, Indels: 6
0.73 0.22 0.06
Matches are distributed among these distances:
20 16 0.21
21 59 0.77
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:40375 original size:41 final size:41
Alignment explanation
Indices: 40322--40433 Score: 174
Period size: 41 Copynumber: 2.7 Consensus size: 41
40312 GTGTTCGCGT
40322 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
1 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
40363 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
1 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
*
40404 TGCGAATTTGT-ACTA-TCGCATTGCGATTTT
1 TGCG-ATTT-TCA-TATTCGCGTTGCGATTTT
40434 CAAGAATCGC
Statistics
Matches: 67, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
41 45 0.67
42 19 0.28
43 3 0.04
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (41 bp):
TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
Found at i:47623 original size:68 final size:68
Alignment explanation
Indices: 47514--47662 Score: 253
Period size: 68 Copynumber: 2.2 Consensus size: 68
47504 TATAGATCCA
* * *
47514 TTTTTCTTCTTCTTAACAGAACTTCCAGCATCATTACTACTCATTTTCTTATTTTCCATGGCATT
1 TTTTTCTTCCTCCTAACAGAACTTCCAGCATCATTACTACTCATTTTCTTATTTTCCACGGCATT
47579 ACC
66 ACC
47582 TTTTTCTTCCTCCTAACAGAACTTCCAGCATCATTACTACTCATTTTCTTATTTTCCACGGCATT
1 TTTTTCTTCCTCCTAACAGAACTTCCAGCATCATTACTACTCATTTTCTTATTTTCCACGGCATT
*
47647 TCC
66 ACC
*
47650 ATTTTCTTCCTCC
1 TTTTTCTTCCTCC
47663 ATTAGCTCTT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 76 1.00
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (68 bp):
TTTTTCTTCCTCCTAACAGAACTTCCAGCATCATTACTACTCATTTTCTTATTTTCCACGGCATT
ACC
Found at i:48604 original size:22 final size:23
Alignment explanation
Indices: 48576--48638 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
48566 AGCTCGTATA
48576 AATTGCACTGAAGTGCCAC-TAG
1 AATTGCACTGAAGTGCCACGTAG
** *
48598 AATTGCACCAAAGTGCCGCGTAG
1 AATTGCACTGAAGTGCCACGTAG
*
48621 AATTGCACTGTAGTGCCA
1 AATTGCACTGAAGTGCCA
48639 TATAAAATTG
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 16 0.48
23 17 0.52
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (23 bp):
AATTGCACTGAAGTGCCACGTAG
Found at i:48625 original size:23 final size:22
Alignment explanation
Indices: 48576--48628 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
48566 AGCTCGTATA
**
48576 AATTGCACTGAAGTGCCACTAG
1 AATTGCACCAAAGTGCCACTAG
*
48598 AATTGCACCAAAGTGCCGCGTAG
1 AATTGCACCAAAGTGCCAC-TAG
48621 AATTGCAC
1 AATTGCAC
48629 TGTAGTGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.21
Consensus pattern (22 bp):
AATTGCACCAAAGTGCCACTAG
Found at i:57776 original size:23 final size:23
Alignment explanation
Indices: 57750--57852 Score: 107
Period size: 23 Copynumber: 4.5 Consensus size: 23
57740 TATTCGTGTT
57750 TATTTGTTTAACATTCACAAACA
1 TATTTGTTTAACATTCACAAACA
* * *
57773 TATTCGTTTAATATTCATAAACA
1 TATTTGTTTAACATTCACAAACA
* ***
57796 TGTTTGTTTAACATTCGTTAACA
1 TATTTGTTTAACATTCACAAACA
** *
57819 TATTCATTTAACATTCGCAAACA
1 TATTTGTTTAACATTCACAAACA
*
57842 TGTTTGTTTAA
1 TATTTGTTTAA
57853 TGTTTAACAA
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.44
Consensus pattern (23 bp):
TATTTGTTTAACATTCACAAACA
Found at i:57803 original size:46 final size:46
Alignment explanation
Indices: 57752--57852 Score: 139
Period size: 46 Copynumber: 2.2 Consensus size: 46
57742 TTCGTGTTTA
* * *
57752 TTTGTTTAACATTCACAAACATATTCGTTTAATATTCATAAACATG
1 TTTGTTTAACATTCACAAACATATTCATTTAACATTCACAAACATG
*** *
57798 TTTGTTTAACATTCGTTAACATATTCATTTAACATTCGCAAACATG
1 TTTGTTTAACATTCACAAACATATTCATTTAACATTCACAAACATG
57844 TTTGTTTAA
1 TTTGTTTAA
57853 TGTTTAACAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.44
Consensus pattern (46 bp):
TTTGTTTAACATTCACAAACATATTCATTTAACATTCACAAACATG
Found at i:61431 original size:3 final size:3
Alignment explanation
Indices: 61417--61447 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
61407 GTCCCTCTGA
61417 ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
61448 GATATGGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:62937 original size:30 final size:29
Alignment explanation
Indices: 62889--62984 Score: 72
Period size: 30 Copynumber: 3.3 Consensus size: 29
62879 ATAGTTTTTA
* * *
62889 TATTTTATAGTAATATAATTATATAAATAT
1 TATTTTTTATTAAAATAATTAT-TAAATAT
*
62919 TATTTTTTATTAAAATAA-TATTTATATATT
1 TATTTTTTATTAAAATAATTA-TTAAATA-T
* * *
62949 TATTATTTATTTAAAT--TTATTAATTAAT
1 TATTTTTTATTAAAATAATTATTAAAT-AT
62977 TATTTTTT
1 TATTTTTT
62985 GTGCTAATTA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
28 12 0.23
29 10 0.19
30 31 0.58
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (29 bp):
TATTTTTTATTAAAATAATTATTAAATAT
Found at i:65376 original size:34 final size:34
Alignment explanation
Indices: 65333--65405 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
65323 TTAAATGTTT
*
65333 TTAATATACAAATTATAGTATTCGAAATTTAAAA
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
* *
65367 TTAAAATACAAATTATGGTATTCGAAATTTAACA
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
65401 TTAAA
1 TTAAA
65406 TTTAACTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (34 bp):
TTAAAATACAAATTATAGTATTCGAAATTTAAAA
Found at i:65713 original size:63 final size:63
Alignment explanation
Indices: 65609--65736 Score: 222
Period size: 63 Copynumber: 2.0 Consensus size: 63
65599 TTTCAATGTC
65609 ACAACCAACTTATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATATATTCAA
1 ACAACCAACTTATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATATATTCAA
* *
65672 ACAACCAA-TTGATCACTTCACATTTATTCAATTTATTCATAACATTTTATCCAATTTATTCAA
1 ACAACCAACTT-ATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATATATTCAA
65735 AC
1 AC
65737 TTCGCATAAC
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
62 2 0.03
63 60 0.97
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.39
Consensus pattern (63 bp):
ACAACCAACTTATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATATATTCAA
Found at i:65731 original size:23 final size:22
Alignment explanation
Indices: 65628--65733 Score: 80
Period size: 23 Copynumber: 4.9 Consensus size: 22
65618 TTATCACTTC
* *
65628 ACATTTATTCAATTTATCCATA
1 ACATTTATCCAATTTATTCATA
*
65650 ACATTTTATCCAATATATTCA-A
1 ACA-TTTATCCAATTTATTCATA
* *
65672 ACA---A-CCAATTGA-TCACTTC
1 ACATTTATCCAATTTATTCA--TA
*
65691 ACATTTATTCAATTTATTCATA
1 ACATTTATCCAATTTATTCATA
65713 ACATTTTATCCAATTTATTCA
1 ACA-TTTATCCAATTTATTCA
65734 AACTTCGCAT
Statistics
Matches: 64, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
16 3 0.05
17 6 0.09
18 1 0.02
19 3 0.05
22 12 0.19
23 36 0.56
24 3 0.05
ACGTcount: A:0.37, C:0.20, G:0.01, T:0.42
Consensus pattern (22 bp):
ACATTTATCCAATTTATTCATA
Found at i:66096 original size:16 final size:16
Alignment explanation
Indices: 66077--66107 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
66067 ATGGAAGGAG
66077 CACCCCCGGGAACGCA
1 CACCCCCGGGAACGCA
66093 CACCCCCGGGAACGC
1 CACCCCCGGGAACGC
66108 GCTTTCACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.52, G:0.26, T:0.00
Consensus pattern (16 bp):
CACCCCCGGGAACGCA
Found at i:66225 original size:154 final size:148
Alignment explanation
Indices: 65945--66382 Score: 590
Period size: 139 Copynumber: 3.0 Consensus size: 148
65935 GGTGCGCCCT
* *
65945 CGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTAAAAAATAATAGGTATTGACATGAATAGTT
1 CGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTAAGAAATAATAGGTACTGACATGAATAGTT
66010 CTCTGGGGGACATGAGTGACATAAT-AGGACAATGATAACATATTCTCTGAAAAAATAATGGAAG
66 CTCTGGGGGACATGAGTGACATAATAAGG-CAATGATAACATATTCTCTGAAAAAATAATGGAAG
66074 GAGCACCCCCGGGAACGCACACCCC
130 G-GC-CCCCC-GGAAC-C-C-CCCC
*
66099 CGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTT
1 CGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTAAGAAATAATAGGTACTGACATGAATAGTT
* *
66164 ATCTGGGGGACATGAGTGACATAATAAGGCAATGATAACATATTCTCTGACAAAATAATGGAA-G
66 CTCTGGGGGACATGAGTGACATAATAAGGCAATGATAACATATTCTCTGAAAAAATAATGGAAGG
66228 G-----C-G--CCCCCCC
131 GCCCCCCGGAACCCCCCC
* * * * *
66238 TGAGAACGCACTTTCACCACTTTGCCAAGTCCCCTTAGAAATAATAGGTACTAACATGAATAGTT
1 CGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTAAGAAATAATAGGTACTGACATGAATAGTT
* * * *
66303 CTCCGGGGGACAAGAGTGACATAATAGGGCAATGATAACATATTATCTGAAAAAATAATGGAAGG
66 CTCTGGGGGACATGAGTGACATAATAAGGCAATGATAACATATTCTCTGAAAAAATAATGGAAGG
66368 CGCGCCCCCAGGAAC
131 -GC-CCCCC-GGAAC
66383 ACACCTTCAC
Statistics
Matches: 255, Mismatches: 16, Indels: 29
0.85 0.05 0.10
Matches are distributed among these distances:
139 121 0.47
140 2 0.01
141 2 0.01
142 1 0.00
144 1 0.00
146 1 0.00
147 1 0.00
149 1 0.00
151 1 0.00
152 1 0.00
153 1 0.00
154 119 0.47
155 3 0.01
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (148 bp):
CGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTAAGAAATAATAGGTACTGACATGAATAGTT
CTCTGGGGGACATGAGTGACATAATAAGGCAATGATAACATATTCTCTGAAAAAATAATGGAAGG
GCCCCCCGGAACCCCCCC
Found at i:69564 original size:21 final size:21
Alignment explanation
Indices: 69538--69579 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
69528 AATAATTAAT
*
69538 ATTATTTATTATAAAAAATTA
1 ATTATTAATTATAAAAAATTA
* *
69559 ATTATTAATTTTAAAATATTA
1 ATTATTAATTATAAAAAATTA
69580 TAATAATTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTATTAATTATAAAAAATTA
Found at i:74345 original size:31 final size:31
Alignment explanation
Indices: 74309--74367 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
74299 AACTTAAAAG
74309 AGTTTTACAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
74340 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
74368 CCATACAACT
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:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:75720 original size:30 final size:29
Alignment explanation
Indices: 75686--75849 Score: 187
Period size: 30 Copynumber: 5.7 Consensus size: 29
75676 TAACTTTAAT
75686 ACAAACCATATAATATTTCTAACATAGACC
1 ACAAACCATATAATATTTCTAACATA-ACC
* * *
75716 ACAAACCATAAAATGTTT-TGAACAT--CG
1 ACAAACCATATAATATTTCT-AACATAACC
*
75743 ACAAACCATATAATATTTCTAACATAAACT
1 ACAAACCATATAATATTTCTAACAT-AACC
* *
75773 ACAAACCATATAATGTTT-TGAACAT--CG
1 ACAAACCATATAATATTTCT-AACATAACC
75800 ACAAACCATATAATATTTCTAACATAGACC
1 ACAAACCATATAATATTTCTAACATA-ACC
75830 ACAAACCATATAATATTTCT
1 ACAAACCATATAATATTTCT
75850 TATATAATCA
Statistics
Matches: 114, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
27 45 0.39
28 2 0.02
29 2 0.02
30 65 0.57
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.29
Consensus pattern (29 bp):
ACAAACCATATAATATTTCTAACATAACC
Found at i:75840 original size:57 final size:57
Alignment explanation
Indices: 75686--75843 Score: 289
Period size: 57 Copynumber: 2.8 Consensus size: 57
75676 TAACTTTAAT
*
75686 ACAAACCATATAATATTTCTAACATAGACCACAAACCATAAAATGTTTTGAACATCG
1 ACAAACCATATAATATTTCTAACATAGACCACAAACCATATAATGTTTTGAACATCG
* *
75743 ACAAACCATATAATATTTCTAACATAAACTACAAACCATATAATGTTTTGAACATCG
1 ACAAACCATATAATATTTCTAACATAGACCACAAACCATATAATGTTTTGAACATCG
75800 ACAAACCATATAATATTTCTAACATAGACCACAAACCATATAAT
1 ACAAACCATATAATATTTCTAACATAGACCACAAACCATATAAT
75844 ATTTCTTATA
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 96 1.00
ACGTcount: A:0.47, C:0.21, G:0.05, T:0.27
Consensus pattern (57 bp):
ACAAACCATATAATATTTCTAACATAGACCACAAACCATATAATGTTTTGAACATCG
Found at i:76960 original size:22 final size:22
Alignment explanation
Indices: 76907--76997 Score: 143
Period size: 22 Copynumber: 4.3 Consensus size: 22
76897 CACACAAATC
*
76907 AACATAC--ACAGCAAATACAT
1 AACATACAAACAGCAAATTCAT
76927 AACAT-CAAACAGCAAATTCAT
1 AACATACAAACAGCAAATTCAT
76948 AACATACAAACAGCAAATTCAT
1 AACATACAAACAGCAAATTCAT
*
76970 AACATACAAACAACAAATTCAT
1 AACATACAAACAGCAAATTCAT
76992 AACATA
1 AACATA
76998 TATACATATA
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
19 1 0.02
20 5 0.08
21 17 0.26
22 43 0.65
ACGTcount: A:0.56, C:0.23, G:0.03, T:0.18
Consensus pattern (22 bp):
AACATACAAACAGCAAATTCAT
Found at i:77031 original size:32 final size:32
Alignment explanation
Indices: 76973--77039 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
76963 AATTCATAAC
*
76973 ATACAAACAACAAATTCATAACATATATACAT
1 ATACAAACAACAAATACATAACATATATACAT
* *
77005 ATACAAACAACAAATACA-ATATATATATATAT
1 ATACAAACAACAAATACATA-ACATATATACAT
77037 ATA
1 ATA
77040 ATAGCCTAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 1 0.03
32 30 0.97
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (32 bp):
ATACAAACAACAAATACATAACATATATACAT
Found at i:77364 original size:30 final size:29
Alignment explanation
Indices: 77318--77375 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
77308 GAACACAAGC
77318 TCTGCAGCAAGGGGGAACAACGATCGAGG
1 TCTGCAGCAAGGGGGAACAACGATCGAGG
* *
77347 TCTGCAGCGATGGGGGAACAGCGATCGAG
1 TCTGCAGC-AAGGGGGAACAACGATCGAG
77376 TGGGGAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.28, C:0.21, G:0.40, T:0.12
Consensus pattern (29 bp):
TCTGCAGCAAGGGGGAACAACGATCGAGG
Found at i:80014 original size:23 final size:23
Alignment explanation
Indices: 79949--80015 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
79939 CACCACAGCT
* *
79949 CGTATAAATGCACCGAAGTACCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * * *
79972 CGTAGAATTACATCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
79995 CGTAGAAATGCACCGAAGTGC
1 CGTAGAAATGCACCGAAGTGC
80016 TATATAATAA
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:81417 original size:21 final size:20
Alignment explanation
Indices: 81387--81430 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
81377 TTTTGTTCGT
* *
81387 TTGAAGGGTATCGGTTCCCC
1 TTGAAGGGTACCGATTCCCC
81407 TTGAATGGGTACCGATTCCCC
1 TTGAA-GGGTACCGATTCCCC
81428 TTG
1 TTG
81431 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGAAGGGTACCGATTCCCC
Found at i:85200 original size:2 final size:2
Alignment explanation
Indices: 85193--85232 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
85183 GTTTTACACA
85193 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85233 GAGATATGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88937 original size:7 final size:7
Alignment explanation
Indices: 88925--88949 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
88915 AACCAGAAAA
88925 CCATTAG
1 CCATTAG
88932 CCATTAG
1 CCATTAG
88939 CCATTAG
1 CCATTAG
88946 CCAT
1 CCAT
88950 CAGCTATCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (7 bp):
CCATTAG
Found at i:92722 original size:16 final size:16
Alignment explanation
Indices: 92701--92788 Score: 90
Period size: 16 Copynumber: 5.5 Consensus size: 16
92691 GTAAATTAAA
92701 TTCGGGTTGCA-TTCGG
1 TTCGGGTTG-ATTTCGG
**
92717 TTCGGGTTGCATTTCAA
1 TTCGGGTTG-ATTTCGG
*
92734 TTCGGGTTGATTTCAG
1 TTCGGGTTGATTTCGG
*
92750 TTCGGGTTGATTTTGG
1 TTCGGGTTGATTTCGG
* *
92766 TTCGAGTTG-TTTTGG
1 TTCGGGTTGATTTCGG
92781 TTCGGGTT
1 TTCGGGTT
92789 ACTTTTGGTT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
15 13 0.20
16 39 0.61
17 12 0.19
ACGTcount: A:0.09, C:0.12, G:0.33, T:0.45
Consensus pattern (16 bp):
TTCGGGTTGATTTCGG
Found at i:92737 original size:33 final size:32
Alignment explanation
Indices: 92699--92762 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
92689 GGGTAAATTA
*
92699 AATTCGGGTTGCA-TTCGGTTCGGGTTGCATTTC
1 AATTCGGGTTG-ATTTCAGTTCGGGTTG-ATTTC
92732 AATTCGGGTTGATTTCAGTTCGGGTTGATTT
1 AATTCGGGTTGATTTCAGTTCGGGTTGATTT
92763 TGGTTCGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.14, C:0.14, G:0.30, T:0.42
Consensus pattern (32 bp):
AATTCGGGTTGATTTCAGTTCGGGTTGATTTC
Found at i:92796 original size:16 final size:15
Alignment explanation
Indices: 92734--92799 Score: 69
Period size: 16 Copynumber: 4.2 Consensus size: 15
92724 TGCATTTCAA
**
92734 TTCGGGTTGATTTCAG
1 TTCGGGTT-ATTTTGG
92750 TTCGGGTTGATTTTGG
1 TTCGGGTT-ATTTTGG
* *
92766 TTCGAGTTGTTTTGG
1 TTCGGGTTATTTTGG
92781 TTCGGGTTACTTTTGG
1 TTCGGGTTA-TTTTGG
92797 TTC
1 TTC
92800 AACTAAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
15 13 0.30
16 30 0.70
ACGTcount: A:0.08, C:0.11, G:0.32, T:0.50
Consensus pattern (15 bp):
TTCGGGTTATTTTGG
Found at i:93287 original size:23 final size:24
Alignment explanation
Indices: 93276--93331 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 24
93266 TAAAATTTTT
93276 AAATTTCAAAAAAAAAATATATTA
1 AAATTTCAAAAAAAAAATATATTA
93300 AAATTTCAAAAAAATTAAAATATATTA
1 AAATTTC-AAAAAA--AAAATATATTA
93327 AAATT
1 AAATT
93332 ATTTTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 7 0.24
25 6 0.21
27 16 0.55
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (24 bp):
AAATTTCAAAAAAAAAATATATTA
Found at i:93663 original size:2 final size:2
Alignment explanation
Indices: 93651--93691 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
93641 TTTTTATAAA
* *
93651 AT AT AT A- AT AT AT AT AG AT AT AT CT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93691 A
1 A
93692 GTTGATAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:93905 original size:120 final size:120
Alignment explanation
Indices: 93708--94181 Score: 727
Period size: 119 Copynumber: 4.0 Consensus size: 120
93698 AACAAATTTA
* *
93708 TTCATCAAGTAACCATGAACGACTTAAGAAAACACTTTAGACATCCATAATTCATTTGTCTAATG
1 TTCACCAAGTAACCATGAACGAC-TGAGAAAACACTTTAGACATCCATAATTCATTTGTCTAATG
93773 ATCATGAGTGATAATATAACCATGTACGAACAAGATCTATTGAT-AAAA-AACAAG
65 ATCATGAGTGATAATATAACCATGTACGAACAAGATCTATTGATAAAAAGAACAAG
*
93827 TTCATCAAGTAACCATGAACGACTCGAGGAAAACACTTTAGACATCCATAATTCATTTGTCTAAT
1 TTCACCAAGTAACCATGAACGACT-GA-GAAAACACTTTAGACATCCATAATTCATTTGTCTAAT
93892 GATCATGAGTGAT-A-ATAACCATGTACGAACAAGATCTATT-ATAAAAAGAACAAG
64 GATCATGAGTGATAATATAACCATGTACGAACAAGATCTATTGATAAAAAGAACAAG
* * *
93946 TTCACCATGTAACCATGAACGACT-AGAGAACACTTTAGACATCCATAATTCATTTATCTAATGA
1 TTCACCAAGTAACCATGAACGACTGAGAAAACACTTTAGACATCCATAATTCATTTGTCTAATGA
94010 TCATGAGTGATAATATAACCATGTACGAACAAGATCTATTGATAAAAAGAACAAG
66 TCATGAGTGATAATATAACCATGTACGAACAAGATCTATTGATAAAAAGAACAAG
* * **
94065 TTCACCAAGTAACCATGAACGACTCGAGAAAACACTTCA-ACCATTCATAATTCATTTGAAT-AT
1 TTCACCAAGTAACCATGAACGACT-GAGAAAACACTTTAGA-CATCCATAATTCATTTGTCTAAT
*
94128 GATCATGATTGATAATATAACCATGTACGAAC-A-ATCTATTGATAAAAA-AACAAG
64 GATCATGAGTGATAATATAACCATGTACGAACAAGATCTATTGATAAAAAGAACAAG
94182 GTGCGAACAT
Statistics
Matches: 332, Mismatches: 13, Indels: 22
0.90 0.04 0.06
Matches are distributed among these distances:
116 48 0.14
117 10 0.03
118 72 0.22
119 91 0.27
120 84 0.25
121 27 0.08
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.27
Consensus pattern (120 bp):
TTCACCAAGTAACCATGAACGACTGAGAAAACACTTTAGACATCCATAATTCATTTGTCTAATGA
TCATGAGTGATAATATAACCATGTACGAACAAGATCTATTGATAAAAAGAACAAG
Found at i:94132 original size:236 final size:238
Alignment explanation
Indices: 93716--94181 Score: 750
Period size: 236 Copynumber: 2.0 Consensus size: 238
93706 TATTCATCAA
*
93716 GTAACCATGAACGACTTAAGAAAACACTTTAGACATCCATAATTCATTTGTCTAATGATCATGAG
1 GTAACCATGAACGACTTAAGAAAACACTTTAGACATCCATAATTCATTTATCTAATGATCATGAG
*
93781 TGATAATATAACCATGTACGAACAAGATCTATTGATAAAAAACAAGTTCATCAAGTAACCATGAA
66 TGATAATATAACCATGTACGAACAAGATCTATTGATAAAAAACAAGTTCACCAAGTAACCATGAA
* **
93846 CGACTCGAGGAAAACACTTTAGACATCCATAATTCATTTGTCTAATGATCATGAGTGAT-A-ATA
131 CGACTCGAGGAAAACACTTCAGACATCCATAATTCATTTGAATAATGATCATGAGTGATAATATA
93909 ACCATGTACGAACAAGATCTATT-ATAAAAAGAACAAGTTCACCAT
196 ACCATGTACGAAC-A-ATCTATTGATAAAAA-AACAAGTTCACCAT
*
93954 GTAACCATGAACGAC-T-AGAGAACACTTTAGACATCCATAATTCATTTATCTAATGATCATGAG
1 GTAACCATGAACGACTTAAGAAAACACTTTAGACATCCATAATTCATTTATCTAATGATCATGAG
94017 TGATAATATAACCATGTACGAACAAGATCTATTGATAAAAAGAACAAGTTCACCAAGTAACCATG
66 TGATAATATAACCATGTACGAACAAGATCTATTGAT-AAAA-AACAAGTTCACCAAGTAACCATG
* *
94082 AACGACTCGA-GAAAACACTTCA-ACCATTCATAATTCATTTGAAT-ATGATCATGATTGATAAT
129 AACGACTCGAGGAAAACACTTCAGA-CATCCATAATTCATTTGAATAATGATCATGAGTGATAAT
94144 ATAACCATGTACGAACAATCTATTGATAAAAAAACAAG
193 ATAACCATGTACGAACAATCTATTGATAAAAAAACAAG
94182 GTGCGAACAT
Statistics
Matches: 214, Mismatches: 8, Indels: 14
0.91 0.03 0.06
Matches are distributed among these distances:
236 109 0.51
237 42 0.20
238 63 0.29
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.27
Consensus pattern (238 bp):
GTAACCATGAACGACTTAAGAAAACACTTTAGACATCCATAATTCATTTATCTAATGATCATGAG
TGATAATATAACCATGTACGAACAAGATCTATTGATAAAAAACAAGTTCACCAAGTAACCATGAA
CGACTCGAGGAAAACACTTCAGACATCCATAATTCATTTGAATAATGATCATGAGTGATAATATA
ACCATGTACGAACAATCTATTGATAAAAAAACAAGTTCACCAT
Done.