Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 27 of 84
Found at i:5991193 original size:2 final size:2
Alignment explanation
Indices: 5991186--5991222 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
5991176 TCTATTTCTT
5991186 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5991223 TTCATTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5993123 original size:413 final size:413
Alignment explanation
Indices: 5992356--5993183 Score: 1631
Period size: 413 Copynumber: 2.0 Consensus size: 413
5992346 TGTTATTATT
5992356 ATACTTAAAGCAATGTAGCTTGGAAAGAAATAACTTCAGTTGAACAATGTTTGCTTTTAGATTTT
1 ATACTTAAAGCAATGTAGCTTGGAAAGAAATAACTTCAGTTGAACAATGTTTGCTTTTAGATTTT
5992421 TTTTTTTAATTTTCCCATTTTATATGAAAAGGGAATTAAGAACTGTTGATCCTGTCGAAAACTTC
66 TTTTTTTAATTTTCCCATTTTATATGAAAAGGGAATTAAGAACTGTTGATCCTGTCGAAAACTTC
5992486 TTAATTCTTTTTTTTTTTTGTTGCATTAGGAAAGCATTGAGTAAAGTGTAGTTTCTATCTATTGG
131 TTAATTCTTTTTTTTTTTTGTTGCATTAGGAAAGCATTGAGTAAAGTGTAGTTTCTATCTATTGG
*
5992551 TTTTGAAAAGCTTTACTGTCTAAGAGGACCCAAAAAGGAAGTTAATTTTAGGAGGATAAAAGTAT
196 TTTTGAAAAGCTTTACTGTCTAAGAGGACCCAAAAAGGAAGTTAATTTTAAGAGGATAAAAGTAT
5992616 ATAAGAGTATTCAAAAGCAAAAGAAAATGGGGAAGAAGGCCAATAAAGGAAATGGTGGTTTTGAT
261 ATAAGAGTATTCAAAAGCAAAAGAAAATGGGGAAGAAGGCCAATAAAGGAAATGGTGGTTTTGAT
5992681 GGGGATGGTTATAACAAAAACGTATCGAGGCAGGTGACTGATGGGATTGGGAAATTTAAAAAATC
326 GGGGATGGTTATAACAAAAACGTATCGAGGCAGGTGACTGATGGGATTGGGAAATTTAAAAAATC
5992746 TTTCAAGCATTACAAGAATTCGG
391 TTTCAAGCATTACAAGAATTCGG
5992769 ATACTTAAAGCAATGTAGCTTGGAAAGAAATAACTTCAGTTGAACAATGTTTGCTTTTAGATTTT
1 ATACTTAAAGCAATGTAGCTTGGAAAGAAATAACTTCAGTTGAACAATGTTTGCTTTTAGA-TTT
5992834 TTTTTTTTAATTTTCCCATTTTATATGAAAAGGGAATTAAGAACTGTTGATCCTGTCGAAAACTT
65 TTTTTTTTAATTTTCCCATTTTATATGAAAAGGGAATTAAGAACTGTTGATCCTGTCGAAAACTT
5992899 CTTAATTCTTTTTTTTTTTTGTTGCATTAGGAAAGCATTGAGTAAAGTGTAGTTTCTATCTATTG
130 CTTAATTCTTTTTTTTTTTTGTTGCATTAGGAAAGCATTGAGTAAAGTGTAGTTTCTATCTATTG
5992964 GTTTTGAAAAGCTTTACTGTCTAAGAGGACCC-AAAAGGAAGTTAATTTTAAGAGGATAAAAGTA
195 GTTTTGAAAAGCTTTACTGTCTAAGAGGACCCAAAAAGGAAGTTAATTTTAAGAGGATAAAAGTA
5993028 TATAAGAGTATTCAAAAGCAAAAGAAAATGGGGAAGAAGGCCAATAAAGGAAATGGTGGTTTTGA
260 TATAAGAGTATTCAAAAGCAAAAGAAAATGGGGAAGAAGGCCAATAAAGGAAATGGTGGTTTTGA
5993093 TGGGGATGGTTATAACAAAAACGTATCGAGGCAGGTGACTGATGGGATTGGGAAATTTAAAAAAT
325 TGGGGATGGTTATAACAAAAACGTATCGAGGCAGGTGACTGATGGGATTGGGAAATTTAAAAAAT
5993158 CTTTCAAGCATTACAAGAATTCGG
390 CTTTCAAGCATTACAAGAATTCGG
5993182 AT
1 AT
5993184 TCACAAACAC
Statistics
Matches: 413, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
413 248 0.60
414 165 0.40
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (413 bp):
ATACTTAAAGCAATGTAGCTTGGAAAGAAATAACTTCAGTTGAACAATGTTTGCTTTTAGATTTT
TTTTTTTAATTTTCCCATTTTATATGAAAAGGGAATTAAGAACTGTTGATCCTGTCGAAAACTTC
TTAATTCTTTTTTTTTTTTGTTGCATTAGGAAAGCATTGAGTAAAGTGTAGTTTCTATCTATTGG
TTTTGAAAAGCTTTACTGTCTAAGAGGACCCAAAAAGGAAGTTAATTTTAAGAGGATAAAAGTAT
ATAAGAGTATTCAAAAGCAAAAGAAAATGGGGAAGAAGGCCAATAAAGGAAATGGTGGTTTTGAT
GGGGATGGTTATAACAAAAACGTATCGAGGCAGGTGACTGATGGGATTGGGAAATTTAAAAAATC
TTTCAAGCATTACAAGAATTCGG
Found at i:6010106 original size:6 final size:6
Alignment explanation
Indices: 6010097--6010128 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
6010087 CAAGGAAGAT
*
6010097 GAAGCA GAAGCA GAAGCA GAAGCG GAAGCA GA
1 GAAGCA GAAGCA GAAGCA GAAGCA GAAGCA GA
6010129 TACACCCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.38, T:0.00
Consensus pattern (6 bp):
GAAGCA
Found at i:6016550 original size:15 final size:15
Alignment explanation
Indices: 6016505--6016551 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
6016495 AAATATCATT
*
6016505 TTTTTATAATTAAAA
1 TTTTAATAATTAAAA
* *
6016520 TTATCAAAAATT-AAA
1 TT-TTAATAATTAAAA
6016535 TTTTAATAATTAAAA
1 TTTTAATAATTAAAA
6016550 TT
1 TT
6016552 AAAATTTTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
14 7 0.28
15 12 0.48
16 6 0.24
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTTAATAATTAAAA
Found at i:6017682 original size:2 final size:2
Alignment explanation
Indices: 6017675--6017700 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6017665 TTTATCATGA
6017675 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6017701 GATGAGGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6043244 original size:47 final size:48
Alignment explanation
Indices: 6043169--6043260 Score: 141
Period size: 47 Copynumber: 1.9 Consensus size: 48
6043159 ATAATCAAAC
* *
6043169 CAAATCATCGATCAATCATTAAAAATCATCTTAAATCATCTTTATATA
1 CAAATCATCGATCAATCATTAAAAATCATCATAAATCATCATTATATA
* *
6043217 CAAATCATGGATCAAT-ATTTAAAATCATCATAAATCATCATTAT
1 CAAATCATCGATCAATCATTAAAAATCATCATAAATCATCATTAT
6043261 CATTCGTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 25 0.62
48 15 0.38
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.35
Consensus pattern (48 bp):
CAAATCATCGATCAATCATTAAAAATCATCATAAATCATCATTATATA
Found at i:6078040 original size:41 final size:42
Alignment explanation
Indices: 6077983--6078066 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
6077973 TCCATGAGAG
*
6077983 AACATTCTTACAAATAAA-AAAACTTACATCTTCTTTCATTT
1 AACATTCTTACAAATAAATAAAACTTACATCTTCTTCCATTT
*
6078024 AACATTCTTGCAAATAAATAAAACTTACATCTTCTTCCATTT
1 AACATTCTTACAAATAAATAAAACTTACATCTTCTTCCATTT
6078066 A
1 A
6078067 CCATAAAAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 17 0.43
42 23 0.57
ACGTcount: A:0.40, C:0.20, G:0.01, T:0.38
Consensus pattern (42 bp):
AACATTCTTACAAATAAATAAAACTTACATCTTCTTCCATTT
Found at i:6080089 original size:30 final size:29
Alignment explanation
Indices: 6080045--6080104 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
6080035 TAACATTTAA
*
6080045 ATTTTTTTATTTTTTTG-TATTTTGAAATT
1 ATTTTTTGATTTTTTTGCT-TTTTGAAATT
*
6080074 ATTTTTATGATTTTTTTGCTTTTTGACATT
1 ATTTTT-TGATTTTTTTGCTTTTTGAAATT
6080104 A
1 A
6080105 AAAATCATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 6 0.22
30 20 0.74
31 1 0.04
ACGTcount: A:0.20, C:0.03, G:0.08, T:0.68
Consensus pattern (29 bp):
ATTTTTTGATTTTTTTGCTTTTTGAAATT
Found at i:6084461 original size:60 final size:60
Alignment explanation
Indices: 6084333--6084496 Score: 165
Period size: 60 Copynumber: 2.8 Consensus size: 60
6084323 ATTGATTATT
* * * * ** *
6084333 AAGA-TATTTTCGTAATTATAATAA-AGGGTATTATAATTATTTTTATCAATTTTGATGG
1 AAGAGTATTTTTGTAATTATAATAAGAGGATATTATAATAATTTTGATCAATCATGATAG
*
6084391 AAGAGTATTTTTGTAATTATAATAAGAAGATATTATAATAATTTTGATCAATCATGATAG
1 AAGAGTATTTTTGTAATTATAATAAGAGGATATTATAATAATTTTGATCAATCATGATAG
* * * *
6084451 TA-AGTAATTTT-TACGATTATAATTAGAGGGATATTATAGTAATTTT
1 AAGAGTATTTTTGTA--ATTATAATAAGA-GGATATTATAATAATTTT
6084497 AGTCCAATAC
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
58 6 0.07
59 27 0.31
60 39 0.44
61 16 0.18
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.44
Consensus pattern (60 bp):
AAGAGTATTTTTGTAATTATAATAAGAGGATATTATAATAATTTTGATCAATCATGATAG
Found at i:6095795 original size:2 final size:2
Alignment explanation
Indices: 6095790--6095821 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6095780 TGTGTGTGTG
6095790 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6095822 AGACAAAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6099115 original size:13 final size:13
Alignment explanation
Indices: 6099097--6099122 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6099087 ATATAATTTA
6099097 AATAATGTCAATT
1 AATAATGTCAATT
6099110 AATAATGTCAATT
1 AATAATGTCAATT
6099123 GTATTATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
AATAATGTCAATT
Found at i:6099570 original size:18 final size:18
Alignment explanation
Indices: 6099543--6099580 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6099533 TTGAATTTCA
*
6099543 AATATATTAAATATATTT
1 AATATATTAAAAATATTT
*
6099561 AATATTTTAAAAATATTT
1 AATATATTAAAAATATTT
6099579 AA
1 AA
6099581 ATAAATCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATATATTAAAAATATTT
Found at i:6100402 original size:6 final size:6
Alignment explanation
Indices: 6100391--6100415 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6100381 ATTTATTTGA
6100391 TAAAAT TAAAAT TAAAAT TAAAAT T
1 TAAAAT TAAAAT TAAAAT TAAAAT T
6100416 TTTAAACACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TAAAAT
Found at i:6103126 original size:14 final size:14
Alignment explanation
Indices: 6103103--6103132 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6103093 GGGTATATTG
*
6103103 AAATTGATAATAAT
1 AAATTAATAATAAT
6103117 AAATTAATAATAAT
1 AAATTAATAATAAT
6103131 AA
1 AA
6103133 GATAAATAAA
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:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AAATTAATAATAAT
Found at i:6103270 original size:2 final size:2
Alignment explanation
Indices: 6103265--6103292 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6103255 AAATAATCAC
6103265 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6103293 GCCATTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6106378 original size:11 final size:11
Alignment explanation
Indices: 6106364--6106388 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6106354 TCATATTTTA
6106364 TTATTTTATAT
1 TTATTTTATAT
6106375 TTATTTTATAT
1 TTATTTTATAT
6106386 TTA
1 TTA
6106389 AAACATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTTTATAT
Found at i:6106501 original size:35 final size:36
Alignment explanation
Indices: 6106455--6106539 Score: 109
Period size: 37 Copynumber: 2.4 Consensus size: 36
6106445 AAAATATATG
*
6106455 TTTTTTATTTTTACCAAA-TTTAAATGTTTCTTTTT
1 TTTTTTATTTTTACCAAACTATAAATGTTTCTTTTT
* * *
6106490 TTTTTTGTTTTTACCAAACCTATAAGTGTTTTTTTTT
1 TTTTTTATTTTTACCAAA-CTATAAATGTTTCTTTTT
*
6106527 TTTTTTAATTTTA
1 TTTTTTATTTTTA
6106540 AACTTTATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 17 0.40
37 25 0.60
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (36 bp):
TTTTTTATTTTTACCAAACTATAAATGTTTCTTTTT
Found at i:6106816 original size:29 final size:29
Alignment explanation
Indices: 6106752--6106862 Score: 100
Period size: 29 Copynumber: 3.7 Consensus size: 29
6106742 ATATTAAATG
*
6106752 TTTATTTAAGTATA-AAATAAAAGATTAAGAA
1 TTTATTT-AG-ATACAAATAAAA-ATTAAAAA
* *
6106783 TTTATTTGGATACAAATTAAAATTAAAAA
1 TTTATTTAGATACAAATAAAAATTAAAAA
* *
6106812 TTTATTTAGATGC-AATAAAAATGTACAAA
1 TTTATTTAGATACAAATAAAAAT-TAAAAA
* *
6106841 TTTATTTAAATAAAGAATAAAA
1 TTTATTTAGATACA-AATAAAA
6106863 TTCAAAGGCT
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
28 8 0.12
29 36 0.55
30 8 0.12
31 14 0.21
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (29 bp):
TTTATTTAGATACAAATAAAAATTAAAAA
Found at i:6108095 original size:13 final size:13
Alignment explanation
Indices: 6108077--6108105 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6108067 ACCCTTTAAG
6108077 AATCCACATCACT
1 AATCCACATCACT
6108090 AATCCACATCACT
1 AATCCACATCACT
6108103 AAT
1 AAT
6108106 ACGGCGAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (13 bp):
AATCCACATCACT
Found at i:6111348 original size:1 final size:1
Alignment explanation
Indices: 6111342--6111370 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
6111332 TGATTGTAGG
6111342 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6111371 AAGTTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6112026 original size:17 final size:17
Alignment explanation
Indices: 6112004--6112044 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6111994 ATTTTAGTTT
6112004 AAAAAATTAAAACATAA
1 AAAAAATTAAAACATAA
* *
6112021 AAAAAATTAAGATATAA
1 AAAAAATTAAAACATAA
6112038 AATAAAA
1 AA-AAAA
6112045 AACTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAAAATTAAAACATAA
Found at i:6112114 original size:14 final size:15
Alignment explanation
Indices: 6112088--6112122 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
6112078 TTTTATTTTT
*
6112088 ATTAAATTAAAAATA
1 ATTAAATTAAAAAAA
6112103 ATTAAA-TAAAAAAA
1 ATTAAATTAAAAAAA
6112117 ATTAAA
1 ATTAAA
6112123 AATTACAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
ATTAAATTAAAAAAA
Found at i:6118584 original size:132 final size:133
Alignment explanation
Indices: 6118373--6118639 Score: 484
Period size: 132 Copynumber: 2.0 Consensus size: 133
6118363 AGCATTTCAC
6118373 TTACATTTTTTTTACTACAATTTTATAATTATGTAATTAAAATAAAAAATTATATAAAAATTCAT
1 TTACATTTTTTTTACTACAATTTTATAATTATGTAATTAAAATAAAAAATTATATAAAAATTCAT
* *
6118438 CATTTATAAATATGAATTTTATAAACAAATTTAATCAATTTTACATAATTTTAAATTATAATTGA
66 CATTTATAAATATGAATTTTATAAA-AAATTTAATCAATTTGAAATAATTTTAAATTATAATTGA
6118503 GTAA
130 GTAA
6118507 TTACA-TTTTTTTACTACAATTTTATAATTATGTAATTAAAAT-AAAAATTATATAAAAATTCAT
1 TTACATTTTTTTTACTACAATTTTATAATTATGTAATTAAAATAAAAAATTATATAAAAATTCAT
*
6118570 CATTTATAAATATGAATTTTATAAAAAATTTAATGAATTTGAAATAATTTTAAATTATAATTGAG
66 CATTTATAAATATGAATTTTATAAAAAATTTAATCAATTTGAAATAATTTTAAATTATAATTGAG
6118635 TAA
131 TAA
6118638 TT
1 TT
6118640 GTGTATGTGA
Statistics
Matches: 130, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
131 42 0.32
132 46 0.35
133 37 0.28
134 5 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (133 bp):
TTACATTTTTTTTACTACAATTTTATAATTATGTAATTAAAATAAAAAATTATATAAAAATTCAT
CATTTATAAATATGAATTTTATAAAAAATTTAATCAATTTGAAATAATTTTAAATTATAATTGAG
TAA
Found at i:6119434 original size:32 final size:32
Alignment explanation
Indices: 6119351--6119434 Score: 107
Period size: 32 Copynumber: 2.6 Consensus size: 32
6119341 TGGGAATATA
* * *
6119351 TATTATATTGTGGGTATAAAGATAGAGATGTG
1 TATTATATTGTAGGTATAAGGATAGAAATGTG
*
6119383 TATTATATTATAGGTATAAGGAT-GAAAATGTG
1 TATTATATTGTAGGTATAAGGATAG-AAATGTG
*
6119415 TATTATATTGTAAGTATAAG
1 TATTATATTGTAGGTATAAG
6119435 ATTGGAATTG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 1 0.02
32 44 0.98
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.39
Consensus pattern (32 bp):
TATTATATTGTAGGTATAAGGATAGAAATGTG
Found at i:6119600 original size:23 final size:24
Alignment explanation
Indices: 6119562--6119611 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 24
6119552 GATTTTTTTA
6119562 TTAAATAATATAAATT-AT-TATT
1 TTAAATAATATAAATTAATATATT
6119584 TTAAATTAAT-TAGAATTAATATATT
1 TTAAA-TAATATA-AATTAATATATT
6119609 TTA
1 TTA
6119612 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 7 0.29
23 8 0.33
24 2 0.08
25 7 0.29
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TTAAATAATATAAATTAATATATT
Found at i:6119627 original size:20 final size:20
Alignment explanation
Indices: 6119602--6119639 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6119592 ATTAGAATTA
* *
6119602 ATATATTTTATTAAAAAAAT
1 ATATATGTTAATAAAAAAAT
6119622 ATATATGTTAATAAAAAA
1 ATATATGTTAATAAAAAA
6119640 TTACCTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
ATATATGTTAATAAAAAAAT
Found at i:6122398 original size:54 final size:54
Alignment explanation
Indices: 6122339--6122464 Score: 202
Period size: 54 Copynumber: 2.3 Consensus size: 54
6122329 ATCAGACATC
*
6122339 CTGCTGCAGTGCCTAGAGTAGCCACTGCATTAGTTAGAACCGAAG-CAGATTCGG
1 CTGCTGCAGTGCCTAGAGTAGCCACTGCATTAGTTAGAACCGAAGCCA-ATTCGA
*
6122393 CTGCTGCAGTGCCTACG-GTAGCCACTGCATTAGTTAGGACCGAAGCCAATTCGA
1 CTGCTGCAGTGCCTA-GAGTAGCCACTGCATTAGTTAGAACCGAAGCCAATTCGA
6122447 CTGCTGCAGTGCCTAGAG
1 CTGCTGCAGTGCCTAGAG
6122465 CAGATCACGA
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
53 1 0.01
54 63 0.94
55 3 0.04
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (54 bp):
CTGCTGCAGTGCCTAGAGTAGCCACTGCATTAGTTAGAACCGAAGCCAATTCGA
Found at i:6123475 original size:22 final size:23
Alignment explanation
Indices: 6123433--6123476 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
6123423 AAAATTAATT
6123433 TAATAAGATATTAGATTTATATA
1 TAATAAGATATTAGATTTATATA
6123456 TAATCAAGATA-TA-ATTTATAT
1 TAAT-AAGATATTAGATTTATAT
6123477 TAAAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 6 0.30
24 6 0.30
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (23 bp):
TAATAAGATATTAGATTTATATA
Found at i:6124081 original size:31 final size:29
Alignment explanation
Indices: 6124008--6124084 Score: 75
Period size: 31 Copynumber: 2.6 Consensus size: 29
6123998 AGTTTCATTT
*
6124008 TTTTAATGTTAAAAAATAAAAAAAATATA
1 TTTTAATGTTAAAAAATAAAAAAAATAAA
* * *
6124037 TATAATATTTTAAAAATATAAAAAATAA-AAA
1 TTTTA-ATGTTAAAAA-ATAAAAAA-AATAAA
6124068 TTTTAGATGTTAAAAAA
1 TTTTA-ATGTTAAAAAA
6124085 ATGATATAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
29 3 0.08
30 10 0.27
31 22 0.59
32 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (29 bp):
TTTTAATGTTAAAAAATAAAAAAAATAAA
Found at i:6124331 original size:29 final size:29
Alignment explanation
Indices: 6124287--6124344 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
6124277 TTTCATAAAC
6124287 TTCATTGATGACTATTTTTATGAAAAAAT
1 TTCATTGATGACTATTTTTATGAAAAAAT
* *
6124316 TTCATTGATGATTATTTTTATGAAGAAAT
1 TTCATTGATGACTATTTTTATGAAAAAAT
6124345 AAAAGAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (29 bp):
TTCATTGATGACTATTTTTATGAAAAAAT
Found at i:6126439 original size:21 final size:21
Alignment explanation
Indices: 6126413--6126454 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6126403 AAAGATTATT
*
6126413 GGCAGCAAGAGTTGATGATGC
1 GGCAGCAAGAGTTGATAATGC
*
6126434 GGCAGCAGGAGTTGATAATGC
1 GGCAGCAAGAGTTGATAATGC
6126455 AGAATCAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.14, G:0.38, T:0.19
Consensus pattern (21 bp):
GGCAGCAAGAGTTGATAATGC
Found at i:6133594 original size:13 final size:12
Alignment explanation
Indices: 6133578--6133611 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
6133568 ATTTTAATTA
6133578 TATTATTTATATT
1 TATTATTTATA-T
6133591 TATTATTTATAT
1 TATTATTTATAT
6133603 TATT-TTTAT
1 TATTATTTAT
6133612 CGTATTTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.24
12 5 0.24
13 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TATTATTTATAT
Found at i:6134259 original size:2 final size:2
Alignment explanation
Indices: 6134252--6134284 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
6134242 AGAATTACAA
6134252 AT AT AT AT AT AT AT AGT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
6134285 CTTTTATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6134273 original size:15 final size:15
Alignment explanation
Indices: 6134253--6134281 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6134243 GAATTACAAA
6134253 TATATATATATATAG
1 TATATATATATATAG
6134268 TATATATATATATA
1 TATATATATATATA
6134282 TATCTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TATATATATATATAG
Found at i:6142669 original size:18 final size:17
Alignment explanation
Indices: 6142647--6142695 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
6142637 TTTTATTTGG
6142647 TTTAAATCAAATTTAAA
1 TTTAAATCAAATTTAAA
*
6142664 TATTAAAT-ATATATTAAA
1 T-TTAAATCAAAT-TTAAA
*
6142682 TTTGAATCAAATTT
1 TTTAAATCAAATTT
6142696 TAGATCAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (17 bp):
TTTAAATCAAATTTAAA
Found at i:6142754 original size:17 final size:18
Alignment explanation
Indices: 6142729--6142770 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
6142719 AAAAATTGAA
*
6142729 TTATATATATTTTTAATTT
1 TTATATATA-TTTAAATTT
6142748 TTATATATATTTAAATTT
1 TTATATATATTTAAATTT
6142766 TTATA
1 TTATA
6142771 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATATATTTAAATTT
Found at i:6142808 original size:22 final size:22
Alignment explanation
Indices: 6142789--6142830 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
6142779 ATAATAAATT
6142789 TATATCAAAA-TTTAT-TTAAA
1 TATATCAAAATTTTATCTTAAA
*
6142809 TATATTAAAATTTTATCTTAAA
1 TATATCAAAATTTTATCTTAAA
6142831 ATAATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 5 0.26
22 5 0.26
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
TATATCAAAATTTTATCTTAAA
Found at i:6142853 original size:20 final size:20
Alignment explanation
Indices: 6142828--6142868 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
6142818 ATTTTATCTT
*
6142828 AAAAT-AATATATAAAAATTA
1 AAAATAAATAAAT-AAAATTA
6142848 AAAATAAATAAATAAAATTA
1 AAAATAAATAAATAAAATTA
6142868 A
1 A
6142869 TAAAATTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAATAAATAAATAAAATTA
Found at i:6144605 original size:2 final size:2
Alignment explanation
Indices: 6144592--6144628 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
6144582 CAGTGAAAAG
*
6144592 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6144629 CTTGTTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6149220 original size:25 final size:25
Alignment explanation
Indices: 6149192--6149261 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
6149182 AAATAATATA
*
6149192 AAAAATATAAAAT-TGATATGATTTT
1 AAAAATATAAAATAT-ATATGAATTT
* *
6149217 AAAATTAAAAAATATATATGAATTT
1 AAAAATATAAAATATATATGAATTT
*
6149242 AATAAAAATAAAA-ATATATG
1 AA-AAATATAAAATATATATG
6149262 TTTTGTAGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
25 29 0.78
26 8 0.22
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (25 bp):
AAAAATATAAAATATATATGAATTT
Found at i:6150639 original size:22 final size:19
Alignment explanation
Indices: 6150612--6150676 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 19
6150602 AATATTAACT
6150612 TAATAAAAAATACTACATTTA
1 TAATAAAAAATA-TA-ATTTA
*
6150633 TGCATAATTAAAATATAATTTA
1 T-AATAA--AAAATATAATTTA
*
6150655 TAAT-AAAAATAATATTTTA
1 TAATAAAAAAT-ATAATTTA
6150674 TAA
1 TAA
6150677 ATATTATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
18 5 0.14
19 10 0.27
20 1 0.03
21 3 0.08
22 10 0.27
23 2 0.05
24 6 0.16
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (19 bp):
TAATAAAAAATATAATTTA
Found at i:6150663 original size:18 final size:19
Alignment explanation
Indices: 6150636--6150676 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
6150626 ACATTTATGC
*
6150636 ATAATTAAAAT-ATAATTT
1 ATAATAAAAATAATAATTT
*
6150654 ATAATAAAAATAATATTTT
1 ATAATAAAAATAATAATTT
6150673 ATAA
1 ATAA
6150677 ATATTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAATAAAAATAATAATTT
Found at i:6150706 original size:19 final size:18
Alignment explanation
Indices: 6150674--6150712 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
6150664 TAATATTTTA
*
6150674 TAAATATTATATTAAGTT
1 TAAATATTAAATTAAGTT
*
6150692 TAAATTATTAAATTAATTT
1 TAAA-TATTAAATTAAGTT
6150711 TA
1 TA
6150713 GATCGAGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TAAATATTAAATTAAGTT
Found at i:6150796 original size:17 final size:18
Alignment explanation
Indices: 6150760--6150797 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6150750 ATATAGTTGG
* *
6150760 ATAATATTTTAATATCAA
1 ATAAGATTTAAATATCAA
6150778 ATAAGATTTAAATAT-AA
1 ATAAGATTTAAATATCAA
6150795 ATA
1 ATA
6150798 TTAAGAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (18 bp):
ATAAGATTTAAATATCAA
Found at i:6151191 original size:29 final size:28
Alignment explanation
Indices: 6151156--6151250 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 28
6151146 GTTAAAATAA
*
6151156 TAAATAATTTTTAAAATTTATCATTTATT
1 TAAATAATTTTTAAAATTT-TAATTTATT
* * *
6151185 TAAATAAATTTTT-ATATTTTTATTATATC
1 TAAAT-AATTTTTAAAATTTTAATT-TATT
* *
6151214 TAAATAAGTGTTAAAATTTTAATTTCATT
1 TAAATAATTTTTAAAATTTTAATTT-ATT
6151243 CTAAATAA
1 -TAAATAA
6151251 GTTCTTAACC
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
28 10 0.19
29 29 0.55
30 14 0.26
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (28 bp):
TAAATAATTTTTAAAATTTTAATTTATT
Found at i:6157158 original size:34 final size:33
Alignment explanation
Indices: 6157120--6157190 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
6157110 ATCGATTTTT
* * *
6157120 AATTTTAAAATTTTTATGTATTATTGTGATATAA
1 AATTTTAAAATATTTAAGTA-AATTGTGATATAA
* *
6157154 AATTTTAATATATTTAAGTAAATTTTGATATAA
1 AATTTTAAAATATTTAAGTAAATTGTGATATAA
6157187 AATT
1 AATT
6157191 ATTATTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 15 0.47
34 17 0.53
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (33 bp):
AATTTTAAAATATTTAAGTAAATTGTGATATAA
Found at i:6157278 original size:16 final size:17
Alignment explanation
Indices: 6157249--6157282 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6157239 ATATAATTGG
*
6157249 GTTTGTTTTGATTTTTT
1 GTTTGTTTTAATTTTTT
6157266 GTTT-TTTTAATTTTTT
1 GTTTGTTTTAATTTTTT
6157282 G
1 G
6157283 ATCTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (17 bp):
GTTTGTTTTAATTTTTT
Found at i:6160346 original size:18 final size:17
Alignment explanation
Indices: 6160323--6160370 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
6160313 AATTATAACT
6160323 TTTTTTTAATATTTAAAA
1 TTTTTTT-ATATTTAAAA
6160341 -TTTTTTAT-TTTAAAA
1 TTTTTTTATATTTAAAA
6160356 TGATTTTTTATATTT
1 T--TTTTTTATATTT
6160371 TTATTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.27
16 2 0.08
17 6 0.23
18 8 0.31
19 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTTTTATATTTAAAA
Found at i:6160352 original size:15 final size:17
Alignment explanation
Indices: 6160324--6160370 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
6160314 ATTATAACTT
6160324 TTTTTTAATATTTAAAA
1 TTTTTTAATATTTAAAA
6160341 TTTTTT-AT-TTTAAAA
1 TTTTTTAATATTTAAAA
*
6160356 TGATTTTTTATATTT
1 T--TTTTTAATATTT
6160371 TTATTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.31
16 2 0.08
17 11 0.42
18 2 0.08
19 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTTTAATATTTAAAA
Found at i:6160432 original size:7 final size:7
Alignment explanation
Indices: 6160420--6160467 Score: 62
Period size: 7 Copynumber: 6.7 Consensus size: 7
6160410 AATTTTATAA
6160420 AAAATTT
1 AAAATTT
6160427 AAAATTT
1 AAAATTT
6160434 AAAATTT
1 AAAATTT
6160441 AAAATTT
1 AAAATTT
*
6160448 AATA-TT
1 AAAATTT
6160454 AAACATATT
1 AAA-AT-TT
6160463 AAAAT
1 AAAAT
6160468 CAAAAAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
6 4 0.11
7 25 0.69
8 2 0.06
9 5 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (7 bp):
AAAATTT
Found at i:6165534 original size:14 final size:14
Alignment explanation
Indices: 6165517--6165547 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6165507 CTTCTCCCTT
6165517 CCCCCTCCCACCTC
1 CCCCCTCCCACCTC
*
6165531 CCCCCTCCCTCCTC
1 CCCCCTCCCACCTC
6165545 CCC
1 CCC
6165548 TTATTCCCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.03, C:0.81, G:0.00, T:0.16
Consensus pattern (14 bp):
CCCCCTCCCACCTC
Found at i:6165571 original size:16 final size:17
Alignment explanation
Indices: 6165535--6165572 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
6165525 CACCTCCCCC
*
6165535 CTCCCTCCTCCCCTTAT
1 CTCCCTCATCCCCTTAT
6165552 -TCCCTCATCCCCTT-T
1 CTCCCTCATCCCCTTAT
6165567 CTCCCT
1 CTCCCT
6165573 GACTCCGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 1 0.05
16 18 0.95
ACGTcount: A:0.05, C:0.58, G:0.00, T:0.37
Consensus pattern (17 bp):
CTCCCTCATCCCCTTAT
Found at i:6168954 original size:27 final size:28
Alignment explanation
Indices: 6168907--6168986 Score: 117
Period size: 27 Copynumber: 2.9 Consensus size: 28
6168897 TAAAATCATT
* *
6168907 ACTTGTAAGATTTCAACCAATCTTTTGC
1 ACTTGTAAGATTTCAAACAATCATTTGC
* *
6168935 CCTTGTAA-AATTCAAACAATCATTTGC
1 ACTTGTAAGATTTCAAACAATCATTTGC
6168962 ACTTGTAAGATTTCAAACAATCATT
1 ACTTGTAAGATTTCAAACAATCATT
6168987 CTTAACCAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 23 0.51
28 22 0.49
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (28 bp):
ACTTGTAAGATTTCAAACAATCATTTGC
Found at i:6170743 original size:16 final size:16
Alignment explanation
Indices: 6170722--6170761 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6170712 ATCATTAAAA
*
6170722 ATCATCGTAAATCATC
1 ATCATCATAAATCATC
*
6170738 ATCATCATAAATCGTC
1 ATCATCATAAATCATC
*
6170754 ATTATCAT
1 ATCATCAT
6170762 TGGTTTATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.35
Consensus pattern (16 bp):
ATCATCATAAATCATC
Found at i:6172465 original size:13 final size:13
Alignment explanation
Indices: 6172436--6172469 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
6172426 CAAAACGATC
*
6172436 AAATTAA-AATTA
1 AAATTAATAATCA
6172448 AAATTAATAATCA
1 AAATTAATAATCA
6172461 AAATTAATA
1 AAATTAATA
6172470 GATTAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATTAATAATCA
Found at i:6172551 original size:14 final size:14
Alignment explanation
Indices: 6172528--6172559 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6172518 TTTTAATAAA
6172528 TTTT-GATATATAT
1 TTTTAGATATATAT
6172541 TTTTAGATATATAT
1 TTTTAGATATATAT
6172555 TTTTA
1 TTTTA
6172560 ATAAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (14 bp):
TTTTAGATATATAT
Found at i:6190258 original size:11 final size:12
Alignment explanation
Indices: 6190217--6190252 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
6190207 ACCACGGCAC
6190217 TTGATACCATTT
1 TTGATACCATTT
*
6190229 TTGATATCATTT
1 TTGATACCATTT
6190241 TTGATACCATTT
1 TTGATACCATTT
6190253 CTATACACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.25, C:0.14, G:0.08, T:0.53
Consensus pattern (12 bp):
TTGATACCATTT
Found at i:6191004 original size:21 final size:21
Alignment explanation
Indices: 6190980--6191074 Score: 136
Period size: 21 Copynumber: 4.5 Consensus size: 21
6190970 GGACGGTGAG
* *
6190980 TCATAACTAAGGTACAATGAC
1 TCATCACTATGGTACAATGAC
*
6191001 TCATTACTATGGTACAATGAC
1 TCATCACTATGGTACAATGAC
*
6191022 TCATTACTATGGTACAATGAC
1 TCATCACTATGGTACAATGAC
* *
6191043 TCATCATTATGGTACGATGAC
1 TCATCACTATGGTACAATGAC
6191064 TCATCACTATG
1 TCATCACTATG
6191075 ACTCATACTA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 68 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (21 bp):
TCATCACTATGGTACAATGAC
Found at i:6199926 original size:21 final size:21
Alignment explanation
Indices: 6199902--6199953 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
6199892 GGACGGTGAG
6199902 TCATAACTA-AGGTACAATGAC
1 TCATAACTATA-GTACAATGAC
* *
6199923 TCATTACTATAGTACGATGAC
1 TCATAACTATAGTACAATGAC
*
6199944 TCATCACTAT
1 TCATAACTAT
6199954 GACTCATACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.31
Consensus pattern (21 bp):
TCATAACTATAGTACAATGAC
Found at i:6201448 original size:21 final size:21
Alignment explanation
Indices: 6201424--6201490 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
6201414 GGACGGTGAG
*
6201424 TCATAATTAAGGTACAATAAC
1 TCATTATTAAGGTACAATAAC
*
6201445 TCATTACTATA-GTACAATAAC
1 TCATTATTA-AGGTACAATAAC
* * *
6201466 TTATTATTATGGTACAGTAAC
1 TCATTATTAAGGTACAATAAC
6201487 TCAT
1 TCAT
6201491 CACTATGATA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 36 0.97
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (21 bp):
TCATTATTAAGGTACAATAAC
Found at i:6201497 original size:21 final size:21
Alignment explanation
Indices: 6201434--6201518 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
6201424 TCATAATTAA
*
6201434 GGTACAATAACTCATTACTAT
1 GGTACAATAACTCATCACTAT
* * * *
6201455 AGTACAATAACTTATTATTAT
1 GGTACAATAACTCATCACTAT
*
6201476 GGTACAGTAACTCATCACTAT
1 GGTACAATAACTCATCACTAT
* ** *
6201497 GATACGGTGACTCATCACTAT
1 GGTACAATAACTCATCACTAT
6201518 G
1 G
6201519 ACTCATACTA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (21 bp):
GGTACAATAACTCATCACTAT
Found at i:6209903 original size:15 final size:15
Alignment explanation
Indices: 6209885--6209927 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6209875 TTAGTAAAAA
* *
6209885 TATTGATAAAATTTT
1 TATTGATTAAATTTG
*
6209900 TATTG-TTAAATTAG
1 TATTGATTAAATTTG
6209914 TATTGATTAAATTT
1 TATTGATTAAATTT
6209928 AAATTATAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (15 bp):
TATTGATTAAATTTG
Found at i:6210031 original size:11 final size:12
Alignment explanation
Indices: 6210002--6210030 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
6209992 ATTTATTGAT
6210002 TTAAAATTTTTA
1 TTAAAATTTTTA
6210014 TTAAAATTTTTA
1 TTAAAATTTTTA
6210026 TTAAA
1 TTAAA
6210031 TCATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTAAAATTTTTA
Found at i:6212891 original size:52 final size:52
Alignment explanation
Indices: 6212820--6212944 Score: 178
Period size: 52 Copynumber: 2.4 Consensus size: 52
6212810 TATAACCATA
* *
6212820 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTATAAGT
1 CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTACAAGT
* * * * *
6212872 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTTTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTACAAGT
*
6212924 CAAACTTACCTATTAAGAATC
1 CAAACTTGCCTATTAAGAATC
6212945 TTCTTTCTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTACAAGT
Found at i:6212962 original size:52 final size:52
Alignment explanation
Indices: 6212820--6212976 Score: 160
Period size: 52 Copynumber: 3.0 Consensus size: 52
6212810 TATAACCATA
* * * ** **
6212820 CAAACTTGCCCATTAAGAATCCCTCTCCTCTT-AGAATTCTTCTCCTATAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCT-TTGAGAATTCTTCTTTTGCAAGT
* *
6212872 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTT-TTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCTTTGAGAATTCTTCTT-TTGCAAGT
*
6212924 CAAACTTACCTATTAAGAATCTTCTTT-CTCTTGA-AATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATC-CCTTTCCT-TTGAGAATTCTTCTTTTGCAAGT
6212976 C
1 C
6212977 TTCTTGTCCA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
51 3 0.03
52 79 0.87
53 9 0.10
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.40
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCCTTTCCTTTGAGAATTCTTCTTTTGCAAGT
Found at i:6213330 original size:50 final size:50
Alignment explanation
Indices: 6213276--6213388 Score: 138
Period size: 50 Copynumber: 2.3 Consensus size: 50
6213266 CCACATCTTA
* **
6213276 AACCTTCAGCTCTTCCCACGTCTTGAA-CTTTTGACTCTTCTCACGTTTCG
1 AACCTTCAGCTCTTCCCACATCTTGAATC-TTCAACTCTTCTCACGTTTCG
** *
6213326 AACCTTCAGCTCTTTTCATATCTTGAATCTTCAACTCTTCTCACGTTTCG
1 AACCTTCAGCTCTTCCCACATCTTGAATCTTCAACTCTTCTCACGTTTCG
* *
6213376 AATCTTTAGCTCT
1 AACCTTCAGCTCT
6213389 GATACCACTT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
50 53 0.98
51 1 0.02
ACGTcount: A:0.19, C:0.31, G:0.10, T:0.41
Consensus pattern (50 bp):
AACCTTCAGCTCTTCCCACATCTTGAATCTTCAACTCTTCTCACGTTTCG
Found at i:6213338 original size:25 final size:25
Alignment explanation
Indices: 6213258--6213388 Score: 97
Period size: 25 Copynumber: 5.2 Consensus size: 25
6213248 TCTTAAACCA
* * *
6213258 AGCTCTTCCCACATCTTAAACCTTC
1 AGCTCTTCTCACGTCTTGAACCTTC
* *
6213283 AGCTCTTCCCACGTCTTGAA-CTTT
1 AGCTCTTCTCACGTCTTGAACCTTC
*
6213307 TGACTCTTCTCACGT-TTCGAACCTTC
1 AG-CTCTTCTCACGTCTT-GAACCTTC
* ** *
6213333 AGCTCTTTTCATATCTTGAATCTTC
1 AGCTCTTCTCACGTCTTGAACCTTC
* * *
6213358 AACTCTTCTCACGT-TTCGAATCTTT
1 AGCTCTTCTCACGTCTT-GAACCTTC
6213383 AGCTCT
1 AGCTCT
6213389 GATACCACTT
Statistics
Matches: 84, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
24 8 0.10
25 70 0.83
26 6 0.07
ACGTcount: A:0.19, C:0.32, G:0.09, T:0.40
Consensus pattern (25 bp):
AGCTCTTCTCACGTCTTGAACCTTC
Found at i:6213421 original size:31 final size:31
Alignment explanation
Indices: 6213383--6213466 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
6213373 TCGAATCTTT
* *
6213383 AGCTCTGATACCACTTGTTGGGAAACATCAC
1 AGCTCTGATACCATTTGTTGGGAAACACCAC
* * * *
6213414 AGCTCTGATACCATTTATTGAGAAATACCAT
1 AGCTCTGATACCATTTGTTGGGAAACACCAC
*
6213445 AGCTCTAATACCATTTGTTGGG
1 AGCTCTGATACCATTTGTTGGG
6213467 CTAAAAGCCT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (31 bp):
AGCTCTGATACCATTTGTTGGGAAACACCAC
Found at i:6214103 original size:52 final size:52
Alignment explanation
Indices: 6213951--6214107 Score: 185
Period size: 52 Copynumber: 3.0 Consensus size: 52
6213941 TATAACCATA
* * ** **
6213951 CAAACTTGCCCATTAAGAATCC-CTCTCCTCTTAGAATTCTTCTCCTATAAGT
1 CAAACTTGCCTATTAAGAATCCTCT-TTCTCTTAGAATTCTTCTTTTGCAAGT
*
6214003 CAAACTTGCCTATTAAGAAT-CTCTTTCCTTTTAGAATTCTT-TTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCTCTTT-CTCTTAGAATTCTTCTT-TTGCAAGT
* *
6214055 CAAACTTACCTATTATGAATCCTCTTTCTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCTCTTTCTCTTAGAATTCTTCTTTTGCAAGT
6214107 C
1 C
6214108 TTTTTGTTCA
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
51 3 0.03
52 79 0.88
53 8 0.09
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.41
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCTCTTTCTCTTAGAATTCTTCTTTTGCAAGT
Found at i:6229705 original size:3 final size:3
Alignment explanation
Indices: 6229697--6229731 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6229687 ATAAATTATG
6229697 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6229732 CTATAACGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6230617 original size:21 final size:22
Alignment explanation
Indices: 6230568--6230623 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
6230558 ATGTTAAGAT
6230568 AAATTAATAGAT-TTTAATACAA
1 AAATTAATA-ATATTTAATACAA
6230590 AAATTAATAATATTTAA-A-AA
1 AAATTAATAATATTTAATACAA
*
6230610 ATAATTAAAAATAT
1 A-AATTAATAATAT
6230624 AGTTTATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 3 0.10
21 14 0.45
22 14 0.45
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AAATTAATAATATTTAATACAA
Found at i:6230694 original size:26 final size:25
Alignment explanation
Indices: 6230652--6230702 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
6230642 AATTTATATC
6230652 TTTTTATATAAAAATTTGA-TCAAAA
1 TTTTTATATAAAAATTT-ATTCAAAA
6230677 TTTTTACTA-AAAATATTTATTCAAAA
1 TTTTTA-TATAAAA-ATTTATTCAAAA
6230703 ATATATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (25 bp):
TTTTTATATAAAAATTTATTCAAAA
Found at i:6230786 original size:24 final size:23
Alignment explanation
Indices: 6230759--6230820 Score: 56
Period size: 24 Copynumber: 2.7 Consensus size: 23
6230749 AAATATTTCA
6230759 ATAAATTAATTTTACTTTTTAATT
1 ATAAATTAATTTTACTTTTTAA-T
* * *
6230783 ATAATTTTATTTAATAATTTTTAAT
1 ATAAATTAATTT--TACTTTTTAAT
6230808 A-AAA-TAATTTTAC
1 ATAAATTAATTTTAC
6230821 AAATTTCACT
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
21 2 0.07
23 5 0.17
24 12 0.40
25 2 0.07
26 9 0.30
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (23 bp):
ATAAATTAATTTTACTTTTTAAT
Found at i:6230800 original size:19 final size:18
Alignment explanation
Indices: 6230752--6230802 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
6230742 TATAATAAAA
*
6230752 TATTTCAATAAATTAATTT
1 TATTT-AATAATTTAATTT
*
6230771 TACTTT-TTAATTATAATTT
1 TA-TTTAATAATT-TAATTT
6230790 TATTTAATAATTT
1 TATTTAATAATTT
6230803 TTAATAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
18 8 0.31
19 15 0.58
20 3 0.12
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTTAATAATTTAATTT
Found at i:6231455 original size:14 final size:16
Alignment explanation
Indices: 6231418--6231452 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
6231408 TAATGTATCA
*
6231418 TATAATTAAAATTTTT
1 TATATTTAAAATTTTT
6231434 TATATTTAAAATTTTT
1 TATATTTAAAATTTTT
6231450 TAT
1 TAT
6231453 TTACTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATTTAAAATTTTT
Found at i:6231989 original size:27 final size:26
Alignment explanation
Indices: 6231947--6231997 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
6231937 CATTAAGGTG
*
6231947 ATTTTATTATTCATAATT-TAAATTT
1 ATTTTATTATTAATAATTATAAATTT
6231972 ATTTTATTTAATTAATAATTATAAAT
1 ATTTTA-TT-ATTAATAATTATAAAT
6231998 ATTTAGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 2 0.09
27 9 0.41
28 5 0.23
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTTATTATTAATAATTATAAATTT
Found at i:6234311 original size:12 final size:12
Alignment explanation
Indices: 6234290--6234322 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
6234280 TGTCATCGTC
*
6234290 ATCATTATCATT
1 ATCATCATCATT
6234302 ATCATCATCATT
1 ATCATCATCATT
6234314 ATCATCATC
1 ATCATCATC
6234323 TATCTTACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (12 bp):
ATCATCATCATT
Found at i:6245500 original size:16 final size:16
Alignment explanation
Indices: 6245478--6245516 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6245468 TTTCGATAAC
6245478 AGTTGTTTCATAAAGG
1 AGTTGTTTCATAAAGG
* **
6245494 TGTTGTTTTGTAAAGG
1 AGTTGTTTCATAAAGG
6245510 AGTTGTT
1 AGTTGTT
6245517 CCTTGAATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.03, G:0.28, T:0.46
Consensus pattern (16 bp):
AGTTGTTTCATAAAGG
Found at i:6250470 original size:18 final size:18
Alignment explanation
Indices: 6250436--6250471 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6250426 ATAAAAGTAA
* *
6250436 TAAAAAAAAATTTAAAAT
1 TAAAAAAAAAATGAAAAT
6250454 TAAAAAAAAAATGAAAAT
1 TAAAAAAAAAATGAAAAT
6250472 CCGACATAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
TAAAAAAAAAATGAAAAT
Found at i:6250822 original size:6 final size:6
Alignment explanation
Indices: 6250806--6250845 Score: 71
Period size: 6 Copynumber: 6.5 Consensus size: 6
6250796 CTTTTACTCT
6250806 CCCTGAA CCCTAA CCCTAA CCCTAA CCCTAA CCCTAA CCC
1 CCCT-AA CCCTAA CCCTAA CCCTAA CCCTAA CCCTAA CCC
6250846 AAGCCCAAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 29 0.88
7 4 0.12
ACGTcount: A:0.30, C:0.53, G:0.03, T:0.15
Consensus pattern (6 bp):
CCCTAA
Found at i:6269392 original size:2 final size:2
Alignment explanation
Indices: 6269385--6269411 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6269375 TAGCCTAGAC
6269385 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6269412 AAATTAAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6271310 original size:18 final size:17
Alignment explanation
Indices: 6271275--6271328 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
6271265 CAAGAAATTG
6271275 AAAGAGAGAAGAAGTGAA
1 AAAGA-AGAAGAAGTGAA
*
6271293 GAAGAAGAAGAAGATGAA
1 AAAGAAGAAGAAG-TGAA
*
6271311 AAAGAA-AAGCAGTGAA
1 AAAGAAGAAGAAGTGAA
6271327 AA
1 AA
6271329 GTTGAGTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 6 0.19
17 13 0.41
18 13 0.41
ACGTcount: A:0.63, C:0.02, G:0.30, T:0.06
Consensus pattern (17 bp):
AAAGAAGAAGAAGTGAA
Found at i:6273085 original size:19 final size:19
Alignment explanation
Indices: 6273061--6273104 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
6273051 TATTTTTATT
6273061 TTTTAAAATTTTCCCTGTA
1 TTTTAAAATTTTCCCTGTA
**
6273080 TTTTAACTTTTTCCCTGTA
1 TTTTAAAATTTTCCCTGTA
6273099 TTTTAA
1 TTTTAA
6273105 CTCTGTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTAAAATTTTCCCTGTA
Found at i:6273105 original size:19 final size:19
Alignment explanation
Indices: 6273069--6273106 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6273059 TTTTTTAAAA
6273069 TTTTCCCTGTATTTTAACT
1 TTTTCCCTGTATTTTAACT
6273088 TTTTCCCTGTATTTTAACT
1 TTTTCCCTGTATTTTAACT
6273107 CTGTTTTGTT
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:0.16, C:0.21, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTTCCCTGTATTTTAACT
Found at i:6274384 original size:10 final size:10
Alignment explanation
Indices: 6274369--6274396 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
6274359 GTGGGCCTGT
6274369 ATTCGGCACC
1 ATTCGGCACC
6274379 ATTCGGCACC
1 ATTCGGCACC
6274389 ATTCGGCA
1 ATTCGGCA
6274397 TGAATCTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (10 bp):
ATTCGGCACC
Found at i:6275218 original size:24 final size:24
Alignment explanation
Indices: 6275184--6275232 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
6275174 AAATATTTTT
* *
6275184 TTAATTATATTTTTAATTATTAATA
1 TTAATTATATTTATAATCA-TAATA
6275209 TTAATT-TATTTATAATCATAATA
1 TTAATTATATTTATAATCATAATA
6275232 T
1 T
6275233 AATATGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 10 0.45
25 6 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTAATTATATTTATAATCATAATA
Found at i:6275942 original size:10 final size:10
Alignment explanation
Indices: 6275927--6275967 Score: 64
Period size: 10 Copynumber: 4.1 Consensus size: 10
6275917 TTGTAGAGTC
6275927 GGTGAAAGGT
1 GGTGAAAGGT
6275937 GGTGAAAGGT
1 GGTGAAAGGT
* *
6275947 GGAGAAAGTT
1 GGTGAAAGGT
6275957 GGTGAAAGGT
1 GGTGAAAGGT
6275967 G
1 G
6275968 AAGATTAGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.49, T:0.20
Consensus pattern (10 bp):
GGTGAAAGGT
Found at i:6276436 original size:64 final size:63
Alignment explanation
Indices: 6276225--6276436 Score: 151
Period size: 64 Copynumber: 3.3 Consensus size: 63
6276215 AAATTTTTGT
* * * * * * *
6276225 AAGGGATTATTGACAAAAAATACCTTTAATAATTTTCTCAATAAATTTTTATGAGAGATTATTT
1 AAGGCATTTTTGACAAAAAATACCTTAAATAA-TCTCTCAATAAATTTTTAAGAGGGATTATTA
* * * * * * *
6276289 ATGGCATTTTT-AGCCAAAAACACCTTAAATAATCTC-CTTATAACTTTTTACAAAGGGAATATT
1 AAGGCATTTTTGA-CAAAAAATACCTTAAATAATCTCTC-AATAAATTTTTA-AGAGGGATTATT
6276352 A
63 A
* ** * * * * *
6276353 AATGTGTTTTAGGTC-AAAAATATCTTCAATAATCATCTCAATAAATTTTTAAGAGGGATTATTG
1 AAGGCATTTT-TGACAAAAAATACCTTAAATAATC-TCTCAATAAATTTTTAAGAGGGATTATTA
6276417 AAGGCATTTTTGACAAAAAA
1 AAGGCATTTTTGACAAAAAA
6276437 ACGCCTTCAA
Statistics
Matches: 107, Mismatches: 33, Indels: 16
0.69 0.21 0.10
Matches are distributed among these distances:
62 1 0.01
63 16 0.15
64 76 0.71
65 13 0.12
66 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (63 bp):
AAGGCATTTTTGACAAAAAATACCTTAAATAATCTCTCAATAAATTTTTAAGAGGGATTATTA
Found at i:6299757 original size:3 final size:3
Alignment explanation
Indices: 6299749--6299778 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6299739 GCCAACACCT
6299749 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
6299779 ACACATTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:6305714 original size:58 final size:58
Alignment explanation
Indices: 6305624--6305739 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
6305614 CTGCACTAAC
6305624 AATATCTTTTTGTCTTAACCTGTTTTGCCTACTGATAATAGTAGTCTTACATCTTTGG
1 AATATCTTTTTGTCTTAACCTGTTTTGCCTACTGATAATAGTAGTCTTACATCTTTGG
* **
6305682 AATATCTTTTTGTCTTAACCTGTTTTGCCTACTGATACTAGTAGTCTTATGTCTTTGG
1 AATATCTTTTTGTCTTAACCTGTTTTGCCTACTGATAATAGTAGTCTTACATCTTTGG
6305740 CTATACTTCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.47
Consensus pattern (58 bp):
AATATCTTTTTGTCTTAACCTGTTTTGCCTACTGATAATAGTAGTCTTACATCTTTGG
Found at i:6305729 original size:32 final size:32
Alignment explanation
Indices: 6305635--6305730 Score: 78
Period size: 32 Copynumber: 3.2 Consensus size: 32
6305625 ATATCTTTTT
*
6305635 GTCTTAACCTGTTTTGCCTACTGATAATAGTA
1 GTCTTAACCTGTTTTGCCTACTGATACTAGTA
* * * * ** *
6305667 GTCTT-ACAT-CTTTG--GAAT-AT-CTTTTT
1 GTCTTAACCTGTTTTGCCTACTGATACTAGTA
6305693 GTCTTAACCTGTTTTGCCTACTGATACTAGTA
1 GTCTTAACCTGTTTTGCCTACTGATACTAGTA
6305725 GTCTTA
1 GTCTTA
6305731 TGTCTTTGGC
Statistics
Matches: 43, Mismatches: 15, Indels: 12
0.61 0.21 0.17
Matches are distributed among these distances:
26 7 0.16
27 5 0.12
28 6 0.14
30 6 0.14
31 5 0.12
32 14 0.33
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.45
Consensus pattern (32 bp):
GTCTTAACCTGTTTTGCCTACTGATACTAGTA
Found at i:6309316 original size:2 final size:2
Alignment explanation
Indices: 6309309--6309341 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6309299 CGATGATAAG
6309309 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6309342 CCCTCAACGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6323156 original size:63 final size:62
Alignment explanation
Indices: 6323059--6323195 Score: 202
Period size: 63 Copynumber: 2.2 Consensus size: 62
6323049 CGTTTAATTG
* * ** *
6323059 TTAATGAATATGAGGCCTTGTAATGCTTATGTGTCAGAAGTTTTAAAACATTATGTTTAACCA
1 TTAATGCATATGAGGCCTTGCAAAACTTAAGTGTCAGAAGTTTT-AAACATTATGTTTAACCA
*
6323122 TTAATGCATATGAGGCCTTGCAAAACTTAAGTGTCAGAAGTTTTAAACATTATGTTTAATCA
1 TTAATGCATATGAGGCCTTGCAAAACTTAAGTGTCAGAAGTTTTAAACATTATGTTTAACCA
*
6323184 TTAAAGCATATG
1 TTAATGCATATG
6323196 TCAGATAGGT
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
62 28 0.42
63 39 0.58
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (62 bp):
TTAATGCATATGAGGCCTTGCAAAACTTAAGTGTCAGAAGTTTTAAACATTATGTTTAACCA
Found at i:6323802 original size:16 final size:16
Alignment explanation
Indices: 6323781--6323811 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6323771 GGTAGTATAA
6323781 CATGTACACTTAAAGC
1 CATGTACACTTAAAGC
6323797 CATGTACACTTAAAG
1 CATGTACACTTAAAG
6323812 TCTTTACTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (16 bp):
CATGTACACTTAAAGC
Found at i:6325048 original size:8 final size:8
Alignment explanation
Indices: 6325037--6325061 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6325027 AGAGAGAGCG
6325037 AGGAAGAA
1 AGGAAGAA
6325045 AGGAAGAA
1 AGGAAGAA
6325053 AGGAAGAA
1 AGGAAGAA
6325061 A
1 A
6325062 ATAGAGAAAT
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:0.36, T:0.00
Consensus pattern (8 bp):
AGGAAGAA
Found at i:6326102 original size:83 final size:83
Alignment explanation
Indices: 6325963--6326129 Score: 307
Period size: 83 Copynumber: 2.0 Consensus size: 83
6325953 GGTGATGTTC
6325963 ATCAACTGAAGGCTATAAAACACCAACAAATCCAAAACAAAATACAAAGAAAAGACATAATGATA
1 ATCAACTGAAGGCTATAAAACACCAACAAATCCAAAACAAAATACAAAGAAAAGACATAATGATA
6326028 GGTTAAGTAGCGTTCTAT
66 GGTTAAGTAGCGTTCTAT
* *
6326046 ATCAACTGAAGGCTATAAAATACCAATAAATCCAAAACAAAATACAAAGAAAAGACATAATGATA
1 ATCAACTGAAGGCTATAAAACACCAACAAATCCAAAACAAAATACAAAGAAAAGACATAATGATA
*
6326111 GGTTAAGTAGTGTTCTAT
66 GGTTAAGTAGCGTTCTAT
6326129 A
1 A
6326130 AAATCCAGAA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.21
Consensus pattern (83 bp):
ATCAACTGAAGGCTATAAAACACCAACAAATCCAAAACAAAATACAAAGAAAAGACATAATGATA
GGTTAAGTAGCGTTCTAT
Found at i:6328362 original size:15 final size:15
Alignment explanation
Indices: 6328328--6328361 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6328318 GCTTTCTTGC
6328328 TTTTTGTTTTTTGTT
1 TTTTTGTTTTTTGTT
*
6328343 CTTTTGTTTTTT-TT
1 TTTTTGTTTTTTGTT
6328357 TTTTT
1 TTTTT
6328362 TTACTTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (15 bp):
TTTTTGTTTTTTGTT
Found at i:6332016 original size:1 final size:1
Alignment explanation
Indices: 6332010--6332044 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
6332000 GAAGCAGAAG
6332010 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6332045 ATGTGGTCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6335588 original size:2 final size:2
Alignment explanation
Indices: 6335581--6335612 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6335571 GTAGGTACTC
6335581 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6335613 TGCCTTGCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6352587 original size:482 final size:482
Alignment explanation
Indices: 6351682--6352649 Score: 1918
Period size: 482 Copynumber: 2.0 Consensus size: 482
6351672 TGAGAAAGTT
6351682 TATTGCCTTAATATTATATCCAAGACAAGAAACTAGTGATCATGAACATGGAATATATTGGAATG
1 TATTGCCTTAATATTATATCCAAGACAAGAAACTAGTGATCATGAACATGGAATATATTGGAATG
6351747 TTGAGCTGTTGTCAAAATTATGAGATTGGTTGGTTTAGTACTGGCTACTGAGGTTCTAGTTTTAT
66 TTGAGCTGTTGTCAAAATTATGAGATTGGTTGGTTTAGTACTGGCTACTGAGGTTCTAGTTTTAT
6351812 GGCCCTTAGTTACTCTTTCGAATTAATCTGTGGGTGATAGTGAGACAAGACTAAATGGGTTGGAG
131 GGCCCTTAGTTACTCTTTCGAATTAATCTGTGGGTGATAGTGAGACAAGACTAAATGGGTTGGAG
6351877 CATCTTCAACTCAAACGAGAAGTTCTCCACTAACATTATAAACAATAACAACAATGTACATTGAG
196 CATCTTCAACTCAAACGAGAAGTTCTCCACTAACATTATAAACAATAACAACAATGTACATTGAG
6351942 TCTAATCTTTAGTGCAGATCAAATATGGAATTTTCTTCATGCAAATGAATGAATATAACTTAGCA
261 TCTAATCTTTAGTGCAGATCAAATATGGAATTTTCTTCATGCAAATGAATGAATATAACTTAGCA
6352007 ATTTGGTACTGGCATTACACATCTCATATTATATATTGACATGAATTTTCCTTTTTCAATATTAA
326 ATTTGGTACTGGCATTACACATCTCATATTATATATTGACATGAATTTTCCTTTTTCAATATTAA
6352072 GCTCTTAGTTATTACTTTTTGTTATTGTTTTAAAGTACTAGCATAACTTTAATAGTTCAAATGTG
391 GCTCTTAGTTATTACTTTTTGTTATTGTTTTAAAGTACTAGCATAACTTTAATAGTTCAAATGTG
6352137 ATATCAACAACTTTGTTCCAATGAAAA
456 ATATCAACAACTTTGTTCCAATGAAAA
6352164 TATTGCCTTAATATTATATCCAAGACAAGAAACTAGTGATCATGAACATGGAATATATTGGAATG
1 TATTGCCTTAATATTATATCCAAGACAAGAAACTAGTGATCATGAACATGGAATATATTGGAATG
6352229 TTGAGCTGTTGTCAAAATTATGAGATTGGTTGGTTTAGTACTGGCTACTGAGGTTCTAGTTTTAT
66 TTGAGCTGTTGTCAAAATTATGAGATTGGTTGGTTTAGTACTGGCTACTGAGGTTCTAGTTTTAT
*
6352294 GGCCCTTAGTTGCTCTTTCGAATTAATCTGTGGGTGATAGTGAGACAAGACTAAATGGGTTGGAG
131 GGCCCTTAGTTACTCTTTCGAATTAATCTGTGGGTGATAGTGAGACAAGACTAAATGGGTTGGAG
6352359 CATCTTCAACTCAAACGAGAAGTTCTCCACTAACATTATAAACAATAACAACAATGTACATTGAG
196 CATCTTCAACTCAAACGAGAAGTTCTCCACTAACATTATAAACAATAACAACAATGTACATTGAG
6352424 TCTAATCTTTAGTGCAGATCAAATATGGAATTTTCTTCATGCAAATGAATGAATATAACTTAGCA
261 TCTAATCTTTAGTGCAGATCAAATATGGAATTTTCTTCATGCAAATGAATGAATATAACTTAGCA
*
6352489 ATTTGGTACTGGCATTACACATCTTATATTATATATTGACATGAATTTTCCTTTTTCAATATTAA
326 ATTTGGTACTGGCATTACACATCTCATATTATATATTGACATGAATTTTCCTTTTTCAATATTAA
6352554 GCTCTTAGTTATTACTTTTTGTTATTGTTTTAAAGTACTAGCATAACTTTAATAGTTCAAATGTG
391 GCTCTTAGTTATTACTTTTTGTTATTGTTTTAAAGTACTAGCATAACTTTAATAGTTCAAATGTG
6352619 ATATCAACAACTTTGTTCCAATGAAAA
456 ATATCAACAACTTTGTTCCAATGAAAA
6352646 TATT
1 TATT
6352650 TTTGACAAAA
Statistics
Matches: 484, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
482 484 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (482 bp):
TATTGCCTTAATATTATATCCAAGACAAGAAACTAGTGATCATGAACATGGAATATATTGGAATG
TTGAGCTGTTGTCAAAATTATGAGATTGGTTGGTTTAGTACTGGCTACTGAGGTTCTAGTTTTAT
GGCCCTTAGTTACTCTTTCGAATTAATCTGTGGGTGATAGTGAGACAAGACTAAATGGGTTGGAG
CATCTTCAACTCAAACGAGAAGTTCTCCACTAACATTATAAACAATAACAACAATGTACATTGAG
TCTAATCTTTAGTGCAGATCAAATATGGAATTTTCTTCATGCAAATGAATGAATATAACTTAGCA
ATTTGGTACTGGCATTACACATCTCATATTATATATTGACATGAATTTTCCTTTTTCAATATTAA
GCTCTTAGTTATTACTTTTTGTTATTGTTTTAAAGTACTAGCATAACTTTAATAGTTCAAATGTG
ATATCAACAACTTTGTTCCAATGAAAA
Found at i:6354506 original size:10 final size:11
Alignment explanation
Indices: 6354483--6354515 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
6354473 TTTTTAAAGA
6354483 TTGATTCATGAT
1 TTGATT-ATGAT
6354495 TTGATT-TGAT
1 TTGATTATGAT
6354505 TTGATTATGAT
1 TTGATTATGAT
6354516 ATTTGAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.55
Consensus pattern (11 bp):
TTGATTATGAT
Found at i:6362907 original size:17 final size:19
Alignment explanation
Indices: 6362876--6362916 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
6362866 CAAGAAAATT
6362876 TTTTTCTTCAGCTTCT-TA
1 TTTTTCTTCAGCTTCTCTA
*
6362894 TTTTTCTTC-TCTTCTCTA
1 TTTTTCTTCAGCTTCTCTA
6362912 TTTTT
1 TTTTT
6362917 TCCCCTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.07, C:0.22, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTTCTTCAGCTTCTCTA
Found at i:6367631 original size:24 final size:25
Alignment explanation
Indices: 6367593--6367640 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
6367583 TTTTTACTTT
*
6367593 TTTAATTAATATAAAATATATTATA
1 TTTAATTAATATAAAATAAATTATA
*
6367618 TTTAA-TAATTTAAAATAAATTAT
1 TTTAATTAATATAAAATAAATTAT
6367641 TACAAATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTAATTAATATAAAATAAATTATA
Found at i:6369383 original size:30 final size:30
Alignment explanation
Indices: 6369349--6369407 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
6369339 ATTTTTAAAC
6369349 TTTAATTTATATACAAATAAGCACTTAATT
1 TTTAATTTATATACAAATAAGCACTTAATT
** *
6369379 TTTAATTTATATTTAAATAAGCATTTAAT
1 TTTAATTTATATACAAATAAGCACTTAAT
6369408 GTAAATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.47
Consensus pattern (30 bp):
TTTAATTTATATACAAATAAGCACTTAATT
Found at i:6370245 original size:18 final size:19
Alignment explanation
Indices: 6370209--6370246 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6370199 TAGTAATAAA
*
6370209 ATATTAAAATTTTAATTTT
1 ATATTAAAATTTAAATTTT
6370228 ATATTAAAA-TTAAATTTT
1 ATATTAAAATTTAAATTTT
6370246 A
1 A
6370247 ACAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATTAAAATTTAAATTTT
Found at i:6371057 original size:31 final size:32
Alignment explanation
Indices: 6370997--6371093 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 32
6370987 ATATAAATTT
* *
6370997 AATATAATAAAAATATATTTAATATTTTTATATTGA
1 AATATAATATAAATATA--TAA-A-TTTTATATTAA
*
6371033 TATA-AAT-TATAATATATAAATTTTATA-TAA
1 AATATAATATA-AATATATAAATTTTATATTAA
6371063 AATATAATATAAATATATAAATTTTAATATT
1 AATATAATATAAATATATAAATTTT-ATATT
6371094 TTATTTAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
30 5 0.10
31 24 0.46
32 6 0.12
33 4 0.08
34 1 0.02
35 9 0.17
36 3 0.06
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (32 bp):
AATATAATATAAATATATAAATTTTATATTAA
Found at i:6371065 original size:12 final size:12
Alignment explanation
Indices: 6371032--6371082 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
6371022 TTTTATATTG
*
6371032 ATATAAATTATA
1 ATATAAAATATA
* *
6371044 ATATATAAATTTT
1 ATATA-AAATATA
6371057 ATATAAAATATA
1 ATATAAAATATA
6371069 ATATAAATATATA
1 ATATAAA-ATATA
6371082 A
1 A
6371083 ATTTTAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
12 17 0.53
13 15 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATAAAATATA
Found at i:6371302 original size:21 final size:21
Alignment explanation
Indices: 6371277--6371321 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6371267 CAAATCAATT
*
6371277 AAAGTTTAAAATTTT-ATTTTA
1 AAAGTTT-AAATTTTAAATTTA
*
6371298 AAAGTTTCAATTTTAAATTTA
1 AAAGTTTAAATTTTAAATTTA
6371319 AAA
1 AAA
6371322 AAAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (21 bp):
AAAGTTTAAATTTTAAATTTA
Found at i:6372767 original size:19 final size:19
Alignment explanation
Indices: 6372724--6372767 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
6372714 TTTGGTTTTT
*
6372724 ATTAAAATATTTAATTTTA
1 ATTAAAATATTTAATTATA
*
6372743 ACTAAAAT-TTATAATTATA
1 ATTAAAATATT-TAATTATA
6372762 ATTAAA
1 ATTAAA
6372768 TCATATCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTAAAATATTTAATTATA
Found at i:6373460 original size:21 final size:21
Alignment explanation
Indices: 6373436--6373481 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
6373426 TTAGAAATTA
6373436 ATAAAATATTA-TTTTTACAAT
1 ATAAAATATTATTTTTTA-AAT
6373457 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
6373478 ATAA
1 ATAA
6373482 TTATATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:6374279 original size:20 final size:20
Alignment explanation
Indices: 6374242--6374279 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6374232 AAATTATAAT
*
6374242 TTATTTTGTGAAAAAAATTA
1 TTATTTTGTAAAAAAAATTA
6374262 TTATTTT-TAAAAATAAAT
1 TTATTTTGTAAAAA-AAAT
6374280 AAATAAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TTATTTTGTAAAAAAAATTA
Found at i:6383061 original size:16 final size:16
Alignment explanation
Indices: 6383031--6383060 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6383021 TTTTTTATTT
6383031 TTTTAAAAAATTTTTC
1 TTTTAAAAAATTTTTC
6383047 TTTT-AAAAATTTTT
1 TTTTAAAAAATTTTT
6383061 TTATCCATCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTAAAAAATTTTTC
Found at i:6388937 original size:6 final size:6
Alignment explanation
Indices: 6388923--6388967 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
6388913 GGCTGACCAT
* * *
6388923 CTCTTC CTCTGC CTCTAC CTCTAC CTCTAC CTCTAC CTCTTC CTC
1 CTCTAC CTCTAC CTCTAC CTCTAC CTCTAC CTCTAC CTCTAC CTC
6388968 CACCAACTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.09, C:0.51, G:0.02, T:0.38
Consensus pattern (6 bp):
CTCTAC
Found at i:6388949 original size:18 final size:18
Alignment explanation
Indices: 6388923--6388967 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
6388913 GGCTGACCAT
*
6388923 CTCTTCCTCTGCCTCTAC
1 CTCTTCCTCTACCTCTAC
*
6388941 CTCTACCTCTACCTCTAC
1 CTCTTCCTCTACCTCTAC
6388959 CTCTTCCTC
1 CTCTTCCTC
6388968 CACCAACTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.09, C:0.51, G:0.02, T:0.38
Consensus pattern (18 bp):
CTCTTCCTCTACCTCTAC
Found at i:6389774 original size:77 final size:77
Alignment explanation
Indices: 6389646--6389799 Score: 281
Period size: 77 Copynumber: 2.0 Consensus size: 77
6389636 ATTAAGGAAA
6389646 GAAACACAAAAATAAGAAAAGAAATAAACAAAAGGTGCAAGCATAGATAACAAACGAAGTCGAAA
1 GAAACACAAAAATAAGAAAAGAAATAAACAAAAGGTGCAAGCATAGATAACAAACGAAGTCGAAA
*
6389711 GTACATCATAGT
66 GGACATCATAGT
* *
6389723 GAAACACAAAAATAAGAAGAGAAATAAACAAAAGGTGCAAGCATAGCTAACAAACGAAGTCGAAA
1 GAAACACAAAAATAAGAAAAGAAATAAACAAAAGGTGCAAGCATAGATAACAAACGAAGTCGAAA
6389788 GGACATCATAGT
66 GGACATCATAGT
6389800 CCTTGTTCAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.56, C:0.14, G:0.18, T:0.12
Consensus pattern (77 bp):
GAAACACAAAAATAAGAAAAGAAATAAACAAAAGGTGCAAGCATAGATAACAAACGAAGTCGAAA
GGACATCATAGT
Found at i:6394037 original size:6 final size:6
Alignment explanation
Indices: 6394026--6394070 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
6394016 CCGCTGCCAT
6394026 CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTC
1 CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTC
6394071 GGTAACCACC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (6 bp):
CTCTTC
Found at i:6395607 original size:34 final size:33
Alignment explanation
Indices: 6395569--6395645 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 33
6395559 AATCATACAG
6395569 TATAAAATATTTAATAT-TTATTGAATA-AATAATT
1 TATAAAATATTTAA-ATGTTATTGAATAGAA-AA-T
* **
6395603 TATAAAATACTTAAATGTTATTTTATAGAAAAT
1 TATAAAATATTTAAATGTTATTGAATAGAAAAT
6395636 TATAAAATAT
1 TATAAAATAT
6395646 AAATAATATG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
33 12 0.32
34 23 0.62
35 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (33 bp):
TATAAAATATTTAAATGTTATTGAATAGAAAAT
Found at i:6398599 original size:11 final size:11
Alignment explanation
Indices: 6398581--6398622 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
6398571 AATCTCATAA
6398581 GAGATTTGTTT
1 GAGATTTGTTT
* *
6398592 GTGATTTGTTA
1 GAGATTTGTTT
*
6398603 GAGATTTATTT
1 GAGATTTGTTT
6398614 GAGATTTGT
1 GAGATTTGT
6398623 CAGATATTGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:6398608 original size:22 final size:22
Alignment explanation
Indices: 6398580--6398636 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
6398570 AAATCTCATA
* *
6398580 AGAGATTTGTTTGTGATTTGTT
1 AGAGATTTGTTTGAGATTTGTC
*
6398602 AGAGATTTATTTGAGATTTGTC
1 AGAGATTTGTTTGAGATTTGTC
*
6398624 AGATA-TTGTTTGA
1 AGAGATTTGTTTGA
6398637 TGGATAAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 7 0.23
22 23 0.77
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTC
Found at i:6398784 original size:51 final size:51
Alignment explanation
Indices: 6398648--6398799 Score: 184
Period size: 51 Copynumber: 3.0 Consensus size: 51
6398638 GGATAAGAAG
* * *
6398648 ACTTACAAAAGAAGAATTCT-AAGAGAAAGAATTCTTAATAGGTAAGTTTA
1 ACTTACAAGAGAAGAATTCTAAAAAGAAAGGATTCTTAATAGGTAAGTTTA
* *
6398698 ACTTGA-AAGAGAAGAATTCTAAAAGGAAATAGATTCTTAATAGGTAAGTTT-
1 ACTT-ACAAGAGAAGAATTCTAAAAAGAAA-GGATTCTTAATAGGTAAGTTTA
* * *
6398749 ACTTACAGGAGAAGAATTCTAAAAAGAGAAGGATTCTTAATGGGCAAGTTT
1 ACTTACAAGAGAAGAATTCTAAAAAGA-AAGGATTCTTAATAGGTAAGTTT
6398800 GTATGGTTAT
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
50 18 0.21
51 48 0.55
52 21 0.24
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.28
Consensus pattern (51 bp):
ACTTACAAGAGAAGAATTCTAAAAAGAAAGGATTCTTAATAGGTAAGTTTA
Done.