Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 73 of 109
Found at i:14548403 original size:22 final size:22
Alignment explanation
Indices: 14548369--14548412 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
14548359 TATTAAAAAT
14548369 ATTTATTTAATAAATATTTTAAA
1 ATTTATTTAAT-AATATTTTAAA
*
14548392 ATTTA-TTAATAATTTTTTAAA
1 ATTTATTTAATAATATTTTAAA
14548413 TTTTGCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 5 0.25
23 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTATTTAATAATATTTTAAA
Found at i:14548473 original size:13 final size:13
Alignment explanation
Indices: 14548455--14548481 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14548445 TTAATCTATC
14548455 AATTTTAATTTTT
1 AATTTTAATTTTT
14548468 AATTTTAATTTTT
1 AATTTTAATTTTT
14548481 A
1 A
14548482 TTAACTCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
AATTTTAATTTTT
Found at i:14553012 original size:2 final size:2
Alignment explanation
Indices: 14553005--14553029 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14552995 TTTTGTGATT
14553005 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 T
14553030 TGATTTATGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14554643 original size:26 final size:26
Alignment explanation
Indices: 14554592--14554643 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
14554582 AGTTTTTATT
** *
14554592 GCATGAATATTCGTTTGAATCTTTGA
1 GCATGAATATGAGTTTGAATATTTGA
14554618 GCATGAATATGAG-TTGAATATATTGA
1 GCATGAATATGAGTTTGAATAT-TTGA
14554644 TTTCTTGATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (26 bp):
GCATGAATATGAGTTTGAATATTTGA
Found at i:14557704 original size:17 final size:16
Alignment explanation
Indices: 14557673--14557707 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
14557663 TCCCTATCTC
*
14557673 TTTATTTTTATTATAG
1 TTTATTTTGATTATAG
14557689 TTTATATTTGATTATAG
1 TTTAT-TTTGATTATAG
14557706 TT
1 TT
14557708 CATCAATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (16 bp):
TTTATTTTGATTATAG
Found at i:14558023 original size:11 final size:11
Alignment explanation
Indices: 14558007--14558035 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
14557997 TTGAAAAAGA
14558007 TAAATTAGTTT
1 TAAATTAGTTT
14558018 TAAATTAGTTT
1 TAAATTAGTTT
14558029 TAAATTA
1 TAAATTA
14558036 AAATAAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (11 bp):
TAAATTAGTTT
Found at i:14571555 original size:96 final size:98
Alignment explanation
Indices: 14571374--14571556 Score: 235
Period size: 96 Copynumber: 1.9 Consensus size: 98
14571364 AAAAACATGA
* * * *
14571374 AAGGCAATGTACAAACATACAAAGCCAAGCTAGTTGCAAAAAGAATATAATATAAAATAAAGAGT
1 AAGGCAATGTACAAACATACAAAGCCAAGCTAGTTACAAAAAGAATATAACAAAAAACAAAGAGT
*
14571439 TGATTTTGATAAAACCTTTTCAAATCGATATGG
66 TGATTTTGATAAAACATTTTCAAATCGATATGG
* * * * * *
14571472 AAGGTAATGTACAAACATACAAAGCTAGGCTTGTTAC-AAAGGGATA-AACAAAAAACAAAGAGT
1 AAGGCAATGTACAAACATACAAAGCCAAGCTAGTTACAAAAAGAATATAACAAAAAACAAAGAGT
* *
14571535 TGATTTTGATGAAATATTTTCA
66 TGATTTTGATAAAACATTTTCA
14571557 CCTGTAACCA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
96 33 0.46
97 7 0.10
98 32 0.44
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.26
Consensus pattern (98 bp):
AAGGCAATGTACAAACATACAAAGCCAAGCTAGTTACAAAAAGAATATAACAAAAAACAAAGAGT
TGATTTTGATAAAACATTTTCAAATCGATATGG
Found at i:14580085 original size:21 final size:21
Alignment explanation
Indices: 14580035--14580094 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
14580025 CATCTAACTC
14580035 GGATTGATCTTCATTCAATAA
1 GGATTGATCTTCATTCAATAA
* *
14580056 GGGTTGATCTTCATTCAATCA
1 GGATTGATCTTCATTCAATAA
*
14580077 GGATCGATCCTT-ATTCAA
1 GGATTGAT-CTTCATTCAA
14580095 ATGGGATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 31 0.91
22 3 0.09
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (21 bp):
GGATTGATCTTCATTCAATAA
Found at i:14593571 original size:17 final size:16
Alignment explanation
Indices: 14593551--14593590 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
14593541 GATCTATAAT
14593551 TTAAATATTAAAAAATA
1 TTAAATATT-AAAAATA
14593568 TTAAAATATTAAAAATA
1 TT-AAATATTAAAAATA
14593585 -TAAATA
1 TTAAATA
14593591 ATTTAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.23
16 1 0.05
17 9 0.41
18 7 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAATATTAAAAATA
Found at i:14593596 original size:17 final size:17
Alignment explanation
Indices: 14593552--14593598 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
14593542 ATCTATAATT
*
14593552 TAAAT-ATTAAAAAATA
1 TAAATAATTTAAAAATA
*
14593568 TTAA-AATATTAAAAATA
1 TAAATAAT-TTAAAAATA
14593585 TAAATAATTTAAAA
1 TAAATAATTTAAAA
14593599 GAGAATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 5 0.20
17 17 0.68
18 3 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAATAATTTAAAAATA
Found at i:14594072 original size:47 final size:45
Alignment explanation
Indices: 14593933--14594074 Score: 123
Period size: 47 Copynumber: 3.1 Consensus size: 45
14593923 AAAAATTTTT
* *
14593933 AAAAAA-ATTATTTTCATTCAATATTTAGTAGAGTTAAAAAAAGA
1 AAAAAATATTATTTTCATTCATTATTTAGTAGAGTTAAAAAATGA
* ** *
14593977 AAAAAATATGATTTT-ATCTCATATAATTTA--AGA-AAAAAAAATCTA
1 AAAAAATATTATTTTCAT-TCAT-T-ATTTAGTAGAGTTAAAAAAT-GA
* *
14594022 AAAATGATTTTTATTTTCATTCATTATTTAGTAGAGTTAAAAAATGA
1 AAAA--AATATTATTTTCATTCATTATTTAGTAGAGTTAAAAAATGA
14594069 AAAAAA
1 AAAAAA
14594075 AAAGAAAATT
Statistics
Matches: 74, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
44 14 0.19
45 24 0.32
46 2 0.03
47 25 0.34
48 9 0.12
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (45 bp):
AAAAAATATTATTTTCATTCATTATTTAGTAGAGTTAAAAAATGA
Found at i:14595730 original size:14 final size:15
Alignment explanation
Indices: 14595703--14595732 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
14595693 AAATTTAAGG
14595703 AGGTCTTGGATCTTC
1 AGGTCTTGGATCTTC
14595718 AGGTCTT-GATCTTC
1 AGGTCTTGGATCTTC
14595732 A
1 A
14595733 AATTTCTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (15 bp):
AGGTCTTGGATCTTC
Found at i:14595888 original size:37 final size:37
Alignment explanation
Indices: 14595847--14595919 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 37
14595837 TTTACCCTCT
14595847 AAGAATTATCTTCTTGA-TTTCAAGATCTTCATTCTCC
1 AAGAATTATCTTCTTGACTTTC-AGATCTTCATTCTCC
*
14595884 AAGAATTATCTTGTTGATCTTTCAGATCTTCATTCT
1 AAGAATTATCTTCTTGA-CTTTCAGATCTTCATTCT
14595920 TGAAGCTGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 16 0.48
38 13 0.39
39 4 0.12
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (37 bp):
AAGAATTATCTTCTTGACTTTCAGATCTTCATTCTCC
Found at i:14598979 original size:101 final size:101
Alignment explanation
Indices: 14598865--14599061 Score: 277
Period size: 101 Copynumber: 2.0 Consensus size: 101
14598855 AAATACCACC
* * *
14598865 AAAGCAATAGTATTTTTCTTATAAAAATGTCACTAAATTAGTAACGTCTCAAAAATACAAACATC
1 AAAGCAATAGTATTTTTCTCATAAAAATGTCACTAAATTAGCAACATCTCAAAAATACAAACATC
* *
14598930 GCTAATATAGCGACGTTTTTAGATACAAACATCACT
66 GCTAATATAGCGACATTTTCAGATACAAACATCACT
* *** * *
14598966 AAAGCAATGGTATTTTTCTCATAAAAATGTCACTAAATTAGCGGTATCTCAAAGATACAAACGTC
1 AAAGCAATAGTATTTTTCTCATAAAAATGTCACTAAATTAGCAACATCTCAAAAATACAAACATC
* *
14599031 GTTAATATAGCGACATTTTCATATACAAACA
66 GCTAATATAGCGACATTTTCAGATACAAACA
14599062 CTGTTAATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 83 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (101 bp):
AAAGCAATAGTATTTTTCTCATAAAAATGTCACTAAATTAGCAACATCTCAAAAATACAAACATC
GCTAATATAGCGACATTTTCAGATACAAACATCACT
Found at i:14600698 original size:7 final size:7
Alignment explanation
Indices: 14600686--14600710 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14600676 TTGGATATTG
14600686 AAAATAA
1 AAAATAA
14600693 AAAATAA
1 AAAATAA
14600700 AAAATAA
1 AAAATAA
14600707 AAAA
1 AAAA
14600711 CAAATTAGGT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:14601447 original size:15 final size:14
Alignment explanation
Indices: 14601427--14601456 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
14601417 ACCAATGCAT
14601427 ACAAAAAAAAACAAA
1 ACAAAAAAAAA-AAA
14601442 ACAAAAAAAAAAAA
1 ACAAAAAAAAAAAA
14601456 A
1 A
14601457 GAGACAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (14 bp):
ACAAAAAAAAAAAA
Found at i:14603243 original size:13 final size:13
Alignment explanation
Indices: 14603227--14603274 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
14603217 TCGAATTTTT
14603227 TATTTTTAATATA
1 TATTTTTAATATA
*
14603240 TATTTTTAATATTT
1 TATTTTTAATA-TA
* *
14603254 TATTATTAATTTA
1 TATTTTTAATATA
*
14603267 TTTTTTTA
1 TATTTTTA
14603275 CCCTTAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTTTTAATATA
Found at i:14615897 original size:24 final size:24
Alignment explanation
Indices: 14615869--14615922 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
14615859 TACTCAAGTA
14615869 AAAATTTTGTTACTA-AATC-AAAT
1 AAAATTTT-TTACTATAATCTAAAT
* *
14615892 ATAAATGTTTTATTATAATCTAAAT
1 A-AAATTTTTTACTATAATCTAAAT
14615917 AAAATT
1 AAAATT
14615923 GTGAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (24 bp):
AAAATTTTTTACTATAATCTAAAT
Found at i:14617265 original size:22 final size:23
Alignment explanation
Indices: 14617240--14617291 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
14617230 TTATTACCTT
*
14617240 ATTTTTTTTA-TT-ATTATTTAAA
1 ATTTTTTTTATTTGAATA-TTAAA
*
14617262 A-TTTTATTATTTGAATATTAAA
1 ATTTTTTTTATTTGAATATTAAA
14617284 ATTTTTTT
1 ATTTTTTT
14617292 AAATTATTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 7 0.29
22 9 0.38
23 8 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
ATTTTTTTTATTTGAATATTAAA
Found at i:14617449 original size:19 final size:19
Alignment explanation
Indices: 14617425--14617462 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14617415 GATATGATTC
14617425 CTTTATATAAACACTTATG
1 CTTTATATAAACACTTATG
14617444 CTTTATATAAACACTTATG
1 CTTTATATAAACACTTATG
14617463 GTATGATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (19 bp):
CTTTATATAAACACTTATG
Found at i:14618023 original size:24 final size:22
Alignment explanation
Indices: 14617980--14618027 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
14617970 TTATGATTTC
14617980 ATTTTTATTAAATTTTTTTTTT
1 ATTTTTATTAAATTTTTTTTTT
14618002 ATTTTT-TTAATATTATTATTTTTT
1 ATTTTTATTAA-ATT-TT-TTTTTT
14618026 AT
1 AT
14618028 GCTTGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 9 0.39
23 2 0.09
24 8 0.35
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (22 bp):
ATTTTTATTAAATTTTTTTTTT
Found at i:14618157 original size:18 final size:19
Alignment explanation
Indices: 14618122--14618158 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14618112 CACTTGTTAT
*
14618122 TTTTTTTTATTTTATCATA
1 TTTTATTTATTTTATCATA
14618141 TTTTATTTATTTT-TCATA
1 TTTTATTTATTTTATCATA
14618159 ATTGTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTATTTATTTTATCATA
Found at i:14618450 original size:26 final size:26
Alignment explanation
Indices: 14618377--14618465 Score: 63
Period size: 29 Copynumber: 3.2 Consensus size: 26
14618367 AAAAGAAAAT
*
14618377 AAAAATAATAGAAAAATAAGAAATTAAAT
1 AAAAA-AATA-AAAAATAA-AAATTAAAC
** * *
14618406 AATAAAAATAAATGA-AAAAATTGAGC
1 AA-AAAAATAAAAAATAAAAATTAAAC
14618432 AAAAAAATAAAAAATAAAAAAATTATAAC
1 AAAAAAATAAAAAAT--AAAAATTA-AAC
14618461 AAAAA
1 AAAAA
14618466 TACGTAAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
25 10 0.22
26 8 0.17
27 2 0.04
28 10 0.22
29 13 0.28
30 3 0.07
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (26 bp):
AAAAAAATAAAAAATAAAAATTAAAC
Found at i:14619985 original size:28 final size:28
Alignment explanation
Indices: 14619926--14619987 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
14619916 AAAATAAATC
* *
14619926 AAAACTAAAGCATAGGTATCACTATTAA
1 AAAACTAAAGCATAGGTACCACTATAAA
14619954 AAAACTAAAGCATAGGTACCACTA-AAA
1 AAAACTAAAGCATAGGTACCACTATAAA
14619981 GAAAACT
1 -AAAACT
14619988 CGAATATCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.19
Consensus pattern (28 bp):
AAAACTAAAGCATAGGTACCACTATAAA
Found at i:14620583 original size:38 final size:37
Alignment explanation
Indices: 14620532--14620615 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 37
14620522 ATGATGTAAA
*
14620532 TGTCTTCTTTTAAAAAGATAATGCAAATAAAATACAAG
1 TGTCTT-TTTTAAAAAGATAATACAAATAAAATACAAG
* * * *
14620570 TGTCTTTTCTTAAAATGATTATACAAATAAAATGCAAT
1 TGTCTTTT-TTAAAAAGATAATACAAATAAAATACAAG
14620608 TGTCTTTT
1 TGTCTTTT
14620616 ACAAAAATGC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 2 0.05
38 38 0.95
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (37 bp):
TGTCTTTTTTAAAAAGATAATACAAATAAAATACAAG
Found at i:14620762 original size:17 final size:17
Alignment explanation
Indices: 14620726--14620764 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
14620716 AAACCAAGTC
*
14620726 AAAATATACAACTGCCT
1 AAAATATACAACTACCT
* *
14620743 AAAATATGCAACTACTT
1 AAAATATACAACTACCT
14620760 AAAAT
1 AAAAT
14620765 CTTCTTTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.26
Consensus pattern (17 bp):
AAAATATACAACTACCT
Found at i:14627706 original size:21 final size:21
Alignment explanation
Indices: 14627680--14627736 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
14627670 TCCATAATAG
14627680 TTTCTTCCCTTTTCTTTTTAC
1 TTTCTTCCCTTTTCTTTTTAC
* *
14627701 TTTCTTGCCTCTTT-TTTTTCC
1 TTTCTTCCCT-TTTCTTTTTAC
* *
14627722 TTTTTTCCTTTTTCT
1 TTTCTTCCCTTTTCT
14627737 CCTTTTTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 3 0.10
21 23 0.79
22 3 0.10
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTCTTCCCTTTTCTTTTTAC
Found at i:14627727 original size:8 final size:8
Alignment explanation
Indices: 14627714--14627745 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
14627704 CTTGCCTCTT
14627714 TTTTTTCC
1 TTTTTTCC
14627722 TTTTTTCC
1 TTTTTTCC
14627730 TTTTTCTCC
1 TTTTT-TCC
14627739 TTTTTTC
1 TTTTTTC
14627746 TTAACTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTCC
Found at i:14627733 original size:17 final size:17
Alignment explanation
Indices: 14627713--14627745 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14627703 TCTTGCCTCT
*
14627713 TTTTTTTCCTTTTTTCC
1 TTTTTCTCCTTTTTTCC
14627730 TTTTTCTCCTTTTTTC
1 TTTTTCTCCTTTTTTC
14627746 TTAACTAATT
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCTCCTTTTTTCC
Found at i:14627769 original size:3 final size:3
Alignment explanation
Indices: 14627761--14627791 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
14627751 TAATTAATGG
14627761 AAT AAT AAT AAT AAT AAT AAT ATAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
14627792 TATACTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:14629250 original size:21 final size:21
Alignment explanation
Indices: 14629221--14629284 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
14629211 GCTACTACAG
*
14629221 GTAGGGGATCAAAAGCTGCTA
1 GTAGAGGATCAAAAGCTGCTA
* *
14629242 GTAGAGGATTAAAAGTTGCT-
1 GTAGAGGATCAAAAGCTGCTA
* * *
14629262 GAAAAAGGATCAAGAGCTGCTA
1 G-TAGAGGATCAAAAGCTGCTA
14629284 G
1 G
14629285 GAGGGGATTA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.31, T:0.20
Consensus pattern (21 bp):
GTAGAGGATCAAAAGCTGCTA
Found at i:14631698 original size:21 final size:20
Alignment explanation
Indices: 14631658--14631698 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
14631648 TCTCTTTCTC
* *
14631658 TCTTGATTTTTTTTATTAAT
1 TCTTGATTTTTCTAATTAAT
14631678 TCTTGATTATTTCTAATTAAT
1 TCTTGATT-TTTCTAATTAAT
14631699 CCTAATAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.63
Consensus pattern (20 bp):
TCTTGATTTTTCTAATTAAT
Found at i:14633415 original size:25 final size:24
Alignment explanation
Indices: 14633385--14633439 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
14633375 ATATGTTGTT
14633385 ATTTTAATTT-TTTTATTATTTTTAA
1 ATTTTAATTTGTTTT-TTA-TTTTAA
*
14633410 ATTTTAGTTTGTTTTTTATTTTAA
1 ATTTTAATTTGTTTTTTATTTTAA
*
14633434 TTTTTA
1 ATTTTA
14633440 TTTCAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 11 0.41
25 12 0.44
26 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (24 bp):
ATTTTAATTTGTTTTTTATTTTAA
Found at i:14637378 original size:12 final size:12
Alignment explanation
Indices: 14637344--14637380 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14637334 ATTAATCATT
14637344 AAAATCATTTAA
1 AAAATCATTTAA
14637356 AAAA-C-TATTAA
1 AAAATCAT-TTAA
14637367 AAAATCATTTAA
1 AAAATCATTTAA
14637379 AA
1 AA
14637381 TAAGATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
10 1 0.05
11 9 0.41
12 11 0.50
13 1 0.05
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATCATTTAA
Found at i:14637388 original size:23 final size:23
Alignment explanation
Indices: 14637344--14637390 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
14637334 ATTAATCATT
*
14637344 AAAATCATTTAAAAAACTATTAA
1 AAAATCATTTAAAAAACGATTAA
14637367 AAAATCATTTAAAATAA-GATTAA
1 AAAATCATTTAAAA-AACGATTAA
14637390 A
1 A
14637391 TTCAAGCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAATCATTTAAAAAACGATTAA
Found at i:14639171 original size:125 final size:125
Alignment explanation
Indices: 14638916--14639166 Score: 303
Period size: 125 Copynumber: 2.0 Consensus size: 125
14638906 TAGCCCTCAT
* * * * * * *
14638916 AAAAATTGAAAGAGATTATTGAAGGCGTTTTTTGTTAGAAATACCTCGAATAATCCTATTCAACT
1 AAAAATTAAAAGAGATTATTGAAGGCGTTTTTTATCAGAAACACCTAGAATAACCCCATTCAACT
* * * ** * * *
14638981 TTTTGTAAGAAATTATTTAAGGCATTTTCTGGGCACAAATGCTTTGAATAATTCTCAATA
66 TTTTGTAAGAAATTATTCAAGGCAGTTTATGACCAAAAACGCTTTGAATAATTCTCAAAA
* * *
14639041 AAAAATTAAAAGGGATTATTTAAGGTGTTTTTTATCAGAAACACCTAGAATAACCCCATTCAA-T
1 AAAAATTAAAAGAGATTATTGAAGGCGTTTTTTATCAGAAACACCTAGAATAACCCCATTCAACT
*
14639105 TTTT-TAAGAGATTATTCAAGGC-GTTTATGACCAAAAACGCTTTGAATAA-TCTCAAAA
66 TTTTGTAAGAAATTATTCAAGGCAGTTTATGACCAAAAACGCTTTGAATAATTCTCAAAA
14639162 AAAAA
1 AAAAA
14639167 AAAATGACAG
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
121 12 0.11
122 21 0.20
123 16 0.15
124 5 0.05
125 53 0.50
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (125 bp):
AAAAATTAAAAGAGATTATTGAAGGCGTTTTTTATCAGAAACACCTAGAATAACCCCATTCAACT
TTTTGTAAGAAATTATTCAAGGCAGTTTATGACCAAAAACGCTTTGAATAATTCTCAAAA
Found at i:14639183 original size:125 final size:125
Alignment explanation
Indices: 14638924--14639200 Score: 292
Period size: 125 Copynumber: 2.2 Consensus size: 125
14638914 ATAAAAATTG
* * * * * * * *
14638924 AAAGAGATTATTGAAGGCGTTTTTTGTTAGAAATACCTCGAATAATCCTATTCAACTTTTTGTAA
1 AAAGAGATTATTTAAGGTGTTTTTTATCAGAAACACCTAGAATAACCCCATTCAACTTTTTGTAA
* * * ** * * * **
14638989 GAAATTATTTAAGGCATTTTCTGGGCACAAATGCTTTGAATAATTCTCAATAAAAAATTA
66 GAAATTATTCAAGGCAGTTTATGACCAAAAACGCTTTGAATAATTCTCAAAAAAAAAAAA
*
14639049 AAAGGGATTATTTAAGGTGTTTTTTATCAGAAACACCTAGAATAACCCCATTCAA-TTTTT-TAA
1 AAAGAGATTATTTAAGGTGTTTTTTATCAGAAACACCTAGAATAACCCCATTCAACTTTTTGTAA
*
14639112 GAGATTATTCAAGGC-GTTTATGACCAAAAACGCTTTGAATAA-TCTCAAAAAAAAAAAA
66 GAAATTATTCAAGGCAGTTTATGACCAAAAACGCTTTGAATAATTCTCAAAAAAAAAAAA
* *
14639170 ATGACAGAAGATTATTTAAGATATTTTTTAT
1 A--A-AG-AGATTATTTAAGGTGTTTTTTAT
14639201 TATGTTTGAT
Statistics
Matches: 125, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
121 14 0.11
122 21 0.17
123 17 0.14
124 7 0.06
125 66 0.53
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (125 bp):
AAAGAGATTATTTAAGGTGTTTTTTATCAGAAACACCTAGAATAACCCCATTCAACTTTTTGTAA
GAAATTATTCAAGGCAGTTTATGACCAAAAACGCTTTGAATAATTCTCAAAAAAAAAAAA
Found at i:14640433 original size:15 final size:14
Alignment explanation
Indices: 14640411--14640455 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
14640401 TTTTTATATA
14640411 TTTAAAATATATTT
1 TTTAAAATATATTT
**
14640425 TTATAAAATATTATAA
1 TT-TAAAATA-TATTT
14640441 TTTAAAATATATTT
1 TTTAAAATATATTT
14640455 T
1 T
14640456 AATTTTTACT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 6 0.24
15 14 0.56
16 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTAAAATATATTT
Found at i:14640452 original size:17 final size:17
Alignment explanation
Indices: 14640404--14640460 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
14640394 AAATTGATTT
14640404 TTATATATTTAAAATATA
1 TTATA-ATTTAAAATATA
14640422 -T-T--TTTATAAA-ATA
1 TTATAATTTA-AAATATA
14640435 TTATAATTTAAAATATA
1 TTATAATTTAAAATATA
*
14640452 TTTTAATTT
1 TTATAATTT
14640461 TTACTATGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 13
0.70 0.02 0.28
Matches are distributed among these distances:
13 7 0.22
14 4 0.12
15 1 0.03
16 4 0.12
17 16 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATAATTTAAAATATA
Found at i:14641451 original size:3 final size:3
Alignment explanation
Indices: 14641445--14641485 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
14641435 TTAAAGATAA
* *
14641445 AAC AAC AAC AAT AAC AAC AAC AAC AAC AAT AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
14641486 TAATAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.27, G:0.00, T:0.05
Consensus pattern (3 bp):
AAC
Found at i:14641490 original size:3 final size:3
Alignment explanation
Indices: 14641484--14641512 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14641474 TAACAACAAC
14641484 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14641513 GAAAATCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14641546 original size:23 final size:23
Alignment explanation
Indices: 14641514--14641563 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
14641504 TAATAATAAG
* *
14641514 AAAATCTAAAAATAAAAT-AAATA
1 AAAATATAAAAA-AAAATGAAAAA
*
14641537 AAAATATAAACAAAAATGAAAAA
1 AAAATATAAAAAAAAATGAAAAA
14641560 AAAA
1 AAAA
14641564 AAGAAACCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (23 bp):
AAAATATAAAAAAAAATGAAAAA
Found at i:14642715 original size:32 final size:33
Alignment explanation
Indices: 14642679--14642772 Score: 95
Period size: 32 Copynumber: 2.9 Consensus size: 33
14642669 CACATATCAT
14642679 TTTAAAAAATTAAGTAAAAATTTTTATAT-AGG
1 TTTAAAAAATTAAGTAAAAATTTTTATATCAGG
* * * * *
14642711 TTTAAGAAATTAAATAAAAA-CTCTATATCATG
1 TTTAAAAAATTAAGTAAAAATTTTTATATCAGG
* * *
14642743 -TTAAAATATTATGTAAAAATTTTTAGATCA
1 TTTAAAAAATTAAGTAAAAATTTTTATATCA
14642773 TTTTCAAAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
31 21 0.44
32 27 0.56
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.39
Consensus pattern (33 bp):
TTTAAAAAATTAAGTAAAAATTTTTATATCAGG
Found at i:14643838 original size:21 final size:21
Alignment explanation
Indices: 14643813--14643853 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
14643803 ACTTGTAGTA
*
14643813 AGATTAATTATTATAATAATG
1 AGATTAATTATGATAATAATG
14643834 AGATTAATTATGATAATAAT
1 AGATTAATTATGATAATAAT
14643854 AAAATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (21 bp):
AGATTAATTATGATAATAATG
Found at i:14643860 original size:21 final size:21
Alignment explanation
Indices: 14643815--14643861 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14643805 TTGTAGTAAG
* * *
14643815 ATTAATTATTATAATAATGAG
1 ATTAATTATGATAATAATAAA
14643836 ATTAATTATGATAATAATAAA
1 ATTAATTATGATAATAATAAA
14643857 ATTAA
1 ATTAA
14643862 AATTAATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (21 bp):
ATTAATTATGATAATAATAAA
Found at i:14643888 original size:24 final size:23
Alignment explanation
Indices: 14643818--14643877 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 23
14643808 TAGTAAGATT
* * *
14643818 AATTATTATAATAATGAGATT--
1 AATTATGATAATAATAAAATTAA
14643839 AATTATGATAATAATAAAATTAA
1 AATTATGATAATAATAAAATTAA
14643862 AATTAATGATAA-AATA
1 AATT-ATGATAATAATA
14643878 TATATTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 18 0.55
23 8 0.24
24 7 0.21
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTATGATAATAATAAAATTAA
Found at i:14644003 original size:19 final size:18
Alignment explanation
Indices: 14643975--14644049 Score: 71
Period size: 19 Copynumber: 4.1 Consensus size: 18
14643965 TTATATAATG
*
14643975 AAATTTATAACATGTATTA
1 AAATTAATAACAT-TATTA
*
14643994 AAATTAATAA-ATAATTA
1 AAATTAATAACATTATTA
*
14644011 AAATTTATAACATATATTA
1 AAATTAATAACAT-TATTA
* * *
14644030 AAATTATTAAAATTGTTA
1 AAATTAATAACATTATTA
14644048 AA
1 AA
14644050 TTATTAAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
17 13 0.28
18 10 0.22
19 23 0.50
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
AAATTAATAACATTATTA
Found at i:14644043 original size:9 final size:9
Alignment explanation
Indices: 14643989--14644057 Score: 63
Period size: 9 Copynumber: 7.8 Consensus size: 9
14643979 TTATAACATG
14643989 TATTAAAAT
1 TATTAAAAT
*
14643998 TAAT-AAAT
1 TATTAAAAT
*
14644006 AATTAAAAT
1 TATTAAAAT
*
14644015 T-TATAACAT
1 TAT-TAAAAT
14644024 ATATTAAAAT
1 -TATTAAAAT
14644034 TATTAAAAT
1 TATTAAAAT
*
14644043 TGTT-AAAT
1 TATTAAAAT
14644051 TATTAAA
1 TATTAAA
14644058 TTTTTTATCA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
8 14 0.30
9 26 0.55
10 6 0.13
11 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (9 bp):
TATTAAAAT
Found at i:14647295 original size:33 final size:32
Alignment explanation
Indices: 14647251--14647319 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
14647241 TTTATATAAA
* **
14647251 AAATAAGTTTTATCATATCATAAGTAATAAAAC
1 AAATAAATTTTATC-TATCATAAAAAATAAAAC
* *
14647284 AAATAAATTTTATCTATTATAAAAAATAAAAT
1 AAATAAATTTTATCTATCATAAAAAATAAAAC
14647316 AAAT
1 AAAT
14647320 GTGTTTTGTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
32 18 0.58
33 13 0.42
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.35
Consensus pattern (32 bp):
AAATAAATTTTATCTATCATAAAAAATAAAAC
Found at i:14655756 original size:9 final size:9
Alignment explanation
Indices: 14655742--14655767 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
14655732 TTAAAATTAA
14655742 ATAATTATT
1 ATAATTATT
14655751 ATAATTATT
1 ATAATTATT
14655760 ATAATTAT
1 ATAATTAT
14655768 AATTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
ATAATTATT
Found at i:14656441 original size:42 final size:40
Alignment explanation
Indices: 14656390--14656473 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 40
14656380 TATAAATTAC
* * *
14656390 ATCTTAATTATACATA-AATATAATATTTTTATTAAGTTAAT
1 ATCTTAATTA-AAATATAA-ATAATAATTTTATTAAGATAAT
14656431 ATCTTAAATTAAAATATTAAATAATAATTTTATTAAGATAAT
1 ATCTT-AATTAAAATA-TAAATAATAATTTTATTAAGATAAT
14656473 A
1 A
14656474 CATAAATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
41 9 0.24
42 26 0.70
43 2 0.05
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (40 bp):
ATCTTAATTAAAATATAAATAATAATTTTATTAAGATAAT
Found at i:14660098 original size:300 final size:300
Alignment explanation
Indices: 14659523--14660098 Score: 776
Period size: 300 Copynumber: 1.9 Consensus size: 300
14659513 AATAAAATAT
* *
14659523 ACTTTTATTGATGAATTTTTAATATCGTCAGAATATATCATACTTATACCAACACTTTATTTAAC
1 ACTTTTACTGATGAATTTTTAATATCGTCAGAATATACCATACTTATACCAACACTTTATTTAAC
* * * * *
14659588 CGTAAGTATAAATAAACTTTTTCTGATGGTATATGACGATCTGTTAGTATAAATATGTTATATAC
66 CATAAGTATAAATAAACTTTTTCTAATGGTATATGACGATCTGTCAATATAAATATATTATATAC
* *
14659653 TGACAGTTATTAACGTAATCGTCAATATAGGCTAAAAAAAAAACTATTGGCTTACAAAAAATTGA
131 TAACAGTTATTAACGTAACCGTCAATATAGGCTAAAAAAAAAACTATTGGCTTACAAAAAATTGA
* *
14659718 ATAGGATTATTGAAGGCGTTGTTGGCCAAAACCACCTTCAATAATCCATACAAAAAAAATTTTCT
196 ATAGGATTATTAAAGGCGTTGTTGGCCAAAAACACCTTCAATAATCCA-ACAAAAAAAATTTTCT
* **
14659783 ATGGATTATTTATTGACGGTCAAATTTCGTCAGTAAAAAAG
260 AAGGAGGATTTATTGACGGTCAAATTTCGTCAGTAAAAAAG
* *
14659824 ACTTTTACTGATGGA-TTTTAATATCGTCAGAATATACCATACTTATACGAACACTTTATTTAAC
1 ACTTTTACTGATGAATTTTTAATATCGTCAGAATATACCATACTTATACCAACACTTTATTTAAC
* * *
14659888 TATCAA-TATAAATAAATTTTTTCTAATGGTATATGACTATCTGTCAATATAAATATATTATATA
66 CAT-AAGTATAAATAAACTTTTTCTAATGGTATATGACGATCTGTCAATATAAATATATTATATA
**
14659952 CTAACAGTTATTAACG-AACCGTCGGTATAGGCTTAAAACAAAAAAAAAACTATTGGCTTACAAA
130 CTAACAGTTATTAACGTAACCGTCAATATAGGC-T-----AAAAAAAAAACTATTGGCTTACAAA
* *
14660016 AAATTGAATGGGATTATTAAAGGTTC-TT-TTGGCTAAAAACACCTTCAATAATCC-AC-AAAAA
189 AAATTGAATAGGATTATTAAAGG--CGTTGTTGGCCAAAAACACCTTCAATAATCCAACAAAAAA
14660077 AATTTT-TGAAGG-GGA-TTATTGA
252 AATTTTCT-AAGGAGGATTTATTGA
14660099 AGGTATTTTT
Statistics
Matches: 242, Mismatches: 23, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
299 13 0.05
300 123 0.51
301 17 0.07
302 14 0.06
303 2 0.01
305 70 0.29
306 2 0.01
307 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (300 bp):
ACTTTTACTGATGAATTTTTAATATCGTCAGAATATACCATACTTATACCAACACTTTATTTAAC
CATAAGTATAAATAAACTTTTTCTAATGGTATATGACGATCTGTCAATATAAATATATTATATAC
TAACAGTTATTAACGTAACCGTCAATATAGGCTAAAAAAAAAACTATTGGCTTACAAAAAATTGA
ATAGGATTATTAAAGGCGTTGTTGGCCAAAAACACCTTCAATAATCCAACAAAAAAAATTTTCTA
AGGAGGATTTATTGACGGTCAAATTTCGTCAGTAAAAAAG
Found at i:14664465 original size:63 final size:63
Alignment explanation
Indices: 14664393--14664535 Score: 173
Period size: 63 Copynumber: 2.3 Consensus size: 63
14664383 AAAAAATAAG
* * * * *
14664393 AGGGAATTATTGAAGGTATTTTTGGTAC-AGAATGCCTTGAATAATCC-CTTCTAAAAAAATTGG
1 AGGG-ATTATTCAAGGTATTTTTGG-ACAAAAATACCTTGAATAATCCACTTAT-AAAAAATTGA
14664456 A
63 A
* * *
14664457 AGGGATTATTCAAGGTGTTTTTGGCCAAAAATACCTTGAATAATCCACTTATAAAAAATTTAA
1 AGGGATTATTCAAGGTATTTTTGGACAAAAATACCTTGAATAATCCACTTATAAAAAATTGAA
14664520 AGGGATTATTCAAGGT
1 AGGGATTATTCAAGGT
14664536 GTTTCTAGCC
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
62 1 0.01
63 60 0.87
64 8 0.12
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (63 bp):
AGGGATTATTCAAGGTATTTTTGGACAAAAATACCTTGAATAATCCACTTATAAAAAATTGAA
Found at i:14664562 original size:63 final size:63
Alignment explanation
Indices: 14664432--14664566 Score: 157
Period size: 63 Copynumber: 2.2 Consensus size: 63
14664422 GAATGCCTTG
* * * * * * *
14664432 AATAATCCCTTCTAAAAAAATTGGAAGGGATTATTCAAGGTGTTTTTGGCCAAAAATACCTTG
1 AATAATCCCTTATAAAAAAATTGAAAGGGATTATTCAAGGTGTTTCTAGCCAAAAACACCATC
* * *
14664495 AATAATCCACTTAT-AAAAAATTTAAAGGGATTATTCAAGGTGTTTCTAGCCAGAAACATCATC
1 AATAATCC-CTTATAAAAAAATTGAAAGGGATTATTCAAGGTGTTTCTAGCCAAAAACACCATC
14664558 AATAA-CCCT
1 AATAATCCCT
14664567 ATTCAATTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
61 2 0.03
62 2 0.03
63 53 0.87
64 4 0.07
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (63 bp):
AATAATCCCTTATAAAAAAATTGAAAGGGATTATTCAAGGTGTTTCTAGCCAAAAACACCATC
Found at i:14667866 original size:55 final size:55
Alignment explanation
Indices: 14667771--14668101 Score: 206
Period size: 55 Copynumber: 6.1 Consensus size: 55
14667761 GTATGACTTG
*
14667771 TAATTTTCTTACCTATA-CTGAC-ACTTAA-AGCCCGTTAGTATAGATTTGTATGTTT
1 TAATTTTCTTACCTATATC-GACGA-TTAACA-CCCGTCAGTATAGATTTGTATGTTT
* * * * * *
14667826 TAATTTTCTTACCTATATCGACGGTTAGCGCCCATCAGTATAGACTTATATGTTT
1 TAATTTTCTTACCTATATCGACGATTAACACCCGTCAGTATAGATTTGTATGTTT
* * * *
14667881 TAATTTTTCTTACCTATATTGACGATTAACACCTGTTAGTATAGACTTGTA-----
1 TAA-TTTTCTTACCTATATCGACGATTAACACCCGTCAGTATAGATTTGTATGTTT
* * * * * * * * *
14667932 -ATTTTTCTTACCTGTACCAATGCTTAACATCCATCAGTATAGATTTGTATTTTT
1 TAATTTTCTTACCTATATCGACGATTAACACCCGTCAGTATAGATTTGTATGTTT
* * * *
14667986 TAATTTTCTTATCTATA-CTGACGATTAGA-AACTGTCAGCATAGACTTT-TATGTTT
1 TAATTTTCTTACCTATATC-GACGATTA-ACACCCGTCAGTATAGA-TTTGTATGTTT
* * *** *
14668041 TAATTTTTTTACCTATATTGAC-AGTTAA-ATATTGTCAGTATAGATTTATATG-TT
1 TAATTTTCTTACCTATATCGACGA-TTAACA-CCCGTCAGTATAGATTTGTATGTTT
14668095 TAATTTT
1 TAATTTT
14668102 TTATTACAGT
Statistics
Matches: 216, Mismatches: 43, Indels: 35
0.73 0.15 0.12
Matches are distributed among these distances:
49 36 0.17
50 1 0.00
54 16 0.07
55 119 0.55
56 44 0.20
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (55 bp):
TAATTTTCTTACCTATATCGACGATTAACACCCGTCAGTATAGATTTGTATGTTT
Found at i:14668238 original size:24 final size:24
Alignment explanation
Indices: 14668206--14668252 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14668196 TTTTTTTAAA
* *
14668206 AATTATATTTTTAATTATTAATATT
1 AATTATATTTATAATCA-TAATATT
14668231 AATT-TATTTATAATCATAATAT
1 AATTATATTTATAATCATAATAT
14668253 GATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTATATTTATAATCATAATATT
Found at i:14668407 original size:15 final size:15
Alignment explanation
Indices: 14668387--14668416 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14668377 TATGAAGTTT
*
14668387 GATAAAATAAACATC
1 GATAAAACAAACATC
14668402 GATAAAACAAACATC
1 GATAAAACAAACATC
14668417 ATTGAATGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.17, G:0.07, T:0.17
Consensus pattern (15 bp):
GATAAAACAAACATC
Found at i:14672997 original size:16 final size:17
Alignment explanation
Indices: 14672983--14673019 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
14672973 ATTTATTAAT
*
14672983 AATTATGGTTTTTAAGA
1 AATTATAGTTTTTAAGA
14673000 AATTATAGTTTTT-AGA
1 AATTATAGTTTTTAAGA
14673016 AATT
1 AATT
14673020 TTATTAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.49
Consensus pattern (17 bp):
AATTATAGTTTTTAAGA
Found at i:14674226 original size:3 final size:3
Alignment explanation
Indices: 14674207--14674392 Score: 54
Period size: 3 Copynumber: 67.3 Consensus size: 3
14674197 AGGAAAGAAA
14674207 AAT AAT ACA- AAT AAAT AAT AAT -AT AAT -AT AAT -AT AAT -AT AAT
1 AAT AAT A-AT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
14674249 -AT AAT -AC AAT -AT AAC AAA AAT -AT AAT -AT ACCAT ACT -AT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT
* * *
14674290 -AT AAT AAT AAT AGT -AT AAT AAT -AT AAT -AT AAT -AT AA- CAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * **
14674332 -AT AGT -AT ACT AGT AAT AA- AAT AAT AAT AAAT AAT ACT AAT GCT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
14674375 AAT AAT AA- AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
14674393 GTAAAAATCG
Statistics
Matches: 131, Mismatches: 26, Indels: 52
0.63 0.12 0.25
Matches are distributed among these distances:
2 34 0.26
3 87 0.66
4 7 0.05
5 3 0.02
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14674234 original size:5 final size:5
Alignment explanation
Indices: 14674224--14674371 Score: 106
Period size: 5 Copynumber: 29.0 Consensus size: 5
14674214 CAAATAAATA
* * *
14674224 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ACAAT ATAACA AAAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT
** * *
14674275 ATACC ATACT ATAGT ATAAT AATAAT AGT-AT AATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT -ATAAT A-TAAT -ATAAT ATAAT ATAAT
* * * *
14674322 ATAAC ATACT ATAGT ATACT AGTAAT A-AA- ATAAT AATAA- ATAAT ACTAAT
1 ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT ATAAT -ATAAT ATAAT A-TAAT
14674372 GCTAATAATA
Statistics
Matches: 115, Mismatches: 17, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
3 1 0.01
4 8 0.07
5 82 0.71
6 24 0.21
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (5 bp):
ATAAT
Found at i:14674320 original size:47 final size:46
Alignment explanation
Indices: 14674216--14674363 Score: 165
Period size: 47 Copynumber: 3.2 Consensus size: 46
14674206 AAATAATACA
* * * *
14674216 AATAAATAATAATATAATATAATATAATATAAT-ATAATACAATATAAC
1 AATAAAT-ATAATATAACATACTATAGTATAATAATAATA-AA-ATAAT
* **
14674264 AA-AAATATAATATACCATACTATAGTATAATAATAATAGTATAAT
1 AATAAATATAATATAACATACTATAGTATAATAATAATAAAATAAT
* *
14674309 AATATAATATAATATAACATACTATAGTATACTAGTAATAAAATAAT
1 AATA-AATATAATATAACATACTATAGTATAATAATAATAAAATAAT
14674356 AATAAATA
1 AATAAATA
14674364 ATACTAATGC
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
45 6 0.07
46 26 0.31
47 51 0.60
48 2 0.02
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (46 bp):
AATAAATATAATATAACATACTATAGTATAATAATAATAAAATAAT
Found at i:14685702 original size:25 final size:25
Alignment explanation
Indices: 14685674--14685721 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
14685664 ATAAAGCTTA
*
14685674 AAAAAATAAAATTAAAATGAAAATT
1 AAAAAATAAAAATAAAATGAAAATT
14685699 AAAAAATAAAAATAAAATGAAAA
1 AAAAAATAAAAATAAAATGAAAA
14685722 GAAAAACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (25 bp):
AAAAAATAAAAATAAAATGAAAATT
Found at i:14685727 original size:25 final size:25
Alignment explanation
Indices: 14685673--14685727 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
14685663 AATAAAGCTT
* *
14685673 AAAAAAATAAAATTAAAATGAAAAT
1 AAAAAAATAAAAATAAAATGAAAAG
*
14685698 TAAAAAATAAAAATAAAATGAAAAG
1 AAAAAAATAAAAATAAAATGAAAAG
14685723 AAAAA
1 AAAAA
14685728 CCTACGATCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (25 bp):
AAAAAAATAAAAATAAAATGAAAAG
Found at i:14686541 original size:5 final size:5
Alignment explanation
Indices: 14686531--14686634 Score: 99
Period size: 5 Copynumber: 21.2 Consensus size: 5
14686521 TAAAAAAATA
* * ** *
14686531 ATAAT ATAAT ACAAT ATAAT AAAAAT ATAAT ATACC ATACT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* *
14686582 ATGAT AT-A- ATAAT ATAAT ATAAT ATAAT ATAAT ATACT AGTAAT A-AA-
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT
14686629 ATAAT A
1 ATAAT A
14686635 ACAAACAAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
3 3 0.04
4 6 0.07
5 65 0.79
6 8 0.10
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:14686551 original size:18 final size:18
Alignment explanation
Indices: 14686528--14686610 Score: 69
Period size: 18 Copynumber: 4.3 Consensus size: 18
14686518 AAATAAAAAA
14686528 ATAATAATATAATACAAT
1 ATAATAATATAATACAAT
*
14686546 ATAATAAAAATATAATATACCAT
1 ATAAT---AATAT-A-ATACAAT
**
14686569 ACT-ATAATATAATATGAT
1 A-TAATAATATAATACAAT
*
14686587 ATAATAATATAATATAAT
1 ATAATAATATAATACAAT
14686605 ATAATA
1 ATAATA
14686611 TAATATACTA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
17 1 0.02
18 31 0.57
19 1 0.02
20 5 0.09
21 5 0.09
22 1 0.02
23 9 0.17
24 1 0.02
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (18 bp):
ATAATAATATAATACAAT
Found at i:14691575 original size:28 final size:27
Alignment explanation
Indices: 14691523--14691583 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
14691513 TAATATCATT
* *
14691523 TTAATAATAATAATATTATCATTTATA
1 TTAATAATAATAATATTATAATTTAAA
*
14691550 TTAATCAATTATAATATTA-AATTTTAAA
1 TTAAT-AATAATAATATTATAA-TTTAAA
14691578 TTAATA
1 TTAATA
14691584 TATCAATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 7 0.24
28 22 0.76
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (27 bp):
TTAATAATAATAATATTATAATTTAAA
Found at i:14691597 original size:32 final size:29
Alignment explanation
Indices: 14691553--14691611 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 29
14691543 ATTTATATTA
14691553 ATCAATTATAATATTAAATTTTAAATTAATAT
1 ATCAATTATAATATT--ATTTT-AATTAATAT
14691585 ATCAATGT-TAATATTATTTTAATTAAT
1 ATCAAT-TATAATATTATTTTAATTAAT
14691612 TTAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 7 0.27
30 5 0.19
32 13 0.50
33 1 0.04
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (29 bp):
ATCAATTATAATATTATTTTAATTAATAT
Found at i:14692693 original size:20 final size:20
Alignment explanation
Indices: 14692656--14692708 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
14692646 TCCTAATTGT
* *
14692656 CATATCAAT-AAGTCAATGC
1 CATATCAATAAAATCAATGA
14692675 CATATCAATAAAATCAATGA
1 CATATCAATAAAATCAATGA
* *
14692695 CATGTCAACAAAAT
1 CATATCAATAAAAT
14692709 TTACGGTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 9 0.31
20 20 0.69
ACGTcount: A:0.49, C:0.19, G:0.08, T:0.25
Consensus pattern (20 bp):
CATATCAATAAAATCAATGA
Found at i:14695317 original size:16 final size:17
Alignment explanation
Indices: 14695296--14695328 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14695286 TTAAAAAATT
14695296 AAAAATAAAT-ATAACA
1 AAAAATAAATGATAACA
*
14695312 AAAAATACATGATAACA
1 AAAAATAAATGATAACA
14695329 TTTTAATCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.70, C:0.09, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAAATAAATGATAACA
Found at i:14701478 original size:20 final size:19
Alignment explanation
Indices: 14701450--14701498 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
14701440 TTTAAGTCTT
* *
14701450 GATATAATTTTCAGCATGAA
1 GATAAAATTTT-AGAATGAA
*
14701470 GATAAAA-TTTAGAATGAT
1 GATAAAATTTTAGAATGAA
14701488 GATAAAATTTT
1 GATAAAATTTT
14701499 TAAGTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 13 0.52
19 6 0.24
20 6 0.24
ACGTcount: A:0.45, C:0.04, G:0.14, T:0.37
Consensus pattern (19 bp):
GATAAAATTTTAGAATGAA
Found at i:14702580 original size:145 final size:145
Alignment explanation
Indices: 14702403--14702675 Score: 393
Period size: 145 Copynumber: 1.9 Consensus size: 145
14702393 GGTAATGCTA
* * * * *
14702403 TGATTTCAAATACACCAAAAATCATGAAATATTATAAAATTAAGACCTGAAAAGTTTCATGAAAA
1 TGATATCAAATACACCAAAAATCATAAAATATTATAAAAGTAAGACCTAAAAAATTTCATGAAAA
* * * *
14702468 TCTGAGCTCGAGAAGGACAAATTACAAAAATACTTTTATAAGGGTATTTTGATAATTTTACACTT
66 TCAGAGCTCGAGAAAGACAAATTACAAAAATACCTTTATAAGGGTATTTTGATAATTTCACACTT
14702533 CCTCGGATATGGCTG
131 CCTCGGATATGGCTG
* * **
14702548 TGATATCAAATGCACCAAAAATCATAAAATATTATGAAAGTAAGATTTAAAAAATTTCATGAAAA
1 TGATATCAAATACACCAAAAATCATAAAATATTATAAAAGTAAGACCTAAAAAATTTCATGAAAA
* * **
14702613 TCAGAGTTCGAGAAAGCCAAATTATGAAAATACCTTTATAAGGGTATTTTGATAATTTCACAC
66 TCAGAGCTCGAGAAAGACAAATTACAAAAATACCTTTATAAGGGTATTTTGATAATTTCACAC
14702676 ATTTCCTTGT
Statistics
Matches: 111, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
145 111 1.00
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (145 bp):
TGATATCAAATACACCAAAAATCATAAAATATTATAAAAGTAAGACCTAAAAAATTTCATGAAAA
TCAGAGCTCGAGAAAGACAAATTACAAAAATACCTTTATAAGGGTATTTTGATAATTTCACACTT
CCTCGGATATGGCTG
Found at i:14709651 original size:7 final size:6
Alignment explanation
Indices: 14709630--14709670 Score: 50
Period size: 7 Copynumber: 6.8 Consensus size: 6
14709620 ATTCTTTGAG
14709630 TCAATA TCAATA TCATATA TCAATTA TCAAT- TCAAT- TCAAT
1 TCAATA TCAATA TCA-ATA TCAA-TA TCAATA TCAATA TCAAT
14709671 TTTATGTGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 10 0.30
6 11 0.33
7 12 0.36
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (6 bp):
TCAATA
Found at i:14709659 original size:20 final size:17
Alignment explanation
Indices: 14709630--14709671 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
14709620 ATTCTTTGAG
14709630 TCAA-TATCAATATCATAT
1 TCAATTATCAAT-TCA-AT
14709648 ATCAATTATCAATTCAAT
1 -TCAATTATCAATTCAAT
14709666 TCAATT
1 TCAATT
14709672 TTATGTGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 2 0.09
19 7 0.32
20 7 0.32
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (17 bp):
TCAATTATCAATTCAAT
Found at i:14711287 original size:22 final size:22
Alignment explanation
Indices: 14711259--14711305 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
14711249 GAAAAAGCAT
14711259 TTGGCTACGTTAGGTTTAATGC
1 TTGGCTACGTTAGGTTTAATGC
*
14711281 TTGGCTATGTTAGGTTTAATGC
1 TTGGCTACGTTAGGTTTAATGC
14711303 TTG
1 TTG
14711306 CAATATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.11, G:0.28, T:0.45
Consensus pattern (22 bp):
TTGGCTACGTTAGGTTTAATGC
Found at i:14717253 original size:17 final size:17
Alignment explanation
Indices: 14717231--14717265 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
14717221 TTTATTATAA
14717231 TTTTTATAAATTTAATT
1 TTTTTATAAATTTAATT
* *
14717248 TTTTTATTATTTTAATT
1 TTTTTATAAATTTAATT
14717265 T
1 T
14717266 AATAATTACA
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTATAAATTTAATT
Found at i:14725580 original size:143 final size:142
Alignment explanation
Indices: 14725408--14725780 Score: 383
Period size: 142 Copynumber: 2.6 Consensus size: 142
14725398 TTACATTTAA
* * * * * *
14725408 ATATTATTTTATAATTTTTGATGCATTAAAAACTCTGATCATACCTTAAGAGGTGTGAAATTATC
1 ATATTATTTAATGATTTTTAATGCATTAAAAACTCTAATCACACCTTAAAAGGTGTGAAATTAT-
* * * * *
14725473 ACACTACCCTTATA-GGTATTTTTGTAACTTCACTTTTCC-AAGGTTGGTTTTTTGCCAAATGCT
65 AAAATACCCTTAAAGGGTA-TTTTGTAACTTAAC-CTTCCTAAGGTTGGTTTTTTGCCAAATGCT
* * *
14725536 CTATATTATGGTTTT
128 CTAGATAATGATTTT
* * * *
14725551 ATATTATTTAATGATTTTTAATGCATTAAAAATTTTAATCGCACCTTAAAAGGTGTGAAATTCTA
1 ATATTATTTAATGATTTTTAATGCATTAAAAACTCTAATCACACCTTAAAAGGTGTGAAATTATA
** * * * *
14725616 AAATGTCCTTAAAGGGTATTTTGTAATTTAACCTTCCTAATGTTTGTTTTTTGCGAAATGCTCTA
66 AAATACCCTTAAAGGGTATTTTGTAACTTAACCTTCCTAAGGTTGGTTTTTTGCCAAATGCTCTA
14725681 GATAATGATTTT
131 GATAATGATTTT
* * * * * **
14725693 GTATTATTTGATGATTTTTATTGTATAAAAAACAT-TAATCACACCTTAAAAAATGTGAAATTAG
1 ATATTATTTAATGATTTTTAATGCATTAAAAAC-TCTAATCACACCTTAAAAGGTGTGAAATTA-
* *
14725757 TAAAATGCCCTTAAAGGATATTTT
64 TAAAATACCCTTAAAGGGTATTTT
14725781 TATAATTTAA
Statistics
Matches: 190, Mismatches: 36, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
141 4 0.02
142 105 0.55
143 81 0.43
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.43
Consensus pattern (142 bp):
ATATTATTTAATGATTTTTAATGCATTAAAAACTCTAATCACACCTTAAAAGGTGTGAAATTATA
AAATACCCTTAAAGGGTATTTTGTAACTTAACCTTCCTAAGGTTGGTTTTTTGCCAAATGCTCTA
GATAATGATTTT
Found at i:14726219 original size:27 final size:27
Alignment explanation
Indices: 14726195--14726246 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
14726185 CATGAAAAAG
14726195 GAAAAA-AAATAAAAAAATAGAAAAATA
1 GAAAAATAAA-AAAAAAATAGAAAAATA
* *
14726222 GAAAAATAGAAAAAAAATTGAAAAA
1 GAAAAATAAAAAAAAAATAGAAAAA
14726247 GCTTGTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (27 bp):
GAAAAATAAAAAAAAAATAGAAAAATA
Found at i:14726246 original size:8 final size:8
Alignment explanation
Indices: 14726199--14726235 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
14726189 AAAAAGGAAA
*
14726199 AAAAATAA
1 AAAAATAG
14726207 AAAAATAG
1 AAAAATAG
14726215 AAAAATAG
1 AAAAATAG
14726223 AAAAATAG
1 AAAAATAG
14726231 AAAAA
1 AAAAA
14726236 AAATTGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (8 bp):
AAAAATAG
Found at i:14727302 original size:13 final size:13
Alignment explanation
Indices: 14727281--14727480 Score: 92
Period size: 13 Copynumber: 15.5 Consensus size: 13
14727271 ATTTCCCATG
*
14727281 CAAATCCCAAATC
1 CAAACCCCAAATC
14727294 CAAACCCCAAA-C
1 CAAACCCCAAATC
*
14727306 CAAAACCCTAAATC
1 C-AAACCCCAAATC
*
14727320 TCAAACTCCAAATC
1 -CAAACCCCAAATC
** *
14727334 CAAA-CCTGAACC
1 CAAACCCCAAATC
* *
14727346 CTAAATCCAAAAT-
1 C-AAACCCCAAATC
14727359 CAAACCCCAAA-C
1 CAAACCCCAAATC
* * **
14727371 TAAAATCTTAAATC
1 -CAAACCCCAAATC
* *
14727385 TCAAACTCTAAATC
1 -CAAACCCCAAATC
* *
14727399 CAAA-CCTAAAAC
1 CAAACCCCAAATC
14727411 CAAACCCCAAAT-
1 CAAACCCCAAATC
* *
14727423 CAAATCCTAAA-C
1 CAAACCCCAAATC
*
14727435 CTAAA-CCCAAACC
1 C-AAACCCCAAATC
* *
14727448 CAAACCCTAAAAC
1 CAAACCCCAAATC
*
14727461 CAAACTCCAAATC
1 CAAACCCCAAATC
14727474 CAAACCC
1 CAAACCC
14727481 TAAACACTAA
Statistics
Matches: 140, Mismatches: 34, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
12 43 0.31
13 70 0.50
14 26 0.19
15 1 0.01
ACGTcount: A:0.48, C:0.37, G:0.01, T:0.14
Consensus pattern (13 bp):
CAAACCCCAAATC
Found at i:14727387 original size:65 final size:66
Alignment explanation
Indices: 14727282--14727405 Score: 196
Period size: 65 Copynumber: 1.9 Consensus size: 66
14727272 TTTCCCATGC
*
14727282 AAATCCCAAATCCAAACCCCAAACCAAAACCCTAAATCTCAAACTCCAAATCCAAACCTGAACCC
1 AAATCCAAAATCCAAACCCCAAACCAAAACCCTAAATCTCAAACTCCAAATCCAAACCTGAACCC
14727347 T
66 T
* * * *
14727348 AAATCCAAAAT-CAAACCCCAAACTAAAATCTTAAATCTCAAACTCTAAATCCAAACCT
1 AAATCCAAAATCCAAACCCCAAACCAAAACCCTAAATCTCAAACTCCAAATCCAAACCT
14727406 AAAACCAAAC
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
65 43 0.81
66 10 0.19
ACGTcount: A:0.48, C:0.35, G:0.01, T:0.17
Consensus pattern (66 bp):
AAATCCAAAATCCAAACCCCAAACCAAAACCCTAAATCTCAAACTCCAAATCCAAACCTGAACCC
T
Found at i:14727398 original size:14 final size:12
Alignment explanation
Indices: 14727379--14727497 Score: 73
Period size: 13 Copynumber: 9.3 Consensus size: 12
14727369 ACTAAAATCT
14727379 TAAATCTCAAACTC
1 TAAATC-CAAAC-C
14727393 TAAATCCAAACC
1 TAAATCCAAACC
*
14727405 TAAAACCAAACCC
1 TAAATCCAAA-CC
*
14727418 CAAAT-CAAATCC
1 TAAATCCAAA-CC
14727430 TAAA-CCTAAACC
1 TAAATCC-AAACC
* *
14727442 CAAACCCAAACCC
1 TAAATCCAAA-CC
*
14727455 TAAAACCAAACTC
1 TAAATCCAAAC-C
*
14727468 CAAATCCAAACCC
1 TAAATCCAAA-CC
14727481 TAAA-CACTAAACC
1 TAAATC-C-AAACC
14727494 TAAA
1 TAAA
14727498 CCTAAACATA
Statistics
Matches: 85, Mismatches: 11, Indels: 19
0.74 0.10 0.17
Matches are distributed among these distances:
12 30 0.35
13 45 0.53
14 10 0.12
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.14
Consensus pattern (12 bp):
TAAATCCAAACC
Found at i:14727421 original size:65 final size:63
Alignment explanation
Indices: 14727281--14727480 Score: 190
Period size: 65 Copynumber: 3.1 Consensus size: 63
14727271 ATTTCCCATG
* *
14727281 CAAATCCCAAATCCAAACCCCAAACCAAAACCCTAAATCTCAAACTCCAAATCCAAACCTGAACC
1 CAAA-CCCAAAT-CAAACCCCAAACCAAAACCCTAAATCTCAAACTCCAAATCCAAACCTAAAAC
* * * * *
14727346 CTAAATCCAAAATCAAACCCCAAACTAAAATCTTAAATCTCAAACTCTAAATCCAAACCTAAAAC
1 C-AAA-CCCAAATCAAACCCCAAACCAAAACCCTAAATCTCAAACTCCAAATCCAAACCTAAAAC
* * * * * * *
14727411 CAAACCCCAAATCAAATCCTAAACCTAAACCC-AAA-CCCAAAC-CCTAAAACCAAACTCCAAAT
1 CAAA-CCCAAATCAAACCCCAAACCAAAACCCTAAATCTCAAACTCC-AAATCCAAAC-CTAAAA
14727473 C
63 C
14727474 CAAACCC
1 CAAACCC
14727481 TAAACACTAA
Statistics
Matches: 112, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
61 1 0.01
62 18 0.16
63 12 0.11
64 23 0.21
65 48 0.43
66 10 0.09
ACGTcount: A:0.48, C:0.37, G:0.01, T:0.14
Consensus pattern (63 bp):
CAAACCCAAATCAAACCCCAAACCAAAACCCTAAATCTCAAACTCCAAATCCAAACCTAAAAC
Found at i:14727439 original size:6 final size:6
Alignment explanation
Indices: 14727428--14727683 Score: 110
Period size: 6 Copynumber: 40.0 Consensus size: 6
14727418 CAAATCAAAT
* * *
14727428 CCTAAA CCTAAA CCCAAA CCCAAA CCCTAAAA CC-AAA CTCCAAA TCC-AAA
1 CCTAAA CCTAAA CCTAAA CCTAAA -CCT-AAA CCTAAA C-CTAAA -CCTAAA
* *
14727478 CCCTAAA CACTAAA CCTAAA CCTAAA CATAAA CCCCT-AA CCTTAAA CCCAAA
1 -CCTAAA C-CTAAA CCTAAA CCTAAA CCTAAA --CCTAAA CC-TAAA CCTAAA
* * * * * * * *
14727530 CTTTAAA CCTAAT CCTAAA CTTTAA CTTATA CCTTAAA TCTAAA CCTAGAC
1 C-CTAAA CCTAAA CCTAAA CCTAAA CCTAAA CC-TAAA CCTAAA CCTA-AA
* *
14727581 CCTAAA CCTAAAA CC-AAA CCCCAAA CCCTAAA TCCTAAA CACTAAA TCTAAA
1 CCTAAA CCT-AAA CCTAAA -CCTAAA -CCTAAA -CCTAAA C-CTAAA CCTAAA
** *
14727633 -CTAAAA CTCTATC CCTAAA CCCTAAA CCATAAA -CTAAC CCTAAA CCCTAAA
1 CCT-AAA C-CTAAA CCTAAA -CCTAAA CC-TAAA CCTAAA CCTAAA -CCTAAA
14727684 ACAACTTAAT
Statistics
Matches: 195, Mismatches: 30, Indels: 49
0.71 0.11 0.18
Matches are distributed among these distances:
5 14 0.07
6 94 0.48
7 79 0.41
8 8 0.04
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.19
Consensus pattern (6 bp):
CCTAAA
Found at i:14727495 original size:13 final size:12
Alignment explanation
Indices: 14727428--14727683 Score: 110
Period size: 13 Copynumber: 20.0 Consensus size: 12
14727418 CAAATCAAAT
14727428 CCTAAACCTAAA
1 CCTAAACCTAAA
* *
14727440 CCCAAACCCAAA
1 CCTAAACCTAAA
14727452 CCCTAAAACC-AAA
1 -CCT-AAACCTAAA
*
14727465 CTCCAAATCC-AAA
1 C-CTAAA-CCTAAA
14727478 CCCTAAACACTAAA
1 -CCTAAAC-CTAAA
14727492 CCTAAACCTAAA
1 CCTAAACCTAAA
*
14727504 CATAAACCCCT-AA
1 CCTAAA--CCTAAA
*
14727517 CCTTAAACCCAAA
1 CC-TAAACCTAAA
* *
14727530 CTTTAAACCTAAT
1 C-CTAAACCTAAA
* *
14727543 CCTAAACTTTAA
1 CCTAAACCTAAA
* *
14727555 CTTATACCTTAAA
1 CCTAAACC-TAAA
* *
14727568 TCTAAACCTAGAC
1 CCTAAACCTA-AA
14727581 CCTAAACCTAAAA
1 CCTAAACCT-AAA
*
14727594 CC-AAACCCCAAA
1 CCTAAA-CCTAAA
14727606 CCCTAAATCCTAAA
1 -CCTAAA-CCTAAA
*
14727620 CACTAAATCTAAA
1 C-CTAAACCTAAA
**
14727633 -CTAAAACTCTATC
1 CCT-AAAC-CTAAA
14727646 CCTAAACCCTAAA
1 CCTAAA-CCTAAA
*
14727659 CCATAAA-CTAAC
1 CC-TAAACCTAAA
14727671 CCTAAACCCTAAA
1 CCTAAA-CCTAAA
14727684 ACAACTTAAT
Statistics
Matches: 182, Mismatches: 36, Indels: 51
0.68 0.13 0.19
Matches are distributed among these distances:
11 6 0.03
12 56 0.31
13 83 0.46
14 37 0.20
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.19
Consensus pattern (12 bp):
CCTAAACCTAAA
Found at i:14727683 original size:46 final size:44
Alignment explanation
Indices: 14727588--14727685 Score: 92
Period size: 46 Copynumber: 2.2 Consensus size: 44
14727578 GACCCTAAAC
**
14727588 CTAAAACCAAACCCCAAACCCTAAATCCTAAACACTAAATCTAAA-
1 CTAAAACCAAACCCCAAACCCTAAATCCT-AA-ACTAACCCTAAAC
* * *
14727633 CTAAAACTCTATCCCTAAACCCTAAA-CCATAAACTAACCCTAAACC
1 CTAAAAC-CAAACCCCAAACCCTAAATCC-TAAACTAACCCTAAA-C
14727679 CTAAAAC
1 CTAAAAC
14727686 AACTTAATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
44 10 0.23
45 11 0.25
46 23 0.52
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (44 bp):
CTAAAACCAAACCCCAAACCCTAAATCCTAAACTAACCCTAAAC
Found at i:14727807 original size:3 final size:3
Alignment explanation
Indices: 14727794--14727828 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
14727784 ATCATACATA
14727794 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14727829 GTTCAGGCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14728163 original size:31 final size:31
Alignment explanation
Indices: 14728109--14728181 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 31
14728099 TTTTGATCCA
*
14728109 AAAATAAATAATTTTGTTTC-AAA-AAAA-T
1 AAAATAAAAAATTTTGTTTCAAAAGAAAATT
14728137 AAAATAAAAAATGATTTGCTTTCAAAAGAAAATT
1 AAAATAAAAAAT--TTTG-TTTCAAAAGAAAATT
*
14728171 AAAAAAAAAAA
1 AAAATAAAAAA
14728182 GAGTTAGCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 11 0.30
30 4 0.11
31 4 0.11
32 3 0.08
33 4 0.11
34 11 0.30
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.27
Consensus pattern (31 bp):
AAAATAAAAAATTTTGTTTCAAAAGAAAATT
Found at i:14729330 original size:45 final size:45
Alignment explanation
Indices: 14729271--14729364 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
14729261 TTTTCATACG
14729271 AGTTATATTCAGTGAACATGTTAATAGAACAAGCAATCATGTTAT
1 AGTTATATTCAGTGAACATGTTAATAGAACAAGCAATCATGTTAT
* * * *
14729316 AGTTATATTTAGTGAACATGTTACTATAATAAGCAATCATGTTAT
1 AGTTATATTCAGTGAACATGTTAATAGAACAAGCAATCATGTTAT
14729361 AGTT
1 AGTT
14729365 TAAGTTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (45 bp):
AGTTATATTCAGTGAACATGTTAATAGAACAAGCAATCATGTTAT
Found at i:14730861 original size:20 final size:19
Alignment explanation
Indices: 14730828--14730879 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
14730818 ATTTTTGTTA
* *
14730828 AAAAAATATATTATGA-A-
1 AAAAAATTTATTATTATAT
*
14730845 AAAAATTTTATTATTATAT
1 AAAAAATTTATTATTATAT
*
14730864 ATAAAATTTATTATTA
1 AAAAAATTTATTATTA
14730880 CATATATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
AAAAAATTTATTATTATAT
Found at i:14730886 original size:21 final size:20
Alignment explanation
Indices: 14730846--14730885 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
14730836 TATTATGAAA
14730846 AAAATTTTATTATTATATAT
1 AAAATTTTATTATTATATAT
*
14730866 AAAA-TTTATTATTACATAT
1 AAAATTTTATTATTATATAT
14730885 A
1 A
14730886 TTATATATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
AAAATTTTATTATTATATAT
Found at i:14731212 original size:15 final size:16
Alignment explanation
Indices: 14731192--14731223 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
14731182 TCCTATTAAT
14731192 ATCACTTTT-TTTTTA
1 ATCACTTTTCTTTTTA
14731207 ATCACTTTTCTTTTTA
1 ATCACTTTTCTTTTTA
14731223 A
1 A
14731224 AATTTAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.22, C:0.16, G:0.00, T:0.62
Consensus pattern (16 bp):
ATCACTTTTCTTTTTA
Found at i:14732471 original size:13 final size:14
Alignment explanation
Indices: 14732444--14732470 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14732434 AATTCATATT
14732444 TTAATTTTTTAAAA
1 TTAATTTTTTAAAA
14732458 TTAATTTTTTAAA
1 TTAATTTTTTAAA
14732471 TGTATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTAATTTTTTAAAA
Found at i:14733841 original size:172 final size:171
Alignment explanation
Indices: 14733547--14733893 Score: 543
Period size: 172 Copynumber: 2.0 Consensus size: 171
14733537 AACTTGCAGG
*
14733547 AACCCTCATAGCTGCGCCTGTCTTAAAATAATGGATTCTGCTGATCTCTGCATGCGATGCATCCG
1 AACCCTCATAGCTGCGCCTGTCTTAAAATAATGGATTCCGCTGATCTCTGCATGCGATGCATCCG
* * *
14733612 ACCTTTACAGCTTCCAGTTCTATTTAATATTATTTTCCATCTTATTCTTAAATGCAACACCAGTT
66 ACCTATACAGCTTCCAGTTCTATGTAATATCATTTTCCATCTTATTCTTAAATGCAACACCAGTT
*
14733677 GTAATTAAGTTCTTGCTTCCTACTCTTATTTTATAATAATAAT
131 CTAATTAAGTTCTTGCTTCCTA--CTTATTTTATAATAATAAT
* * * * * *
14733720 AACCCTCTTAGTTGTGCCTGTCTTAAAATAATGGATTCCGGTGAT-TCTGTATGCGATGCATCTG
1 AACCCTCATAGCTGCGCCTGTCTTAAAATAATGGATTCCGCTGATCTCTGCATGCGATGCATCCG
* * *
14733784 ACCTATACAGCTTCCAGTTCTATGTAATGTCATTTTCCATCTTATTCTTATATGCAACACTAGTT
66 ACCTATACAGCTTCCAGTTCTATGTAATATCATTTTCCATCTTATTCTTAAATGCAACACCAGTT
14733849 CTAATTAAGTTCTTGCTTCCTACTTATTTTATAATAATAAT
131 CTAATTAAGTTCTTGCTTCCTACTTATTTTATAATAATAAT
14733890 AACC
1 AACC
14733894 ATTAAATTGC
Statistics
Matches: 160, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
170 23 0.14
172 97 0.61
173 40 0.25
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.40
Consensus pattern (171 bp):
AACCCTCATAGCTGCGCCTGTCTTAAAATAATGGATTCCGCTGATCTCTGCATGCGATGCATCCG
ACCTATACAGCTTCCAGTTCTATGTAATATCATTTTCCATCTTATTCTTAAATGCAACACCAGTT
CTAATTAAGTTCTTGCTTCCTACTTATTTTATAATAATAAT
Found at i:14736203 original size:7 final size:7
Alignment explanation
Indices: 14736191--14736487 Score: 125
Period size: 7 Copynumber: 45.6 Consensus size: 7
14736181 AAGTGTTGGT
14736191 TTTAGGG
1 TTTAGGG
14736198 TTTAGGG
1 TTTAGGG
*
14736205 TTT-GGT
1 TTTAGGG
14736211 TTTA-GG
1 TTTAGGG
14736217 TTTAGGG
1 TTTAGGG
*
14736224 TTTAGGT
1 TTTAGGG
*
14736231 TTTAGGT
1 TTTAGGG
14736238 TTTAGGG
1 TTTAGGG
*
14736245 TTTA-TG
1 TTTAGGG
*
14736251 ATTA-GG
1 TTTAGGG
**
14736257 TTTTTGG
1 TTTAGGG
*
14736264 TTTAAGG
1 TTTAGGG
* *
14736271 TCTAAGG
1 TTTAGGG
14736278 -TTAGGG
1 TTTAGGG
***
14736284 TTTATAT
1 TTTAGGG
14736291 TTTAGGG
1 TTTAGGG
*
14736298 CTTA-GG
1 TTTAGGG
*
14736304 TAT-GGG
1 TTTAGGG
14736310 TTTAGGG
1 TTTAGGG
*
14736317 TTTA-AG
1 TTTAGGG
*
14736323 TTT-GAG
1 TTTAGGG
*
14736329 TTTAAGG
1 TTTAGGG
*
14736336 TTTAGGA
1 TTTAGGG
*
14736343 TTTAGTG
1 TTTAGGG
* *
14736350 TTTTGGA
1 TTTAGGG
*
14736357 TTT-TGG
1 TTTAGGG
14736363 TTTAGGG
1 TTTAGGG
*
14736370 TTTACGG
1 TTTAGGG
* *
14736377 TTTTGGT
1 TTTAGGG
14736384 TTTA--G
1 TTTAGGG
* *
14736389 TTTAAGA
1 TTTAGGG
*
14736396 TTTAGGT
1 TTTAGGG
14736403 TTTAGGG
1 TTTAGGG
*
14736410 TTTAAGG
1 TTTAGGG
*
14736417 TTTA-AG
1 TTTAGGG
14736423 TTT-GGG
1 TTTAGGG
14736429 TTT-GGG
1 TTTAGGG
14736435 -TTAGGG
1 TTTAGGG
*
14736441 TTTAGGA
1 TTTAGGG
14736448 TTT---G
1 TTTAGGG
14736452 TTTA-GG
1 TTTAGGG
*
14736458 CTTAGGG
1 TTTAGGG
*
14736465 TTTA-GA
1 TTTAGGG
*
14736471 TTTAGGA
1 TTTAGGG
14736478 TTT-GGG
1 TTTAGGG
14736484 TTTA
1 TTTA
14736488 TAGTTTCGTG
Statistics
Matches: 215, Mismatches: 56, Indels: 38
0.70 0.18 0.12
Matches are distributed among these distances:
4 3 0.01
5 6 0.03
6 69 0.32
7 137 0.64
ACGTcount: A:0.18, C:0.01, G:0.32, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:14736211 original size:20 final size:20
Alignment explanation
Indices: 14736186--14736247 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
14736176 GGATCAAGTG
14736186 TTGGTTTTAGGGTTTAGGGT
1 TTGGTTTTAGGGTTTAGGGT
14736206 TTGGTTTTA-GGTTTAGGGT
1 TTGGTTTTAGGGTTTAGGGT
*
14736225 TTAGGTTTTAGGTTTTAGGGT
1 TT-GGTTTTAGGGTTTAGGGT
14736246 TT
1 TT
14736248 ATGATTAGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
19 12 0.31
20 16 0.41
21 11 0.28
ACGTcount: A:0.11, C:0.00, G:0.35, T:0.53
Consensus pattern (20 bp):
TTGGTTTTAGGGTTTAGGGT
Found at i:14736255 original size:20 final size:21
Alignment explanation
Indices: 14736192--14736260 Score: 81
Period size: 20 Copynumber: 3.4 Consensus size: 21
14736182 AGTGTTGGTT
* *
14736192 TTAGGGTTTAGGGTTT-GGTT
1 TTAGGTTTTAGGGTTTAGGTA
*
14736212 TTAGG-TTTAGGGTTTAGGTT
1 TTAGGTTTTAGGGTTTAGGTA
*
14736232 TTAGGTTTTAGGGTTTATG-A
1 TTAGGTTTTAGGGTTTAGGTA
14736252 TTAGGTTTT
1 TTAGGTTTT
14736261 TGGTTTAAGG
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.22
20 23 0.51
21 12 0.27
ACGTcount: A:0.14, C:0.00, G:0.33, T:0.52
Consensus pattern (21 bp):
TTAGGTTTTAGGGTTTAGGTA
Found at i:14736286 original size:47 final size:46
Alignment explanation
Indices: 14736188--14736287 Score: 112
Period size: 47 Copynumber: 2.2 Consensus size: 46
14736178 ATCAAGTGTT
* * * *
14736188 GGTTTTAGGGTTTAGGGTTTGGTTTTAGGTTTAGGGTTTAGGTTTTA
1 GGTTTTAGGGTTTAGGATTAGGTTTTAGGTTTAAGGTTAAGG-TTTA
* *
14736235 GGTTTTAGGGTTTATGATTAGGTTTTTGGTTTAAGGTCTAAGG-TTA
1 GGTTTTAGGGTTTAGGATTAGGTTTTAGGTTTAAGGT-TAAGGTTTA
*
14736281 GGGTTTA
1 GGTTTTA
14736288 TATTTTAGGG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
46 9 0.20
47 32 0.71
48 4 0.09
ACGTcount: A:0.16, C:0.01, G:0.34, T:0.49
Consensus pattern (46 bp):
GGTTTTAGGGTTTAGGATTAGGTTTTAGGTTTAAGGTTAAGGTTTA
Found at i:14740236 original size:123 final size:124
Alignment explanation
Indices: 14739970--14740458 Score: 496
Period size: 125 Copynumber: 3.9 Consensus size: 124
14739960 ATTTGTCATA
** * * * *
14739970 AATGCATATGA-TTTCAAATATCACCATCGAAAAAAACTCGGATATCACCACCGAGAGATTTTGA
1 AATGCATATGACTTT-GGATATCACCACCAAAAAAAACTCGAATATCACCACTGAGAGATTTTGA
* * * * *
14740034 AAAAGCTCACATAAAAAAAATGATATTCAGATTTTAATACTAGGATATAACCATCTAGTG
65 AAAAGCTCACATAAAAAAAATGAAATTCAGACTTTAATACTTGGATATAACCACCAAGTG
* * * * * *
14740094 AATGCATATGTCTTTGGATATTACCACTAAAAAAAACTTGAATGTCACTACTGAGAGATTTTGAA
1 AATGCATATGACTTTGGATATCACCACCAAAAAAAACTCGAATATCACCACTGAGAGATTTTGAA
* * * * *
14740159 AAAGCTCGCAT-ATAAAAATGAAATTCAAACTTTAATACTTGAATATCACCACCAAGTG
66 AAAGCTCACATAAAAAAAATGAAATTCAGACTTTAATACTTGGATATAACCACCAAGTG
* * *** * * *
14740217 AATGCATATGACTTCGGATATCACCACCAAATAGGGCTCAAATATCATCATTGAGAGATTTTGAA
1 AATGCATATGACTTTGGATATCACCACCAAAAAAAACTCGAATATCACCACTGAGAGATTTTGAA
* * * * *
14740282 AAAGCTTACATTAAAAAAAATTAAATTTAGACTTTAATACTTGGATATAACCACAAAATG
66 AAAGCTCACA-TAAAAAAAATGAAATTCAGACTTTAATACTTGGATATAACCACCAAGTG
* * * * * ** * *
14740342 AATACATATAACTTTAGATATCACCACCAAAAAAGACTCTAATATTGCCACTAAGAGATTTGGAA
1 AATGCATATGACTTTGGATATCACCACCAAAAAAAACTCGAATATCACCACTGAGAGATTTTGAA
** ** * *
14740407 AAAGCTTGCATTGAAAAAATGAAATTCAGACTTTAATACTTTGATATCACCA
66 AAAGCTCACATAAAAAAAATGAAATTCAGACTTTAATACTTGGATATAACCA
14740459 TAGAGTGAAT
Statistics
Matches: 295, Mismatches: 67, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
123 97 0.33
124 96 0.33
125 102 0.35
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.28
Consensus pattern (124 bp):
AATGCATATGACTTTGGATATCACCACCAAAAAAAACTCGAATATCACCACTGAGAGATTTTGAA
AAAGCTCACATAAAAAAAATGAAATTCAGACTTTAATACTTGGATATAACCACCAAGTG
Found at i:14740350 original size:125 final size:122
Alignment explanation
Indices: 14739974--14740491 Score: 457
Period size: 124 Copynumber: 4.2 Consensus size: 122
14739964 GTCATAAATG
* * * ** *
14739974 CATATGATTTCAAATATCACCATCGAAAAAA-ACTCGGATATCACCACCGAGAGATTTTGAAAAA
1 CATATGACTTCAGATATCACCA-CCAAAAAAGACTCAAATATCA-CACTGAGAGATTTTGAAAAA
* * * * *
14740038 GCTCACATAAAAAAAATGATATTCAGATTTTAATACTAGGATATAACCATC-TAGTGAATG
64 GCTCACAT-AAAAAAATGAAATTCAGACTTTAATACTTGGATATAACCA-CAAAGTGAATA
* ** * * * ** *
14740098 CATATGTCTTTGGATATTACCACTAAAAAAAACTTGAATGTCACTACTGAGAGATTTTGAAAAAG
1 CATATGACTTCAGATATCACCACCAAAAAAGACTCAAATATCAC-ACTGAGAGATTTTGAAAAAG
* * * * * * *
14740163 CTCGCATATAAAAATGAAATTCAAACTTTAATACTTGAATATCACCACCAAGTGAATG
65 CTCACATAAAAAAATGAAATTCAGACTTTAATACTTGGATATAACCACAAAGTGAATA
* * * * *
14740221 CATATGACTTCGGATATCACCACCAAATAGGGCTCAAATATCATCATTGAGAGATTTTGAAAAAG
1 CATATGACTTCAGATATCACCACCAAAAAAGACTCAAATATCA-CACTGAGAGATTTTGAAAAAG
* * * *
14740286 CTTACATTAAAAAAAATTAAATTTAGACTTTAATACTTGGATATAACCACAAAATGAATA
65 CTCACA-T-AAAAAAATGAAATTCAGACTTTAATACTTGGATATAACCACAAAGTGAATA
* * * * *
14740346 CATATAACTTTAGATATCACCACCAAAAAAGACTCTAATATTGC-CACTAAGAGATTTGGAAAAA
1 CATATGACTTCAGATATCACCACCAAAAAAGACTCAAATA-T-CACACTGAGAGATTTTGAAAAA
** * * * * *
14740410 GCTTGCATTGAAAAAATGAAATTCAGACTTTAATACTTTGATATCACCATAGAGTGAATA
64 GCTCACA-TAAAAAAATGAAATTCAGACTTTAATACTTGGATATAACCACAAAGTGAATA
* * *
14740470 TATACGACTTCAAATATCACCA
1 CATATGACTTCAGATATCACCA
14740492 TCGAAGAGTA
Statistics
Matches: 319, Mismatches: 67, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
122 1 0.00
123 104 0.33
124 112 0.35
125 100 0.31
126 1 0.00
127 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (122 bp):
CATATGACTTCAGATATCACCACCAAAAAAGACTCAAATATCACACTGAGAGATTTTGAAAAAGC
TCACATAAAAAAATGAAATTCAGACTTTAATACTTGGATATAACCACAAAGTGAATA
Found at i:14743688 original size:14 final size:15
Alignment explanation
Indices: 14743658--14743693 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
14743648 CTATCATTCA
14743658 TTTTTTTTCCTTCTC
1 TTTTTTTTCCTTCTC
14743673 TTTTCTTTTCCTTCT-
1 TTTT-TTTTCCTTCTC
14743688 TTTTTT
1 TTTTTT
14743694 GTTCTTTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.10
15 8 0.40
16 10 0.50
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTTCCTTCTC
Found at i:14744218 original size:10 final size:10
Alignment explanation
Indices: 14744190--14744282 Score: 55
Period size: 10 Copynumber: 9.0 Consensus size: 10
14744180 CAAATATTGA
14744190 TTTTTTCTTT
1 TTTTTTCTTT
*
14744200 TTCTCTTCTTT
1 TT-TTTTCTTT
14744211 TTTTTTCTTT
1 TTTTTTCTTT
*
14744221 CTTTTCATCTCATT
1 -TTTT--T-TCTTT
* *
14744235 TTATTT-TAT
1 TTTTTTCTTT
* *
14744244 TTCTTT-TTA
1 TTTTTTCTTT
* *
14744253 TTTCTTCTCT
1 TTTTTTCTTT
14744263 TTTTTTCTTT
1 TTTTTTCTTT
14744273 TTTTTTCTTT
1 TTTTTTCTTT
14744283 ACATGCCTTT
Statistics
Matches: 62, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
9 11 0.18
10 29 0.47
11 14 0.23
13 4 0.06
14 4 0.06
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:14744222 original size:25 final size:25
Alignment explanation
Indices: 14744193--14744280 Score: 83
Period size: 25 Copynumber: 3.4 Consensus size: 25
14744183 ATATTGATTT
14744193 TTTCTTTTTCTCTTCTTTTTTTTTC
1 TTTCTTTTTCTCTTCTTTTTTTTTC
14744218 TTTCTTTTCATCTCATT-TTATTTTATTTC
1 TTTCTTTT--TCTC-TTCTT-TTTT-TTTC
* *
14744247 TTT-TTATT-TCTTCTCTTTTTTTC
1 TTTCTTTTTCTCTTCTTTTTTTTTC
*
14744270 TTTTTTTTTCT
1 TTTCTTTTTCT
14744281 TTACATGCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
23 7 0.13
24 10 0.19
25 12 0.23
26 1 0.02
27 6 0.12
28 9 0.17
29 7 0.13
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (25 bp):
TTTCTTTTTCTCTTCTTTTTTTTTC
Found at i:14744263 original size:15 final size:13
Alignment explanation
Indices: 14744191--14744268 Score: 52
Period size: 14 Copynumber: 5.5 Consensus size: 13
14744181 AAATATTGAT
14744191 TTTTTCTTTTTCTC
1 TTTTT-TTTTTCTC
14744205 TTCTTTTTTTT-TC
1 TT-TTTTTTTTCTC
**
14744218 TTTCTTTTCATCTC
1 TTT-TTTTTTTCTC
14744232 ATTTTATTTTATT-TC
1 -TTTT-TTTT-TTCTC
14744247 TTTTTATTTCTTCTC
1 TTTTT-TTT-TTCTC
14744262 TTTTTTT
1 TTTTTTT
14744269 CTTTTTTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
12 1 0.02
13 10 0.20
14 21 0.41
15 18 0.35
16 1 0.02
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTTCTC
Found at i:14752160 original size:24 final size:24
Alignment explanation
Indices: 14752115--14752160 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
14752105 TTGTTTCTTG
* *
14752115 AATTTTTTTAAAAATCAGATTTCC
1 AATTTTTATAAAAATCAAATTTCC
* *
14752139 AATTTTTATAAAATTTAAATTT
1 AATTTTTATAAAAATCAAATTT
14752161 TAAATTATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (24 bp):
AATTTTTATAAAAATCAAATTTCC
Found at i:14752626 original size:24 final size:24
Alignment explanation
Indices: 14752599--14752675 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
14752589 ATAAATATTG
14752599 AAAAAAATTAAATTTAATATTTTT
1 AAAAAAATTAAATTTAATATTTTT
*
14752623 AAAATTAAA--AAAATTAA-ATTTTGT
1 AAAA--AAATTAAATTTAATATTTT-T
* ** *
14752647 AATATTATTAAATTTAGTATTTTT
1 AAAAAAATTAAATTTAATATTTTT
14752671 AAAAA
1 AAAAA
14752676 TTTTAGAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
22 1 0.03
23 5 0.13
24 25 0.64
25 5 0.13
26 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (24 bp):
AAAAAAATTAAATTTAATATTTTT
Found at i:14752685 original size:10 final size:10
Alignment explanation
Indices: 14752665--14752706 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
14752655 TAAATTTAGT
*
14752665 ATTTTTAAAA
1 ATTTTAAAAA
*
14752675 ATTTTAGAAA
1 ATTTTAAAAA
*
14752685 ATTATAAAAA
1 ATTTTAAAAA
14752695 ATTTTAAAAA
1 ATTTTAAAAA
14752705 AT
1 AT
14752707 GACTTTTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:14760314 original size:49 final size:48
Alignment explanation
Indices: 14760233--14760348 Score: 144
Period size: 49 Copynumber: 2.4 Consensus size: 48
14760223 CTAGGAATAT
* * *
14760233 AAAGACTTGAAACTTTAAAATTCTCATTCAAG-AAAGCTCTTTCTCAAC
1 AAAGGCTTGAAACTTTAAAATTCTCATCCAAGAAAAG-TCCTTCTCAAC
* * *
14760281 AAAGGCTTTAAACTTTAAACATTCTCATCCAAGAAAAGTCCTTCTTAAT
1 AAAGGCTTGAAACTTTAAA-ATTCTCATCCAAGAAAAGTCCTTCTCAAC
*
14760330 GAAGGCTTGAAACTTTAAA
1 AAAGGCTTGAAACTTTAAA
14760349 TAACATAGAC
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 17 0.29
49 37 0.64
50 4 0.07
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (48 bp):
AAAGGCTTGAAACTTTAAAATTCTCATCCAAGAAAAGTCCTTCTCAAC
Found at i:14761340 original size:68 final size:70
Alignment explanation
Indices: 14761255--14761383 Score: 208
Period size: 69 Copynumber: 1.9 Consensus size: 70
14761245 AGTTCTAACT
* *
14761255 ATGATGCAAATGCAATATTCAA-ACAATGATTTATATACTCACCAAATAATGC-AATGCATAGAA
1 ATGATGCAAATGAAATATTCAACACAATGATTTAAATACTCACCAAATAATGCAAATGCATAGAA
14761318 CAACA
66 CAACA
* *
14761323 ATGATGCAAATGAAATATTCAACACAATGATTTAAATACTCATCAAATGATGCAAATGCAT
1 ATGATGCAAATGAAATATTCAACACAATGATTTAAATACTCACCAAATAATGCAAATGCAT
14761384 GGTACACACA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
68 21 0.38
69 27 0.49
70 7 0.13
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (70 bp):
ATGATGCAAATGAAATATTCAACACAATGATTTAAATACTCACCAAATAATGCAAATGCATAGAA
CAACA
Found at i:14761360 original size:21 final size:20
Alignment explanation
Indices: 14761335--14761373 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14761325 GATGCAAATG
*
14761335 AAATATTCAACACAATGATTT
1 AAATACTCAACA-AATGATTT
*
14761356 AAATACTCATCAAATGAT
1 AAATACTCAACAAATGAT
14761374 GCAAATGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (20 bp):
AAATACTCAACAAATGATTT
Found at i:14763039 original size:31 final size:31
Alignment explanation
Indices: 14762999--14763057 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
14762989 CTATCCAGAA
*
14762999 GAAAGGATACAAGAAAATTGGATAATTTAAG
1 GAAACGATACAAGAAAATTGGATAATTTAAG
*
14763030 GAAACGATACTAGAAAATTGGATAATTT
1 GAAACGATACAAGAAAATTGGATAATTT
14763058 GACTTTTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.25
Consensus pattern (31 bp):
GAAACGATACAAGAAAATTGGATAATTTAAG
Found at i:14763992 original size:38 final size:40
Alignment explanation
Indices: 14763948--14764022 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
14763938 AAAAAAAAAT
14763948 GGTTAGTA-A-ACATAATATATACAATG-AACAATATAAAG
1 GGTTAGTATATACATAATATATACAA-GAAACAATATAAAG
*
14763986 GGTTAGTATATACATAATATTTACAAGAAACAATATA
1 GGTTAGTATATACATAATATATACAAGAAACAATATA
14764023 TAAATTTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
38 8 0.24
39 2 0.06
40 23 0.70
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (40 bp):
GGTTAGTATATACATAATATATACAAGAAACAATATAAAG
Found at i:14765029 original size:12 final size:12
Alignment explanation
Indices: 14764976--14765072 Score: 60
Period size: 12 Copynumber: 8.2 Consensus size: 12
14764966 AATATCAAAC
14764976 AATCATGCAATA
1 AATCATGCAATA
*
14764988 AATTATGCAAT-
1 AATCATGCAATA
**
14764999 AAT-ATAAAATTA
1 AATCATGCAA-TA
* *
14765011 TATCATGTAATA
1 AATCATGCAATA
14765023 AATCATGCAATA
1 AATCATGCAATA
* *
14765035 AGT-A--AAATTA
1 AATCATGCAA-TA
*
14765045 TATCATGCAATA
1 AATCATGCAATA
14765057 AATCATGCAATCA
1 AATCATGCAAT-A
14765070 AAT
1 AAT
14765073 ATAATCACAC
Statistics
Matches: 63, Mismatches: 14, Indels: 15
0.68 0.15 0.16
Matches are distributed among these distances:
9 2 0.03
10 7 0.11
11 6 0.10
12 38 0.60
13 10 0.16
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (12 bp):
AATCATGCAATA
Found at i:14765046 original size:34 final size:35
Alignment explanation
Indices: 14764977--14765076 Score: 148
Period size: 34 Copynumber: 2.8 Consensus size: 35
14764967 ATATCAAACA
*
14764977 ATCATGCAATAAATTATGCAATAATATAAAATTAT
1 ATCATGCAATAAATCATGCAATAATATAAAATTAT
* *
14765012 ATCATGTAATAAATCATGCAATAA-GTAAAATTAT
1 ATCATGCAATAAATCATGCAATAATATAAAATTAT
14765046 ATCATGCAATAAATCATGCAATCAAATATAA
1 ATCATGCAATAAATCATGCAAT--AATATAA
14765077 TCACACTAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
34 30 0.53
35 22 0.39
36 2 0.04
37 3 0.05
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (35 bp):
ATCATGCAATAAATCATGCAATAATATAAAATTAT
Found at i:14765100 original size:24 final size:24
Alignment explanation
Indices: 14765073--14765327 Score: 96
Period size: 24 Copynumber: 11.1 Consensus size: 24
14765063 GCAATCAAAT
14765073 ATAATCACACTAATAAATATATTA
1 ATAATCACACTAATAAATATATTA
* ** *
14765097 ATAATTA-TGTAATACA-ATA-TA
1 ATAATCACACTAATAAATATATTA
*
14765118 ATTAT-ACA--AATAAATATATTA
1 ATAATCACACTAATAAATATATTA
* *
14765139 ATAATCA-AGTAATTGAATATATTA
1 ATAATCACACTAA-TAAATATATTA
* ** * *
14765163 ACAATCATGC-AATCCAAT-TA-AA
1 ATAATCACACTAAT-AAATATATTA
* *
14765185 TATAATCATACAAATAAATATATTA
1 -ATAATCACACTAATAAATATATTA
** *
14765210 ATAATCATGC-AATTAAAAATATTA
1 ATAATCACACTAA-TAAATATATTA
** *
14765234 ATAATCA-TGTAATCAAAT-TA-AA
1 ATAATCACACTAAT-AAATATATTA
* *
14765256 TATAATCATACAAATAAATATATTA
1 -ATAATCACACTAATAAATATATTA
**
14765281 ATAAT--CA-T-GCAAATATATTA
1 ATAATCACACTAATAAATATATTA
*
14765301 ATAAATCACACAAATAAATATATTA
1 AT-AATCACACTAATAAATATATTA
14765326 AT
1 AT
14765328 CATGCAAATA
Statistics
Matches: 171, Mismatches: 35, Indels: 49
0.67 0.14 0.19
Matches are distributed among these distances:
19 5 0.03
20 16 0.09
21 16 0.09
22 7 0.04
23 40 0.23
24 73 0.43
25 14 0.08
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (24 bp):
ATAATCACACTAATAAATATATTA
Found at i:14765200 original size:71 final size:71
Alignment explanation
Indices: 14765112--14765292 Score: 281
Period size: 71 Copynumber: 2.5 Consensus size: 71
14765102 TATGTAATAC
* * * *
14765112 AATATAATTATACAAATAAATATATTAATAATCAAGTAATTGAATATATTAACAATCATGCAATC
1 AATATAATCATACAAATAAATATATTAATAATCAAGCAATTAAAAATATTAACAATCATGCAATC
*
14765177 CAATTA
66 AAATTA
* * *
14765183 AATATAATCATACAAATAAATATATTAATAATCATGCAATTAAAAATATTAATAATCATGTAATC
1 AATATAATCATACAAATAAATATATTAATAATCAAGCAATTAAAAATATTAACAATCATGCAATC
14765248 AAATTA
66 AAATTA
*
14765254 AATATAATCATACAAATAAATATATTAATAATCATGCAA
1 AATATAATCATACAAATAAATATATTAATAATCAAGCAA
14765293 ATATATTAAT
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 102 1.00
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.33
Consensus pattern (71 bp):
AATATAATCATACAAATAAATATATTAATAATCAAGCAATTAAAAATATTAACAATCATGCAATC
AAATTA
Found at i:14765294 original size:20 final size:20
Alignment explanation
Indices: 14765271--14765337 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
14765261 TCATACAAAT
14765271 AAATATATTAATAATCATGC
1 AAATATATTAATAATCATGC
**
14765291 AAATATATTAATAAATCACAC
1 AAATATATTAAT-AATCATGC
* *
14765312 AAATAAATATATTAATCATGC
1 AAATATAT-TAATAATCATGC
14765333 AAATA
1 AAATA
14765338 AATACATTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
20 12 0.31
21 24 0.62
22 3 0.08
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.31
Consensus pattern (20 bp):
AAATATATTAATAATCATGC
Found at i:14765301 original size:47 final size:46
Alignment explanation
Indices: 14765069--14765327 Score: 166
Period size: 42 Copynumber: 5.7 Consensus size: 46
14765059 TCATGCAATC
* * *
14765069 AAATATAATCACACTAATAAATATATTAATAATTATG---TA-A-T
1 AAATATAATCATACAAATAAATATATTAATAATCATGAAATATATT
* *
14765110 ACAATATAATTATACAAATAAATATATTAATAATCAAGTAATTGAATATATT
1 A-AATATAATCATACAAATAAATATATTAATAATC-A-TGA---AATATATT
* * * * * *
14765162 AACA-ATCATGCAATCCAATTAAATATAATCATACA-AAT-AAATATATT
1 AA-ATATAAT-C-ATACAAATAAATATATTAATA-ATCATGAAATATATT
* * * * *
14765209 --A-ATAATCATGCAATTAAAAATATTAATAATCATGTAATCAAATT
1 AAATATAATCATACAAATAAATATATTAATAATCATGAAAT-ATATT
14765253 AAATATAATCATACAAATAAATATATTAATAATCATGCAAATATATT
1 AAATATAATCATACAAATAAATATATTAATAATCATG-AAATATATT
*
14765300 -AATA-AATCACACAAATAAATATATTAAT
1 AAATATAATCATACAAATAAATATATTAAT
14765328 CATGCAAATA
Statistics
Matches: 170, Mismatches: 26, Indels: 40
0.72 0.11 0.17
Matches are distributed among these distances:
41 2 0.01
42 48 0.28
43 5 0.03
44 10 0.06
45 23 0.14
46 5 0.03
47 42 0.25
48 3 0.02
50 3 0.02
51 7 0.04
52 4 0.02
53 17 0.10
54 1 0.01
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (46 bp):
AAATATAATCATACAAATAAATATATTAATAATCATGAAATATATT
Found at i:14765314 original size:21 final size:20
Alignment explanation
Indices: 14765271--14765316 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
14765261 TCATACAAAT
**
14765271 AAATATATTAATAATCATGC
1 AAATATATTAATAATCACAC
14765291 AAATATATTAATAAATCACAC
1 AAATATATTAAT-AATCACAC
14765312 AAATA
1 AAATA
14765317 AATATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATATATTAATAATCACAC
Found at i:14765328 original size:21 final size:21
Alignment explanation
Indices: 14765258--14765348 Score: 76
Period size: 21 Copynumber: 4.2 Consensus size: 21
14765248 AAATTAAATA
*
14765258 TAATCATACAAATAAATATAT
1 TAATCACACAAATAAATATAT
* *
14765279 TAATAATCATGCAAATATAT-TAAT
1 TAATCA-CA--CAAATAAATAT-AT
*
14765303 AAATCACACAAATAAATATAT
1 TAATCACACAAATAAATATAT
** *
14765324 TAATCATGCAAATAAATACAT
1 TAATCACACAAATAAATATAT
14765345 TAAT
1 TAAT
14765349 AACATGCAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
21 36 0.65
22 2 0.04
23 3 0.05
24 14 0.25
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (21 bp):
TAATCACACAAATAAATATAT
Found at i:14765361 original size:52 final size:54
Alignment explanation
Indices: 14765304--14765406 Score: 147
Period size: 56 Copynumber: 1.9 Consensus size: 54
14765294 TATATTAATA
*
14765304 AATCACACAAATAAATATA-T-TAATCATGCAAATAAATACATTAATAACATGC
1 AATCACACAAACAAATATATTGTAATCATGCAAATAAATACATTAATAACATGC
* *
14765356 AATCACACACACAAATATATTAGGTAATCATGCAAATAAATATATTAATAA
1 AATCACACAAACAAATATATT--GTAATCATGCAAATAAATACATTAATAA
14765407 TCATAAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
52 17 0.39
53 1 0.02
56 26 0.59
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.27
Consensus pattern (54 bp):
AATCACACAAACAAATATATTGTAATCATGCAAATAAATACATTAATAACATGC
Done.