Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 104 of 131
Found at i:18653772 original size:14 final size:14
Alignment explanation
Indices: 18653734--18653762 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18653724 TTGACCCGAA
18653734 TAAAAT-ATATAAT
1 TAAAATAATATAAT
18653747 TAAAATAATATAAT
1 TAAAATAATATAAT
18653761 TA
1 TA
18653763 TATAAGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAAATAATATAAT
Found at i:18654374 original size:19 final size:18
Alignment explanation
Indices: 18654324--18654374 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
18654314 AATATTTAAT
* *
18654324 TTTTTTAATTTTTTGTAA
1 TTTTATAATTTTTTGCAA
**
18654342 TTTTATAAAATTTTGCACA
1 TTTTATAATTTTTTGCA-A
18654361 TTTTATAATTTTTT
1 TTTTATAATTTTTT
18654375 TATGTTTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (18 bp):
TTTTATAATTTTTTGCAA
Found at i:18656165 original size:3 final size:3
Alignment explanation
Indices: 18656159--18656210 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
18656149 AAAAATGAAA
18656159 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18656207 AAT A
1 AAT A
18656211 GTAAAAGCAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18656428 original size:26 final size:26
Alignment explanation
Indices: 18656383--18656433 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
18656373 ACTAAGATGA
18656383 GCCTAATCGGCTCCATACCAAAATGG
1 GCCTAATCGGCTCCATACCAAAATGG
18656409 GCCTAATCAGGC-CCGA-ACCAAAATG
1 GCCTAATC-GGCTCC-ATACCAAAATG
18656434 AGTGTCTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.33, C:0.31, G:0.20, T:0.16
Consensus pattern (26 bp):
GCCTAATCGGCTCCATACCAAAATGG
Found at i:18656760 original size:119 final size:120
Alignment explanation
Indices: 18656592--18657142 Score: 535
Period size: 120 Copynumber: 4.6 Consensus size: 120
18656582 ACCAGGATCA
* * * * * *
18656592 AGTCGAGATCAAAAAT-AATGATCGAGA-CAAAGCCATGAATCATGAAGAATGATTTGGACTAAG
1 AGTCGAGGTCAAAAATAAATAATCGAGATGAAA-CCACGAATCATGAAGAATGATCTGGACTGAG
* * * * * * * * *
18656655 CAAAGATCAAATTATTGAGATGAAACCATAA-TCCAAAATAAAATGACTAGGACCA
65 CCAAGATCAAATGATCGAGGTGAAACCACAAGTCAAAAATAAAATGACCAAGACCG
* * * * *
18656710 AGTCGAGGT-AAGAAATAAATGATCGAAATGGAACCACGAATTATGAAGAATGATTTGGACTGAG
1 AGTCGAGGTCAA-AAATAAATAATCGAGATGAAACCACGAATCATGAAGAATGATCTGGACTGAG
* * * * *
18656774 CCAAGATCAGATGACCAAGGTGAAACCACAAGTCAAAAATGAAATGACCAAGACTG
65 CCAAGATCAAATGATCGAGGTGAAACCACAAGTCAAAAATAAAATGACCAAGACCG
* *
18656830 AGTTGAAGTCAAAAATAAATAATC-AGGATGAAACCACGAATCATGAAGAATGATCTGGACTGAG
1 AGTCGAGGTCAAAAATAAATAATCGA-GATGAAACCACGAATCATGAAGAATGATCTGGACTGAG
* * * * * * *
18656894 CCAAGACCAAGTGAT-TAGGGTGAAACTACAAGTCAAAAATGAAGTGACCAAGATCG
65 CCAAGATCAAATGATCGA-GGTGAAACCACAAGTCAAAAATAAAATGACCAAGACCG
* * * *
18656950 AGTCGAGGTCAAAAATAAATAACCGAGATGAAACCATGAATCATGAAGAATGATCTAGACCGAGC
1 AGTCGAGGTCAAAAATAAATAATCGAGATGAAACCACGAATCATGAAGAATGATCTGGACTGAGC
* * * * * * * *
18657015 CAAGA-CAAGTGATCGGGGTAAAACCATAAGTCAAAAATAAAGTGACTAGGATCG
66 CAAGATCAAATGATCGAGGTGAAACCACAAGTCAAAAATAAAATGACCAAGACCG
* * * *
18657069 AGTCGAGATCAAAAATAAATGATCGAGACGGAACCACGAATCAT-AAGAAGTGATCTAGG-CTGA
1 AGTCGAGGTCAAAAATAAATAATCGAGATGAAACCACGAATCATGAAGAA-TGATCT-GGACTGA
18657132 GCCAAGATCAA
64 GCCAAGATCAA
18657143 GTGAGTGAGA
Statistics
Matches: 362, Mismatches: 59, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
117 2 0.01
118 17 0.05
119 157 0.43
120 183 0.51
121 3 0.01
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (120 bp):
AGTCGAGGTCAAAAATAAATAATCGAGATGAAACCACGAATCATGAAGAATGATCTGGACTGAGC
CAAGATCAAATGATCGAGGTGAAACCACAAGTCAAAAATAAAATGACCAAGACCG
Found at i:18657086 original size:239 final size:238
Alignment explanation
Indices: 18656582--18657153 Score: 599
Period size: 239 Copynumber: 2.4 Consensus size: 238
18656572 CAATGAAGCA
* * * *
18656582 ACCAGGATCAAGTCGAGATCAAAAAT-AATGATCGAGACAAAGCCATGAATCATGAAGAATGATT
1 ACCAGGATCGAGTCGAGATCAAAAATAAATGATCGAGAGAAA-CCACGAATCATGAAGAATGATC
* * * * * * * *
18656646 TGGACTAAGCAAAGATCAAATTATTGAGATGAAACCATAATCCAAAATAAAATGACTAGGACCAA
65 TGGACTGAGCCAAGATCAAGTGATTGAGATGAAACCACAATCAAAAATAAAATGACCAAGACCAA
* * * * * * *
18656711 GTCGAGGTAAGAAATAAATGATCGAAATGGAACCACGAATTATGAAGAATGATTTGGACTGAGCC
130 GTCGAGGTAAGAAATAAATAACCGAAATGAAACCACGAATCATGAAGAATGATCTAGACCGAGCC
*
18656776 AAGATCAGATGACCAAGGTGAAACCACAAGTCAAAAATGAAATG
195 AAGATCAGATGACCAAGGTAAAACCACAAGTCAAAAATGAAATG
* * *
18656820 ACCAAGA-CTGAGTTGA-AGTCAAAAATAAATAATC-AGGATGAAACCACGAATCATGAAGAATG
1 ACCAGGATC-GAGTCGAGA-TCAAAAATAAATGATCGA-GA-GAAACCACGAATCATGAAGAATG
* * * * *
18656882 ATCTGGACTGAGCCAAGACCAAGTGATT-AGGGTGAAACTACAAGTCAAAAATGAAGTGACCAAG
62 ATCTGGACTGAGCCAAGATCAAGTGATTGA-GATGAAACCACAA-TCAAAAATAAAATGACCAAG
* * * *
18656946 ATCGAGTCGAGGTCAA-AAATAAATAACCGAGATGAAACCATGAATCATGAAGAATGATCTAGAC
125 ACCAAGTCGAGGT-AAGAAATAAATAACCGAAATGAAACCACGAATCATGAAGAATGATCTAGAC
* ** *
18657010 CGAGCCAAGA-CA-AGTGATCGGGGTAAAACCATAAGTCAAAAAT-AAAGTG
189 CGAGCCAAGATCAGA-TGACCAAGGTAAAACCACAAGTCAAAAATGAAA-TG
* *
18657059 ACTAGGATCGAGTCGAGATCAAAAATAAATGATCGAGACGGAACCACGAATCAT-AAGAAGTGAT
1 ACCAGGATCGAGTCGAGATCAAAAATAAATGATCGAGA-GAAACCACGAATCATGAAGAA-TGAT
*
18657123 CTAGG-CTGAGCCAAGATCAAGTGAGTGAGAT
64 CT-GGACTGAGCCAAGATCAAGTGATTGAGAT
18657154 AATGCAAATG
Statistics
Matches: 273, Mismatches: 45, Indels: 31
0.78 0.13 0.09
Matches are distributed among these distances:
237 2 0.01
238 30 0.11
239 155 0.57
240 84 0.31
241 2 0.01
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.18
Consensus pattern (238 bp):
ACCAGGATCGAGTCGAGATCAAAAATAAATGATCGAGAGAAACCACGAATCATGAAGAATGATCT
GGACTGAGCCAAGATCAAGTGATTGAGATGAAACCACAATCAAAAATAAAATGACCAAGACCAAG
TCGAGGTAAGAAATAAATAACCGAAATGAAACCACGAATCATGAAGAATGATCTAGACCGAGCCA
AGATCAGATGACCAAGGTAAAACCACAAGTCAAAAATGAAATG
Found at i:18669008 original size:3 final size:3
Alignment explanation
Indices: 18669000--18669063 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
18668990 AAAGGAAACG
18669000 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18669048 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
18669064 GTAAAAGTAC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18669477 original size:14 final size:14
Alignment explanation
Indices: 18669460--18669487 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18669450 ATCTTACCAA
18669460 AATTATCTATGATT
1 AATTATCTATGATT
18669474 AATTATCTATGATT
1 AATTATCTATGATT
18669488 CTTTTTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
AATTATCTATGATT
Found at i:18670240 original size:2 final size:2
Alignment explanation
Indices: 18670233--18670268 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
18670223 TTTTAACATC
18670233 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18670269 ACATACAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18673704 original size:21 final size:21
Alignment explanation
Indices: 18673673--18673712 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
18673663 TTTGTATGTG
18673673 TTTTATATTTTATATTTTAAAA
1 TTTTATATTTTAT-TTTTAAAA
18673695 TTTT-TATTTTATTTTTAA
1 TTTTATATTTTATTTTTAA
18673713 TTTGTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTATATTTTATTTTTAAAA
Found at i:18673855 original size:18 final size:18
Alignment explanation
Indices: 18673832--18673868 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
18673822 TTATTAATAA
18673832 TAATATAATAATATTTAT
1 TAATATAATAATATTTAT
*
18673850 TAATATAATATTATTTAT
1 TAATATAATAATATTTAT
18673868 T
1 T
18673869 TATTAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATATAATAATATTTAT
Found at i:18673885 original size:27 final size:28
Alignment explanation
Indices: 18673853--18673991 Score: 99
Period size: 27 Copynumber: 4.9 Consensus size: 28
18673843 TATTTATTAA
*
18673853 TATAATATTATTTATTTAT-TAATATGT
1 TATAATATTATTTATTAATATAATATGT
*
18673880 TATAATATTATTTATTAATATAATATTACT
1 TATAATATTATTTATTAATATAATA-T-GT
* * *
18673910 TATGATA-TATTAATT-A-ATAATATAT
1 TATAATATTATTTATTAATATAATATGT
* * * *
18673935 TATTATATTATTGAGTAATATATTATATAT
1 TATAATATTATTTATTAATATA--ATATGT
*
18673965 TATTAATAATATGTTATT-ATATAATAT
1 TA-TAATATTAT-TTATTAATATAATAT
18673992 AATAATTTTA
Statistics
Matches: 90, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
25 7 0.08
26 7 0.08
27 25 0.28
28 9 0.10
29 12 0.13
30 15 0.17
31 12 0.13
32 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (28 bp):
TATAATATTATTTATTAATATAATATGT
Found at i:18673930 original size:45 final size:43
Alignment explanation
Indices: 18673836--18673995 Score: 132
Period size: 45 Copynumber: 3.6 Consensus size: 43
18673826 TAATAATAAT
* * *
18673836 ATAATAATATTTATTAATATAATATTATT-TATTTATTAATATGTT
1 ATAATATTATTTATTAATATAATATTATTATATATATT-A-AT-TA
18673881 ATAATATTATTTATTAATATAATATTACTTATGATATATTAATTA
1 ATAATATTATTTATTAATATAATATTA-TTAT-ATATATTAATTA
*
18673926 ATAATATATTATTATATTATTGAGTAATA-TATTATATATTATTAA-TA
1 AT-A-ATATTATT-TATTAAT-A-TAATATTATTATATA-TATTAATTA
*
18673973 AT-ATGTTA-TTATATAATATAATA
1 ATAATATTATTTAT-TAATATAATA
18673996 ATTTTAACAT
Statistics
Matches: 99, Mismatches: 6, Indels: 24
0.77 0.05 0.19
Matches are distributed among these distances:
41 5 0.05
42 4 0.04
43 4 0.04
44 5 0.05
45 29 0.29
46 5 0.05
47 17 0.17
48 22 0.22
49 3 0.03
50 5 0.05
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (43 bp):
ATAATATTATTTATTAATATAATATTATTATATATATTAATTA
Found at i:18675122 original size:16 final size:16
Alignment explanation
Indices: 18675101--18675135 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18675091 AAATGTTTGC
*
18675101 AATATAAAGGAATTAT
1 AATATAAAAGAATTAT
*
18675117 AATATAAAATAATTAT
1 AATATAAAAGAATTAT
18675133 AAT
1 AAT
18675136 TTTCAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
AATATAAAAGAATTAT
Found at i:18685591 original size:21 final size:21
Alignment explanation
Indices: 18685567--18685634 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
18685557 CTATAAAGTA
18685567 GCCAAATTCTCTTTATGAGAG
1 GCCAAATTCTCTTTATGAGAG
*** * * *
18685588 GCCAAAAAGTATTCATTA-AG
1 GCCAAATTCTCTTTATGAGAG
*
18685608 ACCAAATTCTCTTTATGAGAG
1 GCCAAATTCTCTTTATGAGAG
18685629 GCCAAA
1 GCCAAA
18685635 AAGTATTCAT
Statistics
Matches: 32, Mismatches: 14, Indels: 2
0.67 0.29 0.04
Matches are distributed among these distances:
20 13 0.41
21 19 0.59
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (21 bp):
GCCAAATTCTCTTTATGAGAG
Found at i:18685625 original size:41 final size:41
Alignment explanation
Indices: 18685568--18685648 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
18685558 TATAAAGTAG
18685568 CCAAATTCTCTTTATGAGAGGCCAAAAAGTATTCATTAAGA
1 CCAAATTCTCTTTATGAGAGGCCAAAAAGTATTCATTAAGA
18685609 CCAAATTCTCTTTATGAGAGGCCAAAAAGTATTCATTAAG
1 CCAAATTCTCTTTATGAGAGGCCAAAAAGTATTCATTAAG
18685649 TCAATTCTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (41 bp):
CCAAATTCTCTTTATGAGAGGCCAAAAAGTATTCATTAAGA
Found at i:18690351 original size:14 final size:13
Alignment explanation
Indices: 18690325--18690349 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18690315 TAAATTAAAA
18690325 TTTTAAAAATTTG
1 TTTTAAAAATTTG
18690338 TTTTAAAAATTT
1 TTTTAAAAATTT
18690350 TGAAACCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TTTTAAAAATTTG
Found at i:18699439 original size:2 final size:2
Alignment explanation
Indices: 18699432--18699463 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
18699422 TTCAATCATC
*
18699432 AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18699464 TAGACATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18701623 original size:3 final size:3
Alignment explanation
Indices: 18701615--18701673 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
18701605 ATTAAAAACA
18701615 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
18701663 GAT AAT AAT AA
1 AAT AAT AAT AA
18701674 ATAAATAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18701734 original size:6 final size:6
Alignment explanation
Indices: 18701575--18701746 Score: 64
Period size: 6 Copynumber: 28.2 Consensus size: 6
18701565 TTTCATCATT
* * * * * * *
18701575 ATAAAA TTAAAC ACAAAA ATAATA ACAAAA ATTAAAA ACAAATA ATAATA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A-TAAAA ATAAA-A ATAAAA
* * * * * * * *
18701625 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATGATA ATAATAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAA-AA
* * * **
18701674 ATAAATA A-ATAA ATAAAA ACACAA ATAAAA CCAAAA GCAT-AAA ATAAAA
1 ATAAA-A ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA --ATAAAA ATAAAA
*
18701723 CA-AAAA ATAAAA AT-ACA ATAAAA A
1 -ATAAAA ATAAAA ATAAAA ATAAAA A
18701747 ACCAAAAAAT
Statistics
Matches: 127, Mismatches: 28, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
5 9 0.07
6 98 0.77
7 20 0.16
ACGTcount: A:0.72, C:0.06, G:0.01, T:0.21
Consensus pattern (6 bp):
ATAAAA
Found at i:18701737 original size:18 final size:17
Alignment explanation
Indices: 18701696--18701734 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
18701686 ATAAAAACAC
*
18701696 AAATAAAACCAAAAGCATA
1 AAATAAAA-CAAAA-AATA
18701715 AAATAAAACAAAAAATA
1 AAATAAAACAAAAAATA
18701732 AAA
1 AAA
18701735 ATACAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 5 0.26
19 8 0.42
ACGTcount: A:0.77, C:0.10, G:0.03, T:0.10
Consensus pattern (17 bp):
AAATAAAACAAAAAATA
Found at i:18703711 original size:21 final size:23
Alignment explanation
Indices: 18703687--18703733 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 23
18703677 CTACCTTCAT
*
18703687 AGAAATATCA-AATAGCAACA-A
1 AGAAACATCAGAATAGCAACACA
*
18703708 AG-AACATGAGAATAGCAACACA
1 AGAAACATCAGAATAGCAACACA
18703730 AGAA
1 AGAA
18703734 TTTTATGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
20 5 0.24
21 12 0.57
22 3 0.14
23 1 0.05
ACGTcount: A:0.60, C:0.15, G:0.15, T:0.11
Consensus pattern (23 bp):
AGAAACATCAGAATAGCAACACA
Found at i:18703929 original size:55 final size:54
Alignment explanation
Indices: 18703839--18703942 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 54
18703829 CTCACCTAAG
* *
18703839 ATTCCCATGTGTTTCCAATATCCTCAAATAGATACACAATAAACCCCAACAAGA
1 ATTCCCATGTGTTTCCAATATCCTCAAATAAATACACAACAAACCCCAACAAGA
* *
18703893 ATTCTCATGTGTTATCCACTATCCT-AATATAAATACACAACAAACCCCAA
1 ATTCCCATGTGTT-TCCAATATCCTCAA-ATAAATACACAACAAACCCCAA
18703943 AACAAGCTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
54 14 0.32
55 30 0.68
ACGTcount: A:0.40, C:0.28, G:0.06, T:0.26
Consensus pattern (54 bp):
ATTCCCATGTGTTTCCAATATCCTCAAATAAATACACAACAAACCCCAACAAGA
Found at i:18707376 original size:34 final size:34
Alignment explanation
Indices: 18707333--18707399 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
18707323 TACATCTGTT
* *
18707333 CATTTAATTTTACTATCTTTAACCAAACTTTATA
1 CATTTAATTTTACTAACTTTAACCAAACGTTATA
*
18707367 CATTTAATTTTACTAACTTTCACCAAACGTTAT
1 CATTTAATTTTACTAACTTTAACCAAACGTTAT
18707400 TATTCCATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.01, T:0.45
Consensus pattern (34 bp):
CATTTAATTTTACTAACTTTAACCAAACGTTATA
Found at i:18709903 original size:24 final size:23
Alignment explanation
Indices: 18709860--18709916 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
18709850 TCTATTTGAC
* *
18709860 TTTTTTTTTCCTTTCTCTTTTCT
1 TTTTTTTTTCCATTCTCTTTGCT
*
18709883 TTTTTTTTTAGCCATTC-CTTTGGT
1 TTTTTTTTT--CCATTCTCTTTGCT
18709907 TTTTTTTTTC
1 TTTTTTTTTC
18709917 TTTTTTTTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 1 0.03
23 9 0.31
24 14 0.48
25 5 0.17
ACGTcount: A:0.04, C:0.18, G:0.05, T:0.74
Consensus pattern (23 bp):
TTTTTTTTTCCATTCTCTTTGCT
Found at i:18713071 original size:19 final size:19
Alignment explanation
Indices: 18713049--18713085 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18713039 GATTTCTAGT
*
18713049 TTAATCTTTGGGTTTTGGC
1 TTAATCTTTGAGTTTTGGC
*
18713068 TTAATTTTTGAGTTTTGG
1 TTAATCTTTGAGTTTTGG
18713086 GTTTTTTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.05, G:0.24, T:0.57
Consensus pattern (19 bp):
TTAATCTTTGAGTTTTGGC
Found at i:18713558 original size:7 final size:6
Alignment explanation
Indices: 18713511--18713569 Score: 57
Period size: 6 Copynumber: 9.3 Consensus size: 6
18713501 CAATCATAGG
* *
18713511 TTTTCA TTTTCA TTTTTA TTTTTA TTTTTA TTTTTAAA TTTTTGA TTTATT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT--A TTTTT-A TTT-TTA
18713562 TTTTTA TT
1 TTTTTA TT
18713570 GTTTTTCATT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
5 2 0.04
6 33 0.70
7 4 0.09
8 8 0.17
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:18713834 original size:20 final size:20
Alignment explanation
Indices: 18713808--18713877 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
18713798 TGTAATTTAT
*
18713808 TATTTGCATGGCTATTAATA
1 TATTTGCATGACTATTAATA
* *
18713828 AATTTGCATGATTATTAACT-
1 TATTTGCATGACTATTAA-TA
*
18713848 TATTTGCATGACTACTAATA
1 TATTTGCATGACTATTAATA
*
18713868 TATTTACATG
1 TATTTGCATG
18713878 GCTACTATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 1 0.02
20 39 0.95
21 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (20 bp):
TATTTGCATGACTATTAATA
Found at i:18713882 original size:20 final size:20
Alignment explanation
Indices: 18713808--18713897 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
18713798 TGTAATTTAT
* *
18713808 TATTTGCATGGCTATTAATA
1 TATTTGCATGACTACTAATA
* * *
18713828 AATTTGCATGATTATTAACT-
1 TATTTGCATGACTACTAA-TA
18713848 TATTTGCATGACTACTAATA
1 TATTTGCATGACTACTAATA
* * *
18713868 TATTTACATGGCTACT-ATT
1 TATTTGCATGACTACTAATA
*
18713887 TTTTTGCATGA
1 TATTTGCATGA
18713898 TTTGTTGTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
19 11 0.20
20 44 0.79
21 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (20 bp):
TATTTGCATGACTACTAATA
Found at i:18713953 original size:14 final size:13
Alignment explanation
Indices: 18713925--18713961 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
18713915 TTATTAAATA
18713925 TTTGCATGATATT
1 TTTGCATGATATT
*
18713938 TTTGCATGTTTATT
1 TTTGCATG-ATATT
18713952 TTTGCATGAT
1 TTTGCATGAT
18713962 TTGTTACGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.19, C:0.08, G:0.16, T:0.57
Consensus pattern (13 bp):
TTTGCATGATATT
Found at i:18713974 original size:23 final size:23
Alignment explanation
Indices: 18713948--18713991 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
18713938 TTTGCATGTT
*
18713948 TATTTTT-GCATGATTTGTTACGA
1 TATTTTTGGAATGATTT-TTACGA
18713971 TATTTTTGGAATGATTTTTAC
1 TATTTTTGGAATGATTTTTAC
18713992 ATGATGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.23, C:0.07, G:0.16, T:0.55
Consensus pattern (23 bp):
TATTTTTGGAATGATTTTTACGA
Found at i:18720539 original size:11 final size:11
Alignment explanation
Indices: 18720525--18720557 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
18720515 AAACAAAATC
18720525 AAAAATGAAAA
1 AAAAATGAAAA
*
18720536 AAAAATGTAAA
1 AAAAATGAAAA
18720547 AAAAA-GAAAA
1 AAAAATGAAAA
18720557 A
1 A
18720558 GAGAGAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (11 bp):
AAAAATGAAAA
Found at i:18720876 original size:23 final size:21
Alignment explanation
Indices: 18720846--18720895 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 21
18720836 AAAGGTGTGG
18720846 AAAAATGTGCAAAGAAAAAAGAA
1 AAAAATGTGCAAA-AAAAAA-AA
18720869 AAAAATGTGCAAAAAAAAAAA
1 AAAAATGTGCAAAAAAAAAAA
18720890 AGAAAA
1 A-AAAA
18720896 GAAAATGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.12
22 10 0.38
23 13 0.50
ACGTcount: A:0.74, C:0.04, G:0.14, T:0.08
Consensus pattern (21 bp):
AAAAATGTGCAAAAAAAAAAA
Found at i:18720913 original size:25 final size:25
Alignment explanation
Indices: 18720856--18720914 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
18720846 AAAAATGTGC
*
18720856 AAAGAAAAAAGAAAAAAATGTGCAA
1 AAAGAAAAAAGAAAAAAATATGCAA
*
18720881 AAAAAAAAAAGAAAAGAAA-ATG-AA
1 AAAGAAAAAAGAAAA-AAATATGCAA
18720905 AAATGAAAAA
1 AAA-GAAAAA
18720915 TGAGGAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 5 0.17
25 21 0.72
26 3 0.10
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.07
Consensus pattern (25 bp):
AAAGAAAAAAGAAAAAAATATGCAA
Found at i:18722199 original size:86 final size:85
Alignment explanation
Indices: 18722004--18722241 Score: 284
Period size: 86 Copynumber: 2.8 Consensus size: 85
18721994 AATATTTATT
* * * * *
18722004 TTATTTTTCAAAAGTTTCAATGCCTTAGTTGTGAAGGAGCATTTTTTTTTTTTAAA--TTCAATG
1 TTATTTTTCAAAAGTTTCAATGCCTTAGTTGTGGAGAAGCATTTTATTTTTTAAAAGTTTCAATA
** * * *
18722067 CCTCAATTTTGGGGGAGCAT
66 CCTCAATCATGAGAGAGCAC
* * *
18722087 TTTTTTTTCAAAAGTTTCAATGCCTTAGTTATGGAGAAGCATTTTATTTTTTAAAAGTTTTAATA
1 TTATTTTTCAAAAGTTTCAATGCCTTAGTTGTGGAGAAGCATTTTATTTTTTAAAAGTTTCAATA
*
18722152 CCTCACTCATGAGAGAGCACC
66 CCTCAATCATGAGAGAGCA-C
* * *
18722173 TTATTTTTCAAAAGTTTCAATGCCTTAGTTGTGGGGCAA-CATTTTATTTTTTGAAAGTTTCAAA
1 TTATTTTTCAAAAGTTTCAATGCCTTAGTTGTGGAG-AAGCATTTTATTTTTTAAAAGTTTCAAT
18722237 ACCTC
65 ACCTC
18722242 TGTCGAAAAG
Statistics
Matches: 131, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
83 50 0.38
85 19 0.15
86 60 0.46
87 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (85 bp):
TTATTTTTCAAAAGTTTCAATGCCTTAGTTGTGGAGAAGCATTTTATTTTTTAAAAGTTTCAATA
CCTCAATCATGAGAGAGCAC
Found at i:18722220 original size:43 final size:42
Alignment explanation
Indices: 18722001--18722235 Score: 206
Period size: 43 Copynumber: 5.5 Consensus size: 42
18721991 TTAAATATTT
* *
18722001 ATTTTATTTTTCAAAAGTTTCAATGCCTTAGTTGTGAAGGAGC
1 ATTTTATTTTTCAAAAGTTTCAATGCCTTAGTTATG-GGGAGC
* ** * * *
18722044 ATTTTTTTTTTTTAAA--TTCAATGCCTCAATTTTGGGGGAGC
1 ATTTTATTTTTCAAAAGTTTCAATGCCTTAGTTAT-GGGGAGC
*
18722085 ATTTT-TTTTTCAAAAGTTTCAATGCCTTAGTTATGGAGAAGC
1 ATTTTATTTTTCAAAAGTTTCAATGCCTTAGTTATGG-GGAGC
* * * * * * *
18722127 ATTTTATTTTTTAAAAGTTTTAATACCTCACTCATGAGAGAGC
1 ATTTTATTTTTCAAAAGTTTCAATGCCTTAGTTATG-GGGAGC
** * *
18722170 ACCTTATTTTTCAAAAGTTTCAATGCCTTAGTTGTGGGGCAAC
1 ATTTTATTTTTCAAAAGTTTCAATGCCTTAGTTATGGGG-AGC
**
18722213 ATTTTATTTTTTGAAAGTTTCAA
1 ATTTTATTTTTCAAAAGTTTCAA
18722236 AACCTCTGTC
Statistics
Matches: 149, Mismatches: 36, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
40 8 0.05
41 26 0.17
42 26 0.17
43 88 0.59
44 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.44
Consensus pattern (42 bp):
ATTTTATTTTTCAAAAGTTTCAATGCCTTAGTTATGGGGAGC
Found at i:18722540 original size:6 final size:6
Alignment explanation
Indices: 18722531--18722557 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
18722521 TTATTTTTAT
18722531 TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
18722558 TGATTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:18722570 original size:18 final size:18
Alignment explanation
Indices: 18722529--18722570 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
18722519 TTTTATTTTT
18722529 ATTTTAAATTTAAATTTA
1 ATTTTAAATTTAAATTTA
* **
18722547 AATTTAAATTTTGATTTA
1 ATTTTAAATTTAAATTTA
18722565 ATTTTA
1 ATTTTA
18722571 TTTTTTTAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
ATTTTAAATTTAAATTTA
Found at i:18722971 original size:61 final size:61
Alignment explanation
Indices: 18722900--18723025 Score: 218
Period size: 61 Copynumber: 2.1 Consensus size: 61
18722890 AGTAAGCAAT
*
18722900 AAATATGATCAAACATATAGCAACAAGCAATTTCCAGAAGCAATAAGCAACAAGCAA-AAA
1 AAATAAGATCAAACATATAGCAACAAGCAATTTCCAGAAGCAATAAGCAACAAGCAAGAAA
*
18722960 GAAATAAGATCAAACATATAGCAACAAGCAATTTCCAGAAGTAATAAGCAACAAGCAAGAAA
1 -AAATAAGATCAAACATATAGCAACAAGCAATTTCCAGAAGCAATAAGCAACAAGCAAGAAA
18723022 AAAT
1 AAAT
18723026 CGGACGAGAA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
61 59 0.95
62 3 0.05
ACGTcount: A:0.56, C:0.17, G:0.13, T:0.15
Consensus pattern (61 bp):
AAATAAGATCAAACATATAGCAACAAGCAATTTCCAGAAGCAATAAGCAACAAGCAAGAAA
Found at i:18725131 original size:4 final size:4
Alignment explanation
Indices: 18725124--18725159 Score: 63
Period size: 4 Copynumber: 8.8 Consensus size: 4
18725114 TCTCTCTCTC
18725124 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTT
18725160 TGCTGTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:18725150 original size:13 final size:13
Alignment explanation
Indices: 18725124--18725160 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
18725114 TCTCTCTCTC
18725124 TTTATTTA-TTTA
1 TTTATTTATTTTA
18725136 TTTATTTATTTTA
1 TTTATTTATTTTA
18725149 TTTATTTATTTT
1 TTTATTTATTTT
18725161 GCTGTATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:18726672 original size:42 final size:43
Alignment explanation
Indices: 18726626--18726717 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 43
18726616 ATTTAAAATT
**
18726626 ATTAAATATTAT-TTTTTAAAAATAATTACATGAATAAATTGA
1 ATTAAATATTATATTCATAAAAATAATTACATGAATAAATTGA
* * * *
18726668 ATTAAATCTTCTATTCATAAAAATAATTACTTGCATAAATTGA
1 ATTAAATATTATATTCATAAAAATAATTACATGAATAAATTGA
*
18726711 ACTAAAT
1 ATTAAAT
18726718 CTCAGAGTCG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 10 0.24
43 32 0.76
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (43 bp):
ATTAAATATTATATTCATAAAAATAATTACATGAATAAATTGA
Found at i:18733206 original size:18 final size:18
Alignment explanation
Indices: 18733172--18733213 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
18733162 GCAACTCAAC
18733172 TTTTTT-TTCTTTTTTTA
1 TTTTTTATTCTTTTTTTA
18733189 TTTTTTATT-TTTTATTTA
1 TTTTTTATTCTTTT-TTTA
18733207 TTTTTTA
1 TTTTTTA
18733214 AAATTAGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTATTCTTTTTTTA
Found at i:18735018 original size:24 final size:26
Alignment explanation
Indices: 18734990--18735038 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
18734980 ATAAAAAGTA
*
18734990 TATATTT-TAT-TATTAATTTTATTT
1 TATATTTATATATATTAATTATATTT
*
18735014 TATATTTATATATATTTATTATATT
1 TATATTTATATATATTAATTATATT
18735039 AACAAAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
TATATTTATATATATTAATTATATTT
Found at i:18735029 original size:17 final size:18
Alignment explanation
Indices: 18734988--18735035 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
18734978 ATATAAAAAG
18734988 TATATATTTTATTATTAA
1 TATATATTTTATTATTAA
* *
18735006 T-TTTATTTTA-TATTTA
1 TATATATTTTATTATTAA
18735022 TATATA-TTTATTAT
1 TATATATTTTATTAT
18735036 ATTAACAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 10 0.40
17 14 0.56
18 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATATATTTTATTATTAA
Found at i:18735414 original size:23 final size:21
Alignment explanation
Indices: 18735370--18735462 Score: 66
Period size: 22 Copynumber: 4.3 Consensus size: 21
18735360 ATGAGTTATC
*
18735370 TTCTTTTATTTT-ATTTTT-T
1 TTCTTTTATTTTCCTTTTTCT
* *
18735389 TCT-TTATATTCTCCTTTTTCAT
1 T-TCTTTTATTTTCCTTTTTC-T
18735411 TTCTTTTATTTTCCCTTTTTCT
1 TTCTTTTATTTT-CCTTTTTCT
* *
18735433 TTGTTTCTATTTTCCTCTTCTTTT
1 TTCTTT-TATTTTCCT-TT-TTCT
18735457 TTCTTT
1 TTCTTT
18735463 CCATTTTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
19 8 0.14
20 6 0.11
21 1 0.02
22 18 0.32
23 16 0.28
24 8 0.14
ACGTcount: A:0.08, C:0.18, G:0.01, T:0.73
Consensus pattern (21 bp):
TTCTTTTATTTTCCTTTTTCT
Found at i:18735429 original size:22 final size:23
Alignment explanation
Indices: 18735383--18735462 Score: 78
Period size: 23 Copynumber: 3.5 Consensus size: 23
18735373 TTTTATTTTA
*
18735383 TTTT-TTTCTTTATATTCT-CCT
1 TTTTCTTTCTTTATATTTTCCCT
18735404 TTTTCATTTCTTT-TATTTTCCCT
1 TTTTC-TTTCTTTATATTTTCCCT
* *
18735427 TTTTCTTTGTTTCTATTTTCCTCT
1 TTTTCTTTCTTTATATTTTCC-CT
18735451 TCTTT-TTTCTTT
1 T-TTTCTTTCTTT
18735463 CCATTTTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
21 4 0.08
22 11 0.22
23 23 0.46
24 9 0.18
25 3 0.06
ACGTcount: A:0.06, C:0.20, G:0.01, T:0.72
Consensus pattern (23 bp):
TTTTCTTTCTTTATATTTTCCCT
Found at i:18736337 original size:20 final size:22
Alignment explanation
Indices: 18736277--18736338 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
18736267 TTTAGTTTTC
*
18736277 TTTTCTTTTCTTTTTTAGCCAT
1 TTTTTTTTTCTTTTTTAGCCAT
18736299 TTCTTTTATTT-TTGGTTTT-GCC-T
1 TT-TTTT-TTTCTT--TTTTAGCCAT
18736322 TTTTTTTTTCTTTTTTA
1 TTTTTTTTTCTTTTTTA
18736339 ATGAGATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 13
0.70 0.02 0.28
Matches are distributed among these distances:
20 4 0.12
21 3 0.09
22 8 0.24
23 8 0.24
24 6 0.18
25 4 0.12
ACGTcount: A:0.06, C:0.13, G:0.06, T:0.74
Consensus pattern (22 bp):
TTTTTTTTTCTTTTTTAGCCAT
Found at i:18738700 original size:4 final size:4
Alignment explanation
Indices: 18738693--18738726 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
18738683 TGATTTTATA
*
18738693 TATG TATG TATG TATA TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TA
18738727 CGAAAAGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:18738708 original size:16 final size:16
Alignment explanation
Indices: 18738689--18738723 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
18738679 TTTATGATTT
18738689 TATATATGTATGTATG
1 TATATATGTATGTATG
18738705 TATATATGTATGTATG
1 TATATATGTATGTATG
18738721 TAT
1 TAT
18738724 GTACGAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (16 bp):
TATATATGTATGTATG
Found at i:18739160 original size:8 final size:8
Alignment explanation
Indices: 18739147--18739171 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18739137 AATAAAAAAG
18739147 AAATTTAA
1 AAATTTAA
18739155 AAATTTAA
1 AAATTTAA
18739163 AAATTTAA
1 AAATTTAA
18739171 A
1 A
18739172 TAAAATGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAATTTAA
Found at i:18739696 original size:14 final size:16
Alignment explanation
Indices: 18739672--18739704 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
18739662 AATGGATTAA
18739672 ATTTTTAAAATA-TTT
1 ATTTTTAAAATACTTT
18739687 ATTTTT-AAATACTTT
1 ATTTTTAAAATACTTT
18739702 ATT
1 ATT
18739705 GGTTCAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTTTAAAATACTTT
Found at i:18740028 original size:10 final size:10
Alignment explanation
Indices: 18740013--18740057 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
18740003 TGTCCCAAGG
*
18740013 TCAAACTTGA
1 TCAAAATTGA
* *
18740023 TCAAACTTGG
1 TCAAAATTGA
18740033 TCAAAATTGA
1 TCAAAATTGA
*
18740043 TCAAAATTAA
1 TCAAAATTGA
18740053 TCAAA
1 TCAAA
18740058 TCGGATCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.29
Consensus pattern (10 bp):
TCAAAATTGA
Found at i:18742017 original size:46 final size:45
Alignment explanation
Indices: 18741932--18742072 Score: 160
Period size: 46 Copynumber: 3.1 Consensus size: 45
18741922 TTACATGTAT
* * * * *
18741932 CCTAAATCCAAACTTTAAAACTAAACCTCAAACCAAACCCTAAAC
1 CCTAAGTCCAAACCTTAAATCCAAACCTAAAACCAAACCCTAAAC
* *
18741977 TCTAA-TCCCAAACCTTAAATCCAAACTCTAAAACCAAACCCCAAAC
1 CCTAAGT-CCAAACCTTAAATCCAAAC-CTAAAACCAAACCCTAAAC
* *
18742023 CCTAAGTTCAAACCCTAAATCCAAACCTTAAAA-CAAACCCTAAAC
1 CCTAAGTCCAAACCTTAAATCCAAACC-TAAAACCAAACCCTAAAC
18742068 CCTAA
1 CCTAA
18742073 ATGAAAACCC
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
44 1 0.01
45 37 0.45
46 43 0.52
47 1 0.01
ACGTcount: A:0.47, C:0.35, G:0.01, T:0.18
Consensus pattern (45 bp):
CCTAAGTCCAAACCTTAAATCCAAACCTAAAACCAAACCCTAAAC
Found at i:18742020 original size:33 final size:33
Alignment explanation
Indices: 18741964--18742049 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 33
18741954 AAACCTCAAA
* * *
18741964 CCAAACCCT-AAACTCTAATCCCAAACCTTAAAT
1 CCAAACCCTAAAAC-CAAACCCCAAACCCTAAAT
* *
18741997 CCAAACTCTAAAACCAAACCCCAAACCCTAAGT
1 CCAAACCCTAAAACCAAACCCCAAACCCTAAAT
* *
18742030 TCAAACCCTAAATCCAAACC
1 CCAAACCCTAAAACCAAACC
18742050 TTAAAACAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 40 0.91
34 4 0.09
ACGTcount: A:0.44, C:0.38, G:0.01, T:0.16
Consensus pattern (33 bp):
CCAAACCCTAAAACCAAACCCCAAACCCTAAAT
Found at i:18742047 original size:13 final size:13
Alignment explanation
Indices: 18742017--18742066 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
18742007 AAACCAAACC
*
18742017 CCAAACCCTAAGT
1 CCAAACCCTAAAT
*
18742030 TCAAACCCTAAAT
1 CCAAACCCTAAAT
*
18742043 CCAAACCTTAAA-
1 CCAAACCCTAAAT
*
18742055 ACAAACCCTAAA
1 CCAAACCCTAAA
18742067 CCCTAAATGA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
12 10 0.32
13 21 0.68
ACGTcount: A:0.48, C:0.34, G:0.02, T:0.16
Consensus pattern (13 bp):
CCAAACCCTAAAT
Found at i:18742081 original size:32 final size:32
Alignment explanation
Indices: 18742032--18742098 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
18742022 CCCTAAGTTC
* *
18742032 AAACCCTAAATCCAAACCTTAAAAC-AAACCCT
1 AAACCCTAAATCAAAACCCT-AAACTAAACCCT
* *
18742064 AAACCCTAAATGAAAACCCTAACCTAAACCCT
1 AAACCCTAAATCAAAACCCTAAACTAAACCCT
18742096 AAA
1 AAA
18742099 TTAACCCCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 3 0.10
32 27 0.90
ACGTcount: A:0.51, C:0.33, G:0.01, T:0.15
Consensus pattern (32 bp):
AAACCCTAAATCAAAACCCTAAACTAAACCCT
Found at i:18742093 original size:6 final size:7
Alignment explanation
Indices: 18741966--18742098 Score: 52
Period size: 7 Copynumber: 20.4 Consensus size: 7
18741956 ACCTCAAACC
18741966 AAACCCT
1 AAACCCT
*
18741973 AAACTCT
1 AAACCCT
*
18741980 AATCCC-
1 AAACCCT
*
18741986 AAACCTT
1 AAACCCT
*
18741993 AAATCC-
1 AAACCCT
*
18741999 AAACTCT
1 AAACCCT
*
18742006 AAAACC-
1 AAACCCT
*
18742012 AAACCCC
1 AAACCCT
18742019 AAACCCT
1 AAACCCT
***
18742026 AAGTTC-
1 AAACCCT
18742032 AAACCCT
1 AAACCCT
*
18742039 AAATCC-
1 AAACCCT
*
18742045 AAACCTT
1 AAACCCT
*
18742052 AAA-AC-
1 AAACCCT
18742057 AAACCCT
1 AAACCCT
18742064 AAACCCT
1 AAACCCT
***
18742071 AAA-TGA
1 AAACCCT
18742077 AAACCCT
1 AAACCCT
18742084 -AA-CCT
1 AAACCCT
18742089 AAACCCT
1 AAACCCT
18742096 AAA
1 AAA
18742099 TTAACCCCAA
Statistics
Matches: 85, Mismatches: 31, Indels: 20
0.62 0.23 0.15
Matches are distributed among these distances:
5 6 0.07
6 28 0.33
7 51 0.60
ACGTcount: A:0.47, C:0.35, G:0.02, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:18742110 original size:18 final size:19
Alignment explanation
Indices: 18742089--18742135 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
18742079 ACCCTAACCT
*
18742089 AAACCCTAAATTAA-CCCC
1 AAACCCTAAACTAACCCCC
**
18742107 AAACTTTAAACTAACCCCC
1 AAACCCTAAACTAACCCCC
18742126 AAACCCTAAA
1 AAACCCTAAA
18742136 ACTTCAATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (19 bp):
AAACCCTAAACTAACCCCC
Found at i:18742190 original size:35 final size:34
Alignment explanation
Indices: 18742141--18742208 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 34
18742131 CTAAAACTTC
*
18742141 AATTGTCATACATTCAT-ATTTTATTATTCATGTTT
1 AATTGTCATACATTCATCA-TATATTATT-ATGTTT
*
18742176 AATTGTCATGCATTCATCATATATTATTATGTT
1 AATTGTCATACATTCATCATATATTATTATGTT
18742209 CATGCATACC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 5 0.17
35 24 0.80
36 1 0.03
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.51
Consensus pattern (34 bp):
AATTGTCATACATTCATCATATATTATTATGTTT
Found at i:18743082 original size:9 final size:9
Alignment explanation
Indices: 18743064--18743115 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
18743054 TTGTTTTCTT
18743064 AAAAAATGA
1 AAAAAATGA
*
18743073 AAAAATTGAA
1 AAAAAATG-A
18743083 AAAAAAT-A
1 AAAAAATGA
*
18743091 AAAAATAAGA
1 AAAAA-ATGA
18743101 AAAAAATGA
1 AAAAAATGA
18743110 AAAAAA
1 AAAAAA
18743116 GTTTTGATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 6 0.17
9 17 0.47
10 13 0.36
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.12
Consensus pattern (9 bp):
AAAAAATGA
Found at i:18743087 original size:18 final size:20
Alignment explanation
Indices: 18743064--18743114 Score: 72
Period size: 18 Copynumber: 2.7 Consensus size: 20
18743054 TTGTTTTCTT
*
18743064 AAAAAATGAAAAAAT-TGAA
1 AAAAAATGAAAAAATAAGAA
18743083 AAAAAAT-AAAAAATAAG-A
1 AAAAAATGAAAAAATAAGAA
18743101 AAAAAATGAAAAAA
1 AAAAAATGAAAAAA
18743115 AGTTTTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (20 bp):
AAAAAATGAAAAAATAAGAA
Found at i:18744186 original size:24 final size:24
Alignment explanation
Indices: 18744172--18744226 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
18744162 TTTTTTTCTT
*
18744172 ATTTATCTTTGATTTTTTTGGGTG
1 ATTTATCTTTGATTTTTTTGGCTG
**
18744196 ATTTATCTTTGATTTTTTTGTTTG
1 ATTTATCTTTGATTTTTTTGGCTG
18744220 ATTTATC
1 ATTTATC
18744227 ATTAGTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.15, C:0.05, G:0.15, T:0.65
Consensus pattern (24 bp):
ATTTATCTTTGATTTTTTTGGCTG
Found at i:18744235 original size:24 final size:24
Alignment explanation
Indices: 18744172--18744237 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
18744162 TTTTTTTCTT
*
18744172 ATTTATCTTTGATTTTTTTGGGTG
1 ATTTATCTTAGATTTTTTTGGGTG
* **
18744196 ATTTATCTTTGATTTTTTTGTTTG
1 ATTTATCTTAGATTTTTTTGGGTG
18744220 ATTTATCATTAG-TTTTTT
1 ATTTATC-TTAGATTTTTT
18744238 GATAACATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 35 0.92
25 3 0.08
ACGTcount: A:0.15, C:0.05, G:0.14, T:0.67
Consensus pattern (24 bp):
ATTTATCTTAGATTTTTTTGGGTG
Found at i:18746807 original size:66 final size:66
Alignment explanation
Indices: 18746701--18746842 Score: 250
Period size: 66 Copynumber: 2.2 Consensus size: 66
18746691 TGATATATTG
*
18746701 ATTATCTAACAATTTTGTTTGACTTTGTGCATTTGCATTATCATGTCATGCATCATTTTCATTGT
1 ATTATCTAACAATTTTGTTTGACTTTGTGCATTTACATTATCATGTCATGCATCATTTTCATTGT
18746766 C
66 C
*
18746767 ATTATCTAATAATTTTGTTTGACTTTGTGCATTTACATTATCATGTCATGCATCATTTTCATTGT
1 ATTATCTAACAATTTTGTTTGACTTTGTGCATTTACATTATCATGTCATGCATCATTTTCATTGT
18746832 C
66 C
*
18746833 A-TATTTAACA
1 ATTATCTAACA
18746843 TTATGTCTCT
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
65 7 0.10
66 65 0.90
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (66 bp):
ATTATCTAACAATTTTGTTTGACTTTGTGCATTTACATTATCATGTCATGCATCATTTTCATTGT
C
Found at i:18749365 original size:8 final size:8
Alignment explanation
Indices: 18749347--18749411 Score: 57
Period size: 7 Copynumber: 8.2 Consensus size: 8
18749337 GGAAGATATC
18749347 AAAAATG-
1 AAAAATGA
18749354 AAAAAT-A
1 AAAAATGA
18749361 AAAAATGAA
1 AAAAATG-A
*
18749370 AAAAAAGA
1 AAAAATGA
18749378 GAAAAA--A
1 -AAAAATGA
18749385 AGAAAATGA
1 A-AAAATGA
18749394 AAAAATGA
1 AAAAATGA
*
18749402 AAGAATGA
1 AAAAATGA
18749410 AA
1 AA
18749412 CAAAATGTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
6 1 0.02
7 17 0.35
8 17 0.35
9 14 0.29
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (8 bp):
AAAAATGA
Found at i:18749366 original size:14 final size:13
Alignment explanation
Indices: 18749347--18749398 Score: 63
Period size: 14 Copynumber: 4.0 Consensus size: 13
18749337 GGAAGATATC
18749347 AAAAATGAAAAATA
1 AAAAATGAAAAA-A
18749361 AAAAATG-AAAAA
1 AAAAATGAAAAAA
*
18749373 AAAGA-GAAAAAA
1 AAAAATGAAAAAA
18749385 AGAAAATGAAAAAA
1 A-AAAATGAAAAAA
18749399 TGAAAGAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 1 0.03
12 11 0.33
13 7 0.21
14 14 0.42
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.08
Consensus pattern (13 bp):
AAAAATGAAAAAA
Found at i:18750506 original size:21 final size:21
Alignment explanation
Indices: 18750482--18750539 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
18750472 TTGTGAATCC
18750482 TCAAATAAGAATCTTTGAGTT
1 TCAAATAAGAATCTTTGAGTT
*
18750503 TCAAATGAA-AATTTTTGAGTT
1 TCAAAT-AAGAATCTTTGAGTT
* *
18750524 TTAAATGAGAATCTTT
1 TCAAATAAGAATCTTT
18750540 AAGAAGAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 28 0.90
22 2 0.06
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (21 bp):
TCAAATAAGAATCTTTGAGTT
Found at i:18750609 original size:44 final size:44
Alignment explanation
Indices: 18750552--18750707 Score: 138
Period size: 44 Copynumber: 3.4 Consensus size: 44
18750542 GAAGAACTCA
18750552 AATGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTATTG
1 AATGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTATTG
* * * *
18750596 AATGTGAAACTTTGAACTCA-ACTTTTGGAAGCGAATCTCTAA-ATTT-TTG
1 AATGAGAACCTTTGAACTTAGA--TGT-G-A---AA-CTCTAAGATTTATTG
* *
18750645 AATAAGAACCTTTGAACTTAGATGTGAATCTCTTAAGATTTATTG
1 AATGAGAACCTTTGAACTTAGATGTGAAACTC-TAAGATTTATTG
* *
18750690 AATGTGAATCTTTGAACT
1 AATGAGAACCTTTGAACT
18750708 AAAATAAAGA
Statistics
Matches: 87, Mismatches: 13, Indels: 23
0.71 0.11 0.19
Matches are distributed among these distances:
42 3 0.03
43 5 0.06
44 21 0.24
45 20 0.23
46 2 0.02
47 2 0.02
48 2 0.02
49 19 0.22
50 7 0.08
51 6 0.07
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (44 bp):
AATGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTATTG
Found at i:18751026 original size:16 final size:16
Alignment explanation
Indices: 18750982--18751026 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
18750972 CGAAGCTAAA
*
18750982 AAATTTTATAAATATG
1 AAATTTTATGAATATG
18750998 AAATTTTATGAATATG
1 AAATTTTATGAATATG
*
18751014 AAATTTTACGAAT
1 AAATTTTATGAAT
18751027 CTTTAATTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (16 bp):
AAATTTTATGAATATG
Found at i:18751571 original size:177 final size:176
Alignment explanation
Indices: 18751264--18751625 Score: 476
Period size: 177 Copynumber: 2.1 Consensus size: 176
18751254 GATTTTGTAA
* * *
18751264 TTTTTCAAAGTTATTAAGCCTCTGCTTAGAGGAACTTTATTTATTTTTCCAAAGTTGTTGAGCAT
1 TTTTTCAAAGTCATTAAGCCTCTGATTAAAGGAACTTTATTTATTTTTCCAAAGTTGTTGAGCAT
* *
18751329 CTGGTTAAAGGAGCTTTATTTATTTTTCCAAAGTCATTGAGCCTCTGATTAGATGGGCCTTATTT
66 CTGGTTAAAGGAGCTTTATTTATTTTTCCAAAATCATTGAGCCTCTGATTAGATGAGCCTTATTT
* * **
18751394 ATTTTTCCAAAGTT-ATTGAGCCTCTATTTAGATGAGCTTTATTTATT
131 ATTTTTCCAAA-TTCATTGAACCTCTACTTAGATGAGCCATATTTA-T
* * * * *
18751441 TTTTTCAAAGTCATTAAGCCTTTGATTAAATGAGCTTTATTTATTTTTTCAAAGTTGTTGAGCCT
1 TTTTTCAAAGTCATTAAGCCTCTGATTAAAGGAACTTTATTTATTTTTCCAAAGTTGTTGAGCAT
* ** * * * *
18751506 CTGTTTAAAGGAGCTTTATTTATTTTTCCAAAATTGTTGTGCCTTTGTTTAGA-GAAGCTTTATT
66 CTGGTTAAAGGAGCTTTATTTATTTTTCCAAAATCATTGAGCCTCTGATTAGATG-AGCCTTATT
* *
18751570 TATTTTTTCAAATTCATTGAACCTCTGCTTAGATGAGCCATATTTAT
130 TATTTTTCCAAATTCATTGAACCTCTACTTAGATGAGCCATATTTAT
18751617 TTTTTCAAA
1 TTTTTCAAA
18751626 AGTTATGAGT
Statistics
Matches: 160, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
176 13 0.08
177 147 0.92
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (176 bp):
TTTTTCAAAGTCATTAAGCCTCTGATTAAAGGAACTTTATTTATTTTTCCAAAGTTGTTGAGCAT
CTGGTTAAAGGAGCTTTATTTATTTTTCCAAAATCATTGAGCCTCTGATTAGATGAGCCTTATTT
ATTTTTCCAAATTCATTGAACCTCTACTTAGATGAGCCATATTTAT
Found at i:18751628 original size:133 final size:133
Alignment explanation
Indices: 18751263--18751645 Score: 375
Period size: 133 Copynumber: 2.9 Consensus size: 133
18751253 AGATTTTGTA
* * ** * * * ** *
18751263 ATTTTT-CAAAGTTATTAAGCCTCTGCTTAGAGGAACTTTATTTA-TTTTTCCAAAGTTGTTGAG
1 ATTTTTCCAAAATTATTGAGCCTCTATTTAGATGAGCTTTATTTATTTTTTTCAAAGTCATTAAG
* * * ** * * *
18751326 CATCTGGTTAAAGGAGCTTTATTTATTTTTCCAAAGTCATTGAGCCTCTGATTAGATGGGCCTTA
66 CCTCTGATTAAATGAGCCATATTTATTTTTTCAAAGTTATTGAGCCTCTGATTAGAAGGGCCTTA
18751391 TTT
131 TTT
*
18751394 ATTTTTCCAAAGTTATTGAGCCTCTATTTAGATGAGCTTTATTTATTTTTTTCAAAGTCATTAAG
1 ATTTTTCCAAAATTATTGAGCCTCTATTTAGATGAGCTTTATTTATTTTTTTCAAAGTCATTAAG
* ** * * *
18751459 CCTTTGATTAAATGAGCTTTATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTA-AAGGAGCTTT
66 CCTCTGATTAAATGAGCCATATTTATTTTTTCAAAGTTATTGAGCCTCTGATTAGAAGG-GCCTT
18751523 ATTT
130 ATTT
* * * * *
18751527 ATTTTTCCAAAATTGTTGTGCCTTTGTTTAGA-GAAGCTTTATTTA-TTTTTTCAAATTCATTGA
1 ATTTTTCCAAAATTATTGAGCCTCTATTTAGATG-AGCTTTATTTATTTTTTTCAAAGTCATT-A
* * * *
18751590 A-CCTCTGCTTAGATGAGCCATATTTATTTTTTCAAAAGTTA-TGAGTCTCTGCTTAG
64 AGCCTCTGATTAAATGAGCCATATTTATTTTTTC-AAAGTTATTGAGCCTCTGATTAG
18751646 GAGAGTTTTG
Statistics
Matches: 212, Mismatches: 33, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
131 6 0.03
132 91 0.43
133 115 0.54
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (133 bp):
ATTTTTCCAAAATTATTGAGCCTCTATTTAGATGAGCTTTATTTATTTTTTTCAAAGTCATTAAG
CCTCTGATTAAATGAGCCATATTTATTTTTTCAAAGTTATTGAGCCTCTGATTAGAAGGGCCTTA
TTT
Found at i:18751641 original size:44 final size:44
Alignment explanation
Indices: 18751264--18751645 Score: 383
Period size: 44 Copynumber: 8.7 Consensus size: 44
18751254 GATTTTGTAA
* * * *
18751264 TTTTTCAAAGTTATTAAGCCTCTGCTTAGAGGAACTTTATTTAT
1 TTTTTCAAAGTTATTGAGCCTCTGTTTAGATGAGCTTTATTTAT
* * * * * *
18751308 TTTTCCAAAGTTGTTGAGCATCTGGTTAAAGGAGCTTTATTTAT
1 TTTTTCAAAGTTATTGAGCCTCTGTTTAGATGAGCTTTATTTAT
* * * * *
18751352 TTTTCCAAAGTCATTGAGCCTCTGATTAGATGGGCCTTATTTAT
1 TTTTTCAAAGTTATTGAGCCTCTGTTTAGATGAGCTTTATTTAT
* *
18751396 TTTTCCAAAGTTATTGAGCCTCTATTTAGATGAGCTTTATTTATT
1 TTTTTCAAAGTTATTGAGCCTCTGTTTAGATGAGCTTTATTTA-T
* * * * *
18751441 TTTTTCAAAGTCATTAAGCCTTTGATTAAATGAGCTTTATTTAT
1 TTTTTCAAAGTTATTGAGCCTCTGTTTAGATGAGCTTTATTTAT
* * *
18751485 TTTTTCAAAGTTGTTGAGCCTCTGTTTAAAGGAGCTTTATTTAT
1 TTTTTCAAAGTTATTGAGCCTCTGTTTAGATGAGCTTTATTTAT
* * * * *
18751529 TTTTCCAAAATTGTTGTGCCTTTGTTTAGA-GAAGCTTTATTTAT
1 TTTTTCAAAGTTATTGAGCCTCTGTTTAGATG-AGCTTTATTTAT
* * **
18751573 TTTTTCAAA-TTCATTGAACCTCTGCTTAGATGAGCCATATTTAT
1 TTTTTCAAAGTT-ATTGAGCCTCTGTTTAGATGAGCTTTATTTAT
* *
18751617 TTTTTCAAAAGTTA-TGAGTCTCTGCTTAG
1 TTTTTC-AAAGTTATTGAGCCTCTGTTTAG
18751646 GAGAGTTTTG
Statistics
Matches: 284, Mismatches: 48, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
43 3 0.01
44 237 0.83
45 42 0.15
46 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (44 bp):
TTTTTCAAAGTTATTGAGCCTCTGTTTAGATGAGCTTTATTTAT
Found at i:18751981 original size:25 final size:25
Alignment explanation
Indices: 18751940--18752007 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
18751930 TTTTATCTTT
*
18751940 TTTATCTTTGATATTTTTAG-GTGA
1 TTTATCTTTGATTTTTTTAGTGTGA
*
18751964 TTTATCTTTGACTTTTTTT-GTTTGA
1 TTTATCTTTGA-TTTTTTTAGTGTGA
*
18751989 TTTATCATT-AGTTTTTTTA
1 TTTATCTTTGA-TTTTTTTA
18752008 TAACATAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 20 0.54
25 17 0.46
ACGTcount: A:0.18, C:0.06, G:0.12, T:0.65
Consensus pattern (25 bp):
TTTATCTTTGATTTTTTTAGTGTGA
Found at i:18752549 original size:21 final size:20
Alignment explanation
Indices: 18752506--18752549 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
18752496 TTTGATGAAC
* *
18752506 TTTCGACGAACTTACCTAAA
1 TTTCGACAAACTTACCAAAA
18752526 TTTCGACAAACTTACCCAAAA
1 TTTCGACAAACTTA-CCAAAA
18752547 TTT
1 TTT
18752550 GGTGAAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (20 bp):
TTTCGACAAACTTACCAAAA
Found at i:18752856 original size:24 final size:24
Alignment explanation
Indices: 18752829--18752874 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
18752819 AGAGCCAAAA
18752829 TGAAGCTACCAAGCCGAGCCATGC
1 TGAAGCTACCAAGCCGAGCCATGC
18752853 TGAAGCTACCAAGCCGAGCCAT
1 TGAAGCTACCAAGCCGAGCCAT
18752875 TTTCATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.13
Consensus pattern (24 bp):
TGAAGCTACCAAGCCGAGCCATGC
Found at i:18752897 original size:5 final size:5
Alignment explanation
Indices: 18752883--18752912 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
18752873 ATTTTCATTT
*
18752883 TTTTA GTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
18752913 GGTTTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:18756909 original size:19 final size:18
Alignment explanation
Indices: 18756896--18756930 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18756886 CTTTTTTTAC
18756896 TTAATAAATATTTTTATA
1 TTAATAAATATTTTTATA
* *
18756914 TTTATATATATTTTTAT
1 TTAATAAATATTTTTAT
18756931 TATGGATAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTAATAAATATTTTTATA
Found at i:18757176 original size:26 final size:26
Alignment explanation
Indices: 18757142--18757194 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
18757132 ATCAAACTAT
* *
18757142 AAAGTAAAAAAG-ATATTAAATATAAA
1 AAAGGAAAAAAGTAAATTAAA-ATAAA
18757168 AAAGGAAAAAAGTAAATTAAAATAAA
1 AAAGGAAAAAAGTAAATTAAAATAAA
18757194 A
1 A
18757195 CTTAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (26 bp):
AAAGGAAAAAAGTAAATTAAAATAAA
Found at i:18758459 original size:20 final size:21
Alignment explanation
Indices: 18758434--18758473 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
18758424 ATAAAGTAAT
18758434 TTTTTTTATCTT-AATTTAAA
1 TTTTTTTATCTTAAATTTAAA
*
18758454 TTTTTTTATTTTAAATTTAA
1 TTTTTTTATCTTAAATTTAA
18758474 TATTAAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTTTATCTTAAATTTAAA
Found at i:18763744 original size:14 final size:15
Alignment explanation
Indices: 18763712--18763754 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
18763702 TTCAAATGTC
18763712 TATATCATATCATAGCA
1 TATAT-ATAT-ATAGCA
18763729 TATATATATATA-CA
1 TATATATATATAGCA
*
18763743 TATATCTATATA
1 TATATATATATA
18763755 TATTACAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 13 0.52
15 3 0.12
16 4 0.16
17 5 0.20
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (15 bp):
TATATATATATAGCA
Found at i:18764191 original size:73 final size:74
Alignment explanation
Indices: 18764100--18764243 Score: 245
Period size: 74 Copynumber: 2.0 Consensus size: 74
18764090 TTTTTAAGTC
* * * *
18764100 TAATATGTGCTACTTCA-TTTTTTTTTTCAATTTGTAAATTTTTATTCAAAGGTATATTACTTTT
1 TAATATGTGCTACTTCATTTTTTTTTTTCAATTTCTAAATTTCTATTCAAAGGTACATCACTTTT
18764164 CTTTTCCTA
66 CTTTTCCTA
18764173 TAATATGTGCTACTTCATTTTTTTTTTTCAATTTCTAAATTTCTATTCAAAGGTACATCACTTTT
1 TAATATGTGCTACTTCATTTTTTTTTTTCAATTTCTAAATTTCTATTCAAAGGTACATCACTTTT
18764238 CTTTTC
66 CTTTTC
18764244 TCTCTTTCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
73 17 0.26
74 49 0.74
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (74 bp):
TAATATGTGCTACTTCATTTTTTTTTTTCAATTTCTAAATTTCTATTCAAAGGTACATCACTTTT
CTTTTCCTA
Found at i:18766096 original size:17 final size:17
Alignment explanation
Indices: 18766074--18766114 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
18766064 ATGTATAACA
18766074 TTTAAAAGTCAA-ATAGC
1 TTTAAAA-TCAAGATAGC
*
18766091 TTTAAAATTAAGATAGC
1 TTTAAAATCAAGATAGC
18766108 TTTAAAA
1 TTTAAAA
18766115 AATTATATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (17 bp):
TTTAAAATCAAGATAGC
Found at i:18780515 original size:17 final size:16
Alignment explanation
Indices: 18780467--18780518 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
18780457 ATTTATAAAT
*
18780467 AAAAATTAATCACAAA
1 AAAAATTAATTACAAA
18780483 AAAGAATTAATT---AA
1 AAA-AATTAATTACAAA
18780497 AAAAATTAAATTACAAA
1 AAAAATT-AATTACAAA
18780514 AAAAA
1 AAAAA
18780519 ATAGTAGGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
13 4 0.13
14 9 0.30
16 3 0.10
17 14 0.47
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.21
Consensus pattern (16 bp):
AAAAATTAATTACAAA
Found at i:18782478 original size:30 final size:28
Alignment explanation
Indices: 18782439--18782532 Score: 91
Period size: 30 Copynumber: 3.2 Consensus size: 28
18782429 CCTAAATTCT
*
18782439 AAACTCTAAAATCAAAACCTTAAACCCTCCA
1 AAAC-CTAAAATAAAAACC-TAAACCCT-CA
**
18782470 AAACCTAAAACTAAAAACCTAAACCCTTT
1 AAACCTAAAA-TAAAAACCTAAACCCTCA
*
18782499 AAACCTTAAAATTAAAACCCTAAACCCT-A
1 AAACC-TAAAA-TAAAAACCTAAACCCTCA
18782528 AAACC
1 AAACC
18782533 AAATCCTAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
29 10 0.18
30 34 0.62
31 11 0.20
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (28 bp):
AAACCTAAAATAAAAACCTAAACCCTCA
Found at i:18782669 original size:14 final size:14
Alignment explanation
Indices: 18782650--18782679 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18782640 AAAACTCCAA
*
18782650 AATCTTGAAACCTT
1 AATCTTAAAACCTT
18782664 AATCTTAAAACCTT
1 AATCTTAAAACCTT
18782678 AA
1 AA
18782680 AGCAAGATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.33
Consensus pattern (14 bp):
AATCTTAAAACCTT
Found at i:18786478 original size:16 final size:16
Alignment explanation
Indices: 18786459--18786512 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
18786449 AAAAGCTTTG
*
18786459 TCATTTGTTCATTCAT
1 TCATTTGTCCATTCAT
**
18786475 TCATTAATCCATTCAT
1 TCATTTGTCCATTCAT
18786491 TCATTTGTCCATTCAT
1 TCATTTGTCCATTCAT
*
18786507 CCATTT
1 TCATTT
18786513 ATGTACCTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.22, C:0.24, G:0.04, T:0.50
Consensus pattern (16 bp):
TCATTTGTCCATTCAT
Found at i:18788147 original size:25 final size:26
Alignment explanation
Indices: 18788119--18788177 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
18788109 AAAAATGCTC
* *
18788119 TAAAAAAATGAAAAAAGA-TAAAAGA
1 TAAAAAAATAAAAAAAGAGAAAAAGA
18788144 TAAAAAAATAAAAAAAGAGAAAAAGA
1 TAAAAAAATAAAAAAAGAGAAAAAGA
*
18788170 GAAAAAAA
1 TAAAAAAA
18788178 ATTTGAGTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (26 bp):
TAAAAAAATAAAAAAAGAGAAAAAGA
Found at i:18788159 original size:18 final size:18
Alignment explanation
Indices: 18788129--18788177 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
18788119 TAAAAAAATG
* *
18788129 AAAAAAG-ATAAAAGATA
1 AAAAAAGAAAAAAAGAGA
*
18788146 AAAAAATAAAAAAAGAGA
1 AAAAAAGAAAAAAAGAGA
*
18788164 AAAAGAGAAAAAAA
1 AAAAAAGAAAAAAA
18788178 ATTTGAGTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (18 bp):
AAAAAAGAAAAAAAGAGA
Found at i:18788495 original size:4 final size:4
Alignment explanation
Indices: 18788486--18788559 Score: 53
Period size: 4 Copynumber: 17.8 Consensus size: 4
18788476 CATTAATATC
*
18788486 TTTA TTTA TTTA TTTA TTTA TTTA -TTA TCAATA TTTA TATGTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T--TTA TTTA T-T-TA -TTTA
* * *
18788534 TTTA TATA GTTA TATA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
18788560 TATAGTTTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
3 6 0.11
4 39 0.71
5 3 0.05
6 6 0.11
7 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:18788522 original size:21 final size:21
Alignment explanation
Indices: 18788453--18788579 Score: 64
Period size: 20 Copynumber: 5.8 Consensus size: 21
18788443 TTTTATGAAT
18788453 TTTATTTATTTATTATTACTATGCA
1 TTTATTTATTTATTA-TA-TAT--A
* * * *
18788478 TTAATATCTTTATT-TATTTA
1 TTTATTTATTTATTATATATA
18788498 TTTATTTATTTATTATCA-ATA
1 TTTATTTATTTATTAT-ATATA
18788519 TTTATATGTATTTTATT-TATATA
1 TTTAT-T-TA-TTTATTATATATA
* * *
18788542 GTTATATATTTATTATTTTATA
1 TTTATTTATTTATTA-TATATA
*
18788564 GTTTATGTA-TTATTAT
1 -TTTATTTATTTATTAT
18788580 TATTTTTTTG
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
20 18 0.22
21 11 0.14
22 16 0.20
23 18 0.22
24 6 0.08
25 11 0.14
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (21 bp):
TTTATTTATTTATTATATATA
Found at i:18788546 original size:23 final size:23
Alignment explanation
Indices: 18788520--18788580 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 23
18788510 TTATCAATAT
18788520 TTATATGTATT-TTATTTATATAG
1 TTATATGTATTATTATTT-TATAG
*
18788543 TTATATAT-TTATTATTTTATAG
1 TTATATGTATTATTATTTTATAG
18788565 TT-TATGTATTATTATT
1 TTATATGTATTATTATT
18788581 ATTTTTTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 4 0.12
22 17 0.50
23 13 0.38
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (23 bp):
TTATATGTATTATTATTTTATAG
Found at i:18788549 original size:25 final size:24
Alignment explanation
Indices: 18788521--18788585 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 24
18788511 TATCAATATT
18788521 TATATGTATTTTATTTATATAG-TTA
1 TATAT-TATTTTATTT-TATAGTTTA
*
18788546 TATATT-TATTATTTTATAGTTTA
1 TATATTATTTTATTTTATAGTTTA
*
18788569 TGTATTATTATTATTTT
1 TATATTATT-TTATTTT
18788586 TTTGTAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 5 0.15
23 15 0.44
24 2 0.06
25 12 0.35
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
TATATTATTTTATTTTATAGTTTA
Found at i:18788571 original size:44 final size:44
Alignment explanation
Indices: 18788486--18788580 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 44
18788476 CATTAATATC
* * * *
18788486 TTTATTTATTTATTTATTTATTTATTATCAATATTTATATGTAT
1 TTTATTTATATAGTTATATATTTATTATCAATAGTTATATGTAT
**
18788530 TTTATTTATATAGTTATATATTTATTATTTTATAGTT-TATGTAT
1 TTTATTTATATAGTTATATATTTATTA-TCAATAGTTATATGTAT
18788574 TATTATT
1 T-TTATT
18788581 ATTTTTTTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
44 32 0.74
45 11 0.26
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (44 bp):
TTTATTTATATAGTTATATATTTATTATCAATAGTTATATGTAT
Found at i:18789044 original size:19 final size:19
Alignment explanation
Indices: 18789008--18789044 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18788998 CAGTTTTCGA
**
18789008 TTGAATTTTTCGGTGAAAC
1 TTGAATTTTTCGACGAAAC
18789027 TTGAATTTTTCGACGAAA
1 TTGAATTTTTCGACGAAA
18789045 ATTTTGGCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (19 bp):
TTGAATTTTTCGACGAAAC
Found at i:18789126 original size:11 final size:11
Alignment explanation
Indices: 18789106--18789142 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
18789096 ATCCCAAAAA
18789106 TCGGTGAACTT
1 TCGGTGAACTT
18789117 TCGGCT-AACTT
1 TCGG-TGAACTT
18789128 TCGGTGAACTT
1 TCGGTGAACTT
18789139 TCGG
1 TCGG
18789143 GGAAATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.04
11 22 0.92
12 1 0.04
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (11 bp):
TCGGTGAACTT
Found at i:18789162 original size:20 final size:20
Alignment explanation
Indices: 18789137--18789176 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18789127 TTCGGTGAAC
18789137 TTTCGGGGAAATTTTCCAGA
1 TTTCGGGGAAATTTTCCAGA
* *
18789157 TTTCGGTGATATTTTCCAGA
1 TTTCGGGGAAATTTTCCAGA
18789177 ATCCGACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (20 bp):
TTTCGGGGAAATTTTCCAGA
Found at i:18789531 original size:13 final size:13
Alignment explanation
Indices: 18789515--18789556 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
18789505 TTTTTTTGGA
18789515 ATTTTTTTTATTT
1 ATTTTTTTTATTT
*
18789528 ATTTGTTTTATTT
1 ATTTTTTTTATTT
18789541 ATTTATTTTT-TTT
1 ATTT-TTTTTATTT
18789554 ATT
1 ATT
18789557 AGATTAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 22 0.85
14 4 0.15
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (13 bp):
ATTTTTTTTATTT
Found at i:18789551 original size:30 final size:30
Alignment explanation
Indices: 18789515--18789582 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
18789505 TTTTTTTGGA
* * * *
18789515 ATTTTTTTTATT-TATTTGTTTTATTTATTT
1 ATTTTTTTTATTAGATTAGATTTATTTA-AT
18789545 ATTTTTTTTATTAGATTAGATTTATTTAAT
1 ATTTTTTTTATTAGATTAGATTTATTTAAT
18789575 ATTTTTTT
1 ATTTTTTT
18789583 ATCTTTATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 21 0.64
31 12 0.36
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (30 bp):
ATTTTTTTTATTAGATTAGATTTATTTAAT
Found at i:18789554 original size:17 final size:17
Alignment explanation
Indices: 18789516--18789556 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
18789506 TTTTTTGGAA
18789516 TTTTT-TTTATTTATTT
1 TTTTTATTTATTTATTT
*
18789532 GTTTTATTTATTTATTT
1 TTTTTATTTATTTATTT
18789549 TTTTTATT
1 TTTTTATT
18789557 AGATTAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (17 bp):
TTTTTATTTATTTATTT
Found at i:18789635 original size:16 final size:16
Alignment explanation
Indices: 18789576--18789657 Score: 76
Period size: 16 Copynumber: 5.1 Consensus size: 16
18789566 TTATTTAATA
18789576 TTTTTTTATCTTTATCT
1 TTTTTTTATCTTTAT-T
* * *
18789593 TATTTTTATTTTTGTT
1 TTTTTTTATCTTTATT
**
18789609 TTACTTT-TCTTTATT
1 TTTTTTTATCTTTATT
18789624 TTTTTTTATCTTTATT
1 TTTTTTTATCTTTATT
* * *
18789640 TATTTTCATTTTTATT
1 TTTTTTTATCTTTATT
18789656 TT
1 TT
18789658 GTTCTATTTT
Statistics
Matches: 50, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
15 11 0.22
16 27 0.54
17 12 0.24
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.78
Consensus pattern (16 bp):
TTTTTTTATCTTTATT
Found at i:18789653 original size:42 final size:42
Alignment explanation
Indices: 18789586--18789667 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
18789576 TTTTTTTATC
*
18789586 TTTATCTTATTTTTATTTTTGTTTTACTTTTCTT-TATTTTTT
1 TTTATCTTATATTTATTTTTGTTTTA-TTTTCTTCTATTTTTT
*
18789628 TTTATCTT-TATTTATTTTCAT-TTTTATTTTGTTCTATTTT
1 TTTATCTTATATTTATTTT--TGTTTTATTTTCTTCTATTTT
18789668 CTTTAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
41 15 0.43
42 19 0.54
43 1 0.03
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.77
Consensus pattern (42 bp):
TTTATCTTATATTTATTTTTGTTTTATTTTCTTCTATTTTTT
Found at i:18789666 original size:16 final size:16
Alignment explanation
Indices: 18789618--18789667 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
18789608 TTTACTTTTC
* *
18789618 TTTATTTTTTTTTATC
1 TTTATTTTTTTCTATT
18789634 TTTATTTATTTTC-ATT
1 TTTATTT-TTTTCTATT
*
18789650 TTTATTTTGTTCTATT
1 TTTATTTTTTTCTATT
18789666 TT
1 TT
18789668 CTTTAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 4 0.14
16 21 0.72
17 4 0.14
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTATTTTTTTCTATT
Found at i:18789751 original size:59 final size:57
Alignment explanation
Indices: 18789684--18790252 Score: 766
Period size: 59 Copynumber: 9.7 Consensus size: 57
18789674 ATAAAAATCA
* *
18789684 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTTTC
*
18789743 TAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* ** *
18789800 AAAAAATGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGGAAATCAAAGTTTC
1 AAAAAAT-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
*
18789859 AAGAAAAATATTTTTGAGGAAAAGTT-AGAAGTATCAATTTTCCTTAAAAATAAATTTCC
1 -A-AAAAATATTTTTGAGGAAAAGTTGA-AAGTATCAATTTTCCTTAAAAATAAATTTTC
* *
18789918 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATTAATTTTCCTTAAAAATAAATTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * *
18789975 AAAAAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAATTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTTTC
* *
18790034 CAAAAATATTTTT-AGGGTAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * *
18790091 AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
1 --AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
* *
18790151 AAAAAAAAATATTTTTGAGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAATAAATTTCC
1 ---AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*
18790211 AAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
18790253 CTACACAAGA
Statistics
Matches: 455, Mismatches: 38, Indels: 35
0.86 0.07 0.07
Matches are distributed among these distances:
57 123 0.27
58 72 0.16
59 154 0.34
60 52 0.11
61 54 0.12
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (57 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:18795561 original size:42 final size:42
Alignment explanation
Indices: 18795486--18796082 Score: 855
Period size: 43 Copynumber: 14.1 Consensus size: 42
18795476 ATGATTGTCA
*
18795486 AGGAGCAATTTAC-TTTCTAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
18795527 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
* * *
18795569 AAGAGCAATTTAC-TTTCTAGAGTTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAG--TCGTGGTGCCTCTGTTTAG
* *
18795610 AAGAGCAATTTACTTTTCCAAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAAGTCGTGGTGCCTCTGTTTAG
*
18795653 AGGAGCAATTTACTTTTCAAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
* *
18795695 AGGAGTAATTTACTTTTCCAAAAGCCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAAGTCGTGGTGCCTCTGTTTAG
*
18795738 AGGAGCAATTTACTTTTCCAAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAAGTCGTGGTGCCTCTGTTTAG
*
18795781 AGGAGCAATTTAC-TTTCAAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
* * *
18795822 ATGAGCAATTTACTTTTCCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
* *
18795864 GGGAGCAATTTACTTTTTCAAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTAC-TTTTCAAAAGTCGTGGTGCCTCTGTTTAG
*
18795907 AGGACCAATTTACTTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTTCAAAAGTCGTGGTGCCTCTGTTTAG
*
18795950 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
* * *
18795992 GGGAGCAATTTACTTTCCAAAAGTCGTGGTGCCTTTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
* * *
18796034 AGGAGCAATTTATTTTGTTC-AAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTA-CTT-TTCAAAAGTCGTGGTGCCTCTGTTTAG
18796077 AGGAGC
1 AGGAGC
18796083 TTTGATAAAA
Statistics
Matches: 502, Mismatches: 42, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
41 84 0.17
42 197 0.39
43 219 0.44
44 2 0.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (42 bp):
AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
Found at i:18795803 original size:169 final size:169
Alignment explanation
Indices: 18795486--18796082 Score: 864
Period size: 169 Copynumber: 3.5 Consensus size: 169
18795476 ATGATTGTCA
*
18795486 AGGAGCAATTTAC-TTTCTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAA
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAA
* * * * * *
18795549 GTCGTGGTGCCTCTGTTTAGAAGAGCAATTTAC-TTTCTAGAGT-TTCGTTGCCTCTGTTTAGAA
66 GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCAT-GGTGCCTCTGTTTAGAG
*
18795612 GAGCAATTTACTTTTCCAAAAGTCATGGTGCCTCTGTTTAG
130 GAGCAATTTACTTTT-CAAAAGTCGTGGTGCCTCTGTTTAG
* * *
18795653 AGGAGCAATTTACTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGTAATTTACTTTTCCAAAA
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAA
*
18795718 GCCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAAGTCATGGTGCCTCTGTTTAGAG
66 GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAAGTCATGGTGCCTCTGTTTAGAG
*
18795783 GAGCAATTTAC-TTTCAAAAGTCGTGGTGCCTCTATTTAG
130 GAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
* * * *
18795822 ATGAGCAATTTACTTTTCCAAAGTTGTGGTGCCTCTGTTTAGGGGAGCAATTTACTTTTTCAAAA
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAA
* * *
18795887 GTCGTGGTGCCTCTATTTAGAGGACCAATTTACTTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAG
66 GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAAGTCATGGTGCCTCTGTTTAGAG
*
18795952 GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
130 GAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
* * * *
18795992 GGGAGCAATTTACTTTCCAAAAGTCGTGGTGCCTTTGTTTAGAGGAGCAATTTATTTTGTTC-AA
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT-TTCAAA
* *
18796056 AGTCGTTGAGCCTCTGTTTAGAGGAGC
65 AGTCGTGGTGCCTCTGTTTAGAGGAGC
18796083 TTTGATAAAA
Statistics
Matches: 386, Mismatches: 36, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
167 13 0.03
168 38 0.10
169 189 0.49
170 111 0.29
171 34 0.09
172 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (169 bp):
AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAA
GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCATGGTGCCTCTGTTTAGAGG
AGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
Found at i:18796372 original size:4 final size:4
Alignment explanation
Indices: 18796363--18796432 Score: 54
Period size: 4 Copynumber: 16.8 Consensus size: 4
18796353 CATTAATATC
18796363 TTTA TTTA TTTA TTTA TTTA -TTA TTAATA TTTA TATGTA TTTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA T-T-TA -TTTA TTTA
* * *
18796411 TATA GTTA TATA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTT
18796433 TATAGTTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
3 6 0.11
4 36 0.68
5 3 0.06
6 7 0.13
7 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:18796419 original size:23 final size:23
Alignment explanation
Indices: 18796380--18796455 Score: 79
Period size: 22 Copynumber: 3.4 Consensus size: 23
18796370 ATTTATTTAT
* *
18796380 TTATTA-TTAATATTTATATGTA
1 TTATTATTTTATAGTTATATGTA
*
18796402 TT-TTATTTATATAGTTATATAT-
1 TTATTATTT-TATAGTTATATGTA
18796424 TTATTATTTTATAGTT-TATGTA
1 TTATTATTTTATAGTTATATGTA
*
18796446 TTATTTTTTT
1 TTATTATTTT
18796456 TTTGTAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
21 7 0.16
22 22 0.49
23 16 0.36
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
TTATTATTTTATAGTTATATGTA
Found at i:18796444 original size:44 final size:44
Alignment explanation
Indices: 18796363--18796447 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
18796353 CATTAATATC
* * * *
18796363 TTTATTTATTTATTTATTTATTATTAATATTTATATGTATTTTA
1 TTTATATAGTTATATATTTATTATTAATAGTTATATGTATTTTA
*
18796407 TTTATATAGTTATATATTTATTATTTTATAGTT-TATGTATT
1 TTTATATAGTTATATATTTATTA-TTAATAGTTATATGTATT
18796448 ATTTTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 28 0.80
45 7 0.20
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (44 bp):
TTTATATAGTTATATATTTATTATTAATAGTTATATGTATTTTA
Found at i:18796456 original size:23 final size:21
Alignment explanation
Indices: 18796396--18796456 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 21
18796386 TTAATATTTA
* *
18796396 TATGTATTTTATTTATATAGT
1 TATGTATTTTTTTTTTATAGT
* *
18796417 TATATATTTATTATTTTATAGTT
1 TATGTATTT-TTTTTTTATAG-T
18796440 TATGTATTATTTTTTTT
1 TATGTATT-TTTTTTTT
18796457 TTGTAATATT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 8 0.26
22 8 0.26
23 14 0.45
24 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (21 bp):
TATGTATTTTTTTTTTATAGT
Found at i:18796905 original size:19 final size:19
Alignment explanation
Indices: 18796881--18796917 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
18796871 CAGTTTTCGA
18796881 TTGAATTTTTCGACGAAAC
1 TTGAATTTTTCGACGAAAC
18796900 TTGAATTTTTCGACGAAA
1 TTGAATTTTTCGACGAAA
18796918 ATTCCGACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (19 bp):
TTGAATTTTTCGACGAAAC
Found at i:18797172 original size:12 final size:12
Alignment explanation
Indices: 18797155--18797180 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18797145 CGCATTTTGT
18797155 CGAGACCCGACC
1 CGAGACCCGACC
18797167 CGAGACCCGACC
1 CGAGACCCGACC
18797179 CG
1 CG
18797181 TTTCCTGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.50, G:0.27, T:0.00
Consensus pattern (12 bp):
CGAGACCCGACC
Found at i:18797333 original size:13 final size:13
Alignment explanation
Indices: 18797317--18797359 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
18797307 TTTTTTTAGA
18797317 ATTTTTTTTATTT
1 ATTTTTTTTATTT
*
18797330 ATTTGTTTTATTT
1 ATTTTTTTTATTT
*
18797343 A-TTTATTTATTT
1 ATTTTTTTTATTT
18797355 ATTTT
1 ATTTT
18797360 ATTAGATTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (13 bp):
ATTTTTTTTATTT
Found at i:18797338 original size:17 final size:17
Alignment explanation
Indices: 18797317--18797362 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
18797307 TTTTTTTAGA
18797317 ATTTTTTTTATTTATTT
1 ATTTTTTTTATTTATTT
* *
18797334 GTTTTATTTATTTATTT
1 ATTTTTTTTATTTATTT
*
18797351 ATTTATTTTATT
1 ATTTTTTTTATT
18797363 AGATTAGATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (17 bp):
ATTTTTTTTATTTATTT
Found at i:18797347 original size:21 final size:21
Alignment explanation
Indices: 18797323--18797362 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18797313 TAGAATTTTT
*
18797323 TTTATTTATTTGTTTTATTTA
1 TTTATTTATTTATTTTATTTA
18797344 TTTATTTATTTATTTTATT
1 TTTATTTATTTATTTTATT
18797363 AGATTAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTATTTATTTATTTTATTTA
Found at i:18797377 original size:4 final size:4
Alignment explanation
Indices: 18797323--18797358 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
18797313 TAGAATTTTT
*
18797323 TTTA TTTA TTTGT TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTT
18797359 TATTAGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.90
5 3 0.10
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:18797405 original size:17 final size:16
Alignment explanation
Indices: 18797383--18797448 Score: 59
Period size: 17 Copynumber: 4.2 Consensus size: 16
18797373 TATTTAATAT
18797383 TTTTTATCTTTATCTTA
1 TTTTTATCTTTAT-TTA
* *
18797400 TTTTTATTTTTGTTT-
1 TTTTTATCTTTATTTA
*
18797415 TACTTT-TCTTTA-TT-
1 T-TTTTATCTTTATTTA
18797429 TTTTTATCTTTATTTA
1 TTTTTATCTTTATTTA
18797445 TTTT
1 TTTT
18797449 CACTTTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
13 3 0.08
14 9 0.23
15 7 0.18
16 9 0.23
17 11 0.28
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTTATCTTTATTTA
Found at i:18797405 original size:27 final size:27
Alignment explanation
Indices: 18797375--18797431 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
18797365 ATTAGATTTA
18797375 TTTAATATT-TTTTATCTTTATC-TTATT
1 TTTAATATTGTTTTA-CTTT-TCTTTATT
* *
18797402 TTTATTTTTGTTTTACTTTTCTTTATT
1 TTTAATATTGTTTTACTTTTCTTTATT
18797429 TTT
1 TTT
18797432 TTATCTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 2 0.08
27 19 0.73
28 5 0.19
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (27 bp):
TTTAATATTGTTTTACTTTTCTTTATT
Found at i:18797433 original size:18 final size:18
Alignment explanation
Indices: 18797397--18797448 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
18797387 TATCTTTATC
* *
18797397 TTATTTTTATTT-TTGTT
1 TTATCTTTATTTATTTTT
*
18797414 TTA-CTTTTCTTTATTTTT
1 TTATC-TTTATTTATTTTT
18797432 TTATCTTTATTTATTTT
1 TTATCTTTATTTATTTT
18797449 CACTTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 9 0.32
18 18 0.64
19 1 0.04
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (18 bp):
TTATCTTTATTTATTTTT
Found at i:18797468 original size:22 final size:22
Alignment explanation
Indices: 18797430--18797471 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18797420 TTCTTTATTT
18797430 TTTTATCTTTATTTATTTTCAC
1 TTTTATCTTTATTTATTTTCAC
*
18797452 TTTTAT-TTTGTTCTATTTTC
1 TTTTATCTTTATT-TATTTTC
18797472 TTTAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATCTTTATTTATTTTCAC
Done.