Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005606.1 Hibiscus syriacus cultivar Beakdansim tig00013040_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3509357
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 11
Found at i:976503 original size:34 final size:34
Alignment explanation
Indices: 976441--976505 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
976431 GTATTATAAG
**
976441 CATAAAAGAATAATGCACATGGGAGCATTATCGA
1 CATAAAAGAATAATGCACATACGAGCATTATCGA
* *
976475 CATAAAAGAATAATGCATATACGTGCATTAT
1 CATAAAAGAATAATGCACATACGAGCATTAT
976506 TGGCATGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.25
Consensus pattern (34 bp):
CATAAAAGAATAATGCACATACGAGCATTATCGA
Found at i:976539 original size:113 final size:112
Alignment explanation
Indices: 976353--976584 Score: 306
Period size: 113 Copynumber: 2.1 Consensus size: 112
976343 GCATATGAGC
* *
976353 GCATTATCAGCATAAAAAAATAATACATATGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
1 GCATTATCAGCATAAAAAAATAATACATATCGTGCATTATTGGCATGAAAGGAAGCCATAGCTGA
* ** * *
976418 AATGCATATGGGTGTATTATA-AGCATAAAAGAATAATGCACATGGGA
66 AATACATATGACTGCATTATAGA-CATAAAAAAATAATGCACATGGGA
* * *
976465 GCATTATC-GACATAAAAGAATAATGCATATACGTGCATTATTGGCATGAAATGAAGCCATAGCT
1 GCATTATCAG-CATAAAAAAATAATACATAT-CGTGCATTATTGGCATGAAAGGAAGCCATAGCT
* * *
976529 GAAATACATATGACTGCATTATCGACATAAAAAAATAATGCATATGGGT
64 GAAATACATATGACTGCATTATAGACATAAAAAAATAATGCACATGGGA
976578 GCATTAT
1 GCATTAT
976585 TGGCATGAAA
Statistics
Matches: 104, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
111 1 0.01
112 26 0.25
113 76 0.73
114 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (112 bp):
GCATTATCAGCATAAAAAAATAATACATATCGTGCATTATTGGCATGAAAGGAAGCCATAGCTGA
AATACATATGACTGCATTATAGACATAAAAAAATAATGCACATGGGA
Found at i:976629 original size:45 final size:45
Alignment explanation
Indices: 976565--976708 Score: 166
Period size: 45 Copynumber: 3.4 Consensus size: 45
976555 ATAAAAAAAT
976565 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
***
976610 AATGCATATGGGTGCATTATCATCAT-AAA--A-G--A-A--T--
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
* *
976644 AATGCATATGGGTGTATTATTGGCATGAATGGATGCCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
976689 AATGCATATGGGTGCATTAT
1 AATGCATATGGGTGCATTAT
976709 CGACATAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
34 22 0.28
35 2 0.03
36 1 0.01
37 1 0.01
38 2 0.03
39 1 0.01
40 1 0.01
41 2 0.03
42 1 0.01
43 1 0.01
44 3 0.04
45 42 0.53
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
Found at i:976771 original size:79 final size:79
Alignment explanation
Indices: 976452--976758 Score: 472
Period size: 79 Copynumber: 3.9 Consensus size: 79
976442 ATAAAAGAAT
* * ** *
976452 AATGCACATGGGAGCATTATCGACATAAAAGAATAATGCATATACGTGCATTATTGGCATGAAAT
1 AATGCATATGGGTGCATTATCGACATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAG
*
976517 GAAGCCATAGCTGA
66 GATGCCATAGCTGA
* ** *
976531 AATACATATGACTGCATTATCGACATAAAAAAATAATGCATATGGGTGCATTATTGGCATGAAAG
1 AATGCATATGGGTGCATTATCGACATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAG
976596 GATGCCATAGCTGA
66 GATGCCATAGCTGA
* *
976610 AATGCATATGGGTGCATTATC-ATCATAAAAGAATAATGCATATGGGTGTATTATTGGCATGAAT
1 AATGCATATGGGTGCATTATCGA-CATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAA
976674 GGATGCCATAGCTGA
65 GGATGCCATAGCTGA
* *
976689 AATGCATATGGGTGCATTATCGACATAAAAGAATAATGCATATGTGTGCATTATTGGCATTAAAG
1 AATGCATATGGGTGCATTATCGACATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAG
976754 GATGC
66 GATGC
976759 TATAAATAAA
Statistics
Matches: 206, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
78 1 0.00
79 204 0.99
80 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (79 bp):
AATGCATATGGGTGCATTATCGACATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAG
GATGCCATAGCTGA
Found at i:980991 original size:79 final size:79
Alignment explanation
Indices: 980858--981183 Score: 481
Period size: 79 Copynumber: 4.1 Consensus size: 79
980848 GAACGAATGA
*
980858 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATTGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
*
980923 GGTGCATTTTCGAC
66 GGTGCATTATCGAC
*
980937 ATAAAAGAATAATGCATATGGGTGCACTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
981002 GGTGCATTATCGAC
66 GGTGCATTATCGAC
* * * * *
981016 TTAAAAAAATAATGCACATGGGTGCATTATTAGCATGAAAGGATACCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
* *
981081 GGTGCATTAACAAC
66 GGTGCATTATCGAC
* * * * *
981095 ACAAAAGAATAATGAATATGGGTGCATTATTGGCATGAAAGGAAGCCATAGCTGAAATACATTTG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
* * *
981160 AGTGCATTATTGGC
66 GGTGCATTATCGAC
*
981174 ATGAAAGAAT
1 ATAAAAGAAT
981184 GCCATAGCTG
Statistics
Matches: 219, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 219 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
GGTGCATTATCGAC
Found at i:981190 original size:124 final size:124
Alignment explanation
Indices: 981037--981308 Score: 382
Period size: 124 Copynumber: 2.2 Consensus size: 124
981027 ATGCACATGG
*
981037 GTGCATTATTAGCATGAAAGGATACCATAGCTGAAATGCATATGGGTGCATTAACAACACAAAAG
1 GTGCATTATTAGCATGAAAGAATACCATAGCTGAAATGCATATGGGTGCATTAACAACACAAAAG
* * *
981102 AATAATGAATATGGGTGCATTATTGGCATGAAAGGAAGCCATAGCTGAAATACATTTGA
66 AATAATGAATATGGGTACATTATTGGCATGAAAGGAAGCCATAACTGAAATACATATGA
* * ** ** *
981161 GTGCATTATTGGCATGAAAGAATGCCATAGCTGAAATGCATATGGGTGCATTTTCGGCATAAAAG
1 GTGCATTATTAGCATGAAAGAATACCATAGCTGAAATGCATATGGGTGCATTAACAACACAAAAG
* ** * *
981226 AATAATGCATATGGGTACATTATTGGCATGAAAGGATTCCATAACTGAAATGCATATGG
66 AATAATGAATATGGGTACATTATTGGCATGAAAGGAAGCCATAACTGAAATACATATGA
* *
981285 GTGCATTATCAGCATAAAAGAATA
1 GTGCATTATTAGCATGAAAGAATA
981309 ATGCACATGG
Statistics
Matches: 128, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
124 128 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (124 bp):
GTGCATTATTAGCATGAAAGAATACCATAGCTGAAATGCATATGGGTGCATTAACAACACAAAAG
AATAATGAATATGGGTACATTATTGGCATGAAAGGAAGCCATAACTGAAATACATATGA
Found at i:981232 original size:203 final size:203
Alignment explanation
Indices: 980951--981372 Score: 655
Period size: 203 Copynumber: 2.1 Consensus size: 203
980941 AAGAATAATG
* * *
980951 CATATGGGTGCACTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCGAC
1 CATATGAGTGCATTATTGGCATGAAAGAATGCCATAGCTGAAATGCATATGGGTGCATTATCGAC
* * *
981016 TTAAAAAAATAATGCACATGGGTGCATTATTAGCATGAAAGGATACCATAGCTGAAATGCATATG
66 ATAAAAAAATAATGCACATGGGTACATTATTAGCATGAAAGGATACCATAACTGAAATGCATATG
*
981081 GGTGCATTAACAACACAAAAGAATAATGAATATGGGTGCATTATTGGCATGAAAGGAAGCCATAG
131 GGTGCATTAACAACACAAAAGAATAATGAACATGGGTGCATTATTGGCATGAAAGGAAGCCATAG
*
981146 CTGAAATA
196 CTAAAATA
* * *
981154 CATTTGAGTGCATTATTGGCATGAAAGAATGCCATAGCTGAAATGCATATGGGTGCATTTTCGGC
1 CATATGAGTGCATTATTGGCATGAAAGAATGCCATAGCTGAAATGCATATGGGTGCATTATCGAC
* * * *
981219 ATAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATTCCATAACTGAAATGCATATG
66 ATAAAAAAATAATGCACATGGGTACATTATTAGCATGAAAGGATACCATAACTGAAATGCATATG
* * * * *
981284 GGTGCATTATCAGCATAAAAGAATAATGCACATGGGTGCATTATTGGCATGAAAGGATGCCATAG
131 GGTGCATTAACAACACAAAAGAATAATGAACATGGGTGCATTATTGGCATGAAAGGAAGCCATAG
*
981349 CTAAAATG
196 CTAAAATA
981357 CATATGAGTGCATTAT
1 CATATGAGTGCATTAT
981373 CGACATAAAA
Statistics
Matches: 197, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
203 197 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (203 bp):
CATATGAGTGCATTATTGGCATGAAAGAATGCCATAGCTGAAATGCATATGGGTGCATTATCGAC
ATAAAAAAATAATGCACATGGGTACATTATTAGCATGAAAGGATACCATAACTGAAATGCATATG
GGTGCATTAACAACACAAAAGAATAATGAACATGGGTGCATTATTGGCATGAAAGGAAGCCATAG
CTAAAATA
Found at i:981233 original size:34 final size:34
Alignment explanation
Indices: 981195--981259 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
981185 CCATAGCTGA
*
981195 AATGCATATGGGTGCATT-TTCGGCATAAAAGAAT
1 AATGCATATGGGTACATTATT-GGCATAAAAGAAT
*
981229 AATGCATATGGGTACATTATTGGCATGAAAG
1 AATGCATATGGGTACATTATTGGCATAAAAG
981260 GATTCCATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (34 bp):
AATGCATATGGGTACATTATTGGCATAAAAGAAT
Found at i:981390 original size:282 final size:282
Alignment explanation
Indices: 980872--981465 Score: 911
Period size: 282 Copynumber: 2.1 Consensus size: 282
980862 AAGAATAATG
* * *
980872 CATATGGGTGCATTATTGGCATGAAAGGATGCCATTGCTGAAATGCATATGGGTGCATTTTCGAC
1 CATATGAGTGCATTATTGGCATGAAAGAATGCCATAGCTGAAATGCATATGGGTGCATTTTCGAC
* *
980937 ATAAAAGAATAATGCATATGGGTGCACTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
66 ATAAAAGAATAATGCATATGGGTACACTATTGGCATGAAAGGATGCCATAACTGAAATGCATATG
*
981002 GGTGCATTATCGACTTAAAAAAATAATGCACATGGGTGCATTATTAGCATGAAAGGATACCATAG
131 GGTGCATTATCGACATAAAAAAATAATGCACATGGGTGCATTATTAGCATGAAAGGATACCATAG
* * * *
981067 CTGAAATGCATATGGGTGCATTAACAACACAAAAGAATAATGAATATGGGTGCATTATTGGCATG
196 CTAAAATGCATATGAGTGCATTAACAACACAAAAAAATAATGAATATGGGTGAATTATTGGCATG
**
981132 AAAGGAAGCCATAGCTGAAATA
261 AAAGGAAGCCATAAATGAAATA
* *
981154 CATTTGAGTGCATTATTGGCATGAAAGAATGCCATAGCTGAAATGCATATGGGTGCATTTTCGGC
1 CATATGAGTGCATTATTGGCATGAAAGAATGCCATAGCTGAAATGCATATGGGTGCATTTTCGAC
* *
981219 ATAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATTCCATAACTGAAATGCATATG
66 ATAAAAGAATAATGCATATGGGTACACTATTGGCATGAAAGGATGCCATAACTGAAATGCATATG
* * *
981284 GGTGCATTATC-AGCATAAAAGAATAATGCACATGGGTGCATTATTGGCATGAAAGGATGCCATA
131 GGTGCATTATCGA-CATAAAAAAATAATGCACATGGGTGCATTATTAGCATGAAAGGATACCATA
* * * *
981348 GCTAAAATGCATATGAGTGCATTATCGACATAAAAAAATAATGCATATGGGTGAATTATTGGCAT
195 GCTAAAATGCATATGAGTGCATTAACAACACAAAAAAATAATGAATATGGGTGAATTATTGGCAT
* *
981413 GAAAGGATGCCATAAATGAAATG
260 GAAAGGAAGCCATAAATGAAATA
* ** *
981436 CATATGGGTGCATTATCAGCATAAAAGAAT
1 CATATGAGTGCATTATTGGCATGAAAGAAT
981466 AATGTATATG
Statistics
Matches: 281, Mismatches: 30, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
281 1 0.00
282 280 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (282 bp):
CATATGAGTGCATTATTGGCATGAAAGAATGCCATAGCTGAAATGCATATGGGTGCATTTTCGAC
ATAAAAGAATAATGCATATGGGTACACTATTGGCATGAAAGGATGCCATAACTGAAATGCATATG
GGTGCATTATCGACATAAAAAAATAATGCACATGGGTGCATTATTAGCATGAAAGGATACCATAG
CTAAAATGCATATGAGTGCATTAACAACACAAAAAAATAATGAATATGGGTGAATTATTGGCATG
AAAGGAAGCCATAAATGAAATA
Found at i:981444 original size:203 final size:198
Alignment explanation
Indices: 980991--981417 Score: 544
Period size: 203 Copynumber: 2.2 Consensus size: 198
980981 GCCATAGCTG
* * * * * *
980991 AAATGCATATGGGTGCATTATCGACTTAAAAAAATAATGCACATGGGTGCATTATTAGCATGAAA
1 AAATGCATATGGGTGAATTTTCGGCATAAAAGAATAATGCATATGGGTGCATTATTAGCATGAAA
* *
981056 GGATACCATAGCTGAAATGCATATGGGTGCATTAACAACACAAAAGAATAATGAATATGGGTGCA
66 GGATACCATAACTGAAATGCATATGGGTGCATTAACAACACAAAAGAATAATGAACATGGGTGCA
* * * *
981121 TTATTGGCATGAAAGGAAGCCATAGCTGAAATACATTTGAGTGCATTATTGGCATGAAAGAATGC
131 TTATTGGCATGAAAGGAAGCCATAGCTAAAATACATATGAGTGCATTATCGACATGAAAGAA---
981186 CATAGCT
193 CATA-CT
* * *
981193 GAAATGCATATGGGTGCATTTTCGGCATAAAAGAATAATGCATATGGGTACATTATTGGCATGAA
1 -AAATGCATATGGGTGAATTTTCGGCATAAAAGAATAATGCATATGGGTGCATTATTAGCATGAA
* * * * *
981258 AGGATTCCATAACTGAAATGCATATGGGTGCATTATCAGCATAAAAGAATAATGCACATGGGTGC
65 AGGATACCATAACTGAAATGCATATGGGTGCATTAACAACACAAAAGAATAATGAACATGGGTGC
* *
981323 ATTATTGGCATGAAAGGATGCCATAGCTAAAATGCATATGAGTGCATTATCGACAT-AAA-AA-A
130 ATTATTGGCATGAAAGGAAGCCATAGCTAAAATACATATGAGTGCATTATCGACATGAAAGAACA
981385 -A-T
195 TACT
*
981387 -AATGCATATGGGTGAATTATT-GGCATGAAAG
1 AAATGCATATGGGTGAATT-TTCGGCATAAAAG
981418 GATGCCATAA
Statistics
Matches: 201, Mismatches: 22, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
192 26 0.13
193 2 0.01
194 1 0.00
196 1 0.00
197 1 0.00
201 2 0.01
202 3 0.01
203 165 0.82
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (198 bp):
AAATGCATATGGGTGAATTTTCGGCATAAAAGAATAATGCATATGGGTGCATTATTAGCATGAAA
GGATACCATAACTGAAATGCATATGGGTGCATTAACAACACAAAAGAATAATGAACATGGGTGCA
TTATTGGCATGAAAGGAAGCCATAGCTAAAATACATATGAGTGCATTATCGACATGAAAGAACAT
ACT
Found at i:981673 original size:79 final size:79
Alignment explanation
Indices: 981161--981663 Score: 724
Period size: 79 Copynumber: 6.4 Consensus size: 79
981151 ATACATTTGA
* * *
981161 GTGCATTATTGGCATGAAAGAATGCCATAGCTGAAATGCATATGGGTGCATTTTCGGCATAAAAG
1 GTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCGACATAAAAG
981226 AATAATGCATATGG
66 AATAATGCATATGG
* * *
981240 GTACATTATTGGCATGAAAGGATTCCATAACTGAAATGCATATGGGTGCATTATC-AGCATAAAA
1 GTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCGA-CATAAAA
*
981304 GAATAATGCACATGG
65 GAATAATGCATATGG
* * *
981319 GTGCATTATTGGCATGAAAGGATGCCATAGCTAAAATGCATATGAGTGCATTATCGACATAAAAA
1 GTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCGACATAAAAG
981384 AATAATGCATATGG
66 AATAATGCATATGG
* **
981398 GTGAATTATTGGCATGAAAGGATGCCATAAATGAAATGCATATGGGTGCATTATC-AGCATAAAA
1 GTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCGA-CATAAAA
* *
981462 GAATAATGTATATGA
65 GAATAATGCATATGG
* * * * * * *
981477 GTTCATTATTGGTATAAAAGGATGCCATAGCTAAAATGCATACGAGTCCATTATCGACATAAAAG
1 GTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCGACATAAAAG
981542 AATAATGCATATGG
66 AATAATGCATATGG
**
981556 GTGCATTATTTTCATGACAA-GATGCCATAGCTGAAATGCATATGGGTGCATTATCGACATAAAA
1 GTGCATTATTGGCATGA-AAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCGACATAAAA
*
981620 GAATAATGCATATGT
65 GAATAATGCATATGG
*
981635 GTGCATTATTAGCATGAAAGGATGCCATA
1 GTGCATTATTGGCATGAAAGGATGCCATA
981664 AATAAAATGC
Statistics
Matches: 372, Mismatches: 46, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
78 3 0.01
79 365 0.98
80 4 0.01
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.28
Consensus pattern (79 bp):
GTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCGACATAAAAG
AATAATGCATATGG
Found at i:981685 original size:26 final size:26
Alignment explanation
Indices: 981649--981698 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
981639 ATTATTAGCA
981649 TGAAAGGATGCCATAAATAAAATGCT
1 TGAAAGGATGCCATAAATAAAATGCT
* *
981675 TGAAATGATGCTATAAATAAAATG
1 TGAAAGGATGCCATAAATAAAATG
981699 AATTTAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.48, C:0.08, G:0.18, T:0.26
Consensus pattern (26 bp):
TGAAAGGATGCCATAAATAAAATGCT
Found at i:982199 original size:2 final size:2
Alignment explanation
Indices: 982192--982221 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
982182 TGAAAGGATG
982192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
982222 TTATGCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:988881 original size:112 final size:112
Alignment explanation
Indices: 988638--988862 Score: 292
Period size: 112 Copynumber: 2.0 Consensus size: 112
988628 GGTAATTCAC
* * *
988638 CTCATTATGAATACCATGTGTGGCACATTTTATGCCGAAAATGCACCGTTATGCATTAAGCAAAA
1 CTCATTATGAATACCATGGGTGGCACATTTTATGCCGAAAATACACCGTTATGCATTAAACAAAA
* * * * * * * * *
988703 GTGATCGATAACTTTCATACACGAAGTATGTCGAAATGGTAATTCAC
66 GTGATAGATAACTATCATACACAAAGTAGGTCAAAATGGCAACTAAA
*
988750 CTCATTATGAATACCATGGGTGGTACATTTTATGCCGAAAATACACCGTTATGCATTAAACAAAA
1 CTCATTATGAATACCATGGGTGGCACATTTTATGCCGAAAATACACCGTTATGCATTAAACAAAA
* * *
988815 TTGATAGAT-ACTATCATGCACAAAGTAGGTCAAAAT-GCACCTAAA
66 GTGATAGATAACTATCATACACAAAGTAGGTCAAAATGGCAACTAAA
988860 CTC
1 CTC
988863 TTAATGCACA
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
110 7 0.07
111 22 0.23
112 68 0.70
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (112 bp):
CTCATTATGAATACCATGGGTGGCACATTTTATGCCGAAAATACACCGTTATGCATTAAACAAAA
GTGATAGATAACTATCATACACAAAGTAGGTCAAAATGGCAACTAAA
Found at i:994350 original size:17 final size:17
Alignment explanation
Indices: 994324--994365 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
994314 TTTTTCTGAA
*
994324 TTCAAGCAGTGAAGACT
1 TTCAACCAGTGAAGACT
994341 TTCAACCAGTGAAGACT
1 TTCAACCAGTGAAGACT
994358 TTCAACCA
1 TTCAACCA
994366 TTATCATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (17 bp):
TTCAACCAGTGAAGACT
Found at i:997554 original size:25 final size:22
Alignment explanation
Indices: 997525--997570 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
997515 TTTTTAACCC
997525 AATCTTAATTCCTAATAAAATAATA
1 AATC-TAA-TCCTAA-AAAATAATA
*
997550 AATCTAATCCTAAAAGATAAT
1 AATCTAATCCTAAAAAATAAT
997571 TCATCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (22 bp):
AATCTAATCCTAAAAAATAATA
Found at i:1000283 original size:42 final size:41
Alignment explanation
Indices: 1000221--1000323 Score: 134
Period size: 42 Copynumber: 2.5 Consensus size: 41
1000211 AGTTAGTAAG
* * *
1000221 TCCTTCGAGCCATCGGTAAGTCTTTCAAGCATGATGATTAAA
1 TCCTTCGGGCCATCCGTAAGTCTTTCAAGCAAGATGA-TAAA
* * * *
1000263 TCCTTTGGGTCATCTGTAAGTCTTTCAAGCAAGATGATAAG
1 TCCTTCGGGCCATCCGTAAGTCTTTCAAGCAAGATGATAAA
1000304 TCCTTCGGGCCATCCGTAAG
1 TCCTTCGGGCCATCCGTAAG
1000324 ACCTTCCGGT
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
41 20 0.38
42 32 0.62
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (41 bp):
TCCTTCGGGCCATCCGTAAGTCTTTCAAGCAAGATGATAAA
Found at i:1000525 original size:229 final size:231
Alignment explanation
Indices: 1000114--1001092 Score: 807
Period size: 256 Copynumber: 4.0 Consensus size: 231
1000104 ATTAAGTTAT
** * *
1000114 TTTGAAAAATGAGAAAATGATTTTCAAAGTTTCTCATTTAAATATTTTCTGAAAATGAAATTTTT
1 TTTGAAAAATGAGAAACCGATTTCCAAAGTTTCTCATTT-AACA-TTT-T---AATGAAATTTTT
* * * * *
1000179 GAAAAGTAAGAAAACGATTTCCAAAGTTTCTTAGTTAGTAAGTCCTTCGAGCCATCGGTAAGTCT
60 GAGAAGTAAGAAAATGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCT
* * * *
1000244 TTCAAGCATGATGATTAAATCCTTTGGGTCATCTGTAAGTCTTTCAAGCAAGATGATAAGTCCTT
125 TTCGAGCATGATGATT-AATTCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTT
* *
1000309 CGGGCCATCCGTAAGACCTTCCGGTAGGATGTTTTCACATAAA
189 CGGGCCATCCGTAAGACCTTCAGGTAGGATGTTTTCACATGAA
* * * * *
1000352 TTTGAAAAATGGGAAAGCGATTTCCAAAGTTTCTCATTTAACCTTTT-TTG-CA-TTTTGAGAAG
1 TTTGAAAAATGAGAAACCGATTTCCAAAGTTTCTCATTTAACATTTTAATGAAATTTTTGAGAAG
*
1000414 TAAGAAAATGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAG
66 TAAGAAAATGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAG
* * * *
1000479 CATGATGATTAAGTTATTCGGGCCATCTGTCAGTC-TTCTGAGCAAGACGATAAGTCCTTCGGGC
131 CATGATGATTAA-TTCTTCGGGTCATCTGTAAGTCTTTC-GAGCAAGATGATAAGTCCTTCGGGC
* * *
1000543 AATTCGTAAGACCTTCGGGTAGGATGTTTTCACATGAA
194 CATCCGTAAGACCTTCAGGTAGGATGTTTTCACATGAA
* * * **
1000581 TTTGAAAAATGATAAATCAATTTCCAAAGTTTCTCATTTAGTATTTTCAAAAAATGAAATTTTTG
1 TTTGAAAAATGAGAAACCGATTTCCAAAGTTTCTCATTTAACATTTT-----AATGAAATTTTTG
* *
1000646 AGAAGTAAGAAAATAATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTTTTAAGTCCT
61 AGAAGTAAGAAAATGATTTCCAAAGTTTC-T------T--AC---TT-----A---GTAAGTCCT
* *
1000711 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCTTCGGGTCATCTTTAAGTCTTTCGA
106 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAATTCTTCGGGTCATCTGTAAGTCTTTCGA
* * *
1000776 GCGAGATAATAAGTCCTTCGGTCCATCCGTAAGACCTTCAGGTAGGATGTTTTCACATGAA
171 GCAAGATGATAAGTCCTTCGGGCCATCCGTAAGACCTTCAGGTAGGATGTTTTCACATGAA
* * ** *
1000837 TTTGAAAAATAAGAAACCGATTTCTAAAGTTTCAT-ATTTAGTATTTTTAGAAAATGAATTTTTT
1 TTTGAAAAATGAGAAACCGATTTCCAAAGTTTC-TCATTTAACA-TTTT----AATGAAATTTTT
* * * * * *
1000901 GAAAAGTAAGAATACGATTTCCAAAATTTCTTACCCAGTAAACTATTTCCCAAATTGGTATGTCT
60 GAGAAGTAAGAAAATGATTTCCAAAGTTTC-T------T--AC---TT-----A---GTAAGTCC
* * ** *
1000966 TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCTTGCGGGTCATATACAACTCTTTC
105 TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAATTCTT-CGGGTCATCTGTAAGTCTTTC
* * ** * * *
1001031 GAGCTAGATGATAAGTACTTCGGGCCATCTATAAGACATTCAGGCAGGATATTTTCACATGA
169 GAGCAAGATGATAAGTCCTTCGGGCCATCCGTAAGACCTTCAGGTAGGATGTTTTCACATGA
1001093 TTTCCAAAAA
Statistics
Matches: 628, Mismatches: 79, Indels: 49
0.83 0.10 0.06
Matches are distributed among these distances:
228 5 0.01
229 192 0.31
230 1 0.00
231 2 0.00
235 3 0.00
236 4 0.01
237 35 0.06
238 36 0.06
244 1 0.00
246 2 0.00
249 2 0.00
254 1 0.00
256 222 0.35
257 122 0.19
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (231 bp):
TTTGAAAAATGAGAAACCGATTTCCAAAGTTTCTCATTTAACATTTTAATGAAATTTTTGAGAAG
TAAGAAAATGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAG
CATGATGATTAATTCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCA
TCCGTAAGACCTTCAGGTAGGATGTTTTCACATGAA
Found at i:1000795 original size:41 final size:42
Alignment explanation
Indices: 1000703--1000808 Score: 119
Period size: 41 Copynumber: 2.6 Consensus size: 42
1000693 CCCAAATTTT
*
1000703 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAT
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAA
* * **
1000745 TAAAT-CTTCGGGTCATCTTTAAGTCTTTCGAGCGA-GAT-AA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC-ATGATGAA
* *
1000785 TAAGTCCTTCGGTCCATCCGTAAG
1 TAAGTCCTTCGGGCCATCAGTAAG
1000809 ACCTTCAGGT
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
40 5 0.10
41 42 0.81
42 5 0.10
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (42 bp):
TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGAA
Found at i:1000902 original size:256 final size:258
Alignment explanation
Indices: 1000445--1001379 Score: 1058
Period size: 256 Copynumber: 3.7 Consensus size: 258
1000435 TTCTTACTTA
* * * * *
1000445 GTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAGTTATTCGGGCCATCTGTC
1 GTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAA-ATCTTCGGGTCATCTTTA
* * * *
1000510 AGTC-TTCTGAGCAAGACGATAAGTCCTTCGGGCAATTCGTAAGACCTTCGGGTAGGATGTTTTC
65 AGTCTTTC-GAGCAAGATGATAAGTCCTTCGGGCCATCCGTAAGACCTTCAGGTAGGATGTTTTC
* * * * * *
1000574 ACATGAATTT-GAAAAATGATAAATCAATTTCCAAAGTTTC-TCATTTAGTATTTTCAAAAAATG
129 ACATGAATTTCGAAAAATAAGAAAGCGATTTCCAAAGTTTCATCATTTAGTATTTTTAGAAAATG
* * *
1000637 AAATTTTTGAGAAGTAAGAAAATAATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTT
194 AAATTTTTGAAAAGTAAGAAAACAATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTG
* *
1000702 TTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCTTCGGGTCATCTTTAA
1 GTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCTTCGGGTCATCTTTAA
* * *
1000767 GTCTTTCGAGCGAGATAATAAGTCCTTCGGTCCATCCGTAAGACCTTCAGGTAGGATGTTTTCAC
66 GTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCGTAAGACCTTCAGGTAGGATGTTTTCAC
* *
1000832 ATGAATTT-GAAAAATAAGAAACCGATTTCTAAAGTTTCAT-ATTTAGTATTTTTAGAAAATGAA
131 ATGAATTTCGAAAAATAAGAAAGCGATTTCCAAAGTTTCATCATTTAGTATTTTTAGAAAATGAA
* * * *
1000895 TTTTTTGAAAAGTAAGAATACGATTTCCAAAATTTCTTACCCAGTAAACTATTTCCCAAATTG
196 ATTTTTGAAAAGTAAGAAAACAATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTG
* * * * **
1000958 GTATGTCTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCTTGCGGGTCATATACA
1 GTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCTT-CGGGTCATCTTTA
* * * ** * * *
1001023 ACTCTTTCGAGCTAGATGATAAGTACTTCGGGCCATCTATAAGACATTCAGGCAGGATATTTTCA
65 AGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCGTAAGACCTTCAGGTAGGATGTTTTCA
* * * * * *
1001088 CATG-ATTTCCAAAAAAAATGAGAATGTGATTTCTAAAGTTT-ATCATTTTGTGTTTTTAGAAAA
130 CATGAATTTCGAAAAATAA-GA-AA-GCGATTTCCAAAGTTTCATCATTTAGTATTTTTAG-AAA
* * * * *
1001151 AT-AAATTTTTGAAAAGTAAGAAAGCAATTTCCAAAGTTTCTTAACTAGTAAATTATTTCCAAAA
191 ATGAAATTTTTGAAAAGTAAGAAAACAATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAA
1001215 TTG
256 TTG
* ** * *
1001218 GCAAGTCCTTCAAGCCATCAATAAGTCTTTCTAGC---ATGA-T---TCTTCGGGTCAT-TTGTC
1 GTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCTTCGGGTCATCTT-TA
** * *
1001275 AGTCTTTCGAGCAAGATGACCAGTCCTTCGGGCCAT-CGATAAGACCTTCGGGTAGGATGTTTTA
65 AGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCG-TAAGACCTTCAGGTAGGATGTTTTC
* * * *
1001339 ACATTATTTTCAAAAAAATGAGAAAGCGATTTCCAAAGTTT
129 ACATGAATTTC-GAAAAATAAGAAAGCGATTTCCAAAGTTT
1001380 TTTACCCAAT
Statistics
Matches: 577, Mismatches: 88, Indels: 32
0.83 0.13 0.05
Matches are distributed among these distances:
251 15 0.03
252 65 0.11
253 10 0.02
254 6 0.01
256 231 0.40
257 128 0.22
258 2 0.00
259 4 0.01
260 111 0.19
261 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (258 bp):
GTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCTTCGGGTCATCTTTAA
GTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCGTAAGACCTTCAGGTAGGATGTTTTCAC
ATGAATTTCGAAAAATAAGAAAGCGATTTCCAAAGTTTCATCATTTAGTATTTTTAGAAAATGAA
ATTTTTGAAAAGTAAGAAAACAATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTG
Found at i:1001631 original size:38 final size:38
Alignment explanation
Indices: 1001586--1001658 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
1001576 AATCTCCCAA
*
1001586 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
1 TGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATCTT
* *
1001624 TGTTATTCTTGACTTTCTCATGAAGATAAGTCAAT
1 TGTTATTCTTGACTTCCTCATGAAGAGAAGTCAAT
1001659 TGTTAGTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (38 bp):
TGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATCTT
Found at i:1001692 original size:44 final size:45
Alignment explanation
Indices: 1001623--1001744 Score: 156
Period size: 44 Copynumber: 2.7 Consensus size: 45
1001613 AAGTCAATCT
* *
1001623 TTGTTATTCTTGACTTTCTCATGAAGATAAGTCAATTGTT-AGTA
1 TTGTTATTCTTGACTTTATCATGAAGAGAAGTCAATTGTTCAGTA
* * *
1001667 TTGTCATTCTTGAGTTTATCGTGAAGAGAAGTCAATTGTTCAGTA
1 TTGTTATTCTTGACTTTATCATGAAGAGAAGTCAATTGTTCAGTA
* * * *
1001712 TTTTTATTCTTGACTTTCTCACGAAAAGAAGTC
1 TTGTTATTCTTGACTTTATCATGAAGAGAAGTC
1001745 GATCTTTTAG
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
44 35 0.54
45 30 0.46
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (45 bp):
TTGTTATTCTTGACTTTATCATGAAGAGAAGTCAATTGTTCAGTA
Found at i:1001742 original size:45 final size:44
Alignment explanation
Indices: 1001586--1001760 Score: 173
Period size: 45 Copynumber: 4.1 Consensus size: 44
1001576 AATCTCCCAA
* * *
1001586 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAA----T-CT-T
1 TGTTATTCTTGACTTTCTCATGAAGAGAAGTCAATTGTTAGTAT
*
1001624 TGTTATTCTTGACTTTCTCATGAAGATAAGTCAATTGTTAGTAT
1 TGTTATTCTTGACTTTCTCATGAAGAGAAGTCAATTGTTAGTAT
* * * *
1001668 TGTCATTCTTGAGTTTATCGTGAAGAGAAGTCAATTGTTCAGTAT
1 TGTTATTCTTGACTTTCTCATGAAGAGAAGTCAATTGTT-AGTAT
* * * * *
1001713 TTTTATTCTTGACTTTCTCACGAAAAGAAGTCGATCTTTTAGTAT
1 TGTTATTCTTGACTTTCTCATGAAGAGAAGTCAAT-TGTTAGTAT
1001758 TGT
1 TGT
1001761 CCTTTTTGAA
Statistics
Matches: 110, Mismatches: 19, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
38 31 0.28
42 1 0.01
43 1 0.01
44 35 0.32
45 39 0.35
46 3 0.03
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.43
Consensus pattern (44 bp):
TGTTATTCTTGACTTTCTCATGAAGAGAAGTCAATTGTTAGTAT
Found at i:1002725 original size:125 final size:130
Alignment explanation
Indices: 1002358--1002817 Score: 400
Period size: 125 Copynumber: 3.5 Consensus size: 130
1002348 TGATTTTCAT
* * * * ** * **
1002358 ATTTGGTCTTCCTGAAGAGCAGTGATGCAAATCGATTCTGTTTCGATCATTCC-T-AAGAGCAGT
1 ATTTGGTCTTCCTAAAGAGAAGTGAAGAAAATCGATTCTAATTCAATC-TTCCTTGAAGAATAGT
* * * * * ** * * *
1002421 AAAGTGGATTAAAGTTTTCTTGAGTCTAATCGCCCCTAAAGACTAGTGGAACAGATTCTTCTTCT
65 GAAGTGGATCAAAGTTTTCTCGAGTTTGATATCCCCTAAAGAGTAGT-G---AGAATCTTATTCT
*
1002486 TCTTTCAA
126 TC---CAG
* * * *
1002494 ATTTGGTCTTCCTAAAGAGCAA-TGAAGAAAATCGATTCTTATTCAATCTTCCCTGAAGAACATT
1 ATTTGGTCTTCCTAAAGAG-AAGTGAAGAAAATCGATTCTAATTCAATCTTCCTTGAAGAATAGT
*
1002558 GAAGTGGATCAAAGTTTTCTCGAGTTTGATATCCTCT-AA-AG-AGT-AGAATCTTATTCTTCCA
65 GAAGTGGATCAAAGTTTTCTCGAGTTTGATATCCCCTAAAGAGTAGTGAGAATCTTATTCTTCCA
1002619 G
130 G
*
1002620 ATTTGGTCTTCCTAAAGAGAAGTGAAG-AAATTGATTCTAATTCAATCTTCCTTGAAGAATAGTG
1 ATTTGGTCTTCCTAAAGAGAAGTGAAGAAAATCGATTCTAATTCAATCTTCCTTGAAGAATAGTG
* * **
1002684 AAGTGGATCAAAGTTTTCTCGAGTGTT-ATCTCCCCTGAAGAGTAGTGGAGAAGATTATTCTTCA
66 AAGTGGATCAAAGTTTTCTCGAGT-TTGATATCCCCTAAAGAGTAGT-GAGAATCTTATTCTT--
1002748 CTCAG
127 C-CAG
* * * * *
1002753 ATTTGGTCTTCTTGAAGAGTAGTGAAGCAAATCGATTTTGAA-TCAATCTTCCTTGAAGAATAGT
1 ATTTGGTCTTCCTAAAGAGAAGTGAAGAAAATCGATTCT-AATTCAATCTTCCTTGAAGAATAGT
1002817 G
65 G
1002818 GAATGAATAA
Statistics
Matches: 274, Mismatches: 35, Indels: 32
0.80 0.10 0.09
Matches are distributed among these distances:
125 65 0.24
126 30 0.11
127 2 0.01
128 3 0.01
129 13 0.05
130 12 0.04
132 1 0.00
133 27 0.10
134 35 0.13
135 7 0.03
136 42 0.15
137 37 0.14
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (130 bp):
ATTTGGTCTTCCTAAAGAGAAGTGAAGAAAATCGATTCTAATTCAATCTTCCTTGAAGAATAGTG
AAGTGGATCAAAGTTTTCTCGAGTTTGATATCCCCTAAAGAGTAGTGAGAATCTTATTCTTCCAG
Found at i:1003012 original size:3 final size:3
Alignment explanation
Indices: 1003004--1003028 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1002994 TTGGACTGTC
1003004 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
1003029 ACTACTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1009160 original size:26 final size:26
Alignment explanation
Indices: 1009055--1009168 Score: 62
Period size: 26 Copynumber: 4.4 Consensus size: 26
1009045 TGAACTATAG
* *
1009055 TATATAATAATAACTTATATCTCACA
1 TATATAATAATAACTTATATATAACA
* *
1009081 TAT-TAATGAATAAGTTATTATGATAATA
1 TATATAAT-AATAACTTA-TAT-ATAACA
** *
1009109 GCTATAGAT-ATAA--TATATAT-ATA
1 TATATA-ATAATAACTTATATATAACA
1009132 TATATAATAATAA-TTATATTATAACA
1 TATATAATAATAACTTATA-TATAACA
1009158 TATGA-AATAAT
1 TAT-ATAATAAT
1009169 CATATTTATG
Statistics
Matches: 69, Mismatches: 9, Indels: 20
0.70 0.09 0.20
Matches are distributed among these distances:
22 2 0.03
23 11 0.16
24 6 0.09
25 10 0.14
26 24 0.35
27 4 0.06
28 8 0.12
29 2 0.03
30 2 0.03
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (26 bp):
TATATAATAATAACTTATATATAACA
Found at i:1012078 original size:14 final size:13
Alignment explanation
Indices: 1012048--1012134 Score: 75
Period size: 14 Copynumber: 6.2 Consensus size: 13
1012038 CATGGCTTGC
**
1012048 TTTCTTTTTGACT
1 TTTCTTTTTTTCT
1012061 TTTCTTCTTTTTCT
1 TTTCTT-TTTTTCT
1012075 TTTCTTTTTTTTCCT
1 TTTC-TTTTTTT-CT
***
1012090 CTGAATTTTTTTCT
1 -TTTCTTTTTTTCT
1012104 TCTTCTTTTTTTCT
1 T-TTCTTTTTTTCT
1012118 TTTCTTTTTTTTCT
1 TTTC-TTTTTTTCT
1012132 TTT
1 TTT
1012135 TGTACTCCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
13 10 0.17
14 38 0.63
15 11 0.18
16 1 0.02
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:1012459 original size:22 final size:21
Alignment explanation
Indices: 1012425--1012465 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1012415 GACTACGGAA
*
1012425 TTGATGGTCTTGATGGATGATG
1 TTGATGGACTTGAT-GATGATG
*
1012447 TTGATGGAGTTGATGATGA
1 TTGATGGACTTGATGATGA
1012466 ATTGGAGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.22, C:0.02, G:0.37, T:0.39
Consensus pattern (21 bp):
TTGATGGACTTGATGATGATG
Found at i:1019167 original size:2 final size:2
Alignment explanation
Indices: 1019160--1019196 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1019150 ATATCATTTG
1019160 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1019197 ATTATTATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1041965 original size:16 final size:16
Alignment explanation
Indices: 1041944--1041979 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1041934 AGAGGCTAAC
1041944 TTATGGCTAAATGATG
1 TTATGGCTAAATGATG
*
1041960 TTATGGTTAAATGATG
1 TTATGGCTAAATGATG
1041976 TTAT
1 TTAT
1041980 AGTAATGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.22, T:0.44
Consensus pattern (16 bp):
TTATGGCTAAATGATG
Found at i:1047714 original size:48 final size:49
Alignment explanation
Indices: 1047632--1047773 Score: 178
Period size: 49 Copynumber: 2.9 Consensus size: 49
1047622 CGAGGGTGCT
* * *
1047632 AAAGATAAATGCATAACGGTGCATTTCAGAATAAAA-GTGCCACTAATG
1 AAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAATG
* * * * *
1047680 AAAGTTAAATGTATAACGATGTATTTCGGCATAAAAGGTTCCACAAATG
1 AAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAATG
* * *
1047729 AAAGTTAAGTGGATAAAGGTGCATTTCGGCATAAAAGGTGCCACT
1 AAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
1047774 CATGGTATTC
Statistics
Matches: 78, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
48 30 0.38
49 48 0.62
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.25
Consensus pattern (49 bp):
AAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAATG
Found at i:1061920 original size:2 final size:2
Alignment explanation
Indices: 1061913--1061940 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1061903 ATATTTTTCA
1061913 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1061941 GAGTGAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1063792 original size:29 final size:30
Alignment explanation
Indices: 1063732--1063793 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
1063722 CAGTGATCAT
*
1063732 ATCTTAATTAAATAAAAATAAAAGTAATCAA
1 ATCTTAATT-AATAAAAATAAAAGTAACCAA
* *
1063763 ATCTTAATT-ATAAAAATAAAATTGACCAA
1 ATCTTAATTAATAAAAATAAAAGTAACCAA
1063792 AT
1 AT
1063794 ATCATGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 19 0.68
31 9 0.32
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (30 bp):
ATCTTAATTAATAAAAATAAAAGTAACCAA
Found at i:1064994 original size:3 final size:3
Alignment explanation
Indices: 1064988--1065031 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
1064978 ACAACAACAA
* *
1064988 AAT AAT AAA AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1065032 AGGATCTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:1070589 original size:22 final size:22
Alignment explanation
Indices: 1070559--1070602 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1070549 TTTTGTATCG
*
1070559 TGTGTCTTCGCTAGACACACTA
1 TGTGACTTCGCTAGACACACTA
1070581 TGTGACTTCGCTAGACACACTA
1 TGTGACTTCGCTAGACACACTA
1070603 ACGCTACCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (22 bp):
TGTGACTTCGCTAGACACACTA
Found at i:1077155 original size:40 final size:40
Alignment explanation
Indices: 1077076--1077155 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
1077066 ATAAGAGTCA
* * *
1077076 AATATTGCACCGTAGTGTTGAGGTCGGGCCTTGCTCACCT
1 AATAATGCACCGTAGTGTTGAGGTCGAGCCTTGCCCACCT
1077116 AATAATGCACCGTAGTGTTGAGGTCGAG-CTGTGCCCACCT
1 AATAATGCACCGTAGTGTTGAGGTCGAGCCT-TGCCCACCT
1077156 TATACACCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 2 0.06
40 34 0.94
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.28
Consensus pattern (40 bp):
AATAATGCACCGTAGTGTTGAGGTCGAGCCTTGCCCACCT
Found at i:1077411 original size:22 final size:23
Alignment explanation
Indices: 1077381--1077427 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
1077371 CATACCCGAA
*
1077381 ATATCATTCATGATAAATATCAT
1 ATATCATTCATGATAAACATCAT
1077404 ATAT-ATTCATGATAAACATCAT
1 ATATCATTCATGATAAACATCAT
1077426 AT
1 AT
1077428 GTAACAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (23 bp):
ATATCATTCATGATAAACATCAT
Found at i:1093155 original size:26 final size:26
Alignment explanation
Indices: 1093126--1093181 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
1093116 AAGGTAGAGA
*
1093126 AGAGGAATGTAACGCGATGGTAAAGT
1 AGAGGAATGTAACGCGATGGTAAACT
1093152 AGAGGAATGTAACGCGATGGTAAACT
1 AGAGGAATGTAACGCGATGGTAAACT
1093178 AGAG
1 AGAG
1093182 AGATGAGCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.39, C:0.09, G:0.34, T:0.18
Consensus pattern (26 bp):
AGAGGAATGTAACGCGATGGTAAACT
Found at i:1094725 original size:13 final size:13
Alignment explanation
Indices: 1094707--1094747 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
1094697 ACATATATCG
1094707 GAAATGTTAATGT
1 GAAATGTTAATGT
1094720 GAAATGTTAATGT
1 GAAATGTTAATGT
* *
1094733 GAAACGTGAATGT
1 GAAATGTTAATGT
1094746 GA
1 GA
1094748 CGCGTTGCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (13 bp):
GAAATGTTAATGT
Found at i:1101295 original size:26 final size:26
Alignment explanation
Indices: 1101260--1101311 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
1101250 CTTCTTCTTC
*
1101260 TTTTTTGAAACT-TTTCTTTTGTGTTA
1 TTTTATGAAACTATTT-TTTTGTGTTA
1101286 TTTTATGAAACTAATTTTTTTGTGTT
1 TTTTATGAAACT-ATTTTTTTGTGTT
1101312 CCAAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 11 0.48
27 9 0.39
28 3 0.13
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.63
Consensus pattern (26 bp):
TTTTATGAAACTATTTTTTTGTGTTA
Found at i:1105626 original size:2 final size:2
Alignment explanation
Indices: 1105619--1105643 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1105609 TCAATCTACA
1105619 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1105644 ATTTACGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1105808 original size:85 final size:85
Alignment explanation
Indices: 1105701--1105914 Score: 279
Period size: 85 Copynumber: 2.5 Consensus size: 85
1105691 AATGATGCGT
* * * *
1105701 GCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATCAATTTATGACACACAAATGTATGT
1 GCTTCAATGACGCTCAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACAAATGTATGT
*
1105766 CAAGTAGATTTATGACGGGG
66 CAACTAGATTTATGACGGGG
* *
1105786 GCTTCAATGACGTTCAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACAAATGTGTGT
1 GCTTCAATGACGCTCAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACAAATGTATGT
* ** *
1105851 CATCTTTATTTATGATGGGG
66 CAACTAGATTTATGACGGGG
* *
1105871 GCTTCAATGATGCTCAATG-AACGTCATAAATGC-ACGTCATAAAT
1 GCTTCAATGACGCTCAATGTAA-GTCATACATGCGA-GTCATAAAT
1105915 GTGTGTCATA
Statistics
Matches: 113, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
84 3 0.03
85 110 0.97
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (85 bp):
GCTTCAATGACGCTCAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACAAATGTATGT
CAACTAGATTTATGACGGGG
Found at i:1105907 original size:13 final size:13
Alignment explanation
Indices: 1105886--1105915 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1105876 AATGATGCTC
1105886 AATGAACGTCATA
1 AATGAACGTCATA
*
1105899 AATGCACGTCATA
1 AATGAACGTCATA
1105912 AATG
1 AATG
1105916 TGTGTCATAG
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:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (13 bp):
AATGAACGTCATA
Found at i:1105940 original size:13 final size:13
Alignment explanation
Indices: 1105893--1105937 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
1105883 CTCAATGAAC
*
1105893 GTCATAAATGCAC
1 GTCATAAATGCAT
**
1105906 GTCATAAATGTGT
1 GTCATAAATGCAT
*
1105919 GTCATAGATGCAT
1 GTCATAAATGCAT
1105932 GTCATA
1 GTCATA
1105938 GATTCATGAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (13 bp):
GTCATAAATGCAT
Found at i:1105945 original size:13 final size:13
Alignment explanation
Indices: 1105893--1105945 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
1105883 CTCAATGAAC
* *
1105893 GTCATAAATGCAC
1 GTCATAGATGCAT
* **
1105906 GTCATAAATGTGT
1 GTCATAGATGCAT
1105919 GTCATAGATGCAT
1 GTCATAGATGCAT
*
1105932 GTCATAGATTCAT
1 GTCATAGATGCAT
1105945 G
1 G
1105946 ACACACAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (13 bp):
GTCATAGATGCAT
Found at i:1107309 original size:65 final size:64
Alignment explanation
Indices: 1107187--1107339 Score: 209
Period size: 65 Copynumber: 2.4 Consensus size: 64
1107177 CCCTATTTCA
* *
1107187 AATGCATTTTGTGTACCGATACACAACCATGCATCGATGCACTCTTGAATTTATTGAAACATCG
1 AATGCATTTTGTGTACCGATGCACAACCATGCATCGATGCACTCATGAATTTATTGAAACATCG
* **
1107251 AATGCATTTTGTGTACCGATGCACAGACCATGCATCTATGCACTCATGGCTCTT-TTGAAACATC
1 AATGCATTTTGTGTACCGATGCACA-ACCATGCATCGATGCACTCATGAAT-TTATTGAAACATC
1107315 G
64 G
* * *
1107316 AATGTAATTAGTGTACCGATGCAC
1 AATGCATTTTGTGTACCGATGCAC
1107340 CCCTTGTGTA
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 24 0.30
65 53 0.67
66 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (64 bp):
AATGCATTTTGTGTACCGATGCACAACCATGCATCGATGCACTCATGAATTTATTGAAACATCG
Found at i:1113184 original size:44 final size:43
Alignment explanation
Indices: 1113095--1113188 Score: 116
Period size: 44 Copynumber: 2.2 Consensus size: 43
1113085 GTGCAACATA
* *
1113095 CATCGATACACTAGAAAGTGTACCGATGCATCCCTTGAATATG
1 CATCGATACACCAGAAAGTGCACCGATGCATCCCTTGAATATG
* * * * *
1113138 CATCGATACACCATGAAGGTGCACCGATGTATTCCTTTAATGTG
1 CATCGATACACCA-GAAAGTGCACCGATGCATCCCTTGAATATG
1113182 CATCGAT
1 CATCGAT
1113189 GCACTCTACT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 12 0.28
44 31 0.72
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (43 bp):
CATCGATACACCAGAAAGTGCACCGATGCATCCCTTGAATATG
Found at i:1114480 original size:8 final size:8
Alignment explanation
Indices: 1114467--1114522 Score: 60
Period size: 8 Copynumber: 6.8 Consensus size: 8
1114457 TTGGATTGAT
1114467 ATGTTTGG
1 ATGTTTGG
1114475 ATGTTTGG
1 ATGTTTGG
*
1114483 ATGTTTGA
1 ATGTTTGG
*
1114491 ATGTTTGA
1 ATGTTTGG
1114499 ATTTGTTTTGG
1 A--TG-TTTGG
1114510 ATG-TTGG
1 ATGTTTGG
1114517 ATGTTT
1 ATGTTT
1114523 AACTTGAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
7 7 0.17
8 26 0.62
9 2 0.05
10 2 0.05
11 5 0.12
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.54
Consensus pattern (8 bp):
ATGTTTGG
Found at i:1115312 original size:65 final size:64
Alignment explanation
Indices: 1115189--1115322 Score: 171
Period size: 65 Copynumber: 2.1 Consensus size: 64
1115179 ACCCTATTTT
* * * **
1115189 GAATGCATTTTGTGTACCGATACACAGCCATGCATCGATGCACTCTTGAATTTATTGAAACATC
1 GAATGCATTTTGTGTACAGATACACAACCAAGCATCGATGCACTAATGAATTTATTGAAACATC
* **
1115253 GAATGCATTTTGTGTACAGATGCACATACCAAGCATCGATGCACTAATGGCTCTT-TTGAAACAT
1 GAATGCATTTTGTGTACAGATACACA-ACCAAGCATCGATGCACTAATGAAT-TTATTGAAACAT
1115317 C
64 C
1115318 GAATG
1 GAATG
1115323 TAATTAATGT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 24 0.40
65 34 0.57
66 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (64 bp):
GAATGCATTTTGTGTACAGATACACAACCAAGCATCGATGCACTAATGAATTTATTGAAACATC
Found at i:1127414 original size:31 final size:31
Alignment explanation
Indices: 1127379--1127439 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
1127369 ATGTGGATTG
* *
1127379 AATTACATTGTGTGTGATGCAACATATATTT
1 AATTACATTGTGTATGATGCAACAAATATTT
1127410 AATTACATTGTGTATGATGCAACAAATATT
1 AATTACATTGTGTATGATGCAACAAATATT
1127440 ACATTGATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (31 bp):
AATTACATTGTGTATGATGCAACAAATATTT
Found at i:1140916 original size:54 final size:54
Alignment explanation
Indices: 1140819--1141212 Score: 533
Period size: 54 Copynumber: 7.3 Consensus size: 54
1140809 ATAAGTCATT
* * * * *
1140819 TGGGGTGCACACATAGTG-CGATACGATTGTTCATAAACATATTATGAATTCCT-
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATT-ATG
* *
1140872 TGGGTTGCACACTTAGTGCCAATACGGTCGTTCATAAACATATTATGAATTTTG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTATG
* *
1140926 TGGGTTGCACACTTAGTGTCGATACGTTCGTTCATAAACATATTATGAATTATG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTATG
* *
1140980 TGGGTTGCACACTTAGTACCGATACGGTCGTTCATAAACATATTATGAATTCA-A
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATT-ATG
* *
1141034 TGGGTTGCACACTTAGTGTCGATACGGTCTTTCATAAACATATTATGAATTATG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTATG
* * *
1141088 TGGGTTGCACACTTAGTGCCGATACGGTCGCTCATAAACATATTATGAATTCTA
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTATG
* * * * * * *
1141142 TAGGTTGTACACTTGGTACCGGTACGGTCGTTCATAAGCATATTATGAATTTTG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTATG
*
1141196 TGGGTTGCACACATAGT
1 TGGGTTGCACACTTAGT
1141213 ACTGATAGTA
Statistics
Matches: 301, Mismatches: 36, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
53 18 0.06
54 282 0.94
55 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTATG
Found at i:1143181 original size:24 final size:24
Alignment explanation
Indices: 1143149--1143194 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
1143139 TCTTCCATAT
1143149 GATGTATAAAACATCTATGTACAC
1 GATGTATAAAACATCTATGTACAC
1143173 GATGTATAAAACATCTATGTAC
1 GATGTATAAAACATCTATGTAC
1143195 CATGTCATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (24 bp):
GATGTATAAAACATCTATGTACAC
Found at i:1147519 original size:208 final size:209
Alignment explanation
Indices: 1147159--1147578 Score: 824
Period size: 208 Copynumber: 2.0 Consensus size: 209
1147149 TTATAAATCC
1147159 TCAATCCAGTATCTCTTGCAATTGAGCCTTTAATTCCCTTAACTCTGTTGGGGCCATTCGATAAG
1 TCAATCCAGTATCTCTTGCAATTGAGCCTTTAATTCCCTTAAC-CTGTTGGGGCCATTCGATAAG
1147224 GAGACATCGAAATAGCTGTTGTACCTAGGAATATATCAATCCCAAACTCCACCTCTCTATCTGGA
65 GAGACATCGAAATAGCTGTTGTACCTAGGAATATATCAATCCCAAACTCCACCTCTCTATCTGGA
1147289 CGCAATCTAGGTAATTCATCTGGAAACACCTCTGGATACTCTCGTATAGTTGGAATACCTTCTAA
130 CGCAATCTAGGTAATTCATCTGGAAACACCTCTGGATACTCTCGTATAGTTGGAATACCTTCTAA
1147354 CTTAACTTCAGCGGT
195 CTTAACTTCAGCGGT
1147369 TCAATCCAGTATCTCTTGCAATTGAGCCTTTAATTCCCTTAA-CTGTTGGGGCCATTCGATAAGG
1 TCAATCCAGTATCTCTTGCAATTGAGCCTTTAATTCCCTTAACCTGTTGGGGCCATTCGATAAGG
1147433 AGACATCGAAATAGCTGTTGTACCTAGGAATATATCAATCCCAAACTCCACCTCTCTATCTGGAC
66 AGACATCGAAATAGCTGTTGTACCTAGGAATATATCAATCCCAAACTCCACCTCTCTATCTGGAC
1147498 GCAATCTAGGTAATTCATCTGGAAACACCTCTGGATACTCTCGTATAGTTGGAATACCTTCTAAC
131 GCAATCTAGGTAATTCATCTGGAAACACCTCTGGATACTCTCGTATAGTTGGAATACCTTCTAAC
1147563 TTAACTTCAGCGGT
196 TTAACTTCAGCGGT
1147577 TC
1 TC
1147579 TCATAATCAA
Statistics
Matches: 210, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
208 168 0.80
210 42 0.20
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (209 bp):
TCAATCCAGTATCTCTTGCAATTGAGCCTTTAATTCCCTTAACCTGTTGGGGCCATTCGATAAGG
AGACATCGAAATAGCTGTTGTACCTAGGAATATATCAATCCCAAACTCCACCTCTCTATCTGGAC
GCAATCTAGGTAATTCATCTGGAAACACCTCTGGATACTCTCGTATAGTTGGAATACCTTCTAAC
TTAACTTCAGCGGT
Found at i:1152305 original size:19 final size:19
Alignment explanation
Indices: 1152281--1152361 Score: 76
Period size: 19 Copynumber: 4.4 Consensus size: 19
1152271 CATTGGGCTT
*
1152281 TGAATCTGAAAATTAGTTA
1 TGAATCTGAAAATGAGTTA
* *
1152300 TGAATCTGAAAATGGGTTC
1 TGAATCTGAAAATGAGTTA
* * *
1152319 TGCATCCGAAAATGAATTA
1 TGAATCTGAAAATGAGTTA
*
1152338 TGAATCT-AAAA-GTGTTA
1 TGAATCTGAAAATGAGTTA
*
1152355 TTAATCT
1 TGAATCT
1152362 TAAATGTGAA
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
17 10 0.20
18 4 0.08
19 35 0.71
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (19 bp):
TGAATCTGAAAATGAGTTA
Found at i:1160474 original size:44 final size:44
Alignment explanation
Indices: 1160405--1160509 Score: 165
Period size: 44 Copynumber: 2.4 Consensus size: 44
1160395 TATTACTTGC
* * *
1160405 AAGACCTTACCGTTTCTGCATGCTCCTCTTCTAAGTGCAAGGGT
1 AAGACCTTACCGTTTCTACAAGCTCCTCTACTAAGTGCAAGGGT
*
1160449 AAGACCTTACCGTTTCTACAAGCTCCTCTACTATGTGCAAGGGT
1 AAGACCTTACCGTTTCTACAAGCTCCTCTACTAAGTGCAAGGGT
1160493 AAGACCTTACCGCTTTC
1 AAGACCTTACCG-TTTC
1160510 CGCAGGCTCC
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
44 52 0.93
45 4 0.07
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (44 bp):
AAGACCTTACCGTTTCTACAAGCTCCTCTACTAAGTGCAAGGGT
Found at i:1162657 original size:19 final size:19
Alignment explanation
Indices: 1162658--1162715 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
1162648 ATGAGTTATG
* *
1162658 AATGAGTTCTGAATCCGAA
1 AATGAGTTATGAATCTGAA
* *
1162677 AATGGGTTATGAATCTAAA
1 AATGAGTTATGAATCTGAA
* *
1162696 AAAGTGTTATGAATCTGAA
1 AATGAGTTATGAATCTGAA
1162715 A
1 A
1162716 TGTGAAAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (19 bp):
AATGAGTTATGAATCTGAA
Found at i:1165392 original size:32 final size:32
Alignment explanation
Indices: 1165355--1165424 Score: 140
Period size: 32 Copynumber: 2.2 Consensus size: 32
1165345 GATTAAATCA
1165355 AAAGAAGTTGAAAATAAGGTAAACATTATTCG
1 AAAGAAGTTGAAAATAAGGTAAACATTATTCG
1165387 AAAGAAGTTGAAAATAAGGTAAACATTATTCG
1 AAAGAAGTTGAAAATAAGGTAAACATTATTCG
1165419 AAAGAA
1 AAAGAA
1165425 TAGTAAGATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.53, C:0.06, G:0.19, T:0.23
Consensus pattern (32 bp):
AAAGAAGTTGAAAATAAGGTAAACATTATTCG
Found at i:1166028 original size:30 final size:29
Alignment explanation
Indices: 1165961--1166032 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
1165951 GTTAGTGAGA
* *
1165961 AAAATGTAAATTTTGAAAGATTAGTGGTC
1 AAAATATAAATTTTGAAAGATTAGTGGCC
* *
1165990 AAAGTATAAATTTTGGAAAGTTTAG-GGACC
1 AAAATATAAATTTT-GAAAGATTAGTGG-CC
1166020 AAAATAT-AATTTT
1 AAAATATAAATTTT
1166033 AAAATTTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 20 0.56
30 16 0.44
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.35
Consensus pattern (29 bp):
AAAATATAAATTTTGAAAGATTAGTGGCC
Found at i:1169823 original size:26 final size:26
Alignment explanation
Indices: 1169787--1169840 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
1169777 ATGTGAGCTT
1169787 AATGTTTTTCTTAATGATCAGATTGC
1 AATGTTTTTCTTAATGATCAGATTGC
1169813 AATGTTTTTCTTAATGATCAGATTGC
1 AATGTTTTTCTTAATGATCAGATTGC
1169839 AA
1 AA
1169841 ATAAAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (26 bp):
AATGTTTTTCTTAATGATCAGATTGC
Found at i:1171922 original size:39 final size:39
Alignment explanation
Indices: 1171879--1172249 Score: 314
Period size: 39 Copynumber: 9.5 Consensus size: 39
1171869 TAAATATAGT
* * *
1171879 GATTTAATTCCTTTTACAAAAGAGGAAAATAAATCAAAC
1 GATTTATTTCCTTTTACAAAATAGGAAAATAAATCCAAC
* * *
1171918 GATTTATTTCCTTTTA-TAAATAGAAAAATAAATCCAAT
1 GATTTATTTCCTTTTACAAAATAGGAAAATAAATCCAAC
1171956 GATTT-TATTCCTTTTACAAAAATAGGAAAATAAATCCAAC
1 GATTTAT-TTCCTTTTAC-AAAATAGGAAAATAAATCCAAC
* * *
1171996 GATTTATTT-CTTTT------TA-CAAAA-AAATCTAAT
1 GATTTATTTCCTTTTACAAAATAGGAAAATAAATCCAAC
1172026 GATTTATTTCCTTTTACAAAATAGGAAAATAAATCCAAC
1 GATTTATTTCCTTTTACAAAATAGGAAAATAAATCCAAC
* * * *
1172065 AATTTATTCCCTTTTATAAAATAGGAAAATAAATCGAACGAGTTGTTTC
1 GATTTATTTCCTTTTACAAAATAGGAAAATAAATC---C-A------AC
* * * *
1172114 GATTTATTTTCTTTTTACAAAATAAGAAAATAAAGCTAAC
1 GATTTA-TTTCCTTTTACAAAATAGGAAAATAAATCCAAC
* * * * * *
1172154 GATTTATTTCCTTTTACAAACTAAGAAACTAAATTCTAT
1 GATTTATTTCCTTTTACAAAATAGGAAAATAAATCCAAC
* * *
1172193 GATTTATTTCCTTTTAAAAAATAAGAAAATAAATCCAAG
1 GATTTATTTCCTTTTACAAAATAGGAAAATAAATCCAAC
1172232 GATTTATTTCCTTTTACA
1 GATTTATTTCCTTTTACA
1172250 TATCAGAATC
Statistics
Matches: 266, Mismatches: 42, Indels: 48
0.75 0.12 0.13
Matches are distributed among these distances:
30 16 0.06
31 9 0.03
32 2 0.01
37 3 0.01
38 35 0.13
39 134 0.50
40 33 0.12
41 1 0.00
42 1 0.00
43 1 0.00
46 1 0.00
49 6 0.02
50 24 0.09
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.37
Consensus pattern (39 bp):
GATTTATTTCCTTTTACAAAATAGGAAAATAAATCCAAC
Found at i:1172030 original size:30 final size:31
Alignment explanation
Indices: 1171982--1172048 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
1171972 CAAAAATAGG
*
1171982 AAAATAAATCCAACGATTTATTTCTTTTTAC
1 AAAATAAATCCAACGATTTATTTCCTTTTAC
* *
1172013 AAAA-AAATCTAATGATTTATTTCCTTTTAC
1 AAAATAAATCCAACGATTTATTTCCTTTTAC
1172043 AAAATA
1 AAAATA
1172049 GGAAAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.43, C:0.13, G:0.03, T:0.40
Consensus pattern (31 bp):
AAAATAAATCCAACGATTTATTTCCTTTTAC
Found at i:1172030 original size:108 final size:109
Alignment explanation
Indices: 1171904--1172249 Score: 295
Period size: 128 Copynumber: 3.0 Consensus size: 109
1171894 ACAAAAGAGG
* * *
1171904 AAAATAAATCAAACGATTTATTTCCTTTTA-TAAATAGAAAAATAAATCCAATGATTTTATT-CC
1 AAAATAAATCAAACGATTTATTTCCTTTTACAAAATAGAAAAATAAATCCAA-CAATTTATTCCC
1171967 TTTTACAAAAATAGGAAAATAAATCCAACGATTTATTTCTTTTTAC
65 TTTTA-AAAAATAGGAAAATAAATCCAACGATTTATTTCTTTTTAC
* * *
1172013 AAAA-AAATCTAATGATTTATTTCCTTTTACAAAATAGGAAAATAAATCCAACAATTTATTCCCT
1 AAAATAAATCAAACGATTTATTTCCTTTTACAAAATAGAAAAATAAATCCAACAATTTATTCCCT
* *
1172077 TTTATAAAATAGGAAAATAAATCGAACGAGTTGTTTCGATTTATTTTCTTTTTAC
66 TTTAAAAAATAGGAAAATAAATC---C-A------ACGATTTA-TTTCTTTTTAC
* * * * * **
1172132 AAAATAAGAAAATAAAGCTAACGATTTATTTCCTTTTACAAACTA-AGAAACTAAATTCTATGAT
1 AAAAT----AAAT----CAAACGATTTATTTCCTTTTACAAAATAGA-AAAATAAATCCAACAAT
* * * *
1172196 TTATTTCCTTTTAAAAAATAAGAAAATAAATCCAAGGATTTATTTCCTTTTAC
57 TTATTCCCTTTTAAAAAATAGGAAAATAAATCCAACGATTTATTTCTTTTTAC
1172249 A
1 A
1172250 TATCAGAATC
Statistics
Matches: 192, Mismatches: 22, Indels: 38
0.76 0.09 0.15
Matches are distributed among these distances:
108 48 0.25
109 30 0.16
111 1 0.01
112 1 0.01
117 11 0.06
118 13 0.07
119 15 0.08
124 5 0.03
125 1 0.01
128 67 0.35
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (109 bp):
AAAATAAATCAAACGATTTATTTCCTTTTACAAAATAGAAAAATAAATCCAACAATTTATTCCCT
TTTAAAAAATAGGAAAATAAATCCAACGATTTATTTCTTTTTAC
Found at i:1172063 original size:69 final size:71
Alignment explanation
Indices: 1171942--1172087 Score: 217
Period size: 69 Copynumber: 2.1 Consensus size: 71
1171932 TATAAATAGA
*
1171942 AAAATAAATCCAATGATTTTATTCCTTTTACAAAAATAGGAAAATAAATCCAACGATTTATTTCT
1 AAAATAAATCCAATGATTTTATTCCTTTTACAAAAATAGGAAAATAAATCCAACAATTTATTTCT
1172007 TTTTAC
66 TTTTAC
* *
1172013 AAAA-AAATCTAATGA-TTTATTTCCTTTTAC-AAAATAGGAAAATAAATCCAACAATTTATTCC
1 AAAATAAATCCAATGATTTTA-TTCCTTTTACAAAAATAGGAAAATAAATCCAACAATTTATTTC
* *
1172075 CTTTTAT
65 TTTTTAC
1172082 AAAATA
1 AAAATA
1172088 GGAAAATAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
69 43 0.63
70 21 0.31
71 4 0.06
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.37
Consensus pattern (71 bp):
AAAATAAATCCAATGATTTTATTCCTTTTACAAAAATAGGAAAATAAATCCAACAATTTATTTCT
TTTTAC
Found at i:1172187 original size:89 final size:88
Alignment explanation
Indices: 1172026--1172187 Score: 225
Period size: 89 Copynumber: 1.8 Consensus size: 88
1172016 AAAATCTAAT
* * * *
1172026 GATTTATTTCCTTTTACAAAATAGGAAAATAAATCCAACAATTTATTCCCTTTTATAAAATAGGA
1 GATTTATTTCCTTTTACAAAATAAGAAAATAAAGCCAACAATTTATTCCCTTTTACAAAATAAGA
1172091 AAATAAATCGAACGAGTTGTTTC
66 AAATAAATCGAACGAGTTGTTTC
* * * * *
1172114 GATTTATTTTCTTTTTACAAAATAAGAAAATAAAGCTAACGATTTATTTCCTTTTACAAACTAAG
1 GATTTA-TTTCCTTTTACAAAATAAGAAAATAAAGCCAACAATTTATTCCCTTTTACAAAATAAG
*
1172179 AAACTAAAT
65 AAAATAAAT
1172188 TCTATGATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
88 6 0.10
89 57 0.90
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (88 bp):
GATTTATTTCCTTTTACAAAATAAGAAAATAAAGCCAACAATTTATTCCCTTTTACAAAATAAGA
AAATAAATCGAACGAGTTGTTTC
Found at i:1172378 original size:100 final size:100
Alignment explanation
Indices: 1172194--1172379 Score: 230
Period size: 100 Copynumber: 1.9 Consensus size: 100
1172184 AAATTCTATG
* *
1172194 ATTTATTTCCTTTTAAAAAATAAGAAAATAAATCCAAGGATTTATTTCCTTTTACATATCAGAAT
1 ATTTATTTCCTTTTAAAAAATAAGAAAATAAATCCAACGATTTATTTCCTTTTACATATCAAAAT
***
1172259 CATACAAGATTATTTGGAAAAACAAAAAATTATCA
66 CATACAAGATTAGCAGGAAAAACAAAAAATTATCA
* ** * * *
1172294 ATTTATTTCTTTTTTCAAAAT-AGAAAAATAAATTCTACGATTTATTTCCTTTTACATGTCAAAA
1 ATTTATTTCCTTTTAAAAAATAAG-AAAATAAATCCAACGATTTATTTCCTTTTACATATCAAAA
* * *
1172358 TCATGCGAGATTCGCAGGAAAA
65 TCATACAAGATTAGCAGGAAAA
1172380 TTAAATTCAA
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
99 2 0.03
100 69 0.97
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.37
Consensus pattern (100 bp):
ATTTATTTCCTTTTAAAAAATAAGAAAATAAATCCAACGATTTATTTCCTTTTACATATCAAAAT
CATACAAGATTAGCAGGAAAAACAAAAAATTATCA
Found at i:1172738 original size:45 final size:45
Alignment explanation
Indices: 1172619--1172814 Score: 252
Period size: 45 Copynumber: 4.4 Consensus size: 45
1172609 TTAATGTTAC
* * * * * *
1172619 CAACCCAATAATCAGAAGGAACTAGTCCTTTAATTTTAATTTTCA
1 CAACACAATAATCAAAAGGAACTAATCCTTTGATTTTACTTTTGA
* * * *
1172664 CAA-TCAGTAAT-AGAAAGGAGCTAATCCTTTGATTTTACTTTTGG
1 CAACACAATAATCA-AAAGGAACTAATCCTTTGATTTTACTTTTGA
* *
1172708 CAACACAATAATCAAAAGGAACTAAACCTTTGATTTTACTTTTAA
1 CAACACAATAATCAAAAGGAACTAATCCTTTGATTTTACTTTTGA
1172753 CAACACAATAATCAAAAGGAACTAATCCTTTGATTTTACTTTTGA
1 CAACACAATAATCAAAAGGAACTAATCCTTTGATTTTACTTTTGA
*
1172798 TAACACAATAATCAAAA
1 CAACACAATAATCAAAA
1172815 AGCCTTGGAT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
43 1 0.01
44 33 0.25
45 95 0.73
46 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (45 bp):
CAACACAATAATCAAAAGGAACTAATCCTTTGATTTTACTTTTGA
Found at i:1175121 original size:18 final size:19
Alignment explanation
Indices: 1175081--1175124 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1175071 GATATATTAT
1175081 ATTTAATAACTCTTTAGAG
1 ATTTAATAACTCTTTAGAG
*
1175100 ATTTAATAACTTTTTA-AG
1 ATTTAATAACTCTTTAGAG
1175118 ATTTAAT
1 ATTTAAT
1175125 TTGAACGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (19 bp):
ATTTAATAACTCTTTAGAG
Found at i:1175555 original size:2 final size:2
Alignment explanation
Indices: 1175548--1175584 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1175538 TTTTACTTCT
*
1175548 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1175585 CATTTATGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1175851 original size:23 final size:23
Alignment explanation
Indices: 1175820--1175879 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
1175810 GTTTGTGTTC
*
1175820 GTTTATTTATTGTTCACAAACAT
1 GTTTATTTAATGTTCACAAACAT
* * *
1175843 GTTTGTTTAATGTTCGCGAACAT
1 GTTTATTTAATGTTCACAAACAT
* *
1175866 GTTCATTTAGTGTT
1 GTTTATTTAATGTT
1175880 AGTGAATGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (23 bp):
GTTTATTTAATGTTCACAAACAT
Found at i:1176651 original size:24 final size:24
Alignment explanation
Indices: 1176624--1176695 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
1176614 AAACTGAGAT
1176624 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
1176648 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
1176672 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
1176696 GTAATGTATC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.51, C:0.18, G:0.14, T:0.17
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:1176653 original size:12 final size:12
Alignment explanation
Indices: 1176626--1176695 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
1176616 ACTGAGATAT
* *
1176626 CAGAAATCAAAA
1 CAGAATTCAGAA
*
1176638 CAGAATTCAGAT
1 CAGAATTCAGAA
1176650 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
1176662 CAGAATCCAGAT
1 CAGAATTCAGAA
* *
1176674 CAGAAATCAAAA
1 CAGAATTCAGAA
1176686 CAGAATTCAG
1 CAGAATTCAG
1176696 GTAATGTATC
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.51, C:0.19, G:0.14, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:1176728 original size:48 final size:48
Alignment explanation
Indices: 1176624--1176730 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
1176614 AAACTGAGAT
* *
1176624 ATCAGAAATCAAAACAGAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAGATAAGATATCAGAACAGAATCAAG
* *
1176672 ATCAGAAATCAAAACAGAATTCAGGTAATG-TATCAGAACATAATTCAAG
1 ATCAGAAATCAAAACAGAATTCAGATAA-GATATCAGAACAGAA-TCAAG
*
1176721 -TCGGAAATCA
1 ATCAGAAATCA
1176731 GATAAAATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
48 47 0.90
49 5 0.10
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCAGATAAGATATCAGAACAGAATCAAG
Found at i:1177883 original size:18 final size:18
Alignment explanation
Indices: 1177860--1177895 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1177850 CTGCCATCCG
*
1177860 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
1177878 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
1177896 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:1179218 original size:8 final size:8
Alignment explanation
Indices: 1179186--1179230 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
1179176 TCAAAGTTTT
1179186 GGTCAACAG
1 GGTCAAC-G
1179195 TGGTCAAC-
1 -GGTCAACG
*
1179203 GATCAACG
1 GGTCAACG
1179211 GGTCAACG
1 GGTCAACG
1179219 GGTCAACG
1 GGTCAACG
1179227 GGTC
1 GGTC
1179231 GGGTCGGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 6 0.19
8 19 0.59
10 7 0.22
ACGTcount: A:0.27, C:0.24, G:0.33, T:0.16
Consensus pattern (8 bp):
GGTCAACG
Found at i:1183161 original size:89 final size:89
Alignment explanation
Indices: 1183010--1183187 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
1183000 GTTATACTAC
1183010 ATGCAATACACTCGTTTATATGACTCACATACCATGCATTCTCATTTATTATACATTAGGCTATA
1 ATGCAATACACTCGTTTATATGACTCACATACCATGCATTCTCATTTATTATACATTAGGCTATA
1183075 ATTATGTGAAACTGAAAAGTGCAT
66 ATTATGTGAAACTGAAAAGTGCAT
1183099 ATGCAATACACTCGTTTATATGACTCACATACCATGCATTCTCATTTATTATACATTAGGCTATA
1 ATGCAATACACTCGTTTATATGACTCACATACCATGCATTCTCATTTATTATACATTAGGCTATA
1183164 ATTATGTGAAACTGAAAAGTGCAT
66 ATTATGTGAAACTGAAAAGTGCAT
1183188 GTTGATTGCT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (89 bp):
ATGCAATACACTCGTTTATATGACTCACATACCATGCATTCTCATTTATTATACATTAGGCTATA
ATTATGTGAAACTGAAAAGTGCAT
Found at i:1194167 original size:16 final size:16
Alignment explanation
Indices: 1194143--1194176 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1194133 ATACAATATT
*
1194143 TTTGTTTGATTAAAAG
1 TTTGATTGATTAAAAG
*
1194159 TTTGATTGATTACAAG
1 TTTGATTGATTAAAAG
1194175 TT
1 TT
1194177 AAGGAAACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.18, T:0.50
Consensus pattern (16 bp):
TTTGATTGATTAAAAG
Found at i:1217711 original size:12 final size:12
Alignment explanation
Indices: 1217694--1217718 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1217684 TACTGTTCAC
1217694 TGCTACAGTAAT
1 TGCTACAGTAAT
1217706 TGCTACAGTAAT
1 TGCTACAGTAAT
1217718 T
1 T
1217719 TCAGCAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (12 bp):
TGCTACAGTAAT
Found at i:1222399 original size:45 final size:44
Alignment explanation
Indices: 1222349--1222475 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 44
1222339 TATAAAATTT
* *
1222349 CTTACCATTTAACCTATAATCTCGTAAGCTTATTTTAGCAATATA
1 CTTACCATTTAACC-ATAAGCTCGTAAGCTTATTTTACCAATATA
* *
1222394 CTTACCATCTAATACCATAAGCTCAG-AAGCTTAGTTTACCAATATA
1 CTTACCAT-TTA-ACCATAAGCTC-GTAAGCTTATTTTACCAATATA
*
1222440 CTTACCATTTACTCCATAAGCTCGTAAGCTTATTTT
1 CTTACCATTTA-ACCATAAGCTCGTAAGCTTATTTT
1222476 CATGTTTACC
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
44 1 0.01
45 30 0.43
46 35 0.50
47 4 0.06
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (44 bp):
CTTACCATTTAACCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:1224693 original size:20 final size:20
Alignment explanation
Indices: 1224668--1224724 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
1224658 ACTCCTTGAA
* **
1224668 TGTGCATCGATGCACTGTGC
1 TGTGCATCGATACACCCTGC
*
1224688 TGTGCATCGATACACCCTGT
1 TGTGCATCGATACACCCTGC
1224708 TGTGCATCGATACACCC
1 TGTGCATCGATACACCC
1224725 GTCAGGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (20 bp):
TGTGCATCGATACACCCTGC
Found at i:1227339 original size:64 final size:65
Alignment explanation
Indices: 1227215--1227370 Score: 183
Period size: 64 Copynumber: 2.4 Consensus size: 65
1227205 CACACCCATT
* **
1227215 TCGAATGTATTTTGTGTACCGAAGCACAAGCCATGCATCGATGCACTCTTGAATATTTTG-AACA
1 TCGAATGTATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCCAGAATATTTTGAAACA
* * **
1227279 TCGAATGCATTTTGTGTACCGATGCA-TAGACCATGCATCGATGCACTCCAGGCTCA-TTTGAAA
1 TCGAATGTATTTTGTGTACCGATGCACAAG-CCATGCATCGATGCACTCCAGAAT-ATTTTGAAA
1227342 CA
64 CA
* * *
1227344 TCGAATGTATTTAGAGGACCGATGCAC
1 TCGAATGTATTTTGTGTACCGATGCAC
1227371 CCCTAGTGTA
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
63 2 0.03
64 48 0.62
65 27 0.35
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (65 bp):
TCGAATGTATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCCAGAATATTTTGAAACA
Found at i:1227460 original size:21 final size:21
Alignment explanation
Indices: 1227434--1227484 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
1227424 CACATAGTGT
*
1227434 ATCGATGCACCTTGGCTATGC
1 ATCGATGCACCATGGCTATGC
1227455 ATCGATGCACCATGGCTATGC
1 ATCGATGCACCATGGCTATGC
1227476 ATCGATGCA
1 ATCGATGCA
1227485 TCATACGTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (21 bp):
ATCGATGCACCATGGCTATGC
Found at i:1228525 original size:54 final size:53
Alignment explanation
Indices: 1228464--1229045 Score: 804
Period size: 54 Copynumber: 10.8 Consensus size: 53
1228454 CCCACTACCA
*
1228464 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACATTGCCC
1 ATAC-AAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCC
* * *
1228518 ATGCGAAAATTCATAAACTTATTATGAATTTCTTTGTTTGCACACACAGTACCC
1 ATAC-AAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCC
* * *
1228572 ATACAGAAATTCACAAACTTATTATGAATTTCTTAGTTTGCACACACAATGGCC
1 ATACA-AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCC
*
1228626 ATACATAAATTCATAAACTTATTATGAATTTCTTAGTTTGTACACACAGTGCCC
1 ATACA-AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCC
* * * *
1228680 ATGCGAAAATTCATAAACTTATTATGAATTTCTTTGTTTGCACACACAATACCC
1 ATAC-AAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCC
* *
1228734 ATACAGAAATTCACAAACTTATTATGAATTTCTTAGTTTGCACACACAATGCCC
1 ATACA-AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCC
*
1228788 ATACATAAATTCATAAACTTATTATGAATTTCTTAGTTTGTACACACAGTGCCC
1 ATACA-AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCC
* * *
1228842 ATACAAAAATTCATAAACTTATTAGGAATTTCTTAGTTTACAAACACAGTGCCC
1 ATAC-AAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCC
** * *
1228896 ATATGGAAATTCATAAACTTATTAGGAATTTCTTAGTTTACACACACAGTGCCC
1 ATA-CAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCC
* ** * * *
1228950 ATACGGAAATTCATAAACTTATTACAAATTTTTTAGTTTGCACACACAATGCCA
1 ATAC-AAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCC
*
1229004 ATACACAAATTCATAAACTTAGTATGAATTTCTTAGTTTGCA
1 ATACA-AAATTCATAAACTTATTATGAATTTCTTAGTTTGCA
1229046 TGCATATTTC
Statistics
Matches: 474, Mismatches: 47, Indels: 14
0.89 0.09 0.03
Matches are distributed among these distances:
53 2 0.00
54 470 0.99
55 2 0.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (53 bp):
ATACAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCC
Found at i:1235580 original size:18 final size:20
Alignment explanation
Indices: 1235534--1235584 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
1235524 ATTGGGCCAG
*
1235534 TAGTATCGGTACTCACCCAT
1 TAGTATCGATACTCACCCAT
*
1235554 TGGGTATCGATACTCA-CC-T
1 T-AGTATCGATACTCACCCAT
1235573 TAGTATCGATAC
1 TAGTATCGATAC
1235585 CAGAATTTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.37
19 2 0.07
20 3 0.11
21 12 0.44
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (20 bp):
TAGTATCGATACTCACCCAT
Found at i:1239036 original size:22 final size:22
Alignment explanation
Indices: 1239005--1239055 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
1238995 ACTATACGGT
1239005 ATGAACAATA-TCGTGAACAGTG
1 ATGAACAATACT-GTGAACAGTG
* *
1239027 ATGAATAATACTGTGAACAGTT
1 ATGAACAATACTGTGAACAGTG
1239049 ATGAACA
1 ATGAACA
1239056 GTGTATCGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (22 bp):
ATGAACAATACTGTGAACAGTG
Found at i:1239874 original size:117 final size:117
Alignment explanation
Indices: 1239736--1239983 Score: 277
Period size: 117 Copynumber: 2.1 Consensus size: 117
1239726 ATGATTTTGT
* * * *
1239736 TACCATTTTAGCACATGAAATGTCCTAT-ATGAAAATCCATACCATT-AGTATTATTTCCTTATC
1 TACCATTTTAGCACATAAAATGCCCTATCA-GAAAATCCATA-CATTCAATATGATTTCCTTATC
* * * * ** *
1239799 TTTGTAGAACCCTTAGTGTTGTATCTAGAAATCCATACACTCAGTATGA-TTCCC
64 ATT-TAGAACACTCAGTGCTCCATATAGAAATCCATACACTCAGTATGATTTCCC
* **
1239853 TACCATTTTAGCACATAAAATGCCCTATCAGGAAATCCATATTTTCAATATGATTTCCTTATCAT
1 TACCATTTTAGCACATAAAATGCCCTATCAGAAAATCCATACATTCAATATGATTTCCTTATCAT
* * * *
1239918 TTAGCACACTCAGTGCTCCATATTGAAATCTATACACTCAGTATGATTTCCT
66 TTAGAACACTCAGTGCTCCATATAGAAATCCATACACTCAGTATGATTTCCC
*
1239970 TATCATTTTAGCAC
1 TACCATTTTAGCAC
1239984 CCAAAGTACC
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
116 38 0.35
117 70 0.64
118 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (117 bp):
TACCATTTTAGCACATAAAATGCCCTATCAGAAAATCCATACATTCAATATGATTTCCTTATCAT
TTAGAACACTCAGTGCTCCATATAGAAATCCATACACTCAGTATGATTTCCC
Found at i:1240430 original size:17 final size:18
Alignment explanation
Indices: 1240393--1240430 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
1240383 GAGGGGGTGC
*
1240393 ATCGATACACTACCTGTGT
1 ATCGATACACTA-CAGTGT
1240412 ATCGATACACT-CAGTGT
1 ATCGATACACTACAGTGT
1240429 AT
1 AT
1240431 TCGACATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
19 11 0.61
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
ATCGATACACTACAGTGT
Found at i:1251695 original size:46 final size:46
Alignment explanation
Indices: 1251592--1251695 Score: 183
Period size: 45 Copynumber: 2.3 Consensus size: 46
1251582 TGTTTCATTA
1251592 CATAAATGAAATGCAATAACGGTGCATTAAAGGCATGAAAGGATGC
1 CATAAATGAAATGCAATAACGGTGCATTAAAGGCATGAAAGGATGC
1251638 CATAAATGAAATGC-ATAACGGTGCATTAAAGGCATGAAAGGATGC
1 CATAAATGAAATGCAATAACGGTGCATTAAAGGCATGAAAGGATGC
*
1251683 CATGAATGGAAAT
1 CATAAAT-GAAAT
1251696 AAAGTATAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
45 37 0.66
46 19 0.34
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.20
Consensus pattern (46 bp):
CATAAATGAAATGCAATAACGGTGCATTAAAGGCATGAAAGGATGC
Found at i:1258618 original size:45 final size:45
Alignment explanation
Indices: 1258549--1258876 Score: 424
Period size: 45 Copynumber: 7.3 Consensus size: 45
1258539 GTATTCATTA
*
1258549 CATAAATGAAATGCATAATGGTGCATTAAAGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * *
1258594 CATAAAAGAAAAGTATAACGGTGCATTAAAGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * * *
1258639 CATAAATGAAATGCATAGCAGTACATTGAAGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * *
1258684 CATATATGAAATGCATAACTGTGCATTAAAGGCATGAAAAGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * * **
1258729 CATAAATGAAATGCATAACAGTGCATTAAATTG-ATGAAACGATAT
1 CATAAATGAAATGCATAACGGTGCATTAAA-GGCATGAAAGGATGC
* * *
1258774 CATAAATGAAATGTATAACGGTGCATTAAAGGCATGAAAGTATGT
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * **
1258819 CAAAAATGAAATGCATAGCGGTGCAAGAAAGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
1258864 CATAAATTGAAAT
1 CATAAA-TGAAAT
1258877 AATGCATTAT
Statistics
Matches: 243, Mismatches: 37, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
44 1 0.00
45 235 0.97
46 7 0.03
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (45 bp):
CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
Found at i:1258803 original size:24 final size:23
Alignment explanation
Indices: 1258689--1258803 Score: 55
Period size: 24 Copynumber: 5.0 Consensus size: 23
1258679 GATGCCATAT
*
1258689 ATGAAATGCATAACTGTGCATTAA
1 ATGAAATG-ATAACGGTGCATTAA
** * *
1258713 A-GGCATGA-AAAGATGCCA-TAA
1 ATGAAATGATAACGGTG-CATTAA
*
1258734 ATGAAATGCATAACAGTGCATTAA
1 ATGAAATG-ATAACGGTGCATTAA
* *
1258758 ATTG--ATGA-AACGATATCA-TAA
1 A-TGAAATGATAACGGT-GCATTAA
1258779 ATGAAATGTATAACGGTGCATTAA
1 ATGAAATG-ATAACGGTGCATTAA
1258803 A
1 A
1258804 GGCATGAAAG
Statistics
Matches: 64, Mismatches: 15, Indels: 24
0.62 0.15 0.23
Matches are distributed among these distances:
20 2 0.03
21 16 0.25
22 13 0.20
23 13 0.20
24 18 0.28
25 2 0.03
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.25
Consensus pattern (23 bp):
ATGAAATGATAACGGTGCATTAA
Found at i:1270565 original size:29 final size:29
Alignment explanation
Indices: 1270435--1270582 Score: 108
Period size: 29 Copynumber: 5.1 Consensus size: 29
1270425 AAAAAACATG
* * * *
1270435 AAATTATAATAAAGGT-CTAAACTATTCAG
1 AAATTATAATAAA-GTACAAAACTTTTTAT
* *
1270464 AAATTATATTAAAAGGA-AAAACTTTTTGA-
1 AAATTATAAT-AAAGTACAAAACTTTTT-AT
* * * *
1270493 CAATTA-AAGTGAAGGACAAAAGTTTTTAT
1 AAATTATAA-TAAAGTACAAAACTTTTTAT
1270522 AAATTATAATAAAGTACAAAA-TTGTTTAT
1 AAATTATAATAAAGTACAAAACTT-TTTAT
**
1270551 AAATTATAATAAAGTGTAAAACTTTTTAT
1 AAATTATAATAAAGTACAAAACTTTTTAT
1270580 AAA
1 AAA
1270583 ACAAAGTATA
Statistics
Matches: 96, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
28 9 0.09
29 79 0.82
30 8 0.08
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.34
Consensus pattern (29 bp):
AAATTATAATAAAGTACAAAACTTTTTAT
Found at i:1270848 original size:22 final size:22
Alignment explanation
Indices: 1270835--1270902 Score: 100
Period size: 22 Copynumber: 3.1 Consensus size: 22
1270825 AGAAGGTTGT
*
1270835 ACGAATGCTGGAAGTAGGCTAC
1 ACGAATGCTGGAAGTAGGCTGC
*
1270857 ACGAATGTTGGAAGTAGGCTGC
1 ACGAATGCTGGAAGTAGGCTGC
* *
1270879 ACAAATGCTGGAAGTGGGCTGC
1 ACGAATGCTGGAAGTAGGCTGC
1270901 AC
1 AC
1270903 AGGCGCTGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.29, C:0.18, G:0.34, T:0.19
Consensus pattern (22 bp):
ACGAATGCTGGAAGTAGGCTGC
Found at i:1284567 original size:19 final size:19
Alignment explanation
Indices: 1284545--1284586 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
1284535 GTCGTTGCGA
1284545 GTTCACCGGTGTCAACCTT
1 GTTCACCGGTGTCAACCTT
1284564 GTTCACCGGTGTCAACCTT
1 GTTCACCGGTGTCAACCTT
1284583 GTTC
1 GTTC
1284587 GTCGTAGACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.14, C:0.31, G:0.21, T:0.33
Consensus pattern (19 bp):
GTTCACCGGTGTCAACCTT
Found at i:1284845 original size:29 final size:30
Alignment explanation
Indices: 1284800--1284861 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
1284790 GCTGTTGGAA
*
1284800 ACCGGTTTTCAACCGGTTTTGACCAGTTTG
1 ACCGGTTTTCAACCGGTTTTGACCAGTCTG
*
1284830 ACCGG-TTTCGAA-CGGTTTTGACCGGTCTG
1 ACCGGTTTTC-AACCGGTTTTGACCAGTCTG
1284859 ACC
1 ACC
1284862 CGACCCGACC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.32
Consensus pattern (30 bp):
ACCGGTTTTCAACCGGTTTTGACCAGTCTG
Found at i:1284855 original size:10 final size:10
Alignment explanation
Indices: 1284800--1284855 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
1284790 GCTGTTGGAA
*
1284800 ACCGGTTTTCA
1 ACCGGTTTT-G
1284811 ACCGGTTTTG
1 ACCGGTTTTG
*
1284821 ACCAG-TTTG
1 ACCGGTTTTG
*
1284830 ACCGGTTTCG
1 ACCGGTTTTG
*
1284840 AACGGTTTTG
1 ACCGGTTTTG
1284850 ACCGGT
1 ACCGGT
1284856 CTGACCCGAC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
9 8 0.22
10 20 0.54
11 9 0.24
ACGTcount: A:0.16, C:0.23, G:0.27, T:0.34
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:1292125 original size:10 final size:10
Alignment explanation
Indices: 1292088--1292153 Score: 82
Period size: 10 Copynumber: 6.7 Consensus size: 10
1292078 GTTGGTGGAA
1292088 ACCGG-TTTG
1 ACCGGTTTTG
*
1292097 ACCGGTTTTCA
1 ACCGGTTTT-G
1292108 ACCGGTTTTG
1 ACCGGTTTTG
*
1292118 ATCGG-TTTG
1 ACCGGTTTTG
*
1292127 ACCGGTTTCG
1 ACCGGTTTTG
1292137 ACCGGTTTTG
1 ACCGGTTTTG
1292147 ACCGGTT
1 ACCGGTT
1292154 CGAACCGTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
9 13 0.27
10 26 0.54
11 9 0.19
ACGTcount: A:0.12, C:0.23, G:0.29, T:0.36
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:1292132 original size:19 final size:19
Alignment explanation
Indices: 1292088--1292196 Score: 98
Period size: 19 Copynumber: 5.6 Consensus size: 19
1292078 GTTGGTGGAA
*
1292088 ACCGGTTTGACCGGTTTTCA
1 ACCGGTTTGACCGGTTTT-G
*
1292108 ACCGGTTTTGATCGG-TTTG
1 ACCGG-TTTGACCGGTTTTG
1292127 ACCGGTTTCGACCGGTTTTG
1 ACCGGTTT-GACCGGTTTTG
*
1292147 ACCGGTTCGAACC-GTTTTG
1 ACCGGTTTG-ACCGGTTTTG
** *
1292166 TTCGGTCTGAACCGG-TTTG
1 ACCGGTTTG-ACCGGTTTTG
1292185 ACCGGTTTGACC
1 ACCGGTTTGACC
1292197 CGACCCGACC
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
18 6 0.08
19 36 0.49
20 23 0.32
21 8 0.11
ACGTcount: A:0.13, C:0.24, G:0.28, T:0.35
Consensus pattern (19 bp):
ACCGGTTTGACCGGTTTTG
Found at i:1292145 original size:29 final size:30
Alignment explanation
Indices: 1292088--1292153 Score: 107
Period size: 29 Copynumber: 2.2 Consensus size: 30
1292078 GTTGGTGGAA
1292088 ACCGGTTTGACCGGTTTTCAACCGGTTTTG
1 ACCGGTTTGACCGGTTTTCAACCGGTTTTG
* *
1292118 ATCGGTTTGACCGG-TTTCGACCGGTTTTG
1 ACCGGTTTGACCGGTTTTCAACCGGTTTTG
1292147 ACCGGTT
1 ACCGGTT
1292154 CGAACCGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 20 0.61
30 13 0.39
ACGTcount: A:0.12, C:0.23, G:0.29, T:0.36
Consensus pattern (30 bp):
ACCGGTTTGACCGGTTTTCAACCGGTTTTG
Found at i:1292192 original size:29 final size:29
Alignment explanation
Indices: 1292088--1292196 Score: 98
Period size: 29 Copynumber: 3.8 Consensus size: 29
1292078 GTTGGTGGAA
* *
1292088 ACCGGTTTGACCGGTTTTCAACCGGTTTTG
1 ACCGGTTTGACCGG-TTTCGACCGGTTCTG
* *
1292118 ATCGGTTTGACCGGTTTCGACCGGTTTTG
1 ACCGGTTTGACCGGTTTCGACCGGTTCTG
* * **
1292147 ACCGGTTCGAACC-GTTTTGTTCGG-TCTG
1 ACCGGTTTG-ACCGGTTTCGACCGGTTCTG
1292175 AACCGGTTTGACCGGTTT-GACC
1 -ACCGGTTTGACCGGTTTCGACC
1292197 CGACCCGACC
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
28 8 0.12
29 41 0.63
30 16 0.25
ACGTcount: A:0.13, C:0.24, G:0.28, T:0.35
Consensus pattern (29 bp):
ACCGGTTTGACCGGTTTCGACCGGTTCTG
Found at i:1292210 original size:14 final size:14
Alignment explanation
Indices: 1292193--1292221 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1292183 TGACCGGTTT
1292193 GACCCGACCCGACC
1 GACCCGACCCGACC
1292207 GACCCGACCCGACC
1 GACCCGACCCGACC
1292221 G
1 G
1292222 TTGACCGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.55, G:0.24, T:0.00
Consensus pattern (14 bp):
GACCCGACCCGACC
Found at i:1292229 original size:7 final size:7
Alignment explanation
Indices: 1292217--1292254 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
1292207 GACCCGACCC
1292217 GACCGTT
1 GACCGTT
1292224 GACCGTT
1 GACCGTT
*
1292231 GATCGTT
1 GACCGTT
*
1292238 GACCATT
1 GACCGTT
1292245 GACCGTT
1 GACCGTT
1292252 GAC
1 GAC
1292255 TTCGTTTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.29
Consensus pattern (7 bp):
GACCGTT
Found at i:1295298 original size:41 final size:41
Alignment explanation
Indices: 1295253--1295532 Score: 273
Period size: 41 Copynumber: 6.8 Consensus size: 41
1295243 AGTTTGATCT
* * * *
1295253 TGGCATCATGCACTATTTCACAATTCGATTCAGTTCAATCA
1 TGGCAACATGCAATAATTCACAATTCGATTCAATTCAATCA
* * *
1295294 TGGCAACATGCAATAATTCACCATTCGACTAAATTCAATCA
1 TGGCAACATGCAATAATTCACAATTCGATTCAATTCAATCA
*
1295335 TGG-AAGCATGCAATAA-TCTACAATTCGATTCAATACAATCA
1 TGGCAA-CATGCAATAATTC-ACAATTCGATTCAATTCAATCA
* * **
1295376 TGACAACATGTAATAATTCACAATTAAACTT-AATTCAATCA
1 TGGCAACATGCAATAATTCACAATTCGA-TTCAATTCAATCA
* **
1295417 TGG-AAGCATGCAATAATTCAAAATTTAATTCAATTCAATCA
1 TGGCAA-CATGCAATAATTCACAATTCGATTCAATTCAATCA
* * * * * *
1295458 TGGCAGCGTGCAATAATTCACGATTCAACTT-AATTCGATAA
1 TGGCAACATGCAATAATTCACAATTCGA-TTCAATTCAATCA
* *
1295499 TGACAACATGCAATAATTCACAATTCAATTCAAT
1 TGGCAACATGCAATAATTCACAATTCGATTCAAT
1295533 CATGACACTC
Statistics
Matches: 198, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
40 10 0.05
41 179 0.90
42 9 0.05
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (41 bp):
TGGCAACATGCAATAATTCACAATTCGATTCAATTCAATCA
Found at i:1295396 original size:82 final size:82
Alignment explanation
Indices: 1295259--1295532 Score: 336
Period size: 82 Copynumber: 3.3 Consensus size: 82
1295249 ATCTTGGCAT
* * * * * *
1295259 CATGCACTATTTCACAATTCGATTCAGTTCAATCATGGCAACATGCAATAATTCACCATTCGACT
1 CATGCAATAATTCACAATTCAATTCAATTCAATCATGGCAACATGCAATAATTCACAATTCAACT
*
1295324 AAATTCAATCATGGAAG
66 TAATTCAATCATGGAAG
* * * * *
1295341 CATGCAATAA-TCTACAATTCGATTCAATACAATCATGACAACATGTAATAATTCACAATTAAAC
1 CATGCAATAATTC-ACAATTCAATTCAATTCAATCATGGCAACATGCAATAATTCACAATTCAAC
1295405 TTAATTCAATCATGGAAG
65 TTAATTCAATCATGGAAG
* * * * *
1295423 CATGCAATAATTCAAAATTTAATTCAATTCAATCATGGCAGCGTGCAATAATTCACGATTCAACT
1 CATGCAATAATTCACAATTCAATTCAATTCAATCATGGCAACATGCAATAATTCACAATTCAACT
* * *
1295488 TAATTCGATAAT-GACAA
66 TAATTCAATCATGGA-AG
1295505 CATGCAATAATTCACAATTCAATTCAAT
1 CATGCAATAATTCACAATTCAATTCAAT
1295533 CATGACACTC
Statistics
Matches: 164, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
81 4 0.02
82 158 0.96
83 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (82 bp):
CATGCAATAATTCACAATTCAATTCAATTCAATCATGGCAACATGCAATAATTCACAATTCAACT
TAATTCAATCATGGAAG
Found at i:1295452 original size:123 final size:123
Alignment explanation
Indices: 1295286--1295523 Score: 302
Period size: 123 Copynumber: 1.9 Consensus size: 123
1295276 TTCGATTCAG
** *
1295286 TTCAATCATGGCAACATGCAATAATTCACCATTCGACTAAATTCAATCATGGAAGCATGCAATAA
1 TTCAATCATGGCAACATGCAATAATTCAAAATTCAACTAAATTCAATCATGGAAGCATGCAATAA
* * *
1295351 -TCTACAATTCGA-TTCAATACAATCATGACAACATGTAATAATTCACAATTAAACTTAA
66 TTC-ACAATTCAACTT-AATACAATAATGACAACATGCAATAATTCACAATTAAACTTAA
* * * * *
1295409 TTCAATCATGG-AAGCATGCAATAATTCAAAATTTAATTCAATTCAATCATGGCAGCGTGCAATA
1 TTCAATCATGGCAA-CATGCAATAATTCAAAATTCAACTAAATTCAATCATGGAAGCATGCAATA
* * *
1295473 ATTCACGATTCAACTTAATTCGATAATGACAACATGCAATAATTCACAATT
65 ATTCACAATTCAACTTAATACAATAATGACAACATGCAATAATTCACAATT
1295524 CAATTCAATC
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
122 2 0.02
123 92 0.94
124 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (123 bp):
TTCAATCATGGCAACATGCAATAATTCAAAATTCAACTAAATTCAATCATGGAAGCATGCAATAA
TTCACAATTCAACTTAATACAATAATGACAACATGCAATAATTCACAATTAAACTTAA
Found at i:1298890 original size:2 final size:2
Alignment explanation
Indices: 1298885--1298959 Score: 71
Period size: 2 Copynumber: 36.5 Consensus size: 2
1298875 TGTGTGTGTG
*
1298885 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TGA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
* * * *
1298928 TT TT TA CTGA TA CA TA TA TA T- TA TA AA TA TA T
1 TA TA TA -T-A TA TA TA TA TA TA TA TA TA TA TA T
1298960 TCCATTATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
1 1 0.02
2 55 0.90
3 4 0.07
4 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1301425 original size:32 final size:32
Alignment explanation
Indices: 1301355--1301442 Score: 86
Period size: 32 Copynumber: 2.8 Consensus size: 32
1301345 CATAGAAACA
* * * *
1301355 TCAGTATTGCATTTAGATAATACATATCAGAG
1 TCAGTGTTACATTTAGATAATGCATAGCAGAG
** * *
1301387 TCAGTGTTGTATTTAGATAATGTATAGCATAG
1 TCAGTGTTACATTTAGATAATGCATAGCAGAG
* *
1301419 TTAGTGTTACATTTAGGTAATGCA
1 TCAGTGTTACATTTAGATAATGCA
1301443 CATGAGCATC
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (32 bp):
TCAGTGTTACATTTAGATAATGCATAGCAGAG
Found at i:1303568 original size:20 final size:20
Alignment explanation
Indices: 1303525--1303576 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1303515 GATTCAATAG
*
1303525 GTATCGATACCAAAGAGGGA
1 GTATCGATACCAAAGAGGAA
*
1303545 GTATCGATACCGAAG-GGAA
1 GTATCGATACCAAAGAGGAA
*
1303564 TGTATCAATACCA
1 -GTATCGATACCA
1303577 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.19
Consensus pattern (20 bp):
GTATCGATACCAAAGAGGAA
Found at i:1304385 original size:68 final size:68
Alignment explanation
Indices: 1304266--1304635 Score: 524
Period size: 68 Copynumber: 5.4 Consensus size: 68
1304256 AAATGTTTAA
* * * *
1304266 TGACATAAAGGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTATGC
1 TGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTGTGC
1304331 ATT
66 ATT
*
1304334 TGATAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTGTGC
1 TGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTGTGC
1304399 ATT
66 ATT
* * * * ** * * *
1304402 TGACAAAAATGTTTCATTTTATGCTAGTTAGATGAAATGCTAAGTGCCTTTGATACATAACTATG
1 TGACAGAAATGTGTCA-TTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTGTG
*
1304467 TATT
65 CATT
* *
1304471 TGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTGC
1 TGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTGTGC
1304536 ATT
66 ATT
* * *
1304539 TGACAGAAATGTGTCATTTATGCCAGTTATATGAAAGGCTAAGAGCCTTTGAGGCCTAATTGTGT
1 TGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTGTGC
1304604 ATT
66 ATT
* * *
1304607 TGATAGAAAGGTGTCAATTATGCCAGTTA
1 TGACAGAAATGTGTCATTTATGCCAGTTA
1304636 AATATCGATG
Statistics
Matches: 267, Mismatches: 34, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
68 209 0.78
69 58 0.22
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (68 bp):
TGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTGTGC
ATT
Found at i:1304528 original size:137 final size:136
Alignment explanation
Indices: 1304266--1304635 Score: 544
Period size: 137 Copynumber: 2.7 Consensus size: 136
1304256 AAATGTTTAA
* *
1304266 TGACATAAAGGTGTCATTTATG-TCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTATG
1 TGACAAAAATGTGTCATTTATGCT-AGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTATG
* * *
1304330 CATTTGATAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATT
65 TATTTGATAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACT
1304395 GTGCATT
130 GTGCATT
* * ** * *
1304402 TGACAAAAATGTTTCATTTTATGCTAGTTAGATGAAATGCTAAGTGCCTTTGATACATAACTATG
1 TGACAAAAATGTGTCA-TTTATGCTAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTATG
*
1304467 TATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACT
65 TATTTGATAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACT
1304532 GTGCATT
130 GTGCATT
* * * * *
1304539 TGACAGAAATGTGTCATTTATGCCAGTTATATGAAAGGCTAAGAGCCTTTGAGGCCTAATTGTGT
1 TGACAAAAATGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTATGT
* *
1304604 ATTTGATAGAAAGGTGTCAATTATGCCAGTTA
66 ATTTGATAGAAATGTGTCATTTATGCCAGTTA
1304636 AATATCGATG
Statistics
Matches: 206, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
136 82 0.40
137 123 0.60
138 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (136 bp):
TGACAAAAATGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTATGT
ATTTGATAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTG
TGCATT
Found at i:1304679 original size:205 final size:203
Alignment explanation
Indices: 1304266--1304710 Score: 554
Period size: 205 Copynumber: 2.2 Consensus size: 203
1304256 AAATGTTTAA
* * *
1304266 TGACATAAAGGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTATGC
1 TGACAGAAAGGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTATGC
* *
1304331 ATTTGATAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTG
66 ATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGAGCCTTTGAGGCCTAATTG
* * * * * ** *
1304396 TGCATTTGACAAAAATGTTTCATTTTATGCTAGTTAGATGAAATGCTAAGTGCCTTTGATACATA
131 TGCATTTGACAAAAAGGTGTCATATTATGCCAGTTAAATGAAATGCTAA--GAATATGATACATA
**
1304461 ACTATGTATT
194 ACTATACATT
* * *
1304471 TGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTGC
1 TGACAGAAAGGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTATGC
*
1304536 ATTTGACAGAAATGTGTCATTTATGCCAGTTATATGAAAGGCTAAGAGCCTTTGAGGCCTAATTG
66 ATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGAGCCTTTGAGGCCTAATTG
* * * * *
1304601 TGTATTTGATAGAAAGGTGTCA-ATTATGCCAGTTAAAT-ATCGATGGGTAA-AATATGAATGAC
131 TGCATTTGACAAAAAGGTGTCATATTATGCCAGTTAAATGA--AAT-GCTAAGAATATG-AT-AC
* *
1304663 CTAGCTATACATT
191 ATAACTATACATT
* *
1304676 TGACAGAAAGGTGTCAATTATATCAGTTAGATGAA
1 TGACAGAAAGGTGTCATTTATGTCAGTTAGATGAA
1304711 CATTTAAATA
Statistics
Matches: 205, Mismatches: 30, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
203 4 0.02
204 15 0.07
205 182 0.89
206 4 0.02
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (203 bp):
TGACAGAAAGGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTATGC
ATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGAGCCTTTGAGGCCTAATTG
TGCATTTGACAAAAAGGTGTCATATTATGCCAGTTAAATGAAATGCTAAGAATATGATACATAAC
TATACATT
Found at i:1304768 original size:81 final size:81
Alignment explanation
Indices: 1304632--1305221 Score: 637
Period size: 81 Copynumber: 7.3 Consensus size: 81
1304622 AATTATGCCA
* * * * * * * *
1304632 GTTAAATATCGATGGGTAAAATATGAATGACCTAGCTATACATTTGACAGAAAGGTGTCAATTAT
1 GTTAAATACCGTTGAGTAAAAGATGAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTAT
** *
1304697 ATCAGTTAGATGAACA
66 GCCAGTTAGATGAACG
* * * *
1304713 TTTAAATATCATTGAGTAAAAGAAT-AATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTA
1 GTTAAATACCGTTGAGTAAAAG-ATGAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTA
1304777 TGCCAGTTAGATGAACG
65 TGCCAGTTAGATGAACG
* *
1304794 GTTAAATACCGTTGGGTAAAAGATGAATGGCCTAGCTGTGCA-TTGGAAAGAAAGGTGTCAATTA
1 GTTAAATACCGTTGAGTAAAAGATGAATGGCCTAGCTGTGCATTTGG-CAGAAAGGTGTCAATTA
1304858 TGCCAGTTAGATGAACG
65 TGCCAGTTAGATGAACG
* * *
1304875 TTTAAATACCGTTGAGTAAAAGAAT-AATGGCCTAGTTGTGCATTTGGTAGAAAGGTGTCAATTA
1 GTTAAATACCGTTGAGTAAAAG-ATGAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTA
* *
1304939 GGTCAGTTAGATGAACG
65 TGCCAGTTAGATGAACG
* * * * * * * *
1304956 GTTAAATACCGTTGGGTAAAAGATGAATGGCTTAGCTATGCATCTGGTATAAATGTGTTAATTAT
1 GTTAAATACCGTTGAGTAAAAGATGAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTAT
* * *
1305021 GCCAATTAGATTAACA
66 GCCAGTTAGATGAACG
** * * * * *
1305037 GTTAAATACTATTGGGTAAAAGATGAATGGACTACCTATGCATTTGGCATAAAGGTGTCAATTAT
1 GTTAAATACCGTTGAGTAAAAGATGAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTAT
*
1305102 GCCAGTTAGGTGAACG
66 GCCAGTTAGATGAACG
* * * * * * *
1305118 GTTAAATATCGTTGAGTGAAAGATGAATGGACTAGTTGTGCATTTGACAGAAAAGTGTCAAATAT
1 GTTAAATACCGTTGAGTAAAAGATGAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTAT
* * *
1305183 GCAAGTTAGAAGAAAG
66 GCCAGTTAGATGAACG
* * * *
1305199 GCTAGATACCTTTGGGTAAAAGA
1 GTTAAATACCGTTGAGTAAAAGA
1305222 ATAAAGGAAT
Statistics
Matches: 430, Mismatches: 73, Indels: 12
0.83 0.14 0.02
Matches are distributed among these distances:
80 8 0.02
81 414 0.96
82 8 0.02
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (81 bp):
GTTAAATACCGTTGAGTAAAAGATGAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTAT
GCCAGTTAGATGAACG
Found at i:1304899 original size:162 final size:162
Alignment explanation
Indices: 1304632--1305225 Score: 708
Period size: 162 Copynumber: 3.7 Consensus size: 162
1304622 AATTATGCCA
* * * * * *
1304632 GTTAAATATCGATGGGTAAAATATGAATGACCTAGCTATACATTTGACAGAAAGGTGTCAATTAT
1 GTTAAATACCGTTGGGTAAAAGATGAATGGCCTAGCTATGCATTGGACAGAAAGGTGTCAATTAT
** * *
1304697 ATCAGTTAGATGAACATTTAAATATCATTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGGTA
66 GCCAGTTAGATGAACGTTTAAATACCATTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGGTA
1304762 GAAAGGTGTCAATTATGCCAGTTAGATGAACG
131 GAAAGGTGTCAATTATGCCAGTTAGATGAACG
* *
1304794 GTTAAATACCGTTGGGTAAAAGATGAATGGCCTAGCTGTGCATTGGAAAGAAAGGTGTCAATTAT
1 GTTAAATACCGTTGGGTAAAAGATGAATGGCCTAGCTATGCATTGGACAGAAAGGTGTCAATTAT
* *
1304859 GCCAGTTAGATGAACGTTTAAATACCGTTGAGTAAAAGAATAATGGCCTAGTTGTGCATTTGGTA
66 GCCAGTTAGATGAACGTTTAAATACCATTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGGTA
* *
1304924 GAAAGGTGTCAATTAGGTCAGTTAGATGAACG
131 GAAAGGTGTCAATTATGCCAGTTAGATGAACG
* * * * *
1304956 GTTAAATACCGTTGGGTAAAAGATGAATGGCTTAGCTATGCATCTGG-TATAAATGTGTTAATTA
1 GTTAAATACCGTTGGGTAAAAGATGAATGGCCTAGCTATGCAT-TGGACAGAAAGGTGTCAATTA
* * * * * * *
1305020 TGCCAATTAGATTAACAG-TTAAATACTATTGGGTAAAAG-ATGAATGGACTACCTATGCATTTG
65 TGCCAGTTAGATGAAC-GTTTAAATACCATTGAGTAAAAGAAT-AATGGCCTAGCTGTGCATTTG
* * *
1305083 GCATAAAGGTGTCAATTATGCCAGTTAGGTGAACG
128 GTAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
* * * * * * * * *
1305118 GTTAAATATCGTTGAGTGAAAGATGAATGGACTAGTTGTGCATTTGACAGAAAAGTGTCAAATAT
1 GTTAAATACCGTTGGGTAAAAGATGAATGGCCTAGCTATGCATTGGACAGAAAGGTGTCAATTAT
* * * ** * * *
1305183 GCAAGTTAGAAGAAAGGCTAGATACCTTTGGGTAAAAGAATAA
66 GCCAGTTAGATGAACGTTTAAATACCATTGAGTAAAAGAATAA
1305226 AGGAATTAAA
Statistics
Matches: 368, Mismatches: 58, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
161 5 0.01
162 357 0.97
163 6 0.02
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (162 bp):
GTTAAATACCGTTGGGTAAAAGATGAATGGCCTAGCTATGCATTGGACAGAAAGGTGTCAATTAT
GCCAGTTAGATGAACGTTTAAATACCATTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGGTA
GAAAGGTGTCAATTATGCCAGTTAGATGAACG
Found at i:1305061 original size:243 final size:242
Alignment explanation
Indices: 1304632--1305221 Score: 702
Period size: 243 Copynumber: 2.4 Consensus size: 242
1304622 AATTATGCCA
* * * * * * *
1304632 GTTAAATATCGATGGGTAAAATATGAAT-GACCTAGCTATACATTTGACAGAAAGGTGTCAATTA
1 GTTAAATACCGTTGAGTAAAAGATGAATGGA-CTAGTTGTGCATTTGACAGAAAGGTGTCAATTA
* ** * * * *
1304696 TATCAGTTAGATGAACATTTAAATATCATTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGGT
65 TGTCAGTTAGATGAACGGTTAAATACCATTGGGTAAAAG-ATAATGGCCTAGCTATGCATCTGGT
* * * *
1304761 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGGGTAAAAGATGAATGGCC
129 AGAAAGGTGTCAATTATGCCAATTAGATGAACAGTTAAATACCATTGGGTAAAAGATGAATGGAC
* *
1304826 TAGCTGTGCA-TTGGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
194 TACCTATGCATTTGG-AAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
* * **
1304875 TTTAAATACCGTTGAGTAAAAGAAT-AATGGCCTAGTTGTGCATTTGGTAGAAAGGTGTCAATTA
1 GTTAAATACCGTTGAGTAAAAG-ATGAATGGACTAGTTGTGCATTTGACAGAAAGGTGTCAATTA
* * *
1304939 GGTCAGTTAGATGAACGGTTAAATACCGTTGGGTAAAAGATGAATGGCTTAGCTATGCATCTGGT
65 TGTCAGTTAGATGAACGGTTAAATACCATTGGGTAAAAGAT-AATGGCCTAGCTATGCATCTGGT
* * * * *
1305004 ATAAATGTGTTAATTATGCCAATTAGATTAACAGTTAAATACTATTGGGTAAAAGATGAATGGAC
129 AGAAAGGTGTCAATTATGCCAATTAGATGAACAGTTAAATACCATTGGGTAAAAGATGAATGGAC
* * *
1305069 TACCTATGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGGTGAACG
194 TACCTATGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
* * * *
1305118 GTTAAATATCGTTGAGTGAAAGATGAATGGACTAGTTGTGCATTTGACAGAAAAGTGTCAAATAT
1 GTTAAATACCGTTGAGTAAAAGATGAATGGACTAGTTGTGCATTTGACAGAAAGGTGTCAATTAT
* * * * *
1305183 G-CAAGTTAGAAGAAAGGCTAGATACCTTTGGGTAAAAGA
66 GTC-AGTTAGATGAACGGTTAAATACCATTGGGTAAAAGA
1305222 ATAAAGGAAT
Statistics
Matches: 292, Mismatches: 49, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
242 5 0.02
243 280 0.96
244 7 0.02
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (242 bp):
GTTAAATACCGTTGAGTAAAAGATGAATGGACTAGTTGTGCATTTGACAGAAAGGTGTCAATTAT
GTCAGTTAGATGAACGGTTAAATACCATTGGGTAAAAGATAATGGCCTAGCTATGCATCTGGTAG
AAAGGTGTCAATTATGCCAATTAGATGAACAGTTAAATACCATTGGGTAAAAGATGAATGGACTA
CCTATGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
Found at i:1310689 original size:21 final size:20
Alignment explanation
Indices: 1310655--1310700 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
1310645 TTTTTTTTAT
1310655 TTATATGGATTATTT-ATTA
1 TTATATGGATTATTTGATTA
*
1310674 TTATATGTGAATTATTTGGTTA
1 TTATATG-G-ATTATTTGATTA
1310696 TTATA
1 TTATA
1310701 CATATATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 1 0.04
21 7 0.30
22 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (20 bp):
TTATATGGATTATTTGATTA
Found at i:1316203 original size:15 final size:15
Alignment explanation
Indices: 1316179--1316209 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1316169 GGTGCCTATT
*
1316179 ACATTGAAGATTCAC
1 ACATTCAAGATTCAC
1316194 ACATTCAAGATTCAC
1 ACATTCAAGATTCAC
1316209 A
1 A
1316210 ACCGTTCAAC
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:0.42, C:0.23, G:0.10, T:0.26
Consensus pattern (15 bp):
ACATTCAAGATTCAC
Found at i:1324605 original size:44 final size:43
Alignment explanation
Indices: 1324555--1325014 Score: 465
Period size: 44 Copynumber: 10.7 Consensus size: 43
1324545 TGCCTTTATA
* * ** *
1324555 CATAAATGAAAATGTATAACGATGCATTATTCTAAGAAAGGTGT
1 CATAAATGAAAATGCATAACGGTGCATTATT-GGAGAAAGGTGC
** *
1324599 CATAAATGAAAAT-CGATAACGGTGCATTATTGGCAGAAATCTTC
1 CATAAATGAAAATGC-ATAACGGTGCATTATTGG-AGAAAGGTGC
* *
1324643 CATAAATAAAAATGCATAACGGTGCATTATTGGTAGAAATGTGC
1 CATAAATGAAAATGCATAACGGTGCATTATTGG-AGAAAGGTGC
* *
1324687 CATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAAGATAC
1 CATAAATGAAAATGCATAACGGTGCATTATTGG-AGAAAGGTGC
*
1324731 CATAAATGAAAATGCATAACGATGCATTATTGGTAGAAAGGTG-
1 CATAAATGAAAATGCATAACGGTGCATTATTGG-AGAAAGGTGC
* * * *
1324774 CATAAATGAAAATGCATAATGGTACATTATTGGTAGAAAGTTGT
1 CATAAATGAAAATGCATAACGGTGCATTATTGG-AGAAAGGTGC
* *
1324818 CATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAAGTGC
1 CATAAATGAAAATGCATAACGGTGCATTATTGG-AGAAAGGTGC
* * * * *
1324862 CATAATTGAAAATGTATAATGGTTCATTATTGGCAGAAACGTGC
1 CATAAATGAAAATGCATAACGGTGCATTATTGG-AGAAAGGTGC
* * *
1324906 CATAAAAGAAAATGCAT-----T--ATTA--GCAGAAAGGTTC
1 CATAAATGAAAATGCATAACGGTGCATTATTGGAGAAAGGTGC
* * *
1324940 CATAAATGAAAATGCAAAACAGTGCATTATTCGAAGAAAGGTGC
1 CATAAATGAAAATGCATAACGGTGCATTATT-GGAGAAAGGTGC
* *
1324984 CATAAATGAAAATGCATAACTGTACATTATT
1 CATAAATGAAAATGCATAACGGTGCATTATT
1325015 AGCTGTAATA
Statistics
Matches: 357, Mismatches: 45, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
34 23 0.06
35 1 0.00
37 4 0.01
39 2 0.01
41 4 0.01
43 39 0.11
44 283 0.79
45 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (43 bp):
CATAAATGAAAATGCATAACGGTGCATTATTGGAGAAAGGTGC
Found at i:1324932 original size:34 final size:34
Alignment explanation
Indices: 1324886--1324955 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
1324876 TATAATGGTT
*
1324886 CATTATTGGCAGAAACGTGCCATAAAAGAAAATG
1 CATTATTAGCAGAAACGTGCCATAAAAGAAAATG
* * *
1324920 CATTATTAGCAGAAAGGTTCCATAAATGAAAATG
1 CATTATTAGCAGAAACGTGCCATAAAAGAAAATG
1324954 CA
1 CA
1324956 AAACAGTGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (34 bp):
CATTATTAGCAGAAACGTGCCATAAAAGAAAATG
Found at i:1324969 original size:78 final size:78
Alignment explanation
Indices: 1324840--1325000 Score: 205
Period size: 78 Copynumber: 2.1 Consensus size: 78
1324830 TGCATAATGG
* * * * ** * * *
1324840 TGCATTATTGGCAGAAAAGTGCCATAATTGAAAATGTATAATGGTTCATTATTGGCAGAAACGTG
1 TGCATTATTAGCAGAAAAGTGCCATAAATGAAAATGCAAAACAGTGCATTATTCGAAGAAACGTG
1324905 CCATAAAAGAAAA
66 CCATAAAAGAAAA
* * *
1324918 TGCATTATTAGCAGAAAGGTTCCATAAATGAAAATGCAAAACAGTGCATTATTCGAAGAAAGGTG
1 TGCATTATTAGCAGAAAAGTGCCATAAATGAAAATGCAAAACAGTGCATTATTCGAAGAAACGTG
*
1324983 CCATAAATGAAAA
66 CCATAAAAGAAAA
1324996 TGCAT
1 TGCAT
1325001 AACTGTACAT
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (78 bp):
TGCATTATTAGCAGAAAAGTGCCATAAATGAAAATGCAAAACAGTGCATTATTCGAAGAAACGTG
CCATAAAAGAAAA
Found at i:1325969 original size:20 final size:20
Alignment explanation
Indices: 1325900--1325974 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 20
1325890 ATTCTAAATT
* * *
1325900 GGGTATCGATACC-TAGAGG
1 GGGTATCAATACCATAGTGA
* *
1325919 GGGCATCAGTACCATAGCAT-A
1 GGGTATCAATACCATAG--TGA
1325940 GGGTTATCAATACCATAGTGA
1 GGG-TATCAATACCATAGTGA
1325961 GGGTATCAATACCA
1 GGGTATCAATACCA
1325975 AGTTAAATCG
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
19 10 0.23
20 15 0.34
21 7 0.16
22 12 0.27
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.23
Consensus pattern (20 bp):
GGGTATCAATACCATAGTGA
Found at i:1326035 original size:19 final size:19
Alignment explanation
Indices: 1325996--1326037 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1325986 AGTTAATTTA
*
1325996 GGTATCGATACATTAAGAG
1 GGTATCGATACACTAAGAG
* *
1326015 GGTATCGATACCCTAATAG
1 GGTATCGATACACTAAGAG
1326034 GGTA
1 GGTA
1326038 GTATTGGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.26
Consensus pattern (19 bp):
GGTATCGATACACTAAGAG
Found at i:1326601 original size:79 final size:79
Alignment explanation
Indices: 1326459--1326622 Score: 240
Period size: 79 Copynumber: 2.1 Consensus size: 79
1326449 AAAACAAATG
** *
1326459 TAAAAGAATAATGCATATGGGTGTATTATTGGCATGAAAGGATGCCATAGCTAGAATGTATATGG
1 TAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGCCATAGCTAGAATGCATATGG
* *
1326524 GTATATTGTCAACA
66 GTACATTATCAACA
*
1326538 TAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGCCATAG-TTGAAATGCATATG
1 TAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGCCATAGCTAG-AATGCATATG
*
1326602 GGTGCATTATCAACA
65 GGTACATTATCAACA
*
1326617 GAAAAG
1 TAAAAG
1326623 TATACTAGCG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
78 2 0.03
79 74 0.97
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (79 bp):
TAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGCCATAGCTAGAATGCATATGG
GTACATTATCAACA
Done.