Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold179
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: 2991183
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.31
Warning! 65816 characters in sequence are not A, C, G, or T
File 2 of 18
Found at i:168809 original size:21 final size:19
Alignment explanation
Indices: 168762--168819 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
168752 TTGTATCGAT
*
168762 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
168781 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
168800 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
168820 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:170347 original size:21 final size:20
Alignment explanation
Indices: 170296--170349 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
170286 ATTTCAAGCA
*
170296 ATGTATCGATACATTCACTT
1 ATGTATCAATACATTCACTT
170316 ATGTATCAATACATT-ACTTT
1 ATGTATCAATACATTCAC-TT
*
170336 ATTGTATTAATACA
1 A-TGTATCAATACA
170350 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 17 0.57
21 11 0.37
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (20 bp):
ATGTATCAATACATTCACTT
Found at i:172529 original size:19 final size:19
Alignment explanation
Indices: 172505--172566 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
172495 TTTTGAATTT
172505 CAAACAGTTTGTATCGATA
1 CAAACAGTTTGTATCGATA
**
172524 CAAACAGAAAATGTATCGATA
1 CAAACAG--TTTGTATCGATA
*
172545 CATA-AGTGTTGTATCGATA
1 CAAACAGT-TTGTATCGATA
172564 CAA
1 CAA
172567 TGTATCGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 19 0.56
20 2 0.06
21 13 0.38
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (19 bp):
CAAACAGTTTGTATCGATA
Found at i:172572 original size:13 final size:13
Alignment explanation
Indices: 172554--172578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
172544 ACATAAGTGT
172554 TGTATCGATACAA
1 TGTATCGATACAA
172567 TGTATCGATACA
1 TGTATCGATACA
172579 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:172574 original size:32 final size:32
Alignment explanation
Indices: 172533--172603 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
172523 ACAAACAGAA
172533 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
172565 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
172597 AATGTAT
1 AATGTAT
172604 TGCTACGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:172591 original size:19 final size:18
Alignment explanation
Indices: 172535--172597 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
172525 AAACAGAAAA
172535 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
172554 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
172567 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
172586 TGTATCGATACA
1 TGTATCGATACA
172598 ATGTATTGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:172648 original size:21 final size:21
Alignment explanation
Indices: 172622--172663 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
172612 AGCTACTGCC
172622 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
172643 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
172664 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:172668 original size:13 final size:13
Alignment explanation
Indices: 172650--172675 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
172640 ATTAAGGAAA
172650 TGTATCGATACAT
1 TGTATCGATACAT
172663 TGTATCGATACAT
1 TGTATCGATACAT
172676 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:174509 original size:19 final size:20
Alignment explanation
Indices: 174459--174512 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
174449 CTACCAGTTT
* *
174459 CATGTATCGATACAATTGTA
1 CATGTATCGATACAAGTGAA
*
174479 CACGTATCGATA-AAGTGAA
1 CATGTATCGATACAAGTGAA
*
174498 CATGTATTGATACAA
1 CATGTATCGATACAA
174513 TGTATTAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAAGTGAA
Found at i:176795 original size:22 final size:21
Alignment explanation
Indices: 176760--176809 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
176750 TTTGTTGATG
*
176760 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
176780 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
176801 AATTTGAAG
1 ATTTTGAAG
176810 AAGATTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:176806 original size:21 final size:22
Alignment explanation
Indices: 176767--176809 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
176757 ATGATTTTGA
* *
176767 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
176789 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
176810 AAGATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:182719 original size:20 final size:20
Alignment explanation
Indices: 182694--182748 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
182684 TTGCCAATTT
**
182694 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
* *
182714 CATGTATCAATAC-AGTGAA
1 CATGTATCGATACAATTGAA
182733 CATGTATCGATACAAT
1 CATGTATCGATACAAT
182749 GTATCGATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:182752 original size:13 final size:13
Alignment explanation
Indices: 182734--182759 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
182724 TACAGTGAAC
182734 ATGTATCGATACA
1 ATGTATCGATACA
182747 ATGTATCGATACA
1 ATGTATCGATACA
182760 TCTGGGTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:185073 original size:20 final size:20
Alignment explanation
Indices: 185048--185086 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
185038 TATTTGAGAC
*
185048 ATATATCGATATATTCACTG
1 ATATATCGATACATTCACTG
*
185068 ATATATTGATACATTCACT
1 ATATATCGATACATTCACT
185087 AATTGTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (20 bp):
ATATATCGATACATTCACTG
Found at i:190116 original size:79 final size:78
Alignment explanation
Indices: 190033--190750 Score: 782
Period size: 79 Copynumber: 9.1 Consensus size: 78
190023 TCCAATCCTA
* * * **
190033 TTATTTTCGAGGGGATACTCCAATCTCGATTTTATTTTCAAAACATCAATTTTTCACAATCAAGG
1 TTATTTTCAAGGGGATACTCCAA-CCCGATTTTATTTTCAAAACATCGATTTTTCACAATCGGGG
190098 ATACTCCAACCCCG
65 ATACTCCAACCCCG
* * * * *
190112 TTATTTCCAAGAGGATACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTCCATAATCGGGG
1 TTATTTTCAAGGGGATACTCCAACCC-GATTTTATTTTCAAAACATCGATTTTTCACAATCGGGG
**
190177 ATACTCCAACCCTA
65 ATACTCCAACCCCG
* * * *
190191 TTATTTCCAAGGGGATACTTCAATCCCGATTTTATTTCCAAAACATTGATTTTTCACAATCGGGG
1 TTATTTTCAAGGGGATACTCCAA-CCCGATTTTATTTTCAAAACATCGATTTTTCACAATCGGGG
190256 ATACTCCAACCCCG
65 ATACTCCAACCCCG
* * *
190270 TTATTTTCAAAGGGATACTCCAACCCTGATTTTATTTTCAAAACA-CTAATTTTTCATAATCGGG
1 TTATTTTCAAGGGGATACTCCAACCC-GATTTTATTTTCAAAACATC-GATTTTTCACAATCGGG
***
190334 GATACTCCAACCATA
64 GATACTCCAACCCCG
* * * * * * * * * *
190349 CTATTCTCGAGGGGATACTCCTACCTTGGTTTTATTTCCAAAACATAGATTTTCCACCATCGGGG
1 TTATTTTCAAGGGGATACTCCAACC-CGATTTTATTTTCAAAACATCGATTTTTCACAATCGGGG
* *
190414 ATACTCCAACCTCA
65 ATACTCCAACCCCG
* *
190428 TTATTTCCAAGGGGATACTCTAACCCTGATTTT-TATTTCTAAAAC-TCTGATTTTTCACAATCG
1 TTATTTTCAAGGGGATACTCCAACCC-GATTTTAT-TTTC-AAAACATC-GATTTTTCACAATCG
*
190491 GGGATACTCCAACCCTG
62 GGGATACTCCAACCCCG
* ** * *
190508 TTATTTTCGAGGGGATACTCCAACCTCGGCTTTA-TTTCGTAAACATCGATTTTCCACAATCGGG
1 TTATTTTCAAGGGGATACTCCAACC-CGATTTTATTTTC-AAAACATCGATTTTTCACAATCGGG
190572 GATACTCCAACCCCG
64 GATACTCCAACCCCG
* * * *
190587 TTA-TTTCTAAGGGGATACTCCAACCCTGATTTTATTTTCAAAACATTGATTTTCCATAATCGAG
1 TTATTTTC-AAGGGGATACTCCAACCC-GATTTTATTTTCAAAACATCGATTTTTCACAATCGGG
* *
190651 GATACTCCAAACCCA
64 GATACTCCAACCCCG
* * * * *
190666 TTATTTTCAAGGAGATACTCCAACCCCAATTTTATTTCCAAAACATCGATTTTTCACCATTGGGG
1 TTATTTTCAAGGGGATACTCCAA-CCCGATTTTATTTTCAAAACATCGATTTTTCACAATCGGGG
190731 ATACTCCAA-CCCG
65 ATACTCCAACCCCG
190744 TTATTTT
1 TTATTTT
190751 TGAAGGAATA
Statistics
Matches: 534, Mismatches: 87, Indels: 37
0.81 0.13 0.06
Matches are distributed among these distances:
78 21 0.04
79 438 0.82
80 74 0.14
81 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (78 bp):
TTATTTTCAAGGGGATACTCCAACCCGATTTTATTTTCAAAACATCGATTTTTCACAATCGGGGA
TACTCCAACCCCG
Found at i:190271 original size:158 final size:157
Alignment explanation
Indices: 189983--190749 Score: 923
Period size: 158 Copynumber: 4.9 Consensus size: 157
189973 TCATTCATGT
* * * ** * * * *
189983 TTTTATTTCTAAAATACCGATTTTAGAAAATCGGAGACACTCCAATCCTATTATTTTCGAGGGGA
1 TTTTATTTCCAAAACATCGATTTTCCATAATCGGGGATACTCCAACCCTATTATTTTCGAGGGGA
* * * **
190048 TACTCCAATCTCGATTTTATTTTCAAAACATCAATTTTTCACAATCAAGGATACTCCAACCCCGT
66 TACTCCAA-CCCGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGT
190113 TATTTCCAAGAGGATACTCCAACCCTGA
130 TATTTCCAAGAGGATACTCCAACCCTGA
* *
190141 TTTTATTTCCAAAACATCGATTTTCCATAATCGGGGATACTCCAACCCTATTATTTCCAAGGGGA
1 TTTTATTTCCAAAACATCGATTTTCCATAATCGGGGATACTCCAACCCTATTATTTTCGAGGGGA
* *
190206 TACTTCAATCCCGATTTTATTTCCAAAACATTGATTTTTCACAATCGGGGATACTCCAACCCCGT
66 TACTCCAA-CCCGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGT
*
190271 TATTTTCAA-AGGGATACTCCAACCCTGA
130 TATTTCCAAGA-GGATACTCCAACCCTGA
* * * * * *
190299 TTTTATTTTCAAAACA-CTAATTTTTCATAATCGGGGATACTCCAACCATACTATTCTCGAGGGG
1 TTTTATTTCCAAAACATC-GATTTTCCATAATCGGGGATACTCCAACCCTATTATTTTCGAGGGG
* * * * * * * *
190363 ATACTCCTACCTTGGTTTTATTTCCAAAACATAGATTTTCCACCATCGGGGATACTCCAACCTCA
65 ATACTCCAACC-CGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCG
* *
190428 TTATTTCCAAGGGGATACTCTAACCCTGA
129 TTATTTCCAAGAGGATACTCCAACCCTGA
* * * *
190457 TTTTTATTTCTAAAAC-TCTGATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGGG
1 -TTTTATTTCCAAAACATC-GATTTTCCATAATCGGGGATACTCCAACCCTATTATTTTCGAGGG
** ** *
190521 GATACTCCAACCTCGGCTTTATTTCGTAAACATCGATTTTCCACAATCGGGGATACTCCAACCCC
64 GATACTCCAACC-CGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCC
* *
190586 GTTATTTCTAAGGGGATACTCCAACCCTGA
128 GTTATTTCCAAGAGGATACTCCAACCCTGA
* * * * *
190616 TTTTATTTTCAAAACATTGATTTTCCATAATCGAGGATACTCCAAACCC-ATTATTTTCAAGGAG
1 TTTTATTTCCAAAACATCGATTTTCCATAATCGGGGATACTCC-AACCCTATTATTTTCGAGGGG
* * *
190680 ATACTCCAACCCCAATTTTATTTCCAAAACATCGATTTTTCACCATTGGGGATACTCCAA-CCCG
65 ATACTCCAA-CCCGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCG
190744 TTATTT
129 TTATTT
190750 TTGAAGGAAT
Statistics
Matches: 525, Mismatches: 75, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
157 14 0.03
158 365 0.70
159 146 0.28
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (157 bp):
TTTTATTTCCAAAACATCGATTTTCCATAATCGGGGATACTCCAACCCTATTATTTTCGAGGGGA
TACTCCAACCCGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGTT
ATTTCCAAGAGGATACTCCAACCCTGA
Found at i:190608 original size:317 final size:315
Alignment explanation
Indices: 190011--190749 Score: 979
Period size: 317 Copynumber: 2.3 Consensus size: 315
190001 GATTTTAGAA
* * * * *
190011 AATCGGAGACACTCCAATCC-TATTATTTTCGAGGGGATACTCCAATCTCGATTTTATTTTCAAA
1 AATCGGGGATACTCCAACCCATA-TATTTTCGAGGGGATACTCCAACCTCGATTTTATTTCCAAA
* **
190075 ACATCA-ATTTTTCACAATCAAGGATACTCCAACCCCGTTATTTCCAAGAGGATACTCCAACCCT
65 ACAT-AGATTTTTCACCATCGGGGATACTCCAA-CCCGTTATTTCCAAGAGGATACTCCAACCCT
*
190139 GATTTTATTTCCAAAACATCGATTTTCCATAATCGGGGATACTCCAACCCTATTATTTCCAAGGG
128 GATTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCTATTATTTCCAAGGG
* * * *
190204 GATACTTCAATCCCGATTTTATTTCCAAAACATTGATTTTTCACAATCGGGGATACTCCAACCCC
193 GATACTCCAATCCCGACTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCC
*
190269 GTTATTTTCAAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACTAATTTTTCAT
258 GTTATTTTCAAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACTAATTTTCCAT
* * * *
190327 AATCGGGGATACTCCAA-CCATACTATTCTCGAGGGGATACTCCTACCTTGGTTTTATTTCCAAA
1 AATCGGGGATACTCCAACCCATA-TATTTTCGAGGGGATACTCCAACCTCGATTTTATTTCCAAA
* * * *
190391 ACATAGATTTTCCACCATCGGGGATACTCCAACCTCATTATTTCCAAGGGGATACTCTAACCCTG
65 ACATAGATTTTTCACCATCGGGGATACTCCAACC-CGTTATTTCCAAGAGGATACTCCAACCCTG
* * * * *
190456 ATTTTTATTTCTAAAAC-TCTGATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGG
129 A-TTTTATTTCCAAAACATC-GATTTTCCACAATCGGGGATACTCCAACCCTATTATTTCCAAGG
* **
190520 GGATACTCCAA-CCTCGGCTTTATTTCGTAAACATCGATTTTCCACAATCGGGGATACTCCAACC
192 GGATACTCCAATCC-CGACTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACC
* * *
190584 CCGTTA-TTTCTAAGGGGATACTCCAACCCTGATTTTATTTTCAAAACATTGATTTTCCAT
256 CCGTTATTTTC-AAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACTAATTTTCCAT
* * * * *
190644 AATCGAGGATACTCCAAACCCAT-TATTTTCAAGGAGATACTCCAACCCCAATTTTATTTCCAAA
1 AATCGGGGATACTCC-AACCCATATATTTTCGAGGGGATACTCCAACCTCGATTTTATTTCCAAA
* *
190708 ACATCGATTTTTCACCATTGGGGATACTCCAACCCGTTATTT
65 ACATAGATTTTTCACCATCGGGGATACTCCAACCCGTTATTT
190750 TTGAAGGAAT
Statistics
Matches: 368, Mismatches: 46, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
315 5 0.01
316 121 0.33
317 236 0.64
318 2 0.01
319 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (315 bp):
AATCGGGGATACTCCAACCCATATATTTTCGAGGGGATACTCCAACCTCGATTTTATTTCCAAAA
CATAGATTTTTCACCATCGGGGATACTCCAACCCGTTATTTCCAAGAGGATACTCCAACCCTGAT
TTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCTATTATTTCCAAGGGGAT
ACTCCAATCCCGACTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCGTT
ATTTTCAAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACTAATTTTCCAT
Found at i:190757 original size:79 final size:79
Alignment explanation
Indices: 189983--190786 Score: 772
Period size: 79 Copynumber: 10.2 Consensus size: 79
189973 TCATTCATGT
* * * ** * * * ** *
189983 TTTTATTTCTAAAATACCGATTTTAGAAAATCGGAGACACTCCAATCCTATTATTTT-CGAGGGG
1 TTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAA-CCCGTTATTTTCCAAGGGG
* *
190047 ATACTCCAATCTCGA
65 ATACTCCAACCCCGA
* * ** *
190062 TTTTATTTTCAAAACATCAATTTTTCACAATCAAGGATACTCCAACCCCGTTA-TTTCCAAGAGG
1 TTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAA-CCCGTTATTTTCCAAGGGG
*
190126 ATACTCCAACCCTGA
65 ATACTCCAACCCCGA
* * *
190141 TTTTATTTCCAAAACATCGATTTTCCATAATCGGGGATACTCCAACCCTATTA-TTTCCAAGGGG
1 TTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCC-GTTATTTTCCAAGGGG
* *
190205 ATACTTCAATCCCGA
65 ATACTCCAACCCCGA
* *
190220 TTTTATTTCCAAAACATTGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTT-CAAAGGG
1 TTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAA-CCCGTTATTTTCCAAGGGG
*
190284 ATACTCCAACCCTGA
65 ATACTCCAACCCCGA
* * * * * *
190299 TTTTATTTTCAAAACA-CTAATTTTTCATAATCGGGGATACTCCAA-CC-ATACTATTCTCGAGG
1 TTTTATTTCCAAAACATC-GATTTTTCACAATCGGGGATACTCCAACCCGTTA-TTTTC-CAAGG
* ** *
190361 GGATACTCCTACCTTGG
63 GGATACTCCAACCCCGA
* * * *
190378 TTTTATTTCCAAAACATAGATTTTCCACCATCGGGGATACTCCAACCTCATTA-TTTCCAAGGGG
1 TTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACC-CGTTATTTTCCAAGGGG
* *
190442 ATACTCTAACCCTGA
65 ATACTCCAACCCCGA
* *
190457 TTTTTATTTCTAAAAC-TCTGATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTT-CGAGG
1 -TTTTATTTCCAAAACATC-GATTTTTCACAATCGGGGATACTCCAACCC-GTTATTTTCCAAGG
* *
190520 GGATACTCCAACCTCGG
63 GGATACTCCAACCCCGA
* ** * *
190537 CTTTATTTCGTAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCGTTA-TTTCTAAGGGG
1 TTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAA-CCCGTTATTTTCCAAGGGG
*
190601 ATACTCCAACCCTGA
65 ATACTCCAACCCCGA
* * * * * * *
190616 TTTTATTTTCAAAACATTGATTTTCCATAATCGAGGATACTCCAAACCCATTATTTT-CAAGGAG
1 TTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCC-AACCCGTTATTTTCCAAGGGG
*
190680 ATACTCCAACCCCAA
65 ATACTCCAACCCCGA
* * ** *
190695 TTTTATTTCCAAAACATCGATTTTTCACCATTGGGGATACTCCAACCCGTTATTTTTGAA-GGAA
1 TTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCGTTATTTTCCAAGGGGA
*
190759 TACTCTAACCCC-A
66 TACTCCAACCCCGA
*
190772 TTTTTATCTCCAAAA
1 -TTTTATTTCCAAAA
190787 TATTAAATTT
Statistics
Matches: 595, Mismatches: 107, Indels: 47
0.79 0.14 0.06
Matches are distributed among these distances:
76 2 0.00
77 6 0.01
78 47 0.08
79 453 0.76
80 81 0.14
81 4 0.01
82 2 0.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (79 bp):
TTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCGTTATTTTCCAAGGGGA
TACTCCAACCCCGA
Found at i:190816 original size:396 final size:393
Alignment explanation
Indices: 190021--190820 Score: 936
Period size: 396 Copynumber: 2.0 Consensus size: 393
190011 AATCGGAGAC
* * *
190021 ACTCCAATCCTATTATTTTCGAGGGGATACTCCAATCTCGATTTTATTTTCAAAACATCAATTTT
1 ACTCCAA-CCTATTATTTCCAAGGGGATACTCCAACCTCGATTTTATTTTCAAAACATCAATTTT
*
190086 TCACAATCAAGGATACTCCAACCCCGTTATTTCCAAGAGGATACTCCAACCCTGATTTTATTTCC
65 TCACAATCAAGGATACTCCAACCCCGTTATTTCCAAGAGGATACTCCAACCCTGACTTTATTTCC
* * *
190151 AAAACATCGATTTTCCATAATCGGGGATACTCCAACCCTATTATTTCCAAGGGGATACTTCAATC
130 AAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCATTATTTCCAAGGGGATACTCCAATC
* * * *
190216 CCGATTTTATTTCCAAAACATTGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCAAA
195 CCGATTTTATTTCCAAAACATTGATTTTCCACAATCGAGGATACTCCAAACCCATTATTTTCAAA
** * *
190281 GGGATACTCCAACCCTGATTTTATTTTCAAAACACTAATTTTTCATAATCGGGGATACTCCAACC
260 GGGATACTCCAACCCCAATTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAACC
* * *** * * *
190346 ATACTATTCTCGAGGGGATACTCCTACCTTGGTTTTATTTCCAAAACATAGATTTTCCACCATCG
325 ATA-TATTCTCGAAGGAATACTCCTACCCCAGTTTTATCTCCAAAACATAAATTTTCCACCATAG
**
190411 GGGAT
389 AAGAT
* *
190416 ACTCCAACCTCATTATTTCCAAGGGGATACTCTAACC-CTGATTTT-TATTTCTAAAAC-TCTGA
1 ACTCCAACCT-ATTATTTCCAAGGGGATACTCCAACCTC-GATTTTAT-TTTC-AAAACATC-AA
** * * * * *
190478 TTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAA-CCTCGGCTTTA
61 TTTTTCACAATCAAGGATACTCCAACCCCGTTATTTCCAAGAGGATACTCCAACCCT-GACTTTA
** * *
190542 TTTCGTAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTC
125 TTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCATTATTTCCAAGGGGATACTC
* *
190607 CAA-CCCTGATTTTATTTTCAAAACATTGATTTTCCATAATCGAGGATACTCCAAACCCATTATT
190 CAATCCC-GATTTTATTTCCAAAACATTGATTTTCCACAATCGAGGATACTCCAAACCCATTATT
* * *
190671 TTC-AAGGAGATACTCCAACCCCAATTTTATTTCCAAAACA-TCGATTTTTCACCATTGGGGATA
254 TTCAAAGG-GATACTCCAACCCCAATTTTATTTCCAAAACACT-AATTTTTCACAATCGGGGATA
* * * * *
190734 CTCCAACCCGT-TATTTTTGAAGGAATACT-CTAACCCCATTTTTATCTCCAAAATATTAAATTT
317 CTCCAA-CCATATATTCTCGAAGGAATACTCCT-ACCCCAGTTTTATCTCCAAAACA-TAAATTT
* * *
190797 TTCATCGA-AGAATAT
379 TCCA-CCATAGAAGAT
190812 ACTCCAACC
1 ACTCCAACC
190821 GTGTACGCCG
Statistics
Matches: 341, Mismatches: 51, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
394 7 0.02
395 83 0.24
396 246 0.72
397 5 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (393 bp):
ACTCCAACCTATTATTTCCAAGGGGATACTCCAACCTCGATTTTATTTTCAAAACATCAATTTTT
CACAATCAAGGATACTCCAACCCCGTTATTTCCAAGAGGATACTCCAACCCTGACTTTATTTCCA
AAACATCGATTTTCCACAATCGGGGATACTCCAACCCCATTATTTCCAAGGGGATACTCCAATCC
CGATTTTATTTCCAAAACATTGATTTTCCACAATCGAGGATACTCCAAACCCATTATTTTCAAAG
GGATACTCCAACCCCAATTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAACCA
TATATTCTCGAAGGAATACTCCTACCCCAGTTTTATCTCCAAAACATAAATTTTCCACCATAGAA
GAT
Found at i:193230 original size:19 final size:20
Alignment explanation
Indices: 193205--193258 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
193195 TATTCAATAC
193205 ATTGTATCGATACATACTC-
1 ATTGTATCGATACATACTCA
* *
193224 CTTGTATCAATACATACTCA
1 ATTGTATCGATACATACTCA
*
193244 ATTTTATCGATACAT
1 ATTGTATCGATACAT
193259 GAAACTAGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.39
Consensus pattern (20 bp):
ATTGTATCGATACATACTCA
Found at i:197334 original size:13 final size:13
Alignment explanation
Indices: 197316--197340 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
197306 CATAAAGTGT
197316 TGTATCGATACAA
1 TGTATCGATACAA
197329 TGTATCGATACA
1 TGTATCGATACA
197341 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:197338 original size:33 final size:33
Alignment explanation
Indices: 197296--197362 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
197286 TTCAACGATT
197296 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
197329 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
197362 T
1 T
197363 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:197419 original size:13 final size:13
Alignment explanation
Indices: 197401--197427 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
197391 ACATTACTCA
197401 ATTGTATCGATAC
1 ATTGTATCGATAC
197414 ATTGTATCGATAC
1 ATTGTATCGATAC
197427 A
1 A
197428 CTGATCTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:197492 original size:52 final size:52
Alignment explanation
Indices: 197436--197564 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
197426 CACTGATCTT
197436 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
197488 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
197540 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
197565 TCATATTTCG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:202548 original size:59 final size:58
Alignment explanation
Indices: 202435--202551 Score: 182
Period size: 59 Copynumber: 2.0 Consensus size: 58
202425 CAAAGGGGGA
* *
202435 GAAAATCGTTTTTTTTTTAAAAAGAGCTTTAATTATTTTATCAAGGGGGAGAATTATT
1 GAAAATCATTTTTTTTTTAAAAAGAGCTTTAATTATTTTATCAAGGAGGAGAATTATT
*
202493 GAAAATCATTTTTTTTTTAAAAAAGAGCTTTAATTATTTTATCAAATGAGG-GAATTATT
1 GAAAATCATTTTTTTTTT-AAAAAGAGCTTTAATTATTTTATC-AAGGAGGAGAATTATT
202552 AAGGGAAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
58 17 0.31
59 32 0.59
60 5 0.09
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (58 bp):
GAAAATCATTTTTTTTTTAAAAAGAGCTTTAATTATTTTATCAAGGAGGAGAATTATT
Found at i:203295 original size:20 final size:19
Alignment explanation
Indices: 203244--203302 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
203234 GCTACCCTAA
*
203244 GTGAAATGTATCGATGCAT
1 GTGAAATGTATCGATACAT
* * *
203263 GGGACATTTTATCGATACAT
1 GTGA-AATGTATCGATACAT
203283 GATGAAATGTATCGATACAT
1 G-TGAAATGTATCGATACAT
203303 TATGCCCAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 3 0.10
20 26 0.84
21 2 0.06
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (19 bp):
GTGAAATGTATCGATACAT
Found at i:208919 original size:20 final size:20
Alignment explanation
Indices: 208894--209009 Score: 97
Period size: 20 Copynumber: 5.2 Consensus size: 20
208884 TTTTAACTAG
208894 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
208914 ATGTATCGATACATCTGGGTAAAAAGACGGA
1 ATGTATCGATACAT-T--G----AA-A---A
*
208945 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * *
208965 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
208985 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
209005 ATGTA
1 ATGTA
209010 CATCTAGGTA
Statistics
Matches: 77, Mismatches: 8, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
20 53 0.69
21 1 0.01
23 1 0.01
24 2 0.03
27 2 0.03
28 2 0.03
30 1 0.01
31 15 0.19
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:209965 original size:31 final size:31
Alignment explanation
Indices: 209926--210009 Score: 125
Period size: 32 Copynumber: 2.7 Consensus size: 31
209916 CCAGCGACAT
209926 TGGG-TTTAGAAGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCAACTTGTG
*
209956 TGGGCTTTAGAGAAGGTTGCCACCAACTTGTG
1 TGGGCTTTAGA-AGGGTTGCCACCAACTTGTG
* *
209988 TAGGCTTTAGAAGGGTTACCAC
1 TGGGCTTTAGAAGGGTTGCCAC
210010 TGACTTATGG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
30 4 0.08
31 15 0.31
32 29 0.60
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (31 bp):
TGGGCTTTAGAAGGGTTGCCACCAACTTGTG
Found at i:210132 original size:28 final size:28
Alignment explanation
Indices: 209954--210490 Score: 348
Period size: 28 Copynumber: 18.6 Consensus size: 28
209944 CACCAACTTG
* **
209954 TGTGGGCTTTAGAGAAGGTTGCCACCAACT
1 TGTGGGCTTT-GA-AAGGGTGCCACTGACT
*
209984 TGTGTAGGCTTT-AGAAGGGTTACCACTGACT
1 TGTG--GGCTTTGA-AAGGG-TGCCACTGACT
* * * * *
210015 TATGGACTTTAAAAGGATGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
210043 TATGGGCTTCGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
210071 TGTGGGATTCGAAAGGGTGCCA-TAAACT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
210099 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
210127 TATGGGCTTT-AAGAGACGTTGCCACTGACTT
1 TGTGGGCTTTGAA-AG--GGTGCCACTGAC-T
* ** * *
210158 GTGTGGGCTTT-AATGTTTGCCACCGATT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
210186 TGAGGGCCTTGAGAGAGGTTGCCA-TCGACT
1 TGTGGGCTTTGA-A-AGGGTGCCACT-GACT
* *
210216 TGTGTAGGCTTCGAAAGGGTGCCACTAACT
1 TGTG--GGCTTTGAAAGGGTGCCACTGACT
*
210246 TGTGGGCTTTTAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
210274 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
** * *
210302 CATGGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * ** *
210330 CGTAGGCTTTGGAAGAATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * ** *
210358 CGTGGGCTTTGGAAGAATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
210386 CGTGGGCTTTAAAAGAGGTGCCACTGACT
1 TGTGGGCTTTGAAAG-GGTGCCACTGACT
***
210415 TGTGGGCTTTGAAAAAAATGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* ** *
210444 CGTGGGCTTT-AGAAGAATGCTACTGACT
1 TGTGGGCTTTGA-AAGGGTGCCACTGACT
*
210472 CGTGGGCTTTGAAAAGGGT
1 TGTGGGCTTTG-AAAGGGT
210491 CATATTGACA
Statistics
Matches: 414, Mismatches: 70, Indels: 47
0.78 0.13 0.09
Matches are distributed among these distances:
27 12 0.03
28 247 0.60
29 63 0.15
30 54 0.13
31 15 0.04
32 23 0.06
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:210514 original size:14 final size:14
Alignment explanation
Indices: 210495--210582 Score: 67
Period size: 14 Copynumber: 6.6 Consensus size: 14
210485 AAGGGTCATA
210495 TTGACAAAAATTTC
1 TTGACAAAAATTTC
*
210509 TTGAC-AAAGTTTC
1 TTGACAAAAATTTC
*
210522 -TGACAAACA-TTC
1 TTGACAAAAATTTC
* *
210534 TCGAC-AAAAGTTC
1 TTGACAAAAATTTC
* *
210547 TTGACGATAATTTC
1 TTGACAAAAATTTC
* **
210561 TTGATAACCATTTC
1 TTGACAAAAATTTC
210575 TTGACAAA
1 TTGACAAA
210583 TCGTAAATTG
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
12 10 0.18
13 19 0.34
14 27 0.48
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.34
Consensus pattern (14 bp):
TTGACAAAAATTTC
Found at i:210528 original size:26 final size:27
Alignment explanation
Indices: 210495--210582 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 27
210485 AAGGGTCATA
210495 TTGACAAAAATTTCTTGAC-AAAGTT-
1 TTGACAAAAATTTCTTGACAAAAGTTC
* *
210520 TCTGACAAACA-TTCTCGACAAAAGTTC
1 T-TGACAAAAATTTCTTGACAAAAGTTC
* * * * *
210547 TTGACGATAATTTCTTGATAACCATTTC
1 TTGACAAAAATTTCTTGACAA-AAGTTC
210575 TTGACAAA
1 TTGACAAA
210583 TCGTAAATTG
Statistics
Matches: 47, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
25 8 0.17
26 20 0.43
27 9 0.19
28 10 0.21
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.34
Consensus pattern (27 bp):
TTGACAAAAATTTCTTGACAAAAGTTC
Found at i:213327 original size:13 final size:13
Alignment explanation
Indices: 213287--213338 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
213277 CCGTTTGAAG
213287 CAATGTATCGATA
1 CAATGTATCGATA
213300 CAA--T-TC-AT-
1 CAATGTATCGATA
213308 C-ATGTATCGATA
1 CAATGTATCGATA
213320 CAATGTATCGATA
1 CAATGTATCGATA
213333 CAATGT
1 CAATGT
213339 GCCATGTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:213345 original size:33 final size:32
Alignment explanation
Indices: 213287--213355 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
213277 CCGTTTGAAG
213287 CAATGTATCGATACAATTCATCATGTATCGATA
1 CAATGTATCGATACAATTCA-CATGTATCGATA
*
213320 CAATGTATCGATACAATGTGC-CATGTATTGATA
1 CAATGTATCGATACAAT-T-CACATGTATCGATA
213353 CAA
1 CAA
213356 ACTGTGGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 31 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (32 bp):
CAATGTATCGATACAATTCACATGTATCGATA
Found at i:213428 original size:19 final size:19
Alignment explanation
Indices: 213384--213439 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
213374 CTGCCAGTTT
**
213384 CATGTATCGATACAACTGTC
1 CATGTATCGATACAA-TGAA
213404 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
213423 CATGTATCGATACAATG
1 CATGTATCGATACAATG
213440 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:213442 original size:13 final size:13
Alignment explanation
Indices: 213424--213450 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
213414 TACAATGAAC
213424 ATGTATCGATACA
1 ATGTATCGATACA
213437 ATGTATCGATACA
1 ATGTATCGATACA
213450 A
1 A
213451 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:215870 original size:33 final size:33
Alignment explanation
Indices: 215833--215899 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
215823 TTGAACGATT
215833 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
215866 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
215899 T
1 T
215900 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:215871 original size:13 final size:13
Alignment explanation
Indices: 215853--215877 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
215843 CATAAAATGT
215853 TGTATCGATACAA
1 TGTATCGATACAA
215866 TGTATCGATACA
1 TGTATCGATACA
215878 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:215958 original size:13 final size:13
Alignment explanation
Indices: 215940--215964 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
215930 ATTACTCAAA
215940 TGTATCGATACAT
1 TGTATCGATACAT
215953 TGTATCGATACA
1 TGTATCGATACA
215965 CTGATCTTTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:216015 original size:51 final size:50
Alignment explanation
Indices: 215953--216141 Score: 238
Period size: 52 Copynumber: 3.6 Consensus size: 50
215943 ATCGATACAT
* *
215953 TGTATCGATACACTGATCTTTATATCGATACATGCAGGC-AATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
* * *
216004 TGTATCAATACA-TTTTAAAATGTATCGATACATGCAGGCAAATTTTCCCAGA
1 TGTATCGATACACTATT---ATGTATCGATACATGCAGGCAAATTTGCCCAGA
216056 TGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAATTTGCCCAGA
216108 TGTATCGATACACTATTAAATGTATCGATACATG
1 TGTATCGATACACTATT--ATGTATCGATACATG
216142 TAGATAAATT
Statistics
Matches: 125, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 1 0.01
51 29 0.23
52 90 0.72
53 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:216152 original size:52 final size:52
Alignment explanation
Indices: 215975--216141 Score: 284
Period size: 52 Copynumber: 3.2 Consensus size: 52
215965 CTGATCTTTA
* *
215975 TATCGATACATGCAGGC-AATTTGCCCAGATGTATCAATACA-TTTTAAAATG
1 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAATG
*
216026 TATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAATG
1 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAATG
216078 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAATG
1 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAATG
216130 TATCGATACATG
1 TATCGATACATG
216142 TAGATAAATT
Statistics
Matches: 110, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
51 17 0.15
52 90 0.82
53 3 0.03
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (52 bp):
TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAATG
Found at i:219488 original size:22 final size:21
Alignment explanation
Indices: 219453--219502 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
219443 TTTGTTGATG
*
219453 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
219473 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
219494 AATTTGAAG
1 ATTTTGAAG
219503 AATATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:219499 original size:21 final size:22
Alignment explanation
Indices: 219460--219502 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
219450 ATGATTTTGA
* *
219460 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
219482 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
219503 AATATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:219629 original size:13 final size:13
Alignment explanation
Indices: 219611--219636 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
219601 TAGTAACCCT
219611 TGTATCGATACAA
1 TGTATCGATACAA
219624 TGTATCGATACAA
1 TGTATCGATACAA
219637 AGAATATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:223552 original size:3 final size:3
Alignment explanation
Indices: 223544--223580 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
223534 TCCGAGTCAC
**
223544 CAT CAT CAT CAT CAT CAT CAT CAT CAT TTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
223581 TTTGATGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.38
Consensus pattern (3 bp):
CAT
Found at i:225208 original size:13 final size:13
Alignment explanation
Indices: 225186--225215 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
225176 ACAATTCATC
*
225186 ATGTATCGATACA
1 ATGTACCGATACA
225199 ATGTACCGATACA
1 ATGTACCGATACA
225212 ATGT
1 ATGT
225216 GCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (13 bp):
ATGTACCGATACA
Found at i:225316 original size:13 final size:13
Alignment explanation
Indices: 225298--225324 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
225288 TACAATGAAC
225298 ATGTATCGATACA
1 ATGTATCGATACA
225311 ATGTATCGATACA
1 ATGTATCGATACA
225324 A
1 A
225325 AGCATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:230815 original size:15 final size:15
Alignment explanation
Indices: 230777--230815 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
230767 TGTATCGACG
*
230777 ATTTTGTGGTGGGTA
1 ATTTTGTGGTGGATA
**
230792 ATTAGGTGGTGGATA
1 ATTTTGTGGTGGATA
230807 ATTTTGTGG
1 ATTTTGTGG
230816 CAGATTTGGC
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (15 bp):
ATTTTGTGGTGGATA
Found at i:238913 original size:20 final size:20
Alignment explanation
Indices: 238890--238962 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
238880 ACAACTCAAA
238890 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
238910 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
238931 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
238951 GTATCGATACAT
1 GTATCGATACAT
238963 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:238941 original size:41 final size:42
Alignment explanation
Indices: 238890--238984 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
238880 ACAACTCAAA
*
238890 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
238931 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
238973 GTATCGATACAT
1 GTATCGATACAT
238985 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:239041 original size:13 final size:13
Alignment explanation
Indices: 239023--239048 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
239013 TACAGCAAGT
239023 ATGTATCGATACA
1 ATGTATCGATACA
239036 ATGTATCGATACA
1 ATGTATCGATACA
239049 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:243131 original size:15 final size:15
Alignment explanation
Indices: 243111--243149 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
243101 TAAAAATGTC
*
243111 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
243126 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
243141 CCAAATGAA
1 CAAAATGAA
243150 ATTGATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:245243 original size:20 final size:21
Alignment explanation
Indices: 245165--245242 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
245155 ATGTCCAAAA
*
245165 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
245185 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
245209 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
245230 TGTATCGATACAT
1 TGTATCGATACAT
245243 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:245247 original size:13 final size:13
Alignment explanation
Indices: 245229--245267 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
245219 ACATTTTTTG
245229 TTGTATCGATACA
1 TTGTATCGATACA
245242 TTGTATCGATACA
1 TTGTATCGATACA
*
245255 CTGTATCGATACA
1 TTGTATCGATACA
245268 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:247114 original size:18 final size:16
Alignment explanation
Indices: 247073--247118 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
247063 AATTACTTGA
247073 TTAAGGGGGAGATTTT
1 TTAAGGGGGAGATTTT
247089 TTAAGGGGGAGATTTT
1 TTAAGGGGGAGATTTT
247105 TTAAACGGGGGAGA
1 TT-AA-GGGGGAGA
247119 CAAAGGAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 18 0.64
17 2 0.07
18 8 0.29
ACGTcount: A:0.28, C:0.02, G:0.39, T:0.30
Consensus pattern (16 bp):
TTAAGGGGGAGATTTT
Found at i:247748 original size:20 final size:20
Alignment explanation
Indices: 247725--247797 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
247715 ACAACTCAAA
247725 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
247745 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
247766 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
247786 GTATCGATACAT
1 GTATCGATACAT
247798 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:247776 original size:41 final size:42
Alignment explanation
Indices: 247725--247819 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
247715 ACAACTCAAA
*
247725 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
247766 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
247808 GTATCGATACAT
1 GTATCGATACAT
247820 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:247876 original size:13 final size:13
Alignment explanation
Indices: 247858--247883 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
247848 TACAGCAAGT
247858 ATGTATCGATACA
1 ATGTATCGATACA
247871 ATGTATCGATACA
1 ATGTATCGATACA
247884 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:249404 original size:17 final size:17
Alignment explanation
Indices: 249382--249418 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
249372 TTTGGTTAAG
249382 GCTTTAGAAGCCTTTTT
1 GCTTTAGAAGCCTTTTT
249399 GCTTTAGAAGCCTTTTT
1 GCTTTAGAAGCCTTTTT
249416 GCT
1 GCT
249419 AGTATCGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.46
Consensus pattern (17 bp):
GCTTTAGAAGCCTTTTT
Found at i:250359 original size:12 final size:12
Alignment explanation
Indices: 250338--250368 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
250328 TCCCCTTAAG
250338 AATT-TTACTAA
1 AATTCTTACTAA
250349 AATTCTTACTAA
1 AATTCTTACTAA
250361 AATTCTTA
1 AATTCTTA
250369 AGTTAATCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTCTTACTAA
Found at i:252782 original size:21 final size:21
Alignment explanation
Indices: 252725--252867 Score: 57
Period size: 20 Copynumber: 7.2 Consensus size: 21
252715 ATATTTATAA
* *
252725 TTAAATTTTAATTTAAATTAAA
1 TTAAATATTAATTTAAATT-AT
252747 TT-AATATT--TTT--ATTAT
1 TTAAATATTAATTTAAATTAT
252763 TTAAATATTAATTTAAATTA-
1 TTAAATATTAATTTAAATTAT
252783 --AAATAAATTAATTTAAA--A-
1 TTAAAT--ATTAATTTAAATTAT
252801 TTATAATAATTATATTTAAAATTAAT
1 TTA-AAT-ATTA-ATTT-AAATT-AT
* * *
252827 TT-AATA-TAAATTAATTTTT
1 TTAAATATTAATTTAAATTAT
252846 TTAAAT-TTAA--TAAATTAT
1 TTAAATATTAATTTAAATTAT
252864 TTAA
1 TTAA
252868 TTTATGAATA
Statistics
Matches: 96, Mismatches: 7, Indels: 40
0.67 0.05 0.28
Matches are distributed among these distances:
16 3 0.03
17 9 0.09
18 15 0.16
19 9 0.09
20 27 0.28
21 19 0.20
22 7 0.07
23 1 0.01
24 3 0.03
25 1 0.01
26 2 0.02
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAAATATTAATTTAAATTAT
Found at i:252791 original size:89 final size:88
Alignment explanation
Indices: 252665--252848 Score: 198
Period size: 90 Copynumber: 2.1 Consensus size: 88
252655 TAAAAATTTA
* * * *
252665 TTTTATTATTTAAAATAATATTAAAAAATTAAAAAATTATTTTTATA-T-TAATATTTATAATTA
1 TTTTATTATTTAAAATAATATT--AAAATTAAAAAATTAATTTAAAATTATAATAATTATAATTA
*
252728 AATTTTAATTTAA-ATTAAATTAATAT
64 AA-ATTAATTTAATA-TAAATTAATAT
*
252754 TTTTATTATTTAAATATTAAT-TT-AAATTAAAATAAATTAATTTAAAATTATAATAATTATATT
1 TTTTATTATTTAAA-A-TAATATTAAAATT-AAA-AAATTAATTTAAAATTATAATAATTATAAT
*
252817 TAAAATTAATTTAATATAAATTAATTT
62 TAAAATTAATTTAATATAAATTAATAT
252844 TTTTA
1 TTTTA
252849 AATTTAATAA
Statistics
Matches: 81, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
87 5 0.06
88 3 0.04
89 25 0.31
90 28 0.35
91 20 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (88 bp):
TTTTATTATTTAAAATAATATTAAAATTAAAAAATTAATTTAAAATTATAATAATTATAATTAAA
ATTAATTTAATATAAATTAATAT
Found at i:252798 original size:15 final size:15
Alignment explanation
Indices: 252761--252843 Score: 53
Period size: 15 Copynumber: 5.3 Consensus size: 15
252751 TATTTTTATT
*
252761 ATTTAAATATTAATTTA
1 ATTTAAA-A-TAAATTA
*
252778 AATTAAAATAAATTA
1 ATTTAAAATAAATTA
252793 ATTTAAAATTATAA-TA
1 ATTTAAAA-TA-AATTA
**
252809 A-TTATATTTAAAATTA
1 ATTTA-AAAT-AAATTA
*
252825 ATTTAATATAAATTA
1 ATTTAAAATAAATTA
252840 ATTT
1 ATTT
252844 TTTTAAATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
15 29 0.54
16 14 0.26
17 11 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTAAAATAAATTA
Found at i:252878 original size:90 final size:91
Alignment explanation
Indices: 252713--252881 Score: 211
Period size: 90 Copynumber: 1.9 Consensus size: 91
252703 ATTTTTATAT
* * * *
252713 TAATATTTATAATTAAATTTTAATTTAAATTAAATTAATATTTTTATTATTTAAATATTAATTTA
1 TAATAATTATAATTAAATATTAATTTAAATTAAATTAATATTTTTATAATTTAAAAATTAATTTA
252778 AATTAAAATAAATTAATTTAAAATTA
66 AATTAAAATAAATTAATTTAAAATTA
* *
252804 TAATAATTATATTTAAA-ATTAATTT-AATATAAATTAATTTTTTTA-AATTTAATAAATT-ATT
1 TAATAATTATAATTAAATATTAATTTAAAT-TAAATTAATATTTTTATAATTTAA-AAATTAATT
* *
252865 TAATTTATGAATAAATT
64 TAAATTA-AAATAAATT
252882 TATTGAGTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
89 18 0.27
90 34 0.51
91 15 0.22
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.51
Consensus pattern (91 bp):
TAATAATTATAATTAAATATTAATTTAAATTAAATTAATATTTTTATAATTTAAAAATTAATTTA
AATTAAAATAAATTAATTTAAAATTA
Found at i:254148 original size:15 final size:15
Alignment explanation
Indices: 254112--254176 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 15
254102 AATTTTCCCA
*
254112 TTATTTTTTATT-TT
1 TTATTTTTAATTATT
254126 TT-TCTTTTAATTATT
1 TTAT-TTTTAATTATT
254141 TTATTTTTGTATATTATT
1 TTA-TTTT-TA-ATTATT
* *
254159 TTATTTTTTATTACT
1 TTATTTTTAATTATT
254174 TTA
1 TTA
254177 CTCGTATAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
13 1 0.02
14 9 0.21
15 12 0.29
16 4 0.10
17 7 0.17
18 9 0.21
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (15 bp):
TTATTTTTAATTATT
Found at i:254176 original size:8 final size:8
Alignment explanation
Indices: 254111--254176 Score: 55
Period size: 8 Copynumber: 8.1 Consensus size: 8
254101 AAATTTTCCC
254111 ATTATTTT
1 ATTATTTT
254119 -TTATTTT
1 ATTATTTT
* *
254126 TTTCTTTT
1 ATTATTTT
254134 AATTATTTT
1 -ATTATTTT
*
254143 ATTTTTGTAT
1 ATTATT-T-T
254153 ATTATTTT
1 ATTATTTT
254161 ATT-TTTT
1 ATTATTTT
*
254168 ATTACTTT
1 ATTATTTT
254176 A
1 A
254177 CTCGTATAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
7 14 0.30
8 19 0.40
9 8 0.17
10 6 0.13
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (8 bp):
ATTATTTT
Found at i:256091 original size:1 final size:1
Alignment explanation
Indices: 256085--256112 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
256075 CAAGTTAAAG
256085 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
256113 CAACCTTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:261260 original size:20 final size:20
Alignment explanation
Indices: 261235--261304 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
261225 ATCTAAAGGA
261235 TTCAATTGGATGTTGATTTG
1 TTCAATTGGATGTTGATTTG
* ***
261255 TTCAATTGCATGCTCT-AAAGG
1 TTCAATTGGATG-T-TGATTTG
261276 ATTCAATTGGATGTTGATTTG
1 -TTCAATTGGATGTTGATTTG
261297 TTCAATTG
1 TTCAATTG
261305 CATGCTAGTT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 20 0.53
21 6 0.16
22 12 0.32
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.44
Consensus pattern (20 bp):
TTCAATTGGATGTTGATTTG
Found at i:261285 original size:42 final size:42
Alignment explanation
Indices: 261226--261310 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
261216 AACGATCCAA
261226 TCTAAAGGATTCAATTGGATGTTGATTTGTTCAATTGCATGC
1 TCTAAAGGATTCAATTGGATGTTGATTTGTTCAATTGCATGC
261268 TCTAAAGGATTCAATTGGATGTTGATTTGTTCAATTGCATGC
1 TCTAAAGGATTCAATTGGATGTTGATTTGTTCAATTGCATGC
261310 T
1 T
261311 AGTTTAACAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (42 bp):
TCTAAAGGATTCAATTGGATGTTGATTTGTTCAATTGCATGC
Found at i:266323 original size:33 final size:32
Alignment explanation
Indices: 266261--266324 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
266251 TAGCCAAACT
**
266261 TATATCGATACACAAAGTATGTATCGATACAA
1 TATATCGATACACAAAAAATGTATCGATACAA
*
266293 TATATCGATACACAAAAAATTGTATTGATACA
1 TATATCGATACACAAAAAA-TGTATCGATACA
266325 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (32 bp):
TATATCGATACACAAAAAATGTATCGATACAA
Found at i:268555 original size:21 final size:21
Alignment explanation
Indices: 268522--268571 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
268512 TTGCAAGTTG
*
268522 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
268544 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
268565 AAATAAA
1 AAATAAA
268572 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:270389 original size:15 final size:15
Alignment explanation
Indices: 270369--270399 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
270359 TAAAAATATC
*
270369 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
270384 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
270399 C
1 C
270400 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:272493 original size:13 final size:13
Alignment explanation
Indices: 272475--272499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
272465 CATTTTTCTT
272475 TGTATCGATACAC
1 TGTATCGATACAC
272488 TGTATCGATACA
1 TGTATCGATACA
272500 GGGGGATTAT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:272654 original size:20 final size:20
Alignment explanation
Indices: 272611--272656 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
272601 AAATCTTTTG
272611 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
272632 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
272652 CAAAA
1 CAAAA
272657 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:274292 original size:19 final size:19
Alignment explanation
Indices: 274268--274311 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
274258 AGAGAAAATA
274268 GATATGCAA-ATAAATTTTT
1 GATATG-AATATAAATTTTT
274287 GATATGAATTATAAATTTTT
1 GATATGAA-TATAAATTTTT
274307 GATAT
1 GATAT
274312 AAATTACTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 2 0.09
19 6 0.26
20 15 0.65
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.45
Consensus pattern (19 bp):
GATATGAATATAAATTTTT
Found at i:274302 original size:20 final size:20
Alignment explanation
Indices: 274277--274317 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
274267 AGATATGCAA
*
274277 ATAAATTTTTGATATGAATT
1 ATAAATTTTTGATATAAATT
274297 ATAAATTTTTGATATAAATT
1 ATAAATTTTTGATATAAATT
274317 A
1 A
274318 CTTGATTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (20 bp):
ATAAATTTTTGATATAAATT
Found at i:275079 original size:32 final size:33
Alignment explanation
Indices: 275038--275099 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
275028 GCCAAACTTG
**
275038 TATCGATACACAAAGTA-TGTATCGATACAATA
1 TATCGATACACAAAAAATTGTATCGATACAATA
275070 TATCGATACACAAAAAATTGTATCGATACA
1 TATCGATACACAAAAAATTGTATCGATACA
275100 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.27
Consensus pattern (33 bp):
TATCGATACACAAAAAATTGTATCGATACAATA
Found at i:278051 original size:79 final size:78
Alignment explanation
Indices: 277968--278353 Score: 349
Period size: 79 Copynumber: 4.9 Consensus size: 78
277958 GTATTCTCGA
* * * *
277968 GAAAAAATTAATATTTTGGAAATAAAAATGGGGTTAGAGTATCTCTTCGGAATTGATGGGGTTGA
1 GAAAAATTTAATATTTTGGAAATAAAAACGGGGTTAGAGTATCTCTTCGAAATTGATGGGGTTGG
278033 AGTATCCCTAAGAT
66 AGTATCCCT-AGAT
* * * * **
278047 GAAAAATTTAACATTTTGGAAATAAAAACGGGGTTAGAGTATCCCCTT-GAAAATAAAAGGGTTG
1 GAAAAATTTAATATTTTGGAAATAAAAACGGGGTTAGAGTAT-CTCTTCGAAATTGATGGGGTTG
*
278111 GAGTATCCTCGAGAT
65 GAGTATCC-CTAGAT
* * * * * * * * * *
278126 GAAAATTTTAATATTTTAGAGATAAAAGCAGGGTTGGAGTGTCTCCTT-GAAAATAATGGGGTTT
1 GAAAAATTTAATATTTTGGAAATAAAAACGGGGTTAGAGTATCT-CTTCGAAATTGATGGGGTTG
*
278190 GAGTAT-CCTCGCAAT
65 GAGTATCCCTAG--AT
**
278205 GAAAAATTTAATATTTTTGGAAATAAAAATAGGGTTA-AGTATC-CTTTC-AGAATTGATGGGGT
1 GAAAAATTTAATA-TTTTGGAAATAAAAACGGGGTTAGAGTATCTC-TTCGA-AATTGATGGGGT
*
278267 TGGAGTAT-CCTCGA-
63 TGGAGTATCCCTAGAT
* * * * *
278281 GAAAAATTTATTATCTTGGAAATAAAAACGAGGTTGGAGTATCTCCTC-ATAATTGATGGGGTTG
1 GAAAAATTTAATATTTTGGAAATAAAAACGGGGTTAGAGTATCTCTTCGA-AATTGATGGGGTTG
278345 GAGTATCCC
65 GAGTATCCC
278354 CTCGGAATTG
Statistics
Matches: 252, Mismatches: 43, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
75 18 0.07
76 41 0.16
77 7 0.03
78 5 0.02
79 158 0.63
80 23 0.09
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.31
Consensus pattern (78 bp):
GAAAAATTTAATATTTTGGAAATAAAAACGGGGTTAGAGTATCTCTTCGAAATTGATGGGGTTGG
AGTATCCCTAGAT
Found at i:278160 original size:158 final size:152
Alignment explanation
Indices: 277957--278353 Score: 406
Period size: 158 Copynumber: 2.5 Consensus size: 152
277947 ATGGGGTTAT
* * * * *
277957 AGTATTCTCGAGAAAAAATTAATATTTTGGAAATAAAAATGGGGTTAGAGTATCTCTTCGGAATT
1 AGTATCCTCGAGAAAAATTTAATATTTTGGAAATAAAAA-CGGGTTGGAGTATCTCTTCGAAATT
* *
278022 GATGGGGTTGAAGTATCCCTAAGATGAAAAATTTAACA-TTTTGGAAATAAAAACGGGGTTAGAG
65 GATGGGGTTG-AGTATCCCGAA-ATGAAAAATTTAACATTTTTGGAAATAAAAACAGGGTTA-AG
*
278086 TATCCCCTTGA-AAATAAAAGGGTTGG
127 TAT-CCCTTCAGAAATAAAAGGGTTGG
* * * *
278112 AGTATCCTCGAGATGAAAATTTTAATATTTTAGAGATAAAAGCAGGGTTGGAGTGTCTCCTT-GA
1 AGTATCCTCGAGA--AAAA-TTTAATATTTTGGAAATAAAAAC-GGGTTGGAGTATCT-CTTCGA
* * * * *
278176 AAATAATGGGGTTTGAGTATCCTCGCAATGAAAAATTTAATATTTTTGGAAATAAAAATAGGGTT
61 AATTGATGGGG-TTGAGTATCC-CGAAATGAAAAATTTAACATTTTTGGAAATAAAAACAGGGTT
* * * **
278241 AAGTATCCTTTCAGAATTGATGGGGTTGG
124 AAGTATCCCTTCAGAAATAAAAGGGTTGG
* * *
278270 AGTATCCTCGAGAAAAATTTATTATCTTGGAAATAAAAACGAGGTTGGAGTATCTCCTC-ATAAT
1 AGTATCCTCGAGAAAAATTTAATATTTTGGAAATAAAAACG-GGTTGGAGTATCTCTTCGA-AAT
278334 TGATGGGGTTGGAGTATCCC
64 TGATGGGGTT-GAGTATCCC
278354 CTCGGAATTG
Statistics
Matches: 198, Mismatches: 31, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
154 7 0.04
155 59 0.30
156 4 0.02
157 9 0.05
158 90 0.45
159 29 0.15
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.31
Consensus pattern (152 bp):
AGTATCCTCGAGAAAAATTTAATATTTTGGAAATAAAAACGGGTTGGAGTATCTCTTCGAAATTG
ATGGGGTTGAGTATCCCGAAATGAAAAATTTAACATTTTTGGAAATAAAAACAGGGTTAAGTATC
CCTTCAGAAATAAAAGGGTTGG
Found at i:278343 original size:28 final size:28
Alignment explanation
Indices: 278312--278381 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
278302 ATAAAAACGA
* *
278312 GGTTGGAGTATCTCCTCATAATTGATGG
1 GGTTGGAGTATCCCCTCAGAATTGATGG
*
278340 GGTTGGAGTATCCCCTCGGAATTGATGG
1 GGTTGGAGTATCCCCTCAGAATTGATGG
*
278368 GGTTGGAATATCCC
1 GGTTGGAGTATCCC
278382 TGAGGAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTCAGAATTGATGG
Found at i:278366 original size:104 final size:104
Alignment explanation
Indices: 278236--278459 Score: 292
Period size: 104 Copynumber: 2.2 Consensus size: 104
278226 AATAAAAATA
** * * * *
278236 GGGTT-AAGTATCCTTTCAGAATTGATGGGGTTGGAGTAT-CCTCGAGAAAAATTTATTATCTTG
1 GGGTTGAAGTATCCCCTCGGAATTGATGGGGTTGGAATATCCCT-GAGAAAAATTTAATATCTTA
*
278299 GAAATAAAAACGAGGTTGGAGTA-TCTCCTCATAATTGATG
65 GAAATAAAAACGAGGTTGGAGTATTCT-CTCAGAATTGATG
* * *
278339 GGGTTGGAGTATCCCCTCGGAATTGATGGGGTTGGAATATCCCTGAGGAAAATTTAATATTTTAG
1 GGGTTGAAGTATCCCCTCGGAATTGATGGGGTTGGAATATCCCTGAGAAAAATTTAATATCTTAG
* * *
278404 AAATAAAAATGGGGTTGGAGTATTCTCTCGGAATTGATG
66 AAATAAAAACGAGGTTGGAGTATTCTCTCAGAATTGATG
278443 GGGTTGAAGTATCCCCT
1 GGGTTGAAGTATCCCCT
278460 AAGATGAAAA
Statistics
Matches: 104, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
103 5 0.05
104 93 0.89
105 6 0.06
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (104 bp):
GGGTTGAAGTATCCCCTCGGAATTGATGGGGTTGGAATATCCCTGAGAAAAATTTAATATCTTAG
AAATAAAAACGAGGTTGGAGTATTCTCTCAGAATTGATG
Found at i:280281 original size:71 final size:71
Alignment explanation
Indices: 280184--280338 Score: 292
Period size: 71 Copynumber: 2.2 Consensus size: 71
280174 AAAGGAGGTA
*
280184 GTTTTTTGGTAGTATGGTTGAGGGAAAGGCTGTTTAAGGGTGGAGATGTGAAAAAAGTTGAGTTT
1 GTTTTCTGGTAGTATGGTTGAGGGAAAGGCTGTTTAAGGGTGGAGATGTGAAAAAAGTTGAGTTT
280249 TGGGAG
66 TGGGAG
280255 GTTTTCTGGTAGTATGGTTGAGGGAAAGGCTGTTTAAGGGTGGAGATGTGAAAAAAGTTGAGTTT
1 GTTTTCTGGTAGTATGGTTGAGGGAAAGGCTGTTTAAGGGTGGAGATGTGAAAAAAGTTGAGTTT
280320 TGGGAG
66 TGGGAG
*
280326 GTTTTCTAGTAGT
1 GTTTTCTGGTAGT
280339 GGTTTTGGGG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 82 1.00
ACGTcount: A:0.25, C:0.03, G:0.38, T:0.35
Consensus pattern (71 bp):
GTTTTCTGGTAGTATGGTTGAGGGAAAGGCTGTTTAAGGGTGGAGATGTGAAAAAAGTTGAGTTT
TGGGAG
Found at i:282056 original size:60 final size:61
Alignment explanation
Indices: 281923--282149 Score: 280
Period size: 61 Copynumber: 3.7 Consensus size: 61
281913 CATTATGCTT
* * *
281923 TTTGAGGACTAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAAGTCGTCCTGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAAGGAAAGGCGTCCTACTC
* *
281984 TTTGAGAACTAAAAGGTGCCACCAACTTGTGTGAGCTTT-AAAAGGAAAGGCGTCCTACTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAGGCGTCCTACTC
* * * * *
282044 TTTGAGGACTAAAAGGTGCCATCAACCTGTGTGGGCTTTAAAAAGGAAAAGG-ATCCTATTT
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGG-AAAGGCGTCCTACTC
* ** * *
282105 TTTGAGGACCAAAAGGTGCCACTGACCTATGTGGGCTTTAAAAAG
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
282150 AAAATATGTC
Statistics
Matches: 146, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
60 53 0.36
61 65 0.45
62 28 0.19
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (61 bp):
TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAGGCGTCCTACTC
Found at i:282143 original size:121 final size:120
Alignment explanation
Indices: 281923--282152 Score: 300
Period size: 121 Copynumber: 1.9 Consensus size: 120
281913 CATTATGCTT
* *
281923 TTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAAGTCGTCCTGCTCTTTG
1 TTTGAGGACTAAAAGTGCCACCAACCTGTGTGGGCTTTAAAAAAGAAAAG-CGTCCTACTCTTTG
* * * *
281988 AGAACTAAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAGGCGTCCTACTC
65 AGAACCAAAAGGTGCCACCAACCTATGTGAGCTTTAAAAAGAAAGGCGTCCTACTC
* * * *
282044 TTTGAGGACTAAAAGGTGCCATCAACCTGTGTGGGCTTTAAAAAGGAAAAG-GATCCTATTTTTT
1 TTTGAGGACTAAAA-GTGCCACCAACCTGTGTGGGCTTTAAAAAAGAAAAGCG-TCCTACTCTTT
* ** *
282108 GAGGACCAAAAGGTGCCACTGACCTATGTGGGCTTTAAAAAGAAA
64 GAGAACCAAAAGGTGCCACCAACCTATGTGAGCTTTAAAAAGAAA
282153 ATATGTCCTG
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
120 1 0.01
121 59 0.63
122 33 0.35
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (120 bp):
TTTGAGGACTAAAAGTGCCACCAACCTGTGTGGGCTTTAAAAAAGAAAAGCGTCCTACTCTTTGA
GAACCAAAAGGTGCCACCAACCTATGTGAGCTTTAAAAAGAAAGGCGTCCTACTC
Found at i:282238 original size:62 final size:62
Alignment explanation
Indices: 282171--282288 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 62
282161 TGGGCTTTAA
* * * *
282171 AAAGGAAAAGGCATCCTACTCTTTAAGTATTAAAAGGTGCCACCAATTTGTGTGGGATTTTC
1 AAAGGAAAAGACATCCTACTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGATTTTC
** * * *
282233 AAAGGAAAAGATGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGG
1 AAAGGAAAAGACATCCTACTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGG
282289 CTTTAAAAGC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 47 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (62 bp):
AAAGGAAAAGACATCCTACTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGATTTTC
Found at i:282297 original size:148 final size:146
Alignment explanation
Indices: 282018--282296 Score: 346
Period size: 148 Copynumber: 1.9 Consensus size: 146
282008 ACTTGTGTGA
* * * *
282018 GCTTTAAAAGGAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCATCAACCTGTGTGGGCTTT
1 GCTTTAAAAGGAAAGGCATCCTACTCTTTAAGGACTAAAAGGTGCCACCAACCTGTGTGGGATTT
* **
282083 AAAAAGGAAAAGGATCCTATTTTTTGAGGACCAAAAGGTGCCACTGACCTATGTGGGCTTTAAAA
66 AAAAAGGAAAAGGATCCTATTCTTTGAGGACCAAAAGGTGCCACCAACCTATGTGGGCTTTAAAA
282148 AGAAAATATGTCCTGG
131 AGAAAATATGTCCTGG
* * **
282164 GCTTTAAAAAGGAAAAGGCATCCTACTCTTTAAGTATTAAAAGGTGCCACCAATTTGTGTGGGAT
1 GCTTT-AAAAGG-AAAGGCATCCTACTCTTTAAGGACTAAAAGGTGCCACCAACCTGTGTGGGAT
** * * * *
282229 TTTCAAAGGAAAA-GATGTCT-TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTT
64 TTAAAAAGGAAAAGGAT-CCTAT--TCTTTGAGGACCAAAAGGTGCCACCAACCTATGTGGGCTT
282292 TAAAA
126 TAAAA
282297 GCTCTTTGAG
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
146 5 0.05
147 10 0.09
148 57 0.51
149 39 0.35
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (146 bp):
GCTTTAAAAGGAAAGGCATCCTACTCTTTAAGGACTAAAAGGTGCCACCAACCTGTGTGGGATTT
AAAAAGGAAAAGGATCCTATTCTTTGAGGACCAAAAGGTGCCACCAACCTATGTGGGCTTTAAAA
AGAAAATATGTCCTGG
Found at i:282319 original size:47 final size:47
Alignment explanation
Indices: 282250--282343 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 47
282240 AAGATGTCTT
* *
282250 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
1 GCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGAGCTTTAAAA
* *
282297 GCTCTTTGAGGAC-AATATGGTGCCACCAACTCGTGTGAGTTTTAAAA
1 GCTCTTTGAGGACTAA-AAGGTGCCACCAACTCGTGTGAGCTTTAAAA
282344 AGAAAAAGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 2 0.05
47 40 0.95
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (47 bp):
GCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGAGCTTTAAAA
Found at i:282398 original size:109 final size:110
Alignment explanation
Indices: 282206--282407 Score: 248
Period size: 109 Copynumber: 1.8 Consensus size: 110
282196 AGTATTAAAA
* * * * * * * *
282206 GGTGCCACCAATTTGTGTGGGATTTTCAAAGGAAAAGATGTCTTGCTCTTTGAGGACTAAAAGGT
1 GGTGCCACCAACTCGTGTGAGATTTTAAAAGAAAAAGATGTCCTGCTCTCTAAGGACTAAAAGGT
****
282271 GCCACCAACTTGTGTGGGCTTT-AAAAGCTCTTTGAGGACAATAT
66 GCCACCAACTCAAATGGGCTTTGAAAAGCTCTTTGAGGACAATAT
*
282315 GGTGCCACCAACTCGTGTGAG-TTTTAAAAAGAAAAAGGA-GTCCTGCTCTCTAAGGACTAAAGG
1 GGTGCCACCAACTCGTGTGAGATTTT-AAAAGAAAAA-GATGTCCTGCTCTCTAAGGACTAAAAG
282378 GTGCCACCAACTCAAATGGGCTTTGAAAAG
64 GTGCCACCAACTCAAATGGGCTTTGAAAAG
282408 AAAAAGGAGT
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
108 4 0.05
109 66 0.86
110 7 0.09
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (110 bp):
GGTGCCACCAACTCGTGTGAGATTTTAAAAGAAAAAGATGTCCTGCTCTCTAAGGACTAAAAGGT
GCCACCAACTCAAATGGGCTTTGAAAAGCTCTTTGAGGACAATAT
Found at i:282632 original size:63 final size:62
Alignment explanation
Indices: 282297--283037 Score: 687
Period size: 62 Copynumber: 11.9 Consensus size: 62
282287 GGCTTTAAAA
* * *
282297 GCTCTTTGAGGAC-AATATGGTGCCACCAACTCGTGTGAGTTTTAAAAAGAAAAAGG-AGTCCT
1 GCTCTTTGAGGACTAA-AGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCA-TCCT
* * *** * *
282359 GCTCTCTAAGGACTAAAGGGTGCCACCAACTCAAATGGGCTTTGAAAAGAAAAAGG-AGTCCA
1 GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCA-TCCT
* * * * **
282421 GCTCTTTGA-AAGCTAGAA-GGTGCCACCAACTCGTTTAGGC-TT-AAAA-AAAAGGGCATTAT
1 GCTCTTTGAGGA-CTA-AAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCATCCT
* * ** * * * **
282480 GCTCTTTAAGAACTAAAGGGTGCCAGTAACTCGTGTGGGCTTTGAAAGGTAAAAGGTGTCCT
1 GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCATCCT
* * * * * * *
282542 GTTTTTTGAAGACTAGAA-GGTGACACCAATTCGTGTCGGTTTTAAAAAGAAAAAAGGCATCCT
1 GCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAAGGCATCCT
* * *
282605 GCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAATGCATCAT
1 GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCATCCT
* * *
282667 TCTCTTTGAGGACTAGAA-GGTTCTACCAACTCGTGTGGGCTTTAAAAAGAAAAAAAAAAGGCAT
1 GCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-----AAAAAGGCAT
**
282731 TTT
60 CCT
* * * **
282734 GCTCTTTGAGGACTAAAGAGTGCCACCAAATTGTGTGGGCTTTAAAAAGAAAAAAGGTGTCCT
1 GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAAGGCATCCT
* *
282797 GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTACAAAGAAAAAGGCATCTT
1 GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCATCCT
** * **
282859 GCTCTTTGAGGACTAAAATGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAAGGCATTTT
1 GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCATCCT
* * * * * *
282921 AG-TCTTTGAAGACTAAAAGGTACCACCAACTCGTGTGGCCTTTAAAAAGAAAAAAGTCATCCC
1 -GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAAGGCATCCT
* * * **
282984 ACTCTCTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAA-AAAAAG
1 GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAG
283038 AAAGGGTGCC
Statistics
Matches: 553, Mismatches: 104, Indels: 45
0.79 0.15 0.06
Matches are distributed among these distances:
58 2 0.00
59 36 0.07
60 9 0.02
61 12 0.02
62 282 0.51
63 160 0.29
66 2 0.00
67 50 0.09
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (62 bp):
GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCATCCT
Found at i:282645 original size:125 final size:124
Alignment explanation
Indices: 282297--283030 Score: 682
Period size: 125 Copynumber: 5.9 Consensus size: 124
282287 GGCTTTAAAA
* * * * *
282297 GCTCTTTGAGGACAATATGGTGCCACCAACTCGTGTGAGTTTTAAAAAG-AAAAAGG-AGTCCTG
1 GCTCTTTGAAGACTAGAAGGTGCCACCAACTCGTGTG-GCTTTAAAAAGAAAAAAGGCA-TCCTG
* * ** * *
282360 CTCTCTAAGGACTAAAGGGTGCCACCAACTCAAATGGGCTTTGAAAA-GAAAAAGGAGTCCA
64 CTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTT-AAAAGGAAAAAGGCGTCCT
* * **
282421 GCTCTTTGAA-AGCTAGAAGGTGCCACCAACTCGTTTAGGC-TT--AAA-AAAAAGGGCATTATG
1 GCTCTTTGAAGA-CTAGAAGGTGCCACCAACTCGTGT-GGCTTTAAAAAGAAAAAAGGCATCCTG
* * ** * * * *
282481 CTCTTTAAGAACTAAAGGGTGCCAGTAACTCGTGTGGGCTTTGAAAGGTAAAAGGTGTCCT
64 CTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTAAAAGGAAAAAGGCGTCCT
* * * * *
282542 GTTTTTTGAAGACTAGAAGGTGACACCAATTCGTGTCGGTTTTAAAAAGAAAAAAGGCATCCTGC
1 GCTCTTTGAAGACTAGAAGGTGCCACCAACTCGTGT-GGCTTTAAAAAGAAAAAAGGCATCCTGC
* * * *
282607 TCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAATGCATCAT
65 TCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTAAAAGGAAAAAGGCGTCCT
* * * * *
282667 TCTCTTTGAGGACTAGAAGGTTCTACCAACTCGTGTGGGCTTTAAAAAGAAAAAAAAAAGGCATT
1 GCTCTTTGAAGACTAGAAGGTGCCACCAACTCGTGT-GGCTTTAAAAAG----AAAAAAGGCATC
* * * ** * *
282732 TTGCTCTTTGAGGACTAAAGAGTGCCACCAAATTGTGTGGGCTTTAAAAAGAAAAAAGGTGTCCT
61 CTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTT-AAAAGGAAAAAGGCGTCCT
* * *
282797 GCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTACAAAG-AAAAAGGCATCTTG
1 GCTCTTTGAAGACTAGAA-GGTGCCACCAACTCGTGT-GGCTTTAAAAAGAAAAAAGGCATCCTG
** * * **
282860 CTCTTTGAGGACTAAAATGTGCCACCAACTCGTGTGGGCTTTAAAAAGG-AAAAGGCATTTT
64 CTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTT-AAAAGGAAAAAGGCGTCCT
* * * **
282921 AG-TCTTTGAAGACTAAAAGGTACCACCAACTCGTGTGGCCTTTAAAAAGAAAAAAGTCATCCCA
1 -GCTCTTTGAAGACTAGAAGGTGCCACCAACTCGTGTGG-CTTTAAAAAGAAAAAAGGCATCCTG
* * *
282985 CTCTCTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAA
64 CTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTAAAA
283031 AAAAAAGAAA
Statistics
Matches: 501, Mismatches: 89, Indels: 40
0.80 0.14 0.06
Matches are distributed among these distances:
120 3 0.01
121 89 0.18
122 4 0.01
123 5 0.01
124 83 0.17
125 209 0.42
129 53 0.11
130 55 0.11
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (124 bp):
GCTCTTTGAAGACTAGAAGGTGCCACCAACTCGTGTGGCTTTAAAAAGAAAAAAGGCATCCTGCT
CTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTAAAAGGAAAAAGGCGTCCT
Found at i:282884 original size:254 final size:250
Alignment explanation
Indices: 282297--282975 Score: 752
Period size: 254 Copynumber: 2.7 Consensus size: 250
282287 GGCTTTAAAA
*
282297 GCTCTTTGAGGAC-AATATGGTGCCACCAACTCGTGTGAGTTTTAAAAAGAAAAAGG-AGTCCTG
1 GCTCTTTGAGGACTAA-A-GGTGCCACCAACTCGTGTGGGTTTTAAAAAGAAAAAGGCA-TCCTG
* * ** * * *
282360 CTCTCTAAGGACTAAAGGGTGCCACCAACTCAAATGGGCTTTGAAAAGAAAAAGGAGTCCA-GCT
63 CTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAGCA-T-CATTCT
* * * * *
282424 CTTTGAAAGCTAGAAGGTGCCACCAACTCGTTTAGGC-TT-------AAAAAAAAGGGCATTATG
126 CTTTGAGA-CTAGAAGGTACCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAAAAAGGCATTATG
* ** * * **
282481 CTCTTTAAGAACTAAAGGGTGCCAGTAACTCGTGTGGGCTTTGAAAGGTAAAAGGTGTCCT
190 CTCTTTAAGAACTAAAGAGTGCCACCAAATCGTGTGGGCTTTAAAAGAAAAAAGGTGTCCT
* * * * * *
282542 GTTTTTTGAAGACTAGAAGGTGACACCAATTCGTGTCGGTTTTAAAAAGAAAAAAGGCATCCTGC
1 GCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGTTTTAAAAAG-AAAAAGGCATCCTGC
282607 TCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAATGCATCATTCTCT
64 TCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAA-GCATCATTCTCT
* * *
282672 TTGAGGACTAGAAGGTTCTACCAACTCGTGTGGGCTTTAAAAAGAAAAAAAAAAGGCATTTTGCT
128 TTGA-GACTAGAAGGTACCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAAAAAGGCATTATGCT
* * *
282737 CTTTGAGGACTAAAGAGTGCCACCAAATTGTGTGGGCTTTAAAAAGAAAAAAGGTGTCCT
192 CTTTAAGAACTAAAGAGTGCCACCAAATCGTGTGGGCTTT-AAAAGAAAAAAGGTGTCCT
* * *
282797 GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTACAAAGAAAAAGGCATCTTGCT
1 GCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGTTTTAAAAAGAAAAAGGCATCCTGCT
** * * * *
282862 CTTTGAGGACTAAAATGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAAGGCAT-TTTAGTCT
65 CTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTAAAAA-GAAAAAGCATCATT-CTCT
* *
282926 TTGAAGACTAAAAGGTACCACCAACTCGTGTGGCCTTTAAAAAGAAAAAA
128 TTG-AGACTAGAAGGTACCACCAACTCGTGTGGGCTTTAAAAAGAAAAAA
282976 GTCATCCCAC
Statistics
Matches: 364, Mismatches: 50, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
245 39 0.11
246 95 0.26
247 7 0.02
253 2 0.01
254 161 0.44
255 60 0.16
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (250 bp):
GCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGTTTTAAAAAGAAAAAGGCATCCTGCTC
TTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAGCATCATTCTCTTTG
AGACTAGAAGGTACCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAAAAAGGCATTATGCTCTTT
AAGAACTAAAGAGTGCCACCAAATCGTGTGGGCTTTAAAAGAAAAAAGGTGTCCT
Found at i:284379 original size:22 final size:22
Alignment explanation
Indices: 284339--284380 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
284329 CTTTGCTCTT
*
284339 TTTCATTTTTTGTTTCTTTGTG
1 TTTCATTTTTTGTTGCTTTGTG
284361 TTTCATATTTTTG-TGCTTTG
1 TTTCAT-TTTTTGTTGCTTTG
284381 GCCCTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.07, C:0.10, G:0.14, T:0.69
Consensus pattern (22 bp):
TTTCATTTTTTGTTGCTTTGTG
Found at i:287900 original size:32 final size:33
Alignment explanation
Indices: 287843--287905 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
287833 GACCTAGAAG
* *
287843 TATCAATACATATTGCTTTGTATCGATACACTA
1 TATCAATACATAATGCTTGGTATCGATACACTA
*
287876 TATCGATACATAAT-CTTGGTATCGATACAC
1 TATCAATACATAATGCTTGGTATCGATACAC
287906 AACGAATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (33 bp):
TATCAATACATAATGCTTGGTATCGATACACTA
Found at i:287973 original size:13 final size:13
Alignment explanation
Indices: 287955--287980 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
287945 CTAAGTGAAA
287955 TGTATCGATACAT
1 TGTATCGATACAT
287968 TGTATCGATACAT
1 TGTATCGATACAT
287981 AGTGAAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:290577 original size:78 final size:79
Alignment explanation
Indices: 290495--290762 Score: 242
Period size: 79 Copynumber: 3.4 Consensus size: 79
290485 AAATTTAATA
* * * *
290495 TTTTGGAGATAAAAATGGGGTTGGAGTATCCTTTCGAAAATAA-TGAGGTTAGA-TATCCCCGA-
1 TTTTGGAGATAAAAATGGGGTTGGAGTATCCCTTCAAAAACAACAG-GGTTAGAGTATCCCCGAT
*
290557 TGAGAGAAAATTGATG
65 TGAGA-AAAATCGATG
* ** * * * *
290573 TTTTGGAAATAAAACCGAGTTTGGAGTATCCCTTCAAAAACAACAGGGTTGGAGTATCCCTGATT
1 TTTTGGAGATAAAAATGGGGTTGGAGTATCCCTTCAAAAACAACAGGGTTAGAGTATCCCCGATT
* *
290638 GTGAAAAATCGGTG
66 GAGAAAAATCGATG
* * * * *
290652 TTTTAGAGAT-AAAATCGGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCTCCGAT
1 TTTTGGAGATAAAAAT-GGGGTTGGAGTATCCCTTCAAAAACAACAGGGTTAGAGTATCCCCGAT
290716 T-ATGAAAAATCGATG
65 TGA-GAAAAATCGATG
* * * *
290731 TTTTAGAAAT-AAAATCGAGGTTGGAGGATCCC
1 TTTTGGAGATAAAAAT-GGGGTTGGAGTATCCC
290763 CGATTGTGGA
Statistics
Matches: 156, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
78 44 0.28
79 108 0.69
80 4 0.03
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (79 bp):
TTTTGGAGATAAAAATGGGGTTGGAGTATCCCTTCAAAAACAACAGGGTTAGAGTATCCCCGATT
GAGAAAAATCGATG
Found at i:290664 original size:79 final size:79
Alignment explanation
Indices: 290563--290763 Score: 287
Period size: 79 Copynumber: 2.5 Consensus size: 79
290553 CCGATGAGAG
* * * * *
290563 AAAATTGATGTTTTGGAAATAAAACCGAGTTTGGAGTATCCCTTCAAAAACAACAGGGTTGGAGT
1 AAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAACAACAGGGTTGGAGT
*
290628 ATC-CCTGATTGTGA
66 ATCTCC-GATTATGA
* * * *
290642 AAAATCGGTGTTTTAGAGATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGT
1 AAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAACAACAGGGTTGGAGT
290707 ATCTCCGATTATGA
66 ATCTCCGATTATGA
*
290721 AAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGGATCCCC
1 AAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCC
290764 GATTGTGGAA
Statistics
Matches: 107, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
79 105 0.98
80 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
AAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAACAACAGGGTTGGAGT
ATCTCCGATTATGA
Found at i:290766 original size:51 final size:51
Alignment explanation
Indices: 290695--290814 Score: 154
Period size: 51 Copynumber: 2.4 Consensus size: 51
290685 TCAAAAATAA
* * *
290695 CAGGGTTGGAGTATCTCCGATTATGAAAAATC-GATGTTTTAGAAATAAAAT
1 CAGGGTTGGAGTATCCCCGATTATGAAAAACCAG-TGTTTTAGAAATAAAAC
* * *
290746 C-GAGGTTGGAGGATCCCCGATTGTGGAAAACCAGTGTTTTAGAAATAAAAC
1 CAG-GGTTGGAGTATCCCCGATTATGAAAAACCAGTGTTTTAGAAATAAAAC
290797 CAGGGTTGGAGTATCCCC
1 CAGGGTTGGAGTATCCCC
290815 TCAAAAATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 1 0.02
51 56 0.95
52 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (51 bp):
CAGGGTTGGAGTATCCCCGATTATGAAAAACCAGTGTTTTAGAAATAAAAC
Found at i:290785 original size:130 final size:130
Alignment explanation
Indices: 290619--290874 Score: 365
Period size: 130 Copynumber: 2.0 Consensus size: 130
290609 AAAACAACAG
* * * * * * *
290619 GGTTGGAGTATCCCTGATTGTGAAAAATCGGTGTTTTAGAGATAAAATCGGGGTTGGAGTATCCC
1 GGTTGGAGGATCCCCGATTGTGAAAAACCAGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCC
* *
290684 CTCAAAAATAAC-AGGGTT-GGAGTATCTCCGATTA-TGAAAAATCGATGTTTTAGAAATAAAAT
66 CTCAAAAATAACGA-GGTTAGG-GTATCCCCGA-TAGTGAAAAATCGATATTTTAGAAATAAAAT
290746 CGA
128 CGA
*
290749 GGTTGGAGGATCCCCGATTGTGGAAAACCAGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCC
1 GGTTGGAGGATCCCCGATTGTGAAAAACCAGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCC
*
290814 CTCAAAAATAACGAGGTTAGGGTATCCCCGATAGTGAAAAATCGGTATTTTAGAAATAAAA
66 CTCAAAAATAACGAGGTTAGGGTATCCCCGATAGTGAAAAATCGATATTTTAGAAATAAAA
290875 ACATGAATGA
Statistics
Matches: 112, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
129 2 0.02
130 107 0.96
131 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.27
Consensus pattern (130 bp):
GGTTGGAGGATCCCCGATTGTGAAAAACCAGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCC
CTCAAAAATAACGAGGTTAGGGTATCCCCGATAGTGAAAAATCGATATTTTAGAAATAAAATCGA
Found at i:293268 original size:50 final size:50
Alignment explanation
Indices: 293212--293345 Score: 205
Period size: 50 Copynumber: 2.7 Consensus size: 50
293202 AAAATGCTTG
* * *
293212 AATGTATCGATACATTGAAAAATGTATCAATATATCTGGGTAAAACCCAA
1 AATGTATCGATACAATGAAGAATGTATCAATACATCTGGGTAAAACCCAA
* *
293262 AATGTATCAATACAATGAAGAATGTATCAATACATCTGGGTAAAACCCAG
1 AATGTATCGATACAATGAAGAATGTATCAATACATCTGGGTAAAACCCAA
* *
293312 AATGTATCGATACAATGAAGGATGTATCGATACA
1 AATGTATCGATACAATGAAGAATGTATCAATACA
293346 AATCGTTGAA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (50 bp):
AATGTATCGATACAATGAAGAATGTATCAATACATCTGGGTAAAACCCAA
Found at i:297406 original size:33 final size:33
Alignment explanation
Indices: 297369--297434 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
297359 AAATTCCTAG
297369 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCGATACAAAGAAT-AATGTATCGATACA
* **
297402 ATGTATTGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
297435 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:298090 original size:78 final size:75
Alignment explanation
Indices: 298007--298466 Score: 241
Period size: 79 Copynumber: 5.9 Consensus size: 75
297997 AACAGGGTTG
**
298007 GAGTATCTCCTCAGAAATAATGGGGTTGGAGTATCCCCAAGGGTAAATTTAATATTTTTAGGAA-
1 GAGTATC-CCTCAGAAATAATGGGGTTGGAGTATCCCCAA-GAAAAATTTAATA-TTTT-GGAAT
*
298071 TAGAAACGA-GACTA
62 TAAAAAC-ATGACTA
** * *
298085 GAGTATCCCTTCAGAAATAATGCAGTTAGAGTATCCCCGAGAAAAATTTAATATTTTGGAATTAA
1 GAGTATCCC-TCAGAAATAATGGGGTTGGAGTATCCCCAAGAAAAATTTAATATTTTGGAATTAA
** *
298150 AAACATGGTTG
65 AAACATGACTA
* * * * *
298161 GAGTATCCCCTCAGAATTGATGGGGTTGGAGTATCCTCGAGATGAAAAATTTAACATTTTGGAAA
1 GAGTAT-CCCTCAGAAATAATGGGGTTGGAGTATCC-CCA-A-GAAAAATTTAATATTTTGGAAT
* * * ** *
298226 TACAAATAGGGTTG
62 TAAAAACATGACTA
** * *
298240 GAGTATCCCCTC-GAACATAACAGGGTTGGAGTATCCCTGAGATGAAAAATTTAATATTTTAGAG
1 GAGTAT-CCCTCAGAA-ATAATGGGGTTGGAGTATCCC-CA-A-GAAAAATTTAATATTTTGGA-
* ** *
298304 A-TAAAAGCGA-GGTTG
60 ATTAAAAAC-ATGACTA
** *
298319 GAGTATCCCCTC-GAAAATAATGGGAATGGAGTATCCCTGAGATGAAAAATTTAATATTTTTGGA
1 GAGTAT-CCCTCAG-AAATAATGGGGTTGGAGTATCCC-CA-A-GAAAAATTTAATA-TTTTGGA
* *** *
298383 AATAAAAATGGGGCTA
60 ATTAAAAACATGACTA
* * * * ** * *
298399 GAGTATTCCATC-GAAATTGATTGGGTTAGAGTATCCCCAAGGGAAATTTAATATCTTGGAAATA
1 GAGTA-TCCCTCAGAAA-TAATGGGGTTGGAGTATCCCCAAGAAAAATTTAATATTTTGGAATTA
298463 AAAA
64 AAAA
298467 TGGGGTTGGA
Statistics
Matches: 314, Mismatches: 51, Indels: 36
0.78 0.13 0.09
Matches are distributed among these distances:
75 5 0.02
76 53 0.17
77 28 0.09
78 39 0.12
79 145 0.46
80 43 0.14
81 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (75 bp):
GAGTATCCCTCAGAAATAATGGGGTTGGAGTATCCCCAAGAAAAATTTAATATTTTGGAATTAAA
AACATGACTA
Found at i:298242 original size:79 final size:78
Alignment explanation
Indices: 298125--298511 Score: 379
Period size: 79 Copynumber: 4.9 Consensus size: 78
298115 GTATCCCCGA
* * *
298125 GAAAAATTTAATATTTTGGAATTAAAAACATGGTTGGAGTATCCCCTCAGAATTGATGGGGTTGG
1 GAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTC-GAATTGATGGGGTTGG
298190 AGTAT-CCTCGAGAT
65 AGTATCCCT-GAGAT
* * * * **
298204 GAAAAATTTAACATTTTGGAAATACAAATAGGGTTGGAGTATCCCCTCGAACATAACAGGGTTGG
1 GAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTCGAA-TTGATGGGGTTGG
298269 AGTATCCCTGAGAT
65 AGTATCCCTGAGAT
* * ** * * **
298283 GAAAAATTTAATATTTTAGAGAT-AAAAGCGAGGTTGGAGTATCCCCTCGAAAATAATGGGAATG
1 GAAAAATTTAATATTTTGGAAATAAAAATAG-GGTTGGAGTATCCCCTCG-AATTGATGGGGTTG
298347 GAGTATCCCTGAGAT
64 GAGTATCCCTGAGAT
* * * * * * *
298362 GAAAAATTTAATATTTTTGGAAATAAAAATGGGGCTAGAGTATTCCATCGAAATTGATTGGGTTA
1 GAAAAATTTAATA-TTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTCG-AATTGATGGGGTTG
*
298427 GAGTATCCC-CA-A-
64 GAGTATCCCTGAGAT
** * * * * *
298439 GGGAAATTTAATATCTTGGAAATAAAAATGGGGTTGGAGTATCTCCTTAGAATTGATGAGGTTGG
1 GAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGTATC-CCCTCGAATTGATGGGGTTGG
298504 AGTATCCC
65 AGTATCCC
298512 CTCGGAATTG
Statistics
Matches: 256, Mismatches: 45, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
76 46 0.18
77 15 0.06
78 8 0.03
79 137 0.54
80 45 0.18
81 5 0.02
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (78 bp):
GAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTCGAATTGATGGGGTTGGA
GTATCCCTGAGAT
Found at i:298321 original size:158 final size:155
Alignment explanation
Indices: 297975--298511 Score: 452
Period size: 158 Copynumber: 3.4 Consensus size: 155
297965 GATGGTGAAG
* * * * * *
297975 AATTTGATATTTTGGAAGTGACAAC-AGGGTTGGAGTATCTCCTCAGAAATAATGGGGTTGGAGT
1 AATTTAATATTTTGGAA-TAAAAACGA-GGTTGGAGTATCCCCTCAGAATTGATGGGGTTGGAGT
* * ** * * * * *
298039 ATCCC-CA-AGGGTAAATTTAATATTTTTAGG-AATAGAAA-CGAGACTAGAGTATCCCTTCAGA
64 ATCCCTGAGATGAAAAATTTAACATTTTT-GGAAATAAAAATAG-GGCTAGAGTATCCCATC-GA
*
298100 AA-TAATGCA--GTTAGAGTATCCCCGAGAAA
126 AATTAA--CAGGGTTAGAGTATCCCCAAGAAA
298129 AATTTAATATTTTGGAATTAAAAAC-ATGGTTGGAGTATCCCCTCAGAATTGATGGGGTTGGAGT
1 AATTTAATATTTTGGAA-TAAAAACGA-GGTTGGAGTATCCCCTCAGAATTGATGGGGTTGGAGT
* * * *
298193 AT-CCTCGAGATGAAAAATTTAACA-TTTTGGAAATACAAATAGGGTTGGAGTATCCCCTCGAAC
64 ATCCCT-GAGATGAAAAATTTAACATTTTTGGAAATAAAAATAGGGCTAGAGTATCCCATCGAA-
* *
298256 A-TAACAGGGTTGGAGTATCCCTGAGATGAAA
127 ATTAACAGGGTTAGAGTATCCC-CA-A-GAAA
* * * * **
298287 AATTTAATATTTTAGAGATAAAAGCGAGGTTGGAGTATCCCCTC-GAAAATAATGGGAATGGAGT
1 AATTTAATATTTTGGA-ATAAAAACGAGGTTGGAGTATCCCCTCAG-AATTGATGGGGTTGGAGT
* * *
298351 ATCCCTGAGATGAAAAATTTAATATTTTTGGAAATAAAAATGGGGCTAGAGTATTCCATCGAAAT
64 ATCCCTGAGATGAAAAATTTAACATTTTTGGAAATAAAAATAGGGCTAGAGTATCCCATCGAAAT
* ** **
298416 TGATTGGGTTAGAGTATCCCCAAGGGA
129 TAACAGGGTTAGAGTATCCCCAAGAAA
* * * * * *
298443 AATTTAATATCTTGGAAATAAAAATGGGGTTGGAGTATCTCCTTAGAATTGATGAGGTTGGAGTA
1 AATTTAATATTTTGG-AATAAAAACGAGGTTGGAGTATCCCCTCAGAATTGATGGGGTTGGAGTA
298508 TCCC
65 TCCC
298512 CTCGGAATTG
Statistics
Matches: 310, Mismatches: 54, Indels: 36
0.77 0.14 0.09
Matches are distributed among these distances:
153 4 0.01
154 63 0.20
155 41 0.13
156 67 0.22
157 5 0.02
158 77 0.25
159 53 0.17
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (155 bp):
AATTTAATATTTTGGAATAAAAACGAGGTTGGAGTATCCCCTCAGAATTGATGGGGTTGGAGTAT
CCCTGAGATGAAAAATTTAACATTTTTGGAAATAAAAATAGGGCTAGAGTATCCCATCGAAATTA
ACAGGGTTAGAGTATCCCCAAGAAA
Found at i:298501 original size:28 final size:28
Alignment explanation
Indices: 298469--298539 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
298459 AATAAAAATG
* *
298469 GGGTTGGAGTATCTCCTTAGAATTGA-T
1 GGGTTGGAGTATCCCCTCAGAATTGATT
*
298496 GAGGTTGGAGTATCCCCTCGGAATTGATT
1 G-GGTTGGAGTATCCCCTCAGAATTGATT
298525 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
298540 TAAGGAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 1 0.03
28 36 0.92
29 2 0.05
ACGTcount: A:0.20, C:0.15, G:0.32, T:0.32
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCTCAGAATTGATT
Found at i:298597 original size:104 final size:104
Alignment explanation
Indices: 298399--298600 Score: 289
Period size: 104 Copynumber: 1.9 Consensus size: 104
298389 AATGGGGCTA
* *
298399 GAGTATTCCATCGAAATTGATTGGGTTAGAGTATCCCCAAGGGAAATTTAATATCTTGGAAATAA
1 GAGTATCCCATCGAAATTGATTGGGTTAGAGTATCCCCAAGGAAAATTTAATATCTTGGAAATAA
** * * *
298464 AAATGGGGTTGGAGTATCTCCTTAGAATTGATGAGGTTG
66 AAACAGGGTTAGAATATCCCCTTAGAATTGATGAGGTTG
* * * *
298503 GAGTATCCCCTCGGAATTGATTGGGTTGGAGTATCCCTAAGGAAAATTTAATATCTTGGAAATAA
1 GAGTATCCCATCGAAATTGATTGGGTTAGAGTATCCCCAAGGAAAATTTAATATCTTGGAAATAA
298568 AAACAGGGTTAGAATATCCCCTT-GAAATTGATG
66 AAACAGGGTTAGAATATCCCCTTAG-AATTGATG
298601 GGGTCTAAGA
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
103 1 0.01
104 85 0.99
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (104 bp):
GAGTATCCCATCGAAATTGATTGGGTTAGAGTATCCCCAAGGAAAATTTAATATCTTGGAAATAA
AAACAGGGTTAGAATATCCCCTTAGAATTGATGAGGTTG
Found at i:300689 original size:21 final size:20
Alignment explanation
Indices: 300659--300734 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
300649 TTCTACAATT
*
300659 TGTATTGATACAAATAGTAAA
1 TGTATCGATACAAA-AGTAAA
* *
300680 TGTATCGATACATAAGTGAA
1 TGTATCGATACAAAAGTAAA
* * **
300700 TGTATCAATACATACCTAAAA
1 TGTATCGATACAAAAGT-AAA
300721 T-TATCGATACAAAA
1 TGTATCGATACAAAA
300735 CCACCCTGCA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
20 29 0.66
21 15 0.34
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (20 bp):
TGTATCGATACAAAAGTAAA
Found at i:300703 original size:20 final size:21
Alignment explanation
Indices: 300659--300713 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
300649 TTCTACAATT
* *
300659 TGTATTGATACAAATAGTAAA
1 TGTATCGATACATATAGTAAA
*
300680 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATATAGTAAA
*
300700 TGTATCAATACATA
1 TGTATCGATACATA
300714 CCTAAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATATAGTAAA
Found at i:300807 original size:22 final size:22
Alignment explanation
Indices: 300779--300850 Score: 89
Period size: 20 Copynumber: 3.5 Consensus size: 22
300769 CATAAGTAAA
*
300779 TGTATCGATACATGCTTTCAAT
1 TGTATCGATACATGTTTTCAAT
300801 TGTATCGATACA-GTTTTC-AT
1 TGTATCGATACATGTTTTCAAT
*
300821 TGTATTGATACAT-TTTTCAA-
1 TGTATCGATACATGTTTTCAAT
*
300841 TGTATAGATA
1 TGTATCGATA
300851 GATACATGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
20 27 0.60
21 6 0.13
22 12 0.27
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.44
Consensus pattern (22 bp):
TGTATCGATACATGTTTTCAAT
Found at i:302661 original size:20 final size:19
Alignment explanation
Indices: 302615--302670 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
302605 TTGTATCAAT
*
302615 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
302634 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
302653 ACAATTGTATCGATACAT
1 AC-ATTGTATCGATACAT
302671 AAAATTGGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:304437 original size:79 final size:79
Alignment explanation
Indices: 304348--304653 Score: 344
Period size: 79 Copynumber: 3.9 Consensus size: 79
304338 TTCATCTCGG
* * ** *
304348 GGATACTCTAACCCCGGTTTTATTTCTAAAATACTGATTTTTCACCATTGGGGATACTCTAACCC
1 GGATACTCTAACCCCAGTTTTATTTCTAAAACACTGATTTTTCACCATCAGGGATACTCCAACCC
*
304413 CATTATTTTCGAAA
66 CATTATTTTCGAGA
** *
304427 GGATACTCTAACCCCAGTTTTATTTCTAAAACACAAAATTTTCACCATCAGGGATACTCCAACCC
1 GGATACTCTAACCCCAGTTTTATTTCTAAAACACTGATTTTTCACCATCAGGGATACTCCAACCC
**
304492 CATTATTTTTTAGA
66 CATTATTTTCGAGA
* *** * * *
304506 GGATACTCTAATCTTGGTTTTATTTCTAAAACATTGATTTTTCACCATCGGGGATACTCCAACCT
1 GGATACTCTAACCCCAGTTTTATTTCTAAAACACTGATTTTTCACCATCAGGGATACTCCAACCC
** *
304571 TGTTATTTTCGAGG
66 CATTATTTTCGAGA
* * * * * * *
304585 GGATACTCCAACCCTAGTTTTAGTTCTAAAATA-TCGATTTTCCACTATCAGGGATACTCCAATC
1 GGATACTCTAACCCCAGTTTTATTTCTAAAACACT-GATTTTTCACCATCAGGGATACTCCAACC
304649 CCATT
65 CCATT
304654 TTCATTTTCA
Statistics
Matches: 187, Mismatches: 39, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
78 1 0.01
79 186 0.99
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (79 bp):
GGATACTCTAACCCCAGTTTTATTTCTAAAACACTGATTTTTCACCATCAGGGATACTCCAACCC
CATTATTTTCGAGA
Found at i:304636 original size:158 final size:157
Alignment explanation
Indices: 304348--304653 Score: 407
Period size: 158 Copynumber: 1.9 Consensus size: 157
304338 TTCATCTCGG
* * *
304348 GGATACTCTAACCCCGGTTTTATTTCTAAAATACTGATTTTTCACCATTGGGGATACTCTAACCC
1 GGATACTCTAACCCCGGTTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCCAACCC
* *
304413 CATTATTTTCGAAAGGATACTCTAACCCCAGTTTTATTTCTAAAACACAAAATTTTCACCATCAG
66 CATTATTTTCGAAAGGATACTCCAACCCCAGTTTTAGTTCTAAAACAC-AAATTTTCACCATCAG
304478 GGATACTCCAACCCCATTATTTTTTAGA
130 GGATACTCCAACCCCATTATTTTTTAGA
* ** * *
304506 GGATACTCTAATCTTGGTTTTATTTCTAAAACATTGATTTTTCACCATCGGGGATACTCCAACCT
1 GGATACTCTAACCCCGGTTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCCAACCC
** ** * * * *
304571 TGTTATTTTCGAGGGGATACTCCAACCCTAGTTTTAGTTCTAAAATATC-GATTTTCCACTATCA
66 CATTATTTTCGAAAGGATACTCCAACCCCAGTTTTAGTTCTAAAACA-CAAATTTT-CACCATCA
*
304635 GGGATACTCCAATCCCATT
129 GGGATACTCCAACCCCATT
304654 TTCATTTTCA
Statistics
Matches: 127, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
157 5 0.04
158 121 0.95
159 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (157 bp):
GGATACTCTAACCCCGGTTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCCAACCC
CATTATTTTCGAAAGGATACTCCAACCCCAGTTTTAGTTCTAAAACACAAATTTTCACCATCAGG
GATACTCCAACCCCATTATTTTTTAGA
Found at i:304847 original size:78 final size:77
Alignment explanation
Indices: 304637--304847 Score: 185
Period size: 78 Copynumber: 2.7 Consensus size: 77
304627 CACTATCAGG
* * * *
304637 GATACTCCAATCCC-ATTTTCATTTTCAAAACATTAAATTTTTTTATCTGAGGGATACTCCAACC
1 GATACTCCAA-CCCGATTTT-ATTTCCAAAATATCAAA-TTTTTCAT-TGAGGGATACTCCAACC
304701 CCGTTATTCTCAAAGA
62 CCGTTATTCTCAAAGA
* * **
304717 GATACTCTAACCCGAATTTATTTCCAAAATA-CTGATTTTTCACCATT-AGGGATACTCCAACCC
1 GATACTCCAACCCGATTTTATTTCCAAAATATCAAATTTTT---CATTGAGGGATACTCCAACCC
* * ****
304780 TGTTATTTTTGGGGA
63 CGTTATTCTCAAAGA
* *
304795 GATACTCCAACCCCGATTTTATCTCCAAAATATCAAATTTTTCATTGGGGGAT
1 GATACTCCAA-CCCGATTTTATTTCCAAAATATCAAATTTTTCATTGAGGGAT
304848 GTACCCCTAC
Statistics
Matches: 104, Mismatches: 20, Indels: 16
0.74 0.14 0.11
Matches are distributed among these distances:
77 9 0.09
78 40 0.38
79 33 0.32
80 22 0.21
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.36
Consensus pattern (77 bp):
GATACTCCAACCCGATTTTATTTCCAAAATATCAAATTTTTCATTGAGGGATACTCCAACCCCGT
TATTCTCAAAGA
Found at i:305691 original size:13 final size:13
Alignment explanation
Indices: 305673--305697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
305663 ATTTTGCTTA
305673 GTATCGATACATT
1 GTATCGATACATT
305686 GTATCGATACAT
1 GTATCGATACAT
305698 AAACTGGCAG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:307894 original size:21 final size:21
Alignment explanation
Indices: 307870--307928 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
307860 TAATATTCTT
* *
307870 GAAAAGAAATTAAGTGAATTA
1 GAAAAGAAAATAAATGAATTA
307891 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
** *
307912 GAGGAGAAAAGAAATGA
1 GAAAAGAAAATAAATGA
307929 GTTGCAAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:311493 original size:13 final size:13
Alignment explanation
Indices: 311475--311500 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
311465 CATTTTGGGA
311475 TGTATCGATACAT
1 TGTATCGATACAT
311488 TGTATCGATACAT
1 TGTATCGATACAT
311501 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:311497 original size:33 final size:32
Alignment explanation
Indices: 311455--311518 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
311445 TACAAGCCAA
*
311455 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
* *
311488 TGTATCGATACATCTTGTGTGTATTGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
311519 AACAGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:312019 original size:33 final size:33
Alignment explanation
Indices: 311982--312048 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
311972 TTCAACGATT
311982 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
312015 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
312048 T
1 T
312049 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:312020 original size:13 final size:13
Alignment explanation
Indices: 312002--312026 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
311992 CATAAAATGT
312002 TGTATCGATACAA
1 TGTATCGATACAA
312015 TGTATCGATACA
1 TGTATCGATACA
312027 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:312108 original size:13 final size:13
Alignment explanation
Indices: 312090--312114 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
312080 ATTACTCAAA
312090 TGTATCGATACAT
1 TGTATCGATACAT
312103 TGTATCGATACA
1 TGTATCGATACA
312115 CCGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:312165 original size:52 final size:53
Alignment explanation
Indices: 312103--312242 Score: 187
Period size: 52 Copynumber: 2.7 Consensus size: 53
312093 ATCGATACAT
*** *
312103 TGTATCGATACACCGAT-CTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACCGATAAAATGTATCGATACATGCAAGCAAATTTGCCCAGA
**
312155 TGTATCGATACA-TTATAAAATGTATCGATACATGCAAGCAAATTTGCCCAGA
1 TGTATCGATACACCGATAAAATGTATCGATACATGCAAGCAAATTTGCCCAGA
* *
312207 TGTATCGATACA-CTATTAAATGTATCGATACATGCA
1 TGTATCGATACACCGATAAAATGTATCGATACATGCA
312243 GATAAATTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 2 0.03
52 77 0.97
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (53 bp):
TGTATCGATACACCGATAAAATGTATCGATACATGCAAGCAAATTTGCCCAGA
Found at i:312250 original size:52 final size:52
Alignment explanation
Indices: 312123--312251 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
312113 CACCGATCTT
* *
312123 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
*
312175 TGTATCGATACATGCA-AGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGA-CAAATTTGCCCAGATGTATCGATACACTATAAAA
*
312227 TGTATCGATACATGCAGATAAATTT
1 TGTATCGATACATGCAGACAAATTT
312252 TCATATTTCG
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
52 70 0.99
53 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
Done.