Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 52 of 135
Found at i:14202348 original size:28 final size:28
Alignment explanation
Indices: 14202317--14202483 Score: 142
Period size: 28 Copynumber: 6.0 Consensus size: 28
14202307 TGGAAGACTT
* * *
14202317 AAGAATGATATTTTGTATTCTAGCTCGA
1 AAGAATGTTATTCTGTATTCTGGCTCGA
** * * *
14202345 AAGAGCGTTATTTTGTATACTGGCTCAA
1 AAGAATGTTATTCTGTATTCTGGCTCGA
14202373 AAG-ATCGTTATTCTGTATTCTGGCTCGA
1 AAGAAT-GTTATTCTGTATTCTGGCTCGA
* *
14202401 AAGAGTGTTATTCTGTATTCTGGCTCTA
1 AAGAATGTTATTCTGTATTCTGGCTCGA
** * *
14202429 AAGAGCGTTATTCTTTATTCTGGATCGA
1 AAGAATGTTATTCTGTATTCTGGCTCGA
* * *
14202457 GAG-ATCATTATTCTGTA-TATGGCTCGA
1 AAGAAT-GTTATTCTGTATTCTGGCTCGA
14202484 TGGAGCATTA
Statistics
Matches: 112, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
27 8 0.07
28 103 0.92
29 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (28 bp):
AAGAATGTTATTCTGTATTCTGGCTCGA
Found at i:14202391 original size:56 final size:56
Alignment explanation
Indices: 14202325--14202481 Score: 199
Period size: 56 Copynumber: 2.8 Consensus size: 56
14202315 TTAAGAATGA
* * * *
14202325 TATTTTGTATTCTAGCTCGAAAGAGCGTTATTTTGTATACTGGCTCAAAAGATCGT
1 TATTCTGTATTCTGGCTCGAAAGAGCGTTATTCTGTATACTGGCTCAAAAGAGCGT
* * *
14202381 TATTCTGTATTCTGGCTCGAAAGAGTGTTATTCTGTATTCTGGCTCTAAAGAGCGT
1 TATTCTGTATTCTGGCTCGAAAGAGCGTTATTCTGTATACTGGCTCAAAAGAGCGT
* * * * *
14202437 TATTCTTTATTCTGGATCGAGAGATCATTATTCTGTATA-TGGCTC
1 TATTCTGTATTCTGGCTCGAAAGAGCGTTATTCTGTATACTGGCTC
14202482 GATGGAGCAT
Statistics
Matches: 87, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
55 6 0.07
56 81 0.93
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (56 bp):
TATTCTGTATTCTGGCTCGAAAGAGCGTTATTCTGTATACTGGCTCAAAAGAGCGT
Found at i:14202471 original size:84 final size:83
Alignment explanation
Indices: 14202325--14202483 Score: 212
Period size: 84 Copynumber: 1.9 Consensus size: 83
14202315 TTAAGAATGA
* * *
14202325 TATTTTGTATTCTAGCTCGAAAGAGCGTTATTTTGTATACTGGCTCAAAAGATCGTTATTCTGTA
1 TATTCTGTATTCTAGCTCGAAAGAGCGTTATTTTGTATACTGGATCAAAAGATCATTATTCTGTA
*
14202390 TTCTGGCTCGAAAGAGTGT
66 -TATGGCTCGAAAGAGTGT
* * * * *
14202409 TATTCTGTATTCTGGCTCTAAAGAGCGTTATTCTT-TATTCTGGATCGAGAGATCATTATTCTGT
1 TATTCTGTATTCTAGCTCGAAAGAGCGTTATT-TTGTATACTGGATCAAAAGATCATTATTCTGT
14202473 ATATGGCTCGA
65 ATATGGCTCGA
14202484 TGGAGCATTA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
83 9 0.14
84 54 0.83
85 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (83 bp):
TATTCTGTATTCTAGCTCGAAAGAGCGTTATTTTGTATACTGGATCAAAAGATCATTATTCTGTA
TATGGCTCGAAAGAGTGT
Found at i:14207347 original size:3 final size:3
Alignment explanation
Indices: 14207339--14207373 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
14207329 AAATATCCAC
14207339 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
14207374 CATCATCATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:14207378 original size:3 final size:3
Alignment explanation
Indices: 14207372--14207403 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14207362 TATTATTATT
14207372 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
14207404 ATATGCACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:14207618 original size:23 final size:23
Alignment explanation
Indices: 14207589--14207804 Score: 297
Period size: 23 Copynumber: 9.4 Consensus size: 23
14207579 ATCTTAATTC
14207589 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
14207612 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
** *
14207635 TTTGTGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
14207658 TTTAAGCACATATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
14207681 TTTGAGGACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
14207704 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
14207727 CTTAAGCACAAATCACATTAATG
1 TTTAAGCACAAATCACATTAATA
* * *
14207750 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
14207773 TTTAAGCACAAATCAAATTAATA
1 TTTAAGCACAAATCACATTAATA
14207796 TTTAAGCAC
1 TTTAAGCAC
14207805 GGATATAAGA
Statistics
Matches: 165, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 165 1.00
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.34
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:14211325 original size:6 final size:6
Alignment explanation
Indices: 14211300--14211344 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
14211290 ACAATTCATA
* * *
14211300 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
14211345 ATTTTGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (6 bp):
TCACTT
Found at i:14228758 original size:12 final size:13
Alignment explanation
Indices: 14228729--14228771 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
14228719 GAGCTTGTAT
14228729 TTTTATTATAATA
1 TTTTATTATAATA
14228742 TTTTATTATCAAT-
1 TTTTATTAT-AATA
*
14228755 TTTATTTTATAATA
1 TTT-TATTATAATA
14228769 TTT
1 TTT
14228772 ATGTTAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTATTATAATA
Found at i:14228772 original size:14 final size:14
Alignment explanation
Indices: 14228726--14228773 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
14228716 GAAGAGCTTG
*
14228726 TATTTTTATTATAA
1 TATTTATATTATAA
14228740 TATTT-TATTATCAA
1 TATTTATATTAT-AA
*
14228754 T-TTTATTTTATAA
1 TATTTATATTATAA
14228767 TATTTAT
1 TATTTAT
14228774 GTTAAGTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTATATTATAA
Found at i:14248194 original size:31 final size:31
Alignment explanation
Indices: 14248156--14248217 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
14248146 CTCTGTAAGG
14248156 GAAAAAAAAAAGTCATCAAAAATTAAATCTA
1 GAAAAAAAAAAGTCATCAAAAATTAAATCTA
14248187 GAAAAAAAAAAGTCATCAAAAATTAAATCTA
1 GAAAAAAAAAAGTCATCAAAAATTAAATCTA
14248218 ACTCCCCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.65, C:0.10, G:0.06, T:0.19
Consensus pattern (31 bp):
GAAAAAAAAAAGTCATCAAAAATTAAATCTA
Found at i:14248207 original size:15 final size:15
Alignment explanation
Indices: 14248158--14248208 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
14248148 CTGTAAGGGA
14248158 AAAAAAAAAGTCATC
1 AAAAAAAAAGTCATC
* **
14248173 AAAAATTAAA-TCTAGA
1 AAAAA-AAAAGTC-ATC
14248189 AAAAAAAAAGTCATC
1 AAAAAAAAAGTCATC
14248204 AAAAA
1 AAAAA
14248209 TTAAATCTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
15 16 0.59
16 11 0.41
ACGTcount: A:0.69, C:0.10, G:0.06, T:0.16
Consensus pattern (15 bp):
AAAAAAAAAGTCATC
Found at i:14248207 original size:16 final size:16
Alignment explanation
Indices: 14248157--14248208 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
14248147 TCTGTAAGGG
14248157 AAAAAAAAAAGTCATC
1 AAAAAAAAAAGTCATC
** *
14248173 AAAAATTAAA-TC-TAG
1 AAAAAAAAAAGTCAT-C
14248188 AAAAAAAAAAGTCATC
1 AAAAAAAAAAGTCATC
14248204 AAAAA
1 AAAAA
14248209 TTAAATCTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
14 1 0.04
15 10 0.37
16 15 0.56
17 1 0.04
ACGTcount: A:0.69, C:0.10, G:0.06, T:0.15
Consensus pattern (16 bp):
AAAAAAAAAAGTCATC
Found at i:14250954 original size:23 final size:23
Alignment explanation
Indices: 14250928--14250975 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
14250918 ATATATATTG
14250928 ATTTTAATTAT-AAATTTAAAAAT
1 ATTTTAA-TATGAAATTTAAAAAT
* *
14250951 ATTTTAATATGCATTTTAAAAAT
1 ATTTTAATATGAAATTTAAAAAT
14250974 AT
1 AT
14250976 GTTGTTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTTTAATATGAAATTTAAAAAT
Found at i:14251380 original size:6 final size:6
Alignment explanation
Indices: 14251371--14251399 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
14251361 AAGTGAATAA
14251371 TTTAAT TTTAAT TTTAAT TTTAAT TTTAA
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAA
14251400 GTAGTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTAAT
Found at i:14251876 original size:24 final size:24
Alignment explanation
Indices: 14251852--14251897 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
14251842 TTTTCAGTTA
*
14251852 AAATT-TGTTTATTTGCTTCAATT
1 AAATTCTGTCTATTTGCTTCAATT
*
14251875 AAATTCTGTCTATTTGTTTCAAT
1 AAATTCTGTCTATTTGCTTCAAT
14251898 CAAACTCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (24 bp):
AAATTCTGTCTATTTGCTTCAATT
Found at i:14253381 original size:21 final size:21
Alignment explanation
Indices: 14253353--14253428 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
14253343 AATAGTGCAG
14253353 ACTTCTACCGATACAAATGAT
1 ACTTCTACCGATACAAATGAT
*
14253374 AGTTCTA-CGATA-AAAGTGACT
1 ACTTCTACCGATACAAA-TGA-T
* * **
14253395 -CTTCTACCGAAACAAGTCTT
1 ACTTCTACCGATACAAATGAT
14253415 ACTTCTACCGATAC
1 ACTTCTACCGATAC
14253429 TAAAAACTCC
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
19 3 0.07
20 14 0.33
21 24 0.56
22 2 0.05
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (21 bp):
ACTTCTACCGATACAAATGAT
Found at i:14260740 original size:21 final size:21
Alignment explanation
Indices: 14260716--14260768 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
14260706 TTATGCTAGC
14260716 TCTATCGATACAAGT-ATG-A
1 TCTATCGATACAAGTCATGCA
* *
14260735 TTTCTACCGATACGAGTCATGCA
1 --TCTATCGATACAAGTCATGCA
14260758 TCTATCGATAC
1 TCTATCGATAC
14260769 CAAAAACTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 23 0.85
22 3 0.11
23 1 0.04
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (21 bp):
TCTATCGATACAAGTCATGCA
Found at i:14274233 original size:12 final size:12
Alignment explanation
Indices: 14274216--14274240 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14274206 AGTTCATGTG
14274216 GAGGAAGAAAAA
1 GAGGAAGAAAAA
14274228 GAGGAAGAAAAA
1 GAGGAAGAAAAA
14274240 G
1 G
14274241 GTGTCGAGGC
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:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (12 bp):
GAGGAAGAAAAA
Found at i:14281658 original size:18 final size:16
Alignment explanation
Indices: 14281613--14281659 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
14281603 ATTTACAAGT
14281613 ATAAATAATAAAAACA
1 ATAAATAATAAAAACA
*
14281629 ATATATACATAAAATACA
1 ATAAATA-ATAAAA-ACA
14281647 ATAAAATAATAAA
1 AT-AAATAATAAA
14281660 TTGAGTAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 6 0.23
17 6 0.23
18 10 0.38
19 4 0.15
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (16 bp):
ATAAATAATAAAAACA
Found at i:14281871 original size:29 final size:29
Alignment explanation
Indices: 14281770--14281895 Score: 112
Period size: 30 Copynumber: 4.2 Consensus size: 29
14281760 ATTAAAATCA
**
14281770 GGTCAAA-TTGAAATTTTT-AAAGAGTTGGG
1 GGTCAAATTTG-AATTTTTGAAA-AGTTTAG
** **
14281799 GAGTCAAATTCAAATTTTCAAAAAGTTTAGG
1 G-GTCAAATTTGAATTTTTGAAAAGTTTA-G
*
14281830 GGTTAAATTTGAATTTTTGAAAAGTTTAG
1 GGTCAAATTTGAATTTTTGAAAAGTTTAG
* *
14281859 GGTCAAATTTGAATTTTTGAAAAATTTAAA
1 GGTCAAATTTGAATTTTTGAAAAGTTT-AG
14281889 GGTCAAA
1 GGTCAAA
14281896 ACATAAATCA
Statistics
Matches: 79, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
29 27 0.34
30 46 0.58
31 6 0.08
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.37
Consensus pattern (29 bp):
GGTCAAATTTGAATTTTTGAAAAGTTTAG
Found at i:14281895 original size:30 final size:29
Alignment explanation
Indices: 14281834--14281895 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
14281824 TTTAGGGGTT
* *
14281834 AAATTTGAATTTTTGAAAAGTTTAGGGTC
1 AAATTTGAATTTTTGAAAAATTTAAGGTC
14281863 AAATTTGAATTTTTGAAAAATTTAAAGGTC
1 AAATTTGAATTTTTGAAAAATTT-AAGGTC
14281893 AAA
1 AAA
14281896 ACATAAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (29 bp):
AAATTTGAATTTTTGAAAAATTTAAGGTC
Found at i:14283458 original size:50 final size:50
Alignment explanation
Indices: 14283282--14283600 Score: 161
Period size: 50 Copynumber: 6.3 Consensus size: 50
14283272 CTCAATCGAA
* * * * * *
14283282 TCCACTACAACTTCAGGGATATAGGATTTGATGTCGTATCTTCATCTTGC
1 TCCACTACAACTTCAGAGATATAGGATTTGTTCTTGTAGCTTCATCCTGC
* * * * * ** *
14283332 TCTACTTCAACTTTAGGGAGATA-AAGATTTGTT-TTCATGATTTTAATCC-GAC
1 TCCACTACAACTTCA--GAGATATAGGATTTGTTCTT-GT-AGCTTCATCCTG-C
* * *
14283384 -CCACTACAACCTT-AGGGGTATAGGATTTGTTCTTGTAGCTTTATCCTGC
1 TCCACTACAA-CTTCAGAGATATAGGATTTGTTCTTGTAGCTTCATCCTGC
* * * * *
14283433 TCTACTGCAACTTCAGAGATATAGGATTTGATGC-CGTAGCTTCATCTTGC
1 TCCACTACAACTTCAGAGATATAGGATTTG-TTCTTGTAGCTTCATCCTGC
* * ** * ** * *
14283483 TCCACTGCAACTTCAGAGAGATAAAAATTTGTT-TTCATGATTTTAAT-CTAAC
1 TCCACTACAACTTCAGAGATAT-AGGATTTGTTCTT-GT-AGCTTCATCCT-GC
* * *
14283535 -CCACTACAACTTCAGGGGTATAGGATTTGTTCTTGTAGCTTCATCTTGC
1 TCCACTACAACTTCAGAGATATAGGATTTGTTCTTGTAGCTTCATCCTGC
*
14283584 TCTACTACAACTTCAGA
1 TCCACTACAACTTCAGA
14283601 CAGATAAAGA
Statistics
Matches: 195, Mismatches: 54, Indels: 40
0.67 0.19 0.14
Matches are distributed among these distances:
49 21 0.11
50 103 0.53
51 49 0.25
52 22 0.11
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (50 bp):
TCCACTACAACTTCAGAGATATAGGATTTGTTCTTGTAGCTTCATCCTGC
Found at i:14283563 original size:151 final size:151
Alignment explanation
Indices: 14283285--14283600 Score: 499
Period size: 151 Copynumber: 2.1 Consensus size: 151
14283275 AATCGAATCC
* * * * * * *
14283285 ACTACAACTTCAGGGATATAGGATTTGATGTCGTATCTTCATCTTGCTCTACTTCAACTTTAGGG
1 ACTACAACTTCAGAGATATAGGATTTGATGCCGTAGCTTCATCTTGCTCCACTGCAACTTCAGAG
* *
14283350 AGATAAAGATTTGTTTTCATGATTTTAATCCGACCCACTACAACCTTAGGGGTATAGGATTTGTT
66 AGATAAAAATTTGTTTTCATGATTTTAATCCAACCCACTACAACCTTAGGGGTATAGGATTTGTT
*
14283415 CTTGTAGCTTTATCCTGCTCT
131 CTTGTAGCTTCATCCTGCTCT
*
14283436 ACTGCAACTTCAGAGATATAGGATTTGATGCCGTAGCTTCATCTTGCTCCACTGCAACTTCAGAG
1 ACTACAACTTCAGAGATATAGGATTTGATGCCGTAGCTTCATCTTGCTCCACTGCAACTTCAGAG
*
14283501 AGATAAAAATTTGTTTTCATGATTTTAATCTAACCCACTACAA-CTTCAGGGGTATAGGATTTGT
66 AGATAAAAATTTGTTTTCATGATTTTAATCCAACCCACTACAACCTT-AGGGGTATAGGATTTGT
*
14283565 TCTTGTAGCTTCATCTTGCTCT
130 TCTTGTAGCTTCATCCTGCTCT
14283587 ACTACAACTTCAGA
1 ACTACAACTTCAGA
14283601 CAGATAAAGA
Statistics
Matches: 150, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
150 3 0.02
151 147 0.98
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (151 bp):
ACTACAACTTCAGAGATATAGGATTTGATGCCGTAGCTTCATCTTGCTCCACTGCAACTTCAGAG
AGATAAAAATTTGTTTTCATGATTTTAATCCAACCCACTACAACCTTAGGGGTATAGGATTTGTT
CTTGTAGCTTCATCCTGCTCT
Found at i:14283646 original size:101 final size:101
Alignment explanation
Indices: 14283436--14283650 Score: 227
Period size: 101 Copynumber: 2.1 Consensus size: 101
14283426 ATCCTGCTCT
* *
14283436 ACTGCAACTTCAGAGATATAGGATTTGATGCCGTAGCTTCATCTTGCTCCACTGCAACTTCAGAG
1 ACTGCAACTTCAGAGATATAGGATTTGATGCCGTAGCTTCATCTTGCTCCACTACAACTTCAGAC
* ** * *
14283501 AGATAAAAATTTGTTTTCATGATTTTAATCTAACCC
66 AGATAAAAATTCGCCTTCATGACTTCAATCTAACCC
* * * * * *
14283537 ACTACAACTTCAGGGGTATAGGATTTG-TTCTTGTAGCTTCATCTTGCTCTACTACAACTTCAGA
1 ACTGCAACTTCAGAGATATAGGATTTGATGC-CGTAGCTTCATCTTGCTCCACTACAACTTCAGA
* * * **
14283601 CAGATAAAGATTCGCCTTCGT-AGCTTCATTCTATTCC
65 CAGATAAAAATTCGCCTTCATGA-CTTCAATCTAACCC
*
14283638 TCTGCAACTTCAG
1 ACTGCAACTTCAG
14283651 TGAAGATCGA
Statistics
Matches: 92, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
100 3 0.03
101 89 0.97
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (101 bp):
ACTGCAACTTCAGAGATATAGGATTTGATGCCGTAGCTTCATCTTGCTCCACTACAACTTCAGAC
AGATAAAAATTCGCCTTCATGACTTCAATCTAACCC
Found at i:14283783 original size:40 final size:40
Alignment explanation
Indices: 14283703--14283912 Score: 193
Period size: 40 Copynumber: 5.3 Consensus size: 40
14283693 TATAACTTTA
*
14283703 AGGGTAAAAGAT-TAGAT--TCTTTCAATCAGCC-TCATGGTT
1 AGGGTAAAAGATCT-GATGGTC-TTCAATCTGCCTTC-TGGTT
* * *
14283742 AGGGTAAGAGATCTGATGGTCTTTAACCTGCCTTCTGGTT
1 AGGGTAAAAGATCTGATGGTCTTCAATCTGCCTTCTGGTT
* *
14283782 AGGGTAAAAGATCTGATGGTCTTCAATCTACCCAT-TGGTT
1 AGGGTAAAAGATCTGATGGTCTTCAATCT-GCCTTCTGGTT
* *
14283822 AGGGTAAAAGAT-TGAATTG-CTTCAATCTGCC-TCATGGTC
1 AGGGTAAAAGATCTG-ATGGTCTTCAATCTGCCTTC-TGGTT
* * * * *
14283861 GGGGTAAGAGATCGGATGATCTTTAATCTGCCTTCTGGTT
1 AGGGTAAAAGATCTGATGGTCTTCAATCTGCCTTCTGGTT
14283901 AGGGTAAAAGAT
1 AGGGTAAAAGAT
14283913 TGGATTGCTT
Statistics
Matches: 139, Mismatches: 21, Indels: 21
0.77 0.12 0.12
Matches are distributed among these distances:
37 1 0.01
38 2 0.01
39 41 0.29
40 86 0.62
41 9 0.06
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (40 bp):
AGGGTAAAAGATCTGATGGTCTTCAATCTGCCTTCTGGTT
Found at i:14283866 original size:79 final size:79
Alignment explanation
Indices: 14283783--14283951 Score: 223
Period size: 79 Copynumber: 2.1 Consensus size: 79
14283773 CTTCTGGTTA
* *
14283783 GGGTAAAAGATCTGATGGTCTTCAATCTACCCAT-TGGTTAGGGTAAAAGATTGAATTGCTTCAA
1 GGGTAAAAGATCGGATGATCTTCAATCT-CCCATCTGGTTAGGGTAAAAGATTGAATTGCTTCAA
*
14283847 TCTGCCTCATGGTCG
65 TCTGCCCCATGGTCG
* * * * *
14283862 GGGTAAGAGATCGGATGATCTTTAATCTGCCTTCTGGTTAGGGTAAAAGATTGGATTGCTTCAAT
1 GGGTAAAAGATCGGATGATCTTCAATCTCCCATCTGGTTAGGGTAAAAGATTGAATTGCTTCAAT
* * *
14283927 TTTCCCCATGGTTG
66 CTGCCCCATGGTCG
14283941 GGGTAAAAGAT
1 GGGTAAAAGAT
14283952 TCGGGGTCGT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 3 0.04
79 74 0.96
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (79 bp):
GGGTAAAAGATCGGATGATCTTCAATCTCCCATCTGGTTAGGGTAAAAGATTGAATTGCTTCAAT
CTGCCCCATGGTCG
Found at i:14283935 original size:119 final size:118
Alignment explanation
Indices: 14283703--14283952 Score: 337
Period size: 119 Copynumber: 2.1 Consensus size: 118
14283693 TATAACTTTA
* * *
14283703 AGGGTAAAAGATTAGATTCTTTCAATCAGCCTCATGGTTAGGGTAAGAGATCTGATGGTCTTTAA
1 AGGGTAAAAGATTAGATTCTTTCAATCAGCCTCATGGTCAGGGTAAGAGATCGGATGATCTTTAA
14283768 CCTGCCTTCTGGTTAGGGTAAAAGATCTGATGGTCTTCAATCTACCCATTGGTT
66 CCTGCCTTCTGGTTAGGGTAAAAGATCTGATGGTCTTCAATCTACCCA-TGGTT
* *
14283822 AGGGTAAAAGATT-GAATTGC-TTCAATCTGCCTCATGGTCGGGGTAAGAGATCGGATGATCTTT
1 AGGGTAAAAGATTAG-ATT-CTTTCAATCAGCCTCATGGTCAGGGTAAGAGATCGGATGATCTTT
* * * *
14283885 AATCTGCCTTCTGGTTAGGGTAAAAGAT-TGGATTG-CTTCAATTTTCCCCATGGTT
64 AACCTGCCTTCTGGTTAGGGTAAAAGATCT-GATGGTCTTCAA-TCTACCCATGGTT
*
14283940 GGGGTAAAAGATT
1 AGGGTAAAAGATT
14283953 CGGGGTCGTA
Statistics
Matches: 117, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
118 25 0.21
119 91 0.78
120 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (118 bp):
AGGGTAAAAGATTAGATTCTTTCAATCAGCCTCATGGTCAGGGTAAGAGATCGGATGATCTTTAA
CCTGCCTTCTGGTTAGGGTAAAAGATCTGATGGTCTTCAATCTACCCATGGTT
Found at i:14284047 original size:50 final size:51
Alignment explanation
Indices: 14283993--14284116 Score: 148
Period size: 50 Copynumber: 2.5 Consensus size: 51
14283983 TAGGAGTATA
* * *
14283993 AGATTTGTAC-TTACGACTTCAATCTGTCCCTCTACAGCTTTAGGTGAATG
1 AGATTTGTCCATTACGACTTCAATCTGCCCCTCTACAACTTTAGGTGAATG
* * *
14284043 AGATTCG-CCATTGC-AGCTTCAATCTGCCCCTCTACAACTTTAGGTGTATG
1 AGATTTGTCCATTACGA-CTTCAATCTGCCCCTCTACAACTTTAGGTGAATG
*
14284093 AGATTT-TCCATTACGGCTTCAATC
1 AGATTTGTCCATTACGACTTCAATC
14284117 CATTTATCTA
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
49 2 0.03
50 59 0.97
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (51 bp):
AGATTTGTCCATTACGACTTCAATCTGCCCCTCTACAACTTTAGGTGAATG
Found at i:14293722 original size:118 final size:119
Alignment explanation
Indices: 14293465--14293952 Score: 658
Period size: 123 Copynumber: 4.0 Consensus size: 119
14293455 TAATGATTTT
* * *
14293465 ATTGAATATTAAAAACATGGAAGTTAATATCTTTTTGGAAAGAATATAATATTTTAATAAACCTT
1 ATTGAATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAAACCTT
14293530 CCATAAATTTTTCTAAAGGAATATTTCCGTTTTAATATGAGATATTAAATAAAAAGAA
66 CCAT--A--TTTCTAAAGGAATATTTCCGTTTTAATATGAGATATTAAATAAAAAGAA
* * *
14293588 ATTGAATATTAAAAACATGAAAGTTAATATCTTTTTGGAAAGGATATAATGTTTTAACAAACCTT
1 ATTGAATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAAACCTT
* * *
14293653 TCATA-TTCTAAAGGAATATTTCCGTTTTAACATTAGATATTAAATAAAAAGAA
66 CCATATTTCTAAAGGAATATTTCCGTTTTAATATGAGATATTAAATAAAAAGAA
* *
14293706 ATTGAATATTAAAAACATGGAAGTTAATATCCTTTTGGAAATGATATAATGTTTTAATTAACCTT
1 ATTGAATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAAACCTT
* *
14293771 CCATATATTTTTCTAAAGGAATGTTTCCGTTTTAATATGAGATATTAATTAAAAA-AA
66 CC--ATA--TTTCTAAAGGAATATTTCCGTTTTAATATGAGATATTAAATAAAAAGAA
14293828 ATTGAATATTAAAAA-ATGGAAGTTAATATCCTTTTGGAAAGGATATAATGGTTTTAATAAACCT
1 ATTGAATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAAT-GTTTTAATAAACCT
** * * * * *
14293892 TAAATATATTTCTATAAAAGAATAATTCCATTTTAATATAAGATATTAAATAAAAGGAA
65 T--CCATATTTC--TAAAGGAATATTTCCGTTTTAATATGAGATATTAAATAAAAAGAA
14293951 AT
1 AT
14293953 ATAGCAGAAT
Statistics
Matches: 326, Mismatches: 28, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
118 107 0.33
120 7 0.02
121 34 0.10
122 69 0.21
123 109 0.33
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (119 bp):
ATTGAATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAAACCTT
CCATATTTCTAAAGGAATATTTCCGTTTTAATATGAGATATTAAATAAAAAGAA
Found at i:14295951 original size:19 final size:20
Alignment explanation
Indices: 14295914--14295952 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14295904 GTGATTTTTG
* *
14295914 GAAAAATTAATTTTGATCAA
1 GAAAAATTAATATTAATCAA
14295934 GAAAAATTAA-ATTAATCAA
1 GAAAAATTAATATTAATCAA
14295953 ATTAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (20 bp):
GAAAAATTAATATTAATCAA
Found at i:14296104 original size:37 final size:36
Alignment explanation
Indices: 14296051--14296120 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
14296041 ATTCCAAAAA
*
14296051 TAATATTATTTTAAT-AAT-TTAATATTAAATTTAATC
1 TAATATTATCTTAATAAATCTT-ATATT-AATTTAATC
14296087 TAATATTTATCTTAATAAATCTTATATTAATTTA
1 TAATA-TTATCTTAATAAATCTTATATTAATTTA
14296121 CTATTAAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
36 5 0.17
37 15 0.50
38 8 0.27
39 2 0.07
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAAATCTTATATTAATTTAATC
Found at i:14296523 original size:59 final size:59
Alignment explanation
Indices: 14296431--14296549 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
14296421 CGAAGTGCTC
*
14296431 ATCCTAAATGAATCGAAAAAGGTATAATTTTGATTAATGTACAAGAGGAGCGGTTGAGG
1 ATCCTAAATGAATCGAAAAAGGTATAATTTTGATTAAGGTACAAGAGGAGCGGTTGAGG
*
14296490 ATCCTAAATGAATCGGAAAAGGTATAATTTTGATTAAGGTACAAGAGGAGCGGTTGAGG
1 ATCCTAAATGAATCGAAAAAGGTATAATTTTGATTAAGGTACAAGAGGAGCGGTTGAGG
14296549 A
1 A
14296550 ATAGTCCTAG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (59 bp):
ATCCTAAATGAATCGAAAAAGGTATAATTTTGATTAAGGTACAAGAGGAGCGGTTGAGG
Found at i:14304374 original size:12 final size:12
Alignment explanation
Indices: 14304357--14304390 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
14304347 AGAACAGCCT
14304357 GTGGATGAAGTA
1 GTGGATGAAGTA
14304369 GTGGATGAAGTA
1 GTGGATGAAGTA
*
14304381 GTGGAAGAAG
1 GTGGATGAAG
14304391 ACGGCCAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.44, T:0.21
Consensus pattern (12 bp):
GTGGATGAAGTA
Found at i:14304894 original size:17 final size:17
Alignment explanation
Indices: 14304872--14304905 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14304862 AGTTTGCATG
14304872 CATTTTTATTGTCAATT
1 CATTTTTATTGTCAATT
* *
14304889 CATTTTTTTTGTTAATT
1 CATTTTTATTGTCAATT
14304906 TAGTTTCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.65
Consensus pattern (17 bp):
CATTTTTATTGTCAATT
Found at i:14308513 original size:20 final size:21
Alignment explanation
Indices: 14308477--14308531 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
14308467 TCATTAAGCT
*
14308477 TTAATT-AATCATTTTTA-ATC
1 TTAATTAAATCATATTTATA-C
14308497 TTAATTAAATC-TATTTATAC
1 TTAATTAAATCATATTTATAC
*
14308517 TTAATATAAACCATA
1 TTAAT-TAAATCATA
14308532 CCAATCCACT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 17 0.59
21 10 0.34
22 2 0.07
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAATTAAATCATATTTATAC
Found at i:14311761 original size:30 final size:30
Alignment explanation
Indices: 14311725--14311784 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
14311715 CTGTGATTGC
14311725 CTCACCTGTCGAACATTTCAAACTGATCTA
1 CTCACCTGTCGAACATTTCAAACTGATCTA
14311755 CTCACCTGTCGAACATTTCAAACTGATCTA
1 CTCACCTGTCGAACATTTCAAACTGATCTA
14311785 TCTTTGCGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (30 bp):
CTCACCTGTCGAACATTTCAAACTGATCTA
Found at i:14315702 original size:21 final size:20
Alignment explanation
Indices: 14315666--14315715 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
14315656 TCATTAAGCT
14315666 TTAATT-AATCATTTTA-ATC
1 TTAATTAAATCATTTTATA-C
14315685 TTAATTAAATCTATTTTATAC
1 TTAATTAAATC-ATTTTATAC
14315706 TTAATATAAA
1 TTAAT-TAAA
14315716 CCATACCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.22
20 4 0.15
21 12 0.44
22 5 0.19
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAATTAAATCATTTTATAC
Found at i:14319939 original size:7 final size:7
Alignment explanation
Indices: 14319919--14319981 Score: 62
Period size: 7 Copynumber: 9.4 Consensus size: 7
14319909 TCTCTTTTCC
*
14319919 TTCCCCC
1 TTCCCCT
14319926 TTCCCCT
1 TTCCCCT
14319933 TTCCCCT
1 TTCCCCT
*
14319940 TTCTCCT
1 TTCCCCT
14319947 TT-CCCT
1 TTCCCCT
14319953 TT-CCC-
1 TTCCCCT
14319958 TTCCCTCT
1 TTCCC-CT
*
14319966 TTCTCCT
1 TTCCCCT
14319973 TT-CCCT
1 TTCCCCT
14319979 TTC
1 TTC
14319982 TCGTTTTCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
5 2 0.04
6 15 0.32
7 26 0.55
8 4 0.09
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (7 bp):
TTCCCCT
Found at i:14319941 original size:26 final size:27
Alignment explanation
Indices: 14319882--14319973 Score: 95
Period size: 26 Copynumber: 3.5 Consensus size: 27
14319872 GAAGCCTCTC
14319882 CCCCATTTC-CCTTCCCCCTTCCTCCTTT
1 CCCC-TTTCTCCTTCCCCCTTCC-CCTTT
*
14319910 -CTCTTT-TCCTTCCCCCTTCCCCTTT
1 CCCCTTTCTCCTTCCCCCTTCCCCTTT
* *
14319935 CCCCTTTCTCCTT-TCCCTTTCCC-TT
1 CCCCTTTCTCCTTCCCCCTTCCCCTTT
14319960 CCCTCTTTCTCCTT
1 CCC-CTTTCTCCTT
14319974 TCCCTTTCTC
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
25 10 0.18
26 39 0.70
27 7 0.12
ACGTcount: A:0.01, C:0.53, G:0.00, T:0.46
Consensus pattern (27 bp):
CCCCTTTCTCCTTCCCCCTTCCCCTTT
Found at i:14319946 original size:39 final size:39
Alignment explanation
Indices: 14319880--14319983 Score: 120
Period size: 39 Copynumber: 2.6 Consensus size: 39
14319870 CCGAAGCCTC
* * * * *
14319880 TCCCCCATTTCCCTTCCCCCTTCCTCCTTTCTCTTTTCCT
1 TCCCCC-TTCCCCTTTCCCCTTTCTCCTTTCCCTTTCCCT
14319920 TCCCCCTTCCCCTTTCCCCTTTCTCCTTTCCCTTTCCCT
1 TCCCCCTTCCCCTTTCCCCTTTCTCCTTTCCCTTTCCCT
* *
14319959 TCCCTCTTTCTCCTTT-CCCTTTCTC
1 TCCC-CCTTCCCCTTTCCCCTTTCTC
14319984 GTTTTCAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
39 41 0.73
40 15 0.27
ACGTcount: A:0.01, C:0.53, G:0.00, T:0.46
Consensus pattern (39 bp):
TCCCCCTTCCCCTTTCCCCTTTCTCCTTTCCCTTTCCCT
Found at i:14319947 original size:20 final size:19
Alignment explanation
Indices: 14319882--14319979 Score: 67
Period size: 20 Copynumber: 5.0 Consensus size: 19
14319872 GAAGCCTCTC
* *
14319882 CCCCATTTCCCTTCCCCCTT
1 CCCC-TTTCCCTTTCTCCTT
*
14319902 CCTCCTTTCTCTTT-TCCTT
1 CC-CCTTTCCCTTTCTCCTT
* *
14319921 CCCCCTTCCCCTTTCCCCTTT
1 -CCCCTTTCCCTTTCTCC-TT
*
14319942 CTCCTTTCCCTTTC-CCTT
1 CCCCTTTCCCTTTCTCCTT
14319960 CCCTCTTTCTCCTTTC-CCTT
1 CCC-CTTTC-CCTTTCTCCTT
14319980 TCTCGTTTTC
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
18 4 0.06
19 20 0.32
20 35 0.56
21 4 0.06
ACGTcount: A:0.01, C:0.53, G:0.00, T:0.46
Consensus pattern (19 bp):
CCCCTTTCCCTTTCTCCTT
Found at i:14319963 original size:11 final size:13
Alignment explanation
Indices: 14319897--14319983 Score: 88
Period size: 13 Copynumber: 6.7 Consensus size: 13
14319887 TTTCCCTTCC
*
14319897 CCCTTCCTCCTTT
1 CCCTTTCTCCTTT
* *
14319910 CTCTTT-TCCTTC
1 CCCTTTCTCCTTT
* *
14319922 CCCCTTCCCCTTT
1 CCCTTTCTCCTTT
14319935 CCCCTTTCTCCTTT
1 -CCCTTTCTCCTTT
*
14319949 CCCTTTC-CCTTC
1 CCCTTTCTCCTTT
14319961 CCTCTTTCTCCTTT
1 CC-CTTTCTCCTTT
14319975 CCCTTTCTC
1 CCCTTTCTC
14319984 GTTTTCAATT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
12 15 0.25
13 27 0.46
14 17 0.29
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (13 bp):
CCCTTTCTCCTTT
Found at i:14319981 original size:6 final size:6
Alignment explanation
Indices: 14319923--14319981 Score: 64
Period size: 6 Copynumber: 9.2 Consensus size: 6
14319913 TTTTCCTTCC
* *
14319923 CCCTTC CCCTTT CCCCTTT CTCCTTT CCCTTT CCCTTC CCTCTTT CTCCTTT
1 CCCTTT CCCTTT -CCCTTT C-CCTTT CCCTTT CCCTTT CC-CTTT C-CCTTT
14319975 CCCTTT C
1 CCCTTT C
14319982 TCGTTTTCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
6 24 0.52
7 21 0.46
8 1 0.02
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (6 bp):
CCCTTT
Found at i:14322344 original size:18 final size:18
Alignment explanation
Indices: 14322316--14322358 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
14322306 TTATTTTTCG
14322316 AAAGTCATTTTCAATCAAA
1 AAAG-CATTTTCAATCAAA
14322335 AAAGCATTTTCAATCAAA
1 AAAGCATTTTCAATCAAA
*
14322353 CAAGCA
1 AAAGCA
14322359 GAGCTTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.49, C:0.19, G:0.07, T:0.26
Consensus pattern (18 bp):
AAAGCATTTTCAATCAAA
Found at i:14323314 original size:78 final size:78
Alignment explanation
Indices: 14323185--14323342 Score: 316
Period size: 78 Copynumber: 2.0 Consensus size: 78
14323175 AGTGACGACA
14323185 CAGGTGATGGACTCTTTGCATGACATTCGATCCCCTGCCTCAAAGCACTCAGAACACAAACACCG
1 CAGGTGATGGACTCTTTGCATGACATTCGATCCCCTGCCTCAAAGCACTCAGAACACAAACACCG
14323250 TTTAATACTCTTT
66 TTTAATACTCTTT
14323263 CAGGTGATGGACTCTTTGCATGACATTCGATCCCCTGCCTCAAAGCACTCAGAACACAAACACCG
1 CAGGTGATGGACTCTTTGCATGACATTCGATCCCCTGCCTCAAAGCACTCAGAACACAAACACCG
14323328 TTTAATACTCTTT
66 TTTAATACTCTTT
14323341 CA
1 CA
14323343 ACATGGGAAA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (78 bp):
CAGGTGATGGACTCTTTGCATGACATTCGATCCCCTGCCTCAAAGCACTCAGAACACAAACACCG
TTTAATACTCTTT
Found at i:14324959 original size:40 final size:40
Alignment explanation
Indices: 14324883--14325000 Score: 96
Period size: 40 Copynumber: 2.9 Consensus size: 40
14324873 CAATTAAGGC
* ** * *
14324883 TTTTTTCATAAATGCCACAAAAAGT-AAGGTAATAGCGATG
1 TTTTTTCATAAACGCC-GTAAAAGTCAAAGTATTAGCGATG
*
14324923 TTTTTTCATAAACGCCGTAAAAGTCAAAGTATTAGCGGTG
1 TTTTTTCATAAACGCCGTAAAAGTCAAAGTATTAGCGATG
* * * * *
14324963 CTTTCTCATAAGCGTCGCTAATAA-TCAGAGTATTAGCG
1 TTTTTTCATAAACGCCG-TAA-AAGTCAAAGTATTAGCG
14325001 GCACTGATGA
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
39 6 0.09
40 40 0.62
41 16 0.25
42 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (40 bp):
TTTTTTCATAAACGCCGTAAAAGTCAAAGTATTAGCGATG
Found at i:14326208 original size:40 final size:41
Alignment explanation
Indices: 14326149--14326239 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 41
14326139 TGTAAATATC
* * *
14326149 AGAGCATTATCGACATTTAT-GAAAAACGCCGCTAAAGGTT
1 AGAGCATTAGCGACATTTATAAAAAAACGCCGCTAAAGATT
** *
14326189 AGAGCATTAGCGATGTTTATAAAAAAACGCCGTTAAAGATT
1 AGAGCATTAGCGACATTTATAAAAAAACGCCGCTAAAGATT
*
14326230 AAAGCATTAG
1 AGAGCATTAG
14326240 TGGCGCTTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 17 0.40
41 26 0.60
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (41 bp):
AGAGCATTAGCGACATTTATAAAAAAACGCCGCTAAAGATT
Found at i:14326366 original size:36 final size:37
Alignment explanation
Indices: 14326286--14326366 Score: 114
Period size: 35 Copynumber: 2.3 Consensus size: 37
14326276 ATAATATTAA
* *
14326286 AAATTATTTTAAAACTTATATAAACTAAAAAAATTCT
1 AAATTATTTTAAAACTTAGATAAACTAAAAAAAATCT
*
14326323 AAA--ATTTTAAAACTTAGGTAAACTAAAAAAAAT-T
1 AAATTATTTTAAAACTTAGATAAACTAAAAAAAATCT
14326357 AAATTATTTT
1 AAATTATTTT
14326367 GGTTTTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.10
35 27 0.69
36 5 0.13
37 3 0.08
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.37
Consensus pattern (37 bp):
AAATTATTTTAAAACTTAGATAAACTAAAAAAAATCT
Found at i:14326469 original size:76 final size:76
Alignment explanation
Indices: 14326387--14326535 Score: 246
Period size: 76 Copynumber: 2.0 Consensus size: 76
14326377 TTTTCCATCC
* *
14326387 AAATCCTTTCTTT-CCCCTCAAATCCCCAAATCAAAAACCCCTTCCTATTATGTCTTCCCATAAA
1 AAATCCTTTCTTTCCCCCT-AAATCCCCAAATCAAAAACCCATTCCTATTATGTCTCCCCATAAA
14326451 ACAGAGCAGAGA
65 ACAGAGCAGAGA
* *
14326463 AAATCCTTTCTTTCCCCCTAAATCCCCAAATCAAAAACTCATTCCTATTATGTCTCCCCATAGAA
1 AAATCCTTTCTTTCCCCCTAAATCCCCAAATCAAAAACCCATTCCTATTATGTCTCCCCATAAAA
14326528 CAGAGCAG
66 CAGAGCAG
14326536 TAGGTGCTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
76 63 0.93
77 5 0.07
ACGTcount: A:0.34, C:0.33, G:0.07, T:0.27
Consensus pattern (76 bp):
AAATCCTTTCTTTCCCCCTAAATCCCCAAATCAAAAACCCATTCCTATTATGTCTCCCCATAAAA
CAGAGCAGAGA
Found at i:14330320 original size:43 final size:43
Alignment explanation
Indices: 14330265--14330433 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
14330255 TTTTAGAGGG
* * * *
14330265 GTTTGTGGGAAAAACGTCGCTAAAGACCACGTTCTTTAGCTGT
1 GTTTGTGAGAAAAACGCCGCTAAAGACCATGTTCTTTAGCTGC
* * * * * *
14330308 GTTTGTGAGAAAAACACCGTTAAAAATCATGTTATTTAGCAGC
1 GTTTGTGAGAAAAACGCCGCTAAAGACCATGTTCTTTAGCTGC
* * * *
14330351 GTTTGTG-GTAAAGCCCCGCTAAAGACCATGTTCTTTAGGTGGC
1 GTTTGTGAGAAAAACGCCGCTAAAGACCATGTTCTTTAGCT-GC
* * *
14330394 GTTTGTGCA-AAAAGCGTCGCTAAAGACCATGTTCTATAGC
1 GTTTGTG-AGAAAAACGCCGCTAAAGACCATGTTCTTTAGC
14330434 GGTGTTTTTC
Statistics
Matches: 99, Mismatches: 24, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
42 24 0.24
43 49 0.49
44 26 0.26
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
GTTTGTGAGAAAAACGCCGCTAAAGACCATGTTCTTTAGCTGC
Found at i:14333662 original size:17 final size:17
Alignment explanation
Indices: 14333642--14333676 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
14333632 AATTTTTCTA
*
14333642 TTAATTTGTCTTTTATT
1 TTAATTTATCTTTTATT
*
14333659 TTAATTTATTTTTTATT
1 TTAATTTATCTTTTATT
14333676 T
1 T
14333677 AGCTTTTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (17 bp):
TTAATTTATCTTTTATT
Found at i:14338469 original size:30 final size:30
Alignment explanation
Indices: 14338435--14338528 Score: 127
Period size: 30 Copynumber: 3.1 Consensus size: 30
14338425 GCCGCTTGAA
*
14338435 GTGTCTCTTTCTGTGCTACATGCTTGTTAT
1 GTGTCTCTTTCTGTGCTACATGCTTGTTGT
*
14338465 GTGTCTCTGTTC-GTGCTACATGTTTGTTGT
1 GTGTCTCT-TTCTGTGCTACATGCTTGTTGT
* * *
14338495 GTGTCTATGTCTGTGCAACATGCTTGTTGT
1 GTGTCTCTTTCTGTGCTACATGCTTGTTGT
14338525 GTGT
1 GTGT
14338529 TTGATTTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.04
30 51 0.91
31 3 0.05
ACGTcount: A:0.10, C:0.17, G:0.26, T:0.48
Consensus pattern (30 bp):
GTGTCTCTTTCTGTGCTACATGCTTGTTGT
Found at i:14341592 original size:34 final size:34
Alignment explanation
Indices: 14341548--14341613 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
14341538 TGTTCAACCT
* *
14341548 TTAACTTCCCTTGACTTTTAACCTTCCATCTTTC
1 TTAACCTCCCTTGACCTTTAACCTTCCATCTTTC
14341582 TTAACCTCCCTTGACCTTTAACCTTCCATCTT
1 TTAACCTCCCTTGACCTTTAACCTTCCATCTT
14341614 CTTGTAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.18, C:0.35, G:0.03, T:0.44
Consensus pattern (34 bp):
TTAACCTCCCTTGACCTTTAACCTTCCATCTTTC
Found at i:14346855 original size:17 final size:17
Alignment explanation
Indices: 14346833--14346891 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
14346823 ATGTTCAACC
14346833 TTTAACCTCCCTTGACT
1 TTTAACCTCCCTTGACT
*
14346850 TTTAACCT---TTCATCT
1 TTTAACCTCCCTTGA-CT
*
14346865 TCCTTAACCTCCCTTGACC
1 T--TTAACCTCCCTTGACT
14346884 TTTAACCT
1 TTTAACCT
14346892 TCCATCTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
14 3 0.09
15 3 0.09
17 22 0.67
19 2 0.06
20 3 0.09
ACGTcount: A:0.19, C:0.36, G:0.03, T:0.42
Consensus pattern (17 bp):
TTTAACCTCCCTTGACT
Found at i:14346877 original size:34 final size:34
Alignment explanation
Indices: 14346834--14346900 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
14346824 TGTTCAACCT
* *
14346834 TTAACCTCCCTTGACTTTTAACCTTTCATCTTCC
1 TTAACCTCCCTTGACCTTTAACCTTCCATCTTCC
14346868 TTAACCTCCCTTGACCTTTAACCTTCCATCTTC
1 TTAACCTCCCTTGACCTTTAACCTTCCATCTTC
14346901 TTGTAACTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.18, C:0.37, G:0.03, T:0.42
Consensus pattern (34 bp):
TTAACCTCCCTTGACCTTTAACCTTCCATCTTCC
Found at i:14357628 original size:12 final size:12
Alignment explanation
Indices: 14357597--14357628 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
14357587 ATGAGCATAT
14357597 CCAGAATTGCAC
1 CCAGAATTGCAC
14357609 CCAG-ATTGCAC
1 CCAGAATTGCAC
14357620 CCAGAATTG
1 CCAGAATTG
14357629 TCGTCACATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (12 bp):
CCAGAATTGCAC
Found at i:14374155 original size:17 final size:17
Alignment explanation
Indices: 14374067--14374163 Score: 95
Period size: 17 Copynumber: 5.6 Consensus size: 17
14374057 TGTTAGTAAG
** *
14374067 CATTGTCATCACATTCC
1 CATTGTCATTGCATTTC
* * *
14374084 CATTGTCACTACATTTT
1 CATTGTCATTGCATTTC
* * *
14374101 AATTATCATTGCATTTA
1 CATTGTCATTGCATTTC
*
14374118 CATTGTCATTGCATTTG
1 CATTGTCATTGCATTTC
14374135 CATTGTCATTGCATTTC
1 CATTGTCATTGCATTTC
14374152 CATTTGTCATTG
1 CA-TTGTCATTG
14374164 TAATGTAGTG
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
17 57 0.86
18 9 0.14
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.45
Consensus pattern (17 bp):
CATTGTCATTGCATTTC
Found at i:14374176 original size:34 final size:34
Alignment explanation
Indices: 14374106--14374183 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
14374096 ATTTTAATTA
* *
14374106 TCATTGCATTTACATTGTCATTGCATTTGCATTG
1 TCATTGCATTTACATTGTCATTGCATATGCAGTG
* * *
14374140 TCATTGCATTTCCATTTGTCATTGTA-ATGTAGTG
1 TCATTGCATTTACA-TTGTCATTGCATATGCAGTG
*
14374174 TCAGTGCATT
1 TCATTGCATT
14374184 GGGGACAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
34 27 0.73
35 10 0.27
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.46
Consensus pattern (34 bp):
TCATTGCATTTACATTGTCATTGCATATGCAGTG
Found at i:14377886 original size:158 final size:157
Alignment explanation
Indices: 14377590--14377912 Score: 373
Period size: 158 Copynumber: 2.1 Consensus size: 157
14377580 CTCGGTATCA
* * ** * *
14377590 TGTATTGCTCACACAAGCTGTGAAATGGGCCTGCTCACATGAGCTGTTGGTCGAGAGGTTGCACT
1 TGTAATGCTCACACAAGCTGTGAAATAGGCCTGCTCACACAAGCTATGGGTCGAGAGGTTGCACT
* *
14377655 ACATGATACTGCTCAAACAAGCTATAGAGAATCCACAATGAATGTTCAATCTCAACCATCAGTAG
66 ACACGATACTGCTCAAACAAGCTATAGAGAATCCACAATGAATGCTCAATCTCAACCATCAGTAG
* *
14377720 GACTTCTAAGACCAACACCCATATAATC
131 GACATCTAAGACCAACA-CCATATAACC
** * * *
14377748 TGTAATGCTCACATGAGCTGTGGAATAGGCCTGCTCACACAAGCTATGGGTCGAGATGTTGCGCT
1 TGTAATGCTCACACAAGCTGTGAAATAGGCCTGCTCACACAAGCTATGGGTCGAGAGGTTGCACT
** * * * * *
14377813 ACACGATGTTGCTCACACGAGC-AGTAGAGAATTCGCAATGAATGCT-AGATCTCAGCCATC-GA
66 ACACGATACTGCTCAAACAAGCTA-TAGAGAATCCACAATGAATGCTCA-ATCTCAACCATCAG-
*
14377875 TAGGACATCTAAGACCAGCACCATATAACC
128 TAGGACATCTAAGACCAACACCATATAACC
*
14377905 TATAATGC
1 TGTAATGC
14377913 CCGAAATCGA
Statistics
Matches: 138, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
157 19 0.14
158 119 0.86
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (157 bp):
TGTAATGCTCACACAAGCTGTGAAATAGGCCTGCTCACACAAGCTATGGGTCGAGAGGTTGCACT
ACACGATACTGCTCAAACAAGCTATAGAGAATCCACAATGAATGCTCAATCTCAACCATCAGTAG
GACATCTAAGACCAACACCATATAACC
Found at i:14379581 original size:23 final size:23
Alignment explanation
Indices: 14379555--14379662 Score: 128
Period size: 23 Copynumber: 4.6 Consensus size: 23
14379545 TGCACAAATT
*
14379555 TGCTAAACGGAGAGCACCCAAAG
1 TGCTAAACGGAGAGCACACAAAG
14379578 TGCTAAACGGAGAGCACACAAAG
1 TGCTAAACGGAGAGCACACAAAG
* *
14379601 TGCTAAACGAAGAGCACACACAG
1 TGCTAAACGGAGAGCACACAAAG
* *
14379624 TGCTAATAACAGAGAGCACA-AGACG
1 TGCT-A-AACGGAGAGCACACA-AAG
*
14379649 TGCTAAACAGAGAG
1 TGCTAAACGGAGAG
14379663 TGCGCTAAGG
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
23 56 0.75
24 3 0.04
25 16 0.21
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (23 bp):
TGCTAAACGGAGAGCACACAAAG
Found at i:14382854 original size:17 final size:18
Alignment explanation
Indices: 14382822--14382855 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14382812 CAATCTCAAA
*
14382822 CTCATTATTTTTTCCTTC
1 CTCATTATTGTTTCCTTC
14382840 CTCATT-TTGTTTCCTT
1 CTCATTATTGTTTCCTT
14382856 ATCACCAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.09, C:0.26, G:0.03, T:0.62
Consensus pattern (18 bp):
CTCATTATTGTTTCCTTC
Found at i:14405415 original size:19 final size:20
Alignment explanation
Indices: 14405391--14405436 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
14405381 TAGTTGTTCT
14405391 GGTAGAAGCATAC-TGTAGC
1 GGTAGAAGCATACTTGTAGC
*
14405410 GGTAGAAGCATACTTGTATC
1 GGTAGAAGCATACTTGTAGC
14405430 GGTAGAA
1 GGTAGAA
14405437 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.24
Consensus pattern (20 bp):
GGTAGAAGCATACTTGTAGC
Found at i:14405901 original size:33 final size:33
Alignment explanation
Indices: 14405862--14405927 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
14405852 GAATAAATTT
* *
14405862 CTCCCCCT-TAATAAAAGTCATTTTGAAATTAAG
1 CTCCCCCTAT-ATAAAAATCATTTTCAAATTAAG
*
14405895 CTCCCCCTATATAAAAATCATTTTCAATTTAAG
1 CTCCCCCTATATAAAAATCATTTTCAAATTAAG
14405928 GCATAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (33 bp):
CTCCCCCTATATAAAAATCATTTTCAAATTAAG
Found at i:14408568 original size:20 final size:20
Alignment explanation
Indices: 14408522--14408599 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
14408512 GTCTGCAGCT
*
14408522 TAGTTGT-TCTGGTAGAAGCA
1 TAGTTGTATC-GGTAGAAGCG
* *
14408542 TACTTGTATCGGTAGAACCG
1 TAGTTGTATCGGTAGAAGCG
** *
14408562 TAGTTGTATTAGTAGAAGAG
1 TAGTTGTATCGGTAGAAGCG
* *
14408582 GAGTTCTATCGGTAGAAG
1 TAGTTGTATCGGTAGAAG
14408600 TCCCAGGGTA
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.28, C:0.10, G:0.29, T:0.32
Consensus pattern (20 bp):
TAGTTGTATCGGTAGAAGCG
Found at i:14408811 original size:20 final size:20
Alignment explanation
Indices: 14408786--14408837 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
14408776 AGTCTTCAAG
*
14408786 GTATCGGTAGAACTGTAGTT
1 GTATCGGTAGAACTGGAGTT
* *
14408806 GTATCGGTAAAAGTGGAGTT
1 GTATCGGTAGAACTGGAGTT
* *
14408826 TTACCGGTAGAA
1 GTATCGGTAGAA
14408838 GTCTCACTGG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.31
Consensus pattern (20 bp):
GTATCGGTAGAACTGGAGTT
Found at i:14411631 original size:30 final size:30
Alignment explanation
Indices: 14411585--14411707 Score: 122
Period size: 30 Copynumber: 4.1 Consensus size: 30
14411575 CTGACACCTA
* * * * *
14411585 TCCAGAAAGCTCGCCCAATTGGATGCGCTT
1 TCCACAAAGCTTGCCCAACTGGACGCTCTT
*
14411615 TCCACAAAGCTTGCCCAGCTGGACGCTCTT
1 TCCACAAAGCTTGCCCAACTGGACGCTCTT
* * * ** *
14411645 TCCATAAAGCTTGTCTAGTTGGACGCACTT
1 TCCACAAAGCTTGCCCAACTGGACGCTCTT
*
14411675 TCCACAAAACTTG-CCAACTGGACGCTCTT
1 TCCACAAAGCTTGCCCAACTGGACGCTCTT
14411704 TCCA
1 TCCA
14411708 TTAAAATTAA
Statistics
Matches: 76, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
29 16 0.21
30 60 0.79
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.26
Consensus pattern (30 bp):
TCCACAAAGCTTGCCCAACTGGACGCTCTT
Found at i:14417825 original size:2 final size:2
Alignment explanation
Indices: 14417818--14417856 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
14417808 TGCTTCTATC
14417818 AT 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 AT A
14417857 AAAGTGCTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14418957 original size:73 final size:74
Alignment explanation
Indices: 14418870--14419017 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
14418860 TCGTATAAAC
14418870 TAAGTATTTCTAACATTAGTGTTCTATG-TTTTTTTATCATCACTTAAAATAGTACTACCCTTGA
1 TAAGTATTTCTAACATTAGTGTTCTATGTTTTTTTTATCATCACTTAAAATAGTACTACCCTTGA
14418934 ACCCCATCT
66 ACCCCATCT
14418943 TAAGTATTTCTAACATTAGTGTTCTATGTTTTTTTTATCATCACTTAAAATAGTACTACCCTTGA
1 TAAGTATTTCTAACATTAGTGTTCTATGTTTTTTTTATCATCACTTAAAATAGTACTACCCTTGA
14419008 ACCCCATCT
66 ACCCCATCT
14419017 T
1 T
14419018 GATGATCAAT
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 28 0.38
74 46 0.62
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.43
Consensus pattern (74 bp):
TAAGTATTTCTAACATTAGTGTTCTATGTTTTTTTTATCATCACTTAAAATAGTACTACCCTTGA
ACCCCATCT
Found at i:14419089 original size:203 final size:202
Alignment explanation
Indices: 14418741--14419146 Score: 794
Period size: 203 Copynumber: 2.0 Consensus size: 202
14418731 TTTGATAAAC
14418741 TAAGTATTTCTAACATTAGTGTTCTATGTTTTTTTATCATCACTTAAAATAGTACTACCCTTGAA
1 TAAGTATTTCTAACATTAGTGTTCTATGTTTTTTTATCATCACTTAAAATAGTACTACCCTTGAA
14418806 CCCCATCTTGATGATCAACAGTGTTTACCTTCCCAGATATGACCTGAATTTGAATCGTATAAACT
66 CCCCATCTTGATGATCAACAGTGTTTACCTTCCCAGATATGACCTGAATTTGAATCGTATAAACT
14418871 AAGTATTTCTAACATTAGTGTTCTATGTTTTTTTATCATCACTTAAAATAGTACTACCCTTGAAC
131 AAGTATTTCTAACATTAGTGTTCTATGTTTTTTTATCATCACTTAAAATAGTACTACCCTTGAAC
14418936 CCCATCT
196 CCCATCT
14418943 TAAGTATTTCTAACATTAGTGTTCTATGTTTTTTTTATCATCACTTAAAATAGTACTACCCTTGA
1 TAAGTATTTCTAACATTAGTGTTCTATG-TTTTTTTATCATCACTTAAAATAGTACTACCCTTGA
*
14419008 ACCCCATCTTGATGATCAATAGTGTTTACCTTCCCAGATATGACCTGAATTTGAATCGTATAAAC
65 ACCCCATCTTGATGATCAACAGTGTTTACCTTCCCAGATATGACCTGAATTTGAATCGTATAAAC
14419073 TAAGTATTTCTAACATTAGTGTTCTATGTTTTTTTATCATCACTTAAAATAGTACTACCCTTGAA
130 TAAGTATTTCTAACATTAGTGTTCTATGTTTTTTTATCATCACTTAAAATAGTACTACCCTTGAA
14419138 CCCCATCT
195 CCCCATCT
14419146 T
1 T
14419147 GATGATCAAC
Statistics
Matches: 202, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
202 28 0.14
203 174 0.86
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (202 bp):
TAAGTATTTCTAACATTAGTGTTCTATGTTTTTTTATCATCACTTAAAATAGTACTACCCTTGAA
CCCCATCTTGATGATCAACAGTGTTTACCTTCCCAGATATGACCTGAATTTGAATCGTATAAACT
AAGTATTTCTAACATTAGTGTTCTATGTTTTTTTATCATCACTTAAAATAGTACTACCCTTGAAC
CCCATCT
Found at i:14419174 original size:129 final size:130
Alignment explanation
Indices: 14418943--14419195 Score: 490
Period size: 129 Copynumber: 2.0 Consensus size: 130
14418933 AACCCCATCT
14418943 TAAGTATTTCTAACATTAGTGTTCTATGTTTTTTTTATCATCACTTAAAATAGTACTACCCTTGA
1 TAAGTATTTCTAACATTAGTGTTCTATGTTTTTTTTATCATCACTTAAAATAGTACTACCCTTGA
*
14419008 ACCCCATCTTGATGATCAATAGTGTTTACCTTCCCAGATATGACCTGAATTTGAATCGTATAAAC
66 ACCCCATCTTGATGATCAACAGTGTTTACCTTCCCAGATATGACCTGAATTTGAATCGTATAAAC
14419073 TAAGTATTTCTAACATTAGTGTTCTATG-TTTTTTTATCATCACTTAAAATAGTACTACCCTTGA
1 TAAGTATTTCTAACATTAGTGTTCTATGTTTTTTTTATCATCACTTAAAATAGTACTACCCTTGA
14419137 ACCCCATCTTGATGATCAACAGTGTTTACCTTCCCAGATATGACCTGAATTTGAATCGT
66 ACCCCATCTTGATGATCAACAGTGTTTACCTTCCCAGATATGACCTGAATTTGAATCGT
14419196 GTTAATTATG
Statistics
Matches: 122, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
129 94 0.77
130 28 0.23
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (130 bp):
TAAGTATTTCTAACATTAGTGTTCTATGTTTTTTTTATCATCACTTAAAATAGTACTACCCTTGA
ACCCCATCTTGATGATCAACAGTGTTTACCTTCCCAGATATGACCTGAATTTGAATCGTATAAAC
Found at i:14426604 original size:17 final size:17
Alignment explanation
Indices: 14426582--14426614 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14426572 ACTAACATTT
*
14426582 AAATGTAATGACAATGA
1 AAATGTAACGACAATGA
14426599 AAATGTAACGACAATG
1 AAATGTAACGACAATG
14426615 CTTACTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.21
Consensus pattern (17 bp):
AAATGTAACGACAATGA
Found at i:14436638 original size:20 final size:20
Alignment explanation
Indices: 14436600--14436638 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14436590 TTTCTTAGGG
**
14436600 TTTGTTTTTCTTTTTAGTTA
1 TTTGTTTTTCTTTAAAGTTA
14436620 TTTGTTTTTCTTTAAAGTT
1 TTTGTTTTTCTTTAAAGTT
14436639 TTCTTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.05, G:0.10, T:0.72
Consensus pattern (20 bp):
TTTGTTTTTCTTTAAAGTTA
Found at i:14440882 original size:54 final size:53
Alignment explanation
Indices: 14440798--14441169 Score: 278
Period size: 54 Copynumber: 7.4 Consensus size: 53
14440788 AGCTTTCGAA
* *
14440798 CATTTACGCTCGTTAGCTTGCACACGTTTACACTCGTCAGCTTATATATATACG
1 CATTTACGCTCG-CAGCTTGCACACCTTTACACTCGTCAGCTTATATATATACG
* * * **
14440852 CATTTACGCTCATCAGCTTGCACACCTTTACGCTCATCAGCTTATATATATGTG
1 CATTTACGCTC-GCAGCTTGCACACCTTTACACTCGTCAGCTTATATATATACG
* * * * *
14440906 CGTTTACGCTCGCTAGCTTGGACACATTTACGCTCGTCAGCTTATGTATATACG
1 CATTTACGCTCGC-AGCTTGCACACCTTTACACTCGTCAGCTTATATATATACG
*
14440960 --TTTACGCTCGCTAGCTTGCACACCTTTACACTCGTCAGCGTATATATAT--G
1 CATTTACGCTCGC-AGCTTGCACACCTTTACACTCGTCAGCTTATATATATACG
* * * * * *
14441010 CGTTTATGCTCACCGGCTTGCACACGTTTACACTCATCAGC---T-TATATACG
1 CATTTACGCTC-GCAGCTTGCACACCTTTACACTCGTCAGCTTATATATATACG
* *
14441060 C---T---CAC-CAGCTTGCACACGTTTACACTCGTCAGC---T-TATATACG
1 CATTTACGCTCGCAGCTTGCACACCTTTACACTCGTCAGCTTATATATATACG
* *
14441102 C--TTA---T--CAGCTTGCACACGTTTACGCTCGTCAGCTTATATATAT--G
1 CATTTACGCTCGCAGCTTGCACACCTTTACACTCGTCAGCTTATATATATACG
*
14441146 CGTTTACGCTCGCTAGCTTGCACA
1 CATTTACGCTCGC-AGCTTGCACA
14441170 TATCAGATAG
Statistics
Matches: 267, Mismatches: 30, Indels: 44
0.78 0.09 0.13
Matches are distributed among these distances:
42 63 0.24
43 1 0.00
44 4 0.01
45 1 0.00
46 8 0.03
47 1 0.00
48 5 0.02
49 2 0.01
50 3 0.01
51 1 0.00
52 86 0.32
53 2 0.01
54 90 0.34
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.33
Consensus pattern (53 bp):
CATTTACGCTCGCAGCTTGCACACCTTTACACTCGTCAGCTTATATATATACG
Found at i:14440988 original size:52 final size:52
Alignment explanation
Indices: 14440800--14441169 Score: 341
Period size: 52 Copynumber: 7.4 Consensus size: 52
14440790 CTTTCGAACA
*
14440800 TTTACGCTCGTTAGCTTGCACACGTTTACACTCGTCAGCTTATATATATACG
1 TTTACGCTCGCTAGCTTGCACACGTTTACACTCGTCAGCTTATATATATACG
* * * * *
14440852 CATTTACGCTC-ATCAGCTTGCACACCTTTACGCTCATCAGCTTATATATATGTGCG
1 --TTTACGCTCGCT-AGCTTGCACACGTTTACACTCGTCAGCTTATATATA--TACG
* * * *
14440908 TTTACGCTCGCTAGCTTGGACACATTTACGCTCGTCAGCTTATGTATATACG
1 TTTACGCTCGCTAGCTTGCACACGTTTACACTCGTCAGCTTATATATATACG
* * *
14440960 TTTACGCTCGCTAGCTTGCACACCTTTACACTCGTCAGCGTATATATATGCG
1 TTTACGCTCGCTAGCTTGCACACGTTTACACTCGTCAGCTTATATATATACG
* * ** *
14441012 TTTATGCTCACCGGCTTGCACACGTTTACACTCATCAGC-----T-TATA--
1 TTTACGCTCGCTAGCTTGCACACGTTTACACTCGTCAGCTTATATATATACG
* *
14441056 --TACGCTCACCAGCTTGCACACGTTTACACTCGTCAGC---T-TATATACG
1 TTTACGCTCGCTAGCTTGCACACGTTTACACTCGTCAGCTTATATATATACG
* * *
14441102 CTTA---T--C-AGCTTGCACACGTTTACGCTCGTCAGCTTATATATATGCG
1 TTTACGCTCGCTAGCTTGCACACGTTTACACTCGTCAGCTTATATATATACG
14441148 TTTACGCTCGCTAGCTTGCACA
1 TTTACGCTCGCTAGCTTGCACA
14441170 TATCAGATAG
Statistics
Matches: 266, Mismatches: 30, Indels: 42
0.79 0.09 0.12
Matches are distributed among these distances:
42 60 0.23
43 2 0.01
44 4 0.02
45 2 0.01
46 13 0.05
47 1 0.00
48 2 0.01
49 1 0.00
51 1 0.00
52 92 0.35
53 1 0.00
54 83 0.31
55 1 0.00
56 3 0.01
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (52 bp):
TTTACGCTCGCTAGCTTGCACACGTTTACACTCGTCAGCTTATATATATACG
Found at i:14441076 original size:42 final size:42
Alignment explanation
Indices: 14441017--14441141 Score: 205
Period size: 42 Copynumber: 3.0 Consensus size: 42
14441007 ATGCGTTTAT
* *
14441017 GCTCACCGGCTTGCACACGTTTACACTCATCAGCTTATATAC
1 GCTCACCAGCTTGCACACGTTTACACTCGTCAGCTTATATAC
14441059 GCTCACCAGCTTGCACACGTTTACACTCGTCAGCTTATATAC
1 GCTCACCAGCTTGCACACGTTTACACTCGTCAGCTTATATAC
* * *
14441101 GCTTATCAGCTTGCACACGTTTACGCTCGTCAGCTTATATA
1 GCTCACCAGCTTGCACACGTTTACACTCGTCAGCTTATATA
14441142 TATGCGTTTA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.30
Consensus pattern (42 bp):
GCTCACCAGCTTGCACACGTTTACACTCGTCAGCTTATATAC
Found at i:14441133 original size:24 final size:24
Alignment explanation
Indices: 14440776--14441136 Score: 86
Period size: 24 Copynumber: 14.7 Consensus size: 24
14440766 CTCATTGTGT
* * *
14440776 TTTACGCTCGTTAGCTTTCGA-ACA
1 TTTACGCTCGTCAGCTTGC-ACACG
*
14440800 TTTACGCTCGTTAGCTTGCACACG
1 TTTACGCTCGTCAGCTTGCACACG
* ** *
14440824 TTTACACTCGTCAGCTTATATATATACG
1 TTTACGCTCGTCAGC---T-TGCACACG
* *
14440852 CATTTACGCTCATCAGCTTGCACACC
1 --TTTACGCTCGTCAGCTTGCACACG
* ** *
14440878 TTTACGCTCATCAGCTTATATATATGTGCG
1 TTTACGCTCGTCAGC-T-TGCACA----CG
* *
14440908 TTTACGCTCG-CTAGCTTGGACACA
1 TTTACGCTCGTC-AGCTTGCACACG
* *
14440932 TTTACGCTCGTCAGCTTATGTATATACG
1 TTTACGCTCGTCAGC-T-TG--CACACG
*
14440960 TTTACGCTCG-CTAGCTTGCACACC
1 TTTACGCTCGTC-AGCTTGCACACG
* ** *
14440984 TTTACACTCGTCAGCGTATATATATGCG
1 TTTACGCTCGTCAGC-T-TGCACA--CG
* ** *
14441012 TTTATGCTCACCGGCTTGCACACG
1 TTTACGCTCGTCAGCTTGCACACG
* *
14441036 TTTACACTCATCAGCTT----A--
1 TTTACGCTCGTCAGCTTGCACACG
* **
14441054 TATACGCTCACCAGCTTGCACACG
1 TTTACGCTCGTCAGCTTGCACACG
*
14441078 TTTACACTCGTCAGCTT----A--
1 TTTACGCTCGTCAGCTTGCACACG
* **
14441096 TATACGCTTATCAGCTTGCACACG
1 TTTACGCTCGTCAGCTTGCACACG
14441120 TTTACGCTCGTCAGCTT
1 TTTACGCTCGTCAGCTT
14441137 ATATATATGC
Statistics
Matches: 241, Mismatches: 59, Indels: 74
0.64 0.16 0.20
Matches are distributed among these distances:
18 27 0.11
20 2 0.01
22 2 0.01
23 1 0.00
24 119 0.49
25 5 0.02
26 17 0.07
27 5 0.02
28 35 0.15
29 2 0.01
30 26 0.11
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (24 bp):
TTTACGCTCGTCAGCTTGCACACG
Found at i:14441172 original size:28 final size:28
Alignment explanation
Indices: 14441118--14441172 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
14441108 AGCTTGCACA
* *
14441118 CGTTTACGCTCGTCAGCTTATATATATG
1 CGTTTACGCTCGTCAGCTTACACATATG
*
14441146 CGTTTACGCTCG-CTAGCTTGCACATAT
1 CGTTTACGCTCGTC-AGCTTACACATAT
14441173 CAGATAGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.04
28 22 0.96
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (28 bp):
CGTTTACGCTCGTCAGCTTACACATATG
Found at i:14443262 original size:10 final size:10
Alignment explanation
Indices: 14443247--14443277 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
14443237 ATAAATACAC
14443247 CCTCATTTCA
1 CCTCATTTCA
14443257 CCTCATTTCA
1 CCTCATTTCA
*
14443267 CCTTATTTCA
1 CCTCATTTCA
14443277 C
1 C
14443278 ACACCAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.19, C:0.39, G:0.00, T:0.42
Consensus pattern (10 bp):
CCTCATTTCA
Found at i:14443652 original size:17 final size:18
Alignment explanation
Indices: 14443619--14443655 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
14443609 GTTGATTGTG
*
14443619 TTTAATTGCTAGTTTATA
1 TTTAATTGATAGTTTATA
14443637 TTTAATTGAT-GTTTATA
1 TTTAATTGATAGTTTATA
14443654 TT
1 TT
14443656 GTTATAGCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (18 bp):
TTTAATTGATAGTTTATA
Found at i:14444587 original size:55 final size:56
Alignment explanation
Indices: 14444502--14444645 Score: 191
Period size: 55 Copynumber: 2.6 Consensus size: 56
14444492 GTAAGCAATC
* * *
14444502 ACATAGCCTTATGCTCTAACCAAGATGTAAGCATTCCAAAGCTCTACCCGAGCTAT
1 ACATAGCCTTACGCTCTAACCGAGACGTAAGCATTCCAAAGCTCTACCCGAGCTAT
* * * **
14444558 ACATAGCCTTA-GCTCTAACCGAGACGTAAGCATTCTAGAGCTGTACTTGAGCTAT
1 ACATAGCCTTACGCTCTAACCGAGACGTAAGCATTCCAAAGCTCTACCCGAGCTAT
* *
14444613 ACATAGCTTTACACTCTAACCGAGACGTAAGCA
1 ACATAGCCTTACGCTCTAACCGAGACGTAAGCA
14444646 ATCACATAGC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
55 47 0.60
56 31 0.40
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (56 bp):
ACATAGCCTTACGCTCTAACCGAGACGTAAGCATTCCAAAGCTCTACCCGAGCTAT
Found at i:14452867 original size:52 final size:52
Alignment explanation
Indices: 14452789--14453072 Score: 397
Period size: 52 Copynumber: 5.5 Consensus size: 52
14452779 AAAAGATCCA
* * *
14452789 ATGACTATGTGTCATCGTGAGTATATGAATCATTTATGGATTATGAGGTCTG
1 ATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGAGGTCTG
* *
14452841 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGATCTG
1 ATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGAGGTCTG
* * * *
14452893 ATGACTATGCGTCATCATGAGTATATGAATTCTTTACGGATTATGAGGCCCG
1 ATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGAGGTCTG
* * * * *
14452945 ATGACTATGTGTCATCGTGAGTATTTGAATCCTTTACGGATTATAAAGCCTG
1 ATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGAGGTCTG
* *
14452997 ATGACTATATGTCATCATGAGTATATGAATCCTTTACGGATTATGAGGTCCG
1 ATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGAGGTCTG
* * *
14453049 ATGATTATGTCTCATTATGAGTAT
1 ATGACTATGTGTCATCATGAGTAT
14453073 TAAATGAAAT
Statistics
Matches: 205, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 205 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (52 bp):
ATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGAGGTCTG
Found at i:14452887 original size:26 final size:26
Alignment explanation
Indices: 14452858--14452939 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
14452848 TGTGTCATCG
*
14452858 TGAGTATATGAATCCTTTACGGATTA
1 TGAGTATATGAATACTTTACGGATTA
* * * * *
14452884 TGAG-ATCTG-ATGACTATGCGTCATCA
1 TGAGTATATGAAT-ACTTTACG-GATTA
*
14452910 TGAGTATATGAATTCTTTACGGATTA
1 TGAGTATATGAATACTTTACGGATTA
14452936 TGAG
1 TGAG
14452940 GCCCGATGAC
Statistics
Matches: 40, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
24 2 0.05
25 9 0.22
26 18 0.45
27 9 0.22
28 2 0.05
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (26 bp):
TGAGTATATGAATACTTTACGGATTA
Found at i:14455544 original size:20 final size:20
Alignment explanation
Indices: 14455505--14455547 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
14455495 AATTAAATCG
*
14455505 TGCATCACTGAGTTAGAAAA
1 TGCATCACTAAGTTAGAAAA
14455525 TGCAGTCACTAAGTTA-AAAA
1 TGCA-TCACTAAGTTAGAAAA
14455545 TGC
1 TGC
14455548 TAAAAATGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (20 bp):
TGCATCACTAAGTTAGAAAA
Found at i:14479931 original size:20 final size:21
Alignment explanation
Indices: 14479895--14479944 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 21
14479885 TCATTAAGCT
*
14479895 TTAATT-AATCATTTTTA-ATC
1 TTAATTAAATCATATTTACA-C
14479915 TTAATTAAAT-ATATTTACAC
1 TTAATTAAATCATATTTACAC
14479935 TTAATATAAA
1 TTAAT-TAAA
14479945 CCATGCCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAATTAAATCATATTTACAC
Found at i:14481906 original size:20 final size:21
Alignment explanation
Indices: 14481869--14481907 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14481859 AAACCGAGCA
14481869 TCACTAAGTTAGAAAATGCAG
1 TCACTAAGTTAGAAAATGCAG
14481890 TCACTAAGTTA-AAAATGC
1 TCACTAAGTTAGAAAATGC
14481908 TAAAGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (21 bp):
TCACTAAGTTAGAAAATGCAG
Found at i:14484339 original size:52 final size:52
Alignment explanation
Indices: 14484255--14484441 Score: 268
Period size: 52 Copynumber: 3.6 Consensus size: 52
14484245 TAAATGAAAA
*
14484255 AGGTTCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATG
* *
14484307 AGGTCTGATGATTATGTGTCATCGTGAGTATATGAATCCTTTAC-GAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAG-ATTATG
* * * *
14484359 AGGTCCGATAATTATGTGTCATTGTGAGTATAAGAATCCTTTACAGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATG
* * *
14484411 AGGTCCGGTTACTATATGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
14484442 CAAATGAAAT
Statistics
Matches: 121, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
51 1 0.01
52 119 0.98
53 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATG
Found at i:14486803 original size:12 final size:13
Alignment explanation
Indices: 14486774--14486803 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14486764 TCAACAGTAC
14486774 TTTTTTAAAAGCA
1 TTTTTTAAAAGCA
*
14486787 TTTTTTAAAAGTA
1 TTTTTTAAAAGCA
14486800 TTTT
1 TTTT
14486804 GTCAACCACA
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:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (13 bp):
TTTTTTAAAAGCA
Found at i:14488571 original size:2 final size:2
Alignment explanation
Indices: 14488566--14488594 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14488556 TGCTAATACT
14488566 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14488595 CTGACCCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14496172 original size:12 final size:12
Alignment explanation
Indices: 14496155--14496193 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
14496145 TTAATGCCAT
14496155 TATTTTTGTTGC
1 TATTTTTGTTGC
14496167 TATTTTTGTTG-
1 TATTTTTGTTGC
14496178 --TTTTT-TTGC
1 TATTTTTGTTGC
14496187 TATTTTT
1 TATTTTT
14496194 TTATTGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
8 3 0.12
9 5 0.21
11 5 0.21
12 11 0.46
ACGTcount: A:0.08, C:0.05, G:0.13, T:0.74
Consensus pattern (12 bp):
TATTTTTGTTGC
Found at i:14496180 original size:35 final size:34
Alignment explanation
Indices: 14496123--14496215 Score: 89
Period size: 35 Copynumber: 2.7 Consensus size: 34
14496113 TTGGTTGTTG
* **
14496123 TTTTGGTGCTTTTTTTACTGTTTTAATGCCATTAT
1 TTTTGTTGCTTTTTTTGTTGTTTTAATGCCATT-T
* ** *
14496158 TTTTGTTGCTATTTTTGTTGTTTTTTTGCTATTT
1 TTTTGTTGCTTTTTTTGTTGTTTTAATGCCATTT
*
14496192 TTTTATTG-TTTTTGTTGTTGTTTT
1 TTTTGTTGCTTTTT-TTGTTGTTTT
14496216 GTTGTTATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
33 4 0.08
34 18 0.38
35 26 0.54
ACGTcount: A:0.09, C:0.06, G:0.15, T:0.70
Consensus pattern (34 bp):
TTTTGTTGCTTTTTTTGTTGTTTTAATGCCATTT
Found at i:14496183 original size:11 final size:11
Alignment explanation
Indices: 14496157--14496226 Score: 68
Period size: 11 Copynumber: 6.2 Consensus size: 11
14496147 AATGCCATTA
*
14496157 TTTTTGTTGCTA
1 TTTTTGTTG-TT
14496169 TTTTTGTTGTT
1 TTTTTGTTGTT
* *
14496180 TTTTTGCTATT
1 TTTTTGTTGTT
*
14496191 TTTTTATTGTT
1 TTTTTGTTGTT
14496202 TTTGTTGTTGTT
1 TTT-TTGTTGTT
* *
14496214 TTGTTGTTATT
1 TTTTTGTTGTT
14496225 TT
1 TT
14496227 GATTGTTAGG
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
11 30 0.62
12 18 0.38
ACGTcount: A:0.06, C:0.03, G:0.16, T:0.76
Consensus pattern (11 bp):
TTTTTGTTGTT
Found at i:14496203 original size:20 final size:20
Alignment explanation
Indices: 14496154--14496205 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
14496144 TTTAATGCCA
14496154 TTATTTTTGTTGCTATTTTTG
1 TTATTTTT-TTGCTATTTTTG
*
14496175 TTGTTTTTTTGCTATTTTT-
1 TTATTTTTTTGCTATTTTTG
14496194 TTATTGTTTTTG
1 TTATT-TTTTTG
14496206 TTGTTGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.14
20 17 0.61
21 7 0.25
ACGTcount: A:0.08, C:0.04, G:0.13, T:0.75
Consensus pattern (20 bp):
TTATTTTTTTGCTATTTTTG
Found at i:14496227 original size:11 final size:11
Alignment explanation
Indices: 14496158--14496234 Score: 59
Period size: 11 Copynumber: 7.0 Consensus size: 11
14496148 ATGCCATTAT
*
14496158 TTTTGTTGCTA
1 TTTTGTTGTTA
*
14496169 TTTTTGTTGTTT
1 -TTTTGTTGTTA
* * *
14496181 TTTTGCTATTT
1 TTTTGTTGTTA
*
14496192 TTTTATTG-T-
1 TTTTGTTGTTA
*
14496201 TTTTGTTGTTG
1 TTTTGTTGTTA
14496212 TTTTGTTGTTA
1 TTTTGTTGTTA
14496223 TTTTGATTGTTA
1 TTTTG-TTGTTA
14496235 GGATGTTATT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
9 7 0.13
10 2 0.04
11 29 0.55
12 15 0.28
ACGTcount: A:0.08, C:0.03, G:0.17, T:0.73
Consensus pattern (11 bp):
TTTTGTTGTTA
Found at i:14496912 original size:17 final size:19
Alignment explanation
Indices: 14496878--14496917 Score: 66
Period size: 17 Copynumber: 2.2 Consensus size: 19
14496868 ACGTATTTTA
14496878 TAAAAATATAATATAATAT
1 TAAAAATATAATATAATAT
14496897 TAAAAA-ATAA-ATAATAT
1 TAAAAATATAATATAATAT
14496914 TAAA
1 TAAA
14496918 TACATTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 11 0.52
18 4 0.19
19 6 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAATATAATATAATAT
Found at i:14497212 original size:31 final size:29
Alignment explanation
Indices: 14497167--14497243 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 29
14497157 AAAATTTTAA
*
14497167 TTTAATAATAATAAAA-TTACACTTTAATTTT
1 TTTAAAAATAATAAAATTTA-A-TTTAA-TTT
*
14497198 TTTAAAAATGATAAAAATTTAATTTAATTT
1 TTTAAAAATAAT-AAAATTTAATTTAATTT
*
14497228 TTTAAAAATTATAAAA
1 TTTAAAAATAATAAAA
14497244 ATATAAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 4 0.10
30 14 0.34
31 15 0.37
32 5 0.12
33 3 0.07
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (29 bp):
TTTAAAAATAATAAAATTTAATTTAATTT
Found at i:14497254 original size:29 final size:30
Alignment explanation
Indices: 14497195--14497255 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
14497185 ACACTTTAAT
* *
14497195 TTTTTTAAAAATGATAAAAATTTAATTTAA
1 TTTTTTAAAAATGATAAAAATATAATATAA
*
14497225 TTTTTTAAAAATTATAAAAATATAA-ATAA
1 TTTTTTAAAAATGATAAAAATATAATATAA
14497254 TT
1 TT
14497256 AAAATAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (30 bp):
TTTTTTAAAAATGATAAAAATATAATATAA
Found at i:14497543 original size:18 final size:19
Alignment explanation
Indices: 14497506--14497543 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
14497496 AACAAAAAGC
*
14497506 AATTAATTAATATTCGTAA
1 AATTAATTAATATTCATAA
*
14497525 AATT-ATTAATATTTATAA
1 AATTAATTAATATTCATAA
14497543 A
1 A
14497544 CTTTCATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (19 bp):
AATTAATTAATATTCATAA
Found at i:14498005 original size:21 final size:21
Alignment explanation
Indices: 14497979--14498019 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14497969 AATGCCAACA
* *
14497979 AAACAACATCAAAATGGTAGC
1 AAACAACAACAAAATAGTAGC
14498000 AAACAACAACAAAATAGTAG
1 AAACAACAACAAAATAGTAG
14498020 TAAAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.59, C:0.17, G:0.12, T:0.12
Consensus pattern (21 bp):
AAACAACAACAAAATAGTAGC
Found at i:14498448 original size:7 final size:7
Alignment explanation
Indices: 14498436--14498460 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14498426 ATATTGTAGT
14498436 TTTTAAA
1 TTTTAAA
14498443 TTTTAAA
1 TTTTAAA
14498450 TTTTAAA
1 TTTTAAA
14498457 TTTT
1 TTTT
14498461 CAATCTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTAAA
Found at i:14512589 original size:22 final size:22
Alignment explanation
Indices: 14512564--14512613 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
14512554 TTAAATTGTT
*
14512564 AATTAAGGCTTAGTGTTTTTTA
1 AATTAAGGCTTAGTGTGTTTTA
* * *
14512586 AATTAGGGTTTTGTGTGTTTTA
1 AATTAAGGCTTAGTGTGTTTTA
14512608 AATTAA
1 AATTAA
14512614 AGTTTATGAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (22 bp):
AATTAAGGCTTAGTGTGTTTTA
Found at i:14512618 original size:22 final size:22
Alignment explanation
Indices: 14512576--14512618 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14512566 TTAAGGCTTA
* **
14512576 GTGTTTTTTAAATTAGGGTTTT
1 GTGTGTTTTAAATTAAAGTTTT
14512598 GTGTGTTTTAAATTAAAGTTT
1 GTGTGTTTTAAATTAAAGTTT
14512619 ATGATTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (22 bp):
GTGTGTTTTAAATTAAAGTTTT
Found at i:14512669 original size:41 final size:40
Alignment explanation
Indices: 14512623--14512730 Score: 112
Period size: 43 Copynumber: 2.6 Consensus size: 40
14512613 AAGTTTATGA
*
14512623 TTTTATTTAATTTGTAAGTGTTTAGGT-TTA-GGACTTTAGTG
1 TTTTATTTAATTT-TAAGTGTTTA-CTATTACGG-CTTTAGTG
*
14512664 TTTTATTTAATATTTAAGTGTTTACTAATTATCGGTTTTAGTG
1 TTTTATTTAAT-TTTAAGTGTTTACT-ATTA-CGGCTTTAGTG
*
14512707 TTTTATTTAATTTTTAAGTTTTTA
1 TTTTATTTAA-TTTTAAGTGTTTA
14512731 TTAATTATAG
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
40 1 0.02
41 21 0.36
42 5 0.09
43 28 0.48
44 3 0.05
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.58
Consensus pattern (40 bp):
TTTTATTTAATTTTAAGTGTTTACTATTACGGCTTTAGTG
Found at i:14512715 original size:43 final size:43
Alignment explanation
Indices: 14512657--14512744 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
14512647 GGTTTAGGAC
*
14512657 TTTAGTGTTTTATTTAATATTTAAGTGTTTACTAATTATCGGT
1 TTTAGTGTTTTATTTAATATTTAAGTGTTTACTAATTATAGGT
* * *
14512700 TTTAGTGTTTTATTTAATTTTTAAGTTTTTATTAATTATAGGT
1 TTTAGTGTTTTATTTAATATTTAAGTGTTTACTAATTATAGGT
14512743 TT
1 TT
14512745 AGGAATAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.60
Consensus pattern (43 bp):
TTTAGTGTTTTATTTAATATTTAAGTGTTTACTAATTATAGGT
Found at i:14515382 original size:24 final size:23
Alignment explanation
Indices: 14515334--14515382 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
14515324 CTTGAAAATA
* *
14515334 TTAATAAAAAAATAAAATAGAAT
1 TTAAGAAAAAAATAAAAGAGAAT
*
14515357 TTAAGAAAAAAAGTAAAAGAGTAT
1 TTAAGAAAAAAA-TAAAAGAGAAT
14515381 TT
1 TT
14515383 GAGAGATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (23 bp):
TTAAGAAAAAAATAAAAGAGAAT
Found at i:14519981 original size:47 final size:47
Alignment explanation
Indices: 14519914--14520006 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
14519904 TCTGCATATT
* *
14519914 TGCAAAACTTCTGAAAATGACCATACTACTATTGGATGTATATTGGG
1 TGCAAAACTTATGAAAATGACCATACTACTATTGGACGTATATTGGG
* *
14519961 TGCAAAACTTATGAATATGACCATACTCCTATTGGACGTATATTGG
1 TGCAAAACTTATGAAAATGACCATACTACTATTGGACGTATATTGG
14520007 ATTTGACACT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (47 bp):
TGCAAAACTTATGAAAATGACCATACTACTATTGGACGTATATTGGG
Found at i:14540323 original size:36 final size:36
Alignment explanation
Indices: 14540237--14540325 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 36
14540227 TGATGACTGT
* *
14540237 TGTGAAAGTGAATATATGAGTATGTTATTCATGTCA
1 TGTGAAAGTGAATATATGAGTATGATATTCATGCCA
* * * * *
14540273 TGAGATAGTAAATATGTGGGTATGATATTCATGCCA
1 TGTGAAAGTGAATATATGAGTATGATATTCATGCCA
*
14540309 TGTGACAGTGAATATAT
1 TGTGAAAGTGAATATAT
14540326 TGTGCTAATG
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.36
Consensus pattern (36 bp):
TGTGAAAGTGAATATATGAGTATGATATTCATGCCA
Found at i:14544489 original size:9 final size:9
Alignment explanation
Indices: 14544460--14544496 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
14544450 CAGCAAATTA
14544460 TTCTTCTTT
1 TTCTTCTTT
14544469 TTCTT-TTCT
1 TTCTTCTT-T
14544478 TTCTTCTTT
1 TTCTTCTTT
14544487 TTC-TCTTT
1 TTCTTCTTT
14544495 TT
1 TT
14544497 TGTTTTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 9 0.35
9 15 0.58
10 2 0.08
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (9 bp):
TTCTTCTTT
Found at i:14546385 original size:45 final size:45
Alignment explanation
Indices: 14546321--14546412 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
14546311 AAGAAGGATA
14546321 TCAGTTTGCTTTCCTGCAGCATCTGCAATCTAGACGTGTATGAGC
1 TCAGTTTGCTTTCCTGCAGCATCTGCAATCTAGACGTGTATGAGC
*
14546366 TCAGTTTGCTTTCTTGCAGCATCTGCAATCTAGACGTGTATGAGC
1 TCAGTTTGCTTTCCTGCAGCATCTGCAATCTAGACGTGTATGAGC
14546411 TC
1 TC
14546413 TCCGATGTCG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (45 bp):
TCAGTTTGCTTTCCTGCAGCATCTGCAATCTAGACGTGTATGAGC
Found at i:14557575 original size:13 final size:13
Alignment explanation
Indices: 14557559--14557603 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
14557549 AAAGTCAATT
14557559 GTCAAGGTCAACG
1 GTCAAGGTCAACG
*
14557572 GTCAAAGTCAACG
1 GTCAAGGTCAACG
* *
14557585 GTCAATGGTGAGCG
1 GTCAA-GGTCAACG
14557599 GTCAA
1 GTCAA
14557604 TGTGTCGGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.31, C:0.20, G:0.31, T:0.18
Consensus pattern (13 bp):
GTCAAGGTCAACG
Found at i:14557588 original size:26 final size:27
Alignment explanation
Indices: 14557549--14557603 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
14557539 AGTTGGTAAA
**
14557549 AAAGTCAATTGTCAA-GGTCAACGGTC
1 AAAGTCAACGGTCAATGGTCAACGGTC
* *
14557575 AAAGTCAACGGTCAATGGTGAGCGGTC
1 AAAGTCAACGGTCAATGGTCAACGGTC
14557602 AA
1 AA
14557604 TGTGTCGGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (27 bp):
AAAGTCAACGGTCAATGGTCAACGGTC
Found at i:14565971 original size:33 final size:33
Alignment explanation
Indices: 14565929--14565991 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
14565919 AGAGGAGAAT
14565929 GATCAAATAACAAAAAGGCCAAATTGATAGGGG
1 GATCAAATAACAAAAAGGCCAAATTGATAGGGG
* *
14565962 GATCAAATAACATAAAGGTCAAATTGATAG
1 GATCAAATAACAAAAAGGCCAAATTGATAG
14565992 AGGATTGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.49, C:0.11, G:0.21, T:0.19
Consensus pattern (33 bp):
GATCAAATAACAAAAAGGCCAAATTGATAGGGG
Found at i:14566298 original size:45 final size:45
Alignment explanation
Indices: 14566234--14566327 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
14566224 AACATTATAG
14566234 TTGGCCAAGTTTGGGGCAAAACTATTAGTACATAAACCCTGTGTA
1 TTGGCCAAGTTTGGGGCAAAACTATTAGTACATAAACCCTGTGTA
14566279 TTGGCCAAGTTTGGGGCAAAACTATTAGTACATAAACCCTGTGTA
1 TTGGCCAAGTTTGGGGCAAAACTATTAGTACATAAACCCTGTGTA
14566324 TTGG
1 TTGG
14566328 TACCTTGCCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (45 bp):
TTGGCCAAGTTTGGGGCAAAACTATTAGTACATAAACCCTGTGTA
Found at i:14567669 original size:17 final size:17
Alignment explanation
Indices: 14567649--14567692 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
14567639 TTGGCGGATA
*
14567649 AGTATCGCCTGATGGAC
1 AGTATCGCCTGATGAAC
* * *
14567666 AGTATCGCTTGGTGAAT
1 AGTATCGCCTGATGAAC
14567683 AGTATCGCCT
1 AGTATCGCCT
14567693 AGCGAATACG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (17 bp):
AGTATCGCCTGATGAAC
Found at i:14573643 original size:25 final size:25
Alignment explanation
Indices: 14573608--14573698 Score: 103
Period size: 25 Copynumber: 3.6 Consensus size: 25
14573598 CAAATTAACG
* * *
14573608 CTCTTATGAGCTAGAAAGAATATCT
1 CTCTTACGAGCCAGAAAGATTATCT
* *
14573633 CTCTTACGAGCTAGACAGATTAT-T
1 CTCTTACGAGCCAGAAAGATTATCT
* *
14573657 GCTCTTACGAGCCAGATAGATTATCG
1 -CTCTTACGAGCCAGAAAGATTATCT
14573683 CTCTTACGAGCCAGAA
1 CTCTTACGAGCCAGAA
14573699 TTCAGAACAT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
24 1 0.02
25 56 0.98
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (25 bp):
CTCTTACGAGCCAGAAAGATTATCT
Found at i:14582282 original size:13 final size:12
Alignment explanation
Indices: 14582264--14582296 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
14582254 GCACAAATAG
*
14582264 AAAAAAACGGAC
1 AAAAAAAAGGAC
14582276 AAAAAAAAGGAC
1 AAAAAAAAGGAC
14582288 AAAAAAAAG
1 AAAAAAAAG
14582297 AAAGTGCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.76, C:0.09, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGGAC
Found at i:14582365 original size:16 final size:17
Alignment explanation
Indices: 14582344--14582382 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
14582334 AAAAAGTAAT
*
14582344 ATAAAAGCAAATAAAA-
1 ATAAAAACAAATAAAAC
*
14582360 ATAAAAATAAATAAAAC
1 ATAAAAACAAATAAAAC
14582377 ATAAAA
1 ATAAAA
14582383 CTAAATGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (17 bp):
ATAAAAACAAATAAAAC
Found at i:14582380 original size:17 final size:16
Alignment explanation
Indices: 14582352--14582388 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
14582342 ATATAAAAGC
14582352 AAATAAAAATAAAAAT
1 AAATAAAAATAAAAAT
*
14582368 AAATAAAACATAAAACT
1 AAATAAAA-ATAAAAAT
14582385 AAAT
1 AAAT
14582389 GAAATCACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:14583431 original size:32 final size:32
Alignment explanation
Indices: 14583395--14583489 Score: 136
Period size: 32 Copynumber: 3.0 Consensus size: 32
14583385 GCTATCCATA
* *
14583395 CATGTACCTGAAATATATTAATCAGCTAATTG
1 CATGTACCTGAAACACATTAATCAGCTAATTG
* *
14583427 CATGTAACTGAAACACATTAATTAGCTAATTG
1 CATGTACCTGAAACACATTAATCAGCTAATTG
* *
14583459 CACGTACTTGAAACACATTAATCAGCTAATT
1 CATGTACCTGAAACACATTAATCAGCTAATT
14583490 AATTTCGGCT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.32
Consensus pattern (32 bp):
CATGTACCTGAAACACATTAATCAGCTAATTG
Found at i:14586753 original size:13 final size:14
Alignment explanation
Indices: 14586719--14586757 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
14586709 TATCTCCTTT
*
14586719 TCTTCCTTTTCATC
1 TCTTTCTTTTCATC
*
14586733 TTTTTCTTTTC-TC
1 TCTTTCTTTTCATC
14586746 TCTTTCTTTTCA
1 TCTTTCTTTTCA
14586758 CTTTCTTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (14 bp):
TCTTTCTTTTCATC
Found at i:14588860 original size:22 final size:23
Alignment explanation
Indices: 14588818--14588861 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
14588808 TAGCTTTTTA
14588818 TTTTTTTTATACTTTCGAAACTC
1 TTTTTTTTATACTTTCGAAACTC
14588841 TTTTTTTTAATA-TTTC-AAACT
1 TTTTTTTT-ATACTTTCGAAACT
14588862 TTGCACTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 12 0.60
24 3 0.15
ACGTcount: A:0.25, C:0.14, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTTTTTATACTTTCGAAACTC
Done.